Citrus Sinensis ID: 043737

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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-
Protein Sequence
YQEVEKLCLVCLWSKNCSSGYKIGRKVFKTLQQVQGLTNEGDFKEVPQPVPENLVDERPLPPTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLSQVGLPVPCRTSASNKTVFTARELEVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSAYKFSGMESRVFSRLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDEYDGFEHEIKDTLLFVSFFMHVC
Secondary Structure (PSIPRED)
cHHHccccccccccccHHccccHHHHHHHHHHHHHHHHHccccccccccccccccccccccccEEccHHHHHHHHHHHHcccccEEEEEccccccHHHHHHHHHcccccccccccEEEEEEEcccccHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHccccEEEEEccccccccccccccccccccccccEEEEEcccHHHHHHccccccEEcccccHHHHHHHHHHHHccccccccccHHHHHHHHHHHccccHHHHHHHHHHHcccccHHHHHHHHHHHHcccccccccccccHHHHHHcccccccccHHHHHcccccccccccccHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHc
Secondary Structure Prediction (SSPRO)
cHHHHHHHcccccccccHcHHHHHHHHHHHHHHHHHHHHcccccEEcccccccccccccccccEEcccHHHHHHHHHHHccccEEEEEEccccccHHHHHHHHHcccHHHcccccEEEEEEEcccccHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHccccEEEEEEccHccccHHHcccccccccccccEEEEEEccHHHHHHccccccEEEccccHHHHHHHHHHHHccccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHccccHHHHHHHHHHHHccHHccccccccccHHHEEccccccHHHHHHHHHHHHcccccccEcHHHHHHHHHHcccccccHHccHHHHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
YQEVEKLCLVCLwskncssgykIGRKVFKTLQQVqgltnegdfkevpqpvpenlvderplpptvvglqSTFDRVWRCLMEEQMGIVglygmgevgktTLLTQINKKflhtpndfDFVIWVVASKDLQLEQIQGSIAKKINLFneswnsrslqeKSQDIVKNMSNKKFVLLLDHIWELvdlsqvglpvpcrtsasnktvfTARELEVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKeildshpdipELAETVAKECGGLPLALITVGRamaskktpREWEHAIEVLRSSaykfsgmesrVFSRLKIsydflpgdetRFYLLYCSSYPEDYKIFVEDLIDCwicegfldeydgfeheiKDTLLFVSFFMHVC
Flexible Loop (DISEMBL)
YQEVEKLCLVCLWSKNCSSGYKIGRKVFKTLQQVQGltnegdfkevpqpvpenlvderplpptvvgLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLSQVGLPVPCRTSASNKTVFTARELEvcgqmeahksfkveRLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLrssaykfsgmeSRVFSRLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDEYDGFEHEIKDTLLFVSFFMHVC
Low Complexity Region (SEG)
YQEVEKLCLVCLWSKNCSSGYKIGRKVFKTLQQVQGLTNEGDFKEVPQPVPENLVDERPLPPTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLSQVGLPVPCRTSASNKTVFTARELEVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSAYKFSGMESRVFSRLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDEYDGFEHEIKDTLLFVSFFMHVC
Disordered region (IsUnstruct)
****EKLCLVCLWSKNCSSGYKIGRKVFKTLQQVQGLTN********************LPPTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWN**********IVKNMSNKKFVLLLDHIWELVDLSQVGLPVPCRTSASNKTVFTARELEVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSAYKFSGMESRVFSRLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDEYDGFEHEIKDTLLFVSFFMHV*
Disordered Region (DISOPRED)
**EVEKLCLVCLWSKNCSSGYKIGRKVFKTLQQVQGLTN**************************GLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLF************SQDIVKNMSNKKFVLLLDHIWELVDLSQVGLPVPCRTSASNKTVFTARELEVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSAY***GMESRVFSRLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDEYDGFEHEIKDTLLFVSFFMHVC
Disordered Region (DISEMBL)
YQEVEKLCLVCLWSKNCSSGYKIGRKVFKTLQQVQGLTNEGDFKEVPQPVPENLVDERPLPPTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLSQVGLPVPCRTSASNKTVFTARELEVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSAYKFSGMESRVFSRLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDEYDGFEHEIKDTLLFVSFFMHVC
Disordered Region (DISPRO)
YQEVEKLCLVCLWSKNCSSGYKIGRKVFKTLQQVQGLTNEGDFKEVPQPVPENLVDERPLPPTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLSQVGLPVPCRTSASNKTVFTARELEVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSAYKFSGMESRVFSRLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDEYDGFEHEIKDTLLFVSFFMHVC
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
YQEVEKLCLVCLWSKNCSSGYKIGRKVFKTLQQVQGLTNEGDFKEVPQPVPENLVDERPLPPTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLSQVGLPVPCRTSASNKTVFTARELEVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSAYKFSGMESRVFSRLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDEYDGFEHEIKDTLLFVSFFMHVC
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	371	2.2.26 [Sep-21-2011]
O82484	892	Putative disease resistan	yes	no	0.986	0.410	0.447	8e-89
Q940K0	889	Probable disease resistan	no	no	0.929	0.388	0.469	9e-87
O64973	889	Disease resistance protei	no	no	0.991	0.413	0.452	1e-86
Q8L3R3	885	Disease resistance protei	no	no	0.981	0.411	0.451	3e-86
P60839	884	Probable disease resistan	no	no	0.983	0.412	0.443	1e-85
Q8RXS5	888	Probable disease resistan	no	no	0.938	0.391	0.457	2e-85
O64789	925	Probable disease resistan	no	no	0.929	0.372	0.469	2e-85
O22727	967	Probable disease resistan	no	no	0.929	0.356	0.469	5e-85
P60838	894	Probable disease resistan	no	no	0.989	0.410	0.439	7e-85
Q9LMP6	851	Probable disease resistan	no	no	0.978	0.426	0.448	3e-81

>sp|O82484|DRL23_ARATH Putative disease resistance protein At4g10780 OS=Arabidopsis thaliana GN=At4g10780 PE=2 SV=1

 Score =  327 bits (839), Expect = 8e-89,   Method: Compositional matrix adjust.
 Identities = 165/369 (44%), Positives = 228/369 (61%), Gaps = 3/369 (0%)

Query: 3   EVEKLCLVCLWSKNCSSGYKIGRKVFKTLQQVQGLTNEGDFKEVPQPVPENLVDERPLPP 62
           E+++LC     S N SS Y  G++VF  +++V+ L + G F+ V  P P+  ++ RP+ P
Sbjct: 95  EIQRLCFYSNCSTNLSSSYTYGQRVFLMIKEVENLNSNGFFEIVAAPAPK--LEMRPIQP 152

Query: 63  TVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVA 122
           T++G ++ F R W  LM++ +G +GLYGMG VGKTTLLTQI+     T N  D VIWVV 
Sbjct: 153 TIMGRETIFQRAWNRLMDDGVGTMGLYGMGGVGKTTLLTQIHNTLHDTKNGVDIVIWVVV 212

Query: 123 SKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLSQ 182
           S DLQ+ +IQ  I +K+    + WN +   +K+ DI+  +S K+FVLLLD IW+ VDL++
Sbjct: 213 SSDLQIHKIQEDIGEKLGFIGKEWNKKQESQKAVDILNCLSKKRFVLLLDDIWKKVDLTK 272

Query: 183 VGLPVPCRTSASNKTVFTARELEVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSH 242
           +G+P   R +   K VFT R L+VC +M  H   +V+ L   DAW+LF+EKVG+  L SH
Sbjct: 273 IGIPSQTRENKC-KVVFTTRSLDVCARMGVHDPMEVQCLSTNDAWELFQEKVGQISLGSH 331

Query: 243 PDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSAYKFSGMESRVFS 302
           PDI ELA+ VA +C GLPLAL  +G  MA K+  +EW HA++VL S A +FSGM+  +  
Sbjct: 332 PDILELAKKVAGKCRGLPLALNVIGETMAGKRAVQEWHHAVDVLTSYAAEFSGMDDHILL 391

Query: 303 RLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDEYDGFEHEIKDTLL 362
            LK SYD L     R    YC+ YPEDY I    LID WICEGF+D   G E  +     
Sbjct: 392 ILKYSYDNLNDKHVRSCFQYCALYPEDYSIKKYRLIDYWICEGFIDGNIGKERAVNQGYE 451

Query: 363 FVSFFMHVC 371
            +   +  C
Sbjct: 452 ILGTLVRAC 460

Potential disease resistance protein.
Arabidopsis thaliana (taxid: 3702)

>sp|Q940K0|DRL15_ARATH Probable disease resistance protein At1g61180 OS=Arabidopsis thaliana GN=At1g61180 PE=2 SV=2

 Score =  320 bits (821), Expect = 9e-87,   Method: Compositional matrix adjust.
 Identities = 163/347 (46%), Positives = 227/347 (65%), Gaps = 2/347 (0%)

Query: 3   EVEKLCLVCLWSKNCSSGYKIGRKVFKTLQQVQGLTNEGDFKEVPQPVPENLVDERPLPP 62
           E++KLCL  L SK   S YK G+KVF  L++V+ L +EG+F EV QP P + V+ERP  P
Sbjct: 93  ELQKLCLCGLCSKYVCSSYKYGKKVFLLLEEVKKLNSEGNFDEVSQPPPRSEVEERPTQP 152

Query: 63  TVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVA 122
           T+ G +   ++ W  LME+ +GI+GL+GMG VGKTTL  +I+ KF      FD VIW+V 
Sbjct: 153 TI-GQEDMLEKAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNKFAEIGGTFDIVIWIVV 211

Query: 123 SKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLSQ 182
           SK + + ++Q  IA+K++L ++ W +++  +K+ DI + +  K+FVL+LD IWE VDL  
Sbjct: 212 SKGVMISKLQEDIAEKLHLCDDLWKNKNESDKATDIHRVLKGKRFVLMLDDIWEKVDLEA 271

Query: 183 VGLPVPCRTSASNKTVFTARELEVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSH 242
           +G+P P   +   K  FT R  EVCG+M  HK  +V  L  EDAW+LF+ KVG   L S 
Sbjct: 272 IGIPYPSEVNKC-KVAFTTRSREVCGEMGDHKPMQVNCLEPEDAWELFKNKVGDNTLSSD 330

Query: 243 PDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSAYKFSGMESRVFS 302
           P I ELA  VA++C GLPLAL  +G  M+SK   +EWEHAI V  +SA +FS M++++  
Sbjct: 331 PVIVELAREVAQKCRGLPLALNVIGETMSSKTMVQEWEHAIHVFNTSAAEFSDMQNKILP 390

Query: 303 RLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDE 349
            LK SYD L  +  +   LYC+ +PED +I+ E LID WICEGF+ E
Sbjct: 391 ILKYSYDSLGDEHIKSCFLYCALFPEDGEIYNEKLIDYWICEGFIGE 437

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O64973|RPS5_ARATH Disease resistance protein RPS5 OS=Arabidopsis thaliana GN=RPS5 PE=1 SV=2

 Score =  320 bits (819), Expect = 1e-86,   Method: Compositional matrix adjust.
 Identities = 167/369 (45%), Positives = 226/369 (61%), Gaps = 1/369 (0%)

Query: 3   EVEKLCLVCLWSKNCSSGYKIGRKVFKTLQQVQGLTNEGDFKEVPQPVPENLVDERPLPP 62
           E+++LCL    SK+    Y+ G++V   L++V+ L+++G F  V +  P   VDE P  P
Sbjct: 96  ELQRLCLCGFCSKDLKLSYRYGKRVIMMLKEVESLSSQGFFDVVSEATPFADVDEIPFQP 155

Query: 63  TVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVA 122
           T+VG +   ++ W  LME+  GI+GLYGMG VGKTTLLT+IN KF    + FD VIWVV 
Sbjct: 156 TIVGQEIMLEKAWNRLMEDGSGILGLYGMGGVGKTTLLTKINNKFSKIDDRFDVVIWVVV 215

Query: 123 SKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLSQ 182
           S+   + +IQ  IA+K+ L    W+ ++  + + DI   +  +KFVLLLD IWE V+L  
Sbjct: 216 SRSSTVRKIQRDIAEKVGLGGMEWSEKNDNQIAVDIHNVLRRRKFVLLLDDIWEKVNLKA 275

Query: 183 VGLPVPCRTSASNKTVFTARELEVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSH 242
           VG+P P + +   K  FT R  +VCG+M      +V  L  E++W LF+ KVGK  L SH
Sbjct: 276 VGVPYPSKDNGC-KVAFTTRSRDVCGRMGVDDPMEVSCLQPEESWDLFQMKVGKNTLGSH 334

Query: 243 PDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSAYKFSGMESRVFS 302
           PDIP LA  VA++C GLPLAL  +G AMA K+T  EW HAI+VL SSA  FSGME  +  
Sbjct: 335 PDIPGLARKVARKCRGLPLALNVIGEAMACKRTVHEWCHAIDVLTSSAIDFSGMEDEILH 394

Query: 303 RLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDEYDGFEHEIKDTLL 362
            LK SYD L G+  +   LYCS +PEDY I  E L+D WI EGF++E +G E  I     
Sbjct: 395 VLKYSYDNLNGELMKSCFLYCSLFPEDYLIDKEGLVDYWISEGFINEKEGRERNINQGYE 454

Query: 363 FVSFFMHVC 371
            +   +  C
Sbjct: 455 IIGTLVRAC 463

Disease resistance (R) protein that specifically recognizes the avrPphB type III effector avirulence protein from Pseudomonas syringae. Also confers resistance against Hyaloperonospora parasitica (downy mildew). 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. Requires PBS1 to trigger the defense reaction against avrPphB. Probably triggers the defense mechanism when PBS1 is cleaved by avrPphB, suggesting that it detects indirectly the protease activity of avrPphB, and possibly binds to the cleaved RPS5.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8L3R3|RFL1_ARATH Disease resistance protein RFL1 OS=Arabidopsis thaliana GN=RFL1 PE=3 SV=2

 Score =  319 bits (817), Expect = 3e-86,   Method: Compositional matrix adjust.
 Identities = 168/372 (45%), Positives = 234/372 (62%), Gaps = 8/372 (2%)

Query: 3   EVEKLCLVCLWSKNCSSGYKIGRKVFKTLQQVQGLTNEGDFKEVPQPVPENLVDERPLPP 62
           E+++LCL    SKN    Y  G++V   L++V+GL+++G F  V +  P   V+E P+  
Sbjct: 96  EIQRLCLCGFCSKNVKMSYLYGKRVIVLLREVEGLSSQGVFDIVTEAAPIAEVEELPIQS 155

Query: 63  TVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVA 122
           T+VG  S  D+VW CLME+++ IVGLYGMG VGKTTLLTQIN KF      FD VIWVV 
Sbjct: 156 TIVGQDSMLDKVWNCLMEDKVWIVGLYGMGGVGKTTLLTQINNKFSKLGGGFDVVIWVVV 215

Query: 123 SKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLSQ 182
           SK+  + +IQ SI +K+ L  ++W+ ++  +++ DI   +  KKFVLLLD IWE V+L  
Sbjct: 216 SKNATVHKIQKSIGEKLGLVGKNWDEKNKNQRALDIHNVLRRKKFVLLLDDIWEKVELKV 275

Query: 183 VGLPVPCRTSASNKTVFTARELEVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSH 242
           +G+P P   +   K  FT    EVCG+M      ++  L   +AW L ++KVG+  L SH
Sbjct: 276 IGVPYPSGENGC-KVAFTTHSKEVCGRMGVDNPMEISCLDTGNAWDLLKKKVGENTLGSH 334

Query: 243 PDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSAYKFSGMESRVFS 302
           PDIP+LA  V+++C GLPLAL  +G  M+ K+T +EW HA EVL +SA  FSGME  +  
Sbjct: 335 PDIPQLARKVSEKCCGLPLALNVIGETMSFKRTIQEWRHATEVL-TSATDFSGMEDEILP 393

Query: 303 RLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDEYDGFE------HE 356
            LK SYD L G++ +   LYCS +PED++I  E LI+ WICEGF+ E  G E      ++
Sbjct: 394 ILKYSYDSLNGEDAKSCFLYCSLFPEDFEIRKEMLIEYWICEGFIKEKQGREKAFNQGYD 453

Query: 357 IKDTLLFVSFFM 368
           I  TL+  S  +
Sbjct: 454 ILGTLVRSSLLL 465

Disease resistance (R) protein.

Arabidopsis thaliana (taxid: 3702)

>sp|P60839|DRL2_ARATH Probable disease resistance protein At1g12290 OS=Arabidopsis thaliana GN=At1g12290 PE=2 SV=1

 Score =  317 bits (811), Expect = 1e-85,   Method: Compositional matrix adjust.
 Identities = 165/372 (44%), Positives = 227/372 (61%), Gaps = 7/372 (1%)

Query: 3   EVEKLCLVCLWSKNCSSGYKIGRKVFKTLQQVQGLTNEGDFKEVPQPVPENLVDERPLPP 62
           E+++LC   + S+N    Y  GR+VF  L  V+ L ++G F+EV  P    + +ERPL P
Sbjct: 95  ELQRLCCCGVGSRNLRLSYDYGRRVFLMLNIVEDLKSKGIFEEVAHPATRAVGEERPLQP 154

Query: 63  TVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVA 122
           T+VG ++  ++ W  LM++   I+GLYGMG VGKTTLLTQIN +F  T +  + VIWVV 
Sbjct: 155 TIVGQETILEKAWDHLMDDGTKIMGLYGMGGVGKTTLLTQINNRFCDTDDGVEIVIWVVV 214

Query: 123 SKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLSQ 182
           S DLQ+ +IQ  I +KI      WN +S  +K+ DI+  +S K+FVLLLD IW+ V+L++
Sbjct: 215 SGDLQIHKIQKEIGEKIGFIGVEWNQKSENQKAVDILNFLSKKRFVLLLDDIWKRVELTE 274

Query: 183 VGLPVPCRTSASNKTVFTARELEVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSH 242
           +G+P P   +   K  FT R   VC  M  H   +V  LG +DAW LF++KVG   L SH
Sbjct: 275 IGIPNPTSENGC-KIAFTTRCQSVCASMGVHDPMEVRCLGADDAWDLFKKKVGDITLSSH 333

Query: 243 PDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSAYKFSGMESRVFS 302
           PDIPE+A  VA+ C GLPLAL  +G  MA KKT +EW+ A++V  + A  F  ++ R+  
Sbjct: 334 PDIPEIARKVAQACCGLPLALNVIGETMACKKTTQEWDRAVDVSTTYAANFGAVKERILP 393

Query: 303 RLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDEYD------GFEHE 356
            LK SYD L  +  +   LYCS +PED  I  E LID WICEGF+D  +      G  +E
Sbjct: 394 ILKYSYDNLESESVKTCFLYCSLFPEDDLIEKERLIDYWICEGFIDGDENKKGAVGEGYE 453

Query: 357 IKDTLLFVSFFM 368
           I  TL+  S  +
Sbjct: 454 ILGTLVCASLLV 465

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8RXS5|DRL40_ARATH Probable disease resistance protein At5g63020 OS=Arabidopsis thaliana GN=At5g63020 PE=2 SV=2

 Score =  316 bits (810), Expect = 2e-85,   Method: Compositional matrix adjust.
 Identities = 160/350 (45%), Positives = 225/350 (64%), Gaps = 2/350 (0%)

Query: 3   EVEKLCLVCLWSKNCSSGYKIGRKVFKTLQQVQGLTNEGDFKEVPQPVPENLVDERPLPP 62
           +V++LCL    SKN  S Y+ G++V K +++V+ L  +GDF  V + V    V+ERP  P
Sbjct: 95  QVQRLCLCGFCSKNLVSSYRYGKRVMKMIEEVEVLRYQGDFAVVAERVDAARVEERPTRP 154

Query: 63  TVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVA 122
            +V +    +  W  LME+++GI+GL+GMG VGKTTLL+ IN +F     +FD VIW+V 
Sbjct: 155 -MVAMDPMLESAWNRLMEDEIGILGLHGMGGVGKTTLLSHINNRFSRVGGEFDIVIWIVV 213

Query: 123 SKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLSQ 182
           SK+LQ+++IQ  I +K+   NE W  ++   K+ +I   + +K+FVLLLD IW  VDL++
Sbjct: 214 SKELQIQRIQDEIWEKLRSDNEKWKQKTEDIKASNIYNVLKHKRFVLLLDDIWSKVDLTE 273

Query: 183 VGLPVPCRTSASNKTVFTARELEVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSH 242
           VG+P P R +   K VFT R  E+CG+M      +V  L  +DAW LF +KVG+  L SH
Sbjct: 274 VGVPFPSRENGC-KIVFTTRLKEICGRMGVDSDMEVRCLAPDDAWDLFTKKVGEITLGSH 332

Query: 243 PDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSAYKFSGMESRVFS 302
           P+IP +A TVAK+C GLPLAL  +G  MA K+T +EW  AI+VL SSA +FSGME  +  
Sbjct: 333 PEIPTVARTVAKKCRGLPLALNVIGETMAYKRTVQEWRSAIDVLTSSAAEFSGMEDEILP 392

Query: 303 RLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDEYDG 352
            LK SYD L  ++ +    YC+ +PED+ I   DL+D WI EGF+D   G
Sbjct: 393 ILKYSYDNLKSEQLKLCFQYCALFPEDHNIEKNDLVDYWIGEGFIDRNKG 442

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O64789|DRL18_ARATH Probable disease resistance protein At1g61310 OS=Arabidopsis thaliana GN=At1g61310 PE=2 SV=1

 Score =  316 bits (809), Expect = 2e-85,   Method: Compositional matrix adjust.
 Identities = 163/347 (46%), Positives = 227/347 (65%), Gaps = 2/347 (0%)

Query: 3   EVEKLCLVCLWSKNCSSGYKIGRKVFKTLQQVQGLTNEGDFKEVPQPVPENLVDERPLPP 62
           E++KLCL  L +K   S YK G+KVF  L++V+ L +EG+F EV QP P + V+ERP  P
Sbjct: 95  ELQKLCLCGLCTKYVCSSYKYGKKVFLLLEEVKILKSEGNFDEVSQPPPRSEVEERPTQP 154

Query: 63  TVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVA 122
           T+ G +   ++ W  LME+ +GI+GL+GMG VGKTTL  +I+ KF      FD VIW+V 
Sbjct: 155 TI-GQEEMLEKAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNKFAEIGGTFDIVIWIVV 213

Query: 123 SKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLSQ 182
           S+  +L ++Q  IA+K++L ++ W +++  +K+ DI + +  K+FVL+LD IWE VDL  
Sbjct: 214 SQGAKLSKLQEDIAEKLHLCDDLWKNKNESDKATDIHRVLKGKRFVLMLDDIWEKVDLEA 273

Query: 183 VGLPVPCRTSASNKTVFTARELEVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSH 242
           +G+P P   +   K  FT R  EVCG+M  HK  +V  L  EDAW+LF+ KVG   L S 
Sbjct: 274 IGIPYPSEVNKC-KVAFTTRSREVCGEMGDHKPMQVNCLEPEDAWELFKNKVGDNTLSSD 332

Query: 243 PDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSAYKFSGMESRVFS 302
           P I  LA  VA++C GLPLAL  +G  MASK   +EWE+AI+VL  SA +FSGME+++  
Sbjct: 333 PVIVGLAREVAQKCRGLPLALNVIGETMASKTMVQEWEYAIDVLTRSAAEFSGMENKILP 392

Query: 303 RLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDE 349
            LK SYD L  +  +   LYC+ +PED +I+ E LID  ICEGF+ E
Sbjct: 393 ILKYSYDSLGDEHIKSCFLYCALFPEDGQIYTETLIDKLICEGFIGE 439

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O22727|DRL16_ARATH Probable disease resistance protein At1g61190 OS=Arabidopsis thaliana GN=At1g61190 PE=3 SV=1

 Score =  315 bits (806), Expect = 5e-85,   Method: Compositional matrix adjust.
 Identities = 163/347 (46%), Positives = 227/347 (65%), Gaps = 2/347 (0%)

Query: 3   EVEKLCLVCLWSKNCSSGYKIGRKVFKTLQQVQGLTNEGDFKEVPQPVPENLVDERPLPP 62
           E++KLCL  L SK   S YK G++VF  L++V  L +EG+F EV QP P + V+ERP  P
Sbjct: 94  ELQKLCLCGLCSKYVCSSYKYGKRVFLLLEEVTKLKSEGNFDEVSQPPPRSEVEERPTQP 153

Query: 63  TVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVA 122
           T+ G +    + W  LME+ +GI+GL+GMG VGKTTL  +I+ KF  T   FD VIW+V 
Sbjct: 154 TI-GQEEMLKKAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNKFAETGGTFDIVIWIVV 212

Query: 123 SKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLSQ 182
           S+  +L ++Q  IA+K++L ++ W +++  +K+ DI + +  K+FVL+LD IWE VDL  
Sbjct: 213 SQGAKLSKLQEDIAEKLHLCDDLWKNKNESDKATDIHRVLKGKRFVLMLDDIWEKVDLEA 272

Query: 183 VGLPVPCRTSASNKTVFTARELEVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSH 242
           +G+P P   +   K  FT R+ +VCGQM  HK  +V+ L  EDAW+LF+ KVG   L S 
Sbjct: 273 IGIPYPSEVNKC-KVAFTTRDQKVCGQMGDHKPMQVKCLEPEDAWELFKNKVGDNTLRSD 331

Query: 243 PDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSAYKFSGMESRVFS 302
           P I  LA  VA++C GLPLAL  +G  MASK   +EWEHAI+VL  SA +FS M++++  
Sbjct: 332 PVIVGLAREVAQKCRGLPLALSCIGETMASKTMVQEWEHAIDVLTRSAAEFSDMQNKILP 391

Query: 303 RLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDE 349
            LK SYD L  +  +   LYC+ +PED KI  + LI+ WICEGF+ E
Sbjct: 392 ILKYSYDSLEDEHIKSCFLYCALFPEDDKIDTKTLINKWICEGFIGE 438

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|P60838|DRL1_ARATH Probable disease resistance protein At1g12280 OS=Arabidopsis thaliana GN=At1g12280 PE=3 SV=1

 Score =  314 bits (805), Expect = 7e-85,   Method: Compositional matrix adjust.
 Identities = 162/369 (43%), Positives = 228/369 (61%), Gaps = 2/369 (0%)

Query: 3   EVEKLCLVCLWSKNCSSGYKIGRKVFKTLQQVQGLTNEGDFKEVPQPVPENLVDERPLPP 62
           E+++LCL    SKN    Y  G++V   L++++ L+++GDF  V    P   ++E P+ P
Sbjct: 96  ELQRLCLFGFCSKNVKMSYLYGKRVVLMLKEIESLSSQGDFDTVTLATPIARIEEMPIQP 155

Query: 63  TVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVA 122
           T+VG ++  +RVW  L E+   IVGLYGMG VGKTTLLT+IN KF    + F  VIWVV 
Sbjct: 156 TIVGQETMLERVWTRLTEDGDEIVGLYGMGGVGKTTLLTRINNKFSEKCSGFGVVIWVVV 215

Query: 123 SKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLSQ 182
           SK   + +IQG I K+++L  E W++ +  +++ DI   +  +KFVLLLD IWE V+L  
Sbjct: 216 SKSPDIHRIQGDIGKRLDLGGEEWDNVNENQRALDIYNVLGKQKFVLLLDDIWEKVNLEV 275

Query: 183 VGLPVPCRTSASNKTVFTARELEVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSH 242
           +G+P P R +   K VFT R  +VCG+M      +V  L   +AW+LF+ KVG+  L  H
Sbjct: 276 LGVPYPSRQNGC-KVVFTTRSRDVCGRMRVDDPMEVSCLEPNEAWELFQMKVGENTLKGH 334

Query: 243 PDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSAYKFSGMESRVFS 302
           PDIPELA  VA +C GLPLAL  +G  MA K+  +EW +AI+VL S A +F GME ++  
Sbjct: 335 PDIPELARKVAGKCCGLPLALNVIGETMACKRMVQEWRNAIDVLSSYAAEFPGME-QILP 393

Query: 303 RLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDEYDGFEHEIKDTLL 362
            LK SYD L  ++ +   LYCS +PEDY++  E LID WICEGF+DE +  E  +     
Sbjct: 394 ILKYSYDNLNKEQVKPCFLYCSLFPEDYRMEKERLIDYWICEGFIDENESRERALSQGYE 453

Query: 363 FVSFFMHVC 371
            +   +  C
Sbjct: 454 IIGILVRAC 462

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LMP6|DRL3_ARATH Probable disease resistance protein At1g15890 OS=Arabidopsis thaliana GN=At1g15890 PE=3 SV=2

 Score =  302 bits (773), Expect = 3e-81,   Method: Compositional matrix adjust.
 Identities = 167/372 (44%), Positives = 231/372 (62%), Gaps = 9/372 (2%)

Query: 3   EVEKLCLVCLWSKNCSSGYKIGRKVFKTLQQVQGLTNEGDFKEVPQPVPENLVDERPLPP 62
           + E+LCL    SKN  SG   G  V K L+ V+GL  +G F+ V + +P   V+++ +  
Sbjct: 95  QTERLCLCGYCSKNFISGRNYGINVLKKLKHVEGLLAKGVFEVVAEKIPAPKVEKKHIQ- 153

Query: 63  TVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVA 122
           T VGL +   R W  LM+++   +GLYGMG VGKTTLL  IN KFL   N FD VIWVV 
Sbjct: 154 TTVGLDAMVGRAWNSLMKDERRTLGLYGMGGVGKTTLLASINNKFLEGMNGFDLVIWVVV 213

Query: 123 SKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLSQ 182
           SKDLQ E IQ  I  ++ L +  W   + +EK+  I   ++ KKFVLLLD +W  VDL +
Sbjct: 214 SKDLQNEGIQEQILGRLGL-HRGWKQVTEKEKASYICNILNVKKFVLLLDDLWSEVDLEK 272

Query: 183 VGLPVPCRTSASNKTVFTARELEVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSH 242
           +G+P   R + S K VFT R  +VC  ME     KV+ L  ++AW+LF++KVG   L SH
Sbjct: 273 IGVPPLTRENGS-KIVFTTRSKDVCRDMEVDGEMKVDCLPPDEAWELFQKKVGPIPLQSH 331

Query: 243 PDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSAYKFSGMESRVFS 302
            DIP LA  VA++C GLPLAL  +G+AMAS++T +EW+H I VL SS+++F  ME ++  
Sbjct: 332 EDIPTLARKVAEKCCGLPLALSVIGKAMASRETVQEWQHVIHVLNSSSHEFPSMEEKILP 391

Query: 303 RLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLD---EYDGFE---HE 356
            LK SYD L  ++ +   LYCS +PEDY++  E+LI+ W+CEGF+D   + DG     H+
Sbjct: 392 VLKFSYDDLKDEKVKLCFLYCSLFPEDYEVRKEELIEYWMCEGFIDGNEDEDGANNKGHD 451

Query: 357 IKDTLLFVSFFM 368
           I  +L+     M
Sbjct: 452 IIGSLVRAHLLM 463

Probable disease resistance protein.

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	371
24461866	890	NBS-LRR type disease resistance protein	0.991	0.413	0.572	1e-114
24461861	890	NBS-LRR type disease resistance protein	0.935	0.389	0.587	1e-113
24461864	899	NBS-LRR type disease resistance protein	0.991	0.409	0.547	1e-108
408683737	580	NBS-LRR disease resistance protein NBS39	0.986	0.631	0.548	1e-107
224055915	880	cc-nbs-lrr resistance protein [Populus t	0.991	0.418	0.544	1e-104
225443158	903	PREDICTED: probable disease resistance p	0.938	0.385	0.542	1e-102
24461865	892	NBS-LRR type disease resistance protein	0.994	0.413	0.537	1e-100
359482676	896	PREDICTED: probable disease resistance p	0.986	0.408	0.501	1e-99
24461863	889	NBS-LRR type disease resistance protein	0.929	0.388	0.542	6e-98
359483035	897	PREDICTED: probable disease resistance p	0.983	0.406	0.5	4e-97

>gi|24461866|gb|AAN62353.1|AF506028_20 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  417 bits (1072), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 212/370 (57%), Positives = 262/370 (70%), Gaps = 2/370 (0%)

Query: 2   QEVEKLCLVCLWSKNCSSGYKIGRKVFKTLQQVQGLTNEGDFKEVPQPVPENLVDERPLP 61
           QE+E+LCL    SKNC S Y  G+KV K LQ V+ L  EG F+ V + VP     ERP  
Sbjct: 94  QEIERLCLWGYCSKNCKSSYDFGKKVTKKLQLVETLMGEGIFEVVAEKVPGAAATERPTE 153

Query: 62  PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVV 121
           PTV+GLQS  ++VWRCL+EE  GIVGLYGMG VGKTTLLT IN KFL +  +F++VIWVV
Sbjct: 154 PTVIGLQSQLEQVWRCLVEEPAGIVGLYGMGGVGKTTLLTHINNKFLESTTNFNYVIWVV 213

Query: 122 ASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLS 181
            SKDL+LE IQ +I +KI L N++W +R +++K+ DI K +  KKFVLLLD +W+ VDL 
Sbjct: 214 VSKDLRLENIQETIGEKIGLLNDTWKNRRIEQKALDIFKILKEKKFVLLLDDLWQRVDLV 273

Query: 182 QVGLPVPCRTSASNKTVFTARELEVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDS 241
           +VG+P+P   S+++K VFT+R  EVCG MEAHK FKV  L   DAW+LF++KVG+E L S
Sbjct: 274 EVGVPLPGPQSSTSKVVFTSRSEEVCGLMEAHKKFKVACLSDIDAWELFQQKVGEETLKS 333

Query: 242 HPDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSAYKFSGMESRVF 301
            PDI +LA+T AKECGGLPLALIT+GRAMA KKTP EW +AIEVLR+S+ +F G+ + V+
Sbjct: 334 -PDIRQLAQTAAKECGGLPLALITIGRAMACKKTPEEWTYAIEVLRTSSSQFPGLGNEVY 392

Query: 302 SRLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDEYDGFEHEIKDTL 361
             LK SYD LP D  R  LLYC  YPEDY I  E LIDCWI EGFL E D F  E     
Sbjct: 393 PLLKFSYDSLPSDTIRSCLLYCCLYPEDYCISKEILIDCWIGEGFLTERDRF-GEQNQGY 451

Query: 362 LFVSFFMHVC 371
             +   +H C
Sbjct: 452 HILGILLHAC 461

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|24461861|gb|AAN62348.1|AF506028_15 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  415 bits (1066), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 204/347 (58%), Positives = 254/347 (73%)

Query: 2   QEVEKLCLVCLWSKNCSSGYKIGRKVFKTLQQVQGLTNEGDFKEVPQPVPENLVDERPLP 61
           QE+EKLCL    SKNC S YK G++V + L+ ++ L  EG F+ V   VPE  VDERP  
Sbjct: 95  QEIEKLCLGGYCSKNCKSSYKFGKQVARKLRDIKTLMGEGVFEVVADKVPEPAVDERPTE 154

Query: 62  PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVV 121
           PTVVGLQS  + VWRCL+EE +GIVGLYGMG VGKTTLLT IN KFL +P +FD VI VV
Sbjct: 155 PTVVGLQSQLEEVWRCLVEEPVGIVGLYGMGGVGKTTLLTHINNKFLGSPTNFDLVILVV 214

Query: 122 ASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLS 181
            SKDL+LE IQ  I +KI L N++W SR +++K+ DI + +  K FV+LLD IW+ VDL+
Sbjct: 215 VSKDLRLESIQEVIGEKIGLLNDAWKSRRIEQKALDIFRILRGKNFVVLLDDIWQRVDLA 274

Query: 182 QVGLPVPCRTSASNKTVFTARELEVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDS 241
           +VG+P+P   ++++K VFT R  EVCG MEAHK FKVE L   DAW+LF +KVG+E L+ 
Sbjct: 275 KVGIPLPNSQTSASKVVFTTRSEEVCGLMEAHKKFKVECLSGNDAWELFRQKVGEETLNC 334

Query: 242 HPDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSAYKFSGMESRVF 301
           H DI ELA+TV KECGGLPLALIT+GRAMA KKTP EW +AI+VLR+S+ +F G+ + V+
Sbjct: 335 HHDILELAQTVTKECGGLPLALITIGRAMACKKTPEEWSYAIQVLRTSSSQFPGLGNEVY 394

Query: 302 SRLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLD 348
             LK SYD LP D  R  LLYC  YPED  I  E+L+DCWI EG L+
Sbjct: 395 PLLKFSYDNLPNDTIRSCLLYCCLYPEDCCISKENLVDCWIGEGLLN 441

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|24461864|gb|AAN62351.1|AF506028_18 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  399 bits (1024), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 203/371 (54%), Positives = 257/371 (69%), Gaps = 3/371 (0%)

Query: 2   QEVEKLCLVCLWSKNCSSGYKIGRKVFKTLQQVQGLTNEGDFKEVPQPVPENLVDERPLP 61
           QE+EKLCL    SKNC S  K G++V K L  V+ L  EG F  V Q  PE++ DERP+ 
Sbjct: 96  QEIEKLCLGGYCSKNCKSSKKFGKQVDKKLSDVKILLAEGSFAVVAQRAPESVADERPIE 155

Query: 62  PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPN-DFDFVIWV 120
           P V G+QS  ++VWRCL+EE +GIVGLYGMG VGKTTLLT +N KFL   +  FDF+IWV
Sbjct: 156 PAV-GIQSQLEQVWRCLVEEPVGIVGLYGMGGVGKTTLLTHLNNKFLGQRDFHFDFLIWV 214

Query: 121 VASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDL 180
           V SKDLQ+E+IQ  I KK+ LFN+SW  ++L E++ DI   +  KKFVLLLD +W+ VD 
Sbjct: 215 VVSKDLQIEKIQEIIGKKVGLFNDSWMKKNLAERAVDIYNVLKEKKFVLLLDDVWQRVDF 274

Query: 181 SQVGLPVPCRTSASNKTVFTARELEVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILD 240
           + VG+P+P R  +++K VFT R  EVCG+M AHK  +VE L   DAW+LF + VG+E L+
Sbjct: 275 ATVGVPIPPRDKSASKVVFTTRSTEVCGRMGAHKKIEVECLSANDAWELFRQNVGEETLN 334

Query: 241 SHPDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSAYKFSGMESRV 300
             P I ELAE VAKECG LPLALI  GRAMA KKTP EW  AI+VL++SA +F G+E+ V
Sbjct: 335 GQPKILELAERVAKECGCLPLALIVTGRAMACKKTPAEWRDAIKVLQTSASEFPGLENNV 394

Query: 301 FSRLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDEYDGFEHEIKDT 360
              LK SYD LP D TR  LLYC  +PEDY+I+ E+LIDCWI EGFL     +E + +  
Sbjct: 395 LRVLKFSYDSLPDDTTRSCLLYCCLFPEDYRIYKENLIDCWIGEGFLKVTGKYELQDRGH 454

Query: 361 LLFVSFFMHVC 371
            +  +  +H C
Sbjct: 455 TILGN-IVHAC 464

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|408683737|gb|AFM77964.2| NBS-LRR disease resistance protein NBS39 [Dimocarpus longan]

 Score =  395 bits (1015), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 215/392 (54%), Positives = 265/392 (67%), Gaps = 26/392 (6%)

Query: 2   QEVEKLCLVCLWSKNCSSGYKIGRKVFKTLQQVQGLTNEGDFKEVPQ----------PV- 50
           QE+EKLCL    S N  S YK G+K+ + LQ V  L  EG F  V +          P+ 
Sbjct: 30  QEIEKLCLGGYCSWNIKSSYKYGKKIAQKLQVVSKLKEEGCFPTVAEIWSREDPMDEPIT 89

Query: 51  -----PENLVDERPLPPTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINK 105
                P+ +VDERP  PTV GL++TFD VWR L E+Q+G++GLYGMG VGKTTLLTQIN 
Sbjct: 90  GERILPQIVVDERPCEPTV-GLETTFDAVWRYLGEKQVGVIGLYGMGGVGKTTLLTQINN 148

Query: 106 KFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNK 165
           KF+   NDFD V+WVV SKDLQLE+IQ +I +KI L +ESW S+SL+EK+ DI K +  K
Sbjct: 149 KFVDVSNDFDIVMWVVVSKDLQLEKIQENIGRKIGLSDESWRSKSLEEKAMDIFKILRRK 208

Query: 166 KFVLLLDHIWELVDLSQVGLPVPCRTSA----SNKTVFTARELEVCGQMEAHKSFKVERL 221
           +FVLLLD IWE VDL +VG+P           ++K VFT R +EVCG MEAH+  KVE L
Sbjct: 209 RFVLLLDDIWERVDLVKVGVPPLSSPPLSSSFTSKVVFTTRFVEVCGHMEAHRKLKVECL 268

Query: 222 GYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEH 281
             E+AWKLF  KVG + LD+HP+IPELA+T AKECGGLPLALIT+GRAMA KKTP EW +
Sbjct: 269 ADEEAWKLFRSKVGGDALDNHPEIPELAQTAAKECGGLPLALITIGRAMACKKTPAEWRY 328

Query: 282 AIEVLRSSAYKFSGMESRVFSRLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCW 341
           AIEVLR SA++F G+   V+  LK SYD LP    R  LLYCS +PEDY I  + LIDCW
Sbjct: 329 AIEVLRRSAHEFPGLGKEVYPLLKFSYDSLPSCTLRACLLYCSLFPEDYNIPKKHLIDCW 388

Query: 342 ICEGFL--DEYDGFEHEIKDTLLFVSFFMHVC 371
           I EGFL  D+  G +++ +     V   +H C
Sbjct: 389 IGEGFLGDDDVGGTQYQGQH---HVGVLLHAC 417

Source: Dimocarpus longan

Species: Dimocarpus longan

Genus: Dimocarpus

Family: Sapindaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224055915|ref|XP_002298700.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222845958|gb|EEE83505.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  385 bits (988), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 202/371 (54%), Positives = 250/371 (67%), Gaps = 3/371 (0%)

Query: 2   QEVEKLCLVCLWSKNCSSGYKIGRKVFKTLQQVQGLTNEGDFKEVPQPVPENLVDERPLP 61
           QE+E+LCL    SKN  S Y+  ++V K L+ V  L   GDFK V + VP      RP  
Sbjct: 94  QEIERLCLRGYCSKNYKSSYRFAKEVDKRLRDVADLKANGDFKVVAEKVPAASGVPRPSE 153

Query: 62  PTVVGLQSTFDRVWRCLMEE-QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWV 120
           PTV GL+STF++VW CL EE Q+GIVGLYGMG VGKTTLLTQIN + L TP+DFD VIWV
Sbjct: 154 PTV-GLESTFNQVWTCLREEKQVGIVGLYGMGGVGKTTLLTQINNESLKTPDDFDIVIWV 212

Query: 121 VASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDL 180
           V SKDL+L  +Q SI + I   ++ W ++SL EK+ DI   + +K+FV+LLD IWE VDL
Sbjct: 213 VVSKDLKLNTVQESIGRNIGCSDDLWKNKSLDEKAVDIFNALRHKRFVMLLDDIWERVDL 272

Query: 181 SQVGLPVPCRTSASNKTVFTARELEVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILD 240
            ++G+P+P   + S K VFT R  E+CG M+AHK+ KV+ L ++DAW LF++KVG + L 
Sbjct: 273 KKLGVPLPDMNNGS-KVVFTTRSEEICGLMDAHKTMKVDCLAWDDAWDLFQKKVGDQTLC 331

Query: 241 SHPDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSAYKFSGMESRV 300
            H DIP+LA  VAKECGGLPLALIT+GRAMA KKTP+EW HAIEVLR SA +FSGM   V
Sbjct: 332 VHTDIPKLARNVAKECGGLPLALITIGRAMACKKTPQEWRHAIEVLRKSASEFSGMGDEV 391

Query: 301 FSRLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDEYDGFEHEIKDT 360
           F  LK SYD L   + R   LYCS +PED+ I   DLID WI EG  D  DG E      
Sbjct: 392 FPLLKFSYDNLSKQKIRTCFLYCSLFPEDFLINKNDLIDYWIGEGIFDGSDGREVVENWG 451

Query: 361 LLFVSFFMHVC 371
              +   +H C
Sbjct: 452 YHVIGCLLHAC 462

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225443158|ref|XP_002263674.1| PREDICTED: probable disease resistance protein At5g63020-like [Vitis vinifera]

 Score =  377 bits (969), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 190/350 (54%), Positives = 239/350 (68%), Gaps = 2/350 (0%)

Query: 2   QEVEKLCLVCLWSKNCSSGYKIGRKVFKTLQQVQGLTNEGDFKEVPQPVPENLVDERPLP 61
           +E +K CL    SKNC S YK+GRK+ K    V  L +   F  +   +P   VDERP  
Sbjct: 94  RETQKFCLGGCCSKNCLSSYKLGRKLVKKADDVATLRSTRLFDGLADRLPPPAVDERPSE 153

Query: 62  PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVV 121
           PTV G +ST D VW CL EEQ+ I+GLYGMG VGKTTL+TQ+N +FL T + FD VIWVV
Sbjct: 154 PTV-GFESTIDEVWSCLREEQVQIIGLYGMGGVGKTTLMTQVNNEFLKTIHQFDIVIWVV 212

Query: 122 ASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLS 181
            S+D   E++Q  I KK+   ++ W S+S  EK+  I + +  KKFVL LD +WE  DL 
Sbjct: 213 VSRDPNPEKVQDEIWKKVGFCDDKWKSKSQDEKAISIFRILGKKKFVLFLDDVWERFDLL 272

Query: 182 QVGLPVPCRTSASNKTVFTARELEVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDS 241
           +VG+P+P + + S K VFT R  EVCG+M AH+  KVE L ++ AW LF+  VG++ L+S
Sbjct: 273 KVGIPLPNQQNNS-KLVFTTRSEEVCGRMGAHRRIKVECLAWKQAWDLFQNMVGEDTLNS 331

Query: 242 HPDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSAYKFSGMESRVF 301
           HP+IP+LAET+ KEC GLPLAL+T GR MA KK P+EW+ AI++L+SS+  F GM   VF
Sbjct: 332 HPEIPQLAETIVKECLGLPLALVTTGRTMACKKAPQEWKFAIKMLQSSSSSFPGMRDEVF 391

Query: 302 SRLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDEYD 351
           S LK SYD LP D  R   LYCS YPED  IF EDLIDCWICEGFLDE+D
Sbjct: 392 SLLKFSYDNLPSDTARSCFLYCSLYPEDNDIFKEDLIDCWICEGFLDEFD 441

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|24461865|gb|AAN62352.1|AF506028_19 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  373 bits (957), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 199/370 (53%), Positives = 260/370 (70%), Gaps = 1/370 (0%)

Query: 2   QEVEKLCLVCLWSKNCSSGYKIGRKVFKTLQQVQGLTNEGDFKEVPQPVPENLVDERPLP 61
           QE++KLCL    SKNC S Y+ G++V + L  V+ L  E  F+ V + VP+  VDERP  
Sbjct: 94  QEIKKLCLGGYCSKNCKSSYEFGKQVARKLGDVKTLMAEEAFEAVAEEVPQPAVDERPTE 153

Query: 62  PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVV 121
           PTVVGLQS F++V  CL EE   IVGLYGMG VGKTTLLT I+ KF+ +P +F++VIWVV
Sbjct: 154 PTVVGLQSQFEQVCNCLEEESARIVGLYGMGGVGKTTLLTHIHNKFIQSPTNFNYVIWVV 213

Query: 122 ASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLS 181
           ASKDL+LE IQ +I ++I L N++W ++ +++K+QDI + +  KKF+LLLD +W+ VDL+
Sbjct: 214 ASKDLRLENIQETIGEQIGLLNDTWKNKRIEQKAQDIFRILKQKKFLLLLDDLWQRVDLT 273

Query: 182 QVGLPVPCRTSASNKTVFTARELEVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDS 241
           +VG+P+P   + ++K VFT R  EVCG M AH  FKV  L   DAW+LF + VG+E ++S
Sbjct: 274 KVGVPLPGPQNNASKVVFTTRSEEVCGLMGAHTRFKVACLSNIDAWELFRQNVGEETMNS 333

Query: 242 HPDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSAYKFSGMESRVF 301
           HPDI +LA+T A+ECGGLPLALIT+GRAMA KKTP EW +AIEVLR+S+ +F G+ + V+
Sbjct: 334 HPDILQLAQTAARECGGLPLALITIGRAMACKKTPEEWSYAIEVLRTSSSQFPGLGNEVY 393

Query: 302 SRLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDEYDGFEHEIKDTL 361
             LK SYD LP D  R   LYCS YPEDY I  E LIDCWI E  L E D    E K+  
Sbjct: 394 PLLKFSYDSLPSDTIRSCHLYCSLYPEDYCISKEKLIDCWIGERLLTERDR-TGEQKEGY 452

Query: 362 LFVSFFMHVC 371
             +   +H C
Sbjct: 453 HILGILLHAC 462

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482676|ref|XP_002281742.2| PREDICTED: probable disease resistance protein At5g63020-like [Vitis vinifera]

 Score =  369 bits (947), Expect = 1e-99,   Method: Compositional matrix adjust.
 Identities = 185/369 (50%), Positives = 253/369 (68%), Gaps = 3/369 (0%)

Query: 3   EVEKLCLVCLWSKNCSSGYKIGRKVFKTLQQVQGLTNEGDFKEVPQPVPENLVDERPLPP 62
           E ++ C  C + K+C S Y +G+KV + LQQV  L ++G F+ V   VP   V+E P   
Sbjct: 97  EEKRFCGSC-YPKHCISSYTLGKKVVRKLQQVAALMSDGRFEVVADIVPPAAVEEIP-SG 154

Query: 63  TVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVA 122
           T VGL+STFDRVWRCL EE +G++GLYG+G VGKTTLLTQIN  FL T ++FD VIWVV 
Sbjct: 155 TTVGLESTFDRVWRCLGEEHVGMIGLYGLGGVGKTTLLTQINNHFLKTSHNFDVVIWVVV 214

Query: 123 SKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLSQ 182
           SK   L+++Q  I +K+   ++ W S+S   K++DI K ++ K+FV+LLD +WE ++L +
Sbjct: 215 SKTPNLDEVQNEIWEKVGFCDDKWKSKSRHLKAKDIWKALNEKRFVMLLDDLWEQMNLLE 274

Query: 183 VGLPVPCRTSASNKTVFTARELEVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSH 242
           VG+P P + + S K +FT R L++CGQM A K  +V+ L ++D+W LF++ VG++ L+S 
Sbjct: 275 VGIPPPHQQNKS-KLIFTTRSLDLCGQMGAQKKIEVKSLAWKDSWDLFQKYVGEDTLNSD 333

Query: 243 PDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSAYKFSGMESRVFS 302
           P+IPE AE VA+EC GLPL +IT+GRAMASK TP++W+HAI VL++SA KF GM   V+ 
Sbjct: 334 PEIPEQAEIVARECCGLPLVIITIGRAMASKVTPQDWKHAIRVLQTSASKFPGMGDPVYP 393

Query: 303 RLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDEYDGFEHEIKDTLL 362
           RLK SYD LP    +   LYCS +PED+ I  E LI  WICEGFLDEYD  +        
Sbjct: 394 RLKYSYDSLPTKIVQSCFLYCSLFPEDFSIDKEALIWKWICEGFLDEYDDMDGAKNQGFN 453

Query: 363 FVSFFMHVC 371
            +S  +H C
Sbjct: 454 IISTLIHAC 462

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|24461863|gb|AAN62350.1|AF506028_17 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  363 bits (933), Expect = 6e-98,   Method: Compositional matrix adjust.
 Identities = 193/356 (54%), Positives = 236/356 (66%), Gaps = 11/356 (3%)

Query: 2   QEVEKLCLVCLWSKNCSSGYKIGRKVFKTLQQVQGLTNEGDFKEVPQPVPENLVDERPLP 61
           QE+EKLCL    SKN  S YK G++V K L+    L  EG F+ V +  PE+        
Sbjct: 94  QEIEKLCLGGYCSKNWKSSYKFGKQVAKKLRDAGTLMAEGVFEVVAERAPES-------- 145

Query: 62  PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPN-DFDFVIWV 120
              VG+QS  + VWRCL+EE +GIVGLYGMG VGKTTLLT +N KFL   +  FDF+IWV
Sbjct: 146 -AAVGMQSRLEPVWRCLVEEPVGIVGLYGMGGVGKTTLLTHLNNKFLGQRDFHFDFLIWV 204

Query: 121 VASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDL 180
           V SKDLQ+E+IQ  I KK+  FN+SW  ++L E++ DI   +  KKFVLLLD +W+ VD 
Sbjct: 205 VVSKDLQIEKIQEIIGKKVGFFNDSWMKKNLAERAVDIYNVLKEKKFVLLLDDVWQRVDF 264

Query: 181 SQVGLPVPCRTSASNKTVFTARELEVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILD 240
           + VG+P+P R  +++K VFT R  EVC  M AHK F V  L   DAW+LF + VG+E L 
Sbjct: 265 ATVGVPIPPRDKSASKVVFTTRSAEVCVWMGAHKKFGVGCLSANDAWELFRQNVGEETLT 324

Query: 241 SHPDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSAYKFSGMESRV 300
           S  DI ELA+ VA+ECGGLPLALIT+G+AMA KKT  EW HAIEVLR SA +F G ++ V
Sbjct: 325 SDHDIAELAQIVAEECGGLPLALITIGQAMAYKKTVEEWRHAIEVLRRSASEFPGFDN-V 383

Query: 301 FSRLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDEYDGFEHE 356
               K SYD LP D TR   LYC  YP+DY I   DLIDCWI EGFL+E   F  E
Sbjct: 384 LRVFKFSYDSLPDDTTRSCFLYCCLYPKDYGILKWDLIDCWIGEGFLEESARFVAE 439

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359483035|ref|XP_003632886.1| PREDICTED: probable disease resistance protein At5g63020-like [Vitis vinifera]

 Score =  360 bits (925), Expect = 4e-97,   Method: Compositional matrix adjust.
 Identities = 184/368 (50%), Positives = 248/368 (67%), Gaps = 3/368 (0%)

Query: 5   EKLCLVCLWSKNCSSGYKIGRKVFKTLQQVQGLTNEG-DFKEVPQPVPENLVDERPLPPT 63
           EK    C   K+C S Y +G+KV + LQ    L +EG +F+ V   VP   V+E P  PT
Sbjct: 97  EKRLRGCCHPKHCISSYTLGKKVARKLQDTATLMSEGRNFEVVADIVPPAPVEEIPGRPT 156

Query: 64  VVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVAS 123
           V GL+STFD+VWR L EE +G++GLYG+G VGKTTLL QIN  FL T ++FD VIWVV S
Sbjct: 157 V-GLESTFDKVWRSLEEEHVGMIGLYGLGGVGKTTLLAQINNHFLRTSHNFDVVIWVVVS 215

Query: 124 KDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLSQV 183
           K   LE++Q  I +K+   ++ W S+S  EK+ DI + +S K+FV+LLD +WE +DL +V
Sbjct: 216 KTPNLERVQNEIWEKVGFCDDKWKSKSRHEKANDIWRALSKKRFVMLLDDMWEQMDLLEV 275

Query: 184 GLPVPCRTSASNKTVFTARELEVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHP 243
           G+P P + + S + +FT R  ++CGQM AHK  +V+ L ++D+W LF++ VGK+ L+S P
Sbjct: 276 GIPPPDQQNKS-RLIFTTRSQDLCGQMGAHKKIQVKSLAWKDSWDLFQKYVGKDALNSDP 334

Query: 244 DIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSAYKFSGMESRVFSR 303
           +IPELAE VAKEC GLPLA+IT+GRAMASK   ++W+HAI VL++ A  F GM  RV+  
Sbjct: 335 EIPELAEMVAKECCGLPLAIITIGRAMASKVASQDWKHAIRVLQTCASNFPGMGQRVYPL 394

Query: 304 LKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDEYDGFEHEIKDTLLF 363
           LK SYD LP    +   LYCS +PED+ IF E LI+ WICEGFLDE+D  +         
Sbjct: 395 LKYSYDSLPSKIVQSCFLYCSLFPEDFFIFKELLINQWICEGFLDEFDDPDGARNQGFNI 454

Query: 364 VSFFMHVC 371
           +S  +H C
Sbjct: 455 ISTLVHAC 462

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	371
TAIR|locus:2132741	892	AT4G10780 [Arabidopsis thalian	0.986	0.410	0.447	2.4e-83
TAIR|locus:2008440	899	AT1G61180 [Arabidopsis thalian	0.929	0.383	0.469	3.9e-83
TAIR|locus:2201986	885	RFL1 "AT1G12210" [Arabidopsis	0.943	0.395	0.465	2.2e-82
TAIR|locus:2008510	967	AT1G61190 "AT1G61190" [Arabido	0.929	0.356	0.469	1.5e-81
TAIR|locus:2201996	889	RPS5 "AT1G12220" [Arabidopsis	0.991	0.413	0.452	1.5e-81
TAIR|locus:2166320	888	AT5G63020 [Arabidopsis thalian	0.938	0.391	0.457	4.1e-81
TAIR|locus:2034770	894	SUMM2 "AT1G12280" [Arabidopsis	0.989	0.410	0.439	2.2e-80
TAIR|locus:2034765	884	AT1G12290 [Arabidopsis thalian	0.927	0.389	0.463	4.7e-80
TAIR|locus:2036214	851	AT1G15890 [Arabidopsis thalian	0.959	0.418	0.453	3e-78
TAIR|locus:2170902	862	AT5G43740 [Arabidopsis thalian	0.921	0.396	0.462	1.3e-77

TAIR|locus:2132741 AT4G10780 [Arabidopsis thaliana (taxid:3702)]

 Score = 835 (299.0 bits), Expect = 2.4e-83, P = 2.4e-83
 Identities = 165/369 (44%), Positives = 228/369 (61%)

Query:     3 EVEKLCLVCLWSKNCSSGYKIGRKVFKTLQQVQGLTNEGDFKEVPQPVPENLVDERPLPP 62
             E+++LC     S N SS Y  G++VF  +++V+ L + G F+ V  P P+  ++ RP+ P
Sbjct:    95 EIQRLCFYSNCSTNLSSSYTYGQRVFLMIKEVENLNSNGFFEIVAAPAPK--LEMRPIQP 152

Query:    63 TVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVA 122
             T++G ++ F R W  LM++ +G +GLYGMG VGKTTLLTQI+     T N  D VIWVV 
Sbjct:   153 TIMGRETIFQRAWNRLMDDGVGTMGLYGMGGVGKTTLLTQIHNTLHDTKNGVDIVIWVVV 212

Query:   123 SKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLSQ 182
             S DLQ+ +IQ  I +K+    + WN +   +K+ DI+  +S K+FVLLLD IW+ VDL++
Sbjct:   213 SSDLQIHKIQEDIGEKLGFIGKEWNKKQESQKAVDILNCLSKKRFVLLLDDIWKKVDLTK 272

Query:   183 VGLPVPCRTSASNKTVFTARELEVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSH 242
             +G+P   R +   K VFT R L+VC +M  H   +V+ L   DAW+LF+EKVG+  L SH
Sbjct:   273 IGIPSQTRENKC-KVVFTTRSLDVCARMGVHDPMEVQCLSTNDAWELFQEKVGQISLGSH 331

Query:   243 PDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSAYKFSGMESRVFS 302
             PDI ELA+ VA +C GLPLAL  +G  MA K+  +EW HA++VL S A +FSGM+  +  
Sbjct:   332 PDILELAKKVAGKCRGLPLALNVIGETMAGKRAVQEWHHAVDVLTSYAAEFSGMDDHILL 391

Query:   303 RLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDEYDGFEHEIKDTLL 362
              LK SYD L     R    YC+ YPEDY I    LID WICEGF+D   G E  +     
Sbjct:   392 ILKYSYDNLNDKHVRSCFQYCALYPEDYSIKKYRLIDYWICEGFIDGNIGKERAVNQGYE 451

Query:   363 FVSFFMHVC 371
              +   +  C
Sbjct:   452 ILGTLVRAC 460

GO:0000166 "nucleotide binding" evidence=IEA

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

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2008440 AT1G61180 [Arabidopsis thaliana (taxid:3702)]

 Score = 833 (298.3 bits), Expect = 3.9e-83, P = 3.9e-83
 Identities = 163/347 (46%), Positives = 227/347 (65%)

Query:     3 EVEKLCLVCLWSKNCSSGYKIGRKVFKTLQQVQGLTNEGDFKEVPQPVPENLVDERPLPP 62
             E++KLCL  L SK   S YK G+KVF  L++V+ L +EG+F EV QP P + V+ERP  P
Sbjct:    93 ELQKLCLCGLCSKYVCSSYKYGKKVFLLLEEVKKLNSEGNFDEVSQPPPRSEVEERPTQP 152

Query:    63 TVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVA 122
             T+ G +   ++ W  LME+ +GI+GL+GMG VGKTTL  +I+ KF      FD VIW+V 
Sbjct:   153 TI-GQEDMLEKAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNKFAEIGGTFDIVIWIVV 211

Query:   123 SKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLSQ 182
             SK + + ++Q  IA+K++L ++ W +++  +K+ DI + +  K+FVL+LD IWE VDL  
Sbjct:   212 SKGVMISKLQEDIAEKLHLCDDLWKNKNESDKATDIHRVLKGKRFVLMLDDIWEKVDLEA 271

Query:   183 VGLPVPCRTSASNKTVFTARELEVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSH 242
             +G+P P   +   K  FT R  EVCG+M  HK  +V  L  EDAW+LF+ KVG   L S 
Sbjct:   272 IGIPYPSEVNKC-KVAFTTRSREVCGEMGDHKPMQVNCLEPEDAWELFKNKVGDNTLSSD 330

Query:   243 PDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSAYKFSGMESRVFS 302
             P I ELA  VA++C GLPLAL  +G  M+SK   +EWEHAI V  +SA +FS M++++  
Sbjct:   331 PVIVELAREVAQKCRGLPLALNVIGETMSSKTMVQEWEHAIHVFNTSAAEFSDMQNKILP 390

Query:   303 RLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDE 349
              LK SYD L  +  +   LYC+ +PED +I+ E LID WICEGF+ E
Sbjct:   391 ILKYSYDSLGDEHIKSCFLYCALFPEDGEIYNEKLIDYWICEGFIGE 437

GO:0005886 "plasma membrane" evidence=ISM;IDA

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2201986 RFL1 "AT1G12210" [Arabidopsis thaliana (taxid:3702)]

 Score = 826 (295.8 bits), Expect = 2.2e-82, P = 2.2e-82
 Identities = 164/352 (46%), Positives = 226/352 (64%)

Query:     3 EVEKLCLVCLWSKNCSSGYKIGRKVFKTLQQVQGLTNEGDFKEVPQPVPENLVDERPLPP 62
             E+++LCL    SKN    Y  G++V   L++V+GL+++G F  V +  P   V+E P+  
Sbjct:    96 EIQRLCLCGFCSKNVKMSYLYGKRVIVLLREVEGLSSQGVFDIVTEAAPIAEVEELPIQS 155

Query:    63 TVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVA 122
             T+VG  S  D+VW CLME+++ IVGLYGMG VGKTTLLTQIN KF      FD VIWVV 
Sbjct:   156 TIVGQDSMLDKVWNCLMEDKVWIVGLYGMGGVGKTTLLTQINNKFSKLGGGFDVVIWVVV 215

Query:   123 SKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLSQ 182
             SK+  + +IQ SI +K+ L  ++W+ ++  +++ DI   +  KKFVLLLD IWE V+L  
Sbjct:   216 SKNATVHKIQKSIGEKLGLVGKNWDEKNKNQRALDIHNVLRRKKFVLLLDDIWEKVELKV 275

Query:   183 VGLPVPCRTSASNKTVFTARELEVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSH 242
             +G+P P   +   K  FT    EVCG+M      ++  L   +AW L ++KVG+  L SH
Sbjct:   276 IGVPYPSGENGC-KVAFTTHSKEVCGRMGVDNPMEISCLDTGNAWDLLKKKVGENTLGSH 334

Query:   243 PDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSAYKFSGMESRVFS 302
             PDIP+LA  V+++C GLPLAL  +G  M+ K+T +EW HA EVL +SA  FSGME  +  
Sbjct:   335 PDIPQLARKVSEKCCGLPLALNVIGETMSFKRTIQEWRHATEVL-TSATDFSGMEDEILP 393

Query:   303 RLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDEYDGFE 354
              LK SYD L G++ +   LYCS +PED++I  E LI+ WICEGF+ E  G E
Sbjct:   394 ILKYSYDSLNGEDAKSCFLYCSLFPEDFEIRKEMLIEYWICEGFIKEKQGRE 445

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

GO:0009617 "response to bacterium" evidence=ISS

GO:0006499 "N-terminal protein myristoylation" evidence=RCA

TAIR|locus:2008510 AT1G61190 "AT1G61190" [Arabidopsis thaliana (taxid:3702)]

 Score = 818 (293.0 bits), Expect = 1.5e-81, P = 1.5e-81
 Identities = 163/347 (46%), Positives = 227/347 (65%)

Query:     3 EVEKLCLVCLWSKNCSSGYKIGRKVFKTLQQVQGLTNEGDFKEVPQPVPENLVDERPLPP 62
             E++KLCL  L SK   S YK G++VF  L++V  L +EG+F EV QP P + V+ERP  P
Sbjct:    94 ELQKLCLCGLCSKYVCSSYKYGKRVFLLLEEVTKLKSEGNFDEVSQPPPRSEVEERPTQP 153

Query:    63 TVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVA 122
             T+ G +    + W  LME+ +GI+GL+GMG VGKTTL  +I+ KF  T   FD VIW+V 
Sbjct:   154 TI-GQEEMLKKAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNKFAETGGTFDIVIWIVV 212

Query:   123 SKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLSQ 182
             S+  +L ++Q  IA+K++L ++ W +++  +K+ DI + +  K+FVL+LD IWE VDL  
Sbjct:   213 SQGAKLSKLQEDIAEKLHLCDDLWKNKNESDKATDIHRVLKGKRFVLMLDDIWEKVDLEA 272

Query:   183 VGLPVPCRTSASNKTVFTARELEVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSH 242
             +G+P P   +   K  FT R+ +VCGQM  HK  +V+ L  EDAW+LF+ KVG   L S 
Sbjct:   273 IGIPYPSEVNKC-KVAFTTRDQKVCGQMGDHKPMQVKCLEPEDAWELFKNKVGDNTLRSD 331

Query:   243 PDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSAYKFSGMESRVFS 302
             P I  LA  VA++C GLPLAL  +G  MASK   +EWEHAI+VL  SA +FS M++++  
Sbjct:   332 PVIVGLAREVAQKCRGLPLALSCIGETMASKTMVQEWEHAIDVLTRSAAEFSDMQNKILP 391

Query:   303 RLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDE 349
              LK SYD L  +  +   LYC+ +PED KI  + LI+ WICEGF+ E
Sbjct:   392 ILKYSYDSLEDEHIKSCFLYCALFPEDDKIDTKTLINKWICEGFIGE 438

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2201996 RPS5 "AT1G12220" [Arabidopsis thaliana (taxid:3702)]

 Score = 818 (293.0 bits), Expect = 1.5e-81, P = 1.5e-81
 Identities = 167/369 (45%), Positives = 226/369 (61%)

Query:     3 EVEKLCLVCLWSKNCSSGYKIGRKVFKTLQQVQGLTNEGDFKEVPQPVPENLVDERPLPP 62
             E+++LCL    SK+    Y+ G++V   L++V+ L+++G F  V +  P   VDE P  P
Sbjct:    96 ELQRLCLCGFCSKDLKLSYRYGKRVIMMLKEVESLSSQGFFDVVSEATPFADVDEIPFQP 155

Query:    63 TVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVA 122
             T+VG +   ++ W  LME+  GI+GLYGMG VGKTTLLT+IN KF    + FD VIWVV 
Sbjct:   156 TIVGQEIMLEKAWNRLMEDGSGILGLYGMGGVGKTTLLTKINNKFSKIDDRFDVVIWVVV 215

Query:   123 SKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLSQ 182
             S+   + +IQ  IA+K+ L    W+ ++  + + DI   +  +KFVLLLD IWE V+L  
Sbjct:   216 SRSSTVRKIQRDIAEKVGLGGMEWSEKNDNQIAVDIHNVLRRRKFVLLLDDIWEKVNLKA 275

Query:   183 VGLPVPCRTSASNKTVFTARELEVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSH 242
             VG+P P + +   K  FT R  +VCG+M      +V  L  E++W LF+ KVGK  L SH
Sbjct:   276 VGVPYPSKDNGC-KVAFTTRSRDVCGRMGVDDPMEVSCLQPEESWDLFQMKVGKNTLGSH 334

Query:   243 PDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSAYKFSGMESRVFS 302
             PDIP LA  VA++C GLPLAL  +G AMA K+T  EW HAI+VL SSA  FSGME  +  
Sbjct:   335 PDIPGLARKVARKCRGLPLALNVIGEAMACKRTVHEWCHAIDVLTSSAIDFSGMEDEILH 394

Query:   303 RLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDEYDGFEHEIKDTLL 362
              LK SYD L G+  +   LYCS +PEDY I  E L+D WI EGF++E +G E  I     
Sbjct:   395 VLKYSYDNLNGELMKSCFLYCSLFPEDYLIDKEGLVDYWISEGFINEKEGRERNINQGYE 454

Query:   363 FVSFFMHVC 371
              +   +  C
Sbjct:   455 IIGTLVRAC 463

GO:0009626 "plant-type hypersensitive response" evidence=IMP

GO:0006952 "defense response" evidence=IMP;TAS

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

GO:0005886 "plasma membrane" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0008219 "cell death" evidence=IMP

GO:0038023 "signaling receptor activity" evidence=IMP

GO:0000166 "nucleotide binding" evidence=IMP

GO:0005622 "intracellular" evidence=ISS

TAIR|locus:2166320 AT5G63020 [Arabidopsis thaliana (taxid:3702)]

 Score = 814 (291.6 bits), Expect = 4.1e-81, P = 4.1e-81
 Identities = 160/350 (45%), Positives = 225/350 (64%)

Query:     3 EVEKLCLVCLWSKNCSSGYKIGRKVFKTLQQVQGLTNEGDFKEVPQPVPENLVDERPLPP 62
             +V++LCL    SKN  S Y+ G++V K +++V+ L  +GDF  V + V    V+ERP  P
Sbjct:    95 QVQRLCLCGFCSKNLVSSYRYGKRVMKMIEEVEVLRYQGDFAVVAERVDAARVEERPTRP 154

Query:    63 TVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVA 122
              +V +    +  W  LME+++GI+GL+GMG VGKTTLL+ IN +F     +FD VIW+V 
Sbjct:   155 -MVAMDPMLESAWNRLMEDEIGILGLHGMGGVGKTTLLSHINNRFSRVGGEFDIVIWIVV 213

Query:   123 SKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLSQ 182
             SK+LQ+++IQ  I +K+   NE W  ++   K+ +I   + +K+FVLLLD IW  VDL++
Sbjct:   214 SKELQIQRIQDEIWEKLRSDNEKWKQKTEDIKASNIYNVLKHKRFVLLLDDIWSKVDLTE 273

Query:   183 VGLPVPCRTSASNKTVFTARELEVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSH 242
             VG+P P R +   K VFT R  E+CG+M      +V  L  +DAW LF +KVG+  L SH
Sbjct:   274 VGVPFPSRENGC-KIVFTTRLKEICGRMGVDSDMEVRCLAPDDAWDLFTKKVGEITLGSH 332

Query:   243 PDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSAYKFSGMESRVFS 302
             P+IP +A TVAK+C GLPLAL  +G  MA K+T +EW  AI+VL SSA +FSGME  +  
Sbjct:   333 PEIPTVARTVAKKCRGLPLALNVIGETMAYKRTVQEWRSAIDVLTSSAAEFSGMEDEILP 392

Query:   303 RLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDEYDG 352
              LK SYD L  ++ +    YC+ +PED+ I   DL+D WI EGF+D   G
Sbjct:   393 ILKYSYDNLKSEQLKLCFQYCALFPEDHNIEKNDLVDYWIGEGFIDRNKG 442

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2034770 SUMM2 "AT1G12280" [Arabidopsis thaliana (taxid:3702)]

 Score = 807 (289.1 bits), Expect = 2.2e-80, P = 2.2e-80
 Identities = 162/369 (43%), Positives = 228/369 (61%)

Query:     3 EVEKLCLVCLWSKNCSSGYKIGRKVFKTLQQVQGLTNEGDFKEVPQPVPENLVDERPLPP 62
             E+++LCL    SKN    Y  G++V   L++++ L+++GDF  V    P   ++E P+ P
Sbjct:    96 ELQRLCLFGFCSKNVKMSYLYGKRVVLMLKEIESLSSQGDFDTVTLATPIARIEEMPIQP 155

Query:    63 TVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVA 122
             T+VG ++  +RVW  L E+   IVGLYGMG VGKTTLLT+IN KF    + F  VIWVV 
Sbjct:   156 TIVGQETMLERVWTRLTEDGDEIVGLYGMGGVGKTTLLTRINNKFSEKCSGFGVVIWVVV 215

Query:   123 SKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLSQ 182
             SK   + +IQG I K+++L  E W++ +  +++ DI   +  +KFVLLLD IWE V+L  
Sbjct:   216 SKSPDIHRIQGDIGKRLDLGGEEWDNVNENQRALDIYNVLGKQKFVLLLDDIWEKVNLEV 275

Query:   183 VGLPVPCRTSASNKTVFTARELEVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSH 242
             +G+P P R +   K VFT R  +VCG+M      +V  L   +AW+LF+ KVG+  L  H
Sbjct:   276 LGVPYPSRQNGC-KVVFTTRSRDVCGRMRVDDPMEVSCLEPNEAWELFQMKVGENTLKGH 334

Query:   243 PDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSAYKFSGMESRVFS 302
             PDIPELA  VA +C GLPLAL  +G  MA K+  +EW +AI+VL S A +F GME ++  
Sbjct:   335 PDIPELARKVAGKCCGLPLALNVIGETMACKRMVQEWRNAIDVLSSYAAEFPGME-QILP 393

Query:   303 RLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDEYDGFEHEIKDTLL 362
              LK SYD L  ++ +   LYCS +PEDY++  E LID WICEGF+DE +  E  +     
Sbjct:   394 ILKYSYDNLNKEQVKPCFLYCSLFPEDYRMEKERLIDYWICEGFIDENESRERALSQGYE 453

Query:   363 FVSFFMHVC 371
              +   +  C
Sbjct:   454 IIGILVRAC 462

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2034765 AT1G12290 [Arabidopsis thaliana (taxid:3702)]

 Score = 804 (288.1 bits), Expect = 4.7e-80, P = 4.7e-80
 Identities = 161/347 (46%), Positives = 219/347 (63%)

Query:     3 EVEKLCLVCLWSKNCSSGYKIGRKVFKTLQQVQGLTNEGDFKEVPQPVPENLVDERPLPP 62
             E+++LC   + S+N    Y  GR+VF  L  V+ L ++G F+EV  P    + +ERPL P
Sbjct:    95 ELQRLCCCGVGSRNLRLSYDYGRRVFLMLNIVEDLKSKGIFEEVAHPATRAVGEERPLQP 154

Query:    63 TVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVA 122
             T+VG ++  ++ W  LM++   I+GLYGMG VGKTTLLTQIN +F  T +  + VIWVV 
Sbjct:   155 TIVGQETILEKAWDHLMDDGTKIMGLYGMGGVGKTTLLTQINNRFCDTDDGVEIVIWVVV 214

Query:   123 SKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLSQ 182
             S DLQ+ +IQ  I +KI      WN +S  +K+ DI+  +S K+FVLLLD IW+ V+L++
Sbjct:   215 SGDLQIHKIQKEIGEKIGFIGVEWNQKSENQKAVDILNFLSKKRFVLLLDDIWKRVELTE 274

Query:   183 VGLPVPCRTSASN-KTVFTARELEVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDS 241
             +G+P P  TS +  K  FT R   VC  M  H   +V  LG +DAW LF++KVG   L S
Sbjct:   275 IGIPNP--TSENGCKIAFTTRCQSVCASMGVHDPMEVRCLGADDAWDLFKKKVGDITLSS 332

Query:   242 HPDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSAYKFSGMESRVF 301
             HPDIPE+A  VA+ C GLPLAL  +G  MA KKT +EW+ A++V  + A  F  ++ R+ 
Sbjct:   333 HPDIPEIARKVAQACCGLPLALNVIGETMACKKTTQEWDRAVDVSTTYAANFGAVKERIL 392

Query:   302 SRLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLD 348
               LK SYD L  +  +   LYCS +PED  I  E LID WICEGF+D
Sbjct:   393 PILKYSYDNLESESVKTCFLYCSLFPEDDLIEKERLIDYWICEGFID 439

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

GO:0006499 "N-terminal protein myristoylation" evidence=RCA

TAIR|locus:2036214 AT1G15890 [Arabidopsis thaliana (taxid:3702)]

 Score = 787 (282.1 bits), Expect = 3.0e-78, P = 3.0e-78
 Identities = 164/362 (45%), Positives = 228/362 (62%)

Query:     3 EVEKLCLVCLWSKNCSSGYKIGRKVFKTLQQVQGLTNEGDFKEVPQPVPENLVDERPLPP 62
             + E+LCL    SKN  SG   G  V K L+ V+GL  +G F+ V + +P   V+++ +  
Sbjct:    95 QTERLCLCGYCSKNFISGRNYGINVLKKLKHVEGLLAKGVFEVVAEKIPAPKVEKKHIQ- 153

Query:    63 TVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVA 122
             T VGL +   R W  LM+++   +GLYGMG VGKTTLL  IN KFL   N FD VIWVV 
Sbjct:   154 TTVGLDAMVGRAWNSLMKDERRTLGLYGMGGVGKTTLLASINNKFLEGMNGFDLVIWVVV 213

Query:   123 SKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLSQ 182
             SKDLQ E IQ  I  ++ L +  W   + +EK+  I   ++ KKFVLLLD +W  VDL +
Sbjct:   214 SKDLQNEGIQEQILGRLGL-HRGWKQVTEKEKASYICNILNVKKFVLLLDDLWSEVDLEK 272

Query:   183 VGLPVPCRTSASNKTVFTARELEVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSH 242
             +G+P   R + S K VFT R  +VC  ME     KV+ L  ++AW+LF++KVG   L SH
Sbjct:   273 IGVPPLTRENGS-KIVFTTRSKDVCRDMEVDGEMKVDCLPPDEAWELFQKKVGPIPLQSH 331

Query:   243 PDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSAYKFSGMESRVFS 302
              DIP LA  VA++C GLPLAL  +G+AMAS++T +EW+H I VL SS+++F  ME ++  
Sbjct:   332 EDIPTLARKVAEKCCGLPLALSVIGKAMASRETVQEWQHVIHVLNSSSHEFPSMEEKILP 391

Query:   303 RLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLD---EYDGFEHEIKD 359
              LK SYD L  ++ +   LYCS +PEDY++  E+LI+ W+CEGF+D   + DG  ++  D
Sbjct:   392 VLKFSYDDLKDEKVKLCFLYCSLFPEDYEVRKEELIEYWMCEGFIDGNEDEDGANNKGHD 451

Query:   360 TL 361
              +
Sbjct:   452 II 453

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2170902 AT5G43740 [Arabidopsis thaliana (taxid:3702)]

 Score = 781 (280.0 bits), Expect = 1.3e-77, P = 1.3e-77
 Identities = 160/346 (46%), Positives = 215/346 (62%)

Query:     3 EVEKLCLVCLWSKNCSSGYKIGRKVFKTLQQVQGLTNEGDFKEVPQPVPENLVDERPLPP 62
             E  +LCL+   S++C S Y  G KV K L++V+ L ++ DF+ V Q +   +  E+ L  
Sbjct:    93 ETGRLCLLGYCSEDCISSYNYGEKVSKMLEEVKELLSKKDFRMVAQEIIHKV--EKKLIQ 150

Query:    63 TVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVA 122
             T VGL    +  W  LM +++G +GLYGMG VGKTTLL  +N KF+   ++FD VIWVV 
Sbjct:   151 TTVGLDKLVEMAWSSLMNDEIGTLGLYGMGGVGKTTLLESLNNKFVELESEFDVVIWVVV 210

Query:   123 SKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLSQ 182
             SKD Q E IQ  I  ++    E W   +  +K+  I  N+  KKFVLLLD +W  VD+++
Sbjct:   211 SKDFQFEGIQDQILGRLRSDKE-WERETESKKASLIYNNLERKKFVLLLDDLWSEVDMTK 269

Query:   183 VGLPVPCRTSASNKTVFTARELEVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSH 242
             +G+P P R + S K VFT R  EVC  M+A K  KV  L  ++AW+LF   VG  IL SH
Sbjct:   270 IGVPPPTRENGS-KIVFTTRSTEVCKHMKADKQIKVACLSPDEAWELFRLTVGDIILRSH 328

Query:   243 PDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSAYKFSGMESRVFS 302
              DIP LA  VA +C GLPLAL  +G+AM+ K+T +EW HAI VL S+ ++F GME R+  
Sbjct:   329 QDIPALARIVAAKCHGLPLALNVIGKAMSCKETIQEWSHAINVLNSAGHEFPGMEERILP 388

Query:   303 RLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLD 348
              LK SYD L   E +   LYCS +PED +I  E  I+ WICEGF++
Sbjct:   389 ILKFSYDSLKNGEIKLCFLYCSLFPEDSEIPKEKWIEYWICEGFIN 434

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

GO:0043531 "ADP binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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	371
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	4e-76

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

 Score =  236 bits (604), Expect = 4e-76
 Identities = 103/288 (35%), Positives = 157/288 (54%), Gaps = 7/288 (2%)

Query: 68  QSTFDRVWRCLME--EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKD 125
           +   + +   L+E  + +G+VG+ GMG VGKTTL  QI          FD V WVV SK 
Sbjct: 2   EDMIEALIEKLLEMSDNLGVVGIVGMGGVGKTTLAKQIYNDD-SVGGHFDSVAWVVVSKT 60

Query: 126 LQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLSQVGL 185
               ++Q  I +++ L +  W  ++  E +  I + +  K+F+L+LD +WE  D  ++G+
Sbjct: 61  YTEFRLQKDILQELGLDDSDWVEKNESELAVKIKEALLRKRFLLVLDDVWEKNDWDKIGV 120

Query: 186 PVPCRTSASNKTVFTARELEVCGQM-EAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPD 244
           P P   + S + + T R   V G+M    K  +VE L  E++W+LF  KV ++ L   P+
Sbjct: 121 PFPDGENGS-RVIVTTRSESVAGRMGGTSKPHEVESLEPEESWELFSNKVFEKELPPCPE 179

Query: 245 IPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSAYKFSGMESRVFSRL 304
           + E+A+ + ++C GLPLAL  +G  +A K T +EWEH +E L +      G+   V S L
Sbjct: 180 LEEVAKEIVEKCKGLPLALKVLGGLLAFKSTVQEWEHVLEQLNNELAGRDGLNE-VLSIL 238

Query: 305 KISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDEYDG 352
            +SYD LP    +   LY + +PEDY I  E LI  WI EGF+   D 
Sbjct: 239 SLSYDNLP-MHLKRCFLYLALFPEDYNIRKEQLIKLWIAEGFVIPSDI 285

Length = 285

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	371
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	100.0
PLN03210	1153	Resistant to P. syringae 6; Provisional	100.0
PRK04841	903	transcriptional regulator MalT; Provisional	99.68
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.66
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	99.61
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	99.61
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.59
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.53
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.51
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.48
COG2256	436	MGS1 ATPase related to the helicase subunit of the	99.47
PF05729	166	NACHT: NACHT domain	99.38
COG3899	849	Predicted ATPase [General function prediction only	99.37
PTZ00112	1164	origin recognition complex 1 protein; Provisional	99.34
PRK13342	413	recombination factor protein RarA; Reviewed	99.27
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	99.25
PRK06893	229	DNA replication initiation factor; Validated	99.23
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	99.22
KOG2028	554	consensus ATPase related to the helicase subunit o	99.21
PRK12402	337	replication factor C small subunit 2; Reviewed	99.17
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	99.17
PF14516	331	AAA_35: AAA-like domain	99.14
PRK04195	482	replication factor C large subunit; Provisional	99.14
COG3903	414	Predicted ATPase [General function prediction only	99.14
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	99.13
PRK00440	319	rfc replication factor C small subunit; Reviewed	99.12
PRK08727	233	hypothetical protein; Validated	99.12
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	99.12
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	99.1
PTZ00202	550	tuzin; Provisional	99.09
PRK08084	235	DNA replication initiation factor; Provisional	99.09
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	99.07
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	99.05
PRK09087	226	hypothetical protein; Validated	99.02
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	99.02
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	99.02
PLN03025	319	replication factor C subunit; Provisional	99.02
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	99.01
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	99.0
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	99.0
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	99.0
PRK13341	725	recombination factor protein RarA/unknown domain f	99.0
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	98.97
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	98.97
PRK07471	365	DNA polymerase III subunit delta'; Validated	98.96
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	98.95
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	98.95
PF13173	128	AAA_14: AAA domain	98.95
PRK05642	234	DNA replication initiation factor; Validated	98.95
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	98.94
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	98.93
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.93
PRK08903	227	DnaA regulatory inactivator Hda; Validated	98.93
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	98.93
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	98.93
PRK09112	351	DNA polymerase III subunit delta'; Validated	98.93
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	98.92
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.92
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.92
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	98.92
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	98.92
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	98.88
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	98.87
PRK07940	394	DNA polymerase III subunit delta'; Validated	98.85
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	98.85
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	98.83
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	98.82
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	98.81
PRK14087	450	dnaA chromosomal replication initiation protein; P	98.81
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	98.79
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	98.78
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	98.78
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	98.77
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	98.75
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	98.74
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	98.74
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	98.74
PRK06620	214	hypothetical protein; Validated	98.73
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	98.71
PRK03992	389	proteasome-activating nucleotidase; Provisional	98.71
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	98.7
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	98.7
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	98.7
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	98.65
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	98.65
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	98.65
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	98.65
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	98.65
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	98.64
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	98.64
PRK00149	450	dnaA chromosomal replication initiation protein; R	98.61
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	98.61
PRK14088	440	dnaA chromosomal replication initiation protein; P	98.61
cd01128	249	rho_factor Transcription termination factor rho is	98.6
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	98.59
PRK14086	617	dnaA chromosomal replication initiation protein; P	98.59
PRK12422	445	chromosomal replication initiation protein; Provis	98.54
PRK07399	314	DNA polymerase III subunit delta'; Validated	98.53
PHA02544	316	44 clamp loader, small subunit; Provisional	98.53
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	98.51
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	98.5
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	98.49
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	98.47
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	98.45
CHL00095	821	clpC Clp protease ATP binding subunit	98.43
KOG1514	767	consensus Origin recognition complex, subunit 1, a	98.42
COG0593	408	DnaA ATPase involved in DNA replication initiation	98.42
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	98.42
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	98.41
PRK09376	416	rho transcription termination factor Rho; Provisio	98.4
CHL00181	287	cbbX CbbX; Provisional	98.39
PRK10865	857	protein disaggregation chaperone; Provisional	98.38
PRK05707	328	DNA polymerase III subunit delta'; Validated	98.38
TIGR00767	415	rho transcription termination factor Rho. Members	98.36
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	98.33
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	98.32
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	98.31
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	98.31
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	98.3
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	98.29
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	98.29
PRK08058	329	DNA polymerase III subunit delta'; Validated	98.23
PRK08769	319	DNA polymerase III subunit delta'; Validated	98.23
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	98.23
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	98.23
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	98.2
PRK06871	325	DNA polymerase III subunit delta'; Validated	98.18
CHL00176	638	ftsH cell division protein; Validated	98.18
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	98.17
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	98.17
smart00382	148	AAA ATPases associated with a variety of cellular	98.14
PRK06090	319	DNA polymerase III subunit delta'; Validated	98.14
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	98.14
PRK08116	268	hypothetical protein; Validated	98.13
PRK10536	262	hypothetical protein; Provisional	98.12
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	98.11
PRK07993	334	DNA polymerase III subunit delta'; Validated	98.09
PF00004	132	AAA: ATPase family associated with various cellula	98.09
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	98.08
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	98.05
PRK08181	269	transposase; Validated	98.03
PRK12377	248	putative replication protein; Provisional	98.03
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	98.03
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	98.02
PRK12608	380	transcription termination factor Rho; Provisional	98.01
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	97.95
PRK06964	342	DNA polymerase III subunit delta'; Validated	97.95
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	97.95
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	97.94
CHL00195	489	ycf46 Ycf46; Provisional	97.93
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.93
PRK04296	190	thymidine kinase; Provisional	97.91
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.91
PRK06921	266	hypothetical protein; Provisional	97.91
PRK08118	167	topology modulation protein; Reviewed	97.9
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	97.85
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	97.84
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	97.83
PRK07261	171	topology modulation protein; Provisional	97.82
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	97.8
PRK06526	254	transposase; Provisional	97.8
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.8
PRK04132	846	replication factor C small subunit; Provisional	97.79
PRK06835	329	DNA replication protein DnaC; Validated	97.79
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	97.78
PHA00729	226	NTP-binding motif containing protein	97.76
PRK07952	244	DNA replication protein DnaC; Validated	97.76
PRK08699	325	DNA polymerase III subunit delta'; Validated	97.76
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	97.76
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	97.75
COG1484	254	DnaC DNA replication protein [DNA replication, rec	97.75
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	97.73
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	97.72
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	97.72
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	97.71
PF10236	309	DAP3: Mitochondrial ribosomal death-associated pro	97.7
PRK10865	857	protein disaggregation chaperone; Provisional	97.7
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	97.69
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	97.69
TIGR02237	209	recomb_radB DNA repair and recombination protein R	97.68
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	97.68
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	97.67
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	97.67
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	97.66
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	97.65
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	97.64
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	97.63
cd00983	325	recA RecA is a bacterial enzyme which has roles in	97.63
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	97.62
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	97.62
PRK09183	259	transposase/IS protein; Provisional	97.61
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	97.59
PRK09354	349	recA recombinase A; Provisional	97.59
cd01394	218	radB RadB. The archaeal protein radB shares simila	97.58
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.57
PTZ00494	664	tuzin-like protein; Provisional	97.55
PRK08939	306	primosomal protein DnaI; Reviewed	97.53
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.52
KOG1969	877	consensus DNA replication checkpoint protein CHL12	97.52
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	97.51
CHL00095	821	clpC Clp protease ATP binding subunit	97.51
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.5
KOG0736	953	consensus Peroxisome assembly factor 2 containing	97.49
PRK06696	223	uridine kinase; Validated	97.46
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	97.46
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	97.45
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	97.44
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	97.4
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	97.39
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	97.39
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	97.38
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.37
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	97.37
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	97.36
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.35
cd03115	173	SRP The signal recognition particle (SRP) mediates	97.33
PRK07132	299	DNA polymerase III subunit delta'; Validated	97.32
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	97.31
PRK06067	234	flagellar accessory protein FlaH; Validated	97.31
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	97.3
COG2884	223	FtsE Predicted ATPase involved in cell division [C	97.3
PRK05541	176	adenylylsulfate kinase; Provisional	97.29
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	97.29
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	97.28
KOG0737	386	consensus AAA+-type ATPase [Posttranslational modi	97.26
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	97.26
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	97.26
PRK15455	644	PrkA family serine protein kinase; Provisional	97.25
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	97.25
PRK13531	498	regulatory ATPase RavA; Provisional	97.25
COG1875	436	NYN ribonuclease and ATPase of PhoH family domains	97.24
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	97.22
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	97.2
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	97.19
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	97.19
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	97.18
PRK10867	433	signal recognition particle protein; Provisional	97.18
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	97.18
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	97.17
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.17
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	97.17
COG4133	209	CcmA ABC-type transport system involved in cytochr	97.17
PRK06547	172	hypothetical protein; Provisional	97.16
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	97.16
PRK13765	637	ATP-dependent protease Lon; Provisional	97.16
PRK07667	193	uridine kinase; Provisional	97.15
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	97.15
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	97.15
PTZ00035	337	Rad51 protein; Provisional	97.15
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	97.13
PRK11823	446	DNA repair protein RadA; Provisional	97.11
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	97.1
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	97.1
TIGR00959	428	ffh signal recognition particle protein. This mode	97.09
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	97.09
TIGR02236	310	recomb_radA DNA repair and recombination protein R	97.08
TIGR00064	272	ftsY signal recognition particle-docking protein F	97.08
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	97.08
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	97.07
PF00154	322	RecA: recA bacterial DNA recombination protein; In	97.07
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	97.06
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	97.06
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	97.06
KOG1970	634	consensus Checkpoint RAD17-RFC complex, RAD17/RAD2	97.06
PRK04301	317	radA DNA repair and recombination protein RadA; Va	97.05
PRK04328	249	hypothetical protein; Provisional	97.04
PRK05973	237	replicative DNA helicase; Provisional	97.04
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.04
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	97.04
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	97.04
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	97.03
PRK05917	290	DNA polymerase III subunit delta'; Validated	97.01
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	97.01
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	97.0
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	97.0
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	96.99
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	96.99
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	96.98
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	96.98
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	96.98
COG3910	233	Predicted ATPase [General function prediction only	96.98
PRK08233	182	hypothetical protein; Provisional	96.98
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	96.97
PRK14974	336	cell division protein FtsY; Provisional	96.97
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	96.96
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	96.95
PRK14527	191	adenylate kinase; Provisional	96.95
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	96.95
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	96.95
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	96.94
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	96.94
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	96.94
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	96.93
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	96.93
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	96.93
PRK08533	230	flagellar accessory protein FlaH; Reviewed	96.92
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	96.92
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	96.92
PRK09519	790	recA DNA recombination protein RecA; Reviewed	96.91
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.91
PF13245	76	AAA_19: Part of AAA domain	96.9
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	96.89
PRK06762	166	hypothetical protein; Provisional	96.88
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	96.88
PTZ00301	210	uridine kinase; Provisional	96.88
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	96.88
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	96.86
PF05970	364	PIF1: PIF1-like helicase; InterPro: IPR010285 This	96.85
COG0714	329	MoxR-like ATPases [General function prediction onl	96.85
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	96.85
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	96.84
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	96.83
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	96.81
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	96.81
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	96.8
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	96.8
PF02456	369	Adeno_IVa2: Adenovirus IVa2 protein; InterPro: IPR	96.8
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	96.8
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	96.8
PRK05480	209	uridine/cytidine kinase; Provisional	96.8
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	96.8
PRK06217	183	hypothetical protein; Validated	96.79
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	96.79
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	96.79
KOG2170	344	consensus ATPase of the AAA+ superfamily [General	96.78
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	96.77
PF07726	131	AAA_3: ATPase family associated with various cellu	96.76
CHL00206	2281	ycf2 Ycf2; Provisional	96.75
PRK12678	672	transcription termination factor Rho; Provisional	96.75
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	96.74
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	96.73
cd03216	163	ABC_Carb_Monos_I This family represents the domain	96.73
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	96.73
COG5635	824	Predicted NTPase (NACHT family) [Signal transducti	96.73
COG1643	845	HrpA HrpA-like helicases [DNA replication, recombi	96.73
cd03246	173	ABCC_Protease_Secretion This family represents the	96.72
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	96.72
) 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	96.72
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	96.72
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	96.72
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	96.71
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	96.71
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	96.71
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	96.7
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	96.7
PRK05439	311	pantothenate kinase; Provisional	96.7
PRK00131	175	aroK shikimate kinase; Reviewed	96.68
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	96.67
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	96.67
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	96.67
TIGR00235	207	udk uridine kinase. Model contains a number of lon	96.67
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	96.66
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	96.66
PRK07276	290	DNA polymerase III subunit delta'; Validated	96.66
PRK03839	180	putative kinase; Provisional	96.65
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	96.65
PRK04040	188	adenylate kinase; Provisional	96.64
PF09848	352	DUF2075: Uncharacterized conserved protein (DUF207	96.64
KOG3928	461	consensus Mitochondrial ribosome small subunit com	96.63
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	96.63
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	96.63
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	96.62
PTZ00088	229	adenylate kinase 1; Provisional	96.62
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	96.62
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	96.61
PHA02244	383	ATPase-like protein	96.61
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	96.6
PRK10416	318	signal recognition particle-docking protein FtsY;	96.59
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	96.56
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	96.55
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	96.55
PRK15453	290	phosphoribulokinase; Provisional	96.54
cd00046	144	DEXDc DEAD-like helicases superfamily. A diverse f	96.53
TIGR01069	771	mutS2 MutS2 family protein. Function of MutS2 is u	96.53
TIGR03575	340	selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryoti	96.5
PRK10875	615	recD exonuclease V subunit alpha; Provisional	96.5
PF13479	213	AAA_24: AAA domain	96.49
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	96.48
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	96.48
PF02374	305	ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_	96.48
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	96.48
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	96.47
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	96.47
PRK14737	186	gmk guanylate kinase; Provisional	96.47
PRK00625	173	shikimate kinase; Provisional	96.46
COG3598	402	RepA RecA-family ATPase [DNA replication, recombin	96.46
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	96.46
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	96.46
KOG0924	1042	consensus mRNA splicing factor ATP-dependent RNA h	96.46
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	96.45
PRK06002	450	fliI flagellum-specific ATP synthase; Validated	96.44
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	96.44
PRK14528	186	adenylate kinase; Provisional	96.43
PRK00279	215	adk adenylate kinase; Reviewed	96.42
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	96.41
PLN02165	334	adenylate isopentenyltransferase	96.41
COG2401	593	ABC-type ATPase fused to a predicted acetyltransfe	96.4
PRK00889	175	adenylylsulfate kinase; Provisional	96.4
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	96.4
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	96.39
PF02367	123	UPF0079: Uncharacterised P-loop hydrolase UPF0079;	96.37
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	96.36
COG0003	322	ArsA Predicted ATPase involved in chromosome parti	96.35
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	96.35
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	96.35
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	96.35
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	96.34
PRK12339	197	2-phosphoglycerate kinase; Provisional	96.34
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	96.33
KOG0736	953	consensus Peroxisome assembly factor 2 containing	96.33
PRK08972	444	fliI flagellum-specific ATP synthase; Validated	96.32
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	96.32
PRK13947	171	shikimate kinase; Provisional	96.32
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	96.32
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	96.31
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	96.3
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	96.3
cd02029	277	PRK_like Phosphoribulokinase-like (PRK-like) is a	96.3
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	96.29
COG2842	297	Uncharacterized ATPase, putative transposase [Gene	96.28
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	96.28
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	96.27
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	96.27
COG4240	300	Predicted kinase [General function prediction only	96.26
PRK00300	205	gmk guanylate kinase; Provisional	96.25
PRK09302	509	circadian clock protein KaiC; Reviewed	96.25
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	96.22
PRK08927	442	fliI flagellum-specific ATP synthase; Validated	96.22
PRK13949	169	shikimate kinase; Provisional	96.22
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	96.22
PRK14530	215	adenylate kinase; Provisional	96.22
PRK05922	434	type III secretion system ATPase; Validated	96.21
PRK03846	198	adenylylsulfate kinase; Provisional	96.2
PRK14529	223	adenylate kinase; Provisional	96.2
PRK09099	441	type III secretion system ATPase; Provisional	96.2
PRK08149	428	ATP synthase SpaL; Validated	96.2
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	96.19
KOG0726	440	consensus 26S proteasome regulatory complex, ATPas	96.19
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	96.18
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	96.17
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	96.16
COG0488	530	Uup ATPase components of ABC transporters with dup	96.16
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	96.15
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	96.15
PRK14738	206	gmk guanylate kinase; Provisional	96.15
TIGR02524	358	dot_icm_DotB Dot/Icm secretion system ATPase DotB.	96.14
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	96.14
PRK05537	568	bifunctional sulfate adenylyltransferase subunit 1	96.14
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	96.14
smart00072	184	GuKc Guanylate kinase homologues. Active enzymes c	96.14
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	96.13
cd01136	326	ATPase_flagellum-secretory_path_III Flagellum-spec	96.13
TIGR01039	461	atpD ATP synthase, F1 beta subunit. The sequences	96.11
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	96.11
PF06414	199	Zeta_toxin: Zeta toxin; InterPro: IPR010488 This e	96.1
PRK11608	326	pspF phage shock protein operon transcriptional ac	96.1
PLN02200	234	adenylate kinase family protein	96.09
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	96.07
PRK13768	253	GTPase; Provisional	96.07
TIGR02768	744	TraA_Ti Ti-type conjugative transfer relaxase TraA	96.06
PRK13975	196	thymidylate kinase; Provisional	96.06
PRK06761	282	hypothetical protein; Provisional	96.06
TIGR03498	418	FliI_clade3 flagellar protein export ATPase FliI.	96.05
TIGR03305	449	alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit	96.05
PRK10646	153	ADP-binding protein; Provisional	96.04
PRK13946	184	shikimate kinase; Provisional	96.04
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	96.04
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	96.03
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	96.03
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	96.03
PRK05057	172	aroK shikimate kinase I; Reviewed	96.02
PRK09435	332	membrane ATPase/protein kinase; Provisional	96.01
cd01132	274	F1_ATPase_alpha F1 ATP synthase alpha, central dom	96.01
PRK14531	183	adenylate kinase; Provisional	96.01
PRK13948	182	shikimate kinase; Provisional	96.0
PRK14532	188	adenylate kinase; Provisional	96.0
PRK09302	509	circadian clock protein KaiC; Reviewed	95.99
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	95.98
PHA02530	300	pseT polynucleotide kinase; Provisional	95.98
PRK13657	588	cyclic beta-1,2-glucan ABC transporter; Provisiona	95.97
PHA02774	613	E1; Provisional	95.97
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	95.96
PF10923	416	DUF2791: P-loop Domain of unknown function (DUF279	95.95
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	95.93
PRK00698	205	tmk thymidylate kinase; Validated	95.93
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	95.91
COG4619	223	ABC-type uncharacterized transport system, ATPase	95.91
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	95.9
COG0396	251	sufC Cysteine desulfurase activator ATPase [Posttr	95.9
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	95.9
PRK06936	439	type III secretion system ATPase; Provisional	95.9
TIGR01287	275	nifH nitrogenase iron protein. This model describe	95.86
PRK07721	438	fliI flagellum-specific ATP synthase; Validated	95.85
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	95.84
PLN02348	395	phosphoribulokinase	95.84
TIGR02533	486	type_II_gspE general secretory pathway protein E.	95.83
TIGR02173	171	cyt_kin_arch cytidylate kinase, putative. Proteins	95.82
COG2019	189	AdkA Archaeal adenylate kinase [Nucleotide transpo	95.81
cd01134	369	V_A-ATPase_A V/A-type ATP synthase catalytic subun	95.8

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=4.7e-55  Score=436.89  Aligned_cols=365  Identities=45%  Similarity=0.802  Sum_probs=325.0

Q ss_pred             hhhhhhcccccCCCcchhchHHHHHHHHHHHHHhhhccCCCCcccC-CCCCCccccCCCCCcc-ccchhHHHHHHHHHhc
Q 043737            3 EVEKLCLVCLWSKNCSSGYKIGRKVFKTLQQVQGLTNEGDFKEVPQ-PVPENLVDERPLPPTV-VGLQSTFDRVWRCLME   80 (371)
Q Consensus         3 ~~~~~~~~~~~~~~~~~r~~~~~~i~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~-vGR~~~~~~l~~~L~~   80 (371)
                      +.+.-|+..+|..+...-|.+++++-+..+.++.+.....+..+.. +.+.......|..+.- ||.+..++++.+.|.+
T Consensus        97 ~~~~~c~~~~~~~~~~~~~~~~~rv~~~l~~ve~l~~~~~~~~~~~~~~~~~~~e~~~~~~~~~VG~e~~~~kl~~~L~~  176 (889)
T KOG4658|consen   97 ERQRLCLCGFCSKNVSDSYKYGKRVSKVLREVESLGSKGVFEVVGESLDPREKVETRPIQSESDVGLETMLEKLWNRLME  176 (889)
T ss_pred             HHHHHhhhhhHhHhhhhhHhHHHHHHHHHHHHHHhccccceecccccccchhhcccCCCCccccccHHHHHHHHHHHhcc
Confidence            4677888899999999999999999999999999998876655543 2222222333333333 9999999999999998


Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHH
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVK  160 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~  160 (371)
                      ++..+++|+||||+||||||+++.++...+..+|+.++|+.+++.++...+..+|+..++.....+......+....+.+
T Consensus       177 d~~~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~~~~iq~~Il~~l~~~~~~~~~~~~~~~~~~i~~  256 (889)
T KOG4658|consen  177 DDVGIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFTTRKIQQTILERLGLLDEEWEDKEEDELASKLLN  256 (889)
T ss_pred             CCCCEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEEcccccHHhHHHHHHHHhccCCcccchhhHHHHHHHHHH
Confidence            87799999999999999999999999955899999999999999999999999999999887766666666889999999


Q ss_pred             HhCCCceEEEEeCCCCcccccccccccCCCCCCCcEEEEecCchHHHhh-ccCCCceeecCCChHHHHHHHHHHhCCCCC
Q 043737          161 NMSNKKFVLLLDHIWELVDLSQVGLPVPCRTSASNKTVFTARELEVCGQ-MEAHKSFKVERLGYEDAWKLFEEKVGKEIL  239 (371)
Q Consensus       161 ~l~~~~~LlVlDdv~~~~~~~~~~~~l~~~~~~~~~iliTsR~~~~~~~-~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~  239 (371)
                      .|+++|++||+||+|+..+|+.+..++| ....|++|++|||+..++.. +++...+++.-|+++|||+||++.++....
T Consensus       257 ~L~~krfllvLDDIW~~~dw~~I~~~~p-~~~~g~KvvlTTRs~~V~~~~m~~~~~~~v~~L~~~eaW~LF~~~v~~~~~  335 (889)
T KOG4658|consen  257 LLEGKRFLLVLDDIWEEVDWDKIGVPFP-SRENGSKVVLTTRSEEVCGRAMGVDYPIEVECLTPEEAWDLFQKKVGPNTL  335 (889)
T ss_pred             HhccCceEEEEecccccccHHhcCCCCC-CccCCeEEEEEeccHhhhhccccCCccccccccCccccHHHHHHhhccccc
Confidence            9999999999999999999999999999 66889999999999999988 777888999999999999999999987765


Q ss_pred             CCCCCHHHHHHHHHHHcCCCcHHHHHHHHHHcCCCChhHHHHHHHHHhcc-cccCCCChhHHHHHHhhccCCCCCcchhH
Q 043737          240 DSHPDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSS-AYKFSGMESRVFSRLKISYDFLPGDETRF  318 (371)
Q Consensus       240 ~~~~~~~~~~~~i~~~~~g~Plal~~~a~~l~~~~~~~~~~~~l~~l~~~-~~~~~~~~~~~~~~l~~s~~~L~~~~~~~  318 (371)
                      ...+.++++|++++++|+|+|||+..+|+.|+.+.+..+|.++.+.+.+. ..+.+++.+.++.++..||+.|++ +.|.
T Consensus       336 ~~~~~i~~lak~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~~l~s~~~~~~~~~~~~i~~iLklSyd~L~~-~lK~  414 (889)
T KOG4658|consen  336 GSHPDIEELAKEVAEKCGGLPLALNVLGGLLACKKTVQEWRRALNVLKSSLAADFSGMEESILPILKLSYDNLPE-ELKS  414 (889)
T ss_pred             cccccHHHHHHHHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHccccccccCCCCchhhhhHHhhhccHhhhhH-HHHH
Confidence            66677899999999999999999999999999999999999999999888 666677788999999999999996 9999


Q ss_pred             HhchhccCCCCCccCHHHHHHHHHHcCCcccCC------ChHHHHHHHHHhCcCCcc
Q 043737          319 YLLYCSSYPEDYKIFVEDLIDCWICEGFLDEYD------GFEHEIKDTLLFVSFFMH  369 (371)
Q Consensus       319 ~l~~la~fp~~~~i~~~~li~~w~a~g~~~~~~------~~~~~~l~~L~~~sll~~  369 (371)
                      ||+|||+||+|+.|+.+.|+.+|+||||+.+..      ++|++|+++|+++||++.
T Consensus       415 CFLycalFPED~~I~~e~Li~yWiaEGfi~~~~~~~~~~d~G~~~i~~LV~~~Ll~~  471 (889)
T KOG4658|consen  415 CFLYCALFPEDYEIKKEKLIEYWIAEGFIDPLDGGETAEDVGYDYIEELVRASLLIE  471 (889)
T ss_pred             HHHhhccCCcccccchHHHHHHHHhccCcCccccccchhcchHHHHHHHHHHHHHhh
Confidence            999999999999999999999999999998844      239999999999999875

>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=100.00  E-value=1e-47  Score=347.10  Aligned_cols=282  Identities=34%  Similarity=0.603  Sum_probs=230.4

Q ss_pred             chhHHHHHHHHHhc--CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCC
Q 043737           67 LQSTFDRVWRCLME--EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNE  144 (371)
Q Consensus        67 R~~~~~~l~~~L~~--~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~  144 (371)
                      |+.++++|.+.|.+  ++.++|+|+|+||+||||||.+++++. ..+.+|+.++|++++...+...++..|+.+++....
T Consensus         1 re~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~-~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~   79 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDL-RIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDS   79 (287)
T ss_dssp             -HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHH-HHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-S
T ss_pred             CHHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeeccccc-cccccccccccccccccccccccccccccccccccc
Confidence            78999999999988  678999999999999999999999985 248899999999999988889999999999987755


Q ss_pred             CC-CcCCHHHHHHHHHHHhCCCceEEEEeCCCCcccccccccccCCCCCCCcEEEEecCchHHHhhccC-CCceeecCCC
Q 043737          145 SW-NSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLSQVGLPVPCRTSASNKTVFTARELEVCGQMEA-HKSFKVERLG  222 (371)
Q Consensus       145 ~~-~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~~~~~~~~l~~~~~~~~~iliTsR~~~~~~~~~~-~~~~~l~~L~  222 (371)
                      .. ...+..+....+.+.+.++++||||||+|+...++.+...++ ....+++||||||+..+...... ...+++++|+
T Consensus        80 ~~~~~~~~~~~~~~l~~~L~~~~~LlVlDdv~~~~~~~~l~~~~~-~~~~~~kilvTTR~~~v~~~~~~~~~~~~l~~L~  158 (287)
T PF00931_consen   80 SISDPKDIEELQDQLRELLKDKRCLLVLDDVWDEEDLEELREPLP-SFSSGSKILVTTRDRSVAGSLGGTDKVIELEPLS  158 (287)
T ss_dssp             TSSCCSSHHHHHHHHHHHHCCTSEEEEEEEE-SHHHH-------H-CHHSS-EEEEEESCGGGGTTHHSCEEEEECSS--
T ss_pred             ccccccccccccccchhhhccccceeeeeeecccccccccccccc-cccccccccccccccccccccccccccccccccc
Confidence            43 567788899999999999999999999999998888877776 66779999999999888765544 6789999999


Q ss_pred             hHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHHHHcCCCChhHHHHHHHHHhcccccCCCChhHHHH
Q 043737          223 YEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSAYKFSGMESRVFS  302 (371)
Q Consensus       223 ~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~~l~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~  302 (371)
                      .++|.+||.+.++.......+..++.+++|++.|+|+||||.++|++|+.+.+..+|...++.+.....+..+....+..
T Consensus       159 ~~ea~~L~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~~~~~~~~~~~~~~  238 (287)
T PF00931_consen  159 EEEALELFKKRAGRKESESPEDLEDLAKEIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELENSLRESRDYDRSVFS  238 (287)
T ss_dssp             HHHHHHHHHHHHTSHS----TTSCTHHHHHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHCHTCSSGSCHHHHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            99999999999876542233444567999999999999999999999976557789999999988887665556679999


Q ss_pred             HHhhccCCCCCcchhHHhchhccCCCCCccCHHHHHHHHHHcCCcccCC
Q 043737          303 RLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDEYD  351 (371)
Q Consensus       303 ~l~~s~~~L~~~~~~~~l~~la~fp~~~~i~~~~li~~w~a~g~~~~~~  351 (371)
                      ++..||+.|++ +.|.||.+||+||+++.|+.+.|+++|+++||+...+
T Consensus       239 ~l~~s~~~L~~-~~~~~f~~L~~f~~~~~i~~~~li~lW~~e~~i~~~~  286 (287)
T PF00931_consen  239 ALELSYDSLPD-ELRRCFLYLSIFPEGVPIPRERLIRLWVAEGFISSKH  286 (287)
T ss_dssp             HHHHHHHSSHT-CCHHHHHHGGGSGTTS-EEHHHHHHHHTT-HHTC---
T ss_pred             cceechhcCCc-cHHHHHhhCcCCCCCceECHHHHHHHHHHCCCCcccC
Confidence            99999999999 9999999999999999999999999999999998764

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.

>PLN03210 Resistant to P

Probab=100.00  E-value=1e-34  Score=304.43  Aligned_cols=284  Identities=17%  Similarity=0.240  Sum_probs=222.2

Q ss_pred             CCccccchhHHHHHHHHHhc--CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeC---CcC---------
Q 043737           61 PPTVVGLQSTFDRVWRCLME--EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVAS---KDL---------  126 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~--~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~---~~~---------  126 (371)
                      .+.+|||+..++++..+|.-  ++.++|+|+||||+||||||+.++++.   ...|++.+|+...   ...         
T Consensus       183 ~~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~~l---~~~F~g~vfv~~~~v~~~~~~~~~~~~~  259 (1153)
T PLN03210        183 FEDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSRL---SRQFQSSVFIDRAFISKSMEIYSSANPD  259 (1153)
T ss_pred             cccccchHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHHHH---hhcCCeEEEeeccccccchhhccccccc
Confidence            46799999999999988752  567899999999999999999999988   6788888887421   100         


Q ss_pred             --C-HHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCcccccccccccCCCCCCCcEEEEecCc
Q 043737          127 --Q-LEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLSQVGLPVPCRTSASNKTVFTARE  203 (371)
Q Consensus       127 --~-~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~~~~~~~~l~~~~~~~~~iliTsR~  203 (371)
                        + ...+..+++..+..... .....    ...+++.+.++++||||||+|+..+++.+..... +...|++||||||+
T Consensus       260 ~~~~~~~l~~~~l~~il~~~~-~~~~~----~~~~~~~L~~krvLLVLDdv~~~~~l~~L~~~~~-~~~~GsrIIiTTrd  333 (1153)
T PLN03210        260 DYNMKLHLQRAFLSEILDKKD-IKIYH----LGAMEERLKHRKVLIFIDDLDDQDVLDALAGQTQ-WFGSGSRIIVITKD  333 (1153)
T ss_pred             ccchhHHHHHHHHHHHhCCCC-cccCC----HHHHHHHHhCCeEEEEEeCCCCHHHHHHHHhhCc-cCCCCcEEEEEeCc
Confidence              0 12233444444321111 01111    2456778899999999999999888888766555 66789999999999


Q ss_pred             hHHHhhccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHHHHcCCCChhHHHHHH
Q 043737          204 LEVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAI  283 (371)
Q Consensus       204 ~~~~~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~~l~~~~~~~~~~~~l  283 (371)
                      ..++.......+|+++.|+.++|++||.+.++... ..+.+..+++++|+++|+|+||||+.+|++|+. ++..+|+..+
T Consensus       334 ~~vl~~~~~~~~~~v~~l~~~ea~~LF~~~Af~~~-~~~~~~~~l~~~iv~~c~GLPLAl~vlgs~L~~-k~~~~W~~~l  411 (1153)
T PLN03210        334 KHFLRAHGIDHIYEVCLPSNELALEMFCRSAFKKN-SPPDGFMELASEVALRAGNLPLGLNVLGSYLRG-RDKEDWMDML  411 (1153)
T ss_pred             HHHHHhcCCCeEEEecCCCHHHHHHHHHHHhcCCC-CCcHHHHHHHHHHHHHhCCCcHHHHHHHHHHcC-CCHHHHHHHH
Confidence            99987666678999999999999999999998654 234457889999999999999999999999997 5789999999


Q ss_pred             HHHhcccccCCCChhHHHHHHhhccCCCCCcchhHHhchhccCCCCCccCHHHHHHHHHHcCCcccCCChHHHHHHHHHh
Q 043737          284 EVLRSSAYKFSGMESRVFSRLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDEYDGFEHEIKDTLLF  363 (371)
Q Consensus       284 ~~l~~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~~l~~la~fp~~~~i~~~~li~~w~a~g~~~~~~~~~~~~l~~L~~  363 (371)
                      +.++...      +..+..+|..||+.|+++..|.+|+++|+|+.+..++   .+..|++.+....     +.-++.|++
T Consensus       412 ~~L~~~~------~~~I~~~L~~SYd~L~~~~~k~~Fl~ia~ff~~~~~~---~v~~~l~~~~~~~-----~~~l~~L~~  477 (1153)
T PLN03210        412 PRLRNGL------DGKIEKTLRVSYDGLNNKKDKAIFRHIACLFNGEKVN---DIKLLLANSDLDV-----NIGLKNLVD  477 (1153)
T ss_pred             HHHHhCc------cHHHHHHHHHhhhccCccchhhhhheehhhcCCCCHH---HHHHHHHhcCCCc-----hhChHHHHh
Confidence            9987643      2479999999999998746899999999999887654   4677887654432     233999999


Q ss_pred             CcCCcc
Q 043737          364 VSFFMH  369 (371)
Q Consensus       364 ~sll~~  369 (371)
                      +||++.
T Consensus       478 ksLi~~  483 (1153)
T PLN03210        478 KSLIHV  483 (1153)
T ss_pred             cCCEEE
Confidence            999864

syringae 6; Provisional

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.68  E-value=6.3e-15  Score=153.62  Aligned_cols=275  Identities=15%  Similarity=0.161  Sum_probs=174.5

Q ss_pred             cCCCCCccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCC-cCCHHHHHHHH
Q 043737           57 ERPLPPTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASK-DLQLEQIQGSI  135 (371)
Q Consensus        57 ~~~~~~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~l  135 (371)
                      ||+.++.+|-|+..++.|.+.   ...+++.|+||+|.||||++.++++..   .    .+.|+++.. ..++..+...+
T Consensus         9 ~p~~~~~~~~R~rl~~~l~~~---~~~~~~~v~apaG~GKTtl~~~~~~~~---~----~~~w~~l~~~d~~~~~f~~~l   78 (903)
T PRK04841          9 RPVRLHNTVVRERLLAKLSGA---NNYRLVLVTSPAGYGKTTLISQWAAGK---N----NLGWYSLDESDNQPERFASYL   78 (903)
T ss_pred             CCCCccccCcchHHHHHHhcc---cCCCeEEEECCCCCCHHHHHHHHHHhC---C----CeEEEecCcccCCHHHHHHHH
Confidence            344567789998776665432   457899999999999999999998643   1    589999864 44667777777


Q ss_pred             HHHhccCCCCC-----------CcCCHHHHHHHHHHHhC--CCceEEEEeCCCCccc--cc-ccccccCCCCCCCcEEEE
Q 043737          136 AKKINLFNESW-----------NSRSLQEKSQDIVKNMS--NKKFVLLLDHIWELVD--LS-QVGLPVPCRTSASNKTVF  199 (371)
Q Consensus       136 ~~~l~~~~~~~-----------~~~~~~~~~~~l~~~l~--~~~~LlVlDdv~~~~~--~~-~~~~~l~~~~~~~~~ili  199 (371)
                      +..++...+..           ...+.......+...+.  +++++|||||++...+  .. .+...+. ....+.+++|
T Consensus        79 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~-~~~~~~~lv~  157 (903)
T PRK04841         79 IAALQQATNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLR-HQPENLTLVV  157 (903)
T ss_pred             HHHHHHhcCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHH-hCCCCeEEEE
Confidence            77774222110           11233334444444443  6789999999986532  22 2333333 4456778889


Q ss_pred             ecCchHHH---hhccCCCceeec----CCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHHHHcC
Q 043737          200 TARELEVC---GQMEAHKSFKVE----RLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAMAS  272 (371)
Q Consensus       200 TsR~~~~~---~~~~~~~~~~l~----~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~~l~~  272 (371)
                      |||...-.   ..........+.    +|+.+|+.+||....+...      ..+.+.+|++.|+|+|+++.+++..+..
T Consensus       158 ~sR~~~~~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~~~~~------~~~~~~~l~~~t~Gwp~~l~l~~~~~~~  231 (903)
T PRK04841        158 LSRNLPPLGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRLSSPI------EAAESSRLCDDVEGWATALQLIALSARQ  231 (903)
T ss_pred             EeCCCCCCchHhHHhcCcceecCHHhCCCCHHHHHHHHHhccCCCC------CHHHHHHHHHHhCChHHHHHHHHHHHhh
Confidence            99984211   111122344555    9999999999987764321      2345889999999999999999887754


Q ss_pred             CCChhHHHHHHHHHhcccccCCCChhHHHHHHhh-ccCCCCCcchhHHhchhccCCCCCccCHHHHHHHHHHcCCcccCC
Q 043737          273 KKTPREWEHAIEVLRSSAYKFSGMESRVFSRLKI-SYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDEYD  351 (371)
Q Consensus       273 ~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~l~~-s~~~L~~~~~~~~l~~la~fp~~~~i~~~~li~~w~a~g~~~~~~  351 (371)
                      ....  .......+..      .....+...+.. .+..||+ +.+.++..+|+++ .  ++.+.+-.+.   |   .  
T Consensus       232 ~~~~--~~~~~~~~~~------~~~~~~~~~l~~~v~~~l~~-~~~~~l~~~a~~~-~--~~~~l~~~l~---~---~--  291 (903)
T PRK04841        232 NNSS--LHDSARRLAG------INASHLSDYLVEEVLDNVDL-ETRHFLLRCSVLR-S--MNDALIVRVT---G---E--  291 (903)
T ss_pred             CCCc--hhhhhHhhcC------CCchhHHHHHHHHHHhcCCH-HHHHHHHHhcccc-c--CCHHHHHHHc---C---C--
Confidence            3211  0111111100      011245555444 4789999 8999999999997 3  4444333221   2   1  


Q ss_pred             ChHHHHHHHHHhCcCCc
Q 043737          352 GFEHEIKDTLLFVSFFM  368 (371)
Q Consensus       352 ~~~~~~l~~L~~~sll~  368 (371)
                      ..+...+++|.++++|.
T Consensus       292 ~~~~~~L~~l~~~~l~~  308 (903)
T PRK04841        292 ENGQMRLEELERQGLFI  308 (903)
T ss_pred             CcHHHHHHHHHHCCCee
Confidence            22678899998888863

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.66  E-value=3.1e-14  Score=134.39  Aligned_cols=296  Identities=14%  Similarity=0.097  Sum_probs=177.7

Q ss_pred             CCCCCccccchhHHHHHHHHHhc----CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHH
Q 043737           58 RPLPPTVVGLQSTFDRVWRCLME----EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQG  133 (371)
Q Consensus        58 ~~~~~~~vGR~~~~~~l~~~L~~----~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  133 (371)
                      ...|+.|+||++++++|...+.+    ...+.+.|+|++|+|||++++.++++.. .....-.++++++....+...++.
T Consensus        26 ~~~P~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~-~~~~~~~~v~in~~~~~~~~~~~~  104 (394)
T PRK00411         26 DYVPENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELE-EIAVKVVYVYINCQIDRTRYAIFS  104 (394)
T ss_pred             CCcCCCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHH-HhcCCcEEEEEECCcCCCHHHHHH
Confidence            33568899999999999998854    3456789999999999999999999873 222233567777777778889999


Q ss_pred             HHHHHhccCCCCCCcCCHHHHHHHHHHHhC--CCceEEEEeCCCCcc---cccccccccCC-CCCC--CcEEEEecCchH
Q 043737          134 SIAKKINLFNESWNSRSLQEKSQDIVKNMS--NKKFVLLLDHIWELV---DLSQVGLPVPC-RTSA--SNKTVFTARELE  205 (371)
Q Consensus       134 ~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~--~~~~LlVlDdv~~~~---~~~~~~~~l~~-~~~~--~~~iliTsR~~~  205 (371)
                      .++.++.....+....+..+....+.+.+.  +++.+||||+++...   ..+.+...+.. ....  +..+|.++....
T Consensus       105 ~i~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~~~~~~v~vI~i~~~~~  184 (394)
T PRK00411        105 EIARQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHEEYPGARIGVIGISSDLT  184 (394)
T ss_pred             HHHHHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhhccCCCeEEEEEEECCcc
Confidence            999998652222233456667777777765  456899999998643   11112111110 1112  233455554433


Q ss_pred             HHhhc-------cCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHc----CCCcHHHHHHHHHH--c-
Q 043737          206 VCGQM-------EAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKEC----GGLPLALITVGRAM--A-  271 (371)
Q Consensus       206 ~~~~~-------~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~----~g~Plal~~~a~~l--~-  271 (371)
                      +....       .....+.+++++.++..+++..++.... ....-..+.++.+++.+    |..+.++.++-...  . 
T Consensus       185 ~~~~l~~~~~s~~~~~~i~f~py~~~e~~~il~~r~~~~~-~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~  263 (394)
T PRK00411        185 FLYILDPRVKSVFRPEEIYFPPYTADEIFDILKDRVEEGF-YPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAE  263 (394)
T ss_pred             hhhhcCHHHHhcCCcceeecCCCCHHHHHHHHHHHHHhhc-ccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHH
Confidence            21111       1234679999999999999998863211 11111223344444444    55667776664322  1 


Q ss_pred             -CC---CChhHHHHHHHHHhcccccCCCChhHHHHHHhhccCCCCCcchhHHhchhccCCC--CCccCHHHHHHH--HHH
Q 043737          272 -SK---KTPREWEHAIEVLRSSAYKFSGMESRVFSRLKISYDFLPGDETRFYLLYCSSYPE--DYKIFVEDLIDC--WIC  343 (371)
Q Consensus       272 -~~---~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~~l~~la~fp~--~~~i~~~~li~~--w~a  343 (371)
                       .+   -+.+....+.+.+.             ...+...+..||. .++.++..++...+  ...+....+...  .++
T Consensus       264 ~~~~~~I~~~~v~~a~~~~~-------------~~~~~~~~~~L~~-~~k~~L~ai~~~~~~~~~~~~~~~i~~~y~~l~  329 (394)
T PRK00411        264 REGSRKVTEEDVRKAYEKSE-------------IVHLSEVLRTLPL-HEKLLLRAIVRLLKKGGDEVTTGEVYEEYKELC  329 (394)
T ss_pred             HcCCCCcCHHHHHHHHHHHH-------------HHHHHHHHhcCCH-HHHHHHHHHHHHHhcCCCcccHHHHHHHHHHHH
Confidence             11   13445555444331             1224456788988 67777666554332  134666666643  222


Q ss_pred             --cCCcccCCChHHHHHHHHHhCcCCcc
Q 043737          344 --EGFLDEYDGFEHEIKDTLLFVSFFMH  369 (371)
Q Consensus       344 --~g~~~~~~~~~~~~l~~L~~~sll~~  369 (371)
                        .|..........+++++|.+.||++.
T Consensus       330 ~~~~~~~~~~~~~~~~l~~L~~~glI~~  357 (394)
T PRK00411        330 EELGYEPRTHTRFYEYINKLDMLGIINT  357 (394)
T ss_pred             HHcCCCcCcHHHHHHHHHHHHhcCCeEE
Confidence              24332222337789999999999863

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=99.61  E-value=5.7e-14  Score=136.06  Aligned_cols=275  Identities=18%  Similarity=0.208  Sum_probs=185.2

Q ss_pred             CCCCCccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCC-cCCHHHHHHHHH
Q 043737           58 RPLPPTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASK-DLQLEQIQGSIA  136 (371)
Q Consensus        58 ~~~~~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~l~  136 (371)
                      |+.+.+.|-|....+.|.+.   .+.|++.|+.|+|.|||||+.+++...    ..-..+.|++++. +.++..+++.++
T Consensus        15 P~~~~~~v~R~rL~~~L~~~---~~~RL~li~APAGfGKttl~aq~~~~~----~~~~~v~Wlslde~dndp~rF~~yLi   87 (894)
T COG2909          15 PVRPDNYVVRPRLLDRLRRA---NDYRLILISAPAGFGKTTLLAQWRELA----ADGAAVAWLSLDESDNDPARFLSYLI   87 (894)
T ss_pred             CCCcccccccHHHHHHHhcC---CCceEEEEeCCCCCcHHHHHHHHHHhc----CcccceeEeecCCccCCHHHHHHHHH
Confidence            34467788897766665543   378999999999999999999998743    4445799999865 457889999999


Q ss_pred             HHhccCCCCC-----------CcCCHHHHHHHHHHHhC--CCceEEEEeCCCCccc--c-cccccccCCCCCCCcEEEEe
Q 043737          137 KKINLFNESW-----------NSRSLQEKSQDIVKNMS--NKKFVLLLDHIWELVD--L-SQVGLPVPCRTSASNKTVFT  200 (371)
Q Consensus       137 ~~l~~~~~~~-----------~~~~~~~~~~~l~~~l~--~~~~LlVlDdv~~~~~--~-~~~~~~l~~~~~~~~~iliT  200 (371)
                      ..++...+..           ...+...+...+...+.  .+++++||||.+-..+  + ..+...+. ....+...++|
T Consensus        88 ~al~~~~p~~~~~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~-~~P~~l~lvv~  166 (894)
T COG2909          88 AALQQATPTLGDEAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLK-HAPENLTLVVT  166 (894)
T ss_pred             HHHHHhCccccHHHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHH-hCCCCeEEEEE
Confidence            9987544332           22334445555555554  4689999999975432  2 23444444 66688899999


Q ss_pred             cCchHHHhh---ccCCCceee----cCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHHHHcCC
Q 043737          201 ARELEVCGQ---MEAHKSFKV----ERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAMASK  273 (371)
Q Consensus       201 sR~~~~~~~---~~~~~~~~l----~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~~l~~~  273 (371)
                      ||+.+-...   --....+++    -.|+.+|+.++|....+..-      .+..++.+...++|-+-|+.+++=.++.+
T Consensus       167 SR~rP~l~la~lRlr~~llEi~~~~Lrf~~eE~~~fl~~~~~l~L------d~~~~~~L~~~teGW~~al~L~aLa~~~~  240 (894)
T COG2909         167 SRSRPQLGLARLRLRDELLEIGSEELRFDTEEAAAFLNDRGSLPL------DAADLKALYDRTEGWAAALQLIALALRNN  240 (894)
T ss_pred             eccCCCCcccceeehhhHHhcChHhhcCChHHHHHHHHHcCCCCC------ChHHHHHHHhhcccHHHHHHHHHHHccCC
Confidence            998653221   111223344    35899999999988864322      23348999999999999999999888744


Q ss_pred             CChhHHHHHHHHHhcccccCCCChhHHHHH-HhhccCCCCCcchhHHhchhccCCCCCccCHHHHHHHHHHcCCcccCCC
Q 043737          274 KTPREWEHAIEVLRSSAYKFSGMESRVFSR-LKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDEYDG  352 (371)
Q Consensus       274 ~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~-l~~s~~~L~~~~~~~~l~~la~fp~~~~i~~~~li~~w~a~g~~~~~~~  352 (371)
                      .+.+.....          +++..+.+.+. ..-.++.||+ +.+.++..+|+++.   +..+ |+..-.     ..  +
T Consensus       241 ~~~~q~~~~----------LsG~~~~l~dYL~eeVld~Lp~-~l~~FLl~~svl~~---f~~e-L~~~Lt-----g~--~  298 (894)
T COG2909         241 TSAEQSLRG----------LSGAASHLSDYLVEEVLDRLPP-ELRDFLLQTSVLSR---FNDE-LCNALT-----GE--E  298 (894)
T ss_pred             CcHHHHhhh----------ccchHHHHHHHHHHHHHhcCCH-HHHHHHHHHHhHHH---hhHH-HHHHHh-----cC--C
Confidence            343322221          12222234443 3456888999 99999999999984   3322 333221     11  2


Q ss_pred             hHHHHHHHHHhCcCCc
Q 043737          353 FEHEIKDTLLFVSFFM  368 (371)
Q Consensus       353 ~~~~~l~~L~~~sll~  368 (371)
                      .+..++++|-+++||-
T Consensus       299 ng~amLe~L~~~gLFl  314 (894)
T COG2909         299 NGQAMLEELERRGLFL  314 (894)
T ss_pred             cHHHHHHHHHhCCCce
Confidence            2888999999999874

>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=99.61  E-value=6.5e-15  Score=128.64  Aligned_cols=198  Identities=15%  Similarity=0.185  Sum_probs=105.8

Q ss_pred             cccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHH---------H
Q 043737           64 VVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQG---------S  134 (371)
Q Consensus        64 ~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~---------~  134 (371)
                      |+||+.++++|.+++..+..+.++|+|+.|+|||+|++++.+..   ......++|+.............         .
T Consensus         1 F~gR~~el~~l~~~l~~~~~~~~~l~G~rg~GKTsLl~~~~~~~---~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~   77 (234)
T PF01637_consen    1 FFGREKELEKLKELLESGPSQHILLYGPRGSGKTSLLKEFINEL---KEKGYKVVYIDFLEESNESSLRSFIEETSLADE   77 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH--SSEEEEEESTTSSHHHHHHHHHHHC---T--EECCCHHCCTTBSHHHHHHHHHHHHHHHCH
T ss_pred             CCCHHHHHHHHHHHHHhhcCcEEEEEcCCcCCHHHHHHHHHHHh---hhcCCcEEEEecccchhhhHHHHHHHHHHHHHH
Confidence            79999999999999987777899999999999999999999987   22222344444433322211111         1


Q ss_pred             HHHHhccCCCC--------CCcCCHHHHHHHHHHHhC--CCceEEEEeCCCCcc-ccc-------ccccccC-CCCCCCc
Q 043737          135 IAKKINLFNES--------WNSRSLQEKSQDIVKNMS--NKKFVLLLDHIWELV-DLS-------QVGLPVP-CRTSASN  195 (371)
Q Consensus       135 l~~~l~~~~~~--------~~~~~~~~~~~~l~~~l~--~~~~LlVlDdv~~~~-~~~-------~~~~~l~-~~~~~~~  195 (371)
                      +...+....+.        ............+.+.+.  +++++||+||++... ...       .+...+. .....+.
T Consensus        78 l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  157 (234)
T PF01637_consen   78 LSEALGISIPSITLEKISKDLSEDSFSALERLLEKLKKKGKKVIIVIDEFQYLAIASEEDKDFLKSLRSLLDSLLSQQNV  157 (234)
T ss_dssp             CHHHHHHHCCTSTTEEEECTS-GG-G--HHHHHHHHHHCHCCEEEEEETGGGGGBCTTTTHHHHHHHHHHHHH----TTE
T ss_pred             HHHHHhhhcccccchhhhhcchhhHHHHHHHHHHHHHhcCCcEEEEEecHHHHhhcccchHHHHHHHHHHHhhccccCCc
Confidence            12222211111        011222333444444443  345999999998666 111       1111111 1223444


Q ss_pred             EEEEecCchHHHhh--------ccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHH
Q 043737          196 KTVFTARELEVCGQ--------MEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITV  266 (371)
Q Consensus       196 ~iliTsR~~~~~~~--------~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~  266 (371)
                      .+++++....+...        ......+.+++|+.+++.+++...+... ... +...+..++|+..+||+|..|..+
T Consensus       158 ~~v~~~S~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~e~~~~~~~~~~~~-~~~-~~~~~~~~~i~~~~gG~P~~l~~~  234 (234)
T PF01637_consen  158 SIVITGSSDSLMEEFLDDKSPLFGRFSHIELKPLSKEEAREFLKELFKEL-IKL-PFSDEDIEEIYSLTGGNPRYLQEL  234 (234)
T ss_dssp             EEEEEESSHHHHHHTT-TTSTTTT---EEEE----HHHHHHHHHHHHHCC--------HHHHHHHHHHHTT-HHHHHHH
T ss_pred             eEEEECCchHHHHHhhcccCccccccceEEEeeCCHHHHHHHHHHHHHHh-hcc-cCCHHHHHHHHHHhCCCHHHHhcC
Confidence            45555444433322        1233458999999999999999976543 122 224566899999999999998753

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

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.59  E-value=1.3e-12  Score=122.17  Aligned_cols=294  Identities=17%  Similarity=0.164  Sum_probs=172.8

Q ss_pred             CCCccccchhHHHHHHHHHhc----CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCC---CCeEEEEEeCCcCCHHHHH
Q 043737           60 LPPTVVGLQSTFDRVWRCLME----EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPND---FDFVIWVVASKDLQLEQIQ  132 (371)
Q Consensus        60 ~~~~~vGR~~~~~~l~~~L~~----~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~---f~~~~wv~~~~~~~~~~~~  132 (371)
                      .|+.|+||++++++|..++.+    ...+.+.|+|++|+|||++++.+++.+......   .-.++|+++....+...++
T Consensus        13 ~p~~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~~   92 (365)
T TIGR02928        13 VPDRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQVL   92 (365)
T ss_pred             CCCCCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHHH
Confidence            356899999999999999864    345689999999999999999999876211111   1256788877777788899


Q ss_pred             HHHHHHhc---cCCCCCCcCCHHHHHHHHHHHhC--CCceEEEEeCCCCcc-cccc-cccccCC---CC--CCCcEEEEe
Q 043737          133 GSIAKKIN---LFNESWNSRSLQEKSQDIVKNMS--NKKFVLLLDHIWELV-DLSQ-VGLPVPC---RT--SASNKTVFT  200 (371)
Q Consensus       133 ~~l~~~l~---~~~~~~~~~~~~~~~~~l~~~l~--~~~~LlVlDdv~~~~-~~~~-~~~~l~~---~~--~~~~~iliT  200 (371)
                      ..++.++.   ...+. ...+..+....+...+.  +++++||||+++... ..+. +...+.+   ..  +.+..+|.+
T Consensus        93 ~~i~~~l~~~~~~~~~-~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~~~~~~~v~lI~i  171 (365)
T TIGR02928        93 VELANQLRGSGEEVPT-TGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVGDDDDLLYQLSRARSNGDLDNAKVGVIGI  171 (365)
T ss_pred             HHHHHHHhhcCCCCCC-CCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhccCCcHHHHhHhccccccCCCCCeEEEEEE
Confidence            99999883   22211 23344555566666553  567899999998662 1111 1111111   11  123344444


Q ss_pred             cCchHHHhhc-----c--CCCceeecCCChHHHHHHHHHHhCCC--CCCCCCCHHHHHHHHHHHcCCCcHHHHHHHHH-H
Q 043737          201 ARELEVCGQM-----E--AHKSFKVERLGYEDAWKLFEEKVGKE--ILDSHPDIPELAETVAKECGGLPLALITVGRA-M  270 (371)
Q Consensus       201 sR~~~~~~~~-----~--~~~~~~l~~L~~~ea~~ll~~~~~~~--~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~~-l  270 (371)
                      +........+     .  ....+.+++++.++..+++..++...  ....+++..+.+..++..+.|.|..+..+... .
T Consensus       172 ~n~~~~~~~l~~~~~s~~~~~~i~f~p~~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~al~~l~~a~  251 (365)
T TIGR02928       172 SNDLKFRENLDPRVKSSLCEEEIIFPPYDAEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKAIDLLRVAG  251 (365)
T ss_pred             ECCcchHhhcCHHHhccCCcceeeeCCCCHHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            4333221111     1  12468999999999999999887421  11122333345556677777887544332221 1


Q ss_pred             --c--CC---CChhHHHHHHHHHhcccccCCCChhHHHHHHhhccCCCCCcchhHHhchhccCC--CCCccCHHHHHHHH
Q 043737          271 --A--SK---KTPREWEHAIEVLRSSAYKFSGMESRVFSRLKISYDFLPGDETRFYLLYCSSYP--EDYKIFVEDLIDCW  341 (371)
Q Consensus       271 --~--~~---~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~~l~~la~fp--~~~~i~~~~li~~w  341 (371)
                        .  .+   -+.+....+.+.+.             ......++..||. .++.++..++..-  ++..+....+...+
T Consensus       252 ~~a~~~~~~~it~~~v~~a~~~~~-------------~~~~~~~i~~l~~-~~~~~l~ai~~~~~~~~~~~~~~~~~~~y  317 (365)
T TIGR02928       252 EIAEREGAERVTEDHVEKAQEKIE-------------KDRLLELIRGLPT-HSKLVLLAIANLAANDEDPFRTGEVYEVY  317 (365)
T ss_pred             HHHHHcCCCCCCHHHHHHHHHHHH-------------HHHHHHHHHcCCH-HHHHHHHHHHHHHhcCCCCccHHHHHHHH
Confidence              1  11   13344444443331             1223456678887 6665555544211  34457777777744


Q ss_pred             H--Hc--CCcccCCChHHHHHHHHHhCcCCc
Q 043737          342 I--CE--GFLDEYDGFEHEIKDTLLFVSFFM  368 (371)
Q Consensus       342 ~--a~--g~~~~~~~~~~~~l~~L~~~sll~  368 (371)
                      -  ++  |..........+++++|...||+.
T Consensus       318 ~~~~~~~~~~~~~~~~~~~~l~~l~~~gli~  348 (365)
T TIGR02928       318 KEVCEDIGVDPLTQRRISDLLNELDMLGLVE  348 (365)
T ss_pred             HHHHHhcCCCCCcHHHHHHHHHHHHhcCCeE
Confidence            2  12  322222233889999999999875

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.

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.53  E-value=6.4e-13  Score=120.97  Aligned_cols=272  Identities=15%  Similarity=0.132  Sum_probs=146.6

Q ss_pred             CccccchhHHHHHHHHHhc-----CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHH
Q 043737           62 PTVVGLQSTFDRVWRCLME-----EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIA  136 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~-----~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~  136 (371)
                      ..|||+++.+++|..++..     ...+.+.++|++|+|||+||+.+++..   ...+   ..+..........+ ...+
T Consensus         4 ~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~---~~~~---~~~~~~~~~~~~~l-~~~l   76 (305)
T TIGR00635         4 AEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEM---GVNL---KITSGPALEKPGDL-AAIL   76 (305)
T ss_pred             HHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHh---CCCE---EEeccchhcCchhH-HHHH
Confidence            4689999999999888862     335678999999999999999999987   2222   12221111111111 1222


Q ss_pred             HHhccCC----CCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCcccccccccccCCCCCCCcEEEEecCchHHHhhc--
Q 043737          137 KKINLFN----ESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLSQVGLPVPCRTSASNKTVFTARELEVCGQM--  210 (371)
Q Consensus       137 ~~l~~~~----~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~~~~~~~~l~~~~~~~~~iliTsR~~~~~~~~--  210 (371)
                      ..++...    ......+ ......+...+.+.+..+|+++..+...+.   ..    ..+.+.|..|++...+...+  
T Consensus        77 ~~~~~~~vl~iDEi~~l~-~~~~e~l~~~~~~~~~~~v~~~~~~~~~~~---~~----~~~~~li~~t~~~~~l~~~l~s  148 (305)
T TIGR00635        77 TNLEEGDVLFIDEIHRLS-PAVEELLYPAMEDFRLDIVIGKGPSARSVR---LD----LPPFTLVGATTRAGMLTSPLRD  148 (305)
T ss_pred             HhcccCCEEEEehHhhhC-HHHHHHhhHHHhhhheeeeeccCcccccee---ec----CCCeEEEEecCCccccCHHHHh
Confidence            2221100    0000000 111223333344444444444433222221   11    12244555677764332211  


Q ss_pred             cCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHHHHcCCCChhHHHHHHHHHhccc
Q 043737          211 EAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSA  290 (371)
Q Consensus       211 ~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~~l~~~~~~~~~~~~l~~l~~~~  290 (371)
                      .....+.+++++.++..+++.+.+.......   ..+.+..|++.|+|.|..+..++..+..        ..  ......
T Consensus       149 R~~~~~~l~~l~~~e~~~il~~~~~~~~~~~---~~~al~~ia~~~~G~pR~~~~ll~~~~~--------~a--~~~~~~  215 (305)
T TIGR00635       149 RFGIILRLEFYTVEELAEIVSRSAGLLNVEI---EPEAALEIARRSRGTPRIANRLLRRVRD--------FA--QVRGQK  215 (305)
T ss_pred             hcceEEEeCCCCHHHHHHHHHHHHHHhCCCc---CHHHHHHHHHHhCCCcchHHHHHHHHHH--------HH--HHcCCC
Confidence            1234678999999999999998876443222   3456889999999999777655544311        00  000000


Q ss_pred             ccCCCChhHHHHHHhhccCCCCCcchhHHhc-hhccCCCCCccCHHHHHHHHHHcCCcccCCChHHHHHH-HHHhCcCCc
Q 043737          291 YKFSGMESRVFSRLKISYDFLPGDETRFYLL-YCSSYPEDYKIFVEDLIDCWICEGFLDEYDGFEHEIKD-TLLFVSFFM  368 (371)
Q Consensus       291 ~~~~~~~~~~~~~l~~s~~~L~~~~~~~~l~-~la~fp~~~~i~~~~li~~w~a~g~~~~~~~~~~~~l~-~L~~~sll~  368 (371)
                      .-....-......+...+..+++ ..+..+. .++.++.+ ++....+....   |   ......+..++ .|++++|+.
T Consensus       216 ~it~~~v~~~l~~l~~~~~~l~~-~~~~~L~al~~~~~~~-~~~~~~ia~~l---g---~~~~~~~~~~e~~Li~~~li~  287 (305)
T TIGR00635       216 IINRDIALKALEMLMIDELGLDE-IDRKLLSVLIEQFQGG-PVGLKTLAAAL---G---EDADTIEDVYEPYLLQIGFLQ  287 (305)
T ss_pred             CcCHHHHHHHHHHhCCCCCCCCH-HHHHHHHHHHHHhCCC-cccHHHHHHHh---C---CCcchHHHhhhHHHHHcCCcc
Confidence            00000001222235566778887 5665555 55666644 56666555543   2   23333788888 699999986


Q ss_pred             c
Q 043737          369 H  369 (371)
Q Consensus       369 ~  369 (371)
                      .
T Consensus       288 ~  288 (305)
T TIGR00635       288 R  288 (305)
T ss_pred             c
Confidence            4

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.

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

Probab=99.51  E-value=1.4e-11  Score=110.15  Aligned_cols=182  Identities=13%  Similarity=0.155  Sum_probs=115.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHH
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVK  160 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~  160 (371)
                      ...+.++|+|++|+|||||++.+++...  ... ..+.|+ .....+..+++..++..++....   ..+.......+..
T Consensus        41 ~~~~~~~l~G~~G~GKTtl~~~l~~~l~--~~~-~~~~~~-~~~~~~~~~~l~~i~~~lG~~~~---~~~~~~~~~~l~~  113 (269)
T TIGR03015        41 QREGFILITGEVGAGKTTLIRNLLKRLD--QER-VVAAKL-VNTRVDAEDLLRMVAADFGLETE---GRDKAALLRELED  113 (269)
T ss_pred             cCCCEEEEEcCCCCCHHHHHHHHHHhcC--CCC-eEEeee-eCCCCCHHHHHHHHHHHcCCCCC---CCCHHHHHHHHHH
Confidence            3456899999999999999999998872  111 122333 23345677889999988876532   2222233333332


Q ss_pred             ----H-hCCCceEEEEeCCCCcc--cccccccccCC--CCCCCcEEEEecCchHHHhhc----------cCCCceeecCC
Q 043737          161 ----N-MSNKKFVLLLDHIWELV--DLSQVGLPVPC--RTSASNKTVFTARELEVCGQM----------EAHKSFKVERL  221 (371)
Q Consensus       161 ----~-l~~~~~LlVlDdv~~~~--~~~~~~~~l~~--~~~~~~~iliTsR~~~~~~~~----------~~~~~~~l~~L  221 (371)
                          . ..+++.++|+||++...  .++.+......  .......|++|...... ..+          .....+.+++|
T Consensus       114 ~l~~~~~~~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~~~~-~~l~~~~~~~l~~r~~~~~~l~~l  192 (269)
T TIGR03015       114 FLIEQFAAGKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPEFR-ETLQSPQLQQLRQRIIASCHLGPL  192 (269)
T ss_pred             HHHHHHhCCCCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCHHHH-HHHcCchhHHHHhheeeeeeCCCC
Confidence                2 25678899999998653  33333222210  11223345666554321 111          11345789999


Q ss_pred             ChHHHHHHHHHHhCCCCCC-CCCCHHHHHHHHHHHcCCCcHHHHHHHHHH
Q 043737          222 GYEDAWKLFEEKVGKEILD-SHPDIPELAETVAKECGGLPLALITVGRAM  270 (371)
Q Consensus       222 ~~~ea~~ll~~~~~~~~~~-~~~~~~~~~~~i~~~~~g~Plal~~~a~~l  270 (371)
                      +.+|..+++...+...... ...-..+.++.|++.++|+|..|..++..+
T Consensus       193 ~~~e~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~  242 (269)
T TIGR03015       193 DREETREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRL  242 (269)
T ss_pred             CHHHHHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHH
Confidence            9999999998887543311 112345789999999999999999998876

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.

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.48  E-value=1.9e-12  Score=118.81  Aligned_cols=258  Identities=15%  Similarity=0.110  Sum_probs=145.4

Q ss_pred             CCCccccchhHHHHHHHHHhc-----CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHH
Q 043737           60 LPPTVVGLQSTFDRVWRCLME-----EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGS  134 (371)
Q Consensus        60 ~~~~~vGR~~~~~~l~~~L~~-----~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  134 (371)
                      .-..|+|+++.++.+..++..     ...+.+.|+|++|+|||+||+.+++..   ...+   .++..... .....+..
T Consensus        23 ~~~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l---~~~~---~~~~~~~~-~~~~~l~~   95 (328)
T PRK00080         23 SLDEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEM---GVNI---RITSGPAL-EKPGDLAA   95 (328)
T ss_pred             CHHHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHh---CCCe---EEEecccc-cChHHHHH
Confidence            346799999999998877752     335688999999999999999999997   2221   12221111 11111222


Q ss_pred             HHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc--ccccccc---------c---------CCCCCCC
Q 043737          135 IAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD--LSQVGLP---------V---------PCRTSAS  194 (371)
Q Consensus       135 l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~--~~~~~~~---------l---------~~~~~~~  194 (371)
                      ++..+                        +...+|+||+++....  .+.+...         +         .......
T Consensus        96 ~l~~l------------------------~~~~vl~IDEi~~l~~~~~e~l~~~~e~~~~~~~l~~~~~~~~~~~~l~~~  151 (328)
T PRK00080         96 ILTNL------------------------EEGDVLFIDEIHRLSPVVEEILYPAMEDFRLDIMIGKGPAARSIRLDLPPF  151 (328)
T ss_pred             HHHhc------------------------ccCCEEEEecHhhcchHHHHHHHHHHHhcceeeeeccCccccceeecCCCc
Confidence            22222                        1223555666543211  0000000         0         0001123


Q ss_pred             cEEEEecCchHHHhhc--cCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHHHHcC
Q 043737          195 NKTVFTARELEVCGQM--EAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAMAS  272 (371)
Q Consensus       195 ~~iliTsR~~~~~~~~--~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~~l~~  272 (371)
                      +-|..|++...+...+  .....+.+++++.++..+++.+.+.......+   .+.+..|++.|+|.|..+..+...+. 
T Consensus       152 ~li~at~~~~~l~~~L~sRf~~~~~l~~~~~~e~~~il~~~~~~~~~~~~---~~~~~~ia~~~~G~pR~a~~~l~~~~-  227 (328)
T PRK00080        152 TLIGATTRAGLLTSPLRDRFGIVQRLEFYTVEELEKIVKRSARILGVEID---EEGALEIARRSRGTPRIANRLLRRVR-  227 (328)
T ss_pred             eEEeecCCcccCCHHHHHhcCeeeecCCCCHHHHHHHHHHHHHHcCCCcC---HHHHHHHHHHcCCCchHHHHHHHHHH-
Confidence            4455577654332211  12346899999999999999988865543333   45689999999999976665555432 


Q ss_pred             CCChhHHHHHHHHHhcccccCCCChhHHHHHHhhccCCCCCcchhHHhc-hhccCCCCCccCHHHHHHHHHHcCCcccCC
Q 043737          273 KKTPREWEHAIEVLRSSAYKFSGMESRVFSRLKISYDFLPGDETRFYLL-YCSSYPEDYKIFVEDLIDCWICEGFLDEYD  351 (371)
Q Consensus       273 ~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~~l~-~la~fp~~~~i~~~~li~~w~a~g~~~~~~  351 (371)
                           .|...    .....-....-......+...+..|++ ..+..+. .+..|+.+ ++..+.+....      ....
T Consensus       228 -----~~a~~----~~~~~I~~~~v~~~l~~~~~~~~~l~~-~~~~~l~~~~~~~~~~-~~~~~~~a~~l------g~~~  290 (328)
T PRK00080        228 -----DFAQV----KGDGVITKEIADKALDMLGVDELGLDE-MDRKYLRTIIEKFGGG-PVGLDTLAAAL------GEER  290 (328)
T ss_pred             -----HHHHH----cCCCCCCHHHHHHHHHHhCCCcCCCCH-HHHHHHHHHHHHcCCC-ceeHHHHHHHH------CCCc
Confidence                 11110    000000000011333445667778887 5566664 66667754 57766665443      3333


Q ss_pred             ChHHHHHH-HHHhCcCCcc
Q 043737          352 GFEHEIKD-TLLFVSFFMH  369 (371)
Q Consensus       352 ~~~~~~l~-~L~~~sll~~  369 (371)
                      ...++.++ .|++.+|++.
T Consensus       291 ~~~~~~~e~~Li~~~li~~  309 (328)
T PRK00080        291 DTIEDVYEPYLIQQGFIQR  309 (328)
T ss_pred             chHHHHhhHHHHHcCCccc
Confidence            33777888 8999998864

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

Probab=99.47  E-value=5.8e-12  Score=112.83  Aligned_cols=258  Identities=17%  Similarity=0.126  Sum_probs=152.0

Q ss_pred             CccccchhHH---HHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHH
Q 043737           62 PTVVGLQSTF---DRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKK  138 (371)
Q Consensus        62 ~~~vGR~~~~---~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~  138 (371)
                      +.+||.+..+   .-|...+..+....+.+|||+|+||||||+.++...   ...|     ..++...+-..-++.+++.
T Consensus        24 de~vGQ~HLlg~~~~lrr~v~~~~l~SmIl~GPPG~GKTTlA~liA~~~---~~~f-----~~~sAv~~gvkdlr~i~e~   95 (436)
T COG2256          24 DEVVGQEHLLGEGKPLRRAVEAGHLHSMILWGPPGTGKTTLARLIAGTT---NAAF-----EALSAVTSGVKDLREIIEE   95 (436)
T ss_pred             HHhcChHhhhCCCchHHHHHhcCCCceeEEECCCCCCHHHHHHHHHHhh---CCce-----EEeccccccHHHHHHHHHH
Confidence            4456665544   234555556788899999999999999999999887   4443     2222222212222222222


Q ss_pred             hccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCc--ccccccccccCCCCCCCcEEEE--ecCchHH---Hhhcc
Q 043737          139 INLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWEL--VDLSQVGLPVPCRTSASNKTVF--TARELEV---CGQME  211 (371)
Q Consensus       139 l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~~~~~l~~~~~~~~~ili--TsR~~~~---~~~~~  211 (371)
                      ..                  .....+++++|++|+++.-  .+.+   .++| ....|..|+|  ||.++.+   ....+
T Consensus        96 a~------------------~~~~~gr~tiLflDEIHRfnK~QQD---~lLp-~vE~G~iilIGATTENPsF~ln~ALlS  153 (436)
T COG2256          96 AR------------------KNRLLGRRTILFLDEIHRFNKAQQD---ALLP-HVENGTIILIGATTENPSFELNPALLS  153 (436)
T ss_pred             HH------------------HHHhcCCceEEEEehhhhcChhhhh---hhhh-hhcCCeEEEEeccCCCCCeeecHHHhh
Confidence            10                  1122478999999999743  3333   3345 5567777777  6766543   22235


Q ss_pred             CCCceeecCCChHHHHHHHHHHhCCCC--CC--CCCCHHHHHHHHHHHcCCCcHHH----HHHHHHHcCCC--ChhHHHH
Q 043737          212 AHKSFKVERLGYEDAWKLFEEKVGKEI--LD--SHPDIPELAETVAKECGGLPLAL----ITVGRAMASKK--TPREWEH  281 (371)
Q Consensus       212 ~~~~~~l~~L~~~ea~~ll~~~~~~~~--~~--~~~~~~~~~~~i~~~~~g~Plal----~~~a~~l~~~~--~~~~~~~  281 (371)
                      ...++.+++|+.++-.+++.+.+....  ..  ...-.++..+.+++.++|--.+.    .+++..-....  ..+..+.
T Consensus       154 R~~vf~lk~L~~~di~~~l~ra~~~~~rgl~~~~~~i~~~a~~~l~~~s~GD~R~aLN~LE~~~~~~~~~~~~~~~~l~~  233 (436)
T COG2256         154 RARVFELKPLSSEDIKKLLKRALLDEERGLGGQIIVLDEEALDYLVRLSNGDARRALNLLELAALSAEPDEVLILELLEE  233 (436)
T ss_pred             hhheeeeecCCHHHHHHHHHHHHhhhhcCCCcccccCCHHHHHHHHHhcCchHHHHHHHHHHHHHhcCCCcccCHHHHHH
Confidence            667899999999999999998442222  11  11123557888999999965432    22222222221  2344444


Q ss_pred             HHHHHhcccccCCCChhHHHHHHhhccCCCCCcchhHHhchhccCCCCCccCHHHHHHH-HHHcCCccc
Q 043737          282 AIEVLRSSAYKFSGMESRVFSRLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDC-WICEGFLDE  349 (371)
Q Consensus       282 ~l~~l~~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~~l~~la~fp~~~~i~~~~li~~-w~a~g~~~~  349 (371)
                      .+..-....+.....+..+..+|..|...=+++.+-..|..+---++|...-.++|+++ |---|+..+
T Consensus       234 ~l~~~~~~~Dk~gD~hYdliSA~hKSvRGSD~dAALyylARmi~~GeDp~yiARRlv~~AsEDIGlAdP  302 (436)
T COG2256         234 ILQRRSARFDKDGDAHYDLISALHKSVRGSDPDAALYYLARMIEAGEDPLYIARRLVRIASEDIGLADP  302 (436)
T ss_pred             HHhhhhhccCCCcchHHHHHHHHHHhhccCCcCHHHHHHHHHHhcCCCHHHHHHHHHHHHHhhccCCCh
Confidence            44333333344444456799999999999998665555656655666555555555543 222354443

>PF05729 NACHT: NACHT domain

Probab=99.38  E-value=5.1e-12  Score=104.18  Aligned_cols=144  Identities=15%  Similarity=0.225  Sum_probs=91.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhccCCCCC---CCeEEEEEeCCcCCHH---HHHHHHHHHhccCCCCCCcCCHHHHHHH
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKFLHTPND---FDFVIWVVASKDLQLE---QIQGSIAKKINLFNESWNSRSLQEKSQD  157 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~---f~~~~wv~~~~~~~~~---~~~~~l~~~l~~~~~~~~~~~~~~~~~~  157 (371)
                      |++.|+|.+|+||||+++.++..+......   +..++|++........   .+...+.......     ......   .
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~-----~~~~~~---~   72 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPES-----IAPIEE---L   72 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccc-----hhhhHH---H
Confidence            589999999999999999999887422211   3467777765543322   3444444443221     111111   2


Q ss_pred             HHHH-hCCCceEEEEeCCCCccccc---------c-cccccCCCCCCCcEEEEecCchHH---HhhccCCCceeecCCCh
Q 043737          158 IVKN-MSNKKFVLLLDHIWELVDLS---------Q-VGLPVPCRTSASNKTVFTARELEV---CGQMEAHKSFKVERLGY  223 (371)
Q Consensus       158 l~~~-l~~~~~LlVlDdv~~~~~~~---------~-~~~~l~~~~~~~~~iliTsR~~~~---~~~~~~~~~~~l~~L~~  223 (371)
                      +... ...++++||||++|+...-.         . +...+......+++++||||....   .........+.+.+|++
T Consensus        73 ~~~~~~~~~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~~  152 (166)
T PF05729_consen   73 LQELLEKNKRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFSE  152 (166)
T ss_pred             HHHHHHcCCceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCCH
Confidence            2222 24689999999998654311         1 222233123568999999999765   33334446799999999


Q ss_pred             HHHHHHHHHHhC
Q 043737          224 EDAWKLFEEKVG  235 (371)
Q Consensus       224 ~ea~~ll~~~~~  235 (371)
                      ++..+++++.+.
T Consensus       153 ~~~~~~~~~~f~  164 (166)
T PF05729_consen  153 EDIKQYLRKYFS  164 (166)
T ss_pred             HHHHHHHHHHhh
Confidence            999999988763

>COG3899 Predicted ATPase [General function prediction only]

Probab=99.37  E-value=1.1e-11  Score=125.93  Aligned_cols=265  Identities=15%  Similarity=0.174  Sum_probs=159.3

Q ss_pred             cccchhHHHHHHHHHhc---CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHH---HHHHHHHH
Q 043737           64 VVGLQSTFDRVWRCLME---EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLE---QIQGSIAK  137 (371)
Q Consensus        64 ~vGR~~~~~~l~~~L~~---~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~---~~~~~l~~  137 (371)
                      ++||+.+++.|...+.+   +...++.|.|.+|||||+|++++.....+.+..|-...+-.........   +.++++..
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            79999999999999875   5667999999999999999999999984332332222222222222222   22222222


Q ss_pred             Hh-------------------ccC---------------C---CCCC--cCCHHH-----HHHHHHHHh-CCCceEEEEe
Q 043737          138 KI-------------------NLF---------------N---ESWN--SRSLQE-----KSQDIVKNM-SNKKFVLLLD  172 (371)
Q Consensus       138 ~l-------------------~~~---------------~---~~~~--~~~~~~-----~~~~l~~~l-~~~~~LlVlD  172 (371)
                      ++                   +..               .   +...  ......     ....+.... +.++.++|+|
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            22                   110               0   0000  000011     122222223 3469999999


Q ss_pred             CCC--CcccccccccccCC-----CCCCCcEEEEecCch--HHHhhccCCCceeecCCChHHHHHHHHHHhCCCCCCCCC
Q 043737          173 HIW--ELVDLSQVGLPVPC-----RTSASNKTVFTAREL--EVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHP  243 (371)
Q Consensus       173 dv~--~~~~~~~~~~~l~~-----~~~~~~~iliTsR~~--~~~~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~  243 (371)
                      |++  |...++-+......     ........+.|.+..  .........+.+.|.||+..+...++...++...    .
T Consensus       162 DlhWaD~~SL~lL~~lm~~~~~~~~~~n~v~~~h~~~~~~~~~~~~~~~i~~I~L~PL~~~d~~~lV~~~l~~~~----~  237 (849)
T COG3899         162 DLHWADSASLKLLQLLMDRIAIGAYRDNEVLLLHPLRPTLGEILKSATNITTITLAPLSRADTNQLVAATLGCTK----L  237 (849)
T ss_pred             cccccChhHHHHHHHHHHhcchhhhhccccccCCCccchhhHHhhcCCceeEEecCcCchhhHHHHHHHHhCCcc----c
Confidence            996  33333332222110     001112222333332  1222224457899999999999999999987643    2


Q ss_pred             CHHHHHHHHHHHcCCCcHHHHHHHHHHcCC------CChhHHHHHHHHHhcccccCCCChhHHHHHHhhccCCCCCcchh
Q 043737          244 DIPELAETVAKECGGLPLALITVGRAMASK------KTPREWEHAIEVLRSSAYKFSGMESRVFSRLKISYDFLPGDETR  317 (371)
Q Consensus       244 ~~~~~~~~i~~~~~g~Plal~~~a~~l~~~------~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~  317 (371)
                      ...+....|++++.|+|+.+..+...+...      .+...|......++.    .+.. +.+...+..-.+.||. ..+
T Consensus       238 ~~~p~~~~i~~kt~GnPfFi~e~lk~l~~~~~i~f~~~~~~w~~~~~~i~~----~~~~-~~vv~~l~~rl~kL~~-~t~  311 (849)
T COG3899         238 LPAPLLELIFEKTKGNPFFIEEFLKALYEEGLLVFNFDTGAWQCSIASLGI----LATT-DAVVEFLAARLQKLPG-TTR  311 (849)
T ss_pred             ccchHHHHHHHHhcCCCccHHHHHHHHHhCCeeEecCCCcceeccHHhcCC----chhh-HHHHHHHHHHHhcCCH-HHH
Confidence            234558999999999999999999998864      344556553333222    2222 3466678899999999 899


Q ss_pred             HHhchhccCCCCCccCHHHHHHH
Q 043737          318 FYLLYCSSYPEDYKIFVEDLIDC  340 (371)
Q Consensus       318 ~~l~~la~fp~~~~i~~~~li~~  340 (371)
                      .++...||++..|.  .+.|-.+
T Consensus       312 ~Vl~~AA~iG~~F~--l~~La~l  332 (849)
T COG3899         312 EVLKAAACIGNRFD--LDTLAAL  332 (849)
T ss_pred             HHHHHHHHhCccCC--HHHHHHH
Confidence            99999999996665  3444443

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=99.34  E-value=1.1e-10  Score=114.48  Aligned_cols=292  Identities=16%  Similarity=0.170  Sum_probs=163.9

Q ss_pred             CCCccccchhHHHHHHHHHhc----C-CceEEEEEcCCCCcHHHHHHHHHhhccCC--CCCC--CeEEEEEeCCcCCHHH
Q 043737           60 LPPTVVGLQSTFDRVWRCLME----E-QMGIVGLYGMGEVGKTTLLTQINKKFLHT--PNDF--DFVIWVVASKDLQLEQ  130 (371)
Q Consensus        60 ~~~~~vGR~~~~~~l~~~L~~----~-~~~~v~I~G~~GiGKTtLa~~~~~~~~~~--~~~f--~~~~wv~~~~~~~~~~  130 (371)
                      .|+.+.||++++++|...|..    . ...++.|+|++|+|||++++.+++.+...  ....  -.++++++....+...
T Consensus       753 VPD~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~s  832 (1164)
T PTZ00112        753 VPKYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPNA  832 (1164)
T ss_pred             CCCcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHHH
Confidence            367789999999999988864    2 23567899999999999999998876311  1111  2467888777778889


Q ss_pred             HHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhC---CCceEEEEeCCCCccc--ccccccccCCCCCCCcEEEE--ecCc
Q 043737          131 IQGSIAKKINLFNESWNSRSLQEKSQDIVKNMS---NKKFVLLLDHIWELVD--LSQVGLPVPCRTSASNKTVF--TARE  203 (371)
Q Consensus       131 ~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~---~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~~~ili--TsR~  203 (371)
                      ++..|..++....+. ........+..+...+.   ....+||||+++....  -+.+...+.+....+++++|  +|..
T Consensus       833 IYqvI~qqL~g~~P~-~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK~QDVLYnLFR~~~~s~SKLiLIGISNd  911 (1164)
T PTZ00112        833 AYQVLYKQLFNKKPP-NALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITKTQKVLFTLFDWPTKINSKLVLIAISNT  911 (1164)
T ss_pred             HHHHHHHHHcCCCCC-ccccHHHHHHHHHhhhhcccccceEEEeehHhhhCccHHHHHHHHHHHhhccCCeEEEEEecCc
Confidence            999999888443322 23334445555555542   2346999999985432  11122222222223445443  3332


Q ss_pred             hHH--------HhhccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCC-HHHHHHHHHHHcCCCcHHHHHHHHHHcCCC
Q 043737          204 LEV--------CGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPD-IPELAETVAKECGGLPLALITVGRAMASKK  274 (371)
Q Consensus       204 ~~~--------~~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~-~~~~~~~i~~~~~g~Plal~~~a~~l~~~~  274 (371)
                      ..+        ...+ ....+..+|++.++-.+++..++.......+++ ++-+|+.++...|..-.||.++-.......
T Consensus       912 lDLperLdPRLRSRL-g~eeIvF~PYTaEQL~dILk~RAe~A~gVLdDdAIELIArkVAq~SGDARKALDILRrAgEike  990 (1164)
T PTZ00112        912 MDLPERLIPRCRSRL-AFGRLVFSPYKGDEIEKIIKERLENCKEIIDHTAIQLCARKVANVSGDIRKALQICRKAFENKR  990 (1164)
T ss_pred             hhcchhhhhhhhhcc-ccccccCCCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhhcCCHHHHHHHHHHHHHhhcC
Confidence            111        1111 123467799999999999999886421112222 222333333334445566666544432211


Q ss_pred             ----ChhHHHHHHHHHhcccccCCCChhHHHHHHhhccCCCCCcchhHHhchhcc-CC--CCCccCHHHHHHHHH--Hc-
Q 043737          275 ----TPREWEHAIEVLRSSAYKFSGMESRVFSRLKISYDFLPGDETRFYLLYCSS-YP--EDYKIFVEDLIDCWI--CE-  344 (371)
Q Consensus       275 ----~~~~~~~~l~~l~~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~~l~~la~-fp--~~~~i~~~~li~~w~--a~-  344 (371)
                          +.+....+.+++.             ...+......||. ..+.+|..+.. ..  ....++...+....-  ++ 
T Consensus       991 gskVT~eHVrkAleeiE-------------~srI~e~IktLPl-HqKLVLlALIlLlk~tg~~~i~TGEVYerYk~Lce~ 1056 (1164)
T PTZ00112        991 GQKIVPRDITEATNQLF-------------DSPLTNAINYLPW-PFKMFLTCLIVELRMLNDFIIPYKKVLNRYKVLVET 1056 (1164)
T ss_pred             CCccCHHHHHHHHHHHH-------------hhhHHHHHHcCCH-HHHHHHHHHHHHHhhcCCCceeHHHHHHHHHHHHHh
Confidence                1222222222221             1223345567887 55555553332 22  123466666655432  23 


Q ss_pred             -----CCcccCCChHHHHHHHHHhCcCCc
Q 043737          345 -----GFLDEYDGFEHEIKDTLLFVSFFM  368 (371)
Q Consensus       345 -----g~~~~~~~~~~~~l~~L~~~sll~  368 (371)
                           |...... ...+++.+|...|++-
T Consensus      1057 ~Gk~iGv~plTq-RV~d~L~eL~~LGIIl 1084 (1164)
T PTZ00112       1057 SGKYIGMCSNNE-LFKIMLDKLVKMGILL 1084 (1164)
T ss_pred             hhhhcCCCCcHH-HHHHHHHHHHhcCeEE
Confidence                 3333333 5888899999988763

>PRK13342 recombination factor protein RarA; Reviewed

Probab=99.27  E-value=2.3e-10  Score=108.26  Aligned_cols=222  Identities=16%  Similarity=0.098  Sum_probs=124.2

Q ss_pred             CCccccchhHHHH---HHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHH
Q 043737           61 PPTVVGLQSTFDR---VWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAK  137 (371)
Q Consensus        61 ~~~~vGR~~~~~~---l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~  137 (371)
                      -+.|||++..+..   |..++..+..+.+.|+|++|+||||||+.+++..   ...|     +.++.........+.+..
T Consensus        11 l~d~vGq~~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKTtLA~~ia~~~---~~~~-----~~l~a~~~~~~~ir~ii~   82 (413)
T PRK13342         11 LDEVVGQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLARIIAGAT---DAPF-----EALSAVTSGVKDLREVIE   82 (413)
T ss_pred             HHHhcCcHHHhCcchHHHHHHHcCCCceEEEECCCCCCHHHHHHHHHHHh---CCCE-----EEEecccccHHHHHHHHH
Confidence            4568999988766   8888877777788999999999999999999886   2222     222211111111112221


Q ss_pred             HhccCCCCCCcCCHHHHHHHHHHH-hCCCceEEEEeCCCCccc--ccccccccCCCCCCCcEEEE--ecCchHH---Hhh
Q 043737          138 KINLFNESWNSRSLQEKSQDIVKN-MSNKKFVLLLDHIWELVD--LSQVGLPVPCRTSASNKTVF--TARELEV---CGQ  209 (371)
Q Consensus       138 ~l~~~~~~~~~~~~~~~~~~l~~~-l~~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~~~ili--TsR~~~~---~~~  209 (371)
                      .                   .... ..+++.+|+||+++....  .+.+...+.    .+..++|  ||.+...   ...
T Consensus        83 ~-------------------~~~~~~~g~~~vL~IDEi~~l~~~~q~~LL~~le----~~~iilI~att~n~~~~l~~aL  139 (413)
T PRK13342         83 E-------------------ARQRRSAGRRTILFIDEIHRFNKAQQDALLPHVE----DGTITLIGATTENPSFEVNPAL  139 (413)
T ss_pred             H-------------------HHHhhhcCCceEEEEechhhhCHHHHHHHHHHhh----cCcEEEEEeCCCChhhhccHHH
Confidence            1                   1111 135678999999986532  222322222    2444444  3443221   111


Q ss_pred             ccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHHHHcC---CCChhHHHHHHHHH
Q 043737          210 MEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAMAS---KKTPREWEHAIEVL  286 (371)
Q Consensus       210 ~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~~l~~---~~~~~~~~~~l~~l  286 (371)
                      .+....+.+.+++.++...++.+.+.........-..+..+.|++.++|.+..+..+......   .-+.+.....+...
T Consensus       140 ~SR~~~~~~~~ls~e~i~~lL~~~l~~~~~~~i~i~~~al~~l~~~s~Gd~R~aln~Le~~~~~~~~It~~~v~~~~~~~  219 (413)
T PRK13342        140 LSRAQVFELKPLSEEDIEQLLKRALEDKERGLVELDDEALDALARLANGDARRALNLLELAALGVDSITLELLEEALQKR  219 (413)
T ss_pred             hccceeeEeCCCCHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHccCCCCHHHHHHHHhhh
Confidence            233467899999999999999987643211111223566888999999999876555444321   11333334433322


Q ss_pred             hcccccCCCChhHHHHHHhhccCCCCC
Q 043737          287 RSSAYKFSGMESRVFSRLKISYDFLPG  313 (371)
Q Consensus       287 ~~~~~~~~~~~~~~~~~l~~s~~~L~~  313 (371)
                      .............+...+..|...-++
T Consensus       220 ~~~~d~~~~~~~~~isa~~ks~rgsd~  246 (413)
T PRK13342        220 AARYDKDGDEHYDLISALHKSIRGSDP  246 (413)
T ss_pred             hhccCCCccHHHHHHHHHHHHHhcCCH
Confidence            211111111223455556666655555

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=99.25  E-value=2.6e-10  Score=111.33  Aligned_cols=184  Identities=14%  Similarity=0.167  Sum_probs=113.2

Q ss_pred             CccccchhHHHHHHHHHhcCC-ceEEEEEcCCCCcHHHHHHHHHhhccCCC------------------CCCCeEEEEEe
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQ-MGIVGLYGMGEVGKTTLLTQINKKFLHTP------------------NDFDFVIWVVA  122 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~~------------------~~f~~~~wv~~  122 (371)
                      ..+||.+..++.|.+++..++ ...+.++|+.|+||||+|+.+++.+....                  +.|..+++++.
T Consensus        16 dEVIGQe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~sCr~I~~G~h~DviEIDA   95 (830)
T PRK07003         16 ASLVGQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRACREIDEGRFVDYVEMDA   95 (830)
T ss_pred             HHHcCcHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHHHHHHhcCCCceEEEecc
Confidence            568999999999999997765 45678999999999999999998872110                  01111222222


Q ss_pred             CCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc--ccccccccCCCCCCCcEEEEe
Q 043737          123 SKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD--LSQVGLPVPCRTSASNKTVFT  200 (371)
Q Consensus       123 ~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~~~iliT  200 (371)
                      .....++++ +++++.....                  -..++.-++|||+++....  ++.+...+. ....++++|++
T Consensus        96 as~rgVDdI-ReLIe~a~~~------------------P~~gr~KVIIIDEah~LT~~A~NALLKtLE-EPP~~v~FILa  155 (830)
T PRK07003         96 ASNRGVDEM-AALLERAVYA------------------PVDARFKVYMIDEVHMLTNHAFNAMLKTLE-EPPPHVKFILA  155 (830)
T ss_pred             cccccHHHH-HHHHHHHHhc------------------cccCCceEEEEeChhhCCHHHHHHHHHHHH-hcCCCeEEEEE
Confidence            211111111 1111111100                  0123455899999986643  444444444 34456777776


Q ss_pred             cCchH-HH-hhccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCc-HHHHHHHH
Q 043737          201 ARELE-VC-GQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLP-LALITVGR  268 (371)
Q Consensus       201 sR~~~-~~-~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~P-lal~~~a~  268 (371)
                      |.+.. +. ...+....+.+.+++.++..+.+.+.+.......   ..+..+.|++.++|.. -+|.++-.
T Consensus       156 Ttd~~KIp~TIrSRCq~f~Fk~Ls~eeIv~~L~~Il~~EgI~i---d~eAL~lIA~~A~GsmRdALsLLdQ  223 (830)
T PRK07003        156 TTDPQKIPVTVLSRCLQFNLKQMPAGHIVSHLERILGEERIAF---EPQALRLLARAAQGSMRDALSLTDQ  223 (830)
T ss_pred             ECChhhccchhhhheEEEecCCcCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            66543 32 2234457899999999999999999876544322   2455888999999865 46665433

>PRK06893 DNA replication initiation factor; Validated

Probab=99.23  E-value=1.3e-10  Score=100.93  Aligned_cols=156  Identities=13%  Similarity=0.166  Sum_probs=96.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKN  161 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~  161 (371)
                      ..+.+.|+|++|+|||+|+..+++...   .....+.|+++...   ......+                       .+.
T Consensus        38 ~~~~l~l~G~~G~GKThL~~ai~~~~~---~~~~~~~y~~~~~~---~~~~~~~-----------------------~~~   88 (229)
T PRK06893         38 QQPFFYIWGGKSSGKSHLLKAVSNHYL---LNQRTAIYIPLSKS---QYFSPAV-----------------------LEN   88 (229)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHH---HcCCCeEEeeHHHh---hhhhHHH-----------------------Hhh
Confidence            456789999999999999999999872   22234567665321   0011111                       111


Q ss_pred             hCCCceEEEEeCCCCc---ccccc-cccccCCCCCCCcEE-EEecCc---------hHHHhhccCCCceeecCCChHHHH
Q 043737          162 MSNKKFVLLLDHIWEL---VDLSQ-VGLPVPCRTSASNKT-VFTARE---------LEVCGQMEAHKSFKVERLGYEDAW  227 (371)
Q Consensus       162 l~~~~~LlVlDdv~~~---~~~~~-~~~~l~~~~~~~~~i-liTsR~---------~~~~~~~~~~~~~~l~~L~~~ea~  227 (371)
                      +. +.-+|+|||++..   ..|+. +...+......+..+ ++|+..         +.+.+.+.....+++++++.++.+
T Consensus        89 ~~-~~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~~l~~~~~~L~sRl~~g~~~~l~~pd~e~~~  167 (229)
T PRK06893         89 LE-QQDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPHALSIKLPDLASRLTWGEIYQLNDLTDEQKI  167 (229)
T ss_pred             cc-cCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChHHccccchhHHHHHhcCCeeeCCCCCHHHHH
Confidence            11 2249999999853   22321 222222122234455 455554         244455556678899999999999


Q ss_pred             HHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHHHH
Q 043737          228 KLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAM  270 (371)
Q Consensus       228 ~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~~l  270 (371)
                      +++++.+.......+   ++....|++.+.|....+..+...|
T Consensus       168 ~iL~~~a~~~~l~l~---~~v~~~L~~~~~~d~r~l~~~l~~l  207 (229)
T PRK06893        168 IVLQRNAYQRGIELS---DEVANFLLKRLDRDMHTLFDALDLL  207 (229)
T ss_pred             HHHHHHHHHcCCCCC---HHHHHHHHHhccCCHHHHHHHHHHH
Confidence            999988864443333   4558899999988877766665544

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=99.22  E-value=1.1e-10  Score=101.50  Aligned_cols=176  Identities=11%  Similarity=0.079  Sum_probs=107.7

Q ss_pred             Ccccc--chhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHh
Q 043737           62 PTVVG--LQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKI  139 (371)
Q Consensus        62 ~~~vG--R~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l  139 (371)
                      ++|++  .+..++.+..++.....+.+.|+|++|+|||+||+.+++...   ......+++++..-..   ....+.   
T Consensus        15 ~~~~~~~~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~~---~~~~~~~~i~~~~~~~---~~~~~~---   85 (226)
T TIGR03420        15 DNFYAGGNAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAAE---ERGKSAIYLPLAELAQ---ADPEVL---   85 (226)
T ss_pred             cCcCcCCcHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHHH---hcCCcEEEEeHHHHHH---hHHHHH---
Confidence            44552  455777777776556678999999999999999999998872   2223455665443211   001111   


Q ss_pred             ccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc----ccccccccCCCCCCCcEEEEecCchH---------H
Q 043737          140 NLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD----LSQVGLPVPCRTSASNKTVFTARELE---------V  206 (371)
Q Consensus       140 ~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~----~~~~~~~l~~~~~~~~~iliTsR~~~---------~  206 (371)
                                          ..+.+. -+|||||++....    .+.+...+......+..+|+||+...         +
T Consensus        86 --------------------~~~~~~-~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~~L  144 (226)
T TIGR03420        86 --------------------EGLEQA-DLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLPDL  144 (226)
T ss_pred             --------------------hhcccC-CEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccHHH
Confidence                                112222 3899999985432    22232222211123447888887532         1


Q ss_pred             HhhccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHHHH
Q 043737          207 CGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAM  270 (371)
Q Consensus       207 ~~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~~l  270 (371)
                      .........+.+++++.++...+++.........   -.++.++.|.+.+.|+|..+..+...+
T Consensus       145 ~~r~~~~~~i~l~~l~~~e~~~~l~~~~~~~~~~---~~~~~l~~L~~~~~gn~r~L~~~l~~~  205 (226)
T TIGR03420       145 RTRLAWGLVFQLPPLSDEEKIAALQSRAARRGLQ---LPDEVADYLLRHGSRDMGSLMALLDAL  205 (226)
T ss_pred             HHHHhcCeeEecCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHhccCCHHHHHHHHHHH
Confidence            2222234678999999999999998765432222   234557888889999998888775544

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.

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

Probab=99.21  E-value=3e-09  Score=94.20  Aligned_cols=226  Identities=15%  Similarity=0.101  Sum_probs=135.8

Q ss_pred             CccccchhHHHH---HHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHH
Q 043737           62 PTVVGLQSTFDR---VWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKK  138 (371)
Q Consensus        62 ~~~vGR~~~~~~---l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~  138 (371)
                      ..+||.++.+.+   |.+++.++..+.+.+||++|+||||||+.++..-   +.+-  +.||..+....-..-.+.+.++
T Consensus       138 ~dyvGQ~hlv~q~gllrs~ieq~~ipSmIlWGppG~GKTtlArlia~ts---k~~S--yrfvelSAt~a~t~dvR~ife~  212 (554)
T KOG2028|consen  138 DDYVGQSHLVGQDGLLRSLIEQNRIPSMILWGPPGTGKTTLARLIASTS---KKHS--YRFVELSATNAKTNDVRDIFEQ  212 (554)
T ss_pred             HHhcchhhhcCcchHHHHHHHcCCCCceEEecCCCCchHHHHHHHHhhc---CCCc--eEEEEEeccccchHHHHHHHHH
Confidence            346776655433   4555556788999999999999999999998876   2222  5677766544433444444443


Q ss_pred             hccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCC--cccccccccccCCCCCCCcEEEE--ecCchHH---Hhhcc
Q 043737          139 INLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWE--LVDLSQVGLPVPCRTSASNKTVF--TARELEV---CGQME  211 (371)
Q Consensus       139 l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~--~~~~~~~~~~l~~~~~~~~~ili--TsR~~~~---~~~~~  211 (371)
                      ...                 ...+.+++++|++|+++.  ..+.+   .++| ....|..++|  ||.++.+   ...++
T Consensus       213 aq~-----------------~~~l~krkTilFiDEiHRFNksQQD---~fLP-~VE~G~I~lIGATTENPSFqln~aLlS  271 (554)
T KOG2028|consen  213 AQN-----------------EKSLTKRKTILFIDEIHRFNKSQQD---TFLP-HVENGDITLIGATTENPSFQLNAALLS  271 (554)
T ss_pred             HHH-----------------HHhhhcceeEEEeHHhhhhhhhhhh---cccc-eeccCceEEEecccCCCccchhHHHHh
Confidence            311                 112457889999999974  33333   3456 6667877777  7777654   22235


Q ss_pred             CCCceeecCCChHHHHHHHHHHhC---CCC---CCCCC----CHHHHHHHHHHHcCCCcH----HHHHHHHHH--cCCC-
Q 043737          212 AHKSFKVERLGYEDAWKLFEEKVG---KEI---LDSHP----DIPELAETVAKECGGLPL----ALITVGRAM--ASKK-  274 (371)
Q Consensus       212 ~~~~~~l~~L~~~ea~~ll~~~~~---~~~---~~~~~----~~~~~~~~i~~~~~g~Pl----al~~~a~~l--~~~~-  274 (371)
                      ...++.|+.|+.++...++.+...   ...   ...+.    -...+.+-++..|+|-..    ++.+.+...  +... 
T Consensus       272 RC~VfvLekL~~n~v~~iL~raia~l~dser~~~~l~n~s~~ve~siidyla~lsdGDaR~aLN~Lems~~m~~tr~g~~  351 (554)
T KOG2028|consen  272 RCRVFVLEKLPVNAVVTILMRAIASLGDSERPTDPLPNSSMFVEDSIIDYLAYLSDGDARAALNALEMSLSMFCTRSGQS  351 (554)
T ss_pred             ccceeEeccCCHHHHHHHHHHHHHhhccccccCCCCCCcchhhhHHHHHHHHHhcCchHHHHHHHHHHHHHHHHhhcCCc
Confidence            567899999999999999987432   111   11121    234567888889999654    233332222  2211 


Q ss_pred             --ChhHHHHHHHHHhccc---ccCCCChhHHHHHHhhccCCCCC
Q 043737          275 --TPREWEHAIEVLRSSA---YKFSGMESRVFSRLKISYDFLPG  313 (371)
Q Consensus       275 --~~~~~~~~l~~l~~~~---~~~~~~~~~~~~~l~~s~~~L~~  313 (371)
                        ..-...++.+.|..+.   +.....+.+...+|..|...=+.
T Consensus       352 ~~~~lSidDvke~lq~s~~~YDr~Ge~HYntISA~HKSmRG~D~  395 (554)
T KOG2028|consen  352 SRVLLSIDDVKEGLQRSHILYDRAGEEHYNTISALHKSMRGSDQ  395 (554)
T ss_pred             ccceecHHHHHHHHhhccceecccchhHHHHHHHHHHhhcCCcc
Confidence              1122333334444442   23333344677778888877665

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=99.17  E-value=1.3e-09  Score=100.81  Aligned_cols=197  Identities=13%  Similarity=0.088  Sum_probs=112.7

Q ss_pred             CccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCC-eEEEEEeCCcCCHHHHHHHHH----
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFD-FVIWVVASKDLQLEQIQGSIA----  136 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~-~~~wv~~~~~~~~~~~~~~l~----  136 (371)
                      +.++|++..++.|..++..+..+.+.++|++|+|||++|+.+++...  ...+. ..+.+++.....  .....+.    
T Consensus        15 ~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l~--~~~~~~~~~~i~~~~~~~--~~~~~~~~~~~   90 (337)
T PRK12402         15 EDILGQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELY--GDPWENNFTEFNVADFFD--QGKKYLVEDPR   90 (337)
T ss_pred             HHhcCCHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhc--CcccccceEEechhhhhh--cchhhhhcCcc
Confidence            67899999999999998776666789999999999999999998872  12211 234444332110  0000000    


Q ss_pred             --HHhccCCCCCCcCCHHHHHHHHHHH----h--CCCceEEEEeCCCCccc--ccccccccCCCCCCCcEEEEecCch-H
Q 043737          137 --KKINLFNESWNSRSLQEKSQDIVKN----M--SNKKFVLLLDHIWELVD--LSQVGLPVPCRTSASNKTVFTAREL-E  205 (371)
Q Consensus       137 --~~l~~~~~~~~~~~~~~~~~~l~~~----l--~~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~~~iliTsR~~-~  205 (371)
                        ..++.. .. ......+....+.+.    .  .+.+-+||+||++....  ...+...+. .....+++|+|+... .
T Consensus        91 ~~~~~~~~-~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~~~~~~L~~~le-~~~~~~~~Il~~~~~~~  167 (337)
T PRK12402         91 FAHFLGTD-KR-IRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALREDAQQALRRIME-QYSRTCRFIIATRQPSK  167 (337)
T ss_pred             hhhhhhhh-hh-hccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCHHHHHHHHHHHH-hccCCCeEEEEeCChhh
Confidence              000000 00 011111222222211    1  13345899999975532  222322232 233456677766442 2


Q ss_pred             HHh-hccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHH
Q 043737          206 VCG-QMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGR  268 (371)
Q Consensus       206 ~~~-~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~  268 (371)
                      +.. ..+....+.+.+++.++...++...+.......   ..+.+..+++.++|.+..+.....
T Consensus       168 ~~~~L~sr~~~v~~~~~~~~~~~~~l~~~~~~~~~~~---~~~al~~l~~~~~gdlr~l~~~l~  228 (337)
T PRK12402        168 LIPPIRSRCLPLFFRAPTDDELVDVLESIAEAEGVDY---DDDGLELIAYYAGGDLRKAILTLQ  228 (337)
T ss_pred             CchhhcCCceEEEecCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHHHHHHH
Confidence            221 123345789999999999999998775444222   245688999999998766554443

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.17  E-value=1.1e-09  Score=105.76  Aligned_cols=180  Identities=15%  Similarity=0.146  Sum_probs=109.7

Q ss_pred             CccccchhHHHHHHHHHhcCC-ceEEEEEcCCCCcHHHHHHHHHhhccCCC------------------CCCCeEEEEEe
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQ-MGIVGLYGMGEVGKTTLLTQINKKFLHTP------------------NDFDFVIWVVA  122 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~~------------------~~f~~~~wv~~  122 (371)
                      ..+||.+...+.|.+++..++ ...+.++|+.|+||||+|+.+++.+....                  +.+..++.++.
T Consensus        15 ddVIGQe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C~sC~~I~~g~hpDviEIDA   94 (702)
T PRK14960         15 NELVGQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVCATCKAVNEGRFIDLIEIDA   94 (702)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccCHHHHHHhcCCCCceEEecc
Confidence            568999999999999998765 46779999999999999999998872100                  01111222222


Q ss_pred             CCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCcc--cccccccccCCCCCCCcEEEEe
Q 043737          123 SKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELV--DLSQVGLPVPCRTSASNKTVFT  200 (371)
Q Consensus       123 ~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~--~~~~~~~~l~~~~~~~~~iliT  200 (371)
                      +....+.++ +.++.....                  .-..++.-++|||+++...  ..+.+...+. ....++.+|++
T Consensus        95 As~~~VddI-Reli~~~~y------------------~P~~gk~KV~IIDEVh~LS~~A~NALLKtLE-EPP~~v~FILa  154 (702)
T PRK14960         95 ASRTKVEDT-RELLDNVPY------------------APTQGRFKVYLIDEVHMLSTHSFNALLKTLE-EPPEHVKFLFA  154 (702)
T ss_pred             cccCCHHHH-HHHHHHHhh------------------hhhcCCcEEEEEechHhcCHHHHHHHHHHHh-cCCCCcEEEEE
Confidence            111111111 111111100                  0012455699999998653  3344444443 33345666666


Q ss_pred             cCch-HHH-hhccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHH
Q 043737          201 AREL-EVC-GQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALI  264 (371)
Q Consensus       201 sR~~-~~~-~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~  264 (371)
                      |.+. .+. ...+....+++.+++.++..+.+...+.......   ..+.+..|++.++|.+..+.
T Consensus       155 Ttd~~kIp~TIlSRCq~feFkpLs~eEI~k~L~~Il~kEgI~i---d~eAL~~IA~~S~GdLRdAL  217 (702)
T PRK14960        155 TTDPQKLPITVISRCLQFTLRPLAVDEITKHLGAILEKEQIAA---DQDAIWQIAESAQGSLRDAL  217 (702)
T ss_pred             ECChHhhhHHHHHhhheeeccCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHHH
Confidence            5543 222 2234557899999999999999998876544222   24458889999999775433

>PF14516 AAA_35: AAA-like domain

Probab=99.14  E-value=1.6e-08  Score=92.61  Aligned_cols=272  Identities=13%  Similarity=0.098  Sum_probs=148.9

Q ss_pred             CCCccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCc-----CCHHHHHH-
Q 043737           60 LPPTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKD-----LQLEQIQG-  133 (371)
Q Consensus        60 ~~~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~-----~~~~~~~~-  133 (371)
                      ..+.+|+|....+++.+.+.+ ....+.|.|+..+|||+|...+.+...   ..-..++++++...     .+...+++ 
T Consensus         9 ~~~~Yi~R~~~e~~~~~~i~~-~G~~~~I~apRq~GKTSll~~l~~~l~---~~~~~~v~id~~~~~~~~~~~~~~f~~~   84 (331)
T PF14516_consen    9 DSPFYIERPPAEQECYQEIVQ-PGSYIRIKAPRQMGKTSLLLRLLERLQ---QQGYRCVYIDLQQLGSAIFSDLEQFLRW   84 (331)
T ss_pred             CCCcccCchHHHHHHHHHHhc-CCCEEEEECcccCCHHHHHHHHHHHHH---HCCCEEEEEEeecCCCcccCCHHHHHHH
Confidence            346678999677788887754 246999999999999999999999883   22335667776542     24554444 


Q ss_pred             ---HHHHHhccCCCC---C--CcCCHHHHHHHHHHHh---CCCceEEEEeCCCCccccc----ccccccC-C----C-C-
Q 043737          134 ---SIAKKINLFNES---W--NSRSLQEKSQDIVKNM---SNKKFVLLLDHIWELVDLS----QVGLPVP-C----R-T-  191 (371)
Q Consensus       134 ---~l~~~l~~~~~~---~--~~~~~~~~~~~l~~~l---~~~~~LlVlDdv~~~~~~~----~~~~~l~-~----~-~-  191 (371)
                         .+..+++....-   +  ...........+.+.+   .+++.+|+||+++......    .+...+. |    . . 
T Consensus        85 ~~~~i~~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~~~~~~~dF~~~LR~~~~~~~~~~  164 (331)
T PF14516_consen   85 FCEEISRQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDRLFEYPQIADDFFGLLRSWYEQRKNNP  164 (331)
T ss_pred             HHHHHHHHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhhhccCcchHHHHHHHHHHHHHhcccCc
Confidence               444455443210   0  1112223333343332   2589999999998654321    1111111 0    0 0 


Q ss_pred             -CCCcEEE-EecCchHHHhh-----ccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHH
Q 043737          192 -SASNKTV-FTARELEVCGQ-----MEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALI  264 (371)
Q Consensus       192 -~~~~~il-iTsR~~~~~~~-----~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~  264 (371)
                       -..-+++ +.+........     ...+..+.|++++.+|...|+......    ..   .+..++|...+||||..+.
T Consensus       165 ~~~~L~li~~~~t~~~~~~~~~~SPFNIg~~i~L~~Ft~~ev~~L~~~~~~~----~~---~~~~~~l~~~tgGhP~Lv~  237 (331)
T PF14516_consen  165 IWQKLRLILAGSTEDYIILDINQSPFNIGQPIELPDFTPEEVQELAQRYGLE----FS---QEQLEQLMDWTGGHPYLVQ  237 (331)
T ss_pred             ccceEEEEEecCcccccccCCCCCCcccccceeCCCCCHHHHHHHHHhhhcc----CC---HHHHHHHHHHHCCCHHHHH
Confidence             0111222 22211111100     123457899999999999999876422    11   2238999999999999999


Q ss_pred             HHHHHHcCCCChhHHHHHHHHHhcccccCCCChhHHHHHHhhccCCC--CCcchhHHhchhccCCCCCccCHHHHHHHHH
Q 043737          265 TVGRAMASKKTPREWEHAIEVLRSSAYKFSGMESRVFSRLKISYDFL--PGDETRFYLLYCSSYPEDYKIFVEDLIDCWI  342 (371)
Q Consensus       265 ~~a~~l~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~l~~s~~~L--~~~~~~~~l~~la~fp~~~~i~~~~li~~w~  342 (371)
                      .++..+....  ...+..++.-....   ......+...    ...|  .+ +.+..+...-.-+....++......+ .
T Consensus       238 ~~~~~l~~~~--~~~~~l~~~a~~~~---~~~~~hL~~l----~~~L~~~~-~L~~~~~~il~~~~~~~~~~~~~~~L-~  306 (331)
T PF14516_consen  238 KACYLLVEEQ--ITLEQLLEEAITDN---GIYNDHLDRL----LDRLQQNP-ELLEAYQQILFSGEPVDLDSDDIYKL-E  306 (331)
T ss_pred             HHHHHHHHcc--CcHHHHHHHHHHhc---ccHHHHHHHH----HHHHccCH-HHHHHHHHHHhCCCCcccChHHHHHH-H
Confidence            9999997632  11222222111111   1111112222    2223  22 45555554433344455665555544 3


Q ss_pred             HcCCcccCCCh
Q 043737          343 CEGFLDEYDGF  353 (371)
Q Consensus       343 a~g~~~~~~~~  353 (371)
                      .-|+|...++.
T Consensus       307 ~~GLV~~~~~~  317 (331)
T PF14516_consen  307 SLGLVKRDGNQ  317 (331)
T ss_pred             HCCeEEEeCCE
Confidence            55888777554

>PRK04195 replication factor C large subunit; Provisional

Probab=99.14  E-value=3e-09  Score=102.68  Aligned_cols=247  Identities=18%  Similarity=0.190  Sum_probs=138.5

Q ss_pred             CCccccchhHHHHHHHHHhc---C-CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHH
Q 043737           61 PPTVVGLQSTFDRVWRCLME---E-QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIA  136 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~---~-~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~  136 (371)
                      -..++|+++.+++|.+|+..   + ..+.+.|+|++|+||||+|..+++.+   .  ++ ++-++.+...+.. ....++
T Consensus        13 l~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el---~--~~-~ielnasd~r~~~-~i~~~i   85 (482)
T PRK04195         13 LSDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDY---G--WE-VIELNASDQRTAD-VIERVA   85 (482)
T ss_pred             HHHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHc---C--CC-EEEEcccccccHH-HHHHHH
Confidence            35689999999999999864   1 26789999999999999999999987   2  22 2333444332222 233333


Q ss_pred             HHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc------ccccccccCCCCCCCcEEEEecCch-HHH--
Q 043737          137 KKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD------LSQVGLPVPCRTSASNKTVFTAREL-EVC--  207 (371)
Q Consensus       137 ~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~------~~~~~~~l~~~~~~~~~iliTsR~~-~~~--  207 (371)
                      ........                ....++-+||||+++....      ...+...+.   ..++.+|+|+.+. ...  
T Consensus        86 ~~~~~~~s----------------l~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~---~~~~~iIli~n~~~~~~~k  146 (482)
T PRK04195         86 GEAATSGS----------------LFGARRKLILLDEVDGIHGNEDRGGARAILELIK---KAKQPIILTANDPYDPSLR  146 (482)
T ss_pred             HHhhccCc----------------ccCCCCeEEEEecCcccccccchhHHHHHHHHHH---cCCCCEEEeccCccccchh
Confidence            22211100                0113567999999986532      222322222   2234455555332 111  


Q ss_pred             hhccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHHHHcCCCChhHHHHHHHHHh
Q 043737          208 GQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLR  287 (371)
Q Consensus       208 ~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~~l~~~~~~~~~~~~l~~l~  287 (371)
                      ........+.+.+++.++....+...+.......+   .+.+..|++.++|....+......+......-+-..+- .+.
T Consensus       147 ~Lrsr~~~I~f~~~~~~~i~~~L~~i~~~egi~i~---~eaL~~Ia~~s~GDlR~ain~Lq~~a~~~~~it~~~v~-~~~  222 (482)
T PRK04195        147 ELRNACLMIEFKRLSTRSIVPVLKRICRKEGIECD---DEALKEIAERSGGDLRSAINDLQAIAEGYGKLTLEDVK-TLG  222 (482)
T ss_pred             hHhccceEEEecCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCCHHHHHHHHHHHhcCCCCCcHHHHH-Hhh
Confidence            11234567899999999999999888755443332   45689999999997765554444443322111111111 111


Q ss_pred             cccccCCCChhHHHHHHhhccCCCCCcchhHHhchhccCCCCCccCHHHHHHHHHHcCCcccC
Q 043737          288 SSAYKFSGMESRVFSRLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDEY  350 (371)
Q Consensus       288 ~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~~l~~la~fp~~~~i~~~~li~~w~a~g~~~~~  350 (371)
                      .     ......++.++...+..-........+..       ..++.+ .+..|+.+.+....
T Consensus       223 ~-----~d~~~~if~~l~~i~~~k~~~~a~~~~~~-------~~~~~~-~i~~~l~en~~~~~  272 (482)
T PRK04195        223 R-----RDREESIFDALDAVFKARNADQALEASYD-------VDEDPD-DLIEWIDENIPKEY  272 (482)
T ss_pred             c-----CCCCCCHHHHHHHHHCCCCHHHHHHHHHc-------ccCCHH-HHHHHHHhcccccc
Confidence            1     11223567777766653333123322221       223333 46679998887654

>COG3903 Predicted ATPase [General function prediction only]

Probab=99.14  E-value=1e-10  Score=105.63  Aligned_cols=270  Identities=17%  Similarity=0.154  Sum_probs=178.2

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHH
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVK  160 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~  160 (371)
                      ...+.+.++|+|||||||++.++.. ..  ..+-+.+.++.+..-.+...+...+...++.+..     +-+.....+..
T Consensus        12 ~~~RlvtL~g~ggvgkttl~~~~a~-~~--~~~~~~v~~vdl~pitD~~~v~~~~ag~~gl~~~-----~g~~~~~~~~~   83 (414)
T COG3903          12 TALRLVTLTGAGGVGKTTLALQAAH-AA--SEYADGVAFVDLAPITDPALVFPTLAGALGLHVQ-----PGDSAVDTLVR   83 (414)
T ss_pred             hhhheeeeeccCccceehhhhhhHh-Hh--hhcccceeeeeccccCchhHhHHHHHhhcccccc-----cchHHHHHHHH
Confidence            3468999999999999999999988 41  3344567778888888888888888888887542     22334456666


Q ss_pred             HhCCCceEEEEeCCCCcccc-cccccccCCCCCCCcEEEEecCchHHHhhccCCCceeecCCChH-HHHHHHHHHhCCC-
Q 043737          161 NMSNKKFVLLLDHIWELVDL-SQVGLPVPCRTSASNKTVFTARELEVCGQMEAHKSFKVERLGYE-DAWKLFEEKVGKE-  237 (371)
Q Consensus       161 ~l~~~~~LlVlDdv~~~~~~-~~~~~~l~~~~~~~~~iliTsR~~~~~~~~~~~~~~~l~~L~~~-ea~~ll~~~~~~~-  237 (371)
                      .+.+++.++|+||.....+- ......+. .....-.++.|+|.....   .+.....+++|+.. ++.++|...+... 
T Consensus        84 ~~~~rr~llvldncehl~~~~a~~i~all-~~~~~~~~~atsre~~l~---~ge~~~~~~~L~~~d~a~~lf~~ra~~~~  159 (414)
T COG3903          84 RIGDRRALLVLDNCEHLLDACAALIVALL-GACPRLAILATSREAILV---AGEVHRRVPSLSLFDEAIELFVCRAVLVA  159 (414)
T ss_pred             HHhhhhHHHHhcCcHHHHHHHHHHHHHHH-ccchhhhhHHHhHhhhcc---cccccccCCccccCCchhHHHHHHHHHhc
Confidence            77789999999998654321 11111111 233455688888875432   34556777888765 7888876665322 


Q ss_pred             -CCCCCCCHHHHHHHHHHHcCCCcHHHHHHHHHHcCCCC---hhHHHHHHHHHhcccccCCCChhHHHHHHhhccCCCCC
Q 043737          238 -ILDSHPDIPELAETVAKECGGLPLALITVGRAMASKKT---PREWEHAIEVLRSSAYKFSGMESRVFSRLKISYDFLPG  313 (371)
Q Consensus       238 -~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~~l~~~~~---~~~~~~~l~~l~~~~~~~~~~~~~~~~~l~~s~~~L~~  313 (371)
                       .+...........+|.+..+|.|++|..+++..+.-..   .+.+.+....+..........+......+..||.-|..
T Consensus       160 ~~f~l~~~~~a~v~~icr~ldg~~laielaaarv~sl~~~~i~~~L~drf~ll~~~~r~a~~~~qtl~asl~ws~~lLtg  239 (414)
T COG3903         160 LSFWLTDDNAAAVAEICRRLDGIPLAIELAAARVRSLSPDEIAAGLRDRFRLLTGGARLAVLRQQTLRASLDWSYALLTG  239 (414)
T ss_pred             cceeecCCchHHHHHHHHHhhcchHHHHHHHHHHHhcCHHHHHHHHhhHHHHHhcccccchhHHHhccchhhhhhHhhhh
Confidence             22233444566899999999999999999998876321   22333334444444322233345688889999999999


Q ss_pred             cchhHHhchhccCCCCCccCHHHHHHHHHHcCCcccCC-ChHHHHHHHHHhCcCC
Q 043737          314 DETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDEYD-GFEHEIKDTLLFVSFF  367 (371)
Q Consensus       314 ~~~~~~l~~la~fp~~~~i~~~~li~~w~a~g~~~~~~-~~~~~~l~~L~~~sll  367 (371)
                       ..+..+..++.|...|...    ...|.+.|-..... -.+..-+-.|++.|+.
T Consensus       240 -we~~~~~rLa~~~g~f~~~----l~~~~a~g~~~~~~~y~~~~a~~ll~~kslv  289 (414)
T COG3903         240 -WERALFGRLAVFVGGFDLG----LALAVAAGADVDVPRYLVLLALTLLVDKSLV  289 (414)
T ss_pred             -HHHHHhcchhhhhhhhccc----HHHHHhcCCccccchHHHHHHHHHHhhccch
Confidence             8899999999999877766    33455544332111 1144555666666654

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

Probab=99.13  E-value=1.2e-08  Score=94.06  Aligned_cols=204  Identities=15%  Similarity=0.168  Sum_probs=133.3

Q ss_pred             CCCCccccchhHHHHHHHHHhc----CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHH
Q 043737           59 PLPPTVVGLQSTFDRVWRCLME----EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGS  134 (371)
Q Consensus        59 ~~~~~~vGR~~~~~~l~~~L~~----~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  134 (371)
                      -.|+.+.+|+.+++++...|..    +.+..+.|+|++|+|||+.++.+++++....... .++++++....+..+++..
T Consensus        14 ~iP~~l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~-~~~yINc~~~~t~~~i~~~   92 (366)
T COG1474          14 YIPEELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANV-EVVYINCLELRTPYQVLSK   92 (366)
T ss_pred             CCcccccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccC-ceEEEeeeeCCCHHHHHHH
Confidence            3456699999999999988764    3445599999999999999999999983222222 2899999999999999999


Q ss_pred             HHHHhccCCCCCCcCCHHHHHHHHHHHhC--CCceEEEEeCCCCccccc--ccccccCCCCCCCcEEE--EecCchHH--
Q 043737          135 IAKKINLFNESWNSRSLQEKSQDIVKNMS--NKKFVLLLDHIWELVDLS--QVGLPVPCRTSASNKTV--FTARELEV--  206 (371)
Q Consensus       135 l~~~l~~~~~~~~~~~~~~~~~~l~~~l~--~~~~LlVlDdv~~~~~~~--~~~~~l~~~~~~~~~il--iTsR~~~~--  206 (371)
                      |+.+++..  +.......+....+.+.+.  ++.+++|||+++....-.  .+...+.+.....++|.  ..+-+..+  
T Consensus        93 i~~~~~~~--p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~~~~~~v~vi~i~n~~~~~~  170 (366)
T COG1474          93 ILNKLGKV--PLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGEVLYSLLRAPGENKVKVSIIAVSNDDKFLD  170 (366)
T ss_pred             HHHHcCCC--CCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccchHHHHHHhhccccceeEEEEEEeccHHHHH
Confidence            99999722  2245666677777777775  478899999998653332  22222221122234333  33333322  


Q ss_pred             ------HhhccCCCceeecCCChHHHHHHHHHHhCCCC--CCCCCCHHHHHHHHHHHcCC-CcHHHHHH
Q 043737          207 ------CGQMEAHKSFKVERLGYEDAWKLFEEKVGKEI--LDSHPDIPELAETVAKECGG-LPLALITV  266 (371)
Q Consensus       207 ------~~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~--~~~~~~~~~~~~~i~~~~~g-~Plal~~~  266 (371)
                            ...++ ...+..+|-+.+|-.+.+..++...-  ...+++.-+++..++...+| --.||.++
T Consensus       171 ~ld~rv~s~l~-~~~I~F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidil  238 (366)
T COG1474         171 YLDPRVKSSLG-PSEIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDIL  238 (366)
T ss_pred             HhhhhhhhccC-cceeeeCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHH
Confidence                  12222 23478999999999999998874221  12334455555555566665 34455444

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=99.12  E-value=3.7e-09  Score=96.93  Aligned_cols=183  Identities=15%  Similarity=0.129  Sum_probs=108.2

Q ss_pred             CccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCC-eEEEEEeCCcCCHHHHHHHHHHHhc
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFD-FVIWVVASKDLQLEQIQGSIAKKIN  140 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~-~~~wv~~~~~~~~~~~~~~l~~~l~  140 (371)
                      ..++|+++.++.+..++.....+.+.|+|++|+|||++++.+++...  ...+. ..+-++.+.......+...+ ..+.
T Consensus        17 ~~~~g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l~--~~~~~~~~i~~~~~~~~~~~~~~~~i-~~~~   93 (319)
T PRK00440         17 DEIVGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELY--GEDWRENFLELNASDERGIDVIRNKI-KEFA   93 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHc--CCccccceEEeccccccchHHHHHHH-HHHH
Confidence            55899999999999999776666789999999999999999999872  11221 11222222221211111111 1111


Q ss_pred             cCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc--ccccccccCCCCCCCcEEEEecCc-hHHHh-hccCCCce
Q 043737          141 LFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD--LSQVGLPVPCRTSASNKTVFTARE-LEVCG-QMEAHKSF  216 (371)
Q Consensus       141 ~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~~~iliTsR~-~~~~~-~~~~~~~~  216 (371)
                      ...+                .....+-++++|+++....  ...+...+. .....+.+|+++.. ..+.. .......+
T Consensus        94 ~~~~----------------~~~~~~~vviiDe~~~l~~~~~~~L~~~le-~~~~~~~lIl~~~~~~~l~~~l~sr~~~~  156 (319)
T PRK00440         94 RTAP----------------VGGAPFKIIFLDEADNLTSDAQQALRRTME-MYSQNTRFILSCNYSSKIIDPIQSRCAVF  156 (319)
T ss_pred             hcCC----------------CCCCCceEEEEeCcccCCHHHHHHHHHHHh-cCCCCCeEEEEeCCccccchhHHHHhhee
Confidence            0000                0012345999999975532  223333333 23344566665533 22211 11234568


Q ss_pred             eecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHH
Q 043737          217 KVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVG  267 (371)
Q Consensus       217 ~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a  267 (371)
                      ++.+++.++...++...+...+...   .++.+..+++.++|.+.-+....
T Consensus       157 ~~~~l~~~ei~~~l~~~~~~~~~~i---~~~al~~l~~~~~gd~r~~~~~l  204 (319)
T PRK00440        157 RFSPLKKEAVAERLRYIAENEGIEI---TDDALEAIYYVSEGDMRKAINAL  204 (319)
T ss_pred             eeCCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHHHHHH
Confidence            9999999999999998876544322   24568899999999887644433

>PRK08727 hypothetical protein; Validated

Probab=99.12  E-value=1.3e-09  Score=94.86  Aligned_cols=172  Identities=10%  Similarity=0.061  Sum_probs=101.1

Q ss_pred             Cccccch-hHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhc
Q 043737           62 PTVVGLQ-STFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKIN  140 (371)
Q Consensus        62 ~~~vGR~-~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~  140 (371)
                      ++|++.. ..+..+...........+.|+|++|+|||+|+..+++...   .....+.|++...      ....+..   
T Consensus        19 ~~f~~~~~n~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~a~~~~~~---~~~~~~~y~~~~~------~~~~~~~---   86 (233)
T PRK08727         19 DSYIAAPDGLLAQLQALAAGQSSDWLYLSGPAGTGKTHLALALCAAAE---QAGRSSAYLPLQA------AAGRLRD---   86 (233)
T ss_pred             hhccCCcHHHHHHHHHHHhccCCCeEEEECCCCCCHHHHHHHHHHHHH---HcCCcEEEEeHHH------hhhhHHH---
Confidence            4465544 3444444433333445799999999999999999988872   2223556665432      1111111   


Q ss_pred             cCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCcc---ccc-ccccccCCCCCCCcEEEEecCchH---------HH
Q 043737          141 LFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELV---DLS-QVGLPVPCRTSASNKTVFTARELE---------VC  207 (371)
Q Consensus       141 ~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~---~~~-~~~~~l~~~~~~~~~iliTsR~~~---------~~  207 (371)
                                       ..+.+ .+.-+|||||++...   .+. .+...+......+..+|+||+...         +.
T Consensus        87 -----------------~~~~l-~~~dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~~~~dL~  148 (233)
T PRK08727         87 -----------------ALEAL-EGRSLVALDGLESIAGQREDEVALFDFHNRARAAGITLLYTARQMPDGLALVLPDLR  148 (233)
T ss_pred             -----------------HHHHH-hcCCEEEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECCCChhhhhhhhHHHH
Confidence                             11111 122499999997442   121 122222212234567999988632         23


Q ss_pred             hhccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHH
Q 043737          208 GQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITV  266 (371)
Q Consensus       208 ~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~  266 (371)
                      +.+.....+++++++.++-.+++.+.+.......+   ++....|++.++|....+..+
T Consensus       149 SRl~~~~~~~l~~~~~e~~~~iL~~~a~~~~l~l~---~e~~~~La~~~~rd~r~~l~~  204 (233)
T PRK08727        149 SRLAQCIRIGLPVLDDVARAAVLRERAQRRGLALD---EAAIDWLLTHGERELAGLVAL  204 (233)
T ss_pred             HHHhcCceEEecCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHhCCCCHHHHHHH
Confidence            33344668899999999999999987654332232   455888888888766555433

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.12  E-value=2.6e-09  Score=106.35  Aligned_cols=181  Identities=15%  Similarity=0.172  Sum_probs=110.9

Q ss_pred             CccccchhHHHHHHHHHhcCCce-EEEEEcCCCCcHHHHHHHHHhhccCCCCC-------------------CCeEEEEE
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQMG-IVGLYGMGEVGKTTLLTQINKKFLHTPND-------------------FDFVIWVV  121 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~~-~v~I~G~~GiGKTtLa~~~~~~~~~~~~~-------------------f~~~~wv~  121 (371)
                      ..+||.+..++.|.+++..++.. .+.++|+.|+||||+|+.+++.+.. ...                   |..+++++
T Consensus        16 ddIIGQe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLARiLAk~Lnc-e~~~~~~pCg~C~sC~~i~~g~~~DviEid   94 (944)
T PRK14949         16 EQMVGQSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARLFAKGLNC-EQGVTATPCGVCSSCVEIAQGRFVDLIEVD   94 (944)
T ss_pred             HHhcCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHhccC-ccCCCCCCCCCchHHHHHhcCCCceEEEec
Confidence            56899999999999999876654 5689999999999999999998731 111                   11112221


Q ss_pred             eCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCc--ccccccccccCCCCCCCcEEEE
Q 043737          122 ASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWEL--VDLSQVGLPVPCRTSASNKTVF  199 (371)
Q Consensus       122 ~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~~~~~l~~~~~~~~~ili  199 (371)
                      ......+.. .+.+...+..                  .-..++.-++|||+++..  ...+.+...+. ....++++|+
T Consensus        95 Aas~~kVDd-IReLie~v~~------------------~P~~gk~KViIIDEAh~LT~eAqNALLKtLE-EPP~~vrFIL  154 (944)
T PRK14949         95 AASRTKVDD-TRELLDNVQY------------------RPSRGRFKVYLIDEVHMLSRSSFNALLKTLE-EPPEHVKFLL  154 (944)
T ss_pred             cccccCHHH-HHHHHHHHHh------------------hhhcCCcEEEEEechHhcCHHHHHHHHHHHh-ccCCCeEEEE
Confidence            111111111 1222221110                  011356679999999865  33444444444 3344555555


Q ss_pred             ec-CchHHH-hhccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHH
Q 043737          200 TA-RELEVC-GQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITV  266 (371)
Q Consensus       200 Ts-R~~~~~-~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~  266 (371)
                      +| ....+. ...+....+.+.+|+.++...++.+.+......   ...+.+..|++.++|.|.-+..+
T Consensus       155 aTTe~~kLl~TIlSRCq~f~fkpLs~eEI~~~L~~il~~EgI~---~edeAL~lIA~~S~Gd~R~ALnL  220 (944)
T PRK14949        155 ATTDPQKLPVTVLSRCLQFNLKSLTQDEIGTQLNHILTQEQLP---FEAEALTLLAKAANGSMRDALSL  220 (944)
T ss_pred             ECCCchhchHHHHHhheEEeCCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHHH
Confidence            44 444333 223445789999999999999998877543322   22456889999999988644433

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.10  E-value=7e-09  Score=96.40  Aligned_cols=179  Identities=16%  Similarity=0.154  Sum_probs=107.5

Q ss_pred             CccccchhHHHHHHHHHhcCCc-eEEEEEcCCCCcHHHHHHHHHhhccCCCCC-------------------CCeEEEEE
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQM-GIVGLYGMGEVGKTTLLTQINKKFLHTPND-------------------FDFVIWVV  121 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~-------------------f~~~~wv~  121 (371)
                      ..++|.+..++.+.+.+..++. ..+.++|+.|+||||+|+.+++.+. ....                   +..+.++.
T Consensus        16 ~~iiGq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~la~~l~-c~~~~~~~pc~~c~~c~~~~~~~~~d~~~~~   94 (363)
T PRK14961         16 RDIIGQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSLN-CQNGITSNPCRKCIICKEIEKGLCLDLIEID   94 (363)
T ss_pred             hhccChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHHHHHHHhc-CCCCCCCCCCCCCHHHHHHhcCCCCceEEec
Confidence            6689999999999999877554 5678999999999999999998872 1110                   01111111


Q ss_pred             eCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc--ccccccccCCCCCCCcEEEE
Q 043737          122 ASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD--LSQVGLPVPCRTSASNKTVF  199 (371)
Q Consensus       122 ~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~~~ili  199 (371)
                      ........+ .+++...+....                  ..+++-++|+|+++....  ++.+...+. ....++.+|+
T Consensus        95 ~~~~~~v~~-ir~i~~~~~~~p------------------~~~~~kviIIDEa~~l~~~a~naLLk~lE-e~~~~~~fIl  154 (363)
T PRK14961         95 AASRTKVEE-MREILDNIYYSP------------------SKSRFKVYLIDEVHMLSRHSFNALLKTLE-EPPQHIKFIL  154 (363)
T ss_pred             ccccCCHHH-HHHHHHHHhcCc------------------ccCCceEEEEEChhhcCHHHHHHHHHHHh-cCCCCeEEEE
Confidence            111111111 112222111000                  123455999999986643  334433443 3344556666


Q ss_pred             ecCc-hHHHhh-ccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHH
Q 043737          200 TARE-LEVCGQ-MEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALI  264 (371)
Q Consensus       200 TsR~-~~~~~~-~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~  264 (371)
                      +|.+ ..+... .+....+++.+++.++..+.+...+.......   .++.+..|++.++|.|..+.
T Consensus       155 ~t~~~~~l~~tI~SRc~~~~~~~l~~~el~~~L~~~~~~~g~~i---~~~al~~ia~~s~G~~R~al  218 (363)
T PRK14961        155 ATTDVEKIPKTILSRCLQFKLKIISEEKIFNFLKYILIKESIDT---DEYALKLIAYHAHGSMRDAL  218 (363)
T ss_pred             EcCChHhhhHHHHhhceEEeCCCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHHH
Confidence            5544 333222 23456789999999999999988765433222   23557889999999886433

>PTZ00202 tuzin; Provisional

Probab=99.09  E-value=2.3e-08  Score=91.82  Aligned_cols=193  Identities=16%  Similarity=0.137  Sum_probs=114.3

Q ss_pred             chHHHHHHHHHHHHHhhhccCCCCcccCCCCCCccccCCCCCccccchhHHHHHHHHHhc---CCceEEEEEcCCCCcHH
Q 043737           21 YKIGRKVFKTLQQVQGLTNEGDFKEVPQPVPENLVDERPLPPTVVGLQSTFDRVWRCLME---EQMGIVGLYGMGEVGKT   97 (371)
Q Consensus        21 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vGR~~~~~~l~~~L~~---~~~~~v~I~G~~GiGKT   97 (371)
                      |+-..+=-++...++.+.+..+.      .+......|+.++.|+||+.++.+|...|.+   +..+++.|+|++|+|||
T Consensus       227 y~rqQR~~Ql~~Av~tL~~~~~~------~~~~~~~lPa~~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKT  300 (550)
T PTZ00202        227 YRTQQRSYQLKVAVSTLTQPLNP------RPSTLQSAPAVIRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKS  300 (550)
T ss_pred             HHHHHhHHHHHHHHHHhhcccCC------CcccccCCCCCccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHH
Confidence            44444444555666666654321      1122223345568999999999999999864   23569999999999999


Q ss_pred             HHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHh-----C-CCceEEEE
Q 043737           98 TLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNM-----S-NKKFVLLL  171 (371)
Q Consensus        98 tLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l-----~-~~~~LlVl  171 (371)
                      ||++.+....   .  + ..++++..   +..+++..++.+|+...    .....++...+.+.+     . +++.+||+
T Consensus       301 TLlR~~~~~l---~--~-~qL~vNpr---g~eElLr~LL~ALGV~p----~~~k~dLLrqIqeaLl~~~~e~GrtPVLII  367 (550)
T PTZ00202        301 SLCRSAVRKE---G--M-PAVFVDVR---GTEDTLRSVVKALGVPN----VEACGDLLDFISEACRRAKKMNGETPLLVL  367 (550)
T ss_pred             HHHHHHHhcC---C--c-eEEEECCC---CHHHHHHHHHHHcCCCC----cccHHHHHHHHHHHHHHHHHhCCCCEEEEE
Confidence            9999999776   1  1 13333333   67999999999999732    222234444444333     2 55666665


Q ss_pred             eCCCCccccccc---ccccCCCCCCCcEEEEecCchHHHhh---ccCCCceeecCCChHHHHHHHHHHh
Q 043737          172 DHIWELVDLSQV---GLPVPCRTSASNKTVFTARELEVCGQ---MEAHKSFKVERLGYEDAWKLFEEKV  234 (371)
Q Consensus       172 Ddv~~~~~~~~~---~~~l~~~~~~~~~iliTsR~~~~~~~---~~~~~~~~l~~L~~~ea~~ll~~~~  234 (371)
                      -== +..++..+   ...+. ....-|.|++----+.+...   +..-..|.+++++.++|..+-+...
T Consensus       368 ~lr-eg~~l~rvyne~v~la-~drr~ch~v~evpleslt~~~~~lprldf~~vp~fsr~qaf~y~~h~~  434 (550)
T PTZ00202        368 KLR-EGSSLQRVYNEVVALA-CDRRLCHVVIEVPLESLTIANTLLPRLDFYLVPNFSRSQAFAYTQHAI  434 (550)
T ss_pred             Eec-CCCcHHHHHHHHHHHH-ccchhheeeeeehHhhcchhcccCccceeEecCCCCHHHHHHHHhhcc
Confidence            422 22222211   01111 33345666653332222111   1223457899999999999887765

>PRK08084 DNA replication initiation factor; Provisional

Probab=99.09  E-value=1.8e-09  Score=94.09  Aligned_cols=176  Identities=13%  Similarity=0.118  Sum_probs=105.2

Q ss_pred             Cccc-cch-hHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHh
Q 043737           62 PTVV-GLQ-STFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKI  139 (371)
Q Consensus        62 ~~~v-GR~-~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l  139 (371)
                      ++|+ |.. ..+..+.++......+.+.|+|++|+|||+|+..+++...   .....+.++++.....   ...      
T Consensus        22 d~f~~~~n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~---~~~~~v~y~~~~~~~~---~~~------   89 (235)
T PRK08084         22 ASFYPGDNDSLLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELS---QRGRAVGYVPLDKRAW---FVP------   89 (235)
T ss_pred             cccccCccHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHH---hCCCeEEEEEHHHHhh---hhH------
Confidence            3444 633 3444444444344557899999999999999999998872   2234566776643110   000      


Q ss_pred             ccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCc---ccccc-cccccCCC-CCCCcEEEEecCch---------H
Q 043737          140 NLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWEL---VDLSQ-VGLPVPCR-TSASNKTVFTAREL---------E  205 (371)
Q Consensus       140 ~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~---~~~~~-~~~~l~~~-~~~~~~iliTsR~~---------~  205 (371)
                                   +    +.+.+.+ --+|+|||++..   ..++. +...+... ...+.++|+||+..         .
T Consensus        90 -------------~----~~~~~~~-~dlliiDdi~~~~~~~~~~~~lf~l~n~~~e~g~~~li~ts~~~p~~l~~~~~~  151 (235)
T PRK08084         90 -------------E----VLEGMEQ-LSLVCIDNIECIAGDELWEMAIFDLYNRILESGRTRLLITGDRPPRQLNLGLPD  151 (235)
T ss_pred             -------------H----HHHHhhh-CCEEEEeChhhhcCCHHHHHHHHHHHHHHHHcCCCeEEEeCCCChHHcCcccHH
Confidence                         1    1111111 138999999753   22222 21222211 12234788988764         2


Q ss_pred             HHhhccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHHHH
Q 043737          206 VCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAM  270 (371)
Q Consensus       206 ~~~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~~l  270 (371)
                      +.+.+..+.++++.+++.++-.+++++.+.......   .++.+..|++.+.|....+..+...+
T Consensus       152 L~SRl~~g~~~~l~~~~~~~~~~~l~~~a~~~~~~l---~~~v~~~L~~~~~~d~r~l~~~l~~l  213 (235)
T PRK08084        152 LASRLDWGQIYKLQPLSDEEKLQALQLRARLRGFEL---PEDVGRFLLKRLDREMRTLFMTLDQL  213 (235)
T ss_pred             HHHHHhCCceeeecCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHhhcCCHHHHHHHHHHH
Confidence            334455667899999999999999988664433233   34568899999988776666555544

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.07  E-value=1.3e-08  Score=97.89  Aligned_cols=193  Identities=15%  Similarity=0.108  Sum_probs=109.5

Q ss_pred             CccccchhHHHHHHHHHhcCCc-eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhc
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQM-GIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKIN  140 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~  140 (371)
                      ..++|.+...+.|..++..+.. ..+.++|++|+||||+|+.+++.+. ..+.+...+|.+.+.. .+....+.-+..+.
T Consensus        14 ~dvvGq~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~lA~~l~-c~~~~~~~cg~C~sc~-~i~~~~h~dv~el~   91 (504)
T PRK14963         14 DEVVGQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAVN-CSGEDPKPCGECESCL-AVRRGAHPDVLEID   91 (504)
T ss_pred             HHhcChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHh-ccCCCCCCCCcChhhH-HHhcCCCCceEEec
Confidence            5689999999999999877654 4569999999999999999998872 1111222222221100 00000000000000


Q ss_pred             cCCCCCCcCCHHHHHHHHHHHh-----CCCceEEEEeCCCCcc--cccccccccCCCCCCCcEEEEec-CchHHHh-hcc
Q 043737          141 LFNESWNSRSLQEKSQDIVKNM-----SNKKFVLLLDHIWELV--DLSQVGLPVPCRTSASNKTVFTA-RELEVCG-QME  211 (371)
Q Consensus       141 ~~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~~--~~~~~~~~l~~~~~~~~~iliTs-R~~~~~~-~~~  211 (371)
                        ..  .....++ ++.+.+.+     .+++-++|||+++...  .++.+...+. ....++.+|+++ ....+.. ..+
T Consensus        92 --~~--~~~~vd~-iR~l~~~~~~~p~~~~~kVVIIDEad~ls~~a~naLLk~LE-ep~~~t~~Il~t~~~~kl~~~I~S  165 (504)
T PRK14963         92 --AA--SNNSVED-VRDLREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLE-EPPEHVIFILATTEPEKMPPTILS  165 (504)
T ss_pred             --cc--ccCCHHH-HHHHHHHHhhccccCCCeEEEEECccccCHHHHHHHHHHHH-hCCCCEEEEEEcCChhhCChHHhc
Confidence              00  0111111 11222221     2455699999998553  2444444444 333344544444 3333322 223


Q ss_pred             CCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHH
Q 043737          212 AHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALIT  265 (371)
Q Consensus       212 ~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~  265 (371)
                      ....+++.+++.++..+++...+...+...   ..+.+..|++.++|.+.-+..
T Consensus       166 Rc~~~~f~~ls~~el~~~L~~i~~~egi~i---~~~Al~~ia~~s~GdlR~aln  216 (504)
T PRK14963        166 RTQHFRFRRLTEEEIAGKLRRLLEAEGREA---EPEALQLVARLADGAMRDAES  216 (504)
T ss_pred             ceEEEEecCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHHHH
Confidence            456899999999999999999875544222   245689999999999865543

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.05  E-value=7.7e-09  Score=99.63  Aligned_cols=183  Identities=18%  Similarity=0.149  Sum_probs=111.0

Q ss_pred             CccccchhHHHHHHHHHhcCCc-eEEEEEcCCCCcHHHHHHHHHhhccCCCC------------------CCCeEEEEEe
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQM-GIVGLYGMGEVGKTTLLTQINKKFLHTPN------------------DFDFVIWVVA  122 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~~~~------------------~f~~~~wv~~  122 (371)
                      ..++|.+..++.|..++..++. ..+.++|+.|+||||+|+.+++.+.....                  .|..+++++.
T Consensus        16 ~diiGq~~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~~~~dlieida   95 (546)
T PRK14957         16 AEVAGQQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNNSFIDLIEIDA   95 (546)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcCCCCceEEeec
Confidence            5689999999999999977554 45789999999999999999987621000                  1122223322


Q ss_pred             CCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHH-hCCCceEEEEeCCCCccc--ccccccccCCCCCCCcEEE-
Q 043737          123 SKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKN-MSNKKFVLLLDHIWELVD--LSQVGLPVPCRTSASNKTV-  198 (371)
Q Consensus       123 ~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~-l~~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~~~il-  198 (371)
                      .....+++ .+.+...                   +... ..+++-++|+|+++....  .+.+...+. ....++.+| 
T Consensus        96 as~~gvd~-ir~ii~~-------------------~~~~p~~g~~kViIIDEa~~ls~~a~naLLK~LE-epp~~v~fIL  154 (546)
T PRK14957         96 ASRTGVEE-TKEILDN-------------------IQYMPSQGRYKVYLIDEVHMLSKQSFNALLKTLE-EPPEYVKFIL  154 (546)
T ss_pred             ccccCHHH-HHHHHHH-------------------HHhhhhcCCcEEEEEechhhccHHHHHHHHHHHh-cCCCCceEEE
Confidence            22112111 1112211                   1111 124566999999986533  444444444 333455444 


Q ss_pred             EecCchHHH-hhccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcH-HHHHHHH
Q 043737          199 FTARELEVC-GQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPL-ALITVGR  268 (371)
Q Consensus       199 iTsR~~~~~-~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl-al~~~a~  268 (371)
                      +||....+. ...+....+++.+++.++....+.+.+...+...   ..+.+..|++.++|.+. ++..+-.
T Consensus       155 ~Ttd~~kil~tI~SRc~~~~f~~Ls~~eI~~~L~~il~~egi~~---e~~Al~~Ia~~s~GdlR~alnlLek  223 (546)
T PRK14957        155 ATTDYHKIPVTILSRCIQLHLKHISQADIKDQLKIILAKENINS---DEQSLEYIAYHAKGSLRDALSLLDQ  223 (546)
T ss_pred             EECChhhhhhhHHHheeeEEeCCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            455444343 2234567899999999999999888765433222   24557889999999764 5555433

>PRK09087 hypothetical protein; Validated

Probab=99.02  E-value=4.5e-09  Score=90.79  Aligned_cols=147  Identities=14%  Similarity=0.072  Sum_probs=94.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKN  161 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~  161 (371)
                      ..+.+.|+|++|+|||+|++.++...   .     ..+++..      .+...+...+.                     
T Consensus        43 ~~~~l~l~G~~GsGKThLl~~~~~~~---~-----~~~i~~~------~~~~~~~~~~~---------------------   87 (226)
T PRK09087         43 PSPVVVLAGPVGSGKTHLASIWREKS---D-----ALLIHPN------EIGSDAANAAA---------------------   87 (226)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHhc---C-----CEEecHH------HcchHHHHhhh---------------------
Confidence            35679999999999999999888764   1     1233221      22222222111                     


Q ss_pred             hCCCceEEEEeCCCCcc-cccccccccCCCCCCCcEEEEecCc---------hHHHhhccCCCceeecCCChHHHHHHHH
Q 043737          162 MSNKKFVLLLDHIWELV-DLSQVGLPVPCRTSASNKTVFTARE---------LEVCGQMEAHKSFKVERLGYEDAWKLFE  231 (371)
Q Consensus       162 l~~~~~LlVlDdv~~~~-~~~~~~~~l~~~~~~~~~iliTsR~---------~~~~~~~~~~~~~~l~~L~~~ea~~ll~  231 (371)
                        +  -+|++||++... +-+.+...+......|..+|+|++.         +.+.+.+.....+++++++.++-.+++.
T Consensus        88 --~--~~l~iDDi~~~~~~~~~lf~l~n~~~~~g~~ilits~~~p~~~~~~~~dL~SRl~~gl~~~l~~pd~e~~~~iL~  163 (226)
T PRK09087         88 --E--GPVLIEDIDAGGFDETGLFHLINSVRQAGTSLLMTSRLWPSSWNVKLPDLKSRLKAATVVEIGEPDDALLSQVIF  163 (226)
T ss_pred             --c--CeEEEECCCCCCCCHHHHHHHHHHHHhCCCeEEEECCCChHHhccccccHHHHHhCCceeecCCCCHHHHHHHHH
Confidence              1  288899997542 1122322332233446789998874         2334445667889999999999999999


Q ss_pred             HHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHHHH
Q 043737          232 EKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAM  270 (371)
Q Consensus       232 ~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~~l  270 (371)
                      +.+.......+   ++....|++.+.|....+..+...|
T Consensus       164 ~~~~~~~~~l~---~ev~~~La~~~~r~~~~l~~~l~~L  199 (226)
T PRK09087        164 KLFADRQLYVD---PHVVYYLVSRMERSLFAAQTIVDRL  199 (226)
T ss_pred             HHHHHcCCCCC---HHHHHHHHHHhhhhHHHHHHHHHHH
Confidence            98865443333   4568899999988887777554444

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.02  E-value=1.4e-08  Score=99.04  Aligned_cols=196  Identities=14%  Similarity=0.154  Sum_probs=110.1

Q ss_pred             CccccchhHHHHHHHHHhcCCc-eEEEEEcCCCCcHHHHHHHHHhhccCCC-CCCCeEEEEEeCCcCCHHHHHHHHHHHh
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQM-GIVGLYGMGEVGKTTLLTQINKKFLHTP-NDFDFVIWVVASKDLQLEQIQGSIAKKI  139 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~~~-~~f~~~~wv~~~~~~~~~~~~~~l~~~l  139 (371)
                      +.+||-+..+..|.+++..++. ..+.++|+.|+||||+|+.+++.+.... ....+...-.++.    -.....+...-
T Consensus        16 ~dviGQe~vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~~pCg~----C~~C~~i~~g~   91 (618)
T PRK14951         16 SEMVGQEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITATPCGV----CQACRDIDSGR   91 (618)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCCCCCCc----cHHHHHHHcCC
Confidence            5689999999999999987655 5678999999999999999988762110 0000100001111    11111111100


Q ss_pred             ccC---CCCCCcCCHHHHHHHHHHHh-----CCCceEEEEeCCCCcc--cccccccccCCCCCCCcEEEE-ecCchHHH-
Q 043737          140 NLF---NESWNSRSLQEKSQDIVKNM-----SNKKFVLLLDHIWELV--DLSQVGLPVPCRTSASNKTVF-TARELEVC-  207 (371)
Q Consensus       140 ~~~---~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~~--~~~~~~~~l~~~~~~~~~ili-TsR~~~~~-  207 (371)
                      ...   .........++. +.+.+..     .++.-++|||+++...  ..+.+...+. ....++.+|+ |+....+. 
T Consensus        92 h~D~~eldaas~~~Vd~i-Reli~~~~~~p~~g~~KV~IIDEvh~Ls~~a~NaLLKtLE-EPP~~~~fIL~Ttd~~kil~  169 (618)
T PRK14951         92 FVDYTELDAASNRGVDEV-QQLLEQAVYKPVQGRFKVFMIDEVHMLTNTAFNAMLKTLE-EPPEYLKFVLATTDPQKVPV  169 (618)
T ss_pred             CCceeecCcccccCHHHH-HHHHHHHHhCcccCCceEEEEEChhhCCHHHHHHHHHhcc-cCCCCeEEEEEECCchhhhH
Confidence            000   000001111121 1111211     2344599999998653  3444444444 3334555554 44433332 


Q ss_pred             hhccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHH
Q 043737          208 GQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITV  266 (371)
Q Consensus       208 ~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~  266 (371)
                      ...+....+++.+++.++..+.+...+...+...+   .+.+..|++.++|.+.-+..+
T Consensus       170 TIlSRc~~~~f~~Ls~eei~~~L~~i~~~egi~ie---~~AL~~La~~s~GslR~al~l  225 (618)
T PRK14951        170 TVLSRCLQFNLRPMAPETVLEHLTQVLAAENVPAE---PQALRLLARAARGSMRDALSL  225 (618)
T ss_pred             HHHHhceeeecCCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCCHHHHHHH
Confidence            23345678999999999999999988765443222   345788999999977544433

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.02  E-value=1.3e-08  Score=97.92  Aligned_cols=182  Identities=14%  Similarity=0.140  Sum_probs=111.0

Q ss_pred             CccccchhHHHHHHHHHhcCCc-eEEEEEcCCCCcHHHHHHHHHhhccCCC------------------CCCCeEEEEEe
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQM-GIVGLYGMGEVGKTTLLTQINKKFLHTP------------------NDFDFVIWVVA  122 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~~~------------------~~f~~~~wv~~  122 (371)
                      ..+||-+..++.|.+++.++.. ..+.++|+.|+||||+|+.+++.+....                  +.+..++.++.
T Consensus        16 ~divGq~~v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~g~~~d~~eida   95 (509)
T PRK14958         16 QEVIGQAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCREIDEGRFPDLFEVDA   95 (509)
T ss_pred             HHhcCCHHHHHHHHHHHHhCCCCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHHhcCCCceEEEEcc
Confidence            5689999999999999977655 4578999999999999999998872110                  11222333333


Q ss_pred             CCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCcc--cccccccccCCCCCCCcEEEE-
Q 043737          123 SKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELV--DLSQVGLPVPCRTSASNKTVF-  199 (371)
Q Consensus       123 ~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~--~~~~~~~~l~~~~~~~~~ili-  199 (371)
                      .....++++ ++++..+....                  ..++.-++|||+++...  ..+.+...+. ....++.+|+ 
T Consensus        96 as~~~v~~i-R~l~~~~~~~p------------------~~~~~kV~iIDE~~~ls~~a~naLLk~LE-epp~~~~fIla  155 (509)
T PRK14958         96 ASRTKVEDT-RELLDNIPYAP------------------TKGRFKVYLIDEVHMLSGHSFNALLKTLE-EPPSHVKFILA  155 (509)
T ss_pred             cccCCHHHH-HHHHHHHhhcc------------------ccCCcEEEEEEChHhcCHHHHHHHHHHHh-ccCCCeEEEEE
Confidence            222223222 22333222110                  12455599999998653  3344444444 3334565555 


Q ss_pred             ecCchHHH-hhccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHH
Q 043737          200 TARELEVC-GQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITV  266 (371)
Q Consensus       200 TsR~~~~~-~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~  266 (371)
                      ||....+. ...+....+++.+++.++....+...+...+...+   .+.+..|++.++|.+.-+...
T Consensus       156 ttd~~kl~~tI~SRc~~~~f~~l~~~~i~~~l~~il~~egi~~~---~~al~~ia~~s~GslR~al~l  220 (509)
T PRK14958        156 TTDHHKLPVTVLSRCLQFHLAQLPPLQIAAHCQHLLKEENVEFE---NAALDLLARAANGSVRDALSL  220 (509)
T ss_pred             ECChHhchHHHHHHhhhhhcCCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCcHHHHHHH
Confidence            44433332 22234567899999999999888877755442222   345788999999988644433

>PLN03025 replication factor C subunit; Provisional

Probab=99.02  E-value=4.2e-09  Score=96.30  Aligned_cols=181  Identities=15%  Similarity=0.140  Sum_probs=108.1

Q ss_pred             CccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCC-eEEEEEeCCcCCHHHHHHHHHHHhc
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFD-FVIWVVASKDLQLEQIQGSIAKKIN  140 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~-~~~wv~~~~~~~~~~~~~~l~~~l~  140 (371)
                      ..++|.++.++.|..++..+..+.+.++|++|+||||+|..+++.+.  ...+. .++-++.+...+.. ..+.+...+.
T Consensus        13 ~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l~--~~~~~~~~~eln~sd~~~~~-~vr~~i~~~~   89 (319)
T PLN03025         13 DDIVGNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELL--GPNYKEAVLELNASDDRGID-VVRNKIKMFA   89 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHh--cccCccceeeecccccccHH-HHHHHHHHHH
Confidence            56899999999998888777667788999999999999999998872  12222 22222222222222 2222222111


Q ss_pred             cCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc--ccccccccCCCCCCCcEEEEecCc-hHHHh-hccCCCce
Q 043737          141 LFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD--LSQVGLPVPCRTSASNKTVFTARE-LEVCG-QMEAHKSF  216 (371)
Q Consensus       141 ~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~~~iliTsR~-~~~~~-~~~~~~~~  216 (371)
                      .....               ...++.-+++||+++....  ...+...+. .....+++++++.. ..+.. ..+....+
T Consensus        90 ~~~~~---------------~~~~~~kviiiDE~d~lt~~aq~aL~~~lE-~~~~~t~~il~~n~~~~i~~~L~SRc~~i  153 (319)
T PLN03025         90 QKKVT---------------LPPGRHKIVILDEADSMTSGAQQALRRTME-IYSNTTRFALACNTSSKIIEPIQSRCAIV  153 (319)
T ss_pred             hcccc---------------CCCCCeEEEEEechhhcCHHHHHHHHHHHh-cccCCceEEEEeCCccccchhHHHhhhcc
Confidence            10000               0013456999999986533  222222222 22345566665543 22211 12234678


Q ss_pred             eecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHH
Q 043737          217 KVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALI  264 (371)
Q Consensus       217 ~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~  264 (371)
                      ++.+++.++....+...+...+...+   .+.+..|++.++|....+.
T Consensus       154 ~f~~l~~~~l~~~L~~i~~~egi~i~---~~~l~~i~~~~~gDlR~al  198 (319)
T PLN03025        154 RFSRLSDQEILGRLMKVVEAEKVPYV---PEGLEAIIFTADGDMRQAL  198 (319)
T ss_pred             cCCCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCCHHHHH
Confidence            99999999999999988765443333   3458899999999765443

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.01  E-value=1.8e-08  Score=96.00  Aligned_cols=187  Identities=18%  Similarity=0.139  Sum_probs=109.7

Q ss_pred             CCccccchhHHHHHHHHHhcCCc-eEEEEEcCCCCcHHHHHHHHHhhccCCCC------------------CCCeEEEEE
Q 043737           61 PPTVVGLQSTFDRVWRCLMEEQM-GIVGLYGMGEVGKTTLLTQINKKFLHTPN------------------DFDFVIWVV  121 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~~~~------------------~f~~~~wv~  121 (371)
                      -+.+||.+...+.|...+.++.. ..+.++|++|+||||+|+.+++.+.....                  .+..+..++
T Consensus        13 ~~divGq~~i~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~g~~~dv~el~   92 (472)
T PRK14962         13 FSEVVGQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDEGTFMDVIELD   92 (472)
T ss_pred             HHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhcCCCCccEEEe
Confidence            36689999998888888877655 46899999999999999999888621100                  011122222


Q ss_pred             eCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCcc--cccccccccCCCCCCCcEEEE
Q 043737          122 ASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELV--DLSQVGLPVPCRTSASNKTVF  199 (371)
Q Consensus       122 ~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~--~~~~~~~~l~~~~~~~~~ili  199 (371)
                      .+...+...+ +.+.......                  -..+++-++|+|+++...  ..+.+...+. .....+.+++
T Consensus        93 aa~~~gid~i-R~i~~~~~~~------------------p~~~~~kVvIIDE~h~Lt~~a~~~LLk~LE-~p~~~vv~Il  152 (472)
T PRK14962         93 AASNRGIDEI-RKIRDAVGYR------------------PMEGKYKVYIIDEVHMLTKEAFNALLKTLE-EPPSHVVFVL  152 (472)
T ss_pred             CcccCCHHHH-HHHHHHHhhC------------------hhcCCeEEEEEEChHHhHHHHHHHHHHHHH-hCCCcEEEEE
Confidence            2222222211 1222211100                  012455699999997542  2333433333 2223444444


Q ss_pred             -ecCchHHHh-hccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCC-cHHHHHHHHHH
Q 043737          200 -TARELEVCG-QMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGL-PLALITVGRAM  270 (371)
Q Consensus       200 -TsR~~~~~~-~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~-Plal~~~a~~l  270 (371)
                       |+....+.. ..+....+.+.+++.++....+...+.......   ..+.+..|++.++|. +.++..+-...
T Consensus       153 attn~~kl~~~L~SR~~vv~f~~l~~~el~~~L~~i~~~egi~i---~~eal~~Ia~~s~GdlR~aln~Le~l~  223 (472)
T PRK14962        153 ATTNLEKVPPTIISRCQVIEFRNISDELIIKRLQEVAEAEGIEI---DREALSFIAKRASGGLRDALTMLEQVW  223 (472)
T ss_pred             EeCChHhhhHHHhcCcEEEEECCccHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence             443333322 224456889999999999999988875433222   245578888878654 67777765543

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.00  E-value=6.4e-09  Score=100.42  Aligned_cols=193  Identities=16%  Similarity=0.144  Sum_probs=109.7

Q ss_pred             CccccchhHHHHHHHHHhcCCc-eEEEEEcCCCCcHHHHHHHHHhhccCCCCC-CCeEEEEEeCCcCCHHHHHHHHHHH-
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQM-GIVGLYGMGEVGKTTLLTQINKKFLHTPND-FDFVIWVVASKDLQLEQIQGSIAKK-  138 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~-f~~~~wv~~~~~~~~~~~~~~l~~~-  138 (371)
                      ..+||.+..++.|.+++.+++. ..+.++|+.|+||||+|+.+++.+...... -.....-.++.    -.....|... 
T Consensus        16 ddVIGQe~vv~~L~~al~~gRLpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~~PCG~----C~sC~~I~aG~   91 (700)
T PRK12323         16 TTLVGQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQPCGQ----CRACTEIDAGR   91 (700)
T ss_pred             HHHcCcHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCCCCCcc----cHHHHHHHcCC
Confidence            5689999999999999987654 467899999999999999999887311000 00000000000    0111111100 


Q ss_pred             ----hccCCCCCCcCCHHHHHHHHHHH----hCCCceEEEEeCCCCcc--cccccccccCCCCCCCcEEEE-ecCchHHH
Q 043737          139 ----INLFNESWNSRSLQEKSQDIVKN----MSNKKFVLLLDHIWELV--DLSQVGLPVPCRTSASNKTVF-TARELEVC  207 (371)
Q Consensus       139 ----l~~~~~~~~~~~~~~~~~~l~~~----l~~~~~LlVlDdv~~~~--~~~~~~~~l~~~~~~~~~ili-TsR~~~~~  207 (371)
                          +.+...  .....++....+...    ..++.-++|||+++...  ..+.+...+. ....++.+|+ ||....+.
T Consensus        92 hpDviEIdAa--s~~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls~~AaNALLKTLE-EPP~~v~FILaTtep~kLl  168 (700)
T PRK12323         92 FVDYIEMDAA--SNRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLE-EPPEHVKFILATTDPQKIP  168 (700)
T ss_pred             CCcceEeccc--ccCCHHHHHHHHHHHHhchhcCCceEEEEEChHhcCHHHHHHHHHhhc-cCCCCceEEEEeCChHhhh
Confidence                000000  111122222111111    13455699999998653  3444444444 3344555554 55544443


Q ss_pred             h-hccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHH
Q 043737          208 G-QMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALI  264 (371)
Q Consensus       208 ~-~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~  264 (371)
                      . ..+....+.+..++.++..+.+.+.+.......   ..+.++.|++.++|.|.-..
T Consensus       169 pTIrSRCq~f~f~~ls~eei~~~L~~Il~~Egi~~---d~eAL~~IA~~A~Gs~RdAL  223 (700)
T PRK12323        169 VTVLSRCLQFNLKQMPPGHIVSHLDAILGEEGIAH---EVNALRLLAQAAQGSMRDAL  223 (700)
T ss_pred             hHHHHHHHhcccCCCChHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHHH
Confidence            2 234457899999999999999988775443222   23456889999999986433

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=99.00  E-value=4.5e-10  Score=88.75  Aligned_cols=117  Identities=17%  Similarity=0.215  Sum_probs=80.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCC--CCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHT--PNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIV  159 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~--~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~  159 (371)
                      +.+.+.|+|++|+|||+++.++++.....  ......++|+.+....+...+...++..++.....  ..+..+....+.
T Consensus         3 ~~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~--~~~~~~l~~~~~   80 (131)
T PF13401_consen    3 SQRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKS--RQTSDELRSLLI   80 (131)
T ss_dssp             ----EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSS--TS-HHHHHHHHH
T ss_pred             CCcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccc--cCCHHHHHHHHH
Confidence            35689999999999999999999986210  00145678999988889999999999999876542  456777778888


Q ss_pred             HHhCCCc-eEEEEeCCCCc-c--cccccccccCCCCCCCcEEEEecCc
Q 043737          160 KNMSNKK-FVLLLDHIWEL-V--DLSQVGLPVPCRTSASNKTVFTARE  203 (371)
Q Consensus       160 ~~l~~~~-~LlVlDdv~~~-~--~~~~~~~~l~~~~~~~~~iliTsR~  203 (371)
                      +.+...+ .+||+|+++.. .  .++.+.. +  ....+.++++..+.
T Consensus        81 ~~l~~~~~~~lviDe~~~l~~~~~l~~l~~-l--~~~~~~~vvl~G~~  125 (131)
T PF13401_consen   81 DALDRRRVVLLVIDEADHLFSDEFLEFLRS-L--LNESNIKVVLVGTP  125 (131)
T ss_dssp             HHHHHCTEEEEEEETTHHHHTHHHHHHHHH-H--TCSCBEEEEEEESS
T ss_pred             HHHHhcCCeEEEEeChHhcCCHHHHHHHHH-H--HhCCCCeEEEEECh
Confidence            8887655 49999999765 2  1222222 1  23677788887765

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=99.00  E-value=1.2e-08  Score=99.63  Aligned_cols=191  Identities=14%  Similarity=0.156  Sum_probs=108.2

Q ss_pred             CccccchhHHHHHHHHHhcCCc-eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHH--
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQM-GIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKK--  138 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~--  138 (371)
                      ..++|.+..++.|..++..++. ..+.++|+.|+||||+|+.+++.+. ......   +..+...    .....+...  
T Consensus        16 ddIIGQe~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriLAk~Ln-C~~~~~---~~pCg~C----~sCr~i~~g~~   87 (709)
T PRK08691         16 ADLVGQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSLN-CENAQH---GEPCGVC----QSCTQIDAGRY   87 (709)
T ss_pred             HHHcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhc-ccCCCC---CCCCccc----HHHHHHhccCc
Confidence            5689999999999999987653 5789999999999999999988762 111100   0000000    000110000  


Q ss_pred             ---hccCCCCCCcCCHHHHHHHHHHH-----hCCCceEEEEeCCCCccc--ccccccccCCCCCCCcEEEEecCc-hHHH
Q 043737          139 ---INLFNESWNSRSLQEKSQDIVKN-----MSNKKFVLLLDHIWELVD--LSQVGLPVPCRTSASNKTVFTARE-LEVC  207 (371)
Q Consensus       139 ---l~~~~~~~~~~~~~~~~~~l~~~-----l~~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~~~iliTsR~-~~~~  207 (371)
                         +.+...  .....+.. +.+...     ..+++-++|||+++....  .+.+...+. ....++.+|++|.+ ..+.
T Consensus        88 ~DvlEidaA--s~~gVd~I-Relle~a~~~P~~gk~KVIIIDEad~Ls~~A~NALLKtLE-EPp~~v~fILaTtd~~kL~  163 (709)
T PRK08691         88 VDLLEIDAA--SNTGIDNI-REVLENAQYAPTAGKYKVYIIDEVHMLSKSAFNAMLKTLE-EPPEHVKFILATTDPHKVP  163 (709)
T ss_pred             cceEEEecc--ccCCHHHH-HHHHHHHHhhhhhCCcEEEEEECccccCHHHHHHHHHHHH-hCCCCcEEEEEeCCccccc
Confidence               000000  11111111 111111     124556999999986533  333333333 23345566665543 2222


Q ss_pred             -hhccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHH
Q 043737          208 -GQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVG  267 (371)
Q Consensus       208 -~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a  267 (371)
                       ...+....+.+.+++.++....+.+.+...+...   ..+.+..|++.++|.+.-+..+.
T Consensus       164 ~TIrSRC~~f~f~~Ls~eeI~~~L~~Il~kEgi~i---d~eAL~~Ia~~A~GslRdAlnLL  221 (709)
T PRK08691        164 VTVLSRCLQFVLRNMTAQQVADHLAHVLDSEKIAY---EPPALQLLGRAAAGSMRDALSLL  221 (709)
T ss_pred             hHHHHHHhhhhcCCCCHHHHHHHHHHHHHHcCCCc---CHHHHHHHHHHhCCCHHHHHHHH
Confidence             1123345678899999999999998876554322   23458899999999885444433

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

Probab=99.00  E-value=1.3e-08  Score=101.63  Aligned_cols=175  Identities=18%  Similarity=0.236  Sum_probs=101.5

Q ss_pred             CCccccchhHHH---HHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHH
Q 043737           61 PPTVVGLQSTFD---RVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAK  137 (371)
Q Consensus        61 ~~~~vGR~~~~~---~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~  137 (371)
                      -+.|+|.+..+.   .+...+..+..+.+.|+|++|+||||||+.+++..   ...|.   .++... ....+       
T Consensus        27 ldd~vGQe~ii~~~~~L~~~i~~~~~~slLL~GPpGtGKTTLA~aIA~~~---~~~f~---~lna~~-~~i~d-------   92 (725)
T PRK13341         27 LEEFVGQDHILGEGRLLRRAIKADRVGSLILYGPPGVGKTTLARIIANHT---RAHFS---SLNAVL-AGVKD-------   92 (725)
T ss_pred             HHHhcCcHHHhhhhHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHh---cCcce---eehhhh-hhhHH-------
Confidence            356899998874   56666766777788999999999999999999876   33331   111110 01111       


Q ss_pred             HhccCCCCCCcCCHHHHHHHHHHHh--CCCceEEEEeCCCCccc--ccccccccCCCCCCCcEEEE--ecCchH--HH-h
Q 043737          138 KINLFNESWNSRSLQEKSQDIVKNM--SNKKFVLLLDHIWELVD--LSQVGLPVPCRTSASNKTVF--TARELE--VC-G  208 (371)
Q Consensus       138 ~l~~~~~~~~~~~~~~~~~~l~~~l--~~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~~~ili--TsR~~~--~~-~  208 (371)
                                   ..+........+  .+++.+|+|||++....  .+.+...    ...+..++|  ||.+..  +. .
T Consensus        93 -------------ir~~i~~a~~~l~~~~~~~IL~IDEIh~Ln~~qQdaLL~~----lE~g~IiLI~aTTenp~~~l~~a  155 (725)
T PRK13341         93 -------------LRAEVDRAKERLERHGKRTILFIDEVHRFNKAQQDALLPW----VENGTITLIGATTENPYFEVNKA  155 (725)
T ss_pred             -------------HHHHHHHHHHHhhhcCCceEEEEeChhhCCHHHHHHHHHH----hcCceEEEEEecCCChHhhhhhH
Confidence                         111111121111  24567999999975432  2223222    223445555  333321  11 1


Q ss_pred             hccCCCceeecCCChHHHHHHHHHHhCCCC----CCCCCCHHHHHHHHHHHcCCCcHHHHHH
Q 043737          209 QMEAHKSFKVERLGYEDAWKLFEEKVGKEI----LDSHPDIPELAETVAKECGGLPLALITV  266 (371)
Q Consensus       209 ~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~----~~~~~~~~~~~~~i~~~~~g~Plal~~~  266 (371)
                      ..+....+.+++++.++...++.+.+....    .....-.++....|++.+.|....+.-+
T Consensus       156 L~SR~~v~~l~pLs~edi~~IL~~~l~~~~~~~g~~~v~I~deaL~~La~~s~GD~R~lln~  217 (725)
T PRK13341        156 LVSRSRLFRLKSLSDEDLHQLLKRALQDKERGYGDRKVDLEPEAEKHLVDVANGDARSLLNA  217 (725)
T ss_pred             hhccccceecCCCCHHHHHHHHHHHHHHHHhhcCCcccCCCHHHHHHHHHhCCCCHHHHHHH
Confidence            122346789999999999999988764100    0011223456888999999976544433

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

Probab=98.97  E-value=7e-09  Score=89.28  Aligned_cols=166  Identities=14%  Similarity=0.158  Sum_probs=101.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHh
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNM  162 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l  162 (371)
                      ...+.|+|+.|+|||.|.+.+++...+ ...-..+++++      ..++...+...+..       ..    ...++..+
T Consensus        34 ~~~l~l~G~~G~GKTHLL~Ai~~~~~~-~~~~~~v~y~~------~~~f~~~~~~~~~~-------~~----~~~~~~~~   95 (219)
T PF00308_consen   34 YNPLFLYGPSGLGKTHLLQAIANEAQK-QHPGKRVVYLS------AEEFIREFADALRD-------GE----IEEFKDRL   95 (219)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHHHH-HCTTS-EEEEE------HHHHHHHHHHHHHT-------TS----HHHHHHHH
T ss_pred             CCceEEECCCCCCHHHHHHHHHHHHHh-ccccccceeec------HHHHHHHHHHHHHc-------cc----chhhhhhh
Confidence            357899999999999999999998731 12223566764      44566666555532       11    22344444


Q ss_pred             CCCceEEEEeCCCCccc---c-cccccccCCCCCCCcEEEEecCch---------HHHhhccCCCceeecCCChHHHHHH
Q 043737          163 SNKKFVLLLDHIWELVD---L-SQVGLPVPCRTSASNKTVFTAREL---------EVCGQMEAHKSFKVERLGYEDAWKL  229 (371)
Q Consensus       163 ~~~~~LlVlDdv~~~~~---~-~~~~~~l~~~~~~~~~iliTsR~~---------~~~~~~~~~~~~~l~~L~~~ea~~l  229 (371)
                      .+-. +|+|||++....   + +.+...+......|.++|+|++..         .+.+.+..+-.+++.+.+.++-.++
T Consensus        96 ~~~D-lL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~l~~~~~~L~SRl~~Gl~~~l~~pd~~~r~~i  174 (219)
T PF00308_consen   96 RSAD-LLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDRPPSELSGLLPDLRSRLSWGLVVELQPPDDEDRRRI  174 (219)
T ss_dssp             CTSS-EEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-TTTTTTS-HHHHHHHHCSEEEEE----HHHHHHH
T ss_pred             hcCC-EEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCCCccccccChhhhhhHhhcchhhcCCCCHHHHHHH
Confidence            4333 999999975432   2 122222222234567899998653         2344455677899999999999999


Q ss_pred             HHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHHHH
Q 043737          230 FEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAM  270 (371)
Q Consensus       230 l~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~~l  270 (371)
                      +.+.+.......   .++.++.|++.+.+..-.|..+...|
T Consensus       175 l~~~a~~~~~~l---~~~v~~~l~~~~~~~~r~L~~~l~~l  212 (219)
T PF00308_consen  175 LQKKAKERGIEL---PEEVIEYLARRFRRDVRELEGALNRL  212 (219)
T ss_dssp             HHHHHHHTT--S----HHHHHHHHHHTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCC---cHHHHHHHHHhhcCCHHHHHHHHHHH
Confidence            999886554333   35568888888877777666555444

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.

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.97  E-value=1.5e-08  Score=95.29  Aligned_cols=195  Identities=14%  Similarity=0.099  Sum_probs=110.6

Q ss_pred             CCccccchhHHHHHHHHHhcCCc-eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHh
Q 043737           61 PPTVVGLQSTFDRVWRCLMEEQM-GIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKI  139 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l  139 (371)
                      -..++|.+..+..|..++..+.. ..+.++|+.|+||||+|+.+++.+. ......   ...+....+-..+.......+
T Consensus        17 f~dvVGQe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~Ln-ce~~~~---~~pCg~C~sC~~i~~g~~~dv   92 (484)
T PRK14956         17 FRDVIHQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRLN-CENPIG---NEPCNECTSCLEITKGISSDV   92 (484)
T ss_pred             HHHHhChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhcC-cccccC---ccccCCCcHHHHHHccCCccc
Confidence            35689999999999999987664 4689999999999999999999872 111111   011111111111111110000


Q ss_pred             c-cCCC-CCCcCCHHHHHHHHHHH-hCCCceEEEEeCCCCcc--cccccccccCCCCCCCcEEEE-ecCchHHH-hhccC
Q 043737          140 N-LFNE-SWNSRSLQEKSQDIVKN-MSNKKFVLLLDHIWELV--DLSQVGLPVPCRTSASNKTVF-TARELEVC-GQMEA  212 (371)
Q Consensus       140 ~-~~~~-~~~~~~~~~~~~~l~~~-l~~~~~LlVlDdv~~~~--~~~~~~~~l~~~~~~~~~ili-TsR~~~~~-~~~~~  212 (371)
                      . .... ........++...+... ..++.-++|||+++...  .++.+...+. ....++.+|+ ||....+. ...+.
T Consensus        93 iEIdaas~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLE-EPp~~viFILaTte~~kI~~TI~SR  171 (484)
T PRK14956         93 LEIDAASNRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLE-EPPAHIVFILATTEFHKIPETILSR  171 (484)
T ss_pred             eeechhhcccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhh-cCCCceEEEeecCChhhccHHHHhh
Confidence            0 0000 00011111122222111 13456699999998553  3444444443 3334444444 55444442 22344


Q ss_pred             CCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHH
Q 043737          213 HKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLAL  263 (371)
Q Consensus       213 ~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal  263 (371)
                      ...|.+.+++.++..+.+...+...+...   ..+.+..|++.++|.+.-.
T Consensus       172 Cq~~~f~~ls~~~i~~~L~~i~~~Egi~~---e~eAL~~Ia~~S~Gd~RdA  219 (484)
T PRK14956        172 CQDFIFKKVPLSVLQDYSEKLCKIENVQY---DQEGLFWIAKKGDGSVRDM  219 (484)
T ss_pred             hheeeecCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCChHHHH
Confidence            56799999999999999988875543222   2456899999999998533

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=98.96  E-value=6.5e-08  Score=89.36  Aligned_cols=196  Identities=11%  Similarity=0.063  Sum_probs=110.8

Q ss_pred             CCccccchhHHHHHHHHHhcCCc-eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEE---EEEeCCcCCHHHHHHHHH
Q 043737           61 PPTVVGLQSTFDRVWRCLMEEQM-GIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVI---WVVASKDLQLEQIQGSIA  136 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~---wv~~~~~~~~~~~~~~l~  136 (371)
                      ...++|.+...+.|.+.+..++. ..+.++|+.|+||+++|..+++.+......-....   -.++.. ...-...+.+.
T Consensus        18 ~~~iiGq~~~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~~l~~-~~~c~~c~~i~   96 (365)
T PRK07471         18 TTALFGHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPTSLAI-DPDHPVARRIA   96 (365)
T ss_pred             hhhccChHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccccccC-CCCChHHHHHH
Confidence            35689999999999999987664 46889999999999999999988731110000000   000000 00011222221


Q ss_pred             HHhcc----CCC---C-----CCcCCHHHHHHHHHHHhC-----CCceEEEEeCCCCcc--cccccccccCCCCCCCcEE
Q 043737          137 KKINL----FNE---S-----WNSRSLQEKSQDIVKNMS-----NKKFVLLLDHIWELV--DLSQVGLPVPCRTSASNKT  197 (371)
Q Consensus       137 ~~l~~----~~~---~-----~~~~~~~~~~~~l~~~l~-----~~~~LlVlDdv~~~~--~~~~~~~~l~~~~~~~~~i  197 (371)
                      ..-..    -.+   .     .....+++ ++.+.+.+.     +++.++|+|+++...  ....+...+. ....++.+
T Consensus        97 ~~~HPDl~~i~~~~~~~~~~~~~~I~Vdq-iR~l~~~~~~~~~~~~~kVviIDead~m~~~aanaLLK~LE-epp~~~~~  174 (365)
T PRK07471         97 AGAHGGLLTLERSWNEKGKRLRTVITVDE-VRELISFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLE-EPPARSLF  174 (365)
T ss_pred             ccCCCCeEEEecccccccccccccccHHH-HHHHHHHhCcCcccCCCEEEEEechHhcCHHHHHHHHHHHh-cCCCCeEE
Confidence            11100    000   0     01112222 334444432     456799999998553  2334444444 33345555


Q ss_pred             EEecCch-HHHh-hccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHH
Q 043737          198 VFTAREL-EVCG-QMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITV  266 (371)
Q Consensus       198 liTsR~~-~~~~-~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~  266 (371)
                      |++|.+. .+.. ..+....+.+.+++.++..+++.......     .  .+....+++.++|.|+....+
T Consensus       175 IL~t~~~~~llpti~SRc~~i~l~~l~~~~i~~~L~~~~~~~-----~--~~~~~~l~~~s~Gsp~~Al~l  238 (365)
T PRK07471        175 LLVSHAPARLLPTIRSRCRKLRLRPLAPEDVIDALAAAGPDL-----P--DDPRAALAALAEGSVGRALRL  238 (365)
T ss_pred             EEEECCchhchHHhhccceEEECCCCCHHHHHHHHHHhcccC-----C--HHHHHHHHHHcCCCHHHHHHH
Confidence            5555543 3322 23456789999999999999998864211     1  122367899999999855443

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=98.95  E-value=1.8e-08  Score=98.62  Aligned_cols=190  Identities=14%  Similarity=0.159  Sum_probs=110.2

Q ss_pred             CccccchhHHHHHHHHHhcCCc-eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHh-
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQM-GIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKI-  139 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l-  139 (371)
                      ..+||.+..++.|.+.+..++. ..+.++|+.|+||||+|+.+++.+... ....       ...+..-.....+...- 
T Consensus        16 ~divGQe~vv~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c~-~~~~-------~~pCg~C~~C~~i~~g~~   87 (647)
T PRK07994         16 AEVVGQEHVLTALANALDLGRLHHAYLFSGTRGVGKTTIARLLAKGLNCE-TGIT-------ATPCGECDNCREIEQGRF   87 (647)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhhhc-cCCC-------CCCCCCCHHHHHHHcCCC
Confidence            5689999999999999977654 456899999999999999999887211 1000       00001112222221100 


Q ss_pred             ----ccCCCCCCcCCHHHHHHHHHHH-----hCCCceEEEEeCCCCcc--cccccccccCCCCCCCcEEEE-ecCchHHH
Q 043737          140 ----NLFNESWNSRSLQEKSQDIVKN-----MSNKKFVLLLDHIWELV--DLSQVGLPVPCRTSASNKTVF-TARELEVC  207 (371)
Q Consensus       140 ----~~~~~~~~~~~~~~~~~~l~~~-----l~~~~~LlVlDdv~~~~--~~~~~~~~l~~~~~~~~~ili-TsR~~~~~  207 (371)
                          .+...  .....++. +.+.+.     ..++.-++|||+++...  ..+.+...+. ....++++|+ ||....+.
T Consensus        88 ~D~ieidaa--s~~~Vddi-R~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLE-EPp~~v~FIL~Tt~~~kLl  163 (647)
T PRK07994         88 VDLIEIDAA--SRTKVEDT-RELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLE-EPPEHVKFLLATTDPQKLP  163 (647)
T ss_pred             CCceeeccc--ccCCHHHH-HHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHH-cCCCCeEEEEecCCccccc
Confidence                00000  01112221 122221     23556699999998653  3444444444 3334555554 55444443


Q ss_pred             h-hccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHH
Q 043737          208 G-QMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITV  266 (371)
Q Consensus       208 ~-~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~  266 (371)
                      . ..+....+.+.+++.++....+...+.......   ..+....|++.++|.+.-...+
T Consensus       164 ~TI~SRC~~~~f~~Ls~~ei~~~L~~il~~e~i~~---e~~aL~~Ia~~s~Gs~R~Al~l  220 (647)
T PRK07994        164 VTILSRCLQFHLKALDVEQIRQQLEHILQAEQIPF---EPRALQLLARAADGSMRDALSL  220 (647)
T ss_pred             hHHHhhheEeeCCCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHHHHH
Confidence            2 234457899999999999999988774433222   2345788999999987644333

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=98.95  E-value=4.5e-08  Score=93.76  Aligned_cols=193  Identities=16%  Similarity=0.150  Sum_probs=108.7

Q ss_pred             CccccchhHHHHHHHHHhcCC-ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCC-eEEEEEeCCcCCHHHHHHHHHHHh
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQ-MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFD-FVIWVVASKDLQLEQIQGSIAKKI  139 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~-~~~wv~~~~~~~~~~~~~~l~~~l  139 (371)
                      ..++|.+..+..|...+.+++ ...+.++|+.|+||||+|+.+++.+... .... .-.+..+...    .....+....
T Consensus        21 ~dliGq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~-~~~~~~~~~~~C~~C----~~C~~i~~~~   95 (507)
T PRK06645         21 AELQGQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAVNCS-ALITENTTIKTCEQC----TNCISFNNHN   95 (507)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcCc-cccccCcCcCCCCCC----hHHHHHhcCC
Confidence            567999999999998887655 3688999999999999999999887211 1100 0000000000    0011110000


Q ss_pred             ccC---CCCCCcCCHHHHHHHHHHH----hCCCceEEEEeCCCCcc--cccccccccCCCCCCCcEEEE-ecCchHHHhh
Q 043737          140 NLF---NESWNSRSLQEKSQDIVKN----MSNKKFVLLLDHIWELV--DLSQVGLPVPCRTSASNKTVF-TARELEVCGQ  209 (371)
Q Consensus       140 ~~~---~~~~~~~~~~~~~~~l~~~----l~~~~~LlVlDdv~~~~--~~~~~~~~l~~~~~~~~~ili-TsR~~~~~~~  209 (371)
                      ...   .........++....+...    ..+++-++|+|+++...  .++.+...+. .....+.+|+ |++...+...
T Consensus        96 h~Dv~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~~a~naLLk~LE-epp~~~vfI~aTte~~kI~~t  174 (507)
T PRK06645         96 HPDIIEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLE-EPPPHIIFIFATTEVQKIPAT  174 (507)
T ss_pred             CCcEEEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCHHHHHHHHHHHh-hcCCCEEEEEEeCChHHhhHH
Confidence            000   0000111111111111111    12456699999998653  3444444444 3344555544 5555444332


Q ss_pred             -ccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHH
Q 043737          210 -MEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLAL  263 (371)
Q Consensus       210 -~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal  263 (371)
                       .+....+++.+++.++....+...+.......   ..+.+..|++.++|.+.-+
T Consensus       175 I~SRc~~~ef~~ls~~el~~~L~~i~~~egi~i---e~eAL~~Ia~~s~GslR~a  226 (507)
T PRK06645        175 IISRCQRYDLRRLSFEEIFKLLEYITKQENLKT---DIEALRIIAYKSEGSARDA  226 (507)
T ss_pred             HHhcceEEEccCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHH
Confidence             23456789999999999999998886544222   2345788999999987544

>PF13173 AAA_14: AAA domain

Probab=98.95  E-value=3.1e-09  Score=83.62  Aligned_cols=120  Identities=17%  Similarity=0.150  Sum_probs=79.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHh
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNM  162 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l  162 (371)
                      .+++.|.|+.|+|||||+++++++.   . ....++++++...........+                   ..+.+.+..
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~---~-~~~~~~yi~~~~~~~~~~~~~~-------------------~~~~~~~~~   58 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDL---L-PPENILYINFDDPRDRRLADPD-------------------LLEYFLELI   58 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHh---c-ccccceeeccCCHHHHHHhhhh-------------------hHHHHHHhh
Confidence            4689999999999999999999887   2 4456788877654321100000                   222333333


Q ss_pred             CCCceEEEEeCCCCcccccccccccCCCCCCCcEEEEecCchHHHhhc------cCCCceeecCCChHHH
Q 043737          163 SNKKFVLLLDHIWELVDLSQVGLPVPCRTSASNKTVFTARELEVCGQM------EAHKSFKVERLGYEDA  226 (371)
Q Consensus       163 ~~~~~LlVlDdv~~~~~~~~~~~~l~~~~~~~~~iliTsR~~~~~~~~------~~~~~~~l~~L~~~ea  226 (371)
                      ..++.+++||+++...+|......+. ......+|++|+.........      +....+++.||+..|-
T Consensus        59 ~~~~~~i~iDEiq~~~~~~~~lk~l~-d~~~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E~  127 (128)
T PF13173_consen   59 KPGKKYIFIDEIQYLPDWEDALKFLV-DNGPNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFREF  127 (128)
T ss_pred             ccCCcEEEEehhhhhccHHHHHHHHH-HhccCceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHHh
Confidence            34678999999998888776544444 333568999998876554221      1224579999998763

>PRK05642 DNA replication initiation factor; Validated

Probab=98.95  E-value=1.2e-08  Score=88.88  Aligned_cols=155  Identities=13%  Similarity=0.181  Sum_probs=95.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHh
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNM  162 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l  162 (371)
                      .+.+.|+|++|+|||.|++.+++...   .....++|++...      +....                    ..+.+.+
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~~~---~~~~~v~y~~~~~------~~~~~--------------------~~~~~~~   95 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLRFE---QRGEPAVYLPLAE------LLDRG--------------------PELLDNL   95 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHH---hCCCcEEEeeHHH------HHhhh--------------------HHHHHhh
Confidence            36789999999999999999988762   2224567776532      21110                    1122222


Q ss_pred             CCCceEEEEeCCCCc---ccccc-cccccCCCCCCCcEEEEecCchHH---------HhhccCCCceeecCCChHHHHHH
Q 043737          163 SNKKFVLLLDHIWEL---VDLSQ-VGLPVPCRTSASNKTVFTARELEV---------CGQMEAHKSFKVERLGYEDAWKL  229 (371)
Q Consensus       163 ~~~~~LlVlDdv~~~---~~~~~-~~~~l~~~~~~~~~iliTsR~~~~---------~~~~~~~~~~~l~~L~~~ea~~l  229 (371)
                      .+-. +||+||++..   ..++. +...+......|..+|+||+..+-         .+.+..+..+++.+++.++-.++
T Consensus        96 ~~~d-~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~~~~e~~~~i  174 (234)
T PRK05642         96 EQYE-LVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRGLSDEDKLRA  174 (234)
T ss_pred             hhCC-EEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCCCCHHHHHHH
Confidence            2222 7889999733   23322 333333223346788888875322         22334456789999999999999


Q ss_pred             HHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHHHH
Q 043737          230 FEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAM  270 (371)
Q Consensus       230 l~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~~l  270 (371)
                      ++.++.......+   ++.+..|++.+.|....+..+...|
T Consensus       175 l~~ka~~~~~~l~---~ev~~~L~~~~~~d~r~l~~~l~~l  212 (234)
T PRK05642        175 LQLRASRRGLHLT---DEVGHFILTRGTRSMSALFDLLERL  212 (234)
T ss_pred             HHHHHHHcCCCCC---HHHHHHHHHhcCCCHHHHHHHHHHH
Confidence            9866543322222   4668888888888877666655554

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=98.94  E-value=4.1e-08  Score=91.46  Aligned_cols=183  Identities=15%  Similarity=0.182  Sum_probs=110.5

Q ss_pred             CccccchhHHHHHHHHHhcCCc-eEEEEEcCCCCcHHHHHHHHHhhccCCC-------------------CCCCeEEEEE
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQM-GIVGLYGMGEVGKTTLLTQINKKFLHTP-------------------NDFDFVIWVV  121 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~~~-------------------~~f~~~~wv~  121 (371)
                      ..++|.+..++.|..++.++.. ..+.++|++|+|||++|..++..+....                   .+++ +++++
T Consensus        14 ~~iig~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~~-~~~~~   92 (355)
T TIGR02397        14 EDVIGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEINSGSSLD-VIEID   92 (355)
T ss_pred             hhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCC-EEEee
Confidence            5689999999999999977654 5678999999999999999988862110                   0122 22222


Q ss_pred             eCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCcc--cccccccccCCCCCCCcEEEE
Q 043737          122 ASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELV--DLSQVGLPVPCRTSASNKTVF  199 (371)
Q Consensus       122 ~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~--~~~~~~~~l~~~~~~~~~ili  199 (371)
                      ........ ..+.+...+....                  ..+++-++|+|+++...  ..+.+...+. ....++.+|+
T Consensus        93 ~~~~~~~~-~~~~l~~~~~~~p------------------~~~~~~vviidea~~l~~~~~~~Ll~~le-~~~~~~~lIl  152 (355)
T TIGR02397        93 AASNNGVD-DIREILDNVKYAP------------------SSGKYKVYIIDEVHMLSKSAFNALLKTLE-EPPEHVVFIL  152 (355)
T ss_pred             ccccCCHH-HHHHHHHHHhcCc------------------ccCCceEEEEeChhhcCHHHHHHHHHHHh-CCccceeEEE
Confidence            22111111 1222222221100                  12345599999997552  2333433343 3334556555


Q ss_pred             ecCchH-HHh-hccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHH
Q 043737          200 TARELE-VCG-QMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGR  268 (371)
Q Consensus       200 TsR~~~-~~~-~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~  268 (371)
                      +|.+.. +.. ..+....+++.+++.++..+++...+...+...+   ++.+..+++.++|.|..+.....
T Consensus       153 ~~~~~~~l~~~l~sr~~~~~~~~~~~~~l~~~l~~~~~~~g~~i~---~~a~~~l~~~~~g~~~~a~~~le  220 (355)
T TIGR02397       153 ATTEPHKIPATILSRCQRFDFKRIPLEDIVERLKKILDKEGIKIE---DEALELIARAADGSLRDALSLLD  220 (355)
T ss_pred             EeCCHHHHHHHHHhheeEEEcCCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCChHHHHHHHH
Confidence            554432 222 2234567899999999999999887754432222   45688899999999876655543

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.

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.93  E-value=2.7e-08  Score=94.60  Aligned_cols=179  Identities=16%  Similarity=0.167  Sum_probs=111.8

Q ss_pred             CccccchhHHHHHHHHHhcCCce-EEEEEcCCCCcHHHHHHHHHhhccCCC------------------CCCCeEEEEEe
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQMG-IVGLYGMGEVGKTTLLTQINKKFLHTP------------------NDFDFVIWVVA  122 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~~-~v~I~G~~GiGKTtLa~~~~~~~~~~~------------------~~f~~~~wv~~  122 (371)
                      ..+||.+..++.|.+++..++.. .+.++|+.|+||||+|+.++..+....                  ..+..++.++.
T Consensus        13 ~dliGQe~vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~Dv~eida   92 (491)
T PRK14964         13 KDLVGQDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHPDVIEIDA   92 (491)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCCCEEEEec
Confidence            56899999999999988776654 799999999999999999987641100                  11223344444


Q ss_pred             CCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc--ccccccccCCCCCCCcEEEE-
Q 043737          123 SKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD--LSQVGLPVPCRTSASNKTVF-  199 (371)
Q Consensus       123 ~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~~~ili-  199 (371)
                      +...+++++ +.+........                  ..++.-++|+|+++....  .+.+...+. ....++.+|+ 
T Consensus        93 as~~~vddI-R~Iie~~~~~P------------------~~~~~KVvIIDEah~Ls~~A~NaLLK~LE-ePp~~v~fIla  152 (491)
T PRK14964         93 ASNTSVDDI-KVILENSCYLP------------------ISSKFKVYIIDEVHMLSNSAFNALLKTLE-EPAPHVKFILA  152 (491)
T ss_pred             ccCCCHHHH-HHHHHHHHhcc------------------ccCCceEEEEeChHhCCHHHHHHHHHHHh-CCCCCeEEEEE
Confidence            333333322 22222221100                  124455999999975532  444444444 3344555555 


Q ss_pred             ecCchHHHh-hccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHH
Q 043737          200 TARELEVCG-QMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLAL  263 (371)
Q Consensus       200 TsR~~~~~~-~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal  263 (371)
                      |+....+.. ..+....+++.+++.++..+.+...+...+...   .++.+..|++.++|.+..+
T Consensus       153 tte~~Kl~~tI~SRc~~~~f~~l~~~el~~~L~~ia~~Egi~i---~~eAL~lIa~~s~GslR~a  214 (491)
T PRK14964        153 TTEVKKIPVTIISRCQRFDLQKIPTDKLVEHLVDIAKKENIEH---DEESLKLIAENSSGSMRNA  214 (491)
T ss_pred             eCChHHHHHHHHHhheeeecccccHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHH
Confidence            444444432 234567899999999999999998876544222   2445788999999987643

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

Probab=98.93  E-value=2.6e-09  Score=89.70  Aligned_cols=46  Identities=24%  Similarity=0.283  Sum_probs=33.0

Q ss_pred             ccccchhHHHHHHHHHh---cCCceEEEEEcCCCCcHHHHHHHHHhhcc
Q 043737           63 TVVGLQSTFDRVWRCLM---EEQMGIVGLYGMGEVGKTTLLTQINKKFL  108 (371)
Q Consensus        63 ~~vGR~~~~~~l~~~L~---~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  108 (371)
                      .||||+++++++...+.   ....+.+.|+|++|+|||+|+++++....
T Consensus         1 ~fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~   49 (185)
T PF13191_consen    1 QFVGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRLA   49 (185)
T ss_dssp             --TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHHH
Confidence            48999999999999993   24568999999999999999999999983

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=98.93  E-value=9e-09  Score=89.53  Aligned_cols=173  Identities=11%  Similarity=0.052  Sum_probs=100.4

Q ss_pred             Cccc-cchhHH-HHHHHHHhc-CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHH
Q 043737           62 PTVV-GLQSTF-DRVWRCLME-EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKK  138 (371)
Q Consensus        62 ~~~v-GR~~~~-~~l~~~L~~-~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~  138 (371)
                      ++|+ |+.... ..+.++... ...+.+.|+|++|+|||+||..+++...   ..-..+.+++.....      ..    
T Consensus        18 d~f~~~~~~~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~La~ai~~~~~---~~~~~~~~i~~~~~~------~~----   84 (227)
T PRK08903         18 DNFVAGENAELVARLRELAAGPVADRFFYLWGEAGSGRSHLLQALVADAS---YGGRNARYLDAASPL------LA----   84 (227)
T ss_pred             cccccCCcHHHHHHHHHHHhccCCCCeEEEECCCCCCHHHHHHHHHHHHH---hCCCcEEEEehHHhH------HH----
Confidence            4455 554443 444444332 3456899999999999999999998862   112234555443311      00    


Q ss_pred             hccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCcccc--cccccccCCCCCCCc-EEEEecCchHHH--------
Q 043737          139 INLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDL--SQVGLPVPCRTSASN-KTVFTARELEVC--------  207 (371)
Q Consensus       139 l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~~--~~~~~~l~~~~~~~~-~iliTsR~~~~~--------  207 (371)
                      +                    ... ...-++|+||++.....  ..+...+......+. .+++|++.....        
T Consensus        85 ~--------------------~~~-~~~~~liiDdi~~l~~~~~~~L~~~~~~~~~~~~~~vl~~~~~~~~~~~l~~~L~  143 (227)
T PRK08903         85 F--------------------DFD-PEAELYAVDDVERLDDAQQIALFNLFNRVRAHGQGALLVAGPAAPLALPLREDLR  143 (227)
T ss_pred             H--------------------hhc-ccCCEEEEeChhhcCchHHHHHHHHHHHHHHcCCcEEEEeCCCCHHhCCCCHHHH
Confidence            0                    001 12338999999754321  222222221112233 466776653321        


Q ss_pred             hhccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHHHHc
Q 043737          208 GQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAMA  271 (371)
Q Consensus       208 ~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~~l~  271 (371)
                      +.+.....+++++++.++-..++.+.........   .++..+.+++.+.|++..+..+...+.
T Consensus       144 sr~~~~~~i~l~pl~~~~~~~~l~~~~~~~~v~l---~~~al~~L~~~~~gn~~~l~~~l~~l~  204 (227)
T PRK08903        144 TRLGWGLVYELKPLSDADKIAALKAAAAERGLQL---ADEVPDYLLTHFRRDMPSLMALLDALD  204 (227)
T ss_pred             HHHhcCeEEEecCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHhccCCHHHHHHHHHHHH
Confidence            1223346889999999888887776543322222   345688899999999998887776663

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.93  E-value=5.4e-08  Score=94.71  Aligned_cols=192  Identities=11%  Similarity=0.094  Sum_probs=109.4

Q ss_pred             CccccchhHHHHHHHHHhcCCce-EEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHH--
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQMG-IVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKK--  138 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~~-~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~--  138 (371)
                      ..++|.+..++.|.+++..++.. .+.++|+.|+||||+|+.++..+.. ....+   +..++..    .....+...  
T Consensus        13 ~eivGq~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c-~~~~~---~~pCg~C----~~C~~i~~~~~   84 (584)
T PRK14952         13 AEVVGQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARSLNC-AQGPT---ATPCGVC----ESCVALAPNGP   84 (584)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcc-ccCCC---CCccccc----HHHHHhhcccC
Confidence            56899999999999999876654 5789999999999999999988721 11000   0001110    001111100  


Q ss_pred             -----hccCCCCCCcCCHHHHHHHHHHHh-----CCCceEEEEeCCCCcc--cccccccccCCCCCCCcEEE-EecCchH
Q 043737          139 -----INLFNESWNSRSLQEKSQDIVKNM-----SNKKFVLLLDHIWELV--DLSQVGLPVPCRTSASNKTV-FTARELE  205 (371)
Q Consensus       139 -----l~~~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~~--~~~~~~~~l~~~~~~~~~il-iTsR~~~  205 (371)
                           +.....  .....++. +.+.+.+     .+++-++|+|+++...  ..+.+...+. ....++.+| +|+....
T Consensus        85 ~~~dvieidaa--s~~gvd~i-Rel~~~~~~~P~~~~~KVvIIDEah~Lt~~A~NALLK~LE-Epp~~~~fIL~tte~~k  160 (584)
T PRK14952         85 GSIDVVELDAA--SHGGVDDT-RELRDRAFYAPAQSRYRIFIVDEAHMVTTAGFNALLKIVE-EPPEHLIFIFATTEPEK  160 (584)
T ss_pred             CCceEEEeccc--cccCHHHH-HHHHHHHHhhhhcCCceEEEEECCCcCCHHHHHHHHHHHh-cCCCCeEEEEEeCChHh
Confidence                 000000  00111111 1111111     2345599999998543  3444444444 333455544 4555444


Q ss_pred             HHh-hccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcH-HHHHHHH
Q 043737          206 VCG-QMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPL-ALITVGR  268 (371)
Q Consensus       206 ~~~-~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl-al~~~a~  268 (371)
                      +.. ..+....+++.+++.++..+++...+...+...+   .+.+..|++.++|.+. ++.++-.
T Consensus       161 ll~TI~SRc~~~~F~~l~~~~i~~~L~~i~~~egi~i~---~~al~~Ia~~s~GdlR~aln~Ldq  222 (584)
T PRK14952        161 VLPTIRSRTHHYPFRLLPPRTMRALIARICEQEGVVVD---DAVYPLVIRAGGGSPRDTLSVLDQ  222 (584)
T ss_pred             hHHHHHHhceEEEeeCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCCHHHHHHHHHH
Confidence            432 2344678999999999999999887754432222   3457888999999775 4444433

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.93  E-value=3e-08  Score=96.13  Aligned_cols=182  Identities=15%  Similarity=0.146  Sum_probs=108.1

Q ss_pred             CccccchhHHHHHHHHHhcCCc-eEEEEEcCCCCcHHHHHHHHHhhccCCCC------------------CCCeEEEEEe
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQM-GIVGLYGMGEVGKTTLLTQINKKFLHTPN------------------DFDFVIWVVA  122 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~~~~------------------~f~~~~wv~~  122 (371)
                      ..++|.+..++.|.+++..++. ..+.++|+.|+||||+|+.+++.+.....                  .|..+++++.
T Consensus        16 ~divGq~~v~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~C~~i~~~~~~d~~ei~~   95 (527)
T PRK14969         16 SELVGQEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACLEIDSGRFVDLIEVDA   95 (527)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCceeEeec
Confidence            5689999999999999987654 45789999999999999999888721000                  0111222222


Q ss_pred             CCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc--ccccccccCCCCCCCcEEEE-
Q 043737          123 SKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD--LSQVGLPVPCRTSASNKTVF-  199 (371)
Q Consensus       123 ~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~~~ili-  199 (371)
                      .....++. .+++...+....                  ..+++-++|+|+++....  .+.+...+. ....++.+|+ 
T Consensus        96 ~~~~~vd~-ir~l~~~~~~~p------------------~~~~~kVvIIDEad~ls~~a~naLLK~LE-epp~~~~fIL~  155 (527)
T PRK14969         96 ASNTQVDA-MRELLDNAQYAP------------------TRGRFKVYIIDEVHMLSKSAFNAMLKTLE-EPPEHVKFILA  155 (527)
T ss_pred             cccCCHHH-HHHHHHHHhhCc------------------ccCCceEEEEcCcccCCHHHHHHHHHHHh-CCCCCEEEEEE
Confidence            11111111 112222211100                  124566999999986543  344444444 3334555554 


Q ss_pred             ecCchHHH-hhccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcH-HHHHH
Q 043737          200 TARELEVC-GQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPL-ALITV  266 (371)
Q Consensus       200 TsR~~~~~-~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl-al~~~  266 (371)
                      |+....+. ...+....+++.+++.++..+.+.+.+...+...   ..+.+..|++.++|.+. ++.++
T Consensus       156 t~d~~kil~tI~SRc~~~~f~~l~~~~i~~~L~~il~~egi~~---~~~al~~la~~s~Gslr~al~ll  221 (527)
T PRK14969        156 TTDPQKIPVTVLSRCLQFNLKQMPPPLIVSHLQHILEQENIPF---DATALQLLARAAAGSMRDALSLL  221 (527)
T ss_pred             eCChhhCchhHHHHHHHHhcCCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHHHHHH
Confidence            44433332 1123346789999999999999988775433222   23457889999999875 44444

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=98.93  E-value=3e-08  Score=91.12  Aligned_cols=196  Identities=10%  Similarity=0.081  Sum_probs=113.4

Q ss_pred             CCccccchhHHHHHHHHHhcCCc-eEEEEEcCCCCcHHHHHHHHHhhccCCCCC-CCeEEEEEeCCcCCHHHHHHHHHHH
Q 043737           61 PPTVVGLQSTFDRVWRCLMEEQM-GIVGLYGMGEVGKTTLLTQINKKFLHTPND-FDFVIWVVASKDLQLEQIQGSIAKK  138 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~-f~~~~wv~~~~~~~~~~~~~~l~~~  138 (371)
                      -..++|.++..+.+...+..+.. ..+.|+|+.|+||||+|..+++.+...... +...   .....+......+.+...
T Consensus        22 ~~~l~Gh~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~---~~~~~~~~c~~c~~i~~~   98 (351)
T PRK09112         22 NTRLFGHEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPE---TLADPDPASPVWRQIAQG   98 (351)
T ss_pred             hhhccCcHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCcc---ccCCCCCCCHHHHHHHcC
Confidence            35689999999999999977653 468999999999999999999987321100 1100   011111111233333322


Q ss_pred             hc-----cCCC--C-----CCcCCHHHHHHHHHHHh-----CCCceEEEEeCCCCccc--ccccccccCCCCCCCc-EEE
Q 043737          139 IN-----LFNE--S-----WNSRSLQEKSQDIVKNM-----SNKKFVLLLDHIWELVD--LSQVGLPVPCRTSASN-KTV  198 (371)
Q Consensus       139 l~-----~~~~--~-----~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~~-~il  198 (371)
                      -.     +..+  .     ......++ +..+.+.+     .++.-++|+|+++....  .+.+...+. ....++ .|+
T Consensus        99 ~hPdl~~l~~~~~~~~~~~~~~I~vd~-iR~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LE-Epp~~~~fiL  176 (351)
T PRK09112         99 AHPNLLHITRPFDEKTGKFKTAITVDE-IRRVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLE-EPPARALFIL  176 (351)
T ss_pred             CCCCEEEeecccccccccccccCCHHH-HHHHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHh-cCCCCceEEE
Confidence            10     0000  0     01122333 23444443     24566999999986532  333433333 222334 455


Q ss_pred             EecCchHHHhh-ccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHH
Q 043737          199 FTARELEVCGQ-MEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITV  266 (371)
Q Consensus       199 iTsR~~~~~~~-~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~  266 (371)
                      +|++...+... .+....+.+.+++.++..+++......    .. -..+.+..+++.++|.|.....+
T Consensus       177 it~~~~~llptIrSRc~~i~l~pl~~~~~~~~L~~~~~~----~~-~~~~~~~~i~~~s~G~pr~Al~l  240 (351)
T PRK09112        177 ISHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHLGSS----QG-SDGEITEALLQRSKGSVRKALLL  240 (351)
T ss_pred             EECChhhccHHHHhhccEEEecCCCHHHHHHHHHHhhcc----cC-CCHHHHHHHHHHcCCCHHHHHHH
Confidence            56555433222 234568999999999999999885321    11 22445788999999999855433

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.92  E-value=4.4e-08  Score=95.18  Aligned_cols=196  Identities=15%  Similarity=0.161  Sum_probs=111.0

Q ss_pred             CccccchhHHHHHHHHHhcCC-ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhc
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQ-MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKIN  140 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~  140 (371)
                      ..++|.+..++.|.+++.+++ ...+.++|+.|+||||+|+.+++.+.. .......   .+    +.-.....+.....
T Consensus        16 ~dIiGQe~v~~~L~~ai~~~ri~ha~Lf~GPpG~GKTtiArilAk~L~C-~~~~~~~---pC----g~C~sC~~i~~g~h   87 (624)
T PRK14959         16 AEVAGQETVKAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKALNC-ETAPTGE---PC----NTCEQCRKVTQGMH   87 (624)
T ss_pred             HHhcCCHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhccc-cCCCCCC---CC----cccHHHHHHhcCCC
Confidence            567999999999999887765 467889999999999999999988721 1110000   00    00011111111100


Q ss_pred             cCC---CCCCcCCHHHHHHHHHHH-----hCCCceEEEEeCCCCcc--cccccccccCCCCCCCcEEEE-ecCchHHHhh
Q 043737          141 LFN---ESWNSRSLQEKSQDIVKN-----MSNKKFVLLLDHIWELV--DLSQVGLPVPCRTSASNKTVF-TARELEVCGQ  209 (371)
Q Consensus       141 ~~~---~~~~~~~~~~~~~~l~~~-----l~~~~~LlVlDdv~~~~--~~~~~~~~l~~~~~~~~~ili-TsR~~~~~~~  209 (371)
                      ...   ........++ ++.+.+.     ..+++-++|||+++...  ..+.+...+. .......+|+ |+....+...
T Consensus        88 pDv~eId~a~~~~Id~-iR~L~~~~~~~p~~g~~kVIIIDEad~Lt~~a~naLLk~LE-EP~~~~ifILaTt~~~kll~T  165 (624)
T PRK14959         88 VDVVEIDGASNRGIDD-AKRLKEAIGYAPMEGRYKVFIIDEAHMLTREAFNALLKTLE-EPPARVTFVLATTEPHKFPVT  165 (624)
T ss_pred             CceEEEecccccCHHH-HHHHHHHHHhhhhcCCceEEEEEChHhCCHHHHHHHHHHhh-ccCCCEEEEEecCChhhhhHH
Confidence            000   0000011111 1112211     13456699999998652  2344444443 2233455555 4443433322


Q ss_pred             -ccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCc-HHHHHHHHHH
Q 043737          210 -MEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLP-LALITVGRAM  270 (371)
Q Consensus       210 -~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~P-lal~~~a~~l  270 (371)
                       .+....+++.+++.++....+...+.......   ..+.++.|++.++|.+ .++.++...+
T Consensus       166 I~SRcq~i~F~pLs~~eL~~~L~~il~~egi~i---d~eal~lIA~~s~GdlR~Al~lLeqll  225 (624)
T PRK14959        166 IVSRCQHFTFTRLSEAGLEAHLTKVLGREGVDY---DPAAVRLIARRAAGSVRDSMSLLGQVL  225 (624)
T ss_pred             HHhhhhccccCCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence             23456789999999999999988765443222   2455888999999965 6777765544

>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=98.92  E-value=9.5e-09  Score=82.48  Aligned_cols=123  Identities=17%  Similarity=0.071  Sum_probs=72.6

Q ss_pred             ccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCC
Q 043737           65 VGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNE  144 (371)
Q Consensus        65 vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~  144 (371)
                      +|++..+..+...+.....+.+.|+|++|+|||++++.+++...   .....++++..............+...      
T Consensus         1 ~~~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~~---~~~~~v~~~~~~~~~~~~~~~~~~~~~------   71 (151)
T cd00009           1 VGQEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELF---RPGAPFLYLNASDLLEGLVVAELFGHF------   71 (151)
T ss_pred             CchHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHhh---cCCCCeEEEehhhhhhhhHHHHHhhhh------
Confidence            47888999999988766678999999999999999999999872   223356666655433221111111000      


Q ss_pred             CCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCc--cccccc---ccccCCC--CCCCcEEEEecCch
Q 043737          145 SWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWEL--VDLSQV---GLPVPCR--TSASNKTVFTAREL  204 (371)
Q Consensus       145 ~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~~---~~~l~~~--~~~~~~iliTsR~~  204 (371)
                              ............++.++++||++..  .....+   .......  ...+..+|+||...
T Consensus        72 --------~~~~~~~~~~~~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~  130 (151)
T cd00009          72 --------LVRLLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRP  130 (151)
T ss_pred             --------hHhHHHHhhccCCCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCcc
Confidence                    0001111122346789999999854  111112   1111101  13577888887754

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.

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.92  E-value=6.1e-08  Score=88.44  Aligned_cols=176  Identities=15%  Similarity=0.205  Sum_probs=113.2

Q ss_pred             CccccchhHHHHHHHHHhcCCc-eEEEEEcCCCCcHHHHHHHHHhhccC---CCCCCCeEEEEEe-CCcCCHHHHHHHHH
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQM-GIVGLYGMGEVGKTTLLTQINKKFLH---TPNDFDFVIWVVA-SKDLQLEQIQGSIA  136 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~---~~~~f~~~~wv~~-~~~~~~~~~~~~l~  136 (371)
                      ..++|.+...+.+..++..+.. ..+.++|+.|+|||++|..+++.+..   ...|++...|... +....+++ .+++.
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 HTIIGHENIKNRIKNSIIKNRFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDD-IRNII   82 (313)
T ss_pred             hhccCcHHHHHHHHHHHHcCCCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHH-HHHHH
Confidence            3578999999999999977654 57789999999999999999987521   2345555555442 22223333 22333


Q ss_pred             HHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCc--ccccccccccCCCCCCCcEEEEecCchH-HHh-hccC
Q 043737          137 KKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWEL--VDLSQVGLPVPCRTSASNKTVFTARELE-VCG-QMEA  212 (371)
Q Consensus       137 ~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~~~~~l~~~~~~~~~iliTsR~~~-~~~-~~~~  212 (371)
                      ..+....                  ..+++-++|+|+++..  ...+.+...+. ....++.+|++|.+.. +.. ..+.
T Consensus        83 ~~~~~~p------------------~~~~~kv~iI~~ad~m~~~a~naLLK~LE-epp~~t~~il~~~~~~~ll~TI~SR  143 (313)
T PRK05564         83 EEVNKKP------------------YEGDKKVIIIYNSEKMTEQAQNAFLKTIE-EPPKGVFIILLCENLEQILDTIKSR  143 (313)
T ss_pred             HHHhcCc------------------ccCCceEEEEechhhcCHHHHHHHHHHhc-CCCCCeEEEEEeCChHhCcHHHHhh
Confidence            3332111                  1244558888988754  33555655665 5556777777765543 222 1244


Q ss_pred             CCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHH
Q 043737          213 HKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALI  264 (371)
Q Consensus       213 ~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~  264 (371)
                      ...+.+.++++++...++.+....    .   ..+.++.++..++|.|.-+.
T Consensus       144 c~~~~~~~~~~~~~~~~l~~~~~~----~---~~~~~~~l~~~~~g~~~~a~  188 (313)
T PRK05564        144 CQIYKLNRLSKEEIEKFISYKYND----I---KEEEKKSAIAFSDGIPGKVE  188 (313)
T ss_pred             ceeeeCCCcCHHHHHHHHHHHhcC----C---CHHHHHHHHHHcCCCHHHHH
Confidence            578999999999999988776531    1   13347788999999886543

>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=98.92  E-value=1.4e-08  Score=85.35  Aligned_cols=179  Identities=15%  Similarity=0.151  Sum_probs=97.0

Q ss_pred             CCCccccchhHHHHHHHHHhc-----CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHH
Q 043737           60 LPPTVVGLQSTFDRVWRCLME-----EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGS  134 (371)
Q Consensus        60 ~~~~~vGR~~~~~~l~~~L~~-----~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  134 (371)
                      .-+.|||.++.++.+.-++..     +....+.+|||+|+||||||.-+++.+   ...|   .+.+...-....++ ..
T Consensus        22 ~L~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~---~~~~---~~~sg~~i~k~~dl-~~   94 (233)
T PF05496_consen   22 SLDEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANEL---GVNF---KITSGPAIEKAGDL-AA   94 (233)
T ss_dssp             SCCCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHC---T--E---EEEECCC--SCHHH-HH
T ss_pred             CHHHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhcc---CCCe---EeccchhhhhHHHH-HH
Confidence            347899999998887655431     345789999999999999999999998   3333   22322111111111 11


Q ss_pred             HHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc---------ccccccccCCCC-----------CCC
Q 043737          135 IAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD---------LSQVGLPVPCRT-----------SAS  194 (371)
Q Consensus       135 l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~---------~~~~~~~l~~~~-----------~~~  194 (371)
                      ++..                       + +++.+|++|+++....         ++.....+....           .+-
T Consensus        95 il~~-----------------------l-~~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~F  150 (233)
T PF05496_consen   95 ILTN-----------------------L-KEGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPPF  150 (233)
T ss_dssp             HHHT--------------------------TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE----
T ss_pred             HHHh-----------------------c-CCCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccCCCc
Confidence            1111                       1 2345888899986421         111111000001           112


Q ss_pred             cEEEEecCchHHHhhccC-C-CceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHHHHcC
Q 043737          195 NKTVFTARELEVCGQMEA-H-KSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAMAS  272 (371)
Q Consensus       195 ~~iliTsR~~~~~~~~~~-~-~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~~l~~  272 (371)
                      +.|=-|||...+..-+.. . -..+++..+.+|-.+++.+.+.......   .++.+.+|++.+.|-|.-..-+...++.
T Consensus       151 TligATTr~g~ls~pLrdRFgi~~~l~~Y~~~el~~Iv~r~a~~l~i~i---~~~~~~~Ia~rsrGtPRiAnrll~rvrD  227 (233)
T PF05496_consen  151 TLIGATTRAGLLSSPLRDRFGIVLRLEFYSEEELAKIVKRSARILNIEI---DEDAAEEIARRSRGTPRIANRLLRRVRD  227 (233)
T ss_dssp             EEEEEESSGCCTSHCCCTTSSEEEE----THHHHHHHHHHCCHCTT-EE----HHHHHHHHHCTTTSHHHHHHHHHHHCC
T ss_pred             eEeeeeccccccchhHHhhcceecchhcCCHHHHHHHHHHHHHHhCCCc---CHHHHHHHHHhcCCChHHHHHHHHHHHH
Confidence            223348887655433322 2 2347999999999999988775544322   3567999999999999877766666654

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.

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=98.92  E-value=2.3e-08  Score=96.65  Aligned_cols=194  Identities=13%  Similarity=0.127  Sum_probs=108.4

Q ss_pred             CccccchhHHHHHHHHHhcCC-ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhc
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQ-MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKIN  140 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~  140 (371)
                      ..++|++..++.+.+++..+. .+.+.++|+.|+||||+|+.+++.+.. ..      |.... .++.-...+.+.....
T Consensus        16 ~dIIGQe~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C-~~------~~~~~-~Cg~C~sCr~i~~~~h   87 (605)
T PRK05896         16 KQIIGQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAINC-LN------PKDGD-CCNSCSVCESINTNQS   87 (605)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcC-CC------CCCCC-CCcccHHHHHHHcCCC
Confidence            568999999999999987654 457889999999999999999988721 11      11000 0111111111111110


Q ss_pred             cCC---CCCCcCCHHHHHHHHHHHh-----CCCceEEEEeCCCCcc--cccccccccCCCCCCCcEEEE-ecCchHHHh-
Q 043737          141 LFN---ESWNSRSLQEKSQDIVKNM-----SNKKFVLLLDHIWELV--DLSQVGLPVPCRTSASNKTVF-TARELEVCG-  208 (371)
Q Consensus       141 ~~~---~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~~--~~~~~~~~l~~~~~~~~~ili-TsR~~~~~~-  208 (371)
                      ...   ........++. +.+....     .+++-++|+|+++...  ....+...+. ....++.+|+ |+....+.. 
T Consensus        88 ~DiieIdaas~igVd~I-ReIi~~~~~~P~~~~~KVIIIDEad~Lt~~A~NaLLKtLE-EPp~~tvfIL~Tt~~~KLl~T  165 (605)
T PRK05896         88 VDIVELDAASNNGVDEI-RNIIDNINYLPTTFKYKVYIIDEAHMLSTSAWNALLKTLE-EPPKHVVFIFATTEFQKIPLT  165 (605)
T ss_pred             CceEEeccccccCHHHH-HHHHHHHHhchhhCCcEEEEEechHhCCHHHHHHHHHHHH-hCCCcEEEEEECCChHhhhHH
Confidence            000   00001111111 1111111     1234479999997642  2333434333 2333444444 544444432 


Q ss_pred             hccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcH-HHHHHHH
Q 043737          209 QMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPL-ALITVGR  268 (371)
Q Consensus       209 ~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl-al~~~a~  268 (371)
                      ..+....+++.+++.++....+...+.......+   .+.+..+++.++|.+. |+..+-.
T Consensus       166 I~SRcq~ieF~~Ls~~eL~~~L~~il~kegi~Is---~eal~~La~lS~GdlR~AlnlLek  223 (605)
T PRK05896        166 IISRCQRYNFKKLNNSELQELLKSIAKKEKIKIE---DNAIDKIADLADGSLRDGLSILDQ  223 (605)
T ss_pred             HHhhhhhcccCCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCcHHHHHHHHHH
Confidence            2345678999999999999999987754332222   3457889999999765 4444433

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.88  E-value=3.2e-08  Score=93.13  Aligned_cols=199  Identities=12%  Similarity=0.100  Sum_probs=110.5

Q ss_pred             CCccccchhHHHHHHHHHhcCCce-EEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEE-eCCcCCHHHHHHHHHHH
Q 043737           61 PPTVVGLQSTFDRVWRCLMEEQMG-IVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVV-ASKDLQLEQIQGSIAKK  138 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~~~~~-~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~-~~~~~~~~~~~~~l~~~  138 (371)
                      -..++|.+...+.|..++.++..+ .+.++|+.|+||||+|..+++.+. -.......-|.. ....+..=.....+...
T Consensus        15 ~~eiiGq~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~l~-c~~~~~~~~~~~~~~~~c~~c~~c~~~~~~   93 (397)
T PRK14955         15 FADITAQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAVN-CQRMIDDADYLQEVTEPCGECESCRDFDAG   93 (397)
T ss_pred             HhhccChHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHHHHHHhc-CCCCcCcccccccCCCCCCCCHHHHHHhcC
Confidence            366899999999999999876654 588999999999999999998872 111110000000 00000000111111111


Q ss_pred             hccCC---CCCCcCCHHHHHHHHHHHh-----CCCceEEEEeCCCCcc--cccccccccCCCCCCCcEEEE-ecCchHHH
Q 043737          139 INLFN---ESWNSRSLQEKSQDIVKNM-----SNKKFVLLLDHIWELV--DLSQVGLPVPCRTSASNKTVF-TARELEVC  207 (371)
Q Consensus       139 l~~~~---~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~~--~~~~~~~~l~~~~~~~~~ili-TsR~~~~~  207 (371)
                      .....   ........++. ..+.+.+     .+.+-++|+||++...  .++.+...+. .....+.+|+ |++...+.
T Consensus        94 ~~~n~~~~~~~~~~~id~I-r~l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LE-ep~~~t~~Il~t~~~~kl~  171 (397)
T PRK14955         94 TSLNISEFDAASNNSVDDI-RLLRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLE-EPPPHAIFIFATTELHKIP  171 (397)
T ss_pred             CCCCeEeecccccCCHHHH-HHHHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHh-cCCCCeEEEEEeCChHHhH
Confidence            00000   00011112222 2233333     2345599999998653  3444444444 3334555544 54444443


Q ss_pred             hh-ccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHH
Q 043737          208 GQ-MEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALIT  265 (371)
Q Consensus       208 ~~-~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~  265 (371)
                      .. ......+++.+++.++..+.+...+.......   ..+.+..|+..++|.+.-+..
T Consensus       172 ~tl~sR~~~v~f~~l~~~ei~~~l~~~~~~~g~~i---~~~al~~l~~~s~g~lr~a~~  227 (397)
T PRK14955        172 ATIASRCQRFNFKRIPLEEIQQQLQGICEAEGISV---DADALQLIGRKAQGSMRDAQS  227 (397)
T ss_pred             HHHHHHHHHhhcCCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHHHH
Confidence            22 23345789999999999999988775433222   245589999999998864444

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=98.87  E-value=5.1e-08  Score=98.52  Aligned_cols=179  Identities=13%  Similarity=0.096  Sum_probs=107.9

Q ss_pred             CccccchhHHHHHHHHHhcCCc-eEEEEEcCCCCcHHHHHHHHHhhccCCCCC--------------------CCeEEEE
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQM-GIVGLYGMGEVGKTTLLTQINKKFLHTPND--------------------FDFVIWV  120 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~--------------------f~~~~wv  120 (371)
                      ..+||.+..++.|..++..++. ..+.++|+.|+||||+|+.+++.+......                    +..++++
T Consensus        15 ~eiiGqe~v~~~L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C~sC~~~~~g~~~~~dv~ei   94 (824)
T PRK07764         15 AEVIGQEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGECDSCVALAPGGPGSLDVTEI   94 (824)
T ss_pred             HHhcCcHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcccHHHHHHHcCCCCCCcEEEe
Confidence            5689999999999999987655 457899999999999999999887311100                    0011222


Q ss_pred             EeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc--ccccccccCCCCCCCcEEE
Q 043737          121 VASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD--LSQVGLPVPCRTSASNKTV  198 (371)
Q Consensus       121 ~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~~~il  198 (371)
                      +......++++ +++...+..                  .-..++.-++|||+++.+..  .+.+...+. ....++.+|
T Consensus        95 daas~~~Vd~i-R~l~~~~~~------------------~p~~~~~KV~IIDEad~lt~~a~NaLLK~LE-EpP~~~~fI  154 (824)
T PRK07764         95 DAASHGGVDDA-RELRERAFF------------------APAESRYKIFIIDEAHMVTPQGFNALLKIVE-EPPEHLKFI  154 (824)
T ss_pred             cccccCCHHHH-HHHHHHHHh------------------chhcCCceEEEEechhhcCHHHHHHHHHHHh-CCCCCeEEE
Confidence            21111111111 111111100                  01234555899999986533  344444554 334455555


Q ss_pred             E-ecCchHHHh-hccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHH
Q 043737          199 F-TARELEVCG-QMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLAL  263 (371)
Q Consensus       199 i-TsR~~~~~~-~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal  263 (371)
                      + |+....+.. ..+....|++..++.++..+++.+.+.......   ..+.+..|++.++|.+..+
T Consensus       155 l~tt~~~kLl~TIrSRc~~v~F~~l~~~~l~~~L~~il~~EGv~i---d~eal~lLa~~sgGdlR~A  218 (824)
T PRK07764        155 FATTEPDKVIGTIRSRTHHYPFRLVPPEVMRGYLERICAQEGVPV---EPGVLPLVIRAGGGSVRDS  218 (824)
T ss_pred             EEeCChhhhhHHHHhheeEEEeeCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHH
Confidence            4 544444433 234567899999999999999988775443222   2344788899999987433

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=98.85  E-value=1.1e-07  Score=88.51  Aligned_cols=183  Identities=9%  Similarity=0.061  Sum_probs=102.8

Q ss_pred             CccccchhHHHHHHHHHhcCC----------ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHH
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQ----------MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQI  131 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~----------~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~  131 (371)
                      +.++|.+..++.|.+++..+.          ...+.++|++|+|||++|..++..+.. ....    +..++..    ..
T Consensus         5 ~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c-~~~~----~~~Cg~C----~~   75 (394)
T PRK07940          5 DDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQC-TDPD----EPGCGEC----RA   75 (394)
T ss_pred             hhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCC-CCCC----CCCCCCC----HH
Confidence            457899999999999997653          467889999999999999999887621 1100    0001100    01


Q ss_pred             HHHHHHHhc----cCCCCCCcCCHHHHHHHHHHHh-----CCCceEEEEeCCCCccc--ccccccccCCCCCCCcEEEE-
Q 043737          132 QGSIAKKIN----LFNESWNSRSLQEKSQDIVKNM-----SNKKFVLLLDHIWELVD--LSQVGLPVPCRTSASNKTVF-  199 (371)
Q Consensus       132 ~~~l~~~l~----~~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~~~ili-  199 (371)
                      ...+...-.    ...+.......++ ++.+.+..     .+++-++|||+++....  .+.+...+. ....++.+|+ 
T Consensus        76 C~~~~~~~hpD~~~i~~~~~~i~i~~-iR~l~~~~~~~p~~~~~kViiIDead~m~~~aanaLLk~LE-ep~~~~~fIL~  153 (394)
T PRK07940         76 CRTVLAGTHPDVRVVAPEGLSIGVDE-VRELVTIAARRPSTGRWRIVVIEDADRLTERAANALLKAVE-EPPPRTVWLLC  153 (394)
T ss_pred             HHHHhcCCCCCEEEeccccccCCHHH-HHHHHHHHHhCcccCCcEEEEEechhhcCHHHHHHHHHHhh-cCCCCCeEEEE
Confidence            111110000    0000001111122 11222222     24555899999986532  233333343 3334555555 


Q ss_pred             ecCchHHHhh-ccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHH
Q 043737          200 TARELEVCGQ-MEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLAL  263 (371)
Q Consensus       200 TsR~~~~~~~-~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal  263 (371)
                      |+....+... .+....+.+.+++.++..+++.+..+     .+   .+.+..+++.++|.|...
T Consensus       154 a~~~~~llpTIrSRc~~i~f~~~~~~~i~~~L~~~~~-----~~---~~~a~~la~~s~G~~~~A  210 (394)
T PRK07940        154 APSPEDVLPTIRSRCRHVALRTPSVEAVAEVLVRRDG-----VD---PETARRAARASQGHIGRA  210 (394)
T ss_pred             ECChHHChHHHHhhCeEEECCCCCHHHHHHHHHHhcC-----CC---HHHHHHHHHHcCCCHHHH
Confidence            4444444322 34457899999999999999875432     11   344788999999998643

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=98.85  E-value=6.6e-08  Score=94.60  Aligned_cols=198  Identities=14%  Similarity=0.131  Sum_probs=112.6

Q ss_pred             CCccccchhHHHHHHHHHhcCCc-eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCC-eEEEEEeCCcCCHHHHHHHHHHH
Q 043737           61 PPTVVGLQSTFDRVWRCLMEEQM-GIVGLYGMGEVGKTTLLTQINKKFLHTPNDFD-FVIWVVASKDLQLEQIQGSIAKK  138 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~-~~~wv~~~~~~~~~~~~~~l~~~  138 (371)
                      -..++|.+..++.|.+++..++. ..+.++|+.|+||||+|+.+++.+......-. ...+-.+...    ...+.+...
T Consensus        23 f~dliGq~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~~cg~c----~~C~~i~~g   98 (598)
T PRK09111         23 FDDLIGQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTIDLCGVG----EHCQAIMEG   98 (598)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccccCccc----HHHHHHhcC
Confidence            35689999999999999987654 47889999999999999999988721110000 0000001110    111112111


Q ss_pred             hccCC---CCCCcCCHHHHHHHHHHHh-----CCCceEEEEeCCCCccc--ccccccccCCCCCCCcEEEE-ecCchHHH
Q 043737          139 INLFN---ESWNSRSLQEKSQDIVKNM-----SNKKFVLLLDHIWELVD--LSQVGLPVPCRTSASNKTVF-TARELEVC  207 (371)
Q Consensus       139 l~~~~---~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~~~ili-TsR~~~~~  207 (371)
                      .....   ........++ ++.+.+.+     .+++-++|+|+++....  .+.+...+. ....++.+|+ |+....+.
T Consensus        99 ~h~Dv~e~~a~s~~gvd~-IReIie~~~~~P~~a~~KVvIIDEad~Ls~~a~naLLKtLE-ePp~~~~fIl~tte~~kll  176 (598)
T PRK09111         99 RHVDVLEMDAASHTGVDD-IREIIESVRYRPVSARYKVYIIDEVHMLSTAAFNALLKTLE-EPPPHVKFIFATTEIRKVP  176 (598)
T ss_pred             CCCceEEecccccCCHHH-HHHHHHHHHhchhcCCcEEEEEEChHhCCHHHHHHHHHHHH-hCCCCeEEEEEeCChhhhh
Confidence            10000   0001111222 11222222     23455899999976532  444444444 3334555554 54444333


Q ss_pred             hh-ccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHH
Q 043737          208 GQ-MEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVG  267 (371)
Q Consensus       208 ~~-~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a  267 (371)
                      .. .+....+++.+++.++....+.+.+.......+   .+.+..|++.++|.+.-+....
T Consensus       177 ~tI~SRcq~~~f~~l~~~el~~~L~~i~~kegi~i~---~eAl~lIa~~a~Gdlr~al~~L  234 (598)
T PRK09111        177 VTVLSRCQRFDLRRIEADVLAAHLSRIAAKEGVEVE---DEALALIARAAEGSVRDGLSLL  234 (598)
T ss_pred             HHHHhheeEEEecCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCCHHHHHHHH
Confidence            22 244568999999999999999988754442222   3558889999999987554444

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=98.83  E-value=1.4e-07  Score=79.52  Aligned_cols=159  Identities=13%  Similarity=0.143  Sum_probs=92.6

Q ss_pred             HHHHHHhcCCc-eEEEEEcCCCCcHHHHHHHHHhhccCCC-------------------CCCCeEEEEEeCC-cCCHHHH
Q 043737           73 RVWRCLMEEQM-GIVGLYGMGEVGKTTLLTQINKKFLHTP-------------------NDFDFVIWVVASK-DLQLEQI  131 (371)
Q Consensus        73 ~l~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~~~-------------------~~f~~~~wv~~~~-~~~~~~~  131 (371)
                      .|.+.+.+++. ..+.++|+.|+|||++|..++..+....                   .+.+ ..++.... ..+. +.
T Consensus         3 ~l~~~i~~~~~~~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d-~~~~~~~~~~~~~-~~   80 (188)
T TIGR00678         3 QLKRALEKGRLAHAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPD-LHRLEPEGQSIKV-DQ   80 (188)
T ss_pred             HHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCc-EEEeccccCcCCH-HH
Confidence            45556655554 6789999999999999999988872110                   1111 12222111 1111 11


Q ss_pred             HHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc--ccccccccCCCCCCCcEEEEecCch-HHHh
Q 043737          132 QGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD--LSQVGLPVPCRTSASNKTVFTAREL-EVCG  208 (371)
Q Consensus       132 ~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~~~iliTsR~~-~~~~  208 (371)
                      .+++...+....                  ..+.+-++|+||++....  .+.+...+. .....+.+|++|++. .+..
T Consensus        81 i~~i~~~~~~~~------------------~~~~~kviiide~~~l~~~~~~~Ll~~le-~~~~~~~~il~~~~~~~l~~  141 (188)
T TIGR00678        81 VRELVEFLSRTP------------------QESGRRVVIIEDAERMNEAAANALLKTLE-EPPPNTLFILITPSPEKLLP  141 (188)
T ss_pred             HHHHHHHHccCc------------------ccCCeEEEEEechhhhCHHHHHHHHHHhc-CCCCCeEEEEEECChHhChH
Confidence            112222221100                  124556999999986532  444544444 334455566555442 2222


Q ss_pred             h-ccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcH
Q 043737          209 Q-MEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPL  261 (371)
Q Consensus       209 ~-~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl  261 (371)
                      . .+....+.+.+++.++..+++.+. +     .+   .+.+..|++.++|.|.
T Consensus       142 ~i~sr~~~~~~~~~~~~~~~~~l~~~-g-----i~---~~~~~~i~~~~~g~~r  186 (188)
T TIGR00678       142 TIRSRCQVLPFPPLSEEALLQWLIRQ-G-----IS---EEAAELLLALAGGSPG  186 (188)
T ss_pred             HHHhhcEEeeCCCCCHHHHHHHHHHc-C-----CC---HHHHHHHHHHcCCCcc
Confidence            1 234568999999999999999887 1     11   3558999999999885

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.

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

Probab=98.82  E-value=3.8e-07  Score=78.63  Aligned_cols=252  Identities=15%  Similarity=0.137  Sum_probs=137.5

Q ss_pred             CCccccchhHHHHHHHHHhc-----CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHH
Q 043737           61 PPTVVGLQSTFDRVWRCLME-----EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSI  135 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~-----~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l  135 (371)
                      -..|||.++..++|.=++..     +..--+.++||+|.||||||.-+++.+   ...+    -+..+....-..-+..+
T Consensus        25 l~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Em---gvn~----k~tsGp~leK~gDlaai   97 (332)
T COG2255          25 LDEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANEL---GVNL----KITSGPALEKPGDLAAI   97 (332)
T ss_pred             HHHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHh---cCCe----EecccccccChhhHHHH
Confidence            36699999888887655542     345689999999999999999999998   2221    11111100001111122


Q ss_pred             HHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc---------ccccccccC-----------CCCCCCc
Q 043737          136 AKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD---------LSQVGLPVP-----------CRTSASN  195 (371)
Q Consensus       136 ~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~---------~~~~~~~l~-----------~~~~~~~  195 (371)
                      +..+                       ..+. +|.+|+++....         .+.+..-+.           ....+-+
T Consensus        98 Lt~L-----------------------e~~D-VLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLppFT  153 (332)
T COG2255          98 LTNL-----------------------EEGD-VLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLPPFT  153 (332)
T ss_pred             HhcC-----------------------CcCC-eEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCccceEeccCCCee
Confidence            2222                       2222 777888875421         121111000           0111222


Q ss_pred             EEEEecCchHHHhhc--cCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHHHHcCC
Q 043737          196 KTVFTARELEVCGQM--EAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAMASK  273 (371)
Q Consensus       196 ~iliTsR~~~~~~~~--~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~~l~~~  273 (371)
                      .|=-|||.-.+.+-+  .-+-+.+++-.+.+|-.+.+.+.+.......+   ++.+.+|++...|-|.-..-+.+.++.-
T Consensus       154 LIGATTr~G~lt~PLrdRFGi~~rlefY~~~eL~~Iv~r~a~~l~i~i~---~~~a~eIA~rSRGTPRIAnRLLrRVRDf  230 (332)
T COG2255         154 LIGATTRAGMLTNPLRDRFGIIQRLEFYTVEELEEIVKRSAKILGIEID---EEAALEIARRSRGTPRIANRLLRRVRDF  230 (332)
T ss_pred             EeeeccccccccchhHHhcCCeeeeecCCHHHHHHHHHHHHHHhCCCCC---hHHHHHHHHhccCCcHHHHHHHHHHHHH
Confidence            233588875543322  22345688889999999999888755443333   4459999999999998766665555421


Q ss_pred             ------C--ChhHHHHHHHHHhcccccCCCChhHHHHHHhhccCCCCCcchhHHhchhccCCCCCccCHHHHHHHHHHcC
Q 043737          274 ------K--TPREWEHAIEVLRSSAYKFSGMESRVFSRLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEG  345 (371)
Q Consensus       274 ------~--~~~~~~~~l~~l~~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~~l~~la~fp~~~~i~~~~li~~w~a~g  345 (371)
                            .  +..--...+..|.-....+...+..+..++...|..=|- ....+-..++.   +..=-.+.+-=+.+.+|
T Consensus       231 a~V~~~~~I~~~ia~~aL~~L~Vd~~GLd~~D~k~L~~li~~f~GgPV-Gl~tia~~lge---~~~TiEdv~EPyLiq~g  306 (332)
T COG2255         231 AQVKGDGDIDRDIADKALKMLDVDELGLDEIDRKYLRALIEQFGGGPV-GLDTIAAALGE---DRDTIEDVIEPYLIQQG  306 (332)
T ss_pred             HHHhcCCcccHHHHHHHHHHhCcccccccHHHHHHHHHHHHHhCCCCc-cHHHHHHHhcC---chhHHHHHHhHHHHHhc
Confidence                  1  222333445555544455555555666666666655544 44444322222   21111233333555667


Q ss_pred             CcccC
Q 043737          346 FLDEY  350 (371)
Q Consensus       346 ~~~~~  350 (371)
                      |+...
T Consensus       307 fi~RT  311 (332)
T COG2255         307 FIQRT  311 (332)
T ss_pred             hhhhC
Confidence            77544

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.81  E-value=1.5e-07  Score=87.90  Aligned_cols=180  Identities=14%  Similarity=0.199  Sum_probs=105.5

Q ss_pred             CccccchhHHHHHHHHHhcCCc-eEEEEEcCCCCcHHHHHHHHHhhccCC-----CCCCCe-EEEEEeCCcCCHHHHHHH
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQM-GIVGLYGMGEVGKTTLLTQINKKFLHT-----PNDFDF-VIWVVASKDLQLEQIQGS  134 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~~-----~~~f~~-~~wv~~~~~~~~~~~~~~  134 (371)
                      ..++|.+..++.+.+++.++.. +.+.++|++|+|||++|..+++.....     ...|.. ++-++.....+. +....
T Consensus        17 ~~iig~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~i~~   95 (367)
T PRK14970         17 DDVVGQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFELDAASNNSV-DDIRN   95 (367)
T ss_pred             HhcCCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEeccccCCCH-HHHHH
Confidence            5689999999999999977554 588899999999999999998886211     011211 111111111111 11222


Q ss_pred             HHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc--ccccccccCCCCCCCcEEEEec-CchHHHh-hc
Q 043737          135 IAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD--LSQVGLPVPCRTSASNKTVFTA-RELEVCG-QM  210 (371)
Q Consensus       135 l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~~~iliTs-R~~~~~~-~~  210 (371)
                      +...+....                  ..+++-++++|+++....  ++.+...+. ....++.+|+++ ....+.. ..
T Consensus        96 l~~~~~~~p------------------~~~~~kiviIDE~~~l~~~~~~~ll~~le-~~~~~~~~Il~~~~~~kl~~~l~  156 (367)
T PRK14970         96 LIDQVRIPP------------------QTGKYKIYIIDEVHMLSSAAFNAFLKTLE-EPPAHAIFILATTEKHKIIPTIL  156 (367)
T ss_pred             HHHHHhhcc------------------ccCCcEEEEEeChhhcCHHHHHHHHHHHh-CCCCceEEEEEeCCcccCCHHHH
Confidence            222221100                  123455899999975432  333333333 223344455444 3333221 12


Q ss_pred             cCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHH
Q 043737          211 EAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALI  264 (371)
Q Consensus       211 ~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~  264 (371)
                      +....+++.+++.++....+...+...+...+   .+.+..+++.++|.+..+.
T Consensus       157 sr~~~v~~~~~~~~~l~~~l~~~~~~~g~~i~---~~al~~l~~~~~gdlr~~~  207 (367)
T PRK14970        157 SRCQIFDFKRITIKDIKEHLAGIAVKEGIKFE---DDALHIIAQKADGALRDAL  207 (367)
T ss_pred             hcceeEecCCccHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHhCCCCHHHHH
Confidence            34467899999999999999887754442222   4568889999999766443

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=98.81  E-value=6e-08  Score=92.29  Aligned_cols=170  Identities=10%  Similarity=0.080  Sum_probs=108.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHh
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNM  162 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l  162 (371)
                      ...+.|+|+.|+|||+|++.+++.+.. ......+++++      ..++...+...+...         ......+.+.+
T Consensus       141 ~npl~i~G~~G~GKTHLl~Ai~~~l~~-~~~~~~v~yv~------~~~f~~~~~~~l~~~---------~~~~~~~~~~~  204 (450)
T PRK14087        141 YNPLFIYGESGMGKTHLLKAAKNYIES-NFSDLKVSYMS------GDEFARKAVDILQKT---------HKEIEQFKNEI  204 (450)
T ss_pred             cCceEEECCCCCcHHHHHHHHHHHHHH-hCCCCeEEEEE------HHHHHHHHHHHHHHh---------hhHHHHHHHHh
Confidence            356899999999999999999987621 12223455553      346666666665421         01233444444


Q ss_pred             CCCceEEEEeCCCCcc----cccccccccCCCCCCCcEEEEecCchH---------HHhhccCCCceeecCCChHHHHHH
Q 043737          163 SNKKFVLLLDHIWELV----DLSQVGLPVPCRTSASNKTVFTARELE---------VCGQMEAHKSFKVERLGYEDAWKL  229 (371)
Q Consensus       163 ~~~~~LlVlDdv~~~~----~~~~~~~~l~~~~~~~~~iliTsR~~~---------~~~~~~~~~~~~l~~L~~~ea~~l  229 (371)
                      .+ .-+||+||++...    ..+.+...+......+..||+||...+         +...+..+-.+.+.+++.++-.++
T Consensus       205 ~~-~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~~rL~SR~~~Gl~~~L~~pd~e~r~~i  283 (450)
T PRK14087        205 CQ-NDVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFDNRLITRFNMGLSIAIQKLDNKTATAI  283 (450)
T ss_pred             cc-CCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhccHHHHHHHhCCceeccCCcCHHHHHHH
Confidence            43 3488999997442    123333333322334557888876532         233345566789999999999999


Q ss_pred             HHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHHHH
Q 043737          230 FEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAM  270 (371)
Q Consensus       230 l~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~~l  270 (371)
                      +.+.+...... ..-.++.+..|++.++|.|..+.-+...+
T Consensus       284 L~~~~~~~gl~-~~l~~evl~~Ia~~~~gd~R~L~gaL~~l  323 (450)
T PRK14087        284 IKKEIKNQNIK-QEVTEEAINFISNYYSDDVRKIKGSVSRL  323 (450)
T ss_pred             HHHHHHhcCCC-CCCCHHHHHHHHHccCCCHHHHHHHHHHH
Confidence            99988643321 12346779999999999998887776544

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.79  E-value=2.3e-07  Score=91.05  Aligned_cols=183  Identities=11%  Similarity=0.124  Sum_probs=108.5

Q ss_pred             CccccchhHHHHHHHHHhcCCc-eEEEEEcCCCCcHHHHHHHHHhhccCCCCCC-------------------CeEEEEE
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQM-GIVGLYGMGEVGKTTLLTQINKKFLHTPNDF-------------------DFVIWVV  121 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f-------------------~~~~wv~  121 (371)
                      ..++|.+...+.|.+++..++. ..+.++|+.|+||||+|+.+++.+.. ....                   ..++.++
T Consensus        16 ~~iiGq~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak~l~c-~~~~~~~~c~~c~~c~~i~~g~~~d~~eid   94 (576)
T PRK14965         16 SDLTGQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALNC-EQGLTAEPCNVCPPCVEITEGRSVDVFEID   94 (576)
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhcC-CCCCCCCCCCccHHHHHHhcCCCCCeeeee
Confidence            5689999999999999877654 56789999999999999999888621 1110                   0011111


Q ss_pred             eCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc--ccccccccCCCCCCCcEEE-
Q 043737          122 ASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD--LSQVGLPVPCRTSASNKTV-  198 (371)
Q Consensus       122 ~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~~~il-  198 (371)
                      ......+++ .+++...+....                  ..++.-++|||+++....  .+.+...+. ....++.+| 
T Consensus        95 ~~s~~~v~~-ir~l~~~~~~~p------------------~~~~~KVvIIdev~~Lt~~a~naLLk~LE-epp~~~~fIl  154 (576)
T PRK14965         95 GASNTGVDD-IRELRENVKYLP------------------SRSRYKIFIIDEVHMLSTNAFNALLKTLE-EPPPHVKFIF  154 (576)
T ss_pred             ccCccCHHH-HHHHHHHHHhcc------------------ccCCceEEEEEChhhCCHHHHHHHHHHHH-cCCCCeEEEE
Confidence            111111111 111222111100                  123445899999976532  334444443 333455554 


Q ss_pred             EecCchHHHhh-ccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCc-HHHHHHHH
Q 043737          199 FTARELEVCGQ-MEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLP-LALITVGR  268 (371)
Q Consensus       199 iTsR~~~~~~~-~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~P-lal~~~a~  268 (371)
                      +|+....+... .+....+++.+++.++....+...+...+...+   .+.+..|++.++|.. .++..+-.
T Consensus       155 ~t~~~~kl~~tI~SRc~~~~f~~l~~~~i~~~L~~i~~~egi~i~---~~al~~la~~a~G~lr~al~~Ldq  223 (576)
T PRK14965        155 ATTEPHKVPITILSRCQRFDFRRIPLQKIVDRLRYIADQEGISIS---DAALALVARKGDGSMRDSLSTLDQ  223 (576)
T ss_pred             EeCChhhhhHHHHHhhhhhhcCCCCHHHHHHHHHHHHHHhCCCCC---HHHHHHHHHHcCCCHHHHHHHHHH
Confidence            45555544432 345567899999999999998887654432222   345788999999976 45555433

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.78  E-value=1.8e-07  Score=91.79  Aligned_cols=194  Identities=11%  Similarity=0.092  Sum_probs=108.6

Q ss_pred             CccccchhHHHHHHHHHhcCCc-eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEE-eCCcCCHHHHHHHHHHHh
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQM-GIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVV-ASKDLQLEQIQGSIAKKI  139 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~-~~~~~~~~~~~~~l~~~l  139 (371)
                      ..++|.+..+..|.+++.++.. ..+.++|+.|+||||+|..+++.+. -....+.-.|.. ....++.-.....+...-
T Consensus        16 ~eivGQe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~-c~~~~~~~~~~~~~~~~Cg~C~sC~~~~~g~   94 (620)
T PRK14954         16 ADITAQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKAVN-CQRMIDDPVYLQEVTEPCGECESCRDFDAGT   94 (620)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhC-CCCcCCccccccccCCCCccCHHHHHHhccC
Confidence            5689999999999999877654 4588999999999999999998872 111111001111 000111111111111110


Q ss_pred             ccCC---CCCCcCCHHHHHHHHHHHh-----CCCceEEEEeCCCCccc--ccccccccCCCCCCCcEE-EEecCchHHHh
Q 043737          140 NLFN---ESWNSRSLQEKSQDIVKNM-----SNKKFVLLLDHIWELVD--LSQVGLPVPCRTSASNKT-VFTARELEVCG  208 (371)
Q Consensus       140 ~~~~---~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~~~i-liTsR~~~~~~  208 (371)
                      ....   ........++.. .+.+.+     .+.+-++|+||++....  .+.+...+. .....+.+ ++|++...+..
T Consensus        95 ~~n~~~~d~~s~~~vd~Ir-~l~e~~~~~P~~~~~KVvIIdEad~Lt~~a~naLLK~LE-ePp~~tv~IL~t~~~~kLl~  172 (620)
T PRK14954         95 SLNISEFDAASNNSVDDIR-QLRENVRYGPQKGRYRVYIIDEVHMLSTAAFNAFLKTLE-EPPPHAIFIFATTELHKIPA  172 (620)
T ss_pred             CCCeEEecccccCCHHHHH-HHHHHHHhhhhcCCCEEEEEeChhhcCHHHHHHHHHHHh-CCCCCeEEEEEeCChhhhhH
Confidence            0000   000111122222 222222     23455899999986533  444444444 33334444 44554444432


Q ss_pred             -hccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcH
Q 043737          209 -QMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPL  261 (371)
Q Consensus       209 -~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl  261 (371)
                       ..+....+++.+++.++....+.+.+.......   ..+.++.|++.++|...
T Consensus       173 TI~SRc~~vef~~l~~~ei~~~L~~i~~~egi~I---~~eal~~La~~s~Gdlr  223 (620)
T PRK14954        173 TIASRCQRFNFKRIPLDEIQSQLQMICRAEGIQI---DADALQLIARKAQGSMR  223 (620)
T ss_pred             HHHhhceEEecCCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHhCCCHH
Confidence             235567899999999999999988765433222   24458899999999665

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.78  E-value=2.6e-07  Score=88.62  Aligned_cols=183  Identities=11%  Similarity=0.104  Sum_probs=106.8

Q ss_pred             CccccchhHHHHHHHHHhcCCc-eEEEEEcCCCCcHHHHHHHHHhhccCC--CC----------------CCCeEEEEEe
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQM-GIVGLYGMGEVGKTTLLTQINKKFLHT--PN----------------DFDFVIWVVA  122 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~~--~~----------------~f~~~~wv~~  122 (371)
                      ..++|.+..+..|.+++..+.. ..+.++|+.|+||||+|+.++..+...  ..                .+..+++++.
T Consensus        16 ~diiGq~~i~~~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~nc~~i~~g~~~d~~eida   95 (486)
T PRK14953         16 KEVIGQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENCVEIDKGSFPDLIEIDA   95 (486)
T ss_pred             HHccChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHHHHHhcCCCCcEEEEeC
Confidence            5679999999999999977554 456789999999999999998876210  00                0111222221


Q ss_pred             CCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCcc--cccccccccCCCCCCCcEEE-E
Q 043737          123 SKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELV--DLSQVGLPVPCRTSASNKTV-F  199 (371)
Q Consensus       123 ~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~--~~~~~~~~l~~~~~~~~~il-i  199 (371)
                      +....... .+.+...+...                  -..+++-++|+|+++...  ..+.+...+. ....++.+| .
T Consensus        96 as~~gvd~-ir~I~~~~~~~------------------P~~~~~KVvIIDEad~Lt~~a~naLLk~LE-epp~~~v~Il~  155 (486)
T PRK14953         96 ASNRGIDD-IRALRDAVSYT------------------PIKGKYKVYIIDEAHMLTKEAFNALLKTLE-EPPPRTIFILC  155 (486)
T ss_pred             ccCCCHHH-HHHHHHHHHhC------------------cccCCeeEEEEEChhhcCHHHHHHHHHHHh-cCCCCeEEEEE
Confidence            11111111 11111111100                  012455699999997552  2333433444 223344444 4


Q ss_pred             ecCchHHHh-hccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHH
Q 043737          200 TARELEVCG-QMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVG  267 (371)
Q Consensus       200 TsR~~~~~~-~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a  267 (371)
                      |++...+.. ..+....+.+.+++.++....+...+...+...+   .+.+..|+..++|.+..+....
T Consensus       156 tt~~~kl~~tI~SRc~~i~f~~ls~~el~~~L~~i~k~egi~id---~~al~~La~~s~G~lr~al~~L  221 (486)
T PRK14953        156 TTEYDKIPPTILSRCQRFIFSKPTKEQIKEYLKRICNEEKIEYE---EKALDLLAQASEGGMRDAASLL  221 (486)
T ss_pred             ECCHHHHHHHHHHhceEEEcCCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCCHHHHHHHH
Confidence            555443332 2234567899999999999999887754442222   3457888999999876544444

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=98.77  E-value=1.7e-07  Score=92.43  Aligned_cols=190  Identities=12%  Similarity=0.141  Sum_probs=107.0

Q ss_pred             CccccchhHHHHHHHHHhcCC-ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHH-Hh
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQ-MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAK-KI  139 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~-~l  139 (371)
                      ..++|.+..++.|..++..++ ...+.++|+.|+|||++|+.++..+.. ....+  .+-.+..       +..... ..
T Consensus        18 ~dIiGQe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~AriLAk~LnC-~~~~~--~~~pC~~-------C~~~~~~~~   87 (725)
T PRK07133         18 DDIVGQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANALNC-SHKTD--LLEPCQE-------CIENVNNSL   87 (725)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcc-cccCC--CCCchhH-------HHHhhcCCC
Confidence            568999999999999997765 456789999999999999999888621 11000  0000000       000000 00


Q ss_pred             ccC-CCCCCcCCHHHHHHHHHHHh-----CCCceEEEEeCCCCcc--cccccccccCCCCCCCcE-EEEecCchHHHh-h
Q 043737          140 NLF-NESWNSRSLQEKSQDIVKNM-----SNKKFVLLLDHIWELV--DLSQVGLPVPCRTSASNK-TVFTARELEVCG-Q  209 (371)
Q Consensus       140 ~~~-~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~~--~~~~~~~~l~~~~~~~~~-iliTsR~~~~~~-~  209 (371)
                      ... .........++ ++.+.+.+     .+++-++|+|+++...  .+..+...+. .....+. |++|+....+.. .
T Consensus        88 Dvieidaasn~~vd~-IReLie~~~~~P~~g~~KV~IIDEa~~LT~~A~NALLKtLE-EPP~~tifILaTte~~KLl~TI  165 (725)
T PRK07133         88 DIIEMDAASNNGVDE-IRELIENVKNLPTQSKYKIYIIDEVHMLSKSAFNALLKTLE-EPPKHVIFILATTEVHKIPLTI  165 (725)
T ss_pred             cEEEEeccccCCHHH-HHHHHHHHHhchhcCCCEEEEEEChhhCCHHHHHHHHHHhh-cCCCceEEEEEcCChhhhhHHH
Confidence            000 00000011111 22222222     2455699999997553  3444444443 2333444 445655554432 2


Q ss_pred             ccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcH-HHHHH
Q 043737          210 MEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPL-ALITV  266 (371)
Q Consensus       210 ~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl-al~~~  266 (371)
                      .+....+++.+++.++....+...+...+...+   .+.+..|++.++|.+. |+..+
T Consensus       166 ~SRcq~ieF~~L~~eeI~~~L~~il~kegI~id---~eAl~~LA~lS~GslR~AlslL  220 (725)
T PRK07133        166 LSRVQRFNFRRISEDEIVSRLEFILEKENISYE---KNALKLIAKLSSGSLRDALSIA  220 (725)
T ss_pred             HhhceeEEccCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCCHHHHHHHH
Confidence            345578999999999999999887644332222   3457889999999765 44443

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=98.75  E-value=1.9e-07  Score=87.13  Aligned_cols=171  Identities=16%  Similarity=0.180  Sum_probs=98.5

Q ss_pred             CccccchhHHHHHHHHHhc-------------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCH
Q 043737           62 PTVVGLQSTFDRVWRCLME-------------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQL  128 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~-------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~  128 (371)
                      ..+.|++..+++|.+.+..             ...+-+.|+|++|+|||++|+.+++..   ...|     +.+..    
T Consensus       122 ~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l---~~~~-----~~v~~----  189 (364)
T TIGR01242       122 EDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHET---NATF-----IRVVG----  189 (364)
T ss_pred             HHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhC---CCCE-----Eecch----
Confidence            3578999999999887642             124569999999999999999999987   3332     22111    


Q ss_pred             HHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHh-CCCceEEEEeCCCCccc----------------ccccccccC-CC
Q 043737          129 EQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNM-SNKKFVLLLDHIWELVD----------------LSQVGLPVP-CR  190 (371)
Q Consensus       129 ~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~~~----------------~~~~~~~l~-~~  190 (371)
                      ..+.....   +         ........+.+.. ...+.+|+||+++....                +..+...+. ..
T Consensus       190 ~~l~~~~~---g---------~~~~~i~~~f~~a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~  257 (364)
T TIGR01242       190 SELVRKYI---G---------EGARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFD  257 (364)
T ss_pred             HHHHHHhh---h---------HHHHHHHHHHHHHHhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCC
Confidence            11111110   0         0111222233222 34678999999975311                111111111 01


Q ss_pred             CCCCcEEEEecCchHH-----HhhccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCc
Q 043737          191 TSASNKTVFTARELEV-----CGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLP  260 (371)
Q Consensus       191 ~~~~~~iliTsR~~~~-----~~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~P  260 (371)
                      ...+..||.||.....     .+...-...+.++..+.++..++|...........+-.    ...+++.+.|..
T Consensus       258 ~~~~v~vI~ttn~~~~ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~l~~~~~----~~~la~~t~g~s  328 (364)
T TIGR01242       258 PRGNVKVIAATNRPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLAEDVD----LEAIAKMTEGAS  328 (364)
T ss_pred             CCCCEEEEEecCChhhCChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcCCCCccCC----HHHHHHHcCCCC
Confidence            2346677777765322     11111235689999999999999998875543222222    567777887754

Many proteins may score above the trusted cutoff because an internal

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.74  E-value=3.7e-07  Score=90.09  Aligned_cols=196  Identities=13%  Similarity=0.142  Sum_probs=111.9

Q ss_pred             CCccccchhHHHHHHHHHhcCCc-eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHh
Q 043737           61 PPTVVGLQSTFDRVWRCLMEEQM-GIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKI  139 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l  139 (371)
                      -..++|.+..++.|..++..+.. ..+.++|+.|+||||+|+.+++.+. ......      ....++.-..+..+....
T Consensus        15 ~~eiiGq~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~-c~~~~~------~~~~c~~c~~c~~i~~~~   87 (585)
T PRK14950         15 FAELVGQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAVN-CTTNDP------KGRPCGTCEMCRAIAEGS   87 (585)
T ss_pred             HHHhcCCHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhc-CCCCCC------CCCCCccCHHHHHHhcCC
Confidence            35689999999999998876554 5678999999999999999998872 111000      000111122333333221


Q ss_pred             ccCC---CCCCcCCHHHHHHHHHHHh-----CCCceEEEEeCCCCcc--cccccccccCCCCCCCcEEEEec-CchHHHh
Q 043737          140 NLFN---ESWNSRSLQEKSQDIVKNM-----SNKKFVLLLDHIWELV--DLSQVGLPVPCRTSASNKTVFTA-RELEVCG  208 (371)
Q Consensus       140 ~~~~---~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~~--~~~~~~~~l~~~~~~~~~iliTs-R~~~~~~  208 (371)
                      ....   ........++ ++.+.+.+     .+++-++|||+++...  ..+.+...+. ....++.+|+++ ....+..
T Consensus        88 ~~d~~~i~~~~~~~vd~-ir~ii~~~~~~p~~~~~kVvIIDEa~~L~~~a~naLLk~LE-epp~~tv~Il~t~~~~kll~  165 (585)
T PRK14950         88 AVDVIEMDAASHTSVDD-AREIIERVQFRPALARYKVYIIDEVHMLSTAAFNALLKTLE-EPPPHAIFILATTEVHKVPA  165 (585)
T ss_pred             CCeEEEEeccccCCHHH-HHHHHHHHhhCcccCCeEEEEEeChHhCCHHHHHHHHHHHh-cCCCCeEEEEEeCChhhhhH
Confidence            1100   0001111222 12222222     1345699999997553  3444444443 333445555544 3333322


Q ss_pred             -hccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHH
Q 043737          209 -QMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGR  268 (371)
Q Consensus       209 -~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~  268 (371)
                       ..+....+.+.+++.++....+...+...+...+   .+.+..|++.++|.+..+.....
T Consensus       166 tI~SR~~~i~f~~l~~~el~~~L~~~a~~egl~i~---~eal~~La~~s~Gdlr~al~~Le  223 (585)
T PRK14950        166 TILSRCQRFDFHRHSVADMAAHLRKIAAAEGINLE---PGALEAIARAATGSMRDAENLLQ  223 (585)
T ss_pred             HHHhccceeeCCCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCCHHHHHHHHH
Confidence             2234567889999999999999887755432222   35588999999998865554443

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=98.74  E-value=7e-07  Score=87.07  Aligned_cols=192  Identities=13%  Similarity=0.119  Sum_probs=108.4

Q ss_pred             CccccchhHHHHHHHHHhcCCc-eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhc
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQM-GIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKIN  140 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~  140 (371)
                      ..++|-+..++.|..++.++.. ..+.++|+.|+||||+|+.+++.+.. ......   ..++...+    ...+...-.
T Consensus        16 ~diiGqe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c-~~~~~~---~pC~~C~~----C~~i~~~~~   87 (563)
T PRK06647         16 NSLEGQDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAFARCLNC-VNGPTP---MPCGECSS----CKSIDNDNS   87 (563)
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhcc-ccCCCC---CCCccchH----HHHHHcCCC
Confidence            5689999999999999987654 46889999999999999999988721 111000   00000000    011111000


Q ss_pred             cC---CCCCCcCCHHHHHHHHHHH-----hCCCceEEEEeCCCCccc--ccccccccCCCCCCCcEEEEec-CchHHHhh
Q 043737          141 LF---NESWNSRSLQEKSQDIVKN-----MSNKKFVLLLDHIWELVD--LSQVGLPVPCRTSASNKTVFTA-RELEVCGQ  209 (371)
Q Consensus       141 ~~---~~~~~~~~~~~~~~~l~~~-----l~~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~~~iliTs-R~~~~~~~  209 (371)
                      ..   .........++.. .+.+.     ..+++-++|+|+++....  .+.+...+. .....+.+|++| ....+...
T Consensus        88 ~dv~~idgas~~~vddIr-~l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a~naLLK~LE-epp~~~vfI~~tte~~kL~~t  165 (563)
T PRK06647         88 LDVIEIDGASNTSVQDVR-QIKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLKTIE-EPPPYIVFIFATTEVHKLPAT  165 (563)
T ss_pred             CCeEEecCcccCCHHHHH-HHHHHHHhchhcCCCEEEEEEChhhcCHHHHHHHHHhhc-cCCCCEEEEEecCChHHhHHH
Confidence            00   0000011122221 12111     124556899999986532  444444444 333455555544 43333322


Q ss_pred             -ccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHH
Q 043737          210 -MEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITV  266 (371)
Q Consensus       210 -~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~  266 (371)
                       .+....+++.+++.++..+.+...+.......   .++.+..|++.++|.+..+...
T Consensus       166 I~SRc~~~~f~~l~~~el~~~L~~i~~~egi~i---d~eAl~lLa~~s~GdlR~alsl  220 (563)
T PRK06647        166 IKSRCQHFNFRLLSLEKIYNMLKKVCLEDQIKY---EDEALKWIAYKSTGSVRDAYTL  220 (563)
T ss_pred             HHHhceEEEecCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHHHHH
Confidence             34456789999999999999988775433222   2455888999999988544433

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=98.74  E-value=1.9e-07  Score=95.45  Aligned_cols=183  Identities=13%  Similarity=0.099  Sum_probs=101.5

Q ss_pred             CccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCC--C-CCCe-EEEEEeCCcCCHHHHHHHHHH
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTP--N-DFDF-VIWVVASKDLQLEQIQGSIAK  137 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~--~-~f~~-~~wv~~~~~~~~~~~~~~l~~  137 (371)
                      +.++||++++.+++..|.......+.++|++|+|||++|..+++++....  . -.+. ++.++++.-.           
T Consensus       187 d~~iGr~~ei~~~i~~l~r~~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~l~-----------  255 (852)
T TIGR03345       187 DPVLGRDDEIRQMIDILLRRRQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGLLQ-----------  255 (852)
T ss_pred             CcccCCHHHHHHHHHHHhcCCcCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhhhh-----------
Confidence            56899999999999998777667888999999999999999999872110  0 1112 2223222100           


Q ss_pred             HhccCCCCCCcCCHHHHHHHHHHHhC--CCceEEEEeCCCCccc-------ccccccccCCCCCCCcEEEEecCchHHH-
Q 043737          138 KINLFNESWNSRSLQEKSQDIVKNMS--NKKFVLLLDHIWELVD-------LSQVGLPVPCRTSASNKTVFTARELEVC-  207 (371)
Q Consensus       138 ~l~~~~~~~~~~~~~~~~~~l~~~l~--~~~~LlVlDdv~~~~~-------~~~~~~~l~~~~~~~~~iliTsR~~~~~-  207 (371)
                          .... .....+..++.+...+.  +++++|++|+++....       .+.-....+.......++|-+|....+. 
T Consensus       256 ----ag~~-~~ge~e~~lk~ii~e~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~l~~G~l~~IgaTT~~e~~~  330 (852)
T TIGR03345       256 ----AGAS-VKGEFENRLKSVIDEVKASPQPIILFIDEAHTLIGAGGQAGQGDAANLLKPALARGELRTIAATTWAEYKK  330 (852)
T ss_pred             ----cccc-cchHHHHHHHHHHHHHHhcCCCeEEEEeChHHhccCCCccccccHHHHhhHHhhCCCeEEEEecCHHHHhh
Confidence                0000 11112222223333222  4689999999975421       1110012231122334555555543221 


Q ss_pred             ------hhccCCCceeecCCChHHHHHHHHHHhCCCCC-CCCCCHHHHHHHHHHHcCCCc
Q 043737          208 ------GQMEAHKSFKVERLGYEDAWKLFEEKVGKEIL-DSHPDIPELAETVAKECGGLP  260 (371)
Q Consensus       208 ------~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~-~~~~~~~~~~~~i~~~~~g~P  260 (371)
                            ......+.+.+++++.+++.++++........ ..-.-..+....+++.+.++.
T Consensus       331 ~~~~d~AL~rRf~~i~v~eps~~~~~~iL~~~~~~~e~~~~v~i~d~al~~~~~ls~ryi  390 (852)
T TIGR03345       331 YFEKDPALTRRFQVVKVEEPDEETAIRMLRGLAPVLEKHHGVLILDEAVVAAVELSHRYI  390 (852)
T ss_pred             hhhccHHHHHhCeEEEeCCCCHHHHHHHHHHHHHhhhhcCCCeeCHHHHHHHHHHccccc
Confidence                  11124468999999999999997544321110 011122455677777776644

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.

>PRK06620 hypothetical protein; Validated

Probab=98.73  E-value=1.8e-07  Score=80.18  Aligned_cols=142  Identities=8%  Similarity=-0.020  Sum_probs=86.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhC
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMS  163 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~  163 (371)
                      +.+.|+|++|+|||+|++.+++..   ..     .++....  .    ..                          ... 
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~---~~-----~~~~~~~--~----~~--------------------------~~~-   83 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLS---NA-----YIIKDIF--F----NE--------------------------EIL-   83 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhcc---CC-----EEcchhh--h----ch--------------------------hHH-
Confidence            679999999999999999887765   11     1211000  0    00                          001 


Q ss_pred             CCceEEEEeCCCCcccccccccccCCCCCCCcEEEEecCchH-------HHhhccCCCceeecCCChHHHHHHHHHHhCC
Q 043737          164 NKKFVLLLDHIWELVDLSQVGLPVPCRTSASNKTVFTARELE-------VCGQMEAHKSFKVERLGYEDAWKLFEEKVGK  236 (371)
Q Consensus       164 ~~~~LlVlDdv~~~~~~~~~~~~l~~~~~~~~~iliTsR~~~-------~~~~~~~~~~~~l~~L~~~ea~~ll~~~~~~  236 (371)
                      ...-++++||++...+. .+...+......|..+|+|++..+       +.+.+..+.++++++++.++-..++.+.+..
T Consensus        84 ~~~d~lliDdi~~~~~~-~lf~l~N~~~e~g~~ilits~~~p~~l~l~~L~SRl~~gl~~~l~~pd~~~~~~~l~k~~~~  162 (214)
T PRK06620         84 EKYNAFIIEDIENWQEP-ALLHIFNIINEKQKYLLLTSSDKSRNFTLPDLSSRIKSVLSILLNSPDDELIKILIFKHFSI  162 (214)
T ss_pred             hcCCEEEEeccccchHH-HHHHHHHHHHhcCCEEEEEcCCCccccchHHHHHHHhCCceEeeCCCCHHHHHHHHHHHHHH
Confidence            12247899999854321 222222212245668899887532       2334455668999999999999898887753


Q ss_pred             CCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHHHH
Q 043737          237 EILDSHPDIPELAETVAKECGGLPLALITVGRAM  270 (371)
Q Consensus       237 ~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~~l  270 (371)
                      .....+   ++.++.|++.+.|.-..+.-+...+
T Consensus       163 ~~l~l~---~ev~~~L~~~~~~d~r~l~~~l~~l  193 (214)
T PRK06620        163 SSVTIS---RQIIDFLLVNLPREYSKIIEILENI  193 (214)
T ss_pred             cCCCCC---HHHHHHHHHHccCCHHHHHHHHHHH
Confidence            332232   4568888888887665555444433

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

Probab=98.71  E-value=2.2e-06  Score=78.83  Aligned_cols=175  Identities=12%  Similarity=0.130  Sum_probs=114.8

Q ss_pred             CCccccchhHHHHHHHHHhc----CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHH
Q 043737           61 PPTVVGLQSTFDRVWRCLME----EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIA  136 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~----~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~  136 (371)
                      +...+||+.++..+..++..    +..+.+.|.|.+|.|||.+...++.+.. ....-..++++++..-.....++..|.
T Consensus       149 p~~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~-~~~~~~~~v~inc~sl~~~~aiF~kI~  227 (529)
T KOG2227|consen  149 PGTLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLS-KSSKSPVTVYINCTSLTEASAIFKKIF  227 (529)
T ss_pred             CCCccchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhhh-hhcccceeEEEeeccccchHHHHHHHH
Confidence            57799999999999999865    4567899999999999999999999873 122223567888776667777887777


Q ss_pred             HHhccCCCCCCcCCHHHHHHHHHHHhCC--CceEEEEeCCCCccc--ccccccccCCCCCCCcEEEEecCchHH------
Q 043737          137 KKINLFNESWNSRSLQEKSQDIVKNMSN--KKFVLLLDHIWELVD--LSQVGLPVPCRTSASNKTVFTARELEV------  206 (371)
Q Consensus       137 ~~l~~~~~~~~~~~~~~~~~~l~~~l~~--~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~~~iliTsR~~~~------  206 (371)
                      ..+.....  ......+....+.++..+  ..+|+|+|++|....  ...+...+.|..-.++++++..-...+      
T Consensus       228 ~~~~q~~~--s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~vLy~lFewp~lp~sr~iLiGiANslDlTdR~  305 (529)
T KOG2227|consen  228 SSLLQDLV--SPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTVLYTLFEWPKLPNSRIILIGIANSLDLTDRF  305 (529)
T ss_pred             HHHHHHhc--CCchhHHHHHHHHHHHhcccceEEEEechhhHHhhcccceeeeehhcccCCcceeeeeeehhhhhHHHHH
Confidence            77622111  111124555666666654  358999999975422  222333333445556666654332211      


Q ss_pred             Hhhc-----cCCCceeecCCChHHHHHHHHHHhCCCC
Q 043737          207 CGQM-----EAHKSFKVERLGYEDAWKLFEEKVGKEI  238 (371)
Q Consensus       207 ~~~~-----~~~~~~~l~~L~~~ea~~ll~~~~~~~~  238 (371)
                      ...+     -....+..+|.+.++..++|..++....
T Consensus       306 LprL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~~~  342 (529)
T KOG2227|consen  306 LPRLNLDLTIKPKLLVFPPYTKDQIVEILQQRLSEES  342 (529)
T ss_pred             hhhhhhccCCCCceeeecCCCHHHHHHHHHHHHhccc
Confidence            1111     1234678899999999999999986543

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=98.71  E-value=4.5e-07  Score=85.03  Aligned_cols=170  Identities=14%  Similarity=0.152  Sum_probs=97.4

Q ss_pred             CccccchhHHHHHHHHHhc-------------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCH
Q 043737           62 PTVVGLQSTFDRVWRCLME-------------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQL  128 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~-------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~  128 (371)
                      +.+.|++..+++|.+.+..             ...+.|.|+|++|+|||++|+.+++..   ...     |+.+..    
T Consensus       131 ~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~---~~~-----~i~v~~----  198 (389)
T PRK03992        131 EDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHET---NAT-----FIRVVG----  198 (389)
T ss_pred             HHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHh---CCC-----EEEeeh----
Confidence            3467999999999887632             235679999999999999999999887   222     222211    


Q ss_pred             HHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHh-CCCceEEEEeCCCCccc------------c-ccccccc---C-CC
Q 043737          129 EQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNM-SNKKFVLLLDHIWELVD------------L-SQVGLPV---P-CR  190 (371)
Q Consensus       129 ~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~~~------------~-~~~~~~l---~-~~  190 (371)
                      .++...    .       .. ........+.... ...+.+|+||+++....            . ..+...+   . ..
T Consensus       199 ~~l~~~----~-------~g-~~~~~i~~~f~~a~~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~  266 (389)
T PRK03992        199 SELVQK----F-------IG-EGARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFD  266 (389)
T ss_pred             HHHhHh----h-------cc-chHHHHHHHHHHHHhcCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccC
Confidence            111111    0       00 1112222333322 34678999999975310            0 0111111   1 01


Q ss_pred             CCCCcEEEEecCchHH-Hhhc----cCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCC
Q 043737          191 TSASNKTVFTARELEV-CGQM----EAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGL  259 (371)
Q Consensus       191 ~~~~~~iliTsR~~~~-~~~~----~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~  259 (371)
                      ...+..||.||..... ...+    .-...+.+++.+.++-.++|+.+..........+    ...+++.+.|.
T Consensus       267 ~~~~v~VI~aTn~~~~ld~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~~~~~~~~~~----~~~la~~t~g~  336 (389)
T PRK03992        267 PRGNVKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLADDVD----LEELAELTEGA  336 (389)
T ss_pred             CCCCEEEEEecCChhhCCHHHcCCccCceEEEECCCCHHHHHHHHHHHhccCCCCCcCC----HHHHHHHcCCC
Confidence            2235566666654322 1111    1235689999999999999998876544332223    56677777775

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=98.70  E-value=5.4e-07  Score=86.60  Aligned_cols=183  Identities=12%  Similarity=0.159  Sum_probs=109.4

Q ss_pred             CccccchhHHHHHHHHHhcCCce-EEEEEcCCCCcHHHHHHHHHhhccCCCC-C-----------------CCeEEEEEe
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQMG-IVGLYGMGEVGKTTLLTQINKKFLHTPN-D-----------------FDFVIWVVA  122 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~~-~v~I~G~~GiGKTtLa~~~~~~~~~~~~-~-----------------f~~~~wv~~  122 (371)
                      ..++|-+...+.|..++..+... .+.++|+.|+||||+|+.+++.+-.... .                 ...++.++.
T Consensus        14 deiiGqe~v~~~L~~~I~~grl~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C~~~~~~~h~dv~elda   93 (535)
T PRK08451         14 DELIGQESVSKTLSLALDNNRLAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQCQSALENRHIDIIEMDA   93 (535)
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhhcCCCeEEEecc
Confidence            56899999999999999776554 6689999999999999999888621110 0                 011222221


Q ss_pred             CCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc--ccccccccCCCCCCCcEEEEe
Q 043737          123 SKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD--LSQVGLPVPCRTSASNKTVFT  200 (371)
Q Consensus       123 ~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~~~iliT  200 (371)
                      .....++++. ++........                  ..+++-++|+|+++....  .+.+...+. ....++.+|++
T Consensus        94 as~~gId~IR-elie~~~~~P------------------~~~~~KVvIIDEad~Lt~~A~NALLK~LE-Epp~~t~FIL~  153 (535)
T PRK08451         94 ASNRGIDDIR-ELIEQTKYKP------------------SMARFKIFIIDEVHMLTKEAFNALLKTLE-EPPSYVKFILA  153 (535)
T ss_pred             ccccCHHHHH-HHHHHHhhCc------------------ccCCeEEEEEECcccCCHHHHHHHHHHHh-hcCCceEEEEE
Confidence            1111122211 1111111000                  013455999999986532  334444443 33445666655


Q ss_pred             cCch-HHH-hhccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHH
Q 043737          201 AREL-EVC-GQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVG  267 (371)
Q Consensus       201 sR~~-~~~-~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a  267 (371)
                      |.+. .+. ...+....+++.+++.++....+...+...+...   ..+.+..|++.++|.+.-+....
T Consensus       154 ttd~~kL~~tI~SRc~~~~F~~Ls~~ei~~~L~~Il~~EGi~i---~~~Al~~Ia~~s~GdlR~alnlL  219 (535)
T PRK08451        154 TTDPLKLPATILSRTQHFRFKQIPQNSIISHLKTILEKEGVSY---EPEALEILARSGNGSLRDTLTLL  219 (535)
T ss_pred             ECChhhCchHHHhhceeEEcCCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCcHHHHHHHH
Confidence            5442 222 1223456889999999999999988775544222   24568899999999886554443

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=98.70  E-value=4.9e-07  Score=86.14  Aligned_cols=179  Identities=13%  Similarity=0.140  Sum_probs=105.7

Q ss_pred             CCccccchhHHHHHHHHHhcCCc-eEEEEEcCCCCcHHHHHHHHHhhccCCCC--------------------CCCeEEE
Q 043737           61 PPTVVGLQSTFDRVWRCLMEEQM-GIVGLYGMGEVGKTTLLTQINKKFLHTPN--------------------DFDFVIW  119 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~~~~--------------------~f~~~~w  119 (371)
                      -..++|.+..++.|.+++..+.. ..+.++|+.|+||||+|..+++.+.....                    +++ +++
T Consensus        16 ~~diiGq~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~~i~~~~~~d-~~~   94 (451)
T PRK06305         16 FSEILGQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCKEISSGTSLD-VLE   94 (451)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHHHHhcCCCCc-eEE
Confidence            36689999999999999977654 56889999999999999999888621100                    111 111


Q ss_pred             EEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCcc--cccccccccCCCCCCCcEE
Q 043737          120 VVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELV--DLSQVGLPVPCRTSASNKT  197 (371)
Q Consensus       120 v~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~--~~~~~~~~l~~~~~~~~~i  197 (371)
                      +........++ .+++...+..                  .-..+.+-++|+|+++...  ..+.+...+. ....++.+
T Consensus        95 i~g~~~~gid~-ir~i~~~l~~------------------~~~~~~~kvvIIdead~lt~~~~n~LLk~lE-ep~~~~~~  154 (451)
T PRK06305         95 IDGASHRGIED-IRQINETVLF------------------TPSKSRYKIYIIDEVHMLTKEAFNSLLKTLE-EPPQHVKF  154 (451)
T ss_pred             eeccccCCHHH-HHHHHHHHHh------------------hhhcCCCEEEEEecHHhhCHHHHHHHHHHhh-cCCCCceE
Confidence            11111111111 1111111110                  0012456689999997553  2333433443 33345555


Q ss_pred             EEec-CchHHHh-hccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHH
Q 043737          198 VFTA-RELEVCG-QMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLAL  263 (371)
Q Consensus       198 liTs-R~~~~~~-~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal  263 (371)
                      |++| +...+.. ..+....+++.+++.++....+...+...+...   ..+.+..|++.++|.+.-+
T Consensus       155 Il~t~~~~kl~~tI~sRc~~v~f~~l~~~el~~~L~~~~~~eg~~i---~~~al~~L~~~s~gdlr~a  219 (451)
T PRK06305        155 FLATTEIHKIPGTILSRCQKMHLKRIPEETIIDKLALIAKQEGIET---SREALLPIARAAQGSLRDA  219 (451)
T ss_pred             EEEeCChHhcchHHHHhceEEeCCCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHH
Confidence            5554 3333322 223456789999999999999988765433222   2455889999999976533

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=98.70  E-value=2.2e-06  Score=75.71  Aligned_cols=201  Identities=15%  Similarity=0.167  Sum_probs=118.7

Q ss_pred             Cccccchh---HHHHHHHHHhc---CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCC---CeEEEEEeCCcCCHHHHH
Q 043737           62 PTVVGLQS---TFDRVWRCLME---EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDF---DFVIWVVASKDLQLEQIQ  132 (371)
Q Consensus        62 ~~~vGR~~---~~~~l~~~L~~---~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f---~~~~wv~~~~~~~~~~~~  132 (371)
                      +.++|-..   .+++|.+.+..   ...+.+.|+|.+|+|||++++++.+.+....+.-   --|+.+.....++...++
T Consensus        34 ~rWIgY~~A~~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y  113 (302)
T PF05621_consen   34 DRWIGYPRAKEALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFY  113 (302)
T ss_pred             CCeecCHHHHHHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHH
Confidence            55677543   34444444433   3557899999999999999999998874222111   147778888899999999


Q ss_pred             HHHHHHhccCCCCCCcCCHHHHHHHHHHHhCC-CceEEEEeCCCCccc---------ccccccccCCCCCCCcEEEEecC
Q 043737          133 GSIAKKINLFNESWNSRSLQEKSQDIVKNMSN-KKFVLLLDHIWELVD---------LSQVGLPVPCRTSASNKTVFTAR  202 (371)
Q Consensus       133 ~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~-~~~LlVlDdv~~~~~---------~~~~~~~l~~~~~~~~~iliTsR  202 (371)
                      ..|+.+++.+...  ..+...........++. +.-+||||++++...         ++.+. .+. ..-.=+-|.+-|+
T Consensus       114 ~~IL~~lgaP~~~--~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK-~L~-NeL~ipiV~vGt~  189 (302)
T PF05621_consen  114 SAILEALGAPYRP--RDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALK-FLG-NELQIPIVGVGTR  189 (302)
T ss_pred             HHHHHHhCcccCC--CCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHH-HHh-hccCCCeEEeccH
Confidence            9999999987653  34445555555555554 344999999987421         11111 111 1112224445454


Q ss_pred             chHHH-hh----ccCCCceeecCCCh-HHHHHHHHHHhCCCC--CCCCCCHHHHHHHHHHHcCCCcHHHHHH
Q 043737          203 ELEVC-GQ----MEAHKSFKVERLGY-EDAWKLFEEKVGKEI--LDSHPDIPELAETVAKECGGLPLALITV  266 (371)
Q Consensus       203 ~~~~~-~~----~~~~~~~~l~~L~~-~ea~~ll~~~~~~~~--~~~~~~~~~~~~~i~~~~~g~Plal~~~  266 (371)
                      .-..+ ..    .+...++.++.... ++...|+........  ..+.-...+++..|+..++|+.--+..+
T Consensus       190 ~A~~al~~D~QLa~RF~~~~Lp~W~~d~ef~~LL~s~e~~LPLr~~S~l~~~~la~~i~~~s~G~iG~l~~l  261 (302)
T PF05621_consen  190 EAYRALRTDPQLASRFEPFELPRWELDEEFRRLLASFERALPLRKPSNLASPELARRIHERSEGLIGELSRL  261 (302)
T ss_pred             HHHHHhccCHHHHhccCCccCCCCCCCcHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHcCCchHHHHHH
Confidence            32111 00    02245666766664 344455443322111  1223345678999999999987555444

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=98.65  E-value=8.2e-07  Score=84.09  Aligned_cols=163  Identities=19%  Similarity=0.193  Sum_probs=98.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHh
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNM  162 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l  162 (371)
                      ...+.|+|++|+|||+|++.+++.... ...-..+++++.      .++...+...+...       ..    ..+.+.+
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~~l~~-~~~~~~v~yi~~------~~~~~~~~~~~~~~-------~~----~~~~~~~  197 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGNEILE-NNPNAKVVYVSS------EKFTNDFVNALRNN-------KM----EEFKEKY  197 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHHH-hCCCCcEEEEEH------HHHHHHHHHHHHcC-------CH----HHHHHHH
Confidence            357899999999999999999998731 111235666643      34444555544311       11    2233333


Q ss_pred             CCCceEEEEeCCCCccc----ccccccccCCCCCCCcEEEEecCchH---------HHhhccCCCceeecCCChHHHHHH
Q 043737          163 SNKKFVLLLDHIWELVD----LSQVGLPVPCRTSASNKTVFTARELE---------VCGQMEAHKSFKVERLGYEDAWKL  229 (371)
Q Consensus       163 ~~~~~LlVlDdv~~~~~----~~~~~~~l~~~~~~~~~iliTsR~~~---------~~~~~~~~~~~~l~~L~~~ea~~l  229 (371)
                      .+ .-+|+|||++....    .+.+...+......+..+++||....         +.+.+..+..+.+++.+.++-..+
T Consensus       198 ~~-~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~~p~~l~~l~~~l~SRl~~g~~v~i~~pd~~~r~~i  276 (405)
T TIGR00362       198 RS-VDLLLIDDIQFLAGKERTQEEFFHTFNALHENGKQIVLTSDRPPKELPGLEERLRSRFEWGLVVDIEPPDLETRLAI  276 (405)
T ss_pred             Hh-CCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCCCHHHHhhhhhhhhhhccCCeEEEeCCCCHHHHHHH
Confidence            33 33899999975322    11222222211223556788776421         222333445789999999999999


Q ss_pred             HHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHH
Q 043737          230 FEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVG  267 (371)
Q Consensus       230 l~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a  267 (371)
                      +.+.+.......+   ++.+..|++.+.|....+.-+.
T Consensus       277 l~~~~~~~~~~l~---~e~l~~ia~~~~~~~r~l~~~l  311 (405)
T TIGR00362       277 LQKKAEEEGLELP---DEVLEFIAKNIRSNVRELEGAL  311 (405)
T ss_pred             HHHHHHHcCCCCC---HHHHHHHHHhcCCCHHHHHHHH
Confidence            9998865443333   4668999999999877655443

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).

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

Probab=98.65  E-value=1.9e-06  Score=73.44  Aligned_cols=195  Identities=13%  Similarity=0.152  Sum_probs=114.3

Q ss_pred             hHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEe-CCcCCHHHHHHHHHHHhccCCCCCC
Q 043737           69 STFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVA-SKDLQLEQIQGSIAKKINLFNESWN  147 (371)
Q Consensus        69 ~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~-~~~~~~~~~~~~l~~~l~~~~~~~~  147 (371)
                      +.+..+...+ .++.+++.|+|.-|+|||.+.+.+...+   .+. .... +.. .+..+...+...+...+........
T Consensus        38 e~l~~l~~~i-~d~qg~~~vtGevGsGKTv~~Ral~~s~---~~d-~~~~-v~i~~~~~s~~~~~~ai~~~l~~~p~~~~  111 (269)
T COG3267          38 EALLMLHAAI-ADGQGILAVTGEVGSGKTVLRRALLASL---NED-QVAV-VVIDKPTLSDATLLEAIVADLESQPKVNV  111 (269)
T ss_pred             HHHHHHHHHH-hcCCceEEEEecCCCchhHHHHHHHHhc---CCC-ceEE-EEecCcchhHHHHHHHHHHHhccCccchh
Confidence            3344444443 3456799999999999999999665555   111 2222 333 3445677888888888876322111


Q ss_pred             cCCHHHHHHHHHHHh-CCCc-eEEEEeCCCCc--ccccccccccCC--CCCCCcEEEEecCchHH-------Hhhc-cCC
Q 043737          148 SRSLQEKSQDIVKNM-SNKK-FVLLLDHIWEL--VDLSQVGLPVPC--RTSASNKTVFTARELEV-------CGQM-EAH  213 (371)
Q Consensus       148 ~~~~~~~~~~l~~~l-~~~~-~LlVlDdv~~~--~~~~~~~~~l~~--~~~~~~~iliTsR~~~~-------~~~~-~~~  213 (371)
                      ....+...+.+.... ++++ ..+++|+.++.  ..++.+..+...  .....-+|+.....+-.       .... ...
T Consensus       112 ~~~~e~~~~~L~al~~~g~r~v~l~vdEah~L~~~~le~Lrll~nl~~~~~~~l~ivL~Gqp~L~~~lr~~~l~e~~~R~  191 (269)
T COG3267         112 NAVLEQIDRELAALVKKGKRPVVLMVDEAHDLNDSALEALRLLTNLEEDSSKLLSIVLIGQPKLRPRLRLPVLRELEQRI  191 (269)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCeEEeehhHhhhChhHHHHHHHHHhhcccccCceeeeecCCcccchhhchHHHHhhhheE
Confidence            222333344444444 3455 89999999754  333333222221  11122234443322110       1111 111


Q ss_pred             Cc-eeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHHH
Q 043737          214 KS-FKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRA  269 (371)
Q Consensus       214 ~~-~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~~  269 (371)
                      .. |++.|++.++...+++.++.....+.+--..+....|.....|.|.+|+.++..
T Consensus       192 ~ir~~l~P~~~~~t~~yl~~~Le~a~~~~~l~~~~a~~~i~~~sqg~P~lin~~~~~  248 (269)
T COG3267         192 DIRIELPPLTEAETGLYLRHRLEGAGLPEPLFSDDALLLIHEASQGIPRLINNLATL  248 (269)
T ss_pred             EEEEecCCcChHHHHHHHHHHHhccCCCcccCChhHHHHHHHHhccchHHHHHHHHH
Confidence            23 899999999999999998866543343344567889999999999999988743

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

Probab=98.65  E-value=1.2e-07  Score=82.48  Aligned_cols=186  Identities=14%  Similarity=0.143  Sum_probs=113.5

Q ss_pred             CCCCCccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCC-eEEEEEeCCcCCHHHHHHHHH
Q 043737           58 RPLPPTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFD-FVIWVVASKDLQLEQIQGSIA  136 (371)
Q Consensus        58 ~~~~~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~-~~~wv~~~~~~~~~~~~~~l~  136 (371)
                      |..-..++|-+..++-|.+.+.....+....|||+|.|||+-|..++..+ ...+-|. +++=.+++......-+-..+ 
T Consensus        32 Pkt~de~~gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalafar~L-~~~~~~~~rvl~lnaSderGisvvr~Ki-  109 (346)
T KOG0989|consen   32 PKTFDELAGQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAFARAL-NCEQLFPCRVLELNASDERGISVVREKI-  109 (346)
T ss_pred             CCcHHhhcchHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHHHHHHHHh-cCccccccchhhhcccccccccchhhhh-
Confidence            33446789999999999999988778899999999999999999999987 2334444 44444444433222000000 


Q ss_pred             HHhccCCCCCCcCCHHHHHHHHHHHh--CCCc-eEEEEeCCCCc--ccccccccccCCCCCCCcEE-EEecCchHHHh-h
Q 043737          137 KKINLFNESWNSRSLQEKSQDIVKNM--SNKK-FVLLLDHIWEL--VDLSQVGLPVPCRTSASNKT-VFTARELEVCG-Q  209 (371)
Q Consensus       137 ~~l~~~~~~~~~~~~~~~~~~l~~~l--~~~~-~LlVlDdv~~~--~~~~~~~~~l~~~~~~~~~i-liTsR~~~~~~-~  209 (371)
                                  .+............  ...+ -++|||+++.+  +.|..+...+. .....++. +||+--..+.. .
T Consensus       110 ------------k~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE-~~s~~trFiLIcnylsrii~pi  176 (346)
T KOG0989|consen  110 ------------KNFAKLTVLLKRSDGYPCPPFKIIILDECDSMTSDAQAALRRTME-DFSRTTRFILICNYLSRIIRPL  176 (346)
T ss_pred             ------------cCHHHHhhccccccCCCCCcceEEEEechhhhhHHHHHHHHHHHh-ccccceEEEEEcCChhhCChHH
Confidence                        00000000000000  0122 38999999866  44666655555 33444554 45543332211 1


Q ss_pred             ccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcH
Q 043737          210 MEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPL  261 (371)
Q Consensus       210 ~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl  261 (371)
                      .+...-+..++|..++...-++..+...+...+.   +..+.|++.++|--.
T Consensus       177 ~SRC~KfrFk~L~d~~iv~rL~~Ia~~E~v~~d~---~al~~I~~~S~GdLR  225 (346)
T KOG0989|consen  177 VSRCQKFRFKKLKDEDIVDRLEKIASKEGVDIDD---DALKLIAKISDGDLR  225 (346)
T ss_pred             HhhHHHhcCCCcchHHHHHHHHHHHHHhCCCCCH---HHHHHHHHHcCCcHH
Confidence            1234568899999999999999888766644443   348899999998543

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.65  E-value=9.5e-07  Score=87.13  Aligned_cols=195  Identities=15%  Similarity=0.108  Sum_probs=110.0

Q ss_pred             CccccchhHHHHHHHHHhcCC-ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhc
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQ-MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKIN  140 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~  140 (371)
                      ..++|.+..++.|..++..+. ...+.++|+.|+||||+|+.+++.+.. . .......    ..+..-..++.+.....
T Consensus        16 ~~liGq~~i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c-~-~~~~~~~----~~Cg~C~~C~~i~~g~h   89 (620)
T PRK14948         16 DELVGQEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARILAKSLNC-L-NSDKPTP----EPCGKCELCRAIAAGNA   89 (620)
T ss_pred             hhccChHHHHHHHHHHHHcCCCCceEEEECCCCCChHHHHHHHHHHhcC-C-CcCCCCC----CCCcccHHHHHHhcCCC
Confidence            568999999999999997754 367889999999999999999998721 1 1100000    11111122333322211


Q ss_pred             cCC---CCCCcCCHHHHHHHHHHHh-----CCCceEEEEeCCCCcc--cccccccccCCCCCCCcEEE-EecCchHHHhh
Q 043737          141 LFN---ESWNSRSLQEKSQDIVKNM-----SNKKFVLLLDHIWELV--DLSQVGLPVPCRTSASNKTV-FTARELEVCGQ  209 (371)
Q Consensus       141 ~~~---~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~~--~~~~~~~~l~~~~~~~~~il-iTsR~~~~~~~  209 (371)
                      ...   ........++ ++.+.+.+     .+++-++|||+++...  ..+.+...+. .....+.+| +|+....+...
T Consensus        90 ~D~~ei~~~~~~~vd~-IReii~~a~~~p~~~~~KViIIDEad~Lt~~a~naLLK~LE-ePp~~tvfIL~t~~~~~llpT  167 (620)
T PRK14948         90 LDVIEIDAASNTGVDN-IRELIERAQFAPVQARWKVYVIDECHMLSTAAFNALLKTLE-EPPPRVVFVLATTDPQRVLPT  167 (620)
T ss_pred             ccEEEEeccccCCHHH-HHHHHHHHhhChhcCCceEEEEECccccCHHHHHHHHHHHh-cCCcCeEEEEEeCChhhhhHH
Confidence            100   0001111211 12222222     2345599999998653  3444444444 223344444 45544333322


Q ss_pred             -ccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHH
Q 043737          210 -MEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVG  267 (371)
Q Consensus       210 -~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a  267 (371)
                       .+....+++.+++.++....+...+.......+   .+.+..|++.++|.+..+....
T Consensus       168 IrSRc~~~~f~~l~~~ei~~~L~~ia~kegi~is---~~al~~La~~s~G~lr~A~~lL  223 (620)
T PRK14948        168 IISRCQRFDFRRIPLEAMVQHLSEIAEKESIEIE---PEALTLVAQRSQGGLRDAESLL  223 (620)
T ss_pred             HHhheeEEEecCCCHHHHHHHHHHHHHHhCCCCC---HHHHHHHHHHcCCCHHHHHHHH
Confidence             234567888999999999888877654332222   3458899999999876544433

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.65  E-value=7.8e-07  Score=87.74  Aligned_cols=178  Identities=14%  Similarity=0.189  Sum_probs=108.6

Q ss_pred             CccccchhHHHHHHHHHhcCCc-eEEEEEcCCCCcHHHHHHHHHhhccCC--------------------CCCCCeEEEE
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQM-GIVGLYGMGEVGKTTLLTQINKKFLHT--------------------PNDFDFVIWV  120 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~~--------------------~~~f~~~~wv  120 (371)
                      ..++|.+..++.|..++..+.. ..+.++|+.|+||||+|+.++..+...                    ..+|+ +..+
T Consensus        17 ~~viGq~~~~~~L~~~i~~~~l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~~~~~~~n-~~~l   95 (614)
T PRK14971         17 ESVVGQEALTTTLKNAIATNKLAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAFNEQRSYN-IHEL   95 (614)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHHhcCCCCc-eEEe
Confidence            5689999999999999987654 458899999999999999988876210                    11222 1222


Q ss_pred             EeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc--ccccccccCCCCCCCcEEE
Q 043737          121 VASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD--LSQVGLPVPCRTSASNKTV  198 (371)
Q Consensus       121 ~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~~~il  198 (371)
                      +.......+++ +.+..++....                  ..+++-++|+|+++....  .+.+...+. ....++.+|
T Consensus        96 d~~~~~~vd~I-r~li~~~~~~P------------------~~~~~KVvIIdea~~Ls~~a~naLLK~LE-epp~~tifI  155 (614)
T PRK14971         96 DAASNNSVDDI-RNLIEQVRIPP------------------QIGKYKIYIIDEVHMLSQAAFNAFLKTLE-EPPSYAIFI  155 (614)
T ss_pred             cccccCCHHHH-HHHHHHHhhCc------------------ccCCcEEEEEECcccCCHHHHHHHHHHHh-CCCCCeEEE
Confidence            22211112111 12222221110                  113445899999986533  444544444 333445544


Q ss_pred             E-ecCchHHHh-hccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHH
Q 043737          199 F-TARELEVCG-QMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLAL  263 (371)
Q Consensus       199 i-TsR~~~~~~-~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal  263 (371)
                      + |+....+.. ..+....+++.+++.++....+...+...+...+   .+.+..|+..++|...-+
T Consensus       156 L~tt~~~kIl~tI~SRc~iv~f~~ls~~ei~~~L~~ia~~egi~i~---~~al~~La~~s~gdlr~a  219 (614)
T PRK14971        156 LATTEKHKILPTILSRCQIFDFNRIQVADIVNHLQYVASKEGITAE---PEALNVIAQKADGGMRDA  219 (614)
T ss_pred             EEeCCchhchHHHHhhhheeecCCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCCHHHH
Confidence            4 555444433 2345678999999999999999887755442222   345788999999976543

>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=98.64  E-value=7.2e-06  Score=75.60  Aligned_cols=202  Identities=13%  Similarity=0.184  Sum_probs=128.4

Q ss_pred             chhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHH-HHHHhhccCCCCCCCeEEEEEeCC---cCCHHHHHHHHHHHhccC
Q 043737           67 LQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLL-TQINKKFLHTPNDFDFVIWVVASK---DLQLEQIQGSIAKKINLF  142 (371)
Q Consensus        67 R~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa-~~~~~~~~~~~~~f~~~~wv~~~~---~~~~~~~~~~l~~~l~~~  142 (371)
                      |.+.+++|..||.+.....|+|+||-|+||+.|+ .++..+.       ..++.+++.+   ..+...+...++.++|..
T Consensus         1 R~e~~~~L~~wL~e~~~TFIvV~GPrGSGK~elV~d~~L~~r-------~~vL~IDC~~i~~ar~D~~~I~~lA~qvGY~   73 (431)
T PF10443_consen    1 RKEAIEQLKSWLNENPNTFIVVQGPRGSGKRELVMDHVLKDR-------KNVLVIDCDQIVKARGDAAFIKNLASQVGYF   73 (431)
T ss_pred             CchHHHHHHHHHhcCCCeEEEEECCCCCCccHHHHHHHHhCC-------CCEEEEEChHhhhccChHHHHHHHHHhcCCC
Confidence            6678899999999888889999999999999999 7776664       2277887653   234566677777776541


Q ss_pred             ---------------------C-CCCCcCCHHHHHHHHHHHh------------------------------CCCceEEE
Q 043737          143 ---------------------N-ESWNSRSLQEKSQDIVKNM------------------------------SNKKFVLL  170 (371)
Q Consensus       143 ---------------------~-~~~~~~~~~~~~~~l~~~l------------------------------~~~~~LlV  170 (371)
                                           + ..--+.+.+..+..+.+..                              ...+-++|
T Consensus        74 PvFsw~nSiss~IDLa~qGltGqKaGfSes~e~Ql~~IL~~t~~ALr~ial~~~~~~~~~~~l~e~~yl~~hPe~~PVVV  153 (431)
T PF10443_consen   74 PVFSWMNSISSFIDLAVQGLTGQKAGFSESLETQLKKILQTTATALRDIALSNRKKDDKDANLKEEDYLEAHPERRPVVV  153 (431)
T ss_pred             cchHHHHHHHHHHHHHHhhccccccCCCCChHHHHHHHHHHHHHHHHHHHHHhhhccccccccCchhhhhhCCccCCEEE
Confidence                                 0 0001223333222222110                              01256999


Q ss_pred             EeCCCCcccc-----cc---cccccCCCCCCCcEEEEecCchHH----Hhhc--cCCCceeecCCChHHHHHHHHHHhCC
Q 043737          171 LDHIWELVDL-----SQ---VGLPVPCRTSASNKTVFTARELEV----CGQM--EAHKSFKVERLGYEDAWKLFEEKVGK  236 (371)
Q Consensus       171 lDdv~~~~~~-----~~---~~~~l~~~~~~~~~iliTsR~~~~----~~~~--~~~~~~~l~~L~~~ea~~ll~~~~~~  236 (371)
                      |||+.....-     +.   ....+  ..++-.+||++|-+...    ...+  ...+.+.|...+++.|.+++..++..
T Consensus       154 IdnF~~k~~~~~~iy~~laeWAa~L--v~~nIAHVIFlT~dv~~~k~LskaLPn~vf~tI~L~Das~~~Ak~yV~~~L~~  231 (431)
T PF10443_consen  154 IDNFLHKAEENDFIYDKLAEWAASL--VQNNIAHVIFLTDDVSYSKPLSKALPNRVFKTISLSDASPESAKQYVLSQLDE  231 (431)
T ss_pred             EcchhccCcccchHHHHHHHHHHHH--HhcCccEEEEECCCCchhhhHHHhCCCCceeEEeecCCCHHHHHHHHHHHhcc
Confidence            9999643221     11   11222  23344567777766433    2222  34567899999999999999999865


Q ss_pred             CCCC------------CC-----CCHHHHHHHHHHHcCCCcHHHHHHHHHHcCCCChh
Q 043737          237 EILD------------SH-----PDIPELAETVAKECGGLPLALITVGRAMASKKTPR  277 (371)
Q Consensus       237 ~~~~------------~~-----~~~~~~~~~i~~~~~g~Plal~~~a~~l~~~~~~~  277 (371)
                      ....            .+     ....+-.+..+..+||--.-|..+++.++...++.
T Consensus       232 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~eld~~i~~LGGRltDLe~lvrRiksGe~p~  289 (431)
T PF10443_consen  232 DTEDSSDSKESNEQNKNDKSAENEKDLAELDECIEPLGGRLTDLEFLVRRIKSGESPE  289 (431)
T ss_pred             cccccccccccccccccccccccccchHHHHHHHHHcCCcHHHHHHHHHHHHcCCCHH
Confidence            3110            00     12344567788889999999999999998765543

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 [].

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

Probab=98.64  E-value=2.7e-07  Score=93.51  Aligned_cols=157  Identities=15%  Similarity=0.229  Sum_probs=90.6

Q ss_pred             CccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCC--CCC-CeEEE-EEeCCcCCHHHHHHHHHH
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTP--NDF-DFVIW-VVASKDLQLEQIQGSIAK  137 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~--~~f-~~~~w-v~~~~~~~~~~~~~~l~~  137 (371)
                      +.++||++++.++...|.......+.++|++|+|||++|..++++.....  ..+ +..+| ++.+      .    +..
T Consensus       182 ~~~igr~~ei~~~~~~L~~~~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~~------~----l~a  251 (731)
T TIGR02639       182 DPLIGREDELERTIQVLCRRKKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDMG------S----LLA  251 (731)
T ss_pred             CcccCcHHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecHH------H----Hhh
Confidence            56899999999999998776667788999999999999999999873211  111 22233 2211      1    111


Q ss_pred             HhccCCCCCCcCCHHHHHHHHHHHhC-CCceEEEEeCCCCccc--------ccccccccCCCCCCCcEEEEecCchHHH-
Q 043737          138 KINLFNESWNSRSLQEKSQDIVKNMS-NKKFVLLLDHIWELVD--------LSQVGLPVPCRTSASNKTVFTARELEVC-  207 (371)
Q Consensus       138 ~l~~~~~~~~~~~~~~~~~~l~~~l~-~~~~LlVlDdv~~~~~--------~~~~~~~l~~~~~~~~~iliTsR~~~~~-  207 (371)
                      ...      .....+..++.+.+.+. .++.+|++|+++....        .+.-....+.......++|-+|....+. 
T Consensus       252 ~~~------~~g~~e~~l~~i~~~~~~~~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l~~g~i~~IgaTt~~e~~~  325 (731)
T TIGR02639       252 GTK------YRGDFEERLKAVVSEIEKEPNAILFIDEIHTIVGAGATSGGSMDASNLLKPALSSGKLRCIGSTTYEEYKN  325 (731)
T ss_pred             hcc------ccchHHHHHHHHHHHHhccCCeEEEEecHHHHhccCCCCCccHHHHHHHHHHHhCCCeEEEEecCHHHHHH
Confidence            000      11223334444444443 4578999999974321        1111111121112233444444432210 


Q ss_pred             ------hhccCCCceeecCCChHHHHHHHHHHh
Q 043737          208 ------GQMEAHKSFKVERLGYEDAWKLFEEKV  234 (371)
Q Consensus       208 ------~~~~~~~~~~l~~L~~~ea~~ll~~~~  234 (371)
                            ......+.+.+++++.++..++++...
T Consensus       326 ~~~~d~al~rRf~~i~v~~p~~~~~~~il~~~~  358 (731)
T TIGR02639       326 HFEKDRALSRRFQKIDVGEPSIEETVKILKGLK  358 (731)
T ss_pred             HhhhhHHHHHhCceEEeCCCCHHHHHHHHHHHH
Confidence                  111234679999999999999998654

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=98.61  E-value=3.8e-07  Score=87.49  Aligned_cols=182  Identities=20%  Similarity=0.191  Sum_probs=106.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHh
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNM  162 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l  162 (371)
                      ...+.|+|++|+|||+|++.+++... .......+++++..      ++...+...+..       ...    ..+.+.+
T Consensus       148 ~~~l~l~G~~G~GKThL~~ai~~~~~-~~~~~~~v~yi~~~------~~~~~~~~~~~~-------~~~----~~~~~~~  209 (450)
T PRK00149        148 YNPLFIYGGVGLGKTHLLHAIGNYIL-EKNPNAKVVYVTSE------KFTNDFVNALRN-------NTM----EEFKEKY  209 (450)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHH-HhCCCCeEEEEEHH------HHHHHHHHHHHc-------CcH----HHHHHHH
Confidence            35799999999999999999999973 11112346666443      344444444421       111    2233333


Q ss_pred             CCCceEEEEeCCCCccc----ccccccccCCCCCCCcEEEEecCchH---------HHhhccCCCceeecCCChHHHHHH
Q 043737          163 SNKKFVLLLDHIWELVD----LSQVGLPVPCRTSASNKTVFTARELE---------VCGQMEAHKSFKVERLGYEDAWKL  229 (371)
Q Consensus       163 ~~~~~LlVlDdv~~~~~----~~~~~~~l~~~~~~~~~iliTsR~~~---------~~~~~~~~~~~~l~~L~~~ea~~l  229 (371)
                      ++ .-+|+|||++....    .+.+...+......+..+++||....         +.+.+..+..+++++.+.++-..+
T Consensus       210 ~~-~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~~~~iiits~~~p~~l~~l~~~l~SRl~~gl~v~i~~pd~~~r~~i  288 (450)
T PRK00149        210 RS-VDVLLIDDIQFLAGKERTQEEFFHTFNALHEAGKQIVLTSDRPPKELPGLEERLRSRFEWGLTVDIEPPDLETRIAI  288 (450)
T ss_pred             hc-CCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHHhHhcCCeeEEecCCCHHHHHHH
Confidence            32 44899999974321    12222212111223456777776532         223344556799999999999999


Q ss_pred             HHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHHHHc------CC-CChhHHHHHHHHH
Q 043737          230 FEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAMA------SK-KTPREWEHAIEVL  286 (371)
Q Consensus       230 l~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~~l~------~~-~~~~~~~~~l~~l  286 (371)
                      +++.+.......   .++.+..|++.+.|....+.-+...|.      +. -+....+..+..+
T Consensus       289 l~~~~~~~~~~l---~~e~l~~ia~~~~~~~R~l~~~l~~l~~~~~~~~~~it~~~~~~~l~~~  349 (450)
T PRK00149        289 LKKKAEEEGIDL---PDEVLEFIAKNITSNVRELEGALNRLIAYASLTGKPITLELAKEALKDL  349 (450)
T ss_pred             HHHHHHHcCCCC---CHHHHHHHHcCcCCCHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHh
Confidence            999886433222   345689999999998775544433321      11 2445555555544

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=98.61  E-value=1.5e-06  Score=85.02  Aligned_cols=190  Identities=15%  Similarity=0.119  Sum_probs=106.0

Q ss_pred             CCccccchhHHHHHHHHHhcCC-ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHh
Q 043737           61 PPTVVGLQSTFDRVWRCLMEEQ-MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKI  139 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l  139 (371)
                      -..++|.+..++.|.+++..++ ...+.++|+.|+|||++|+.++..+. .....+..   .++.    -.....+....
T Consensus        15 f~~viGq~~v~~~L~~~i~~~~~~hayLf~Gp~GtGKTt~Ak~lAkal~-c~~~~~~~---pC~~----C~~C~~i~~g~   86 (559)
T PRK05563         15 FEDVVGQEHITKTLKNAIKQGKISHAYLFSGPRGTGKTSAAKIFAKAVN-CLNPPDGE---PCNE----CEICKAITNGS   86 (559)
T ss_pred             HHhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc-CCCCCCCC---CCCc----cHHHHHHhcCC
Confidence            3678999999999999997754 45677899999999999999988862 11110000   0000    01111111111


Q ss_pred             ccCC---CCCCcCCHHHHHHHHHHHh-----CCCceEEEEeCCCCccc--ccccccccCCCCCCCcEEE-EecCchHHHh
Q 043737          140 NLFN---ESWNSRSLQEKSQDIVKNM-----SNKKFVLLLDHIWELVD--LSQVGLPVPCRTSASNKTV-FTARELEVCG  208 (371)
Q Consensus       140 ~~~~---~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~~~il-iTsR~~~~~~  208 (371)
                      ....   ........+ .+..+....     .++.-++|+|+++....  ...+...+. ....++.+| .||....+..
T Consensus        87 ~~dv~eidaas~~~vd-~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~~a~naLLKtLE-epp~~~ifIlatt~~~ki~~  164 (559)
T PRK05563         87 LMDVIEIDAASNNGVD-EIRDIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLE-EPPAHVIFILATTEPHKIPA  164 (559)
T ss_pred             CCCeEEeeccccCCHH-HHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHhc-CCCCCeEEEEEeCChhhCcH
Confidence            0000   000011111 122222221     24556999999986532  333433333 233344444 4554443332


Q ss_pred             h-ccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHH
Q 043737          209 Q-MEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLAL  263 (371)
Q Consensus       209 ~-~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal  263 (371)
                      . .+....+++.+++.++....+...+...+...+   .+.+..|++.++|.+..+
T Consensus       165 tI~SRc~~~~f~~~~~~ei~~~L~~i~~~egi~i~---~~al~~ia~~s~G~~R~a  217 (559)
T PRK05563        165 TILSRCQRFDFKRISVEDIVERLKYILDKEGIEYE---DEALRLIARAAEGGMRDA  217 (559)
T ss_pred             HHHhHheEEecCCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCCHHHH
Confidence            2 234567889999999999999887754432222   345788888999877543

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=98.61  E-value=4.3e-07  Score=86.41  Aligned_cols=164  Identities=16%  Similarity=0.147  Sum_probs=99.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHh
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNM  162 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l  162 (371)
                      ...+.|+|++|+|||+|++.+++... ....-..++|++.      .++...+...+..       ...    ..+.+.+
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~~l~-~~~~~~~v~yi~~------~~f~~~~~~~~~~-------~~~----~~f~~~~  191 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGNYVV-QNEPDLRVMYITS------EKFLNDLVDSMKE-------GKL----NEFREKY  191 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH-HhCCCCeEEEEEH------HHHHHHHHHHHhc-------ccH----HHHHHHH
Confidence            35699999999999999999999873 1111235677753      4556666555531       111    2233333


Q ss_pred             CCCceEEEEeCCCCccc---c-cccccccCCCCCCCcEEEEecCc-hH--------HHhhccCCCceeecCCChHHHHHH
Q 043737          163 SNKKFVLLLDHIWELVD---L-SQVGLPVPCRTSASNKTVFTARE-LE--------VCGQMEAHKSFKVERLGYEDAWKL  229 (371)
Q Consensus       163 ~~~~~LlVlDdv~~~~~---~-~~~~~~l~~~~~~~~~iliTsR~-~~--------~~~~~~~~~~~~l~~L~~~ea~~l  229 (371)
                      ....-+|++||++....   . +.+...+......+..+|+||.. ..        +.+.+..+..+.+++.+.+.-..+
T Consensus       192 ~~~~dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~~k~iIitsd~~p~~l~~l~~rL~SR~~~gl~v~i~~pd~e~r~~I  271 (440)
T PRK14088        192 RKKVDVLLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEETRKKI  271 (440)
T ss_pred             HhcCCEEEEechhhhcCcHHHHHHHHHHHHHHHHcCCeEEEECCCCHHHHHHHHHHHhhHHhcCceEeeCCCCHHHHHHH
Confidence            33455899999974321   1 12212221112234578888753 21        122234456789999999999999


Q ss_pred             HHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHH
Q 043737          230 FEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVG  267 (371)
Q Consensus       230 l~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a  267 (371)
                      +++.+.......+   ++.+..|++.+.|....|.-+.
T Consensus       272 L~~~~~~~~~~l~---~ev~~~Ia~~~~~~~R~L~g~l  306 (440)
T PRK14088        272 ARKMLEIEHGELP---EEVLNFVAENVDDNLRRLRGAI  306 (440)
T ss_pred             HHHHHHhcCCCCC---HHHHHHHHhccccCHHHHHHHH
Confidence            9988764432332   4568899999888766555443

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

Probab=98.60  E-value=1.8e-07  Score=81.70  Aligned_cols=95  Identities=20%  Similarity=0.152  Sum_probs=62.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCc--CCHHHHHHHHHHHhccCCCCC-CcC---CHHHH
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKD--LQLEQIQGSIAKKINLFNESW-NSR---SLQEK  154 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~--~~~~~~~~~l~~~l~~~~~~~-~~~---~~~~~  154 (371)
                      .....++|.|++|+|||||++++++...  ..+|+.++|+.+...  .++.++++.+...+-...-+. ...   .....
T Consensus        14 ~~Gqr~~I~G~~G~GKTTLlr~I~n~l~--~~~fdv~~~v~vI~er~~ev~el~~~I~~~~v~~~~~~~~~~~~~~~~~~   91 (249)
T cd01128          14 GKGQRGLIVAPPKAGKTTLLQSIANAIT--KNHPEVYLIVLLIDERPEEVTDMQRSVKGEVIASTFDEPPERHVQVAEMV   91 (249)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhccc--cccCCeEEEEEEccCCCccHHHHHHHhccEEEEecCCCCHHHHHHHHHHH
Confidence            3456899999999999999999999983  338899999987665  688999999843332221110 000   11111


Q ss_pred             HHHHHHH-hCCCceEEEEeCCCCc
Q 043737          155 SQDIVKN-MSNKKFVLLLDHIWEL  177 (371)
Q Consensus       155 ~~~l~~~-l~~~~~LlVlDdv~~~  177 (371)
                      ....... -.++++++++|++.+.
T Consensus        92 ~~~a~~~~~~G~~vll~iDei~r~  115 (249)
T cd01128          92 LEKAKRLVEHGKDVVILLDSITRL  115 (249)
T ss_pred             HHHHHHHHHCCCCEEEEEECHHHh
Confidence            2222211 2478999999999654

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.

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=98.59  E-value=1.5e-06  Score=85.92  Aligned_cols=203  Identities=12%  Similarity=0.010  Sum_probs=104.2

Q ss_pred             CCccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCC---CeEEEEEeCCc---CCHHHHHHH
Q 043737           61 PPTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDF---DFVIWVVASKD---LQLEQIQGS  134 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f---~~~~wv~~~~~---~~~~~~~~~  134 (371)
                      -+.++|++..+..+.+.+.......+.|+|++|+||||||+.+.+... ....+   ...-|+.++..   .+...+...
T Consensus       153 ~~~iiGqs~~~~~l~~~ia~~~~~~vlL~Gp~GtGKTTLAr~i~~~~~-~~~~~~~~~~~~fv~i~~~~l~~d~~~i~~~  231 (615)
T TIGR02903       153 FSEIVGQERAIKALLAKVASPFPQHIILYGPPGVGKTTAARLALEEAK-KLKHTPFAEDAPFVEVDGTTLRWDPREVTNP  231 (615)
T ss_pred             HHhceeCcHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHhhh-hccCCcccCCCCeEEEechhccCCHHHHhHH
Confidence            456899999999998888656667899999999999999999877652 11111   12234433221   122222111


Q ss_pred             HH---------------HHhccCCC----------------CCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCc--cccc
Q 043737          135 IA---------------KKINLFNE----------------SWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWEL--VDLS  181 (371)
Q Consensus       135 l~---------------~~l~~~~~----------------~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~  181 (371)
                      ++               ...+....                ..... .......+...+..+++.++-|+.|..  ..|+
T Consensus       232 llg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~L-d~~~Q~~Ll~~Le~~~v~~~~~~~~~~~~~~~~  310 (615)
T TIGR02903       232 LLGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGEL-DPLLQNKLLKVLEDKRVEFSSSYYDPDDPNVPK  310 (615)
T ss_pred             hcCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccC-CHHHHHHHHHHHhhCeEEeecceeccCCcccch
Confidence            11               11110000                00000 011233334444444444443333221  1122


Q ss_pred             ccccccCCCCCCCcEEEE--ecCchHH-Hhh-ccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcC
Q 043737          182 QVGLPVPCRTSASNKTVF--TARELEV-CGQ-MEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECG  257 (371)
Q Consensus       182 ~~~~~l~~~~~~~~~ili--TsR~~~~-~~~-~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~  257 (371)
                      .+...+. ...+...++|  ||++... ... .+....+.+.+++.++...++.+.+.......   ..+..+.|.+.+.
T Consensus       311 ~ik~~~~-~~~~~~~VLI~aTt~~~~~l~~aLrSR~~~i~~~pls~edi~~Il~~~a~~~~v~l---s~eal~~L~~ys~  386 (615)
T TIGR02903       311 YIKKLFE-EGAPADFVLIGATTRDPEEINPALRSRCAEVFFEPLTPEDIALIVLNAAEKINVHL---AAGVEELIARYTI  386 (615)
T ss_pred             hhhhhcc-cCccceEEEEEeccccccccCHHHHhceeEEEeCCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHCCC
Confidence            2222222 2233334444  5554321 111 12234678999999999999999875432212   2345666666666


Q ss_pred             CCcHHHHHHHHH
Q 043737          258 GLPLALITVGRA  269 (371)
Q Consensus       258 g~Plal~~~a~~  269 (371)
                      .-+.++..++..
T Consensus       387 ~gRraln~L~~~  398 (615)
T TIGR02903       387 EGRKAVNILADV  398 (615)
T ss_pred             cHHHHHHHHHHH
Confidence            557777766544

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.

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=98.59  E-value=2e-06  Score=83.51  Aligned_cols=163  Identities=19%  Similarity=0.148  Sum_probs=101.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhC
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMS  163 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~  163 (371)
                      ..++|+|..|+|||.|+..+++... .......++|++.      .++..++...+..       ..    ...+.+.+.
T Consensus       315 NpL~LyG~sGsGKTHLL~AIa~~a~-~~~~g~~V~Yita------eef~~el~~al~~-------~~----~~~f~~~y~  376 (617)
T PRK14086        315 NPLFIYGESGLGKTHLLHAIGHYAR-RLYPGTRVRYVSS------EEFTNEFINSIRD-------GK----GDSFRRRYR  376 (617)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHH-HhCCCCeEEEeeH------HHHHHHHHHHHHh-------cc----HHHHHHHhh
Confidence            4689999999999999999999872 1112234566643      4455555444321       11    122333333


Q ss_pred             CCceEEEEeCCCCccc---c-cccccccCCCCCCCcEEEEecCch---------HHHhhccCCCceeecCCChHHHHHHH
Q 043737          164 NKKFVLLLDHIWELVD---L-SQVGLPVPCRTSASNKTVFTAREL---------EVCGQMEAHKSFKVERLGYEDAWKLF  230 (371)
Q Consensus       164 ~~~~LlVlDdv~~~~~---~-~~~~~~l~~~~~~~~~iliTsR~~---------~~~~~~~~~~~~~l~~L~~~ea~~ll  230 (371)
                      +- =+|||||++....   + +.+...+......+..|||||...         .+.+.+...-.+.|.+.+.+.-..++
T Consensus       377 ~~-DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~~P~eL~~l~~rL~SRf~~GLvv~I~~PD~EtR~aIL  455 (617)
T PRK14086        377 EM-DILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSDRPPKQLVTLEDRLRNRFEWGLITDVQPPELETRIAIL  455 (617)
T ss_pred             cC-CEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecCCChHhhhhccHHHHhhhhcCceEEcCCCCHHHHHHHH
Confidence            32 4899999974421   1 222222221223456788888763         23444556678999999999999999


Q ss_pred             HHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHH
Q 043737          231 EEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGR  268 (371)
Q Consensus       231 ~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~  268 (371)
                      .+.+.......+   ++.++.|++.+.+..-.|.-+..
T Consensus       456 ~kka~~r~l~l~---~eVi~yLa~r~~rnvR~LegaL~  490 (617)
T PRK14086        456 RKKAVQEQLNAP---PEVLEFIASRISRNIRELEGALI  490 (617)
T ss_pred             HHHHHhcCCCCC---HHHHHHHHHhccCCHHHHHHHHH
Confidence            998865543333   45688888888877665554443

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=98.54  E-value=9.4e-07  Score=83.92  Aligned_cols=153  Identities=12%  Similarity=0.082  Sum_probs=92.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhC
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMS  163 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~  163 (371)
                      ..+.|+|+.|+|||+|++.+++....   ....+++++      ...+...+...+..       ..    ...++..+.
T Consensus       142 npl~L~G~~G~GKTHLl~Ai~~~l~~---~~~~v~yi~------~~~f~~~~~~~l~~-------~~----~~~f~~~~~  201 (445)
T PRK12422        142 NPIYLFGPEGSGKTHLMQAAVHALRE---SGGKILYVR------SELFTEHLVSAIRS-------GE----MQRFRQFYR  201 (445)
T ss_pred             ceEEEEcCCCCCHHHHHHHHHHHHHH---cCCCEEEee------HHHHHHHHHHHHhc-------ch----HHHHHHHcc
Confidence            57899999999999999999998731   223455654      23444555555421       01    123444333


Q ss_pred             CCceEEEEeCCCCccc----ccccccccCCCCCCCcEEEEecCch---------HHHhhccCCCceeecCCChHHHHHHH
Q 043737          164 NKKFVLLLDHIWELVD----LSQVGLPVPCRTSASNKTVFTAREL---------EVCGQMEAHKSFKVERLGYEDAWKLF  230 (371)
Q Consensus       164 ~~~~LlVlDdv~~~~~----~~~~~~~l~~~~~~~~~iliTsR~~---------~~~~~~~~~~~~~l~~L~~~ea~~ll  230 (371)
                      + .-+|++||++....    .+.+...+......+..||+||...         .+.+.+..+..+.+.+++.++-..++
T Consensus       202 ~-~dvLiIDDiq~l~~k~~~qeelf~l~N~l~~~~k~IIlts~~~p~~l~~l~~rL~SR~~~Gl~~~l~~pd~e~r~~iL  280 (445)
T PRK12422        202 N-VDALFIEDIEVFSGKGATQEEFFHTFNSLHTEGKLIVISSTCAPQDLKAMEERLISRFEWGIAIPLHPLTKEGLRSFL  280 (445)
T ss_pred             c-CCEEEEcchhhhcCChhhHHHHHHHHHHHHHCCCcEEEecCCCHHHHhhhHHHHHhhhcCCeEEecCCCCHHHHHHHH
Confidence            3 34889999975422    1222222211112355788877542         12333445578899999999999999


Q ss_pred             HHHhCCCCCCCCCCHHHHHHHHHHHcCCCc
Q 043737          231 EEKVGKEILDSHPDIPELAETVAKECGGLP  260 (371)
Q Consensus       231 ~~~~~~~~~~~~~~~~~~~~~i~~~~~g~P  260 (371)
                      ++.+.......+   ++.+..|+..+.+.-
T Consensus       281 ~~k~~~~~~~l~---~evl~~la~~~~~di  307 (445)
T PRK12422        281 ERKAEALSIRIE---ETALDFLIEALSSNV  307 (445)
T ss_pred             HHHHHHcCCCCC---HHHHHHHHHhcCCCH
Confidence            988765442232   455777777777654

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=98.53  E-value=5.8e-06  Score=75.00  Aligned_cols=198  Identities=13%  Similarity=0.112  Sum_probs=112.9

Q ss_pred             CccccchhHHHHHHHHHhcCC-ceEEEEEcCCCCcHHHHHHHHHhhccCC------------CCCCCeEEEEEeCCcCCH
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQ-MGIVGLYGMGEVGKTTLLTQINKKFLHT------------PNDFDFVIWVVASKDLQL  128 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~------------~~~f~~~~wv~~~~~~~~  128 (371)
                      ..++|.+...+.+...+.+++ .....++|+.|+||+++|..+++.+...            ...++...|+.-.....-
T Consensus         4 ~~iiGq~~~~~~L~~~i~~~rl~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~hPDl~~i~p~~~~~g   83 (314)
T PRK07399          4 ANLIGQPLAIELLTAAIKQNRIAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNHPDLLWVEPTYQHQG   83 (314)
T ss_pred             HHhCCHHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCCCCEEEEeccccccc
Confidence            357999999999999998776 4789999999999999999998886311            111223344432100000


Q ss_pred             HHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhC-----CCceEEEEeCCCCccc--ccccccccCCCCCCCcEEEEec
Q 043737          129 EQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMS-----NKKFVLLLDHIWELVD--LSQVGLPVPCRTSASNKTVFTA  201 (371)
Q Consensus       129 ~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~-----~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~~~iliTs  201 (371)
                      .......+...+...........++ ++.+.+.+.     +++-++|+|+++.+..  .+.+...+. ......-|++|+
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~I~id~-ir~i~~~l~~~p~~~~~kVvII~~ae~m~~~aaNaLLK~LE-EPp~~~fILi~~  161 (314)
T PRK07399         84 KLITASEAEEAGLKRKAPPQIRLEQ-IREIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLE-EPGNGTLILIAP  161 (314)
T ss_pred             cccchhhhhhccccccccccCcHHH-HHHHHHHHccCcccCCceEEEEEchhhcCHHHHHHHHHHHh-CCCCCeEEEEEC
Confidence            0000111112211111111222222 233443332     4556999999986633  333434443 223344455555


Q ss_pred             CchHHHhh-ccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHH
Q 043737          202 RELEVCGQ-MEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVG  267 (371)
Q Consensus       202 R~~~~~~~-~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a  267 (371)
                      ....+... .+....+.+.+++.++..+.+........      .......++..++|.|.......
T Consensus       162 ~~~~Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~~~~~~------~~~~~~~l~~~a~Gs~~~al~~l  222 (314)
T PRK07399        162 SPESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLGDEEI------LNINFPELLALAQGSPGAAIANI  222 (314)
T ss_pred             ChHhCcHHHHhhceEEecCCCCHHHHHHHHHHhhcccc------chhHHHHHHHHcCCCHHHHHHHH
Confidence            55444332 35567899999999999999998753211      11114678899999997655433

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=98.53  E-value=1.1e-06  Score=80.34  Aligned_cols=146  Identities=10%  Similarity=0.076  Sum_probs=85.1

Q ss_pred             CCccccchhHHHHHHHHHhcCCc-eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHh
Q 043737           61 PPTVVGLQSTFDRVWRCLMEEQM-GIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKI  139 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l  139 (371)
                      -..++|.+...+.+..++.++.. .++.++|++|+|||++|..+++..   ...   +..++.+. .....+...+....
T Consensus        20 ~~~~~~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~---~~~---~~~i~~~~-~~~~~i~~~l~~~~   92 (316)
T PHA02544         20 IDECILPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEV---GAE---VLFVNGSD-CRIDFVRNRLTRFA   92 (316)
T ss_pred             HHHhcCcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHh---Ccc---ceEeccCc-ccHHHHHHHHHHHH
Confidence            36689999999999999876554 566679999999999999998876   221   23444433 12221111111111


Q ss_pred             ccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc---ccccccccCCCCCCCcEEEEecCchHH-H-hhccCCC
Q 043737          140 NLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD---LSQVGLPVPCRTSASNKTVFTARELEV-C-GQMEAHK  214 (371)
Q Consensus       140 ~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~---~~~~~~~l~~~~~~~~~iliTsR~~~~-~-~~~~~~~  214 (371)
                      .. .                 ...+.+-++|+|+++....   ...+...+. ....++.+|+||..... . ...+...
T Consensus        93 ~~-~-----------------~~~~~~~vliiDe~d~l~~~~~~~~L~~~le-~~~~~~~~Ilt~n~~~~l~~~l~sR~~  153 (316)
T PHA02544         93 ST-V-----------------SLTGGGKVIIIDEFDRLGLADAQRHLRSFME-AYSKNCSFIITANNKNGIIEPLRSRCR  153 (316)
T ss_pred             Hh-h-----------------cccCCCeEEEEECcccccCHHHHHHHHHHHH-hcCCCceEEEEcCChhhchHHHHhhce
Confidence            00 0                 0113455899999975511   122322233 33456788888765321 1 1112335


Q ss_pred             ceeecCCChHHHHHHHHH
Q 043737          215 SFKVERLGYEDAWKLFEE  232 (371)
Q Consensus       215 ~~~l~~L~~~ea~~ll~~  232 (371)
                      .+.++..+.++..+++..
T Consensus       154 ~i~~~~p~~~~~~~il~~  171 (316)
T PHA02544        154 VIDFGVPTKEEQIEMMKQ  171 (316)
T ss_pred             EEEeCCCCHHHHHHHHHH
Confidence            677878888887766543

>KOG2543 consensus Origin recognition complex, subunit 5 [Replication, recombination and repair]

Probab=98.51  E-value=2.5e-06  Score=76.56  Aligned_cols=167  Identities=17%  Similarity=0.196  Sum_probs=106.7

Q ss_pred             CCCccccchhHHHHHHHHHhcCC---ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHH
Q 043737           60 LPPTVVGLQSTFDRVWRCLMEEQ---MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIA  136 (371)
Q Consensus        60 ~~~~~vGR~~~~~~l~~~L~~~~---~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~  136 (371)
                      +.+.|.+|+.++..+...+.+..   +..|.|+|.+|+|||.+.+++.+..   .-   ..+|+++-...+...++..|+
T Consensus         4 l~~~v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~---n~---~~vw~n~~ecft~~~lle~IL   77 (438)
T KOG2543|consen    4 LEPNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKL---NL---ENVWLNCVECFTYAILLEKIL   77 (438)
T ss_pred             cccCccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhc---CC---cceeeehHHhccHHHHHHHHH
Confidence            45788999999999999987643   3466999999999999999999886   22   358999999999999999999


Q ss_pred             HHhccCCCCC-CcC----CHHHHHHHHHH--HhC--CCceEEEEeCCCCccccccc-----ccccCCCCCCCcEEEEecC
Q 043737          137 KKINLFNESW-NSR----SLQEKSQDIVK--NMS--NKKFVLLLDHIWELVDLSQV-----GLPVPCRTSASNKTVFTAR  202 (371)
Q Consensus       137 ~~l~~~~~~~-~~~----~~~~~~~~l~~--~l~--~~~~LlVlDdv~~~~~~~~~-----~~~l~~~~~~~~~iliTsR  202 (371)
                      .+.+....+. ...    +..+.+..+.+  ...  ++.++||+||++...+.+..     ........... .+|+++-
T Consensus        78 ~~~~~~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~lrD~~a~ll~~l~~L~el~~~~~-i~iils~  156 (438)
T KOG2543|consen   78 NKSQLADKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADALRDMDAILLQCLFRLYELLNEPT-IVIILSA  156 (438)
T ss_pred             HHhccCCCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHhhhccchHHHHHHHHHHHHhCCCc-eEEEEec
Confidence            9986322211 111    11122333333  122  35799999999876554432     11111112223 3333333


Q ss_pred             c---hHHHhhccCC--CceeecCCChHHHHHHHHHH
Q 043737          203 E---LEVCGQMEAH--KSFKVERLGYEDAWKLFEEK  233 (371)
Q Consensus       203 ~---~~~~~~~~~~--~~~~l~~L~~~ea~~ll~~~  233 (371)
                      .   .......+..  .++.++.-+.++...++.+.
T Consensus       157 ~~~e~~y~~n~g~~~i~~l~fP~Ys~~e~~~Il~~~  192 (438)
T KOG2543|consen  157 PSCEKQYLINTGTLEIVVLHFPQYSVEETQVILSRD  192 (438)
T ss_pred             cccHHHhhcccCCCCceEEecCCCCHHHHHHHHhcC
Confidence            2   2222222332  34677888899988888654

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

Probab=98.50  E-value=1.1e-06  Score=81.95  Aligned_cols=108  Identities=16%  Similarity=0.068  Sum_probs=71.0

Q ss_pred             CccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhcc
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINL  141 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~  141 (371)
                      ..+++.+..++.+...|..  .+.+.++|++|+|||++|+.+++.+ .....+..+.|+.++...+..++...+..    
T Consensus       175 ~d~~i~e~~le~l~~~L~~--~~~iil~GppGtGKT~lA~~la~~l-~~~~~~~~v~~VtFHpsySYeDFI~G~rP----  247 (459)
T PRK11331        175 NDLFIPETTIETILKRLTI--KKNIILQGPPGVGKTFVARRLAYLL-TGEKAPQRVNMVQFHQSYSYEDFIQGYRP----  247 (459)
T ss_pred             hcccCCHHHHHHHHHHHhc--CCCEEEECCCCCCHHHHHHHHHHHh-cCCcccceeeEEeecccccHHHHhcccCC----
Confidence            4578889999999999854  4588889999999999999999987 34456778899999887776665532210    


Q ss_pred             CCCCCCcCCHHHHHHHHHHHh--CCCceEEEEeCCCCc
Q 043737          142 FNESWNSRSLQEKSQDIVKNM--SNKKFVLLLDHIWEL  177 (371)
Q Consensus       142 ~~~~~~~~~~~~~~~~l~~~l--~~~~~LlVlDdv~~~  177 (371)
                      .... -....+...+.+....  ..++++||||+++..
T Consensus       248 ~~vg-y~~~~G~f~~~~~~A~~~p~~~~vliIDEINRa  284 (459)
T PRK11331        248 NGVG-FRRKDGIFYNFCQQAKEQPEKKYVFIIDEINRA  284 (459)
T ss_pred             CCCC-eEecCchHHHHHHHHHhcccCCcEEEEehhhcc
Confidence            0000 0000111111222211  246899999999644

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=98.49  E-value=2.1e-06  Score=76.24  Aligned_cols=155  Identities=15%  Similarity=0.150  Sum_probs=78.3

Q ss_pred             ccccchhHHHHHHH---HHhc------------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCC
Q 043737           63 TVVGLQSTFDRVWR---CLME------------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQ  127 (371)
Q Consensus        63 ~~vGR~~~~~~l~~---~L~~------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~  127 (371)
                      .++|.+...++|.+   +..-            .....+.++|++|+||||+|+.+++.+... .......++.++.   
T Consensus         7 ~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l~~~-~~~~~~~~v~~~~---   82 (261)
T TIGR02881         7 RMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLFKEM-NVLSKGHLIEVER---   82 (261)
T ss_pred             HhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHHHhc-CcccCCceEEecH---
Confidence            47887766655543   2210            134578899999999999999998875211 1111111222221   


Q ss_pred             HHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCcc----------cccccccccCCCCCCCcEE
Q 043737          128 LEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELV----------DLSQVGLPVPCRTSASNKT  197 (371)
Q Consensus       128 ~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~----------~~~~~~~~l~~~~~~~~~i  197 (371)
                       .++.    ...       .... ......+.+...  ..+|+||+++...          .++.+...+. .......+
T Consensus        83 -~~l~----~~~-------~g~~-~~~~~~~~~~a~--~~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e-~~~~~~~v  146 (261)
T TIGR02881        83 -ADLV----GEY-------IGHT-AQKTREVIKKAL--GGVLFIDEAYSLARGGEKDFGKEAIDTLVKGME-DNRNEFVL  146 (261)
T ss_pred             -HHhh----hhh-------ccch-HHHHHHHHHhcc--CCEEEEechhhhccCCccchHHHHHHHHHHHHh-ccCCCEEE
Confidence             1111    110       0111 111122222222  3489999997532          1222222222 22233345


Q ss_pred             EEecCchHH---Hh---h-ccC-CCceeecCCChHHHHHHHHHHhCCC
Q 043737          198 VFTARELEV---CG---Q-MEA-HKSFKVERLGYEDAWKLFEEKVGKE  237 (371)
Q Consensus       198 liTsR~~~~---~~---~-~~~-~~~~~l~~L~~~ea~~ll~~~~~~~  237 (371)
                      ++++.....   ..   . ... ...+.+++++.++-.+++.+.+...
T Consensus       147 ila~~~~~~~~~~~~~p~L~sRf~~~i~f~~~~~~el~~Il~~~~~~~  194 (261)
T TIGR02881       147 ILAGYSDEMDYFLSLNPGLRSRFPISIDFPDYTVEELMEIAERMVKER  194 (261)
T ss_pred             EecCCcchhHHHHhcChHHHhccceEEEECCCCHHHHHHHHHHHHHHc
Confidence            555443221   00   0 111 2458999999999999998887543

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.

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=98.47  E-value=4.5e-06  Score=74.86  Aligned_cols=132  Identities=10%  Similarity=0.078  Sum_probs=69.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCC
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSN  164 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~  164 (371)
                      .+.++|++|+|||++|+.+++.+. .......--++.++.    .++    ...+..       .+... ...+.+..  
T Consensus        60 ~vll~G~pGTGKT~lA~~ia~~l~-~~g~~~~~~~v~v~~----~~l----~~~~~g-------~~~~~-~~~~~~~a--  120 (284)
T TIGR02880        60 HMSFTGNPGTGKTTVALRMAQILH-RLGYVRKGHLVSVTR----DDL----VGQYIG-------HTAPK-TKEILKRA--  120 (284)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHHH-HcCCcccceEEEecH----HHH----hHhhcc-------cchHH-HHHHHHHc--
Confidence            688999999999999988877662 111111112333331    122    222111       11111 22222222  


Q ss_pred             CceEEEEeCCCCcc------c-----ccccccccCCCCCCCcEEEEecCchHHHhhc--------cCCCceeecCCChHH
Q 043737          165 KKFVLLLDHIWELV------D-----LSQVGLPVPCRTSASNKTVFTARELEVCGQM--------EAHKSFKVERLGYED  225 (371)
Q Consensus       165 ~~~LlVlDdv~~~~------~-----~~~~~~~l~~~~~~~~~iliTsR~~~~~~~~--------~~~~~~~l~~L~~~e  225 (371)
                      ..-+|+||+++...      .     .+.+...+. ....+.+||+++.........        .-...+++++++.+|
T Consensus       121 ~~gvL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le-~~~~~~~vI~a~~~~~~~~~~~~np~L~sR~~~~i~fp~l~~ed  199 (284)
T TIGR02880       121 MGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVME-NQRDDLVVILAGYKDRMDSFFESNPGFSSRVAHHVDFPDYSEAE  199 (284)
T ss_pred             cCcEEEEechhhhccCCCccchHHHHHHHHHHHHh-cCCCCEEEEEeCCcHHHHHHHhhCHHHHhhCCcEEEeCCcCHHH
Confidence            23589999997331      1     122222232 233455666665443221111        113568999999999


Q ss_pred             HHHHHHHHhCC
Q 043737          226 AWKLFEEKVGK  236 (371)
Q Consensus       226 a~~ll~~~~~~  236 (371)
                      -.+++...+..
T Consensus       200 l~~I~~~~l~~  210 (284)
T TIGR02880       200 LLVIAGLMLKE  210 (284)
T ss_pred             HHHHHHHHHHH
Confidence            99999888754

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.

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

Probab=98.45  E-value=8.1e-06  Score=76.40  Aligned_cols=170  Identities=13%  Similarity=0.162  Sum_probs=94.6

Q ss_pred             ccccchhHHHHHHHHHhc-------------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHH
Q 043737           63 TVVGLQSTFDRVWRCLME-------------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLE  129 (371)
Q Consensus        63 ~~vGR~~~~~~l~~~L~~-------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~  129 (371)
                      .+.|-+...++|.+.+.-             ...+-+.|+|++|+|||+||+.+++..   ...|     +.+..    .
T Consensus       146 digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l---~~~f-----i~i~~----s  213 (398)
T PTZ00454        146 DIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHT---TATF-----IRVVG----S  213 (398)
T ss_pred             HcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhc---CCCE-----EEEeh----H
Confidence            467888888887776531             245789999999999999999999886   3332     11111    1


Q ss_pred             HHHHHHHHHhccCCCCCCcCCHHHHHHHHH-HHhCCCceEEEEeCCCCccc----------------ccccccccC-CCC
Q 043737          130 QIQGSIAKKINLFNESWNSRSLQEKSQDIV-KNMSNKKFVLLLDHIWELVD----------------LSQVGLPVP-CRT  191 (371)
Q Consensus       130 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~-~~l~~~~~LlVlDdv~~~~~----------------~~~~~~~l~-~~~  191 (371)
                      .+.    ...       .... ...+..+. ......+.+|+||+++....                +..+...+. ...
T Consensus       214 ~l~----~k~-------~ge~-~~~lr~lf~~A~~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~~  281 (398)
T PTZ00454        214 EFV----QKY-------LGEG-PRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQ  281 (398)
T ss_pred             HHH----HHh-------cchh-HHHHHHHHHHHHhcCCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccCC
Confidence            111    111       0111 11222222 22345789999999874310                001111111 012


Q ss_pred             CCCcEEEEecCchHHH-hh-c---cCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCc
Q 043737          192 SASNKTVFTARELEVC-GQ-M---EAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLP  260 (371)
Q Consensus       192 ~~~~~iliTsR~~~~~-~~-~---~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~P  260 (371)
                      ..+..||+||...... .. .   .-...+.++..+.++-.++|+..........+-+    ..++++.+.|+.
T Consensus       282 ~~~v~VI~aTN~~d~LDpAllR~GRfd~~I~~~~P~~~~R~~Il~~~~~~~~l~~dvd----~~~la~~t~g~s  351 (398)
T PTZ00454        282 TTNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKMNLSEEVD----LEDFVSRPEKIS  351 (398)
T ss_pred             CCCEEEEEecCCchhCCHHHcCCCcccEEEEeCCcCHHHHHHHHHHHHhcCCCCcccC----HHHHHHHcCCCC
Confidence            3456677766653321 11 1   2234588888889988888887765444333333    456667776653

>CHL00095 clpC Clp protease ATP binding subunit

Probab=98.43  E-value=1.3e-06  Score=89.76  Aligned_cols=155  Identities=14%  Similarity=0.181  Sum_probs=90.3

Q ss_pred             CccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCC--CC-CCeEEEEEeCCcCCHHHHHHHHHHH
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTP--ND-FDFVIWVVASKDLQLEQIQGSIAKK  138 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~--~~-f~~~~wv~~~~~~~~~~~~~~l~~~  138 (371)
                      ..++||+++++++.+.|.....+.+.++|++|+|||++|..++++.....  .. -+..+|. +    +...++    . 
T Consensus       179 ~~~igr~~ei~~~~~~L~r~~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~-l----~~~~l~----a-  248 (821)
T CHL00095        179 DPVIGREKEIERVIQILGRRTKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVIT-L----DIGLLL----A-  248 (821)
T ss_pred             CCCCCcHHHHHHHHHHHcccccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEE-e----eHHHHh----c-
Confidence            45899999999999999776666778999999999999999998873111  11 1233332 1    111111    0 


Q ss_pred             hccCCCCCCcCCHHHHHHHHHHHhC-CCceEEEEeCCCCccc---------ccccccccCCCCCCCcEEEEecCchHHHh
Q 043737          139 INLFNESWNSRSLQEKSQDIVKNMS-NKKFVLLLDHIWELVD---------LSQVGLPVPCRTSASNKTVFTARELEVCG  208 (371)
Q Consensus       139 l~~~~~~~~~~~~~~~~~~l~~~l~-~~~~LlVlDdv~~~~~---------~~~~~~~l~~~~~~~~~iliTsR~~~~~~  208 (371)
                       +..    .....++.+..+.+.+. .++++|+||+++....         ...+.  .+.......++|.+|....+..
T Consensus       249 -g~~----~~ge~e~rl~~i~~~~~~~~~~ILfiDEih~l~~~g~~~g~~~~a~lL--kp~l~rg~l~~IgaTt~~ey~~  321 (821)
T CHL00095        249 -GTK----YRGEFEERLKRIFDEIQENNNIILVIDEVHTLIGAGAAEGAIDAANIL--KPALARGELQCIGATTLDEYRK  321 (821)
T ss_pred             -cCC----CccHHHHHHHHHHHHHHhcCCeEEEEecHHHHhcCCCCCCcccHHHHh--HHHHhCCCcEEEEeCCHHHHHH
Confidence             000    11223334444444333 4678999999974321         11111  1211223345665555544311


Q ss_pred             -------hccCCCceeecCCChHHHHHHHHHH
Q 043737          209 -------QMEAHKSFKVERLGYEDAWKLFEEK  233 (371)
Q Consensus       209 -------~~~~~~~~~l~~L~~~ea~~ll~~~  233 (371)
                             .......+.+...+.++...+++..
T Consensus       322 ~ie~D~aL~rRf~~I~v~ep~~~e~~aILr~l  353 (821)
T CHL00095        322 HIEKDPALERRFQPVYVGEPSVEETIEILFGL  353 (821)
T ss_pred             HHhcCHHHHhcceEEecCCCCHHHHHHHHHHH
Confidence                   1123456888889999988887654

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

Probab=98.42  E-value=1e-05  Score=78.11  Aligned_cols=203  Identities=15%  Similarity=0.088  Sum_probs=134.9

Q ss_pred             CCccccchhHHHHHHHHHhc-----CCceEEEEEcCCCCcHHHHHHHHHhhccC--CC---CCCCeEEEEEeCCcCCHHH
Q 043737           61 PPTVVGLQSTFDRVWRCLME-----EQMGIVGLYGMGEVGKTTLLTQINKKFLH--TP---NDFDFVIWVVASKDLQLEQ  130 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~-----~~~~~v~I~G~~GiGKTtLa~~~~~~~~~--~~---~~f~~~~wv~~~~~~~~~~  130 (371)
                      |..+-+|+.+..+|.+++..     +..+.+.|.|.+|+|||..+..|.+.+..  .+   ..| ..+.++.-.-..+.+
T Consensus       395 p~sLpcRe~E~~~I~~f~~~~i~~~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f-~yveINgm~l~~~~~  473 (767)
T KOG1514|consen  395 PESLPCRENEFSEIEDFLRSFISDQGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKF-DYVEINGLRLASPRE  473 (767)
T ss_pred             cccccchhHHHHHHHHHHHhhcCCCCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCc-cEEEEcceeecCHHH
Confidence            46678899999999888763     23459999999999999999999987631  11   223 344555555667999


Q ss_pred             HHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhC-----CCceEEEEeCCCCccc--ccccccccCCCCCCCcEEEEecCc
Q 043737          131 IQGSIAKKINLFNESWNSRSLQEKSQDIVKNMS-----NKKFVLLLDHIWELVD--LSQVGLPVPCRTSASNKTVFTARE  203 (371)
Q Consensus       131 ~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~-----~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~~~iliTsR~  203 (371)
                      ++..|..++..     ........+..+..+..     .+++++++|+++....  -+-+...+.|....+++++|.+=.
T Consensus       474 ~Y~~I~~~lsg-----~~~~~~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~QdVlYn~fdWpt~~~sKLvvi~Ia  548 (767)
T KOG1514|consen  474 IYEKIWEALSG-----ERVTWDAALEALNFRFTVPKPKRSTTVVLIDELDILVTRSQDVLYNIFDWPTLKNSKLVVIAIA  548 (767)
T ss_pred             HHHHHHHhccc-----CcccHHHHHHHHHHhhccCCCCCCCEEEEeccHHHHhcccHHHHHHHhcCCcCCCCceEEEEec
Confidence            99999999865     33344445555555543     4678999999976533  233455566777788887764322


Q ss_pred             h--HH---------HhhccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHHHH
Q 043737          204 L--EV---------CGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAM  270 (371)
Q Consensus       204 ~--~~---------~~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~~l  270 (371)
                      .  ++         ... -+...+.+.|.+.++-.+.+..++.....-.....+-.+++++...|..-.|+...-+..
T Consensus       549 NTmdlPEr~l~nrvsSR-lg~tRi~F~pYth~qLq~Ii~~RL~~~~~f~~~aielvarkVAavSGDaRraldic~RA~  625 (767)
T KOG1514|consen  549 NTMDLPERLLMNRVSSR-LGLTRICFQPYTHEQLQEIISARLKGLDAFENKAIELVARKVAAVSGDARRALDICRRAA  625 (767)
T ss_pred             ccccCHHHHhccchhhh-ccceeeecCCCCHHHHHHHHHHhhcchhhcchhHHHHHHHHHHhccccHHHHHHHHHHHH
Confidence            1  11         111 234567889999999999998887655322223344456777777777767766664433

>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]

Probab=98.42  E-value=1e-06  Score=81.34  Aligned_cols=154  Identities=17%  Similarity=0.154  Sum_probs=97.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCC--eEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHH
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFD--FVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVK  160 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~--~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~  160 (371)
                      ...++|+|+.|.|||.|++.+.+..   .....  .++++      +...+...++..+..           .....+++
T Consensus       113 ~nplfi~G~~GlGKTHLl~Aign~~---~~~~~~a~v~y~------~se~f~~~~v~a~~~-----------~~~~~Fk~  172 (408)
T COG0593         113 YNPLFIYGGVGLGKTHLLQAIGNEA---LANGPNARVVYL------TSEDFTNDFVKALRD-----------NEMEKFKE  172 (408)
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHHH---HhhCCCceEEec------cHHHHHHHHHHHHHh-----------hhHHHHHH
Confidence            6799999999999999999999998   23333  45554      334555555555431           22334444


Q ss_pred             HhCCCceEEEEeCCCCccc----ccccccccCCCCCCCcEEEEecCch---------HHHhhccCCCceeecCCChHHHH
Q 043737          161 NMSNKKFVLLLDHIWELVD----LSQVGLPVPCRTSASNKTVFTAREL---------EVCGQMEAHKSFKVERLGYEDAW  227 (371)
Q Consensus       161 ~l~~~~~LlVlDdv~~~~~----~~~~~~~l~~~~~~~~~iliTsR~~---------~~~~~~~~~~~~~l~~L~~~ea~  227 (371)
                      ..  .-=++++||++....    -+.+...++.....|..|++|++..         .+.+.+..+-.+++.+.+.+...
T Consensus       173 ~y--~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~~~~rL~SR~~~Gl~~~I~~Pd~e~r~  250 (408)
T COG0593         173 KY--SLDLLLIDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSDRPPKELNGLEDRLRSRLEWGLVVEIEPPDDETRL  250 (408)
T ss_pred             hh--ccCeeeechHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcCCCchhhccccHHHHHHHhceeEEeeCCCCHHHHH
Confidence            44  223999999974322    2223333332233445899998763         33445566778999999999999


Q ss_pred             HHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcH
Q 043737          228 KLFEEKVGKEILDSHPDIPELAETVAKECGGLPL  261 (371)
Q Consensus       228 ~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl  261 (371)
                      .++.+.+.......++   +.+..|++.....=.
T Consensus       251 aiL~kka~~~~~~i~~---ev~~~la~~~~~nvR  281 (408)
T COG0593         251 AILRKKAEDRGIEIPD---EVLEFLAKRLDRNVR  281 (408)
T ss_pred             HHHHHHHHhcCCCCCH---HHHHHHHHHhhccHH
Confidence            9999987655544443   336666666555433

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

Probab=98.42  E-value=1.1e-05  Score=69.09  Aligned_cols=47  Identities=15%  Similarity=0.279  Sum_probs=39.2

Q ss_pred             CCccccchhHHHHHHHHHhc----CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           61 PPTVVGLQSTFDRVWRCLME----EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~----~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+.++|.+.+.+.|.+....    .....+.+||..|+|||+|++.+.+..
T Consensus        26 l~~L~Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y   76 (249)
T PF05673_consen   26 LDDLIGIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEY   76 (249)
T ss_pred             HHHhcCHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHH
Confidence            46789999998888766432    356788999999999999999999887

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=98.41  E-value=4.3e-06  Score=86.22  Aligned_cols=157  Identities=13%  Similarity=0.183  Sum_probs=89.8

Q ss_pred             CccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCC--CC-CC-eEEEEEeCCcCCHHHHHHHHHH
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTP--ND-FD-FVIWVVASKDLQLEQIQGSIAK  137 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~--~~-f~-~~~wv~~~~~~~~~~~~~~l~~  137 (371)
                      +.++||+.++.++...|.......+.++|++|+|||++|..++++.....  .. .. .++.++++      .+.    .
T Consensus       173 ~~~igr~~ei~~~~~~l~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~~~------~l~----a  242 (852)
T TIGR03346       173 DPVIGRDEEIRRTIQVLSRRTKNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALDMG------ALI----A  242 (852)
T ss_pred             CcCCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEeeHH------HHh----h
Confidence            45899999999999999776667788999999999999999998872110  00 11 22222221      111    0


Q ss_pred             HhccCCCCCCcCCHHHHHHHHHHHhC--CCceEEEEeCCCCccc-------ccccccccCCCCCCCcEEEEecCchHHHh
Q 043737          138 KINLFNESWNSRSLQEKSQDIVKNMS--NKKFVLLLDHIWELVD-------LSQVGLPVPCRTSASNKTVFTARELEVCG  208 (371)
Q Consensus       138 ~l~~~~~~~~~~~~~~~~~~l~~~l~--~~~~LlVlDdv~~~~~-------~~~~~~~l~~~~~~~~~iliTsR~~~~~~  208 (371)
                      ...      .....+..+..+...+.  +++.+|+||+++....       .+......+.......++|.+|....+..
T Consensus       243 ~~~------~~g~~e~~l~~~l~~~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~~~Lk~~l~~g~i~~IgaTt~~e~r~  316 (852)
T TIGR03346       243 GAK------YRGEFEERLKAVLNEVTKSEGQIILFIDELHTLVGAGKAEGAMDAGNMLKPALARGELHCIGATTLDEYRK  316 (852)
T ss_pred             cch------hhhhHHHHHHHHHHHHHhcCCCeEEEeccHHHhhcCCCCcchhHHHHHhchhhhcCceEEEEeCcHHHHHH
Confidence            000      11122333334443332  4689999999985421       11111112211222344554554443311


Q ss_pred             -------hccCCCceeecCCChHHHHHHHHHHh
Q 043737          209 -------QMEAHKSFKVERLGYEDAWKLFEEKV  234 (371)
Q Consensus       209 -------~~~~~~~~~l~~L~~~ea~~ll~~~~  234 (371)
                             .......+.++..+.++...++....
T Consensus       317 ~~~~d~al~rRf~~i~v~~p~~~~~~~iL~~~~  349 (852)
T TIGR03346       317 YIEKDAALERRFQPVFVDEPTVEDTISILRGLK  349 (852)
T ss_pred             HhhcCHHHHhcCCEEEeCCCCHHHHHHHHHHHH
Confidence                   11234678899999999999987654

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.

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=98.40  E-value=9.4e-07  Score=80.80  Aligned_cols=100  Identities=18%  Similarity=0.174  Sum_probs=64.4

Q ss_pred             HHHHHhc-CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcC--CHHHHHHHHHHHhccCCCCCCcCC
Q 043737           74 VWRCLME-EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDL--QLEQIQGSIAKKINLFNESWNSRS  150 (371)
Q Consensus        74 l~~~L~~-~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~--~~~~~~~~l~~~l~~~~~~~~~~~  150 (371)
                      +++.+.. +......|+|++|+|||||++++++...  ..+|+.++|+.+....  .+.++.+.+...+-....  ....
T Consensus       159 vID~l~PIGkGQR~lIvgppGvGKTTLaK~Ian~I~--~nhFDv~~~VvLIgER~~EVtdiqrsIlg~vv~st~--d~~~  234 (416)
T PRK09376        159 IIDLIAPIGKGQRGLIVAPPKAGKTVLLQNIANSIT--TNHPEVHLIVLLIDERPEEVTDMQRSVKGEVVASTF--DEPA  234 (416)
T ss_pred             eeeeecccccCceEEEeCCCCCChhHHHHHHHHHHH--hhcCCeEEEEEEeCCchhHHHHHHHHhcCcEEEECC--CCCH
Confidence            3444433 3455788999999999999999999983  3389999999987766  677777777643222211  1111


Q ss_pred             HHH-----HHHHHHHH--hCCCceEEEEeCCCCc
Q 043737          151 LQE-----KSQDIVKN--MSNKKFVLLLDHIWEL  177 (371)
Q Consensus       151 ~~~-----~~~~l~~~--l~~~~~LlVlDdv~~~  177 (371)
                      ...     ..-...+.  ..+++++|++|++...
T Consensus       235 ~~~~~~a~~~ie~Ae~~~e~G~dVlL~iDsItR~  268 (416)
T PRK09376        235 ERHVQVAEMVIEKAKRLVEHGKDVVILLDSITRL  268 (416)
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCCEEEEEEChHHH
Confidence            111     11111111  2578999999999643

>CHL00181 cbbX CbbX; Provisional

Probab=98.39  E-value=1.3e-05  Score=71.81  Aligned_cols=134  Identities=9%  Similarity=0.066  Sum_probs=70.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhC
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMS  163 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~  163 (371)
                      ..+.++|++|+|||++|+.+++... ....-...-|+.++    ..++.    ..+..       ..... ...+.+...
T Consensus        60 ~~ill~G~pGtGKT~lAr~la~~~~-~~g~~~~~~~~~v~----~~~l~----~~~~g-------~~~~~-~~~~l~~a~  122 (287)
T CHL00181         60 LHMSFTGSPGTGKTTVALKMADILY-KLGYIKKGHLLTVT----RDDLV----GQYIG-------HTAPK-TKEVLKKAM  122 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHH-HcCCCCCCceEEec----HHHHH----HHHhc-------cchHH-HHHHHHHcc
Confidence            3588999999999999999988752 11111111133333    12222    21110       01111 122222222


Q ss_pred             CCceEEEEeCCCCcc-----------cccccccccCCCCCCCcEEEEecCchHHHhh--------ccCCCceeecCCChH
Q 043737          164 NKKFVLLLDHIWELV-----------DLSQVGLPVPCRTSASNKTVFTARELEVCGQ--------MEAHKSFKVERLGYE  224 (371)
Q Consensus       164 ~~~~LlVlDdv~~~~-----------~~~~~~~~l~~~~~~~~~iliTsR~~~~~~~--------~~~~~~~~l~~L~~~  224 (371)
                        .-+|+||+++...           ..+.+...+. ....+..||+++........        ..-...+.+++++.+
T Consensus       123 --ggVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me-~~~~~~~vI~ag~~~~~~~~~~~np~L~sR~~~~i~F~~~t~~  199 (287)
T CHL00181        123 --GGVLFIDEAYYLYKPDNERDYGSEAIEILLQVME-NQRDDLVVIFAGYKDRMDKFYESNPGLSSRIANHVDFPDYTPE  199 (287)
T ss_pred             --CCEEEEEccchhccCCCccchHHHHHHHHHHHHh-cCCCCEEEEEeCCcHHHHHHHhcCHHHHHhCCceEEcCCcCHH
Confidence              2499999997531           1122222222 23345566666654322110        012357899999999


Q ss_pred             HHHHHHHHHhCCC
Q 043737          225 DAWKLFEEKVGKE  237 (371)
Q Consensus       225 ea~~ll~~~~~~~  237 (371)
                      |..+++...+...
T Consensus       200 el~~I~~~~l~~~  212 (287)
T CHL00181        200 ELLQIAKIMLEEQ  212 (287)
T ss_pred             HHHHHHHHHHHHh
Confidence            9999998887543

>PRK10865 protein disaggregation chaperone; Provisional

Probab=98.38  E-value=4.9e-06  Score=85.51  Aligned_cols=157  Identities=13%  Similarity=0.154  Sum_probs=88.1

Q ss_pred             CccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCC--CC--CCeEEEEEeCCcCCHHHHHHHHHH
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTP--ND--FDFVIWVVASKDLQLEQIQGSIAK  137 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~--~~--f~~~~wv~~~~~~~~~~~~~~l~~  137 (371)
                      +.++||+.++.+++..|.......+.++|++|+|||++|..++.+.....  ..  ...+++++++.-      .    .
T Consensus       178 ~~vigr~~ei~~~i~iL~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l~~l------~----a  247 (857)
T PRK10865        178 DPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGAL------V----A  247 (857)
T ss_pred             CcCCCCHHHHHHHHHHHhcCCcCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEehhhh------h----h
Confidence            56899999999999999776667888999999999999999999872110  00  112333333221      0    0


Q ss_pred             HhccCCCCCCcCCHHHHHHHHHHHh--CCCceEEEEeCCCCcccc-------cccccccCCCCCCCcEEEEecCchHHH-
Q 043737          138 KINLFNESWNSRSLQEKSQDIVKNM--SNKKFVLLLDHIWELVDL-------SQVGLPVPCRTSASNKTVFTARELEVC-  207 (371)
Q Consensus       138 ~l~~~~~~~~~~~~~~~~~~l~~~l--~~~~~LlVlDdv~~~~~~-------~~~~~~l~~~~~~~~~iliTsR~~~~~-  207 (371)
                      ...      .....+..+..+...+  .+++++|++|+++....-       +.-....+.......++|-+|....+. 
T Consensus       248 g~~------~~g~~e~~lk~~~~~~~~~~~~~ILfIDEih~l~~~~~~~~~~d~~~~lkp~l~~g~l~~IgaTt~~e~r~  321 (857)
T PRK10865        248 GAK------YRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALARGELHCVGATTLDEYRQ  321 (857)
T ss_pred             ccc------hhhhhHHHHHHHHHHHHHcCCCeEEEEecHHHhccCCCCccchhHHHHhcchhhcCCCeEEEcCCCHHHHH
Confidence            000      1112223333333322  246889999999754211       111111221122334555554444321 


Q ss_pred             ------hhccCCCceeecCCChHHHHHHHHHHh
Q 043737          208 ------GQMEAHKSFKVERLGYEDAWKLFEEKV  234 (371)
Q Consensus       208 ------~~~~~~~~~~l~~L~~~ea~~ll~~~~  234 (371)
                            ........+.+..-+.++...+++...
T Consensus       322 ~~~~d~al~rRf~~i~v~eP~~~~~~~iL~~l~  354 (857)
T PRK10865        322 YIEKDAALERRFQKVFVAEPSVEDTIAILRGLK  354 (857)
T ss_pred             HhhhcHHHHhhCCEEEeCCCCHHHHHHHHHHHh
Confidence                  111233467777778899888886554

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=98.38  E-value=1.3e-05  Score=73.23  Aligned_cols=93  Identities=10%  Similarity=0.088  Sum_probs=58.5

Q ss_pred             CceEEEEeCCCCcc--cccccccccCCCCCCCcEEEEecCch-HHHh-hccCCCceeecCCChHHHHHHHHHHhCCCCCC
Q 043737          165 KKFVLLLDHIWELV--DLSQVGLPVPCRTSASNKTVFTAREL-EVCG-QMEAHKSFKVERLGYEDAWKLFEEKVGKEILD  240 (371)
Q Consensus       165 ~~~LlVlDdv~~~~--~~~~~~~~l~~~~~~~~~iliTsR~~-~~~~-~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~  240 (371)
                      ++-++|||+++.+.  ..+.+...+. ....++.+|++|.+. .+.. ..+....+.+.+++.+++.+.+......    
T Consensus       106 ~~kv~iI~~a~~m~~~aaNaLLK~LE-EPp~~~~fiL~t~~~~~ll~TI~SRc~~~~~~~~~~~~~~~~L~~~~~~----  180 (328)
T PRK05707        106 GRKVVLIEPAEAMNRNAANALLKSLE-EPSGDTVLLLISHQPSRLLPTIKSRCQQQACPLPSNEESLQWLQQALPE----  180 (328)
T ss_pred             CCeEEEECChhhCCHHHHHHHHHHHh-CCCCCeEEEEEECChhhCcHHHHhhceeeeCCCcCHHHHHHHHHHhccc----
Confidence            34466789998653  3344444444 334456666665553 3332 2345677999999999999999876421    


Q ss_pred             CCCCHHHHHHHHHHHcCCCcHHHHH
Q 043737          241 SHPDIPELAETVAKECGGLPLALIT  265 (371)
Q Consensus       241 ~~~~~~~~~~~i~~~~~g~Plal~~  265 (371)
                      .   ..+.+..++..++|.|.....
T Consensus       181 ~---~~~~~~~~l~la~Gsp~~A~~  202 (328)
T PRK05707        181 S---DERERIELLTLAGGSPLRALQ  202 (328)
T ss_pred             C---ChHHHHHHHHHcCCCHHHHHH
Confidence            1   123366778999999975443

>TIGR00767 rho transcription termination factor Rho

Probab=98.36  E-value=2.7e-06  Score=78.22  Aligned_cols=95  Identities=18%  Similarity=0.149  Sum_probs=63.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCc--CCHHHHHHHHHHHhccCCCCCCcCCHHHHHH--
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKD--LQLEQIQGSIAKKINLFNESWNSRSLQEKSQ--  156 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~--~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~--  156 (371)
                      +....++|+|++|+|||||++.+++...  ..+|+..+|+.+...  .++.++++.+...+-...-+.+.........  
T Consensus       166 g~Gq~~~IvG~~g~GKTtL~~~i~~~I~--~nhfdv~v~VlLIgER~~EVtDLqrsIlg~Vvast~d~p~~~~~~va~~v  243 (415)
T TIGR00767       166 GKGQRGLIVAPPKAGKTVLLQKIAQAIT--RNHPEVELIVLLIDERPEEVTDMQRSVKGEVVASTFDEPASRHVQVAEMV  243 (415)
T ss_pred             CCCCEEEEECCCCCChhHHHHHHHHhhc--ccCCceEEEEEEcCCCCccHHHHHHHhhceEEEecCCCChHHHHHHHHHH
Confidence            3456899999999999999999999873  347898889988755  6888999998654432221111111111111  


Q ss_pred             --HHHHH-hCCCceEEEEeCCCCc
Q 043737          157 --DIVKN-MSNKKFVLLLDHIWEL  177 (371)
Q Consensus       157 --~l~~~-l~~~~~LlVlDdv~~~  177 (371)
                        ..... ..+++++|++|+++..
T Consensus       244 ~e~Ae~~~~~GkdVVLlIDEitR~  267 (415)
T TIGR00767       244 IEKAKRLVEHKKDVVILLDSITRL  267 (415)
T ss_pred             HHHHHHHHHcCCCeEEEEEChhHH
Confidence              11111 2578999999999743

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

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

Probab=98.33  E-value=2.9e-06  Score=79.99  Aligned_cols=171  Identities=14%  Similarity=0.148  Sum_probs=94.6

Q ss_pred             ccccchhHHHHHHHHHhc-------------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHH
Q 043737           63 TVVGLQSTFDRVWRCLME-------------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLE  129 (371)
Q Consensus        63 ~~vGR~~~~~~l~~~L~~-------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~  129 (371)
                      .+.|.+..+++|.+++.-             ...+.+.|+|++|+|||++|+.+++..   ...|     +.+..    .
T Consensus       184 DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el---~~~f-----i~V~~----s  251 (438)
T PTZ00361        184 DIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANET---SATF-----LRVVG----S  251 (438)
T ss_pred             HhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhh---CCCE-----EEEec----c
Confidence            357888888888877631             234678899999999999999999987   3333     11111    0


Q ss_pred             HHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc----------------ccccccccC-CCCC
Q 043737          130 QIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD----------------LSQVGLPVP-CRTS  192 (371)
Q Consensus       130 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~----------------~~~~~~~l~-~~~~  192 (371)
                      .+..    ..       ...........+.....+.+++++||+++....                +..+...+. ....
T Consensus       252 eL~~----k~-------~Ge~~~~vr~lF~~A~~~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~~~  320 (438)
T PTZ00361        252 ELIQ----KY-------LGDGPKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDSR  320 (438)
T ss_pred             hhhh----hh-------cchHHHHHHHHHHHHHhCCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhccc
Confidence            1111    10       011111111222222245788999999863311                000110111 0123


Q ss_pred             CCcEEEEecCchHHH-hhc----cCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCc
Q 043737          193 ASNKTVFTARELEVC-GQM----EAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLP  260 (371)
Q Consensus       193 ~~~~iliTsR~~~~~-~~~----~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~P  260 (371)
                      .+..||+||...... ..+    .....+.++..+.++..++|..+........+.+    ...++..+.|.-
T Consensus       321 ~~V~VI~ATNr~d~LDpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~~k~~l~~dvd----l~~la~~t~g~s  389 (438)
T PTZ00361        321 GDVKVIMATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSKMTLAEDVD----LEEFIMAKDELS  389 (438)
T ss_pred             CCeEEEEecCChHHhhHHhccCCeeEEEEEeCCCCHHHHHHHHHHHHhcCCCCcCcC----HHHHHHhcCCCC
Confidence            356677776653322 211    1235689999999999999998775544333333    455666666643

>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]

Probab=98.32  E-value=1e-05  Score=67.89  Aligned_cols=100  Identities=18%  Similarity=0.205  Sum_probs=68.1

Q ss_pred             CccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhcc
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINL  141 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~  141 (371)
                      ..+||-++.++++.-...+++.+.+.|.||+|+||||-+..+++.+. ....-+.++-++++....++-+-..|-.....
T Consensus        27 ~dIVGNe~tv~rl~via~~gnmP~liisGpPG~GKTTsi~~LAr~LL-G~~~ke~vLELNASdeRGIDvVRn~IK~FAQ~  105 (333)
T KOG0991|consen   27 QDIVGNEDTVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLARELL-GDSYKEAVLELNASDERGIDVVRNKIKMFAQK  105 (333)
T ss_pred             HHhhCCHHHHHHHHHHHHcCCCCceEeeCCCCCchhhHHHHHHHHHh-ChhhhhHhhhccCccccccHHHHHHHHHHHHh
Confidence            56899999999998888888899999999999999999999998882 23344466666666555444333333221111


Q ss_pred             CCCCCCcCCHHHHHHHHHHHh-CCCceEEEEeCCCCccc
Q 043737          142 FNESWNSRSLQEKSQDIVKNM-SNKKFVLLLDHIWELVD  179 (371)
Q Consensus       142 ~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~~~  179 (371)
                      ..                 .+ .++--++|||+.+.+.+
T Consensus       106 kv-----------------~lp~grhKIiILDEADSMT~  127 (333)
T KOG0991|consen  106 KV-----------------TLPPGRHKIIILDEADSMTA  127 (333)
T ss_pred             hc-----------------cCCCCceeEEEeeccchhhh
Confidence            00                 01 13445899999987643

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

Probab=98.31  E-value=8.9e-06  Score=81.95  Aligned_cols=156  Identities=12%  Similarity=0.227  Sum_probs=89.9

Q ss_pred             CccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCC---CCeEEEEEeCCcCCHHHHHHHHHHH
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPND---FDFVIWVVASKDLQLEQIQGSIAKK  138 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~---f~~~~wv~~~~~~~~~~~~~~l~~~  138 (371)
                      +.++||+.++.++.+.|.......+.|+|++|+|||++|..+++........   .+..+|. .    +...+    +. 
T Consensus       186 ~~liGR~~ei~~~i~iL~r~~~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~-l----~~~~l----la-  255 (758)
T PRK11034        186 DPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYS-L----DIGSL----LA-  255 (758)
T ss_pred             CcCcCCCHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEe-c----cHHHH----hc-
Confidence            4589999999999999977656677899999999999999999875221111   1233331 1    11111    10 


Q ss_pred             hccCCCCCCcCCHHHHHHHHHHHh-CCCceEEEEeCCCCcc--------cccc--cccccCCCCCCCcEEEEecCchHHH
Q 043737          139 INLFNESWNSRSLQEKSQDIVKNM-SNKKFVLLLDHIWELV--------DLSQ--VGLPVPCRTSASNKTVFTARELEVC  207 (371)
Q Consensus       139 l~~~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~~--------~~~~--~~~~l~~~~~~~~~iliTsR~~~~~  207 (371)
                       +..    .....+.....+...+ +..+.+|+||+++...        +.+.  +..++.  .....++|-+|....+.
T Consensus       256 -G~~----~~Ge~e~rl~~l~~~l~~~~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L--~~g~i~vIgATt~~E~~  328 (758)
T PRK11034        256 -GTK----YRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLL--SSGKIRVIGSTTYQEFS  328 (758)
T ss_pred             -ccc----hhhhHHHHHHHHHHHHHhcCCCEEEeccHHHHhccCCCCCcHHHHHHHHHHHH--hCCCeEEEecCChHHHH
Confidence             000    1122333333443333 3467799999997431        1111  111111  22334445444443321


Q ss_pred             h-------hccCCCceeecCCChHHHHHHHHHHh
Q 043737          208 G-------QMEAHKSFKVERLGYEDAWKLFEEKV  234 (371)
Q Consensus       208 ~-------~~~~~~~~~l~~L~~~ea~~ll~~~~  234 (371)
                      .       .....+.+.+++.+.+++.+++....
T Consensus       329 ~~~~~D~AL~rRFq~I~v~ePs~~~~~~IL~~~~  362 (758)
T PRK11034        329 NIFEKDRALARRFQKIDITEPSIEETVQIINGLK  362 (758)
T ss_pred             HHhhccHHHHhhCcEEEeCCCCHHHHHHHHHHHH
Confidence            1       11234679999999999999998654

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

Probab=98.31  E-value=1.4e-05  Score=75.87  Aligned_cols=171  Identities=16%  Similarity=0.134  Sum_probs=96.2

Q ss_pred             CccccchhHHHHHHHHHhc------------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHH
Q 043737           62 PTVVGLQSTFDRVWRCLME------------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLE  129 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~  129 (371)
                      .++=|-+..+++|.+.+.-            ...+-|.+|||+|+|||.||+.++.++        .+-++.++..    
T Consensus       190 ~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel--------~vPf~~isAp----  257 (802)
T KOG0733|consen  190 SDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGEL--------GVPFLSISAP----  257 (802)
T ss_pred             hhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhc--------CCceEeecch----
Confidence            3467788888888776642            256789999999999999999999998        2344444432    


Q ss_pred             HHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc-------------ccccc---cccCCCCCC
Q 043737          130 QIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD-------------LSQVG---LPVPCRTSA  193 (371)
Q Consensus       130 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~-------------~~~~~---~~l~~~~~~  193 (371)
                          +|...+       ...+.+.+...+.+....-+++++||+++-..-             ..++.   ..+......
T Consensus       258 ----eivSGv-------SGESEkkiRelF~~A~~~aPcivFiDeIDAI~pkRe~aqreMErRiVaQLlt~mD~l~~~~~~  326 (802)
T KOG0733|consen  258 ----EIVSGV-------SGESEKKIRELFDQAKSNAPCIVFIDEIDAITPKREEAQREMERRIVAQLLTSMDELSNEKTK  326 (802)
T ss_pred             ----hhhccc-------CcccHHHHHHHHHHHhccCCeEEEeecccccccchhhHHHHHHHHHHHHHHHhhhcccccccC
Confidence                122221       233333344444444556899999999974310             11111   111111111


Q ss_pred             Cc-EEEE--ecCchHHHhhc---c-CCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCC
Q 043737          194 SN-KTVF--TARELEVCGQM---E-AHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGL  259 (371)
Q Consensus       194 ~~-~ili--TsR~~~~~~~~---~-~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~  259 (371)
                      |- .++|  |+|...+-..+   + -...|.+.-=+...-.+++.....+.....+-+    .++|++.+-|.
T Consensus       327 g~~VlVIgATnRPDslDpaLRRaGRFdrEI~l~vP~e~aR~~IL~~~~~~lrl~g~~d----~~qlA~lTPGf  395 (802)
T KOG0733|consen  327 GDPVLVIGATNRPDSLDPALRRAGRFDREICLGVPSETAREEILRIICRGLRLSGDFD----FKQLAKLTPGF  395 (802)
T ss_pred             CCCeEEEecCCCCcccCHHHhccccccceeeecCCchHHHHHHHHHHHhhCCCCCCcC----HHHHHhcCCCc
Confidence            22 3333  67775543222   1 224466665555555666666554444333333    56777777765

>TIGR03689 pup_AAA proteasome ATPase

Probab=98.30  E-value=9.9e-06  Score=77.63  Aligned_cols=163  Identities=13%  Similarity=0.161  Sum_probs=88.0

Q ss_pred             CccccchhHHHHHHHHHhc-------------CCceEEEEEcCCCCcHHHHHHHHHhhccCCC--CCCCeEEEEEeCCcC
Q 043737           62 PTVVGLQSTFDRVWRCLME-------------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTP--NDFDFVIWVVASKDL  126 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~-------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~--~~f~~~~wv~~~~~~  126 (371)
                      ..+.|.+..++++.+.+.-             ...+-+.|+|++|+|||++|+.+++.+....  .......|+++... 
T Consensus       182 ~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl~v~~~-  260 (512)
T TIGR03689       182 ADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFLNIKGP-  260 (512)
T ss_pred             HHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeEEeccch-
Confidence            4577899999998887641             2356799999999999999999999872110  01223444444321 


Q ss_pred             CHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHh-CCCceEEEEeCCCCccc--------------ccccccccCC-C
Q 043737          127 QLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNM-SNKKFVLLLDHIWELVD--------------LSQVGLPVPC-R  190 (371)
Q Consensus       127 ~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~~~--------------~~~~~~~l~~-~  190 (371)
                         +++....   +   .  ............+... .+++++++||+++....              +..+...+.. .
T Consensus       261 ---eLl~kyv---G---e--te~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~LDgl~  329 (512)
T TIGR03689       261 ---ELLNKYV---G---E--TERQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSELDGVE  329 (512)
T ss_pred             ---hhccccc---c---h--HHHHHHHHHHHHHHHhhcCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHHhcccc
Confidence               1111000   0   0  0001111122222221 34789999999974311              1112112221 1


Q ss_pred             CCCCcEEEEecCchHH-Hhhc----cCCCceeecCCChHHHHHHHHHHhCC
Q 043737          191 TSASNKTVFTARELEV-CGQM----EAHKSFKVERLGYEDAWKLFEEKVGK  236 (371)
Q Consensus       191 ~~~~~~iliTsR~~~~-~~~~----~~~~~~~l~~L~~~ea~~ll~~~~~~  236 (371)
                      ...+..||.||..... -..+    .-...|+++..+.++..++|..++..
T Consensus       330 ~~~~ViVI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l~~  380 (512)
T TIGR03689       330 SLDNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFSKYLTD  380 (512)
T ss_pred             cCCceEEEeccCChhhCCHhhcCccccceEEEeCCCCHHHHHHHHHHHhhc
Confidence            1233344445543322 1111    12345899999999999999998753

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.

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=98.29  E-value=5.2e-05  Score=73.69  Aligned_cols=179  Identities=13%  Similarity=0.089  Sum_probs=95.7

Q ss_pred             CccccchhHHHHHHHHHh---c---------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHH
Q 043737           62 PTVVGLQSTFDRVWRCLM---E---------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLE  129 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~---~---------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~  129 (371)
                      .+++|-+...+++.+.+.   .         ...+-+.++|++|+|||+||+.++...   ...|     +.++.    .
T Consensus        55 ~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~---~~~~-----~~i~~----~  122 (495)
T TIGR01241        55 KDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEA---GVPF-----FSISG----S  122 (495)
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHc---CCCe-----eeccH----H
Confidence            457888776666554432   1         124568999999999999999999886   2222     22221    1


Q ss_pred             HHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc----------------ccccccccCC-CCC
Q 043737          130 QIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD----------------LSQVGLPVPC-RTS  192 (371)
Q Consensus       130 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~----------------~~~~~~~l~~-~~~  192 (371)
                      ++....           ...........+.......+.+|+|||++....                +..+...+.. ...
T Consensus       123 ~~~~~~-----------~g~~~~~l~~~f~~a~~~~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~~  191 (495)
T TIGR01241       123 DFVEMF-----------VGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTN  191 (495)
T ss_pred             HHHHHH-----------hcccHHHHHHHHHHHHhcCCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccCC
Confidence            221111           011112222233333345778999999975311                0011111110 122


Q ss_pred             CCcEEEEecCchH-H----HhhccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCC-cHHHHHH
Q 043737          193 ASNKTVFTARELE-V----CGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGL-PLALITV  266 (371)
Q Consensus       193 ~~~~iliTsR~~~-~----~~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~-Plal~~~  266 (371)
                      .+..||.||.... +    .+...-...+.++..+.++-.+++...+.......+.    ....+++.+.|. +--|..+
T Consensus       192 ~~v~vI~aTn~~~~ld~al~r~gRfd~~i~i~~Pd~~~R~~il~~~l~~~~~~~~~----~l~~la~~t~G~sgadl~~l  267 (495)
T TIGR01241       192 TGVIVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKKLAPDV----DLKAVARRTPGFSGADLANL  267 (495)
T ss_pred             CCeEEEEecCChhhcCHHHhcCCcceEEEEcCCCCHHHHHHHHHHHHhcCCCCcch----hHHHHHHhCCCCCHHHHHHH
Confidence            3444555554432 1    1111223568888888888899998877544322211    256788888874 4444444


Q ss_pred             H
Q 043737          267 G  267 (371)
Q Consensus       267 a  267 (371)
                      .
T Consensus       268 ~  268 (495)
T TIGR01241       268 L  268 (495)
T ss_pred             H
Confidence            3

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.

>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=98.29  E-value=1.5e-05  Score=74.84  Aligned_cols=136  Identities=17%  Similarity=0.212  Sum_probs=83.1

Q ss_pred             ccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcC-CHHHHHHHHHHHhccCC
Q 043737           65 VGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDL-QLEQIQGSIAKKINLFN  143 (371)
Q Consensus        65 vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~l~~~l~~~~  143 (371)
                      ..|..-+.++.+.+..... ++.|.|+-++||||+++.+....   ...   +++++..... +...+ .+....     
T Consensus        20 ~~~~~~~~~l~~~~~~~~~-i~~i~GpR~~GKTtll~~l~~~~---~~~---~iy~~~~d~~~~~~~l-~d~~~~-----   86 (398)
T COG1373          20 IERRKLLPRLIKKLDLRPF-IILILGPRQVGKTTLLKLLIKGL---LEE---IIYINFDDLRLDRIEL-LDLLRA-----   86 (398)
T ss_pred             hhHHhhhHHHHhhcccCCc-EEEEECCccccHHHHHHHHHhhC---Ccc---eEEEEecchhcchhhH-HHHHHH-----
Confidence            3344556666666643333 99999999999999997777666   222   5555543321 11111 111111     


Q ss_pred             CCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCcccccccccccCCCCCCCcEEEEecCchHHHhh------ccCCCcee
Q 043737          144 ESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLSQVGLPVPCRTSASNKTVFTARELEVCGQ------MEAHKSFK  217 (371)
Q Consensus       144 ~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~~~~~~~~l~~~~~~~~~iliTsR~~~~~~~------~~~~~~~~  217 (371)
                                    +...-..++.+++||.|+....|......+. ..... +++||+.+..+...      .+....+.
T Consensus        87 --------------~~~~~~~~~~yifLDEIq~v~~W~~~lk~l~-d~~~~-~v~itgsss~ll~~~~~~~L~GR~~~~~  150 (398)
T COG1373          87 --------------YIELKEREKSYIFLDEIQNVPDWERALKYLY-DRGNL-DVLITGSSSSLLSKEISESLAGRGKDLE  150 (398)
T ss_pred             --------------HHHhhccCCceEEEecccCchhHHHHHHHHH-ccccc-eEEEECCchhhhccchhhhcCCCceeEE
Confidence                          1111112667999999999999888655554 22223 78888777554221      13345789


Q ss_pred             ecCCChHHHHHH
Q 043737          218 VERLGYEDAWKL  229 (371)
Q Consensus       218 l~~L~~~ea~~l  229 (371)
                      +.||+..|-..+
T Consensus       151 l~PlSF~Efl~~  162 (398)
T COG1373         151 LYPLSFREFLKL  162 (398)
T ss_pred             ECCCCHHHHHhh
Confidence            999999998754

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=98.23  E-value=3e-05  Score=71.12  Aligned_cols=161  Identities=9%  Similarity=0.061  Sum_probs=86.6

Q ss_pred             cccc-chhHHHHHHHHHhcCCc-eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHh-
Q 043737           63 TVVG-LQSTFDRVWRCLMEEQM-GIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKI-  139 (371)
Q Consensus        63 ~~vG-R~~~~~~l~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l-  139 (371)
                      .++| .+..++.|...+..++. ..+.++|+.|+|||++|..+++.+.. .......   .++..    ...+.+...- 
T Consensus         6 ~i~~~q~~~~~~L~~~~~~~~l~ha~Lf~G~~G~gk~~~a~~la~~l~c-~~~~~~~---~cg~C----~~c~~~~~~~h   77 (329)
T PRK08058          6 QLTALQPVVVKMLQNSIAKNRLSHAYLFEGAKGTGKKATALWLAKSLFC-LERNGVE---PCGTC----TNCKRIDSGNH   77 (329)
T ss_pred             HHHhhHHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHCC-CCCCCCC---CCCcC----HHHHHHhcCCC
Confidence            3566 77788888888876654 56789999999999999999888621 1101000   00000    0111110000 


Q ss_pred             ---ccCCCCCCcCCHHHHHHHHHHHh-----CCCceEEEEeCCCCccc--ccccccccCCCCCCCcEEEEecCc-hHHHh
Q 043737          140 ---NLFNESWNSRSLQEKSQDIVKNM-----SNKKFVLLLDHIWELVD--LSQVGLPVPCRTSASNKTVFTARE-LEVCG  208 (371)
Q Consensus       140 ---~~~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~~~iliTsR~-~~~~~  208 (371)
                         ....+.......++.. .+.+.+     .+++-++|+|+++....  .+.+...+. ....++.+|++|.+ ..+..
T Consensus        78 pD~~~i~~~~~~i~id~ir-~l~~~~~~~~~~~~~kvviI~~a~~~~~~a~NaLLK~LE-EPp~~~~~Il~t~~~~~ll~  155 (329)
T PRK08058         78 PDVHLVAPDGQSIKKDQIR-YLKEEFSKSGVESNKKVYIIEHADKMTASAANSLLKFLE-EPSGGTTAILLTENKHQILP  155 (329)
T ss_pred             CCEEEeccccccCCHHHHH-HHHHHHhhCCcccCceEEEeehHhhhCHHHHHHHHHHhc-CCCCCceEEEEeCChHhCcH
Confidence               0000000111122221 122211     23455899999976533  344444444 44456666655544 33322


Q ss_pred             -hccCCCceeecCCChHHHHHHHHHH
Q 043737          209 -QMEAHKSFKVERLGYEDAWKLFEEK  233 (371)
Q Consensus       209 -~~~~~~~~~l~~L~~~ea~~ll~~~  233 (371)
                       ..+....+++.+++.++..+.+...
T Consensus       156 TIrSRc~~i~~~~~~~~~~~~~L~~~  181 (329)
T PRK08058        156 TILSRCQVVEFRPLPPESLIQRLQEE  181 (329)
T ss_pred             HHHhhceeeeCCCCCHHHHHHHHHHc
Confidence             2345678999999999998888653

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=98.23  E-value=5.8e-05  Score=68.36  Aligned_cols=176  Identities=10%  Similarity=0.069  Sum_probs=96.6

Q ss_pred             hHHHHHHHHHhcCCc-eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHh----ccC-
Q 043737           69 STFDRVWRCLMEEQM-GIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKI----NLF-  142 (371)
Q Consensus        69 ~~~~~l~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l----~~~-  142 (371)
                      ...+++...+..++. ..+.++|+.|+||+++|..+++.+.- ......-      . .   ...+.+...-    ..- 
T Consensus        11 ~~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~lA~~LlC-~~~~~~~------~-c---~~c~~~~~g~HPD~~~i~   79 (319)
T PRK08769         11 RAYDQTVAALDAGRLGHGLLICGPEGLGKRAVALALAEHVLA-SGPDPAA------A-Q---RTRQLIAAGTHPDLQLVS   79 (319)
T ss_pred             HHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHhC-CCCCCCC------c-c---hHHHHHhcCCCCCEEEEe
Confidence            445677777766554 46889999999999999999887631 1111000      0 0   0000000000    000 


Q ss_pred             -CCCC------CcCCHHHHHHHHHHHhC-----CCceEEEEeCCCCccc--ccccccccCCCCCCCcEEEEecC-chHHH
Q 043737          143 -NESW------NSRSLQEKSQDIVKNMS-----NKKFVLLLDHIWELVD--LSQVGLPVPCRTSASNKTVFTAR-ELEVC  207 (371)
Q Consensus       143 -~~~~------~~~~~~~~~~~l~~~l~-----~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~~~iliTsR-~~~~~  207 (371)
                       .+..      ..... +.++.+.+.+.     ++.-++|||+++.+..  -+.+...+. ....++.+|++|. ...+.
T Consensus        80 ~~p~~~~~k~~~~I~i-dqIR~l~~~~~~~p~~g~~kV~iI~~ae~m~~~AaNaLLKtLE-EPp~~~~fiL~~~~~~~lL  157 (319)
T PRK08769         80 FIPNRTGDKLRTEIVI-EQVREISQKLALTPQYGIAQVVIVDPADAINRAACNALLKTLE-EPSPGRYLWLISAQPARLP  157 (319)
T ss_pred             cCCCcccccccccccH-HHHHHHHHHHhhCcccCCcEEEEeccHhhhCHHHHHHHHHHhh-CCCCCCeEEEEECChhhCc
Confidence             0000      00111 22233333332     3455999999986633  333444444 4445665555554 44443


Q ss_pred             hh-ccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHH
Q 043737          208 GQ-MEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITV  266 (371)
Q Consensus       208 ~~-~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~  266 (371)
                      .. .+....+.+.+++.+++.+.+....      .+   .+.+..++..++|.|+....+
T Consensus       158 pTIrSRCq~i~~~~~~~~~~~~~L~~~~------~~---~~~a~~~~~l~~G~p~~A~~~  208 (319)
T PRK08769        158 ATIRSRCQRLEFKLPPAHEALAWLLAQG------VS---ERAAQEALDAARGHPGLAAQW  208 (319)
T ss_pred             hHHHhhheEeeCCCcCHHHHHHHHHHcC------CC---hHHHHHHHHHcCCCHHHHHHH
Confidence            32 3456778999999999999987541      11   222667899999999865433

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

Probab=98.23  E-value=4.3e-05  Score=68.38  Aligned_cols=193  Identities=16%  Similarity=0.160  Sum_probs=108.3

Q ss_pred             cccchhHHHHHHHHHhc-------------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHH
Q 043737           64 VVGLQSTFDRVWRCLME-------------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQ  130 (371)
Q Consensus        64 ~vGR~~~~~~l~~~L~~-------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~  130 (371)
                      +=|-++.+++|.+.+.-             +.++-|.+|||+|+|||-||++++++-   ...     |+.+..    .+
T Consensus       153 IGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T---~At-----FIrvvg----SE  220 (406)
T COG1222         153 IGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQT---DAT-----FIRVVG----SE  220 (406)
T ss_pred             ccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhcc---Cce-----EEEecc----HH
Confidence            45677888888777641             367789999999999999999999986   333     333332    12


Q ss_pred             HHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhC-CCceEEEEeCCCCccc--------------------ccccccccCC
Q 043737          131 IQGSIAKKINLFNESWNSRSLQEKSQDIVKNMS-NKKFVLLLDHIWELVD--------------------LSQVGLPVPC  189 (371)
Q Consensus       131 ~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~-~~~~LlVlDdv~~~~~--------------------~~~~~~~l~~  189 (371)
                      +    .+..-..        -..+++.+.+..+ ..+++|++|+++....                    +.++..+   
T Consensus       221 l----VqKYiGE--------GaRlVRelF~lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGF---  285 (406)
T COG1222         221 L----VQKYIGE--------GARLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGF---  285 (406)
T ss_pred             H----HHHHhcc--------chHHHHHHHHHHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCC---
Confidence            2    2222110        1233444444444 4689999999974310                    1122211   


Q ss_pred             CCCCCcEEEEec-CchHHHhh-cc---CCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCc----
Q 043737          190 RTSASNKTVFTA-RELEVCGQ-ME---AHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLP----  260 (371)
Q Consensus       190 ~~~~~~~iliTs-R~~~~~~~-~~---~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~P----  260 (371)
                      ....+.+||..| |...+-+. +.   -...|+++.=+.+.-.+.|.-+...-....+-+    .+.|++.|.|.-    
T Consensus       286 D~~~nvKVI~ATNR~D~LDPALLRPGR~DRkIEfplPd~~gR~~Il~IHtrkM~l~~dvd----~e~la~~~~g~sGAdl  361 (406)
T COG1222         286 DPRGNVKVIMATNRPDILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKMNLADDVD----LELLARLTEGFSGADL  361 (406)
T ss_pred             CCCCCeEEEEecCCccccChhhcCCCcccceeecCCCCHHHHHHHHHHHhhhccCccCcC----HHHHHHhcCCCchHHH
Confidence            345677888755 44332211 12   234678875555555666777766555444444    466677777764    


Q ss_pred             HHHHHHHHHHc--CCC---ChhHHHHHHHHHh
Q 043737          261 LALITVGRAMA--SKK---TPREWEHAIEVLR  287 (371)
Q Consensus       261 lal~~~a~~l~--~~~---~~~~~~~~l~~l~  287 (371)
                      .|+..=|++++  ..+   +.+++..+.++.-
T Consensus       362 kaictEAGm~AiR~~R~~Vt~~DF~~Av~KV~  393 (406)
T COG1222         362 KAICTEAGMFAIRERRDEVTMEDFLKAVEKVV  393 (406)
T ss_pred             HHHHHHHhHHHHHhccCeecHHHHHHHHHHHH
Confidence            34444455443  222   3345555444433

>TIGR00602 rad24 checkpoint protein rad24

Probab=98.23  E-value=7.2e-06  Score=80.62  Aligned_cols=48  Identities=17%  Similarity=0.204  Sum_probs=40.6

Q ss_pred             CCCccccchhHHHHHHHHHhcC-----CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           60 LPPTVVGLQSTFDRVWRCLMEE-----QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        60 ~~~~~vGR~~~~~~l~~~L~~~-----~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....++|.++.++++..++...     ..++++|+|++|+||||+++.++..+
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            3466899999999999998752     34579999999999999999998876

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

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

Probab=98.20  E-value=1e-05  Score=77.02  Aligned_cols=188  Identities=15%  Similarity=0.170  Sum_probs=110.1

Q ss_pred             CccccchhHHHHHHHHHhcCC-ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHH--
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQ-MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKK--  138 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~--  138 (371)
                      +++||-+.....|..++..++ .......|+.|+||||+|+-++..+-- ...-.       ...++.=...+.|...  
T Consensus        16 ~evvGQe~v~~~L~nal~~~ri~hAYlfsG~RGvGKTt~Ari~AkalNC-~~~~~-------~ePC~~C~~Ck~I~~g~~   87 (515)
T COG2812          16 DDVVGQEHVVKTLSNALENGRIAHAYLFSGPRGVGKTTIARILAKALNC-ENGPT-------AEPCGKCISCKEINEGSL   87 (515)
T ss_pred             HHhcccHHHHHHHHHHHHhCcchhhhhhcCCCCcCchhHHHHHHHHhcC-CCCCC-------CCcchhhhhhHhhhcCCc
Confidence            557999999999999997765 356778999999999999999888621 11000       0011111111222111  


Q ss_pred             hccCCCCCCcCCHHHHHHHHHHHh-----CCCceEEEEeCCC--CcccccccccccCCCCCCCcEEEEecCc-hHH-Hhh
Q 043737          139 INLFNESWNSRSLQEKSQDIVKNM-----SNKKFVLLLDHIW--ELVDLSQVGLPVPCRTSASNKTVFTARE-LEV-CGQ  209 (371)
Q Consensus       139 l~~~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~--~~~~~~~~~~~l~~~~~~~~~iliTsR~-~~~-~~~  209 (371)
                      +....-+-.+.+.-+-++.+.+..     .++.=++|+|+++  +...+..+...+. ....+...|+.|.+ ..+ ...
T Consensus        88 ~DviEiDaASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLE-EPP~hV~FIlATTe~~Kip~TI  166 (515)
T COG2812          88 IDVIEIDAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLE-EPPSHVKFILATTEPQKIPNTI  166 (515)
T ss_pred             ccchhhhhhhccChHHHHHHHHHhccCCccccceEEEEecHHhhhHHHHHHHhcccc-cCccCeEEEEecCCcCcCchhh
Confidence            000000001111112233333333     2344499999997  3344555555555 44556665554444 333 233


Q ss_pred             ccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcH
Q 043737          210 MEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPL  261 (371)
Q Consensus       210 ~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl  261 (371)
                      .+..+.|.+..++.++....+...+.......+   ++....|++..+|...
T Consensus       167 lSRcq~f~fkri~~~~I~~~L~~i~~~E~I~~e---~~aL~~ia~~a~Gs~R  215 (515)
T COG2812         167 LSRCQRFDFKRLDLEEIAKHLAAILDKEGINIE---EDALSLIARAAEGSLR  215 (515)
T ss_pred             hhccccccccCCCHHHHHHHHHHHHHhcCCccC---HHHHHHHHHHcCCChh
Confidence            456688999999999999999998876654333   3447778888888554

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=98.18  E-value=0.00014  Score=66.05  Aligned_cols=174  Identities=7%  Similarity=0.039  Sum_probs=95.7

Q ss_pred             HHHHHHHHHhcCC-ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhc-----cCC
Q 043737           70 TFDRVWRCLMEEQ-MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKIN-----LFN  143 (371)
Q Consensus        70 ~~~~l~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~-----~~~  143 (371)
                      .-+.|.+.+.++. ...+.++|+.|+||+++|..++..+.-. ......   .++..    ...+.+...-.     ...
T Consensus        10 ~~~~l~~~~~~~rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~-~~~~~~---~Cg~C----~sC~~~~~g~HPD~~~i~p   81 (325)
T PRK06871         10 TYQQITQAFQQGLGHHALLFKADSGLGTEQLIRALAQWLMCQ-TPQGDQ---PCGQC----HSCHLFQAGNHPDFHILEP   81 (325)
T ss_pred             HHHHHHHHHHcCCcceeEEeECCCCCCHHHHHHHHHHHHcCC-CCCCCC---CCCCC----HHHHHHhcCCCCCEEEEcc
Confidence            3456777776654 4577899999999999999999887311 111000   00000    11111111000     000


Q ss_pred             CCCCcCCHHHHHHHHHHHh-----CCCceEEEEeCCCCccc--ccccccccCCCCCCCcEEEEecCc-hHHHhh-ccCCC
Q 043737          144 ESWNSRSLQEKSQDIVKNM-----SNKKFVLLLDHIWELVD--LSQVGLPVPCRTSASNKTVFTARE-LEVCGQ-MEAHK  214 (371)
Q Consensus       144 ~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~~~iliTsR~-~~~~~~-~~~~~  214 (371)
                      ........++ ++.+.+.+     .++.-++|+|+++.+..  ...+...+. ....++.+|++|.+ ..+... .+...
T Consensus        82 ~~~~~I~id~-iR~l~~~~~~~~~~g~~KV~iI~~a~~m~~~AaNaLLKtLE-EPp~~~~fiL~t~~~~~llpTI~SRC~  159 (325)
T PRK06871         82 IDNKDIGVDQ-VREINEKVSQHAQQGGNKVVYIQGAERLTEAAANALLKTLE-EPRPNTYFLLQADLSAALLPTIYSRCQ  159 (325)
T ss_pred             ccCCCCCHHH-HHHHHHHHhhccccCCceEEEEechhhhCHHHHHHHHHHhc-CCCCCeEEEEEECChHhCchHHHhhce
Confidence            0001112222 22233332     24455899999986643  344444454 44555566655554 344432 34567


Q ss_pred             ceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcH
Q 043737          215 SFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPL  261 (371)
Q Consensus       215 ~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl  261 (371)
                      .+.+.+++.++..+.+......     +   ...+...+..++|.|+
T Consensus       160 ~~~~~~~~~~~~~~~L~~~~~~-----~---~~~~~~~~~l~~g~p~  198 (325)
T PRK06871        160 TWLIHPPEEQQALDWLQAQSSA-----E---ISEILTALRINYGRPL  198 (325)
T ss_pred             EEeCCCCCHHHHHHHHHHHhcc-----C---hHHHHHHHHHcCCCHH
Confidence            8999999999999999876421     1   1125677888999996

>CHL00176 ftsH cell division protein; Validated

Probab=98.18  E-value=5.4e-05  Score=74.99  Aligned_cols=178  Identities=13%  Similarity=0.117  Sum_probs=96.1

Q ss_pred             CccccchhHHHHHHHH---HhcC---------CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHH
Q 043737           62 PTVVGLQSTFDRVWRC---LMEE---------QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLE  129 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~---L~~~---------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~  129 (371)
                      ..+.|.++..+++.+.   +...         ..+-|.++|++|+|||+||+.++...   ...     |+.++.    .
T Consensus       183 ~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~---~~p-----~i~is~----s  250 (638)
T CHL00176        183 RDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEA---EVP-----FFSISG----S  250 (638)
T ss_pred             HhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHh---CCC-----eeeccH----H
Confidence            4578877665555444   3321         24579999999999999999999876   222     222221    1


Q ss_pred             HHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc----------------ccccccccC-CCCC
Q 043737          130 QIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD----------------LSQVGLPVP-CRTS  192 (371)
Q Consensus       130 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~----------------~~~~~~~l~-~~~~  192 (371)
                      ++....           ...........+.......+++|+|||++....                +..+...+. ....
T Consensus       251 ~f~~~~-----------~g~~~~~vr~lF~~A~~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~~  319 (638)
T CHL00176        251 EFVEMF-----------VGVGAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGN  319 (638)
T ss_pred             HHHHHh-----------hhhhHHHHHHHHHHHhcCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccCC
Confidence            111110           001111222233344456789999999974310                111111111 0123


Q ss_pred             CCcEEEEecCchHH-Hhhc----cCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCC-CcHHHHHH
Q 043737          193 ASNKTVFTARELEV-CGQM----EAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGG-LPLALITV  266 (371)
Q Consensus       193 ~~~~iliTsR~~~~-~~~~----~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g-~Plal~~~  266 (371)
                      .+..||.||..... ...+    .-...+.++..+.++-.++++.++.......    ......+++.+.| .+--|..+
T Consensus       320 ~~ViVIaaTN~~~~LD~ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~~~~~~----d~~l~~lA~~t~G~sgaDL~~l  395 (638)
T CHL00176        320 KGVIVIAATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARNKKLSP----DVSLELIARRTPGFSGADLANL  395 (638)
T ss_pred             CCeeEEEecCchHhhhhhhhccccCceEEEECCCCHHHHHHHHHHHHhhcccch----hHHHHHHHhcCCCCCHHHHHHH
Confidence            34455555544322 1111    1235688888899999999988876532111    2236778888887 34334433

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=98.17  E-value=2.4e-05  Score=69.33  Aligned_cols=168  Identities=15%  Similarity=0.172  Sum_probs=104.2

Q ss_pred             CccccchhHHHHHHHHHhc----CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcC-----CHHHHH
Q 043737           62 PTVVGLQSTFDRVWRCLME----EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDL-----QLEQIQ  132 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~----~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~-----~~~~~~  132 (371)
                      ..++|-.++...+..++.+    +...-|.|.||.|+|||+|......+.   +..-...+-+.++...     .+..+.
T Consensus        24 ~~l~g~~~~~~~l~~~lkqt~~~gEsnsviiigprgsgkT~li~~~Ls~~---q~~~E~~l~v~Lng~~~~dk~al~~I~  100 (408)
T KOG2228|consen   24 INLFGVQDEQKHLSELLKQTILHGESNSVIIIGPRGSGKTILIDTRLSDI---QENGENFLLVRLNGELQTDKIALKGIT  100 (408)
T ss_pred             cceeehHHHHHHHHHHHHHHHHhcCCCceEEEccCCCCceEeeHHHHhhH---HhcCCeEEEEEECccchhhHHHHHHHH
Confidence            4589999998999888875    456788899999999999998887774   2222334444444432     233444


Q ss_pred             HHHHHHhccCCCCCCcCCHHHHHHHHHHHhC------CCceEEEEeCCCCccc-------ccccccccCCCCCCCcEEEE
Q 043737          133 GSIAKKINLFNESWNSRSLQEKSQDIVKNMS------NKKFVLLLDHIWELVD-------LSQVGLPVPCRTSASNKTVF  199 (371)
Q Consensus       133 ~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~------~~~~LlVlDdv~~~~~-------~~~~~~~l~~~~~~~~~ili  199 (371)
                      +++..++.....  ...+..+....+...|+      +.++++|+|++|--..       +..+...-. ...+=|.|-+
T Consensus       101 rql~~e~~~~~k--~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs-~r~Piciig~  177 (408)
T KOG2228|consen  101 RQLALELNRIVK--SFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQS-ARAPICIIGV  177 (408)
T ss_pred             HHHHHHHhhhhe--eecccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhh-cCCCeEEEEe
Confidence            444444433221  34445555666666664      2468999999863211       122222211 3445566778


Q ss_pred             ecCchHH-------HhhccCCCceeecCCChHHHHHHHHHHhC
Q 043737          200 TARELEV-------CGQMEAHKSFKVERLGYEDAWKLFEEKVG  235 (371)
Q Consensus       200 TsR~~~~-------~~~~~~~~~~~l~~L~~~ea~~ll~~~~~  235 (371)
                      |||-..+       -+..+...++-++.++.++..+++++.+.
T Consensus       178 Ttrld~lE~LEKRVKSRFshr~I~m~~~~~l~~yv~l~r~ll~  220 (408)
T KOG2228|consen  178 TTRLDILELLEKRVKSRFSHRVIFMLPSLPLGDYVDLYRKLLS  220 (408)
T ss_pred             eccccHHHHHHHHHHhhcccceeeccCCCChHHHHHHHHHHhc
Confidence            9997533       23333334566678889999999998874

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

Probab=98.17  E-value=3.9e-05  Score=74.51  Aligned_cols=159  Identities=16%  Similarity=0.143  Sum_probs=94.9

Q ss_pred             CCccccchhHHHHHHHHHhc------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHH
Q 043737           61 PPTVVGLQSTFDRVWRCLME------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGS  134 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  134 (371)
                      ..+-+|-++..++|++.|.-      -+.+++.++||+|+|||+|++.+++..   ...|   +-++++.-.+..++   
T Consensus       322 d~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al---~Rkf---vR~sLGGvrDEAEI---  392 (782)
T COG0466         322 DKDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKAL---GRKF---VRISLGGVRDEAEI---  392 (782)
T ss_pred             cccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHh---CCCE---EEEecCccccHHHh---
Confidence            35569999999999998852      245799999999999999999999998   4444   23344443333222   


Q ss_pred             HHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc------------------cccccc-ccCCCCCCCc
Q 043737          135 IAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD------------------LSQVGL-PVPCRTSASN  195 (371)
Q Consensus       135 l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~------------------~~~~~~-~l~~~~~~~~  195 (371)
                           ..+.+.....=++..+..+.+ .+.++-+++||+++.+..                  -..|.. ++.....-..
T Consensus       393 -----RGHRRTYIGamPGrIiQ~mkk-a~~~NPv~LLDEIDKm~ss~rGDPaSALLEVLDPEQN~~F~DhYLev~yDLS~  466 (782)
T COG0466         393 -----RGHRRTYIGAMPGKIIQGMKK-AGVKNPVFLLDEIDKMGSSFRGDPASALLEVLDPEQNNTFSDHYLEVPYDLSK  466 (782)
T ss_pred             -----ccccccccccCChHHHHHHHH-hCCcCCeEEeechhhccCCCCCChHHHHHhhcCHhhcCchhhccccCccchhh
Confidence                 122222233333444444443 344566999999985421                  111211 1111122222


Q ss_pred             EEEEecCchH--H-HhhccCCCceeecCCChHHHHHHHHHHh
Q 043737          196 KTVFTARELE--V-CGQMEAHKSFKVERLGYEDAWKLFEEKV  234 (371)
Q Consensus       196 ~iliTsR~~~--~-~~~~~~~~~~~l~~L~~~ea~~ll~~~~  234 (371)
                      .++|||-+..  + .+.+..-+++++.+.+.+|-.+.-.+++
T Consensus       467 VmFiaTANsl~tIP~PLlDRMEiI~lsgYt~~EKl~IAk~~L  508 (782)
T COG0466         467 VMFIATANSLDTIPAPLLDRMEVIRLSGYTEDEKLEIAKRHL  508 (782)
T ss_pred             eEEEeecCccccCChHHhcceeeeeecCCChHHHHHHHHHhc
Confidence            3445555421  1 2223455789999999999988887776

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=98.14  E-value=1.1e-05  Score=63.88  Aligned_cols=90  Identities=21%  Similarity=0.079  Sum_probs=50.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHh
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNM  162 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l  162 (371)
                      ...+.|+|++|+||||++..++....   .....+++++.+........... ....   ...............+....
T Consensus         2 ~~~~~l~G~~G~GKTtl~~~l~~~~~---~~~~~~~~~~~~~~~~~~~~~~~-~~~~---~~~~~~~~~~~~~~~~~~~~   74 (148)
T smart00382        2 GEVILIVGPPGSGKTTLARALARELG---PPGGGVIYIDGEDILEEVLDQLL-LIIV---GGKKASGSGELRLRLALALA   74 (148)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhccC---CCCCCEEEECCEEccccCHHHHH-hhhh---hccCCCCCHHHHHHHHHHHH
Confidence            35789999999999999999999882   22234566654433221111111 0011   11112233333344444444


Q ss_pred             CCC-ceEEEEeCCCCccc
Q 043737          163 SNK-KFVLLLDHIWELVD  179 (371)
Q Consensus       163 ~~~-~~LlVlDdv~~~~~  179 (371)
                      ... ..++++|+++....
T Consensus        75 ~~~~~~viiiDei~~~~~   92 (148)
T smart00382       75 RKLKPDVLILDEITSLLD   92 (148)
T ss_pred             HhcCCCEEEEECCcccCC
Confidence            443 48999999986543

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.

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=98.14  E-value=0.00017  Score=65.39  Aligned_cols=176  Identities=9%  Similarity=0.015  Sum_probs=96.3

Q ss_pred             hHHHHHHHHHhcCC-ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhcc----CC
Q 043737           69 STFDRVWRCLMEEQ-MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINL----FN  143 (371)
Q Consensus        69 ~~~~~l~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~----~~  143 (371)
                      ...+++.+.+..++ ...+.++|+.|+||+++|..+++.+.-.. ..+.    .++..    ...+.+...-..    ..
T Consensus        10 ~~~~~l~~~~~~~rl~hA~L~~G~~G~Gk~~lA~~~a~~llC~~-~~~~----~Cg~C----~sC~~~~~g~HPD~~~i~   80 (319)
T PRK06090         10 PVWQNWKAGLDAGRIPGALLLQSDEGLGVESLVELFSRALLCQN-YQSE----ACGFC----HSCELMQSGNHPDLHVIK   80 (319)
T ss_pred             HHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHcCCC-CCCC----CCCCC----HHHHHHHcCCCCCEEEEe
Confidence            34466677665554 45788999999999999999988763111 1000    01110    111111110000    00


Q ss_pred             CC--CCcCCHHHHHHHHHHHh-----CCCceEEEEeCCCCcc--cccccccccCCCCCCCcEEEE-ecCchHHHh-hccC
Q 043737          144 ES--WNSRSLQEKSQDIVKNM-----SNKKFVLLLDHIWELV--DLSQVGLPVPCRTSASNKTVF-TARELEVCG-QMEA  212 (371)
Q Consensus       144 ~~--~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~~--~~~~~~~~l~~~~~~~~~ili-TsR~~~~~~-~~~~  212 (371)
                      +.  ......++. +.+.+.+     .++.-++|+|+++.+.  ..+.+...+. ....++.+|+ |+....+.. ..+.
T Consensus        81 p~~~~~~I~vdqi-R~l~~~~~~~~~~~~~kV~iI~~ae~m~~~AaNaLLKtLE-EPp~~t~fiL~t~~~~~lLpTI~SR  158 (319)
T PRK06090         81 PEKEGKSITVEQI-RQCNRLAQESSQLNGYRLFVIEPADAMNESASNALLKTLE-EPAPNCLFLLVTHNQKRLLPTIVSR  158 (319)
T ss_pred             cCcCCCcCCHHHH-HHHHHHHhhCcccCCceEEEecchhhhCHHHHHHHHHHhc-CCCCCeEEEEEECChhhChHHHHhc
Confidence            00  011222222 2222222     2344599999998653  3444444454 4444555555 454444433 3455


Q ss_pred             CCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHH
Q 043737          213 HKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITV  266 (371)
Q Consensus       213 ~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~  266 (371)
                      ...+.+.+++.+++.+.+....      .+     .+..+++.++|.|+....+
T Consensus       159 Cq~~~~~~~~~~~~~~~L~~~~------~~-----~~~~~l~l~~G~p~~A~~~  201 (319)
T PRK06090        159 CQQWVVTPPSTAQAMQWLKGQG------IT-----VPAYALKLNMGSPLKTLAM  201 (319)
T ss_pred             ceeEeCCCCCHHHHHHHHHHcC------Cc-----hHHHHHHHcCCCHHHHHHH
Confidence            6789999999999999987642      11     1456788999999866543

>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=98.14  E-value=3e-05  Score=63.43  Aligned_cols=137  Identities=13%  Similarity=0.172  Sum_probs=74.3

Q ss_pred             cchhHHHHHHHHHhcCCc-eEEEEEcCCCCcHHHHHHHHHhhccCCCC-----------------CCCeEEEEEeCCc--
Q 043737           66 GLQSTFDRVWRCLMEEQM-GIVGLYGMGEVGKTTLLTQINKKFLHTPN-----------------DFDFVIWVVASKD--  125 (371)
Q Consensus        66 GR~~~~~~l~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~~~~-----------------~f~~~~wv~~~~~--  125 (371)
                      |-+...+.|.+.+.+++. ..+.++|+.|+||+++|..+++.+-....                 ....+.|+.-...  
T Consensus         1 gq~~~~~~L~~~~~~~~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~   80 (162)
T PF13177_consen    1 GQEEIIELLKNLIKSGRLPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKPDKKKK   80 (162)
T ss_dssp             S-HHHHHHHHHHHHCTC--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEETTTSSS
T ss_pred             CcHHHHHHHHHHHHcCCcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEecccccc
Confidence            556777888888877654 46899999999999999999988732111                 1223333332221  


Q ss_pred             -CCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCcc--cccccccccCCCCCCCcEEEEecC
Q 043737          126 -LQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELV--DLSQVGLPVPCRTSASNKTVFTAR  202 (371)
Q Consensus       126 -~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~--~~~~~~~~l~~~~~~~~~iliTsR  202 (371)
                       ...+++. .+...+....                  ..++.=++||||++.+.  ....+...+. ....++.+|++|.
T Consensus        81 ~i~i~~ir-~i~~~~~~~~------------------~~~~~KviiI~~ad~l~~~a~NaLLK~LE-epp~~~~fiL~t~  140 (162)
T PF13177_consen   81 SIKIDQIR-EIIEFLSLSP------------------SEGKYKVIIIDEADKLTEEAQNALLKTLE-EPPENTYFILITN  140 (162)
T ss_dssp             SBSHHHHH-HHHHHCTSS-------------------TTSSSEEEEEETGGGS-HHHHHHHHHHHH-STTTTEEEEEEES
T ss_pred             hhhHHHHH-HHHHHHHHHH------------------hcCCceEEEeehHhhhhHHHHHHHHHHhc-CCCCCEEEEEEEC
Confidence             1222222 3333332211                  01345599999998653  3344444444 4556777777776


Q ss_pred             chH-H-HhhccCCCceeecCCC
Q 043737          203 ELE-V-CGQMEAHKSFKVERLG  222 (371)
Q Consensus       203 ~~~-~-~~~~~~~~~~~l~~L~  222 (371)
                      +.. + .+..+....+.+.+++
T Consensus       141 ~~~~il~TI~SRc~~i~~~~ls  162 (162)
T PF13177_consen  141 NPSKILPTIRSRCQVIRFRPLS  162 (162)
T ss_dssp             -GGGS-HHHHTTSEEEEE----
T ss_pred             ChHHChHHHHhhceEEecCCCC
Confidence            643 2 2223445567776654

...

>PRK08116 hypothetical protein; Validated

Probab=98.13  E-value=8.3e-06  Score=72.41  Aligned_cols=103  Identities=20%  Similarity=0.213  Sum_probs=58.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHh
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNM  162 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l  162 (371)
                      ...+.|+|++|+|||.||..+++.+.   .....+++++      ..+++..+.......    ...+    ...+.+.+
T Consensus       114 ~~gl~l~G~~GtGKThLa~aia~~l~---~~~~~v~~~~------~~~ll~~i~~~~~~~----~~~~----~~~~~~~l  176 (268)
T PRK08116        114 NVGLLLWGSVGTGKTYLAACIANELI---EKGVPVIFVN------FPQLLNRIKSTYKSS----GKED----ENEIIRSL  176 (268)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHH---HcCCeEEEEE------HHHHHHHHHHHHhcc----cccc----HHHHHHHh
Confidence            34689999999999999999999983   2223456664      344555555443211    1111    22233444


Q ss_pred             CCCceEEEEeCCC--Ccccccc--cccccCCCCCCCcEEEEecCc
Q 043737          163 SNKKFVLLLDHIW--ELVDLSQ--VGLPVPCRTSASNKTVFTARE  203 (371)
Q Consensus       163 ~~~~~LlVlDdv~--~~~~~~~--~~~~l~~~~~~~~~iliTsR~  203 (371)
                      .+-. ||||||+.  ...+|..  +...+......+..+||||..
T Consensus       177 ~~~d-lLviDDlg~e~~t~~~~~~l~~iin~r~~~~~~~IiTsN~  220 (268)
T PRK08116        177 VNAD-LLILDDLGAERDTEWAREKVYNIIDSRYRKGLPTIVTTNL  220 (268)
T ss_pred             cCCC-EEEEecccCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCC
Confidence            4444 89999994  3333322  222222122345668888864

>PRK10536 hypothetical protein; Provisional

Probab=98.12  E-value=7.7e-05  Score=64.75  Aligned_cols=135  Identities=11%  Similarity=0.083  Sum_probs=75.6

Q ss_pred             CccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCc---------CCHH---
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKD---------LQLE---  129 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~---------~~~~---  129 (371)
                      ..+.+|......+..++.+.  .+|.+.|++|+|||+||..++.+.. ....+..++...-.-.         -+..   
T Consensus        55 ~~i~p~n~~Q~~~l~al~~~--~lV~i~G~aGTGKT~La~a~a~~~l-~~~~~~kIiI~RP~v~~ge~LGfLPG~~~eK~  131 (262)
T PRK10536         55 SPILARNEAQAHYLKAIESK--QLIFATGEAGCGKTWISAAKAAEAL-IHKDVDRIIVTRPVLQADEDLGFLPGDIAEKF  131 (262)
T ss_pred             ccccCCCHHHHHHHHHHhcC--CeEEEECCCCCCHHHHHHHHHHHHH-hcCCeeEEEEeCCCCCchhhhCcCCCCHHHHH
Confidence            34677888888899988653  4999999999999999999888631 1234554444321110         0111   


Q ss_pred             -HHHHHHHHHhccCCCCCCcCCHHHHHH--------HHHHHhCCCc---eEEEEeCCCCcccccccccccCCCCCCCcEE
Q 043737          130 -QIQGSIAKKINLFNESWNSRSLQEKSQ--------DIVKNMSNKK---FVLLLDHIWELVDLSQVGLPVPCRTSASNKT  197 (371)
Q Consensus       130 -~~~~~l~~~l~~~~~~~~~~~~~~~~~--------~l~~~l~~~~---~LlVlDdv~~~~~~~~~~~~l~~~~~~~~~i  197 (371)
                       ..+.-+...+....   .....+....        .-..++++++   -++|+|++++... ..+...+. ....++++
T Consensus       132 ~p~~~pi~D~L~~~~---~~~~~~~~~~~~~~~Iei~~l~ymRGrtl~~~~vIvDEaqn~~~-~~~k~~lt-R~g~~sk~  206 (262)
T PRK10536        132 APYFRPVYDVLVRRL---GASFMQYCLRPEIGKVEIAPFAYMRGRTFENAVVILDEAQNVTA-AQMKMFLT-RLGENVTV  206 (262)
T ss_pred             HHHHHHHHHHHHHHh---ChHHHHHHHHhccCcEEEecHHHhcCCcccCCEEEEechhcCCH-HHHHHHHh-hcCCCCEE
Confidence             11222222221100   0000111100        0012455654   4999999976644 33333344 56789999


Q ss_pred             EEecCch
Q 043737          198 VFTAREL  204 (371)
Q Consensus       198 liTsR~~  204 (371)
                      ++|.-..
T Consensus       207 v~~GD~~  213 (262)
T PRK10536        207 IVNGDIT  213 (262)
T ss_pred             EEeCChh
Confidence            9987654

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

Probab=98.11  E-value=0.00017  Score=66.28  Aligned_cols=72  Identities=13%  Similarity=0.189  Sum_probs=44.8

Q ss_pred             hhHHHHHHHHHhc---CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcC----CHHHHHHHHHHHh
Q 043737           68 QSTFDRVWRCLME---EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDL----QLEQIQGSIAKKI  139 (371)
Q Consensus        68 ~~~~~~l~~~L~~---~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~----~~~~~~~~l~~~l  139 (371)
                      +.-.+.|.+.+.+   +...+|+|.|.-|+|||++.+.+.+.+......--.+++++.....    -...++..+..++
T Consensus         2 ~~~a~~la~~I~~~~~~~~~~IgL~G~WGsGKSs~l~~l~~~L~~~~~~~~~~i~fn~w~~~~~~~~~~~~~~~l~~~l   80 (325)
T PF07693_consen    2 KPYAKALAEIIKNPDSDDPFVIGLYGEWGSGKSSFLNMLKEELKEDNKEKYIFIYFNAWEYDGEDDLWASFLEELFDQL   80 (325)
T ss_pred             hHHHHHHHHHHhccCCCCCeEEEEECCCCCCHHHHHHHHHHHHhcccccceeeEEEccccCCCcchHHHHHHHHHHHHH
Confidence            4455667777765   3567999999999999999999999983221112244454433222    2344454554444

Many of the prokaryotic KAP NTPases are encoded in plasmids and tend to undergo disruption to form pseudogenes. A unique feature of all eukaryotic and certain bacterial KAP NTPases is the presence of two or four transmembrane helices inserted into the P-loop NTPase domain. These transmembrane helices anchor KAP NTPases in the membrane such that the P-loop domain is located on the intracellular side [].

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=98.09  E-value=0.00017  Score=66.00  Aligned_cols=176  Identities=8%  Similarity=0.053  Sum_probs=96.1

Q ss_pred             hHHHHHHHHHhcCC-ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhc-----cC
Q 043737           69 STFDRVWRCLMEEQ-MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKIN-----LF  142 (371)
Q Consensus        69 ~~~~~l~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~-----~~  142 (371)
                      ..-+++.+.+.+++ ...+.++|+.|+||+++|..++..+.-. ...+..   .++..    ...+.+...-.     ..
T Consensus         9 ~~~~~l~~~~~~~rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~-~~~~~~---~Cg~C----~sC~~~~~g~HPD~~~i~   80 (334)
T PRK07993          9 PDYEQLVGSYQAGRGHHALLIQALPGMGDDALIYALSRWLMCQ-QPQGHK---SCGHC----RGCQLMQAGTHPDYYTLT   80 (334)
T ss_pred             HHHHHHHHHHHcCCcceEEeeECCCCCCHHHHHHHHHHHHcCC-CCCCCC---CCCCC----HHHHHHHcCCCCCEEEEe
Confidence            34467777776654 4678899999999999999988887311 100000   01110    01111110000     00


Q ss_pred             CCC-CCcCCHHHHHHHHHHHh-----CCCceEEEEeCCCCccc--ccccccccCCCCCCCcEEEEec-CchHHHhh-ccC
Q 043737          143 NES-WNSRSLQEKSQDIVKNM-----SNKKFVLLLDHIWELVD--LSQVGLPVPCRTSASNKTVFTA-RELEVCGQ-MEA  212 (371)
Q Consensus       143 ~~~-~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~~~iliTs-R~~~~~~~-~~~  212 (371)
                      ... ......++. +.+.+.+     .+++-++|+|+++.+..  -+.+...+. ....++.+|++| +...+... .+.
T Consensus        81 p~~~~~~I~idqi-R~l~~~~~~~~~~g~~kV~iI~~ae~m~~~AaNaLLKtLE-EPp~~t~fiL~t~~~~~lLpTIrSR  158 (334)
T PRK07993         81 PEKGKSSLGVDAV-REVTEKLYEHARLGGAKVVWLPDAALLTDAAANALLKTLE-EPPENTWFFLACREPARLLATLRSR  158 (334)
T ss_pred             cccccccCCHHHH-HHHHHHHhhccccCCceEEEEcchHhhCHHHHHHHHHHhc-CCCCCeEEEEEECChhhChHHHHhc
Confidence            000 011222222 2233322     24555999999986633  344444454 344455555544 44444433 455


Q ss_pred             CCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHH
Q 043737          213 HKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLA  262 (371)
Q Consensus       213 ~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pla  262 (371)
                      ...+.+.+++.+++.+.+....+     .+   .+.+..++..++|.|..
T Consensus       159 Cq~~~~~~~~~~~~~~~L~~~~~-----~~---~~~a~~~~~la~G~~~~  200 (334)
T PRK07993        159 CRLHYLAPPPEQYALTWLSREVT-----MS---QDALLAALRLSAGAPGA  200 (334)
T ss_pred             cccccCCCCCHHHHHHHHHHccC-----CC---HHHHHHHHHHcCCCHHH
Confidence            67889999999999998876431     11   22367889999999963

>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=98.09  E-value=7.5e-06  Score=64.40  Aligned_cols=22  Identities=32%  Similarity=0.356  Sum_probs=20.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043737           86 VGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        86 v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      |.|+|++|+|||++|+.+++..
T Consensus         1 ill~G~~G~GKT~l~~~la~~l   22 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYL   22 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHT
T ss_pred             CEEECcCCCCeeHHHHHHHhhc
Confidence            5799999999999999999998

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 ....

>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=98.08  E-value=0.0014  Score=60.79  Aligned_cols=170  Identities=15%  Similarity=0.136  Sum_probs=95.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHh
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNM  162 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l  162 (371)
                      .|-..++||+|+|||+++.++++.+     .|+ |+-+.++...+-.+ ++.|+...                       
T Consensus       235 KRGYLLYGPPGTGKSS~IaAmAn~L-----~yd-IydLeLt~v~~n~d-Lr~LL~~t-----------------------  284 (457)
T KOG0743|consen  235 KRGYLLYGPPGTGKSSFIAAMANYL-----NYD-IYDLELTEVKLDSD-LRHLLLAT-----------------------  284 (457)
T ss_pred             hccceeeCCCCCCHHHHHHHHHhhc-----CCc-eEEeeeccccCcHH-HHHHHHhC-----------------------
Confidence            3678899999999999999999998     233 33344433322223 44444332                       


Q ss_pred             CCCceEEEEeCCCCccccc--------------------ccccccC-CCCCC-CcEEEE-ecCchHHH--hhccC---CC
Q 043737          163 SNKKFVLLLDHIWELVDLS--------------------QVGLPVP-CRTSA-SNKTVF-TARELEVC--GQMEA---HK  214 (371)
Q Consensus       163 ~~~~~LlVlDdv~~~~~~~--------------------~~~~~l~-~~~~~-~~~ili-TsR~~~~~--~~~~~---~~  214 (371)
                       ..+-+||+.|++...++.                    .+...+. .+..+ +=+|+| ||-...-.  ..+.+   ..
T Consensus       285 -~~kSIivIEDIDcs~~l~~~~~~~~~~~~~~~~~VTlSGLLNfiDGlwSscg~ERIivFTTNh~EkLDPALlRpGRmDm  363 (457)
T KOG0743|consen  285 -PNKSILLIEDIDCSFDLRERRKKKKENFEGDLSRVTLSGLLNFLDGLWSSCGDERIIVFTTNHKEKLDPALLRPGRMDM  363 (457)
T ss_pred             -CCCcEEEEeecccccccccccccccccccCCcceeehHHhhhhhccccccCCCceEEEEecCChhhcCHhhcCCCccee
Confidence             234588999987542210                    0111111 12222 335554 66654321  11122   34


Q ss_pred             ceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHHHHcCCC-Ch-hHHHHHHHHHhcc
Q 043737          215 SFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAMASKK-TP-REWEHAIEVLRSS  289 (371)
Q Consensus       215 ~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~~l~~~~-~~-~~~~~~l~~l~~~  289 (371)
                      .+.+.-=+++.-..|+.+.++.+.   +.   .+..+|.+...|.-+.=..++..|-.+. +. ...+.+.+.+.+.
T Consensus       364 hI~mgyCtf~~fK~La~nYL~~~~---~h---~L~~eie~l~~~~~~tPA~V~e~lm~~~~dad~~lk~Lv~~l~~~  434 (457)
T KOG0743|consen  364 HIYMGYCTFEAFKTLASNYLGIEE---DH---RLFDEIERLIEETEVTPAQVAEELMKNKNDADVALKGLVEALESK  434 (457)
T ss_pred             EEEcCCCCHHHHHHHHHHhcCCCC---Cc---chhHHHHHHhhcCccCHHHHHHHHhhccccHHHHHHHHHHHHHhh
Confidence            578888899999999999886432   22   3467777777777666666666654433 22 2344444444443

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

Probab=98.05  E-value=5.9e-05  Score=66.47  Aligned_cols=84  Identities=15%  Similarity=0.167  Sum_probs=52.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhcc-CCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFL-HTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVK  160 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~-~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~  160 (371)
                      -.|+|.+|||+|.|||+|++.+++++. +..+.+....-+.++    -..++......-        ..-.......+.+
T Consensus       176 ~NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEin----shsLFSKWFsES--------gKlV~kmF~kI~E  243 (423)
T KOG0744|consen  176 WNRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEIN----SHSLFSKWFSES--------GKLVAKMFQKIQE  243 (423)
T ss_pred             eeeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEEe----hhHHHHHHHhhh--------hhHHHHHHHHHHH
Confidence            358999999999999999999999973 123334333333333    234444444332        2334455666666


Q ss_pred             HhCCCc--eEEEEeCCCCc
Q 043737          161 NMSNKK--FVLLLDHIWEL  177 (371)
Q Consensus       161 ~l~~~~--~LlVlDdv~~~  177 (371)
                      .+..+.  +.+.+|+|+..
T Consensus       244 Lv~d~~~lVfvLIDEVESL  262 (423)
T KOG0744|consen  244 LVEDRGNLVFVLIDEVESL  262 (423)
T ss_pred             HHhCCCcEEEEEeHHHHHH
Confidence            666544  46678998643

>PRK08181 transposase; Validated

Probab=98.03  E-value=1.4e-05  Score=70.69  Aligned_cols=105  Identities=16%  Similarity=0.142  Sum_probs=57.0

Q ss_pred             HHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHH
Q 043737           76 RCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKS  155 (371)
Q Consensus        76 ~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~  155 (371)
                      +|+.  ....+.|+|++|+|||.||..+++...   .....+.|++      ..+++..+....       ...+.... 
T Consensus       101 ~~~~--~~~nlll~Gp~GtGKTHLa~Aia~~a~---~~g~~v~f~~------~~~L~~~l~~a~-------~~~~~~~~-  161 (269)
T PRK08181        101 SWLA--KGANLLLFGPPGGGKSHLAAAIGLALI---ENGWRVLFTR------TTDLVQKLQVAR-------RELQLESA-  161 (269)
T ss_pred             HHHh--cCceEEEEecCCCcHHHHHHHHHHHHH---HcCCceeeee------HHHHHHHHHHHH-------hCCcHHHH-
Confidence            4553  345799999999999999999998762   2223455553      345555554332       11122222 


Q ss_pred             HHHHHHhCCCceEEEEeCCCCc--ccc--cccccccCCCCCCCcEEEEecCch
Q 043737          156 QDIVKNMSNKKFVLLLDHIWEL--VDL--SQVGLPVPCRTSASNKTVFTAREL  204 (371)
Q Consensus       156 ~~l~~~l~~~~~LlVlDdv~~~--~~~--~~~~~~l~~~~~~~~~iliTsR~~  204 (371)
                         .+.+. +.-||||||+...  ...  ..+...+..... +..+||||...
T Consensus       162 ---l~~l~-~~dLLIIDDlg~~~~~~~~~~~Lf~lin~R~~-~~s~IiTSN~~  209 (269)
T PRK08181        162 ---IAKLD-KFDLLILDDLAYVTKDQAETSVLFELISARYE-RRSILITANQP  209 (269)
T ss_pred             ---HHHHh-cCCEEEEeccccccCCHHHHHHHHHHHHHHHh-CCCEEEEcCCC
Confidence               22222 2349999999632  111  112222221112 24688888753

>PRK12377 putative replication protein; Provisional

Probab=98.03  E-value=1.9e-05  Score=68.97  Aligned_cols=74  Identities=22%  Similarity=0.255  Sum_probs=45.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKN  161 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~  161 (371)
                      ....+.|+|++|+|||+||..+++.+.   .....+.++++      .+++..+-....      ......    .+.+.
T Consensus       100 ~~~~l~l~G~~GtGKThLa~AIa~~l~---~~g~~v~~i~~------~~l~~~l~~~~~------~~~~~~----~~l~~  160 (248)
T PRK12377        100 GCTNFVFSGKPGTGKNHLAAAIGNRLL---AKGRSVIVVTV------PDVMSRLHESYD------NGQSGE----KFLQE  160 (248)
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHHHHH---HcCCCeEEEEH------HHHHHHHHHHHh------ccchHH----HHHHH
Confidence            346899999999999999999999983   22233566543      345555544331      111111    22333


Q ss_pred             hCCCceEEEEeCCC
Q 043737          162 MSNKKFVLLLDHIW  175 (371)
Q Consensus       162 l~~~~~LlVlDdv~  175 (371)
                      +. +.-||||||+.
T Consensus       161 l~-~~dLLiIDDlg  173 (248)
T PRK12377        161 LC-KVDLLVLDEIG  173 (248)
T ss_pred             hc-CCCEEEEcCCC
Confidence            32 34499999994

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=98.03  E-value=7.4e-05  Score=76.21  Aligned_cols=171  Identities=14%  Similarity=0.129  Sum_probs=92.3

Q ss_pred             ccccchhHHHHHHHHHhc-------------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHH
Q 043737           63 TVVGLQSTFDRVWRCLME-------------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLE  129 (371)
Q Consensus        63 ~~vGR~~~~~~l~~~L~~-------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~  129 (371)
                      .+.|.+..+++|.+.+.-             ...+.+.|+|++|+|||+||+.+++..   ...|   +.++..      
T Consensus       179 di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~---~~~~---i~i~~~------  246 (733)
T TIGR01243       179 DIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEA---GAYF---ISINGP------  246 (733)
T ss_pred             HhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHh---CCeE---EEEecH------
Confidence            478999999888777631             234678999999999999999999886   2222   222211      


Q ss_pred             HHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc-------------ccccccccCCCCCCCcE
Q 043737          130 QIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD-------------LSQVGLPVPCRTSASNK  196 (371)
Q Consensus       130 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~-------------~~~~~~~l~~~~~~~~~  196 (371)
                      ++..    ..       ...........+.......+.+|+||+++....             ...+...+......+..
T Consensus       247 ~i~~----~~-------~g~~~~~l~~lf~~a~~~~p~il~iDEid~l~~~r~~~~~~~~~~~~~~Ll~~ld~l~~~~~v  315 (733)
T TIGR01243       247 EIMS----KY-------YGESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRGRV  315 (733)
T ss_pred             HHhc----cc-------ccHHHHHHHHHHHHHHhcCCcEEEeehhhhhcccccCCcchHHHHHHHHHHHHhhccccCCCE
Confidence            1110    00       111111222222233345678999999864311             11121222211122334


Q ss_pred             EEE-ecCchH-HHhhc----cCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCc
Q 043737          197 TVF-TARELE-VCGQM----EAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLP  260 (371)
Q Consensus       197 ili-TsR~~~-~~~~~----~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~P  260 (371)
                      ++| ||.... +...+    .-...+.+...+.++-.+++...........+.    ....+++.+.|..
T Consensus       316 ivI~atn~~~~ld~al~r~gRfd~~i~i~~P~~~~R~~Il~~~~~~~~l~~d~----~l~~la~~t~G~~  381 (733)
T TIGR01243       316 IVIGATNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTRNMPLAEDV----DLDKLAEVTHGFV  381 (733)
T ss_pred             EEEeecCChhhcCHHHhCchhccEEEEeCCcCHHHHHHHHHHHhcCCCCcccc----CHHHHHHhCCCCC
Confidence            444 443322 21111    113457788888888888888665433322222    2577888888865

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.

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

Probab=98.02  E-value=9.8e-05  Score=71.63  Aligned_cols=157  Identities=14%  Similarity=0.167  Sum_probs=91.8

Q ss_pred             CccccchhHHHHHHHHHhc------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHH
Q 043737           62 PTVVGLQSTFDRVWRCLME------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSI  135 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l  135 (371)
                      ..-+|.++..++|++++.-      -+.+++.++||+|+|||++++.++..+   ...|   +-++++.-.+..++-   
T Consensus       411 eDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~AL---nRkF---fRfSvGG~tDvAeIk---  481 (906)
T KOG2004|consen  411 EDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARAL---NRKF---FRFSVGGMTDVAEIK---  481 (906)
T ss_pred             ccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHh---CCce---EEEeccccccHHhhc---
Confidence            4459999999999988752      356799999999999999999999998   2222   233455544444332   


Q ss_pred             HHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCcc------------------ccccc-ccccCCCCCCCcE
Q 043737          136 AKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELV------------------DLSQV-GLPVPCRTSASNK  196 (371)
Q Consensus       136 ~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~------------------~~~~~-~~~l~~~~~~~~~  196 (371)
                           ...+.....=++..+..++.. +..+-|+.||+++...                  +-..| ..++. ..-.=|+
T Consensus       482 -----GHRRTYVGAMPGkiIq~LK~v-~t~NPliLiDEvDKlG~g~qGDPasALLElLDPEQNanFlDHYLd-Vp~DLSk  554 (906)
T KOG2004|consen  482 -----GHRRTYVGAMPGKIIQCLKKV-KTENPLILIDEVDKLGSGHQGDPASALLELLDPEQNANFLDHYLD-VPVDLSK  554 (906)
T ss_pred             -----ccceeeeccCChHHHHHHHhh-CCCCceEEeehhhhhCCCCCCChHHHHHHhcChhhccchhhhccc-cccchhh
Confidence                 222222222233334333332 3455699999997531                  11111 11122 1122345


Q ss_pred             EEE-ecCch--HH-HhhccCCCceeecCCChHHHHHHHHHHh
Q 043737          197 TVF-TAREL--EV-CGQMEAHKSFKVERLGYEDAWKLFEEKV  234 (371)
Q Consensus       197 ili-TsR~~--~~-~~~~~~~~~~~l~~L~~~ea~~ll~~~~  234 (371)
                      |++ +|-+.  .+ ......-+.|++.+...+|-..+-.+++
T Consensus       555 VLFicTAN~idtIP~pLlDRMEvIelsGYv~eEKv~IA~~yL  596 (906)
T KOG2004|consen  555 VLFICTANVIDTIPPPLLDRMEVIELSGYVAEEKVKIAERYL  596 (906)
T ss_pred             eEEEEeccccccCChhhhhhhheeeccCccHHHHHHHHHHhh
Confidence            554 44331  00 1112344789999999999888877765

>PRK12608 transcription termination factor Rho; Provisional

Probab=98.01  E-value=8.7e-05  Score=67.94  Aligned_cols=105  Identities=17%  Similarity=0.146  Sum_probs=66.7

Q ss_pred             HHHHHHHHHhc-CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCe-EEEEEeCC-cCCHHHHHHHHHHHhccCCCCC
Q 043737           70 TFDRVWRCLME-EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDF-VIWVVASK-DLQLEQIQGSIAKKINLFNESW  146 (371)
Q Consensus        70 ~~~~l~~~L~~-~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~-~~wv~~~~-~~~~~~~~~~l~~~l~~~~~~~  146 (371)
                      ...++++.+.. +....+.|+|++|+|||||++++++...  ..+.+. ++|+.+.. ..++.++.+.+...+.....+.
T Consensus       119 ~~~RvID~l~PiGkGQR~LIvG~pGtGKTTLl~~la~~i~--~~~~dv~~vv~lIgER~~EV~df~~~i~~~Vvast~de  196 (380)
T PRK12608        119 LSMRVVDLVAPIGKGQRGLIVAPPRAGKTVLLQQIAAAVA--ANHPEVHLMVLLIDERPEEVTDMRRSVKGEVYASTFDR  196 (380)
T ss_pred             hhHhhhhheeecCCCceEEEECCCCCCHHHHHHHHHHHHH--hcCCCceEEEEEecCCCCCHHHHHHHHhhhEEeecCCC
Confidence            33457777754 4455779999999999999999999873  223333 46656554 4478889988888776533211


Q ss_pred             Cc---CCHHHHHHHHHHHh--CCCceEEEEeCCCC
Q 043737          147 NS---RSLQEKSQDIVKNM--SNKKFVLLLDHIWE  176 (371)
Q Consensus       147 ~~---~~~~~~~~~l~~~l--~~~~~LlVlDdv~~  176 (371)
                      ..   .........+.+++  .+++++||+|++..
T Consensus       197 ~~~~~~~v~~~~~~~Ae~f~~~GkdVVLvlDsltr  231 (380)
T PRK12608        197 PPDEHIRVAELVLERAKRLVEQGKDVVILLDSLTR  231 (380)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHcCCCEEEEEeCcHH
Confidence            11   11111222333333  47899999999953

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

Probab=97.95  E-value=0.00046  Score=64.88  Aligned_cols=145  Identities=23%  Similarity=0.225  Sum_probs=81.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHH--
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIV--  159 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~--  159 (371)
                      ....+.++|++|+|||+||.+++..-     .|+.+=-++...-                     ...+......++.  
T Consensus       537 ~lvSvLl~Gp~~sGKTaLAA~iA~~S-----~FPFvKiiSpe~m---------------------iG~sEsaKc~~i~k~  590 (744)
T KOG0741|consen  537 PLVSVLLEGPPGSGKTALAAKIALSS-----DFPFVKIISPEDM---------------------IGLSESAKCAHIKKI  590 (744)
T ss_pred             cceEEEEecCCCCChHHHHHHHHhhc-----CCCeEEEeChHHc---------------------cCccHHHHHHHHHHH
Confidence            34577899999999999999998664     4554433322211                     1112222222222  


Q ss_pred             --HHhCCCceEEEEeCCCCcccccccccc------------cCCCCCCCcEEEE--ecCchHHHhhcc----CCCceeec
Q 043737          160 --KNMSNKKFVLLLDHIWELVDLSQVGLP------------VPCRTSASNKTVF--TARELEVCGQME----AHKSFKVE  219 (371)
Q Consensus       160 --~~l~~~~~LlVlDdv~~~~~~~~~~~~------------l~~~~~~~~~ili--TsR~~~~~~~~~----~~~~~~l~  219 (371)
                        ...++.--.+|+||++...+|..+...            +......|-+.+|  ||....+...++    -...|.++
T Consensus       591 F~DAYkS~lsiivvDdiErLiD~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~i~~~F~~~i~Vp  670 (744)
T KOG0741|consen  591 FEDAYKSPLSIIVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMGILDCFSSTIHVP  670 (744)
T ss_pred             HHHhhcCcceEEEEcchhhhhcccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcCHHHhhhheeecC
Confidence              223344469999999887666544332            2223334445444  666666665543    23468888


Q ss_pred             CCCh-HHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHc
Q 043737          220 RLGY-EDAWKLFEEKVGKEILDSHPDIPELAETVAKEC  256 (371)
Q Consensus       220 ~L~~-~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~  256 (371)
                      .++. ++..+.++..-.    -.+.+.+..+.+....+
T Consensus       671 nl~~~~~~~~vl~~~n~----fsd~~~~~~~~~~~~~~  704 (744)
T KOG0741|consen  671 NLTTGEQLLEVLEELNI----FSDDEVRAIAEQLLSKK  704 (744)
T ss_pred             ccCchHHHHHHHHHccC----CCcchhHHHHHHHhccc
Confidence            8887 777777765431    12233344455555444

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=97.95  E-value=0.00052  Score=62.83  Aligned_cols=89  Identities=17%  Similarity=0.147  Sum_probs=56.5

Q ss_pred             CCceEEEEeCCCCcc--cccccccccCCCCCCCcE-EEEecCchHHHhh-ccCCCceeecCCChHHHHHHHHHHhCCCCC
Q 043737          164 NKKFVLLLDHIWELV--DLSQVGLPVPCRTSASNK-TVFTARELEVCGQ-MEAHKSFKVERLGYEDAWKLFEEKVGKEIL  239 (371)
Q Consensus       164 ~~~~LlVlDdv~~~~--~~~~~~~~l~~~~~~~~~-iliTsR~~~~~~~-~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~  239 (371)
                      ++.-++|+|+++.+.  ..+.+...+. ....++. |++|++...+... .+....+.+.+++.++..+.+....     
T Consensus       131 ~~~kV~iI~~ae~m~~~AaNaLLKtLE-EPp~~t~fiL~t~~~~~LLpTI~SRcq~i~~~~~~~~~~~~~L~~~~-----  204 (342)
T PRK06964        131 GGARVVVLYPAEALNVAAANALLKTLE-EPPPGTVFLLVSARIDRLLPTILSRCRQFPMTVPAPEAAAAWLAAQG-----  204 (342)
T ss_pred             CCceEEEEechhhcCHHHHHHHHHHhc-CCCcCcEEEEEECChhhCcHHHHhcCEEEEecCCCHHHHHHHHHHcC-----
Confidence            344589999998653  3444444454 3444554 4556665555433 3456789999999999999997752     


Q ss_pred             CCCCCHHHHHHHHHHHcCCCcHHHH
Q 043737          240 DSHPDIPELAETVAKECGGLPLALI  264 (371)
Q Consensus       240 ~~~~~~~~~~~~i~~~~~g~Plal~  264 (371)
                       .++     ...++..++|.|....
T Consensus       205 -~~~-----~~~~l~~~~Gsp~~Al  223 (342)
T PRK06964        205 -VAD-----ADALLAEAGGAPLAAL  223 (342)
T ss_pred             -CCh-----HHHHHHHcCCCHHHHH
Confidence             111     2335778899997443

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

Probab=97.95  E-value=0.00012  Score=68.74  Aligned_cols=45  Identities=22%  Similarity=0.218  Sum_probs=35.9

Q ss_pred             ccccch---hHHHHHHHHHhcC---------CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           63 TVVGLQ---STFDRVWRCLMEE---------QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        63 ~~vGR~---~~~~~l~~~L~~~---------~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +.-|-+   .|+++|+++|.+.         -++-|.++||+|.|||-||++++-..
T Consensus       305 dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA  361 (752)
T KOG0734|consen  305 DVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEA  361 (752)
T ss_pred             cccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhccc
Confidence            345554   5778889988762         24679999999999999999998887

>TIGR00763 lon ATP-dependent protease La

Probab=97.94  E-value=0.00012  Score=74.96  Aligned_cols=158  Identities=17%  Similarity=0.137  Sum_probs=84.1

Q ss_pred             CccccchhHHHHHHHHHhc------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHH
Q 043737           62 PTVVGLQSTFDRVWRCLME------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSI  135 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l  135 (371)
                      ...+|.+...++|.+++..      ...+.+.++|++|+|||++|+.++..+   ...|-   -++++...+..++.   
T Consensus       320 ~~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~l---~~~~~---~i~~~~~~~~~~i~---  390 (775)
T TIGR00763       320 EDHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKAL---NRKFV---RFSLGGVRDEAEIR---  390 (775)
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHHh---cCCeE---EEeCCCcccHHHHc---
Confidence            4578988888888886542      134589999999999999999999987   33332   22223222222221   


Q ss_pred             HHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCcccc------cccccc--------cC-----CCC-CCCc
Q 043737          136 AKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDL------SQVGLP--------VP-----CRT-SASN  195 (371)
Q Consensus       136 ~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~~------~~~~~~--------l~-----~~~-~~~~  195 (371)
                           ...........+.....+... ...+.+++||+++....-      ..+...        +.     ... ..+.
T Consensus       391 -----g~~~~~~g~~~g~i~~~l~~~-~~~~~villDEidk~~~~~~~~~~~aLl~~ld~~~~~~f~d~~~~~~~d~s~v  464 (775)
T TIGR00763       391 -----GHRRTYVGAMPGRIIQGLKKA-KTKNPLFLLDEIDKIGSSFRGDPASALLEVLDPEQNNAFSDHYLDVPFDLSKV  464 (775)
T ss_pred             -----CCCCceeCCCCchHHHHHHHh-CcCCCEEEEechhhcCCccCCCHHHHHHHhcCHHhcCccccccCCceeccCCE
Confidence                 111111222223333333333 233348899999755220      001000        00     000 1233


Q ss_pred             EEEEecCchH-HH-hhccCCCceeecCCChHHHHHHHHHHh
Q 043737          196 KTVFTARELE-VC-GQMEAHKSFKVERLGYEDAWKLFEEKV  234 (371)
Q Consensus       196 ~iliTsR~~~-~~-~~~~~~~~~~l~~L~~~ea~~ll~~~~  234 (371)
                      .+|.||.... +. ........+++.+++.++-.+++.+.+
T Consensus       465 ~~I~TtN~~~~i~~~L~~R~~vi~~~~~~~~e~~~I~~~~l  505 (775)
T TIGR00763       465 IFIATANSIDTIPRPLLDRMEVIELSGYTEEEKLEIAKKYL  505 (775)
T ss_pred             EEEEecCCchhCCHHHhCCeeEEecCCCCHHHHHHHHHHHH
Confidence            3444544321 11 112334578999999999888887654

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.

>CHL00195 ycf46 Ycf46; Provisional

Probab=97.93  E-value=0.00011  Score=70.51  Aligned_cols=172  Identities=13%  Similarity=0.111  Sum_probs=89.0

Q ss_pred             CccccchhHHHHHHHH---Hhc-------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHH
Q 043737           62 PTVVGLQSTFDRVWRC---LME-------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQI  131 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~---L~~-------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~  131 (371)
                      .++.|.+...+.+...   +..       ...+-|.++|++|+|||.+|+.++...   ...|   +-++.+      .+
T Consensus       228 ~dvgGl~~lK~~l~~~~~~~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~---~~~~---~~l~~~------~l  295 (489)
T CHL00195        228 SDIGGLDNLKDWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDW---QLPL---LRLDVG------KL  295 (489)
T ss_pred             HHhcCHHHHHHHHHHHHHHhhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHh---CCCE---EEEEhH------Hh
Confidence            4567766555544432   111       235679999999999999999999987   2222   112111      11


Q ss_pred             HHHHHHHhccCCCCCCcCCHHHHHHHHHHH-hCCCceEEEEeCCCCcccc--------------cccccccCCCCCCCcE
Q 043737          132 QGSIAKKINLFNESWNSRSLQEKSQDIVKN-MSNKKFVLLLDHIWELVDL--------------SQVGLPVPCRTSASNK  196 (371)
Q Consensus       132 ~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~-l~~~~~LlVlDdv~~~~~~--------------~~~~~~l~~~~~~~~~  196 (371)
                      .    ...       ...+ +..+..+... -...+++|+||+++....-              ..+...+. ....+..
T Consensus       296 ~----~~~-------vGes-e~~l~~~f~~A~~~~P~IL~IDEID~~~~~~~~~~d~~~~~rvl~~lL~~l~-~~~~~V~  362 (489)
T CHL00195        296 F----GGI-------VGES-ESRMRQMIRIAEALSPCILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLS-EKKSPVF  362 (489)
T ss_pred             c----ccc-------cChH-HHHHHHHHHHHHhcCCcEEEehhhhhhhccccCCCCchHHHHHHHHHHHHHh-cCCCceE
Confidence            1    000       1111 1222222222 2357899999999743110              00111111 1223334


Q ss_pred             EEEecCchH-H----HhhccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCc
Q 043737          197 TVFTARELE-V----CGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLP  260 (371)
Q Consensus       197 iliTsR~~~-~----~~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~P  260 (371)
                      ||.||.... +    .+...-...+.++.-+.++-.++|+.++.........  ......+++.+.|.-
T Consensus       363 vIaTTN~~~~Ld~allR~GRFD~~i~v~lP~~~eR~~Il~~~l~~~~~~~~~--~~dl~~La~~T~GfS  429 (489)
T CHL00195        363 VVATANNIDLLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKFRPKSWK--KYDIKKLSKLSNKFS  429 (489)
T ss_pred             EEEecCChhhCCHHHhCCCcCCeEEEeCCcCHHHHHHHHHHHHhhcCCCccc--ccCHHHHHhhcCCCC
Confidence            455665432 1    1111223567888888899999998887553211101  112566777777653

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.93  E-value=0.00031  Score=71.71  Aligned_cols=177  Identities=15%  Similarity=0.162  Sum_probs=95.8

Q ss_pred             CccccchhHHHHHHHHHhc-------------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCH
Q 043737           62 PTVVGLQSTFDRVWRCLME-------------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQL  128 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~-------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~  128 (371)
                      ..+.|.+...+.|.+.+.-             ...+-+.++|++|+|||+||+.++...   ...|     +.+..    
T Consensus       453 ~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~---~~~f-----i~v~~----  520 (733)
T TIGR01243       453 SDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATES---GANF-----IAVRG----  520 (733)
T ss_pred             hhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhc---CCCE-----EEEeh----
Confidence            3467777777766665431             234568999999999999999999987   3222     22221    


Q ss_pred             HHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHh-CCCceEEEEeCCCCccc--------------ccccccccCC-CCC
Q 043737          129 EQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNM-SNKKFVLLLDHIWELVD--------------LSQVGLPVPC-RTS  192 (371)
Q Consensus       129 ~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~~~--------------~~~~~~~l~~-~~~  192 (371)
                      .+++    ...       ...+ +..+..+.... ...+++|+||+++....              ...+...+.. ...
T Consensus       521 ~~l~----~~~-------vGes-e~~i~~~f~~A~~~~p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~~~~  588 (733)
T TIGR01243       521 PEIL----SKW-------VGES-EKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQEL  588 (733)
T ss_pred             HHHh----hcc-------cCcH-HHHHHHHHHHHHhcCCEEEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhcccCC
Confidence            1111    111       1111 22333333332 45689999999974311              1111111110 122


Q ss_pred             CCcEEEEecCchHH-Hhhc----cCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCc-HHHHHH
Q 043737          193 ASNKTVFTARELEV-CGQM----EAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLP-LALITV  266 (371)
Q Consensus       193 ~~~~iliTsR~~~~-~~~~----~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~P-lal~~~  266 (371)
                      .+..||.||..... ...+    .-...+.++..+.++-.++|...........+.+    ...+++.+.|.- ..|..+
T Consensus       589 ~~v~vI~aTn~~~~ld~allRpgRfd~~i~v~~Pd~~~R~~i~~~~~~~~~~~~~~~----l~~la~~t~g~sgadi~~~  664 (733)
T TIGR01243       589 SNVVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSMPLAEDVD----LEELAEMTEGYTGADIEAV  664 (733)
T ss_pred             CCEEEEEeCCChhhCCHhhcCCCccceEEEeCCcCHHHHHHHHHHHhcCCCCCccCC----HHHHHHHcCCCCHHHHHHH
Confidence            34444545544332 1111    2245688888899988889887765443322223    566777887754 334443

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.

>PRK04296 thymidine kinase; Provisional

Probab=97.91  E-value=1.4e-05  Score=67.34  Aligned_cols=114  Identities=17%  Similarity=0.086  Sum_probs=64.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhC
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMS  163 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~  163 (371)
                      .++.++|+.|+||||++..++.+..   .+...++.+.-  ..+.......++.+++...+........+....+.+ ..
T Consensus         3 ~i~litG~~GsGKTT~~l~~~~~~~---~~g~~v~i~k~--~~d~~~~~~~i~~~lg~~~~~~~~~~~~~~~~~~~~-~~   76 (190)
T PRK04296          3 KLEFIYGAMNSGKSTELLQRAYNYE---ERGMKVLVFKP--AIDDRYGEGKVVSRIGLSREAIPVSSDTDIFELIEE-EG   76 (190)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHH---HcCCeEEEEec--cccccccCCcEecCCCCcccceEeCChHHHHHHHHh-hC
Confidence            4788999999999999999998872   22334444421  111122233455555543322122344455555555 33


Q ss_pred             CCceEEEEeCCCCc--ccccccccccCCCCCCCcEEEEecCchHH
Q 043737          164 NKKFVLLLDHIWEL--VDLSQVGLPVPCRTSASNKTVFTARELEV  206 (371)
Q Consensus       164 ~~~~LlVlDdv~~~--~~~~~~~~~l~~~~~~~~~iliTsR~~~~  206 (371)
                      ++.-+||+|+++-.  +++..+...   ....|..|++|.+....
T Consensus        77 ~~~dvviIDEaq~l~~~~v~~l~~~---l~~~g~~vi~tgl~~~~  118 (190)
T PRK04296         77 EKIDCVLIDEAQFLDKEQVVQLAEV---LDDLGIPVICYGLDTDF  118 (190)
T ss_pred             CCCCEEEEEccccCCHHHHHHHHHH---HHHcCCeEEEEecCccc
Confidence            34459999999643  212222111   13467889999887443

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=97.91  E-value=4.2e-05  Score=65.99  Aligned_cols=36  Identities=22%  Similarity=0.328  Sum_probs=30.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEe
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVA  122 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~  122 (371)
                      -.++|.|.+|+|||+|+..+....   ...|..+++++-
T Consensus        14 fr~viIG~sGSGKT~li~~lL~~~---~~~f~~I~l~t~   49 (241)
T PF04665_consen   14 FRMVIIGKSGSGKTTLIKSLLYYL---RHKFDHIFLITP   49 (241)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHhh---cccCCEEEEEec
Confidence            367789999999999999999887   677777777654

This is thought to be an ATPase involved in viral DNA packaging [].

>PRK06921 hypothetical protein; Provisional

Probab=97.91  E-value=3.3e-05  Score=68.45  Aligned_cols=39  Identities=23%  Similarity=0.269  Sum_probs=29.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEe
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVA  122 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~  122 (371)
                      ....+.++|++|+|||+||..+++.+.  ......++|++.
T Consensus       116 ~~~~l~l~G~~G~GKThLa~aia~~l~--~~~g~~v~y~~~  154 (266)
T PRK06921        116 RKNSIALLGQPGSGKTHLLTAAANELM--RKKGVPVLYFPF  154 (266)
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHh--hhcCceEEEEEH
Confidence            456899999999999999999999872  221345566654

>PRK08118 topology modulation protein; Reviewed

Probab=97.90  E-value=3.4e-05  Score=63.44  Aligned_cols=36  Identities=31%  Similarity=0.496  Sum_probs=28.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEE
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIW  119 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~w  119 (371)
                      +.|.|+|++|+||||||+.+++.......+++.++|
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~   37 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFW   37 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCCceecchhhc
Confidence            368999999999999999999997323356677776

>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=97.85  E-value=7.2e-05  Score=63.13  Aligned_cols=90  Identities=16%  Similarity=0.138  Sum_probs=57.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCc-CCHHHHHHHHHHHhccCCCC-CCcCCHHHHHHHHHH
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKD-LQLEQIQGSIAKKINLFNES-WNSRSLQEKSQDIVK  160 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~l~~~l~~~~~~-~~~~~~~~~~~~l~~  160 (371)
                      +++++++|+.|+||||.+.+++.+..   ..-..+..++.... ....+-++.+++.++.+... ....++.+......+
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~~---~~~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~~~~~~~~~~~~~~l~   77 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARLK---LKGKKVALISADTYRIGAVEQLKTYAEILGVPFYVARTESDPAEIAREALE   77 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHHH---HTT--EEEEEESTSSTHHHHHHHHHHHHHTEEEEESSTTSCHHHHHHHHHH
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHHh---hccccceeecCCCCCccHHHHHHHHHHHhccccchhhcchhhHHHHHHHHH
Confidence            46899999999999999999888873   22446777777543 35667788888888865322 123345555544444


Q ss_pred             HhCCC-ceEEEEeCCC
Q 043737          161 NMSNK-KFVLLLDHIW  175 (371)
Q Consensus       161 ~l~~~-~~LlVlDdv~  175 (371)
                      ....+ .=++++|-.-
T Consensus        78 ~~~~~~~D~vlIDT~G   93 (196)
T PF00448_consen   78 KFRKKGYDLVLIDTAG   93 (196)
T ss_dssp             HHHHTTSSEEEEEE-S
T ss_pred             HHhhcCCCEEEEecCC
Confidence            44333 3488888764

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 ....

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=97.84  E-value=0.00087  Score=59.48  Aligned_cols=56  Identities=25%  Similarity=0.247  Sum_probs=35.7

Q ss_pred             hHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHH
Q 043737           69 STFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQ  132 (371)
Q Consensus        69 ~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~  132 (371)
                      ..++++..++..  .+.|.|.|++|+|||+||+.++...   ..   ..+.+++....+..+++
T Consensus         9 ~l~~~~l~~l~~--g~~vLL~G~~GtGKT~lA~~la~~l---g~---~~~~i~~~~~~~~~dll   64 (262)
T TIGR02640         9 RVTSRALRYLKS--GYPVHLRGPAGTGKTTLAMHVARKR---DR---PVMLINGDAELTTSDLV   64 (262)
T ss_pred             HHHHHHHHHHhc--CCeEEEEcCCCCCHHHHHHHHHHHh---CC---CEEEEeCCccCCHHHHh
Confidence            344555555533  3477899999999999999998765   22   23455555544444443

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).

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

Probab=97.83  E-value=0.00063  Score=65.65  Aligned_cols=153  Identities=18%  Similarity=0.150  Sum_probs=85.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHH
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVK  160 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~  160 (371)
                      +..+-|.++||+|+|||++|+.+++..   ...|     +.+...    +++...           -..+...+...+.+
T Consensus       466 ~ppkGVLlyGPPGC~KT~lAkalAne~---~~nF-----lsvkgp----EL~sk~-----------vGeSEr~ir~iF~k  522 (693)
T KOG0730|consen  466 SPPKGVLLYGPPGCGKTLLAKALANEA---GMNF-----LSVKGP----ELFSKY-----------VGESERAIREVFRK  522 (693)
T ss_pred             CCCceEEEECCCCcchHHHHHHHhhhh---cCCe-----eeccCH----HHHHHh-----------cCchHHHHHHHHHH
Confidence            356889999999999999999999987   3333     333221    222111           11222222222333


Q ss_pred             HhCCCceEEEEeCCCCccc-------------ccccccccCCCCCCCcEEEE--ecCchHHHhh-cc---CCCceeecCC
Q 043737          161 NMSNKKFVLLLDHIWELVD-------------LSQVGLPVPCRTSASNKTVF--TARELEVCGQ-ME---AHKSFKVERL  221 (371)
Q Consensus       161 ~l~~~~~LlVlDdv~~~~~-------------~~~~~~~l~~~~~~~~~ili--TsR~~~~~~~-~~---~~~~~~l~~L  221 (371)
                      .-+.-++++.||+++....             +..+...+.........++|  |-|...+... +.   -...+.++.=
T Consensus       523 AR~~aP~IiFfDEiDsi~~~R~g~~~~v~~RVlsqLLtEmDG~e~~k~V~ViAATNRpd~ID~ALlRPGRlD~iiyVplP  602 (693)
T KOG0730|consen  523 ARQVAPCIIFFDEIDALAGSRGGSSSGVTDRVLSQLLTEMDGLEALKNVLVIAATNRPDMIDPALLRPGRLDRIIYVPLP  602 (693)
T ss_pred             HhhcCCeEEehhhHHhHhhccCCCccchHHHHHHHHHHHcccccccCcEEEEeccCChhhcCHHHcCCcccceeEeecCc
Confidence            3334678999999974311             11111222211122223333  5565544222 22   3456788777


Q ss_pred             ChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCc
Q 043737          222 GYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLP  260 (371)
Q Consensus       222 ~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~P  260 (371)
                      +.+.-.++|+.++.+.....+-+    ..+|++.+.|.-
T Consensus       603 D~~aR~~Ilk~~~kkmp~~~~vd----l~~La~~T~g~S  637 (693)
T KOG0730|consen  603 DLEARLEILKQCAKKMPFSEDVD----LEELAQATEGYS  637 (693)
T ss_pred             cHHHHHHHHHHHHhcCCCCcccc----HHHHHHHhccCC
Confidence            78888889999987766555444    455666666653

>PRK07261 topology modulation protein; Provisional

Probab=97.82  E-value=7e-05  Score=61.89  Aligned_cols=66  Identities=17%  Similarity=0.339  Sum_probs=40.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCC
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSN  164 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~  164 (371)
                      .|+|+|++|+||||||+++........-+.+.+.|-..                       +...+.++....+...+.+
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~D~~~~~~~-----------------------~~~~~~~~~~~~~~~~~~~   58 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHFQPN-----------------------WQERDDDDMIADISNFLLK   58 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCeEecCCEEeccc-----------------------cccCCHHHHHHHHHHHHhC
Confidence            58899999999999999998775211223444444211                       1222334455555555655


Q ss_pred             CceEEEEeCCC
Q 043737          165 KKFVLLLDHIW  175 (371)
Q Consensus       165 ~~~LlVlDdv~  175 (371)
                      .+  .|+|+..
T Consensus        59 ~~--wIidg~~   67 (171)
T PRK07261         59 HD--WIIDGNY   67 (171)
T ss_pred             CC--EEEcCcc
Confidence            55  6778764

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

Probab=97.80  E-value=0.00015  Score=73.77  Aligned_cols=160  Identities=17%  Similarity=0.151  Sum_probs=87.6

Q ss_pred             CCccccchhHHHHHHHHHhc------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHH
Q 043737           61 PPTVVGLQSTFDRVWRCLME------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGS  134 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  134 (371)
                      ....+|.+...++|.+++..      ....++.++|++|+||||+++.++..+   ...|-   -++++...+...+...
T Consensus       321 ~~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~l---~~~~~---~i~~~~~~d~~~i~g~  394 (784)
T PRK10787        321 DTDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKAT---GRKYV---RMALGGVRDEAEIRGH  394 (784)
T ss_pred             hhhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHHh---CCCEE---EEEcCCCCCHHHhccc
Confidence            35589999999999888762      245689999999999999999999876   33332   2333333232222111


Q ss_pred             HHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCcccc------cccccc-------------cCC-CCCCC
Q 043737          135 IAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDL------SQVGLP-------------VPC-RTSAS  194 (371)
Q Consensus       135 l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~~------~~~~~~-------------l~~-~~~~~  194 (371)
                      -        .......++.....+.. ....+-+++||+++....-      ..+...             +.. ..-.+
T Consensus       395 ~--------~~~~g~~~G~~~~~l~~-~~~~~~villDEidk~~~~~~g~~~~aLlevld~~~~~~~~d~~~~~~~dls~  465 (784)
T PRK10787        395 R--------RTYIGSMPGKLIQKMAK-VGVKNPLFLLDEIDKMSSDMRGDPASALLEVLDPEQNVAFSDHYLEVDYDLSD  465 (784)
T ss_pred             h--------hccCCCCCcHHHHHHHh-cCCCCCEEEEEChhhcccccCCCHHHHHHHHhccccEEEEecccccccccCCc
Confidence            1        01111122233333332 2223447899999754221      111110             100 11133


Q ss_pred             cEEEEecCchHHHh-hccCCCceeecCCChHHHHHHHHHHhC
Q 043737          195 NKTVFTARELEVCG-QMEAHKSFKVERLGYEDAWKLFEEKVG  235 (371)
Q Consensus       195 ~~iliTsR~~~~~~-~~~~~~~~~l~~L~~~ea~~ll~~~~~  235 (371)
                      ..+|.|+....+.. ..+....+.+.+++.++-.++..+.+.
T Consensus       466 v~~i~TaN~~~i~~aLl~R~~ii~~~~~t~eek~~Ia~~~L~  507 (784)
T PRK10787        466 VMFVATSNSMNIPAPLLDRMEVIRLSGYTEDEKLNIAKRHLL  507 (784)
T ss_pred             eEEEEcCCCCCCCHHHhcceeeeecCCCCHHHHHHHHHHhhh
Confidence            34444554332211 123346789999999999888877763

>PRK06526 transposase; Provisional

Probab=97.80  E-value=2.6e-05  Score=68.56  Aligned_cols=26  Identities=23%  Similarity=0.163  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....+.|+|++|+|||+||..++...
T Consensus        97 ~~~nlll~Gp~GtGKThLa~al~~~a  122 (254)
T PRK06526         97 GKENVVFLGPPGTGKTHLAIGLGIRA  122 (254)
T ss_pred             cCceEEEEeCCCCchHHHHHHHHHHH
Confidence            45679999999999999999998886

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.80  E-value=0.00031  Score=72.67  Aligned_cols=61  Identities=23%  Similarity=0.313  Sum_probs=44.8

Q ss_pred             CCccccchhHHHHHHHHHhcC---------CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCC
Q 043737           61 PPTVVGLQSTFDRVWRCLMEE---------QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASK  124 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~~---------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~  124 (371)
                      ...++|.+..++.+...+...         ....+.++|++|+|||++|+.++....   ......+.++++.
T Consensus       564 ~~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~---~~~~~~i~~d~s~  633 (852)
T TIGR03346       564 HERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLF---DDEDAMVRIDMSE  633 (852)
T ss_pred             hcccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhc---CCCCcEEEEechh
Confidence            456899999999999988641         134688999999999999999998872   2223344455443

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.

>PRK04132 replication factor C small subunit; Provisional

Probab=97.79  E-value=0.00041  Score=70.44  Aligned_cols=157  Identities=14%  Similarity=0.059  Sum_probs=94.8

Q ss_pred             EEc--CCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCC
Q 043737           88 LYG--MGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNK  165 (371)
Q Consensus        88 I~G--~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~  165 (371)
                      +.|  |.++||||+|..+++++. ....-..++-++++...+.+.+- ++...+....+.                -..+
T Consensus       569 ~~G~lPh~lGKTT~A~ala~~l~-g~~~~~~~lElNASd~rgid~IR-~iIk~~a~~~~~----------------~~~~  630 (846)
T PRK04132        569 IGGNLPTVLHNTTAALALARELF-GENWRHNFLELNASDERGINVIR-EKVKEFARTKPI----------------GGAS  630 (846)
T ss_pred             hcCCCCCcccHHHHHHHHHHhhh-cccccCeEEEEeCCCcccHHHHH-HHHHHHHhcCCc----------------CCCC
Confidence            347  889999999999999872 22112356777777655554333 333332211100                0123


Q ss_pred             ceEEEEeCCCCcc--cccccccccCCCCCCCcEEEEecCc-hHHH-hhccCCCceeecCCChHHHHHHHHHHhCCCCCCC
Q 043737          166 KFVLLLDHIWELV--DLSQVGLPVPCRTSASNKTVFTARE-LEVC-GQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDS  241 (371)
Q Consensus       166 ~~LlVlDdv~~~~--~~~~~~~~l~~~~~~~~~iliTsR~-~~~~-~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~  241 (371)
                      .-++|||+++...  ....+...+. .....+++|+++.+ ..+. +..+....+.+.+++.++....+...+.......
T Consensus       631 ~KVvIIDEaD~Lt~~AQnALLk~lE-ep~~~~~FILi~N~~~kIi~tIrSRC~~i~F~~ls~~~i~~~L~~I~~~Egi~i  709 (846)
T PRK04132        631 FKIIFLDEADALTQDAQQALRRTME-MFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGLEL  709 (846)
T ss_pred             CEEEEEECcccCCHHHHHHHHHHhh-CCCCCeEEEEEeCChhhCchHHhhhceEEeCCCCCHHHHHHHHHHHHHhcCCCC
Confidence            4699999998764  3333444443 33455666655544 3332 2234467899999999999988887765433222


Q ss_pred             CCCHHHHHHHHHHHcCCCcHHHHHH
Q 043737          242 HPDIPELAETVAKECGGLPLALITV  266 (371)
Q Consensus       242 ~~~~~~~~~~i~~~~~g~Plal~~~  266 (371)
                      +   ++.+..|++.++|.+...-.+
T Consensus       710 ~---~e~L~~Ia~~s~GDlR~AIn~  731 (846)
T PRK04132        710 T---EEGLQAILYIAEGDMRRAINI  731 (846)
T ss_pred             C---HHHHHHHHHHcCCCHHHHHHH
Confidence            2   456899999999988544333

>PRK06835 DNA replication protein DnaC; Validated

Probab=97.79  E-value=8.5e-05  Score=67.72  Aligned_cols=103  Identities=20%  Similarity=0.192  Sum_probs=55.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKN  161 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~  161 (371)
                      ....+.++|+.|+|||.||..+++.+.   .....++|+++      .+++..+...-. .    ........    .+.
T Consensus       182 ~~~~Lll~G~~GtGKThLa~aIa~~l~---~~g~~V~y~t~------~~l~~~l~~~~~-~----~~~~~~~~----~~~  243 (329)
T PRK06835        182 NNENLLFYGNTGTGKTFLSNCIAKELL---DRGKSVIYRTA------DELIEILREIRF-N----NDKELEEV----YDL  243 (329)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHHHH---HCCCeEEEEEH------HHHHHHHHHHHh-c----cchhHHHH----HHH
Confidence            347899999999999999999999883   22235666644      334444433211 0    11111111    223


Q ss_pred             hCCCceEEEEeCCCCc--ccc--cccccccCCCCCCCcEEEEecCc
Q 043737          162 MSNKKFVLLLDHIWEL--VDL--SQVGLPVPCRTSASNKTVFTARE  203 (371)
Q Consensus       162 l~~~~~LlVlDdv~~~--~~~--~~~~~~l~~~~~~~~~iliTsR~  203 (371)
                      +.+- =||||||+...  ..+  +.+...+......+..+||||..
T Consensus       244 l~~~-DLLIIDDlG~e~~t~~~~~~Lf~iin~R~~~~k~tIiTSNl  288 (329)
T PRK06835        244 LINC-DLLIIDDLGTEKITEFSKSELFNLINKRLLRQKKMIISTNL  288 (329)
T ss_pred             hccC-CEEEEeccCCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCC
Confidence            3322 38999999533  222  22222222122334568888864

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=97.78  E-value=0.00015  Score=62.93  Aligned_cols=88  Identities=22%  Similarity=0.230  Sum_probs=51.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHH--------hccCCCCCCcCCHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKK--------INLFNESWNSRSLQE  153 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~--------l~~~~~~~~~~~~~~  153 (371)
                      ...++.|+|++|+|||+++.+++....   .....++|++.. ..+...+. ++...        +..... .......+
T Consensus        22 ~g~i~~i~G~~GsGKT~l~~~la~~~~---~~~~~v~yi~~e-~~~~~r~~-~~~~~~~~~~~~~~~~~~~-~~~~~~~~   95 (225)
T PRK09361         22 RGTITQIYGPPGSGKTNICLQLAVEAA---KNGKKVIYIDTE-GLSPERFK-QIAGEDFEELLSNIIIFEP-SSFEEQSE   95 (225)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH---HCCCeEEEEECC-CCCHHHHH-HHHhhChHhHhhCeEEEeC-CCHHHHHH
Confidence            356999999999999999999998762   234578899887 44443332 22221        111110 01111122


Q ss_pred             HHHHHHHHhCCCceEEEEeCCC
Q 043737          154 KSQDIVKNMSNKKFVLLLDHIW  175 (371)
Q Consensus       154 ~~~~l~~~l~~~~~LlVlDdv~  175 (371)
                      .+..+...+..+.-++|+|.+.
T Consensus        96 ~i~~~~~~~~~~~~lvVIDsi~  117 (225)
T PRK09361         96 AIRKAEKLAKENVGLIVLDSAT  117 (225)
T ss_pred             HHHHHHHHHHhcccEEEEeCcH
Confidence            3334444444556699999984

>PHA00729 NTP-binding motif containing protein

Probab=97.76  E-value=0.00019  Score=61.31  Aligned_cols=35  Identities=14%  Similarity=0.246  Sum_probs=28.9

Q ss_pred             HHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           73 RVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        73 ~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+...+.+.....|+|+|.+|+||||||..+++.+
T Consensus         7 ~~~~~l~~~~f~nIlItG~pGvGKT~LA~aLa~~l   41 (226)
T PHA00729          7 KIVSAYNNNGFVSAVIFGKQGSGKTTYALKVARDV   41 (226)
T ss_pred             HHHHHHhcCCeEEEEEECCCCCCHHHHHHHHHHHH
Confidence            44555656666789999999999999999999886

>PRK07952 DNA replication protein DnaC; Validated

Probab=97.76  E-value=0.0001  Score=64.31  Aligned_cols=88  Identities=17%  Similarity=0.244  Sum_probs=51.0

Q ss_pred             HHHHHHHHHhc--CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCC
Q 043737           70 TFDRVWRCLME--EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWN  147 (371)
Q Consensus        70 ~~~~l~~~L~~--~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~  147 (371)
                      .+..+.++..+  .....+.++|.+|+|||+||..+++.+.   .....+++++      ..++...+-.....     .
T Consensus        84 al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~---~~g~~v~~it------~~~l~~~l~~~~~~-----~  149 (244)
T PRK07952         84 ALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELL---LRGKSVLIIT------VADIMSAMKDTFSN-----S  149 (244)
T ss_pred             HHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHH---hcCCeEEEEE------HHHHHHHHHHHHhh-----c
Confidence            34444444432  2235789999999999999999999983   2233556653      34555554443310     1


Q ss_pred             cCCHHHHHHHHHHHhCCCceEEEEeCCCC
Q 043737          148 SRSLQEKSQDIVKNMSNKKFVLLLDHIWE  176 (371)
Q Consensus       148 ~~~~~~~~~~l~~~l~~~~~LlVlDdv~~  176 (371)
                      ..+..    .+.+.+.+ .=+|||||+..
T Consensus       150 ~~~~~----~~l~~l~~-~dlLvIDDig~  173 (244)
T PRK07952        150 ETSEE----QLLNDLSN-VDLLVIDEIGV  173 (244)
T ss_pred             cccHH----HHHHHhcc-CCEEEEeCCCC
Confidence            11222    23333443 33899999964

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=97.76  E-value=0.00057  Score=62.41  Aligned_cols=68  Identities=9%  Similarity=0.049  Sum_probs=40.0

Q ss_pred             CceEEEEeCCCCcc--cccccccccCCCCCCCcEEEEecCch-HHHhh-ccCCCceeecCCChHHHHHHHHHH
Q 043737          165 KKFVLLLDHIWELV--DLSQVGLPVPCRTSASNKTVFTAREL-EVCGQ-MEAHKSFKVERLGYEDAWKLFEEK  233 (371)
Q Consensus       165 ~~~LlVlDdv~~~~--~~~~~~~~l~~~~~~~~~iliTsR~~-~~~~~-~~~~~~~~l~~L~~~ea~~ll~~~  233 (371)
                      ++-++|+|+++...  ....+...+. ....++.+|++|.+. .+... .+....+.+.+++.+++.+.+...
T Consensus       113 ~~kV~iiEp~~~Ld~~a~naLLk~LE-ep~~~~~~Ilvth~~~~ll~ti~SRc~~~~~~~~~~~~~~~~L~~~  184 (325)
T PRK08699        113 GLRVILIHPAESMNLQAANSLLKVLE-EPPPQVVFLLVSHAADKVLPTIKSRCRKMVLPAPSHEEALAYLRER  184 (325)
T ss_pred             CceEEEEechhhCCHHHHHHHHHHHH-hCcCCCEEEEEeCChHhChHHHHHHhhhhcCCCCCHHHHHHHHHhc
Confidence            34466778887542  2222323332 222355566666653 33322 244577899999999999998764

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

Probab=97.76  E-value=0.00052  Score=65.61  Aligned_cols=153  Identities=17%  Similarity=0.187  Sum_probs=86.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKN  161 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~  161 (371)
                      ...-|.+|||+|+|||-||+++++..   +.     -|+++...    +++......            .+..++.+.++
T Consensus       544 ~PsGvLL~GPPGCGKTLlAKAVANEa---g~-----NFisVKGP----ELlNkYVGE------------SErAVR~vFqR  599 (802)
T KOG0733|consen  544 APSGVLLCGPPGCGKTLLAKAVANEA---GA-----NFISVKGP----ELLNKYVGE------------SERAVRQVFQR  599 (802)
T ss_pred             CCCceEEeCCCCccHHHHHHHHhhhc---cC-----ceEeecCH----HHHHHHhhh------------HHHHHHHHHHH
Confidence            45678999999999999999999997   33     34555442    333332211            12334444444


Q ss_pred             h-CCCceEEEEeCCCCccc-------------ccccccccC-CCCCCCcEEEE-ecCchHHHhh-cc---CCCceeecCC
Q 043737          162 M-SNKKFVLLLDHIWELVD-------------LSQVGLPVP-CRTSASNKTVF-TARELEVCGQ-ME---AHKSFKVERL  221 (371)
Q Consensus       162 l-~~~~~LlVlDdv~~~~~-------------~~~~~~~l~-~~~~~~~~ili-TsR~~~~~~~-~~---~~~~~~l~~L  221 (371)
                      . .+-+|+|.||+++....             +.++...+. .....|.-||- |.|...+-.. +.   -.....++.=
T Consensus       600 AR~saPCVIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPDiIDpAiLRPGRlDk~LyV~lP  679 (802)
T KOG0733|consen  600 ARASAPCVIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGLEERRGVYVIAATNRPDIIDPAILRPGRLDKLLYVGLP  679 (802)
T ss_pred             hhcCCCeEEEecchhhcCcccCCCCchhHHHHHHHHHHHhcccccccceEEEeecCCCcccchhhcCCCccCceeeecCC
Confidence            4 36799999999974311             122222222 12344544554 5555433222 22   2345677777


Q ss_pred             ChHHHHHHHHHHhC--CCCCCCCCCHHHHHHHHHHHcCCCc
Q 043737          222 GYEDAWKLFEEKVG--KEILDSHPDIPELAETVAKECGGLP  260 (371)
Q Consensus       222 ~~~ea~~ll~~~~~--~~~~~~~~~~~~~~~~i~~~~~g~P  260 (371)
                      +.+|-.++++....  +.....+-++.+++..  .+|.|..
T Consensus       680 n~~eR~~ILK~~tkn~k~pl~~dVdl~eia~~--~~c~gft  718 (802)
T KOG0733|consen  680 NAEERVAILKTITKNTKPPLSSDVDLDEIARN--TKCEGFT  718 (802)
T ss_pred             CHHHHHHHHHHHhccCCCCCCcccCHHHHhhc--ccccCCc
Confidence            88888889988887  3334444455444432  2344543

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

Probab=97.75  E-value=0.00083  Score=66.62  Aligned_cols=174  Identities=16%  Similarity=0.150  Sum_probs=98.6

Q ss_pred             Cccccchh---HHHHHHHHHhcC---------CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHH
Q 043737           62 PTVVGLQS---TFDRVWRCLMEE---------QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLE  129 (371)
Q Consensus        62 ~~~vGR~~---~~~~l~~~L~~~---------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~  129 (371)
                      .++.|-++   |+.++++.|.+.         -++-+.|+||+|+|||-||++++-..        .+-|++++..    
T Consensus       311 kDVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEA--------gVPF~svSGS----  378 (774)
T KOG0731|consen  311 KDVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEA--------GVPFFSVSGS----  378 (774)
T ss_pred             ccccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhccc--------CCceeeechH----
Confidence            34677654   556667777651         35678999999999999999999886        3455555542    


Q ss_pred             HHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHh-CCCceEEEEeCCCCccc-----------------ccccccccCCCC
Q 043737          130 QIQGSIAKKINLFNESWNSRSLQEKSQDIVKNM-SNKKFVLLLDHIWELVD-----------------LSQVGLPVPCRT  191 (371)
Q Consensus       130 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~~~-----------------~~~~~~~l~~~~  191 (371)
                      ++.    +.+..       .. ...++.+.... .+.++++.+|+++...-                 ++++........
T Consensus       379 EFv----E~~~g-------~~-asrvr~lf~~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~  446 (774)
T KOG0731|consen  379 EFV----EMFVG-------VG-ASRVRDLFPLARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFE  446 (774)
T ss_pred             HHH----HHhcc-------cc-hHHHHHHHHHhhccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCc
Confidence            222    22111       01 12223333333 35789999999874311                 222222222112


Q ss_pred             CCCcEEEE-ecCchHH-Hhh-cc---CCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHH
Q 043737          192 SASNKTVF-TARELEV-CGQ-ME---AHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLA  262 (371)
Q Consensus       192 ~~~~~ili-TsR~~~~-~~~-~~---~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pla  262 (371)
                      ..+..|++ +|...++ ... +.   -...+.++.=+...-.++|.-++......  .+..++.+ |+..+-|++=|
T Consensus       447 ~~~~vi~~a~tnr~d~ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~~~~--~e~~dl~~-~a~~t~gf~ga  520 (774)
T KOG0731|consen  447 TSKGVIVLAATNRPDILDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKKKLD--DEDVDLSK-LASLTPGFSGA  520 (774)
T ss_pred             CCCcEEEEeccCCccccCHHhcCCCccccceeccCCchhhhHHHHHHHhhccCCC--cchhhHHH-HHhcCCCCcHH
Confidence            22223333 3433322 111 11   23467777778888888898888765532  34445566 88888888754

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=97.75  E-value=0.00022  Score=62.74  Aligned_cols=89  Identities=16%  Similarity=0.197  Sum_probs=53.2

Q ss_pred             chhHHHHHHHHHhc-CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCC
Q 043737           67 LQSTFDRVWRCLME-EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNES  145 (371)
Q Consensus        67 R~~~~~~l~~~L~~-~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~  145 (371)
                      +...+..+.+.... ++..-+.++|++|+|||.||..+.+++.  +. --.+.++      +..+++..+......    
T Consensus        88 ~~~~l~~~~~~~~~~~~~~nl~l~G~~G~GKThLa~Ai~~~l~--~~-g~sv~f~------~~~el~~~Lk~~~~~----  154 (254)
T COG1484          88 DKKALEDLASLVEFFERGENLVLLGPPGVGKTHLAIAIGNELL--KA-GISVLFI------TAPDLLSKLKAAFDE----  154 (254)
T ss_pred             hHHHHHHHHHHHHHhccCCcEEEECCCCCcHHHHHHHHHHHHH--Hc-CCeEEEE------EHHHHHHHHHHHHhc----
Confidence            44444444333211 3667899999999999999999999982  22 2345555      345666666665532    


Q ss_pred             CCcCCHHHHHHHHHHHhCCCceEEEEeCCC
Q 043737          146 WNSRSLQEKSQDIVKNMSNKKFVLLLDHIW  175 (371)
Q Consensus       146 ~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~  175 (371)
                         .   .....+...+..- =||||||+-
T Consensus       155 ---~---~~~~~l~~~l~~~-dlLIiDDlG  177 (254)
T COG1484         155 ---G---RLEEKLLRELKKV-DLLIIDDIG  177 (254)
T ss_pred             ---C---chHHHHHHHhhcC-CEEEEeccc
Confidence               1   1112222222222 299999995

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

Probab=97.73  E-value=0.00071  Score=65.83  Aligned_cols=151  Identities=15%  Similarity=0.153  Sum_probs=84.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhC
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMS  163 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~  163 (371)
                      .-|.++|++|+|||-||.+++...        ..-++++...    +++....   |        .+ ++.++.+..+.+
T Consensus       702 ~giLLyGppGcGKT~la~a~a~~~--------~~~fisvKGP----ElL~KyI---G--------aS-Eq~vR~lF~rA~  757 (952)
T KOG0735|consen  702 TGILLYGPPGCGKTLLASAIASNS--------NLRFISVKGP----ELLSKYI---G--------AS-EQNVRDLFERAQ  757 (952)
T ss_pred             cceEEECCCCCcHHHHHHHHHhhC--------CeeEEEecCH----HHHHHHh---c--------cc-HHHHHHHHHHhh
Confidence            468899999999999999998886        2345666543    2222221   1        11 334444444443


Q ss_pred             -CCceEEEEeCCCCccc-------------ccccccccCC-CCCCCcEEEE-ecCchHHHhhc-cCC---CceeecCCCh
Q 043737          164 -NKKFVLLLDHIWELVD-------------LSQVGLPVPC-RTSASNKTVF-TARELEVCGQM-EAH---KSFKVERLGY  223 (371)
Q Consensus       164 -~~~~LlVlDdv~~~~~-------------~~~~~~~l~~-~~~~~~~ili-TsR~~~~~~~~-~~~---~~~~l~~L~~  223 (371)
                       -++|+|.||+++...-             ..++...+.. ..-.|.-|+- |||...+...+ .++   +.+.-+.-++
T Consensus       758 ~a~PCiLFFDEfdSiAPkRGhDsTGVTDRVVNQlLTelDG~Egl~GV~i~aaTsRpdliDpALLRpGRlD~~v~C~~P~~  837 (952)
T KOG0735|consen  758 SAKPCILFFDEFDSIAPKRGHDSTGVTDRVVNQLLTELDGAEGLDGVYILAATSRPDLIDPALLRPGRLDKLVYCPLPDE  837 (952)
T ss_pred             ccCCeEEEeccccccCcccCCCCCCchHHHHHHHHHhhccccccceEEEEEecCCccccCHhhcCCCccceeeeCCCCCc
Confidence             5899999999975411             2222222221 2233544443 77775442221 222   2333444556


Q ss_pred             HHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHH
Q 043737          224 EDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLA  262 (371)
Q Consensus       224 ~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pla  262 (371)
                      .+-.+.|+............+    .+.++.+++|..-|
T Consensus       838 ~eRl~il~~ls~s~~~~~~vd----l~~~a~~T~g~tgA  872 (952)
T KOG0735|consen  838 PERLEILQVLSNSLLKDTDVD----LECLAQKTDGFTGA  872 (952)
T ss_pred             HHHHHHHHHHhhccCCccccc----hHHHhhhcCCCchh
Confidence            677777776654333222222    67788888887644

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=97.72  E-value=5.2e-05  Score=61.85  Aligned_cols=39  Identities=23%  Similarity=0.352  Sum_probs=30.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcC
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDL  126 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~  126 (371)
                      ++.|+|++|+|||+++..++...   ......++|++.....
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~---~~~~~~v~~~~~e~~~   39 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNI---ATKGGKVVYVDIEEEI   39 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHH---HhcCCEEEEEECCcch
Confidence            36899999999999999999887   2344567888776543

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.

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

Probab=97.72  E-value=2.9e-05  Score=61.76  Aligned_cols=43  Identities=23%  Similarity=0.266  Sum_probs=33.0

Q ss_pred             ccchhHHHHHHHHHhc--CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           65 VGLQSTFDRVWRCLME--EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        65 vGR~~~~~~l~~~L~~--~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ||+...++++.+.+..  .....|.|+|+.|+||+++|+.+....
T Consensus         1 vG~S~~~~~l~~~l~~~a~~~~pvli~GE~GtGK~~~A~~lh~~~   45 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLAKSSSPVLITGEPGTGKSLLARALHRYS   45 (138)
T ss_dssp             --SCHHHHHHHHHHHHHHCSSS-EEEECCTTSSHHHHHHCCHHTT
T ss_pred             CCCCHHHHHHHHHHHHHhCCCCcEEEEcCCCCCHHHHHHHHHhhc
Confidence            5777788888777764  456788999999999999999887765

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

Probab=97.71  E-value=0.00063  Score=69.34  Aligned_cols=47  Identities=21%  Similarity=0.340  Sum_probs=38.0

Q ss_pred             CCccccchhHHHHHHHHHhc------C---CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           61 PPTVVGLQSTFDRVWRCLME------E---QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~------~---~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...++|.+..++.+...+..      +   ....+.++||+|+|||+||+.+++.+
T Consensus       453 ~~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l  508 (731)
T TIGR02639       453 KAKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEAL  508 (731)
T ss_pred             hcceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHh
Confidence            35678999999998888763      1   12357899999999999999999887

>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.70  E-value=0.0025  Score=57.92  Aligned_cols=49  Identities=29%  Similarity=0.281  Sum_probs=36.2

Q ss_pred             ceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHH
Q 043737          215 SFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLAL  263 (371)
Q Consensus       215 ~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal  263 (371)
                      ++++++++.+|+..++.-.............+...+++.-..+|+|.-+
T Consensus       258 ~i~v~~~s~~E~~~ll~yy~~~~~l~~~~~~~~~~e~~~~~s~GNp~el  306 (309)
T PF10236_consen  258 PIEVPRLSKEEARSLLEYYADSGWLRSRVDEELVLEKLFLSSNGNPREL  306 (309)
T ss_pred             eEEeCCCCHHHHHHHHHHHHHCCccccCCCCHHHHHHHHHhcCCCHHHh
Confidence            7899999999999999877655443332344556777777779999755

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of conserved proteins which were originally described as death-associated-protein-3 (DAP-3). The proteins carry a P-loop DNA-binding motif, and induce apoptosis []. DAP3 has been shown to be a pro-apoptotic factor in the mitochondrial matrix [] and to be crucial for mitochondrial biogenesis and so has also been designated as MRP-S29 (mitochondrial ribosomal protein subunit 29).

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.70  E-value=0.00061  Score=70.36  Aligned_cols=46  Identities=22%  Similarity=0.321  Sum_probs=37.7

Q ss_pred             CccccchhHHHHHHHHHhcC-------C--ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           62 PTVVGLQSTFDRVWRCLMEE-------Q--MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~-------~--~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..++|.+..++.+...+...       +  ...+.++|+.|+|||+||+.+++..
T Consensus       568 ~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l  622 (857)
T PRK10865        568 HRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFM  622 (857)
T ss_pred             CeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            45899999999988887631       1  1468899999999999999999876

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=97.69  E-value=0.00027  Score=68.34  Aligned_cols=55  Identities=24%  Similarity=0.338  Sum_probs=43.5

Q ss_pred             CccccchhHHHHHHHHHhc-----CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEE
Q 043737           62 PTVVGLQSTFDRVWRCLME-----EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVV  121 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~-----~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~  121 (371)
                      ..++-..+.++++..||.+     ...+++.|+||+|+||||.++.+++.+     .++.+-|.+
T Consensus        19 ~eLavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~el-----g~~v~Ew~n   78 (519)
T PF03215_consen   19 DELAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKEL-----GFEVQEWIN   78 (519)
T ss_pred             HHhhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHh-----CCeeEEecC
Confidence            4456667788999999875     235799999999999999999999887     455666764

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=97.69  E-value=0.00018  Score=74.04  Aligned_cols=47  Identities=19%  Similarity=0.324  Sum_probs=38.5

Q ss_pred             CCccccchhHHHHHHHHHhc--------C-CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           61 PPTVVGLQSTFDRVWRCLME--------E-QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~--------~-~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...++|.+..++.+.+.+..        . ...++.++||+|+|||.||+.+++.+
T Consensus       565 ~~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l  620 (852)
T TIGR03345       565 AERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELL  620 (852)
T ss_pred             cCeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHH
Confidence            35689999999999888753        1 12468899999999999999998887

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.

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=97.68  E-value=0.00018  Score=61.66  Aligned_cols=89  Identities=15%  Similarity=0.178  Sum_probs=53.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHH-------hccCCCCCCcCCHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKK-------INLFNESWNSRSLQEK  154 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~-------l~~~~~~~~~~~~~~~  154 (371)
                      ...++.|+|++|+|||+++.+++....   .....++|++... .+...+.+.....       +..... .........
T Consensus        11 ~g~i~~i~G~~GsGKT~l~~~~~~~~~---~~g~~v~yi~~e~-~~~~rl~~~~~~~~~~~~~~i~~~~~-~~~~~~~~~   85 (209)
T TIGR02237        11 RGTITQIYGPPGSGKTNICMILAVNAA---RQGKKVVYIDTEG-LSPERFKQIAEDRPERALSNFIVFEV-FDFDEQGVA   85 (209)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH---hCCCeEEEEECCC-CCHHHHHHHHHhChHHHhcCEEEEEC-CCHHHHHHH
Confidence            357999999999999999999988762   3346789998875 4544444332211       111000 011112223


Q ss_pred             HHHHHHHhCC-CceEEEEeCCC
Q 043737          155 SQDIVKNMSN-KKFVLLLDHIW  175 (371)
Q Consensus       155 ~~~l~~~l~~-~~~LlVlDdv~  175 (371)
                      ...+.+.+.. +.-++|+|.+.
T Consensus        86 ~~~l~~~~~~~~~~lvVIDSis  107 (209)
T TIGR02237        86 IQKTSKFIDRDSASLVVVDSFT  107 (209)
T ss_pred             HHHHHHHHhhcCccEEEEeCcH
Confidence            4444444443 45689999985

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

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=97.68  E-value=0.0002  Score=62.46  Aligned_cols=92  Identities=15%  Similarity=0.181  Sum_probs=53.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCC----CCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCC-------CCcCC
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPN----DFDFVIWVVASKDLQLEQIQGSIAKKINLFNES-------WNSRS  150 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~----~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~-------~~~~~  150 (371)
                      ...++.|+|++|+|||+|+.+++.... ...    ....++|++.....+...+.. ++...+.....       ....+
T Consensus        18 ~g~i~~i~G~~GsGKT~l~~~l~~~~~-~~~~~~g~~~~viyi~~e~~~~~~rl~~-~~~~~~~~~~~~~~~i~~~~~~~   95 (235)
T cd01123          18 TGSITEIFGEFGSGKTQLCHQLAVTVQ-LPIELGGLEGKAVYIDTEGTFRPERLVQ-IAERFGLDPEEVLDNIYVARAYN   95 (235)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHee-CccccCCCCccEEEEeCCCCcCHHHHHH-HHHHhccChHhHhcCEEEEecCC
Confidence            457999999999999999999986641 111    135899998877655444433 33332221100       01112


Q ss_pred             HH---HHHHHHHHHhCC--CceEEEEeCCC
Q 043737          151 LQ---EKSQDIVKNMSN--KKFVLLLDHIW  175 (371)
Q Consensus       151 ~~---~~~~~l~~~l~~--~~~LlVlDdv~  175 (371)
                      ..   .....+...+..  +.-++|+|.+.
T Consensus        96 ~~~l~~~l~~l~~~l~~~~~~~liVIDSis  125 (235)
T cd01123          96 SDHQLQLLEELEAILIESSRIKLVIVDSVT  125 (235)
T ss_pred             HHHHHHHHHHHHHHHhhcCCeeEEEEeCcH
Confidence            22   233444444433  45699999985

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 .

>smart00763 AAA_PrkA PrkA AAA domain

Probab=97.67  E-value=6.1e-05  Score=68.64  Aligned_cols=46  Identities=20%  Similarity=0.323  Sum_probs=40.8

Q ss_pred             ccccchhHHHHHHHHHhc------CCceEEEEEcCCCCcHHHHHHHHHhhcc
Q 043737           63 TVVGLQSTFDRVWRCLME------EQMGIVGLYGMGEVGKTTLLTQINKKFL  108 (371)
Q Consensus        63 ~~vGR~~~~~~l~~~L~~------~~~~~v~I~G~~GiGKTtLa~~~~~~~~  108 (371)
                      .++|-++.++++++++..      ...+++.|+|++|+||||||..+++.+.
T Consensus        52 ~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l~  103 (361)
T smart00763       52 DFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGLE  103 (361)
T ss_pred             hccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHHh
Confidence            689999999999999865      2457899999999999999999999983

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

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=97.67  E-value=0.00037  Score=63.97  Aligned_cols=141  Identities=13%  Similarity=0.127  Sum_probs=80.8

Q ss_pred             ccccchhHHHHHHHHHhc-CCce-EEEEEcCCCCcHHHHHHHHHhhccCCCC------------------CCCeEEEEEe
Q 043737           63 TVVGLQSTFDRVWRCLME-EQMG-IVGLYGMGEVGKTTLLTQINKKFLHTPN------------------DFDFVIWVVA  122 (371)
Q Consensus        63 ~~vGR~~~~~~l~~~L~~-~~~~-~v~I~G~~GiGKTtLa~~~~~~~~~~~~------------------~f~~~~wv~~  122 (371)
                      .++|-+....++..+..+ ++.+ .+.++|++|+||||+|..+++.+.....                  .++.+..++.
T Consensus         2 ~~~~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~lel~~   81 (325)
T COG0470           2 ELVPWQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLELNP   81 (325)
T ss_pred             CcccchhHHHHHHHHHHhcCCCCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceEEecc
Confidence            356777788888888774 3344 5999999999999999999998731110                  1234444444


Q ss_pred             CCcCC---HHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc--ccccccccCCCCCCCcEE
Q 043737          123 SKDLQ---LEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD--LSQVGLPVPCRTSASNKT  197 (371)
Q Consensus       123 ~~~~~---~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~~~i  197 (371)
                      +....   ..+..+.+.........                  .++.-++++|+++....  ...+...+. .....+.+
T Consensus        82 s~~~~~~i~~~~vr~~~~~~~~~~~------------------~~~~kviiidead~mt~~A~nallk~lE-ep~~~~~~  142 (325)
T COG0470          82 SDLRKIDIIVEQVRELAEFLSESPL------------------EGGYKVVIIDEADKLTEDAANALLKTLE-EPPKNTRF  142 (325)
T ss_pred             cccCCCcchHHHHHHHHHHhccCCC------------------CCCceEEEeCcHHHHhHHHHHHHHHHhc-cCCCCeEE
Confidence            43333   23344444444332211                  24556999999986533  233333333 44456666


Q ss_pred             EEecCc-hHHHh-hccCCCceeecCCC
Q 043737          198 VFTARE-LEVCG-QMEAHKSFKVERLG  222 (371)
Q Consensus       198 liTsR~-~~~~~-~~~~~~~~~l~~L~  222 (371)
                      +++|.. ..+.. ..+....+.+.+.+
T Consensus       143 il~~n~~~~il~tI~SRc~~i~f~~~~  169 (325)
T COG0470         143 ILITNDPSKILPTIRSRCQRIRFKPPS  169 (325)
T ss_pred             EEEcCChhhccchhhhcceeeecCCch
Confidence            666653 33322 22334566776633

>TIGR02012 tigrfam_recA protein RecA

Probab=97.66  E-value=0.00015  Score=65.58  Aligned_cols=86  Identities=15%  Similarity=0.128  Sum_probs=55.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCC---CCcCCHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNES---WNSRSLQEKSQDI  158 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~---~~~~~~~~~~~~l  158 (371)
                      ..+++.|+|++|+||||||.+++....   ..-..++|++.....+..     .+..++.....   ......++....+
T Consensus        54 ~G~iteI~G~~GsGKTtLaL~~~~~~~---~~g~~v~yId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~~~  125 (321)
T TIGR02012        54 RGRIIEIYGPESSGKTTLALHAIAEAQ---KAGGTAAFIDAEHALDPV-----YARKLGVDIDNLLVSQPDTGEQALEIA  125 (321)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH---HcCCcEEEEcccchhHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHH
Confidence            457999999999999999999888762   233567788776654432     34444432111   0223455555555


Q ss_pred             HHHhC-CCceEEEEeCCC
Q 043737          159 VKNMS-NKKFVLLLDHIW  175 (371)
Q Consensus       159 ~~~l~-~~~~LlVlDdv~  175 (371)
                      ...++ +..-++|+|.+.
T Consensus       126 ~~li~~~~~~lIVIDSv~  143 (321)
T TIGR02012       126 ETLVRSGAVDIIVVDSVA  143 (321)
T ss_pred             HHHhhccCCcEEEEcchh
Confidence            55554 355699999985

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.

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

Probab=97.65  E-value=0.0014  Score=56.26  Aligned_cols=171  Identities=12%  Similarity=0.188  Sum_probs=92.4

Q ss_pred             CccccchhHHHH---HHHHHhcC------CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHH
Q 043737           62 PTVVGLQSTFDR---VWRCLMEE------QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQ  132 (371)
Q Consensus        62 ~~~vGR~~~~~~---l~~~L~~~------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~  132 (371)
                      +..||.++....   |+..|.+.      .++.|..+|++|.|||.+|+.+++..   +-.     ++.+..    .++ 
T Consensus       121 ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~---kvp-----~l~vka----t~l-  187 (368)
T COG1223         121 DDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEA---KVP-----LLLVKA----TEL-  187 (368)
T ss_pred             hhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhccc---CCc-----eEEech----HHH-
Confidence            456887765433   55666542      46799999999999999999999887   222     222221    111 


Q ss_pred             HHHHHHhccCCCCCCcCCHHHHHHHHHHHh-CCCceEEEEeCCCCcc----------c----ccccccccC-CCCCCCcE
Q 043737          133 GSIAKKINLFNESWNSRSLQEKSQDIVKNM-SNKKFVLLLDHIWELV----------D----LSQVGLPVP-CRTSASNK  196 (371)
Q Consensus       133 ~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~~----------~----~~~~~~~l~-~~~~~~~~  196 (371)
                        |....         .+-...+..+.+.. +.-+|++.+|+++-..          +    .+.+...+. ...+.|..
T Consensus       188 --iGehV---------Gdgar~Ihely~rA~~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~eneGVv  256 (368)
T COG1223         188 --IGEHV---------GDGARRIHELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEGVV  256 (368)
T ss_pred             --HHHHh---------hhHHHHHHHHHHHHHhcCCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccCCceE
Confidence              11111         11112222333322 3478999999986321          1    111111111 12344544


Q ss_pred             EEEecCchHHH-hhc--cCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCc
Q 043737          197 TVFTARELEVC-GQM--EAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLP  260 (371)
Q Consensus       197 iliTsR~~~~~-~~~--~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~P  260 (371)
                      .|-.|-...+. ...  .-.+.|+..--+.+|-.++++..+..-....+..    .+.++++++|+.
T Consensus       257 tIaaTN~p~~LD~aiRsRFEeEIEF~LP~~eEr~~ile~y~k~~Plpv~~~----~~~~~~~t~g~S  319 (368)
T COG1223         257 TIAATNRPELLDPAIRSRFEEEIEFKLPNDEERLEILEYYAKKFPLPVDAD----LRYLAAKTKGMS  319 (368)
T ss_pred             EEeecCChhhcCHHHHhhhhheeeeeCCChHHHHHHHHHHHHhCCCccccC----HHHHHHHhCCCC
Confidence            44444433332 111  1224567777788888888888875544333333    566777777753

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

Probab=97.64  E-value=0.00027  Score=68.62  Aligned_cols=161  Identities=17%  Similarity=0.136  Sum_probs=89.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcC--CHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDL--QLEQIQGSIAKKINLFNESWNSRSLQEKSQDIV  159 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~--~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~  159 (371)
                      ....|.|.|+.|+|||+||+++++...  ++..-.+.+++++.-.  ..+.+.+.+-..                   +.
T Consensus       430 ~~~~Ill~G~~GsGKT~L~kal~~~~~--k~~~~hv~~v~Cs~l~~~~~e~iQk~l~~v-------------------fs  488 (952)
T KOG0735|consen  430 RHGNILLNGPKGSGKTNLVKALFDYYS--KDLIAHVEIVSCSTLDGSSLEKIQKFLNNV-------------------FS  488 (952)
T ss_pred             ccccEEEeCCCCCCHhHHHHHHHHHhc--cccceEEEEEechhccchhHHHHHHHHHHH-------------------HH
Confidence            346889999999999999999999984  4555566666665422  233333222222                   22


Q ss_pred             HHhCCCceEEEEeCCCCccc-------------------ccccccccCCCCCCCcEEEEecCchHH-----HhhccCCCc
Q 043737          160 KNMSNKKFVLLLDHIWELVD-------------------LSQVGLPVPCRTSASNKTVFTARELEV-----CGQMEAHKS  215 (371)
Q Consensus       160 ~~l~~~~~LlVlDdv~~~~~-------------------~~~~~~~l~~~~~~~~~iliTsR~~~~-----~~~~~~~~~  215 (371)
                      +.+.-.+-++||||++....                   +.++...+. ..+....+|.|.....-     ....-...+
T Consensus       489 e~~~~~PSiIvLDdld~l~~~s~~e~~q~~~~~~rla~flnqvi~~y~-~~~~~ia~Iat~qe~qtl~~~L~s~~~Fq~~  567 (952)
T KOG0735|consen  489 EALWYAPSIIVLDDLDCLASASSNENGQDGVVSERLAAFLNQVIKIYL-KRNRKIAVIATGQELQTLNPLLVSPLLFQIV  567 (952)
T ss_pred             HHHhhCCcEEEEcchhhhhccCcccCCcchHHHHHHHHHHHHHHHHHH-ccCcEEEEEEechhhhhcChhhcCccceEEE
Confidence            33445677999999974311                   111111111 12222234445444221     111112235


Q ss_pred             eeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCC-cHHHHHHH
Q 043737          216 FKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGL-PLALITVG  267 (371)
Q Consensus       216 ~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~-Plal~~~a  267 (371)
                      ..++++...+-.++++..........   .......+..+|+|. |.-+.++.
T Consensus       568 ~~L~ap~~~~R~~IL~~~~s~~~~~~---~~~dLd~ls~~TEGy~~~DL~ifV  617 (952)
T KOG0735|consen  568 IALPAPAVTRRKEILTTIFSKNLSDI---TMDDLDFLSVKTEGYLATDLVIFV  617 (952)
T ss_pred             EecCCcchhHHHHHHHHHHHhhhhhh---hhHHHHHHHHhcCCccchhHHHHH
Confidence            68889998888888877664332111   122345588888885 66565554

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=97.63  E-value=0.00028  Score=68.98  Aligned_cols=46  Identities=20%  Similarity=0.225  Sum_probs=39.2

Q ss_pred             CccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..++|.+..++.+...+.......|.|+|++|+|||++|+.+.+..
T Consensus        65 ~~iiGqs~~i~~l~~al~~~~~~~vLi~Ge~GtGKt~lAr~i~~~~  110 (531)
T TIGR02902        65 DEIIGQEEGIKALKAALCGPNPQHVIIYGPPGVGKTAAARLVLEEA  110 (531)
T ss_pred             HHeeCcHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999988766556678999999999999999987654

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.

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

Probab=97.63  E-value=0.00015  Score=65.54  Aligned_cols=86  Identities=17%  Similarity=0.137  Sum_probs=55.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCC---CcCCHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESW---NSRSLQEKSQDI  158 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~---~~~~~~~~~~~l  158 (371)
                      ..+++-|+|++|+||||||.+++...   ...-..++|++.....++.     .+..++......   ...+.++....+
T Consensus        54 ~G~iteI~Gp~GsGKTtLal~~~~~~---~~~g~~~vyId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~i~  125 (325)
T cd00983          54 KGRIIEIYGPESSGKTTLALHAIAEA---QKLGGTVAFIDAEHALDPV-----YAKKLGVDLDNLLISQPDTGEQALEIA  125 (325)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH---HHcCCCEEEECccccHHHH-----HHHHcCCCHHHheecCCCCHHHHHHHH
Confidence            45799999999999999999988776   2233567888876655432     333443321110   223455555555


Q ss_pred             HHHhCC-CceEEEEeCCC
Q 043737          159 VKNMSN-KKFVLLLDHIW  175 (371)
Q Consensus       159 ~~~l~~-~~~LlVlDdv~  175 (371)
                      ...++. ..-++|+|.+.
T Consensus       126 ~~li~s~~~~lIVIDSva  143 (325)
T cd00983         126 DSLVRSGAVDLIVVDSVA  143 (325)
T ss_pred             HHHHhccCCCEEEEcchH
Confidence            555543 45699999984

RecA couples ATP hydrolysis to DNA strand exchange.

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

Probab=97.62  E-value=0.00069  Score=58.72  Aligned_cols=93  Identities=14%  Similarity=0.110  Sum_probs=54.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCC---CCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCC-------CCcCCH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTP---NDFDFVIWVVASKDLQLEQIQGSIAKKINLFNES-------WNSRSL  151 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~---~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~-------~~~~~~  151 (371)
                      ...++.|+|++|+|||+|+.+++.......   ..-..++|++.....+...+. .+..........       ....+.
T Consensus        18 ~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~~~~~~rl~-~~~~~~~~~~~~~~~~i~~~~~~~~   96 (226)
T cd01393          18 TGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEGAFRPERLV-QLAVRFGLDPEEVLDNIYVARPYNG   96 (226)
T ss_pred             CCcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCCCCCHHHHH-HHHHHhccchhhhhccEEEEeCCCH
Confidence            356999999999999999999987752110   012578899887655554443 233322211000       012344


Q ss_pred             HHHHHHHHHHhC----CCceEEEEeCCC
Q 043737          152 QEKSQDIVKNMS----NKKFVLLLDHIW  175 (371)
Q Consensus       152 ~~~~~~l~~~l~----~~~~LlVlDdv~  175 (371)
                      ++....+.....    .+.-++|+|.+.
T Consensus        97 ~~~~~~l~~~~~~~~~~~~~lvVIDsis  124 (226)
T cd01393          97 EQQLEIVEELERIMSSGRVDLVVVDSVA  124 (226)
T ss_pred             HHHHHHHHHHHHHhhcCCeeEEEEcCcc
Confidence            555555444432    344599999985

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.

>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=97.62  E-value=0.00011  Score=61.96  Aligned_cols=128  Identities=16%  Similarity=0.209  Sum_probs=62.1

Q ss_pred             cchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcC---------C----HHHHH
Q 043737           66 GLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDL---------Q----LEQIQ  132 (371)
Q Consensus        66 GR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~---------~----~~~~~  132 (371)
                      .+..+-...+++|.  ...++.+.|++|+|||.||...+-+. -....++.++++.-.-..         +    ....+
T Consensus         4 p~~~~Q~~~~~al~--~~~~v~~~G~AGTGKT~LA~a~Al~~-v~~g~~~kiii~Rp~v~~~~~lGflpG~~~eK~~p~~   80 (205)
T PF02562_consen    4 PKNEEQKFALDALL--NNDLVIVNGPAGTGKTFLALAAALEL-VKEGEYDKIIITRPPVEAGEDLGFLPGDLEEKMEPYL   80 (205)
T ss_dssp             --SHHHHHHHHHHH--H-SEEEEE--TTSSTTHHHHHHHHHH-HHTTS-SEEEEEE-S--TT----SS---------TTT
T ss_pred             CCCHHHHHHHHHHH--hCCeEEEECCCCCcHHHHHHHHHHHH-HHhCCCcEEEEEecCCCCccccccCCCCHHHHHHHHH
Confidence            34455566677776  45599999999999999999988765 234788888887532110         0    11111


Q ss_pred             HHHHHHhccCCCCCCcCCHHHHHHHH------HHHhCCC---ceEEEEeCCCCcc--cccccccccCCCCCCCcEEEEec
Q 043737          133 GSIAKKINLFNESWNSRSLQEKSQDI------VKNMSNK---KFVLLLDHIWELV--DLSQVGLPVPCRTSASNKTVFTA  201 (371)
Q Consensus       133 ~~l~~~l~~~~~~~~~~~~~~~~~~l------~~~l~~~---~~LlVlDdv~~~~--~~~~~~~~l~~~~~~~~~iliTs  201 (371)
                      .-+...+....   .....+.....=      ...++++   ..++|+|++++..  ++..+   +. +.+.+|+++++.
T Consensus        81 ~p~~d~l~~~~---~~~~~~~~~~~~~Ie~~~~~~iRGrt~~~~~iIvDEaQN~t~~~~k~i---lT-R~g~~skii~~G  153 (205)
T PF02562_consen   81 RPIYDALEELF---GKEKLEELIQNGKIEIEPLAFIRGRTFDNAFIIVDEAQNLTPEELKMI---LT-RIGEGSKIIITG  153 (205)
T ss_dssp             HHHHHHHTTTS----TTCHHHHHHTTSEEEEEGGGGTT--B-SEEEEE-SGGG--HHHHHHH---HT-TB-TT-EEEEEE
T ss_pred             HHHHHHHHHHh---ChHhHHHHhhcCeEEEEehhhhcCccccceEEEEecccCCCHHHHHHH---Hc-ccCCCcEEEEec
Confidence            22222221111   111111111100      0123443   5699999997653  34433   33 566899999987


Q ss_pred             Cc
Q 043737          202 RE  203 (371)
Q Consensus       202 R~  203 (371)
                      -.
T Consensus       154 D~  155 (205)
T PF02562_consen  154 DP  155 (205)
T ss_dssp             --
T ss_pred             Cc
Confidence            54

; GO: 0005524 ATP binding; PDB: 3B85_A.

>PRK09183 transposase/IS protein; Provisional

Probab=97.61  E-value=5e-05  Score=67.12  Aligned_cols=26  Identities=27%  Similarity=0.267  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....+.|+|++|+|||+||..++...
T Consensus       101 ~~~~v~l~Gp~GtGKThLa~al~~~a  126 (259)
T PRK09183        101 RNENIVLLGPSGVGKTHLAIALGYEA  126 (259)
T ss_pred             cCCeEEEEeCCCCCHHHHHHHHHHHH
Confidence            34578899999999999999998775

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

Probab=97.59  E-value=0.00017  Score=59.85  Aligned_cols=74  Identities=22%  Similarity=0.264  Sum_probs=42.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHH
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVK  160 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~  160 (371)
                      +....+.++|++|+|||.||..+++...  . .-..+.|++      ..+++..+-..-       ........    .+
T Consensus        45 ~~~~~l~l~G~~G~GKThLa~ai~~~~~--~-~g~~v~f~~------~~~L~~~l~~~~-------~~~~~~~~----~~  104 (178)
T PF01695_consen   45 ENGENLILYGPPGTGKTHLAVAIANEAI--R-KGYSVLFIT------ASDLLDELKQSR-------SDGSYEEL----LK  104 (178)
T ss_dssp             SC--EEEEEESTTSSHHHHHHHHHHHHH--H-TT--EEEEE------HHHHHHHHHCCH-------CCTTHCHH----HH
T ss_pred             ccCeEEEEEhhHhHHHHHHHHHHHHHhc--c-CCcceeEee------cCceeccccccc-------cccchhhh----cC
Confidence            3456899999999999999999998873  2 223456664      345555543221       11222222    22


Q ss_pred             HhCCCceEEEEeCCC
Q 043737          161 NMSNKKFVLLLDHIW  175 (371)
Q Consensus       161 ~l~~~~~LlVlDdv~  175 (371)
                      .+.+- =||||||+.
T Consensus       105 ~l~~~-dlLilDDlG  118 (178)
T PF01695_consen  105 RLKRV-DLLILDDLG  118 (178)
T ss_dssp             HHHTS-SCEEEETCT
T ss_pred             ccccc-cEecccccc
Confidence            33332 388999995

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.

>PRK09354 recA recombinase A; Provisional

Probab=97.59  E-value=0.00021  Score=65.14  Aligned_cols=86  Identities=17%  Similarity=0.130  Sum_probs=56.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCC---CCcCCHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNES---WNSRSLQEKSQDI  158 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~---~~~~~~~~~~~~l  158 (371)
                      ..+++-|+|++|+|||||+.+++...   ...-..++|++....++..     .+..++.....   ....+.++....+
T Consensus        59 ~G~IteI~G~~GsGKTtLal~~~~~~---~~~G~~~~yId~E~s~~~~-----~a~~lGvdld~lli~qp~~~Eq~l~i~  130 (349)
T PRK09354         59 RGRIVEIYGPESSGKTTLALHAIAEA---QKAGGTAAFIDAEHALDPV-----YAKKLGVDIDNLLVSQPDTGEQALEIA  130 (349)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH---HHcCCcEEEECCccchHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHH
Confidence            45799999999999999999998776   2334578899887765542     34444432111   0223455555555


Q ss_pred             HHHhCC-CceEEEEeCCC
Q 043737          159 VKNMSN-KKFVLLLDHIW  175 (371)
Q Consensus       159 ~~~l~~-~~~LlVlDdv~  175 (371)
                      ...++. ..-++|+|.+.
T Consensus       131 ~~li~s~~~~lIVIDSva  148 (349)
T PRK09354        131 DTLVRSGAVDLIVVDSVA  148 (349)
T ss_pred             HHHhhcCCCCEEEEeChh
Confidence            555543 45699999985

>cd01394 radB RadB

Probab=97.58  E-value=0.00071  Score=58.33  Aligned_cols=41  Identities=17%  Similarity=0.176  Sum_probs=32.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKD  125 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~  125 (371)
                      ...++.|+|++|+|||+|+.+++....   ..-..++|++....
T Consensus        18 ~g~i~~i~G~~GsGKT~l~~~~a~~~~---~~g~~v~yi~~e~~   58 (218)
T cd01394          18 RGTVTQVYGPPGTGKTNIAIQLAVETA---GQGKKVAYIDTEGL   58 (218)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH---hcCCeEEEEECCCC
Confidence            457899999999999999999998872   23346788876543

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

>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=97.57  E-value=6.3e-05  Score=58.26  Aligned_cols=23  Identities=22%  Similarity=0.439  Sum_probs=21.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +|+|.|++|+||||+|+.+++.+
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            58999999999999999999986

...

>PTZ00494 tuzin-like protein; Provisional

Probab=97.55  E-value=0.016  Score=54.17  Aligned_cols=198  Identities=13%  Similarity=0.075  Sum_probs=112.2

Q ss_pred             hchHHHHHHHHHHHHHhhhccCCCCcccCCCCCCccccCCCCCccccchhHHHHHHHHHhc---CCceEEEEEcCCCCcH
Q 043737           20 GYKIGRKVFKTLQQVQGLTNEGDFKEVPQPVPENLVDERPLPPTVVGLQSTFDRVWRCLME---EQMGIVGLYGMGEVGK   96 (371)
Q Consensus        20 r~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vGR~~~~~~l~~~L~~---~~~~~v~I~G~~GiGK   96 (371)
                      .|+-.++--++...++.+.+.-+..      +......+..+..+|.|+.+-..+.+.|.+   ..++++++.|.-|.||
T Consensus       335 nYr~qQRs~Ql~~Av~TLsk~~~~~------~~~~~~a~a~~~~~V~R~~eE~~vRqvL~qld~aHPRIvV~TG~~GcGK  408 (664)
T PTZ00494        335 AYRRQQRGHQLRTAIETLSKAARPR------KEEGMLAAAAEAFEVRREDEEALVRSVLTQMAPSHPRIVALAGGSGGGR  408 (664)
T ss_pred             HHHHHHHHHHHHHHHHHhhcccCCC------cccccccccccccccchhhHHHHHHHHHhhccCCCCcEEEEecCCCCCc
Confidence            3444555556666666666653211      111222234457899999998888887765   4689999999999999


Q ss_pred             HHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHH---HHHhCCCceEEEEeC
Q 043737           97 TTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDI---VKNMSNKKFVLLLDH  173 (371)
Q Consensus        97 TtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l---~~~l~~~~~LlVlDd  173 (371)
                      |+|.+...... .     -..+++++...   ++-++.+.+.++.+.-+.-.+-.+-..+..   .....++.-+||+-=
T Consensus       409 SslcRsAvrkE-~-----~paV~VDVRg~---EDtLrsVVKALgV~nve~CGDlLdFI~ea~~~A~~~~~g~~P~lVlkL  479 (664)
T PTZ00494        409 CVPCRRAVRVE-G-----VALVHVDVGGT---EDTLRSVVRALGVSNVEVCGDLLGFVEEAMRGATVKASDGVPFLVMRL  479 (664)
T ss_pred             hHHHHHHHHHc-C-----CCeEEEEecCC---cchHHHHHHHhCCCChhhhccHHHHHHHHHHHHHHhcCCCCCEEEEEe
Confidence            99999988775 1     23567777654   455677788887654321111122222222   122345555666532


Q ss_pred             CCCccccccc---ccccCCCCCCCcEEEEecCchHHHh---hccCCCceeecCCChHHHHHHHHHHh
Q 043737          174 IWELVDLSQV---GLPVPCRTSASNKTVFTARELEVCG---QMEAHKSFKVERLGYEDAWKLFEEKV  234 (371)
Q Consensus       174 v~~~~~~~~~---~~~l~~~~~~~~~iliTsR~~~~~~---~~~~~~~~~l~~L~~~ea~~ll~~~~  234 (371)
                      = +..++..+   ...+. ....-|+|++----+.+..   .+..-..|.+++++.++|.++-+..+
T Consensus       480 R-EGssL~RVYnE~vaLa-cDrRlCHvv~EVplESLT~~n~~LPRLDFy~VPnFSr~QAf~YtqH~l  544 (664)
T PTZ00494        480 R-EGSDLGRVYGEVVSLV-SDCQACHIVLAVPMKALTPLNVSSRRLDFYCIPPFSRRQAFAYAEHTL  544 (664)
T ss_pred             c-cCCcHHHHHHHHHHHH-ccchhheeeeechHhhhchhhccCccceeEecCCcCHHHHHHHHhccc
Confidence            2 11221111   01111 2334456665332222211   11223467899999999999988765

>PRK08939 primosomal protein DnaI; Reviewed

Probab=97.53  E-value=0.0005  Score=62.19  Aligned_cols=116  Identities=20%  Similarity=0.183  Sum_probs=64.6

Q ss_pred             cchhHHHHHHHHHhc----CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhcc
Q 043737           66 GLQSTFDRVWRCLME----EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINL  141 (371)
Q Consensus        66 GR~~~~~~l~~~L~~----~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~  141 (371)
                      +|...+....+++.+    ...+-+.|+|+.|+|||.||..+++.+.  ... ..+.++++      ..++..+......
T Consensus       135 ~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~Aia~~l~--~~g-~~v~~~~~------~~l~~~lk~~~~~  205 (306)
T PRK08939        135 DRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAAIANELA--KKG-VSSTLLHF------PEFIRELKNSISD  205 (306)
T ss_pred             HHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHHHHHHHHHHHH--HcC-CCEEEEEH------HHHHHHHHHHHhc
Confidence            455555555555543    1346899999999999999999999983  222 23455543      3555555554421


Q ss_pred             CCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCC--Ccccccc--ccc-ccCCCCCCCcEEEEecC
Q 043737          142 FNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIW--ELVDLSQ--VGL-PVPCRTSASNKTVFTAR  202 (371)
Q Consensus       142 ~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~--~~~~~~~--~~~-~l~~~~~~~~~iliTsR  202 (371)
                             .+..    ...+.+.+ .=||||||+.  ....|..  +.. .+......+..++|||-
T Consensus       206 -------~~~~----~~l~~l~~-~dlLiIDDiG~e~~s~~~~~~ll~~Il~~R~~~~~~ti~TSN  259 (306)
T PRK08939        206 -------GSVK----EKIDAVKE-APVLMLDDIGAEQMSSWVRDEVLGVILQYRMQEELPTFFTSN  259 (306)
T ss_pred             -------CcHH----HHHHHhcC-CCEEEEecCCCccccHHHHHHHHHHHHHHHHHCCCeEEEECC
Confidence                   1122    22233333 3499999995  2333432  211 22211124556777775

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

Probab=97.52  E-value=0.00052  Score=68.47  Aligned_cols=155  Identities=16%  Similarity=0.223  Sum_probs=90.3

Q ss_pred             CccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCC--CCC--CCeEEEEEeCCcCCHHHHHHHHHH
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHT--PND--FDFVIWVVASKDLQLEQIQGSIAK  137 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~--~~~--f~~~~wv~~~~~~~~~~~~~~l~~  137 (371)
                      +..+||++|+.++++.|.......-.++|.+|+|||+++.-++.+.-..  ...  ...++-++++          .+. 
T Consensus       170 DPvIGRd~EI~r~iqIL~RR~KNNPvLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sLD~g----------~Lv-  238 (786)
T COG0542         170 DPVIGRDEEIRRTIQILSRRTKNNPVLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLDLG----------SLV-  238 (786)
T ss_pred             CCCcChHHHHHHHHHHHhccCCCCCeEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEecHH----------HHh-
Confidence            5579999999999999986544455678999999999999988887211  110  0111111111          000 


Q ss_pred             HhccCCCCCCcCCHHHHHHHHHHHhC-CCceEEEEeCCCCccc--------ccccccccCCCCCCC-cEEEEecCchHHH
Q 043737          138 KINLFNESWNSRSLQEKSQDIVKNMS-NKKFVLLLDHIWELVD--------LSQVGLPVPCRTSAS-NKTVFTARELEVC  207 (371)
Q Consensus       138 ~l~~~~~~~~~~~~~~~~~~l~~~l~-~~~~LlVlDdv~~~~~--------~~~~~~~l~~~~~~~-~~iliTsR~~~~~  207 (371)
                           ....-....++.++.+.+.++ ..+++|++|.++..--        .+.-...-| ....| .++|-.|.....-
T Consensus       239 -----AGakyRGeFEeRlk~vl~ev~~~~~vILFIDEiHtiVGAG~~~G~a~DAaNiLKP-aLARGeL~~IGATT~~EYR  312 (786)
T COG0542         239 -----AGAKYRGEFEERLKAVLKEVEKSKNVILFIDEIHTIVGAGATEGGAMDAANLLKP-ALARGELRCIGATTLDEYR  312 (786)
T ss_pred             -----ccccccCcHHHHHHHHHHHHhcCCCeEEEEechhhhcCCCcccccccchhhhhHH-HHhcCCeEEEEeccHHHHH
Confidence                 011133445556666665554 3589999999975411        222122222 22223 3445444333321


Q ss_pred             h-------hccCCCceeecCCChHHHHHHHHHH
Q 043737          208 G-------QMEAHKSFKVERLGYEDAWKLFEEK  233 (371)
Q Consensus       208 ~-------~~~~~~~~~l~~L~~~ea~~ll~~~  233 (371)
                      .       .-...+.+.+..-+.+++...++-.
T Consensus       313 k~iEKD~AL~RRFQ~V~V~EPs~e~ti~ILrGl  345 (786)
T COG0542         313 KYIEKDAALERRFQKVLVDEPSVEDTIAILRGL  345 (786)
T ss_pred             HHhhhchHHHhcCceeeCCCCCHHHHHHHHHHH
Confidence            1       1134578899999999999988654

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

Probab=97.52  E-value=0.00033  Score=68.26  Aligned_cols=73  Identities=23%  Similarity=0.279  Sum_probs=56.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKN  161 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~  161 (371)
                      ..+++.++|++|.||||||.-++++.     .| .++=++++...+...+-..|...+....                 .
T Consensus       325 ~kKilLL~GppGlGKTTLAHViAkqa-----GY-sVvEINASDeRt~~~v~~kI~~avq~~s-----------------~  381 (877)
T KOG1969|consen  325 PKKILLLCGPPGLGKTTLAHVIAKQA-----GY-SVVEINASDERTAPMVKEKIENAVQNHS-----------------V  381 (877)
T ss_pred             ccceEEeecCCCCChhHHHHHHHHhc-----Cc-eEEEecccccccHHHHHHHHHHHHhhcc-----------------c
Confidence            35799999999999999999999886     12 4778888888888888777777664321                 1


Q ss_pred             h--CCCceEEEEeCCCCc
Q 043737          162 M--SNKKFVLLLDHIWEL  177 (371)
Q Consensus       162 l--~~~~~LlVlDdv~~~  177 (371)
                      +  .+++.-||+|+++-.
T Consensus       382 l~adsrP~CLViDEIDGa  399 (877)
T KOG1969|consen  382 LDADSRPVCLVIDEIDGA  399 (877)
T ss_pred             cccCCCcceEEEecccCC
Confidence            2  267889999999754

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

Probab=97.51  E-value=0.0002  Score=65.13  Aligned_cols=26  Identities=27%  Similarity=0.296  Sum_probs=24.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .++.++|||++|+|||.+|+.++..+
T Consensus       147 ~PlgllL~GPPGcGKTllAraiA~el  172 (413)
T PLN00020        147 VPLILGIWGGKGQGKSFQCELVFKKM  172 (413)
T ss_pred             CCeEEEeeCCCCCCHHHHHHHHHHHc
Confidence            46789999999999999999999998

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.51  E-value=0.00056  Score=70.61  Aligned_cols=47  Identities=19%  Similarity=0.272  Sum_probs=38.3

Q ss_pred             CCccccchhHHHHHHHHHhcC-------C--ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           61 PPTVVGLQSTFDRVWRCLMEE-------Q--MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~~-------~--~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...++|.+..++.+...+...       +  ...+.++||.|+|||+||+.+++.+
T Consensus       508 ~~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l  563 (821)
T CHL00095        508 HKRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYF  563 (821)
T ss_pred             cCcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHh
Confidence            466899999999998887531       1  2356789999999999999999887

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

Probab=97.50  E-value=0.00022  Score=71.11  Aligned_cols=105  Identities=18%  Similarity=0.234  Sum_probs=65.5

Q ss_pred             CCccccchhHHHHHHHHHhc------C---CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHH
Q 043737           61 PPTVVGLQSTFDRVWRCLME------E---QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQI  131 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~------~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~  131 (371)
                      ...++|-++.++.+.+++..      +   ........||.|+|||-||++++..+   .+.-+..+-++.+.      .
T Consensus       490 ~~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~L---fg~e~aliR~DMSE------y  560 (786)
T COG0542         490 KKRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEAL---FGDEQALIRIDMSE------Y  560 (786)
T ss_pred             hcceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHh---cCCCccceeechHH------H
Confidence            46689999999999999864      1   23466779999999999999999998   32223444444333      2


Q ss_pred             HH-HHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCce-EEEEeCCCCc
Q 043737          132 QG-SIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKF-VLLLDHIWEL  177 (371)
Q Consensus       132 ~~-~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~-LlVlDdv~~~  177 (371)
                      .. .-.+.|-..++..-..+.   .-.+-+..+.+|| ++.||+++..
T Consensus       561 ~EkHsVSrLIGaPPGYVGyee---GG~LTEaVRr~PySViLlDEIEKA  605 (786)
T COG0542         561 MEKHSVSRLIGAPPGYVGYEE---GGQLTEAVRRKPYSVILLDEIEKA  605 (786)
T ss_pred             HHHHHHHHHhCCCCCCceecc---ccchhHhhhcCCCeEEEechhhhc
Confidence            22 122233233322222222   2334445556776 9999999854

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

Probab=97.49  E-value=0.011  Score=58.47  Aligned_cols=92  Identities=16%  Similarity=0.240  Sum_probs=59.7

Q ss_pred             CccccchhHHHHHHHHHhc---------C---CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHH
Q 043737           62 PTVVGLQSTFDRVWRCLME---------E---QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLE  129 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~---------~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~  129 (371)
                      +++=|-++...+|.+-+.-         .   +..-|.++|++|+|||-||++++-.+        ..-|+++...    
T Consensus       672 dDVGGLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATEc--------sL~FlSVKGP----  739 (953)
T KOG0736|consen  672 DDVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATEC--------SLNFLSVKGP----  739 (953)
T ss_pred             hcccCHHHHHHHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhhc--------eeeEEeecCH----
Confidence            3455667777777766531         1   34578999999999999999999887        2455666543    


Q ss_pred             HHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhC-CCceEEEEeCCCCc
Q 043737          130 QIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMS-NKKFVLLLDHIWEL  177 (371)
Q Consensus       130 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~-~~~~LlVlDdv~~~  177 (371)
                      +++.....           .+ ++.++.+.++.+ ..+|+|.||+++..
T Consensus       740 ELLNMYVG-----------qS-E~NVR~VFerAR~A~PCVIFFDELDSl  776 (953)
T KOG0736|consen  740 ELLNMYVG-----------QS-EENVREVFERARSAAPCVIFFDELDSL  776 (953)
T ss_pred             HHHHHHhc-----------ch-HHHHHHHHHHhhccCCeEEEecccccc
Confidence            33333221           12 333444444443 58999999999854

>PRK06696 uridine kinase; Validated

Probab=97.46  E-value=0.00018  Score=62.23  Aligned_cols=42  Identities=14%  Similarity=0.237  Sum_probs=35.4

Q ss_pred             cchhHHHHHHHHHhc---CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           66 GLQSTFDRVWRCLME---EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        66 GR~~~~~~l~~~L~~---~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .|.+.+++|.+.+..   +...+|+|.|.+|+||||||+++++.+
T Consensus         2 ~~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~~l   46 (223)
T PRK06696          2 SRKQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAEEI   46 (223)
T ss_pred             cHHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHHHH
Confidence            366777888887753   467799999999999999999999987

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

Probab=97.46  E-value=0.0036  Score=54.40  Aligned_cols=211  Identities=12%  Similarity=0.102  Sum_probs=118.0

Q ss_pred             ccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCC---CCCCeEEEEEeCCc--------------
Q 043737           63 TVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTP---NDFDFVIWVVASKD--------------  125 (371)
Q Consensus        63 ~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~---~~f~~~~wv~~~~~--------------  125 (371)
                      .+.++++.-..+......++.+-+.++||+|.||-|.+..+.+++-...   -.-+..-|...+..              
T Consensus        14 ~l~~~~e~~~~Lksl~~~~d~PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~~tpS~kklEistvsS~yHlE   93 (351)
T KOG2035|consen   14 ELIYHEELANLLKSLSSTGDFPHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTFTTPSKKKLEISTVSSNYHLE   93 (351)
T ss_pred             hcccHHHHHHHHHHhcccCCCCeEEEECCCCCCchhhHHHHHHHHhCCCchheeeeeEEEecCCCceEEEEEecccceEE
Confidence            3667777777777766556789999999999999999988888872111   11122333332221              


Q ss_pred             -------CCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCce-EEEEeCCCCc--ccccccccccCCCCCCCc
Q 043737          126 -------LQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKF-VLLLDHIWEL--VDLSQVGLPVPCRTSASN  195 (371)
Q Consensus       126 -------~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~-LlVlDdv~~~--~~~~~~~~~l~~~~~~~~  195 (371)
                             ....-+.++++..+....+-              +....+++ ++|+-.++..  +....+..... .-...+
T Consensus        94 itPSDaG~~DRvViQellKevAQt~qi--------------e~~~qr~fKvvvi~ead~LT~dAQ~aLRRTME-kYs~~~  158 (351)
T KOG2035|consen   94 ITPSDAGNYDRVVIQELLKEVAQTQQI--------------ETQGQRPFKVVVINEADELTRDAQHALRRTME-KYSSNC  158 (351)
T ss_pred             eChhhcCcccHHHHHHHHHHHHhhcch--------------hhccccceEEEEEechHhhhHHHHHHHHHHHH-HHhcCc
Confidence                   01122333333333221100              00012344 6677666543  11111211111 223467


Q ss_pred             EEEEecCc--hHHHhhccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHHHHcCC
Q 043737          196 KTVFTARE--LEVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAMASK  273 (371)
Q Consensus       196 ~iliTsR~--~~~~~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~~l~~~  273 (371)
                      ++|+..-+  +-+.+.-+..-.+.++..+++|....+.+...+.+...+   .+++.+|+++++|+-.-.-++...++-+
T Consensus       159 RlIl~cns~SriIepIrSRCl~iRvpaps~eeI~~vl~~v~~kE~l~lp---~~~l~rIa~kS~~nLRrAllmlE~~~~~  235 (351)
T KOG2035|consen  159 RLILVCNSTSRIIEPIRSRCLFIRVPAPSDEEITSVLSKVLKKEGLQLP---KELLKRIAEKSNRNLRRALLMLEAVRVN  235 (351)
T ss_pred             eEEEEecCcccchhHHhhheeEEeCCCCCHHHHHHHHHHHHHHhcccCc---HHHHHHHHHHhcccHHHHHHHHHHHHhc
Confidence            77764332  122222233346789999999999999999877765554   5679999999999754333333333211


Q ss_pred             ----------CChhHHHHHHHHHhcccc
Q 043737          274 ----------KTPREWEHAIEVLRSSAY  291 (371)
Q Consensus       274 ----------~~~~~~~~~l~~l~~~~~  291 (371)
                                -..-+|+-.+.++.....
T Consensus       236 n~~~~a~~~~i~~~dWe~~i~e~a~~i~  263 (351)
T KOG2035|consen  236 NEPFTANSQVIPKPDWEIYIQEIARVIL  263 (351)
T ss_pred             cccccccCCCCCCccHHHHHHHHHHHHH
Confidence                      123479888877766543

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=97.45  E-value=0.0004  Score=56.08  Aligned_cols=117  Identities=18%  Similarity=0.151  Sum_probs=63.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCC---cCCHHHHHHHHHHHhccC--CC--CCCcCCHH----
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASK---DLQLEQIQGSIAKKINLF--NE--SWNSRSLQ----  152 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~---~~~~~~~~~~l~~~l~~~--~~--~~~~~~~~----  152 (371)
                      ..|-|++..|.||||+|...+-+..   .+-..+.++.+-+   ......++..+- .+...  ..  .+...+..    
T Consensus         3 G~i~vy~g~G~Gkt~~a~g~~~ra~---~~g~~v~~vQFlKg~~~~gE~~~l~~l~-~v~~~~~g~~~~~~~~~~~~~~~   78 (159)
T cd00561           3 GLIQVYTGNGKGKTTAALGLALRAL---GHGYRVGVVQFLKGGWKYGELKALERLP-NIEIHRMGRGFFWTTENDEEDIA   78 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHH---HCCCeEEEEEEeCCCCccCHHHHHHhCC-CcEEEECCCCCccCCCChHHHHH
Confidence            4788888889999999998887762   2233455544322   334444444431 11110  00  00111111    


Q ss_pred             ---HHHHHHHHHhCCCc-eEEEEeCCCCc-----ccccccccccCCCCCCCcEEEEecCchH
Q 043737          153 ---EKSQDIVKNMSNKK-FVLLLDHIWEL-----VDLSQVGLPVPCRTSASNKTVFTARELE  205 (371)
Q Consensus       153 ---~~~~~l~~~l~~~~-~LlVlDdv~~~-----~~~~~~~~~l~~~~~~~~~iliTsR~~~  205 (371)
                         ...+..++.+.... =|+|||++-..     .+.+.+...+. ....+..+|+|.|+.+
T Consensus        79 ~a~~~~~~a~~~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~-~rp~~~evIlTGr~~p  139 (159)
T cd00561          79 AAAEGWAFAKEAIASGEYDLVILDEINYALGYGLLDVEEVVDLLK-AKPEDLELVLTGRNAP  139 (159)
T ss_pred             HHHHHHHHHHHHHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHH-cCCCCCEEEEECCCCC
Confidence               12333444444444 49999998533     22333444444 4556779999999843

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.

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

Probab=97.44  E-value=0.00074  Score=59.60  Aligned_cols=57  Identities=21%  Similarity=0.215  Sum_probs=40.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccC---CCCCCCeEEEEEeCCcCCHHHHHHHHHHHh
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLH---TPNDFDFVIWVVASKDLQLEQIQGSIAKKI  139 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~---~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l  139 (371)
                      ...+.=|+|++|+|||+|+.+++-....   ....-..++|++....++...+.+ +++..
T Consensus        37 ~g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~~-i~~~~   96 (256)
T PF08423_consen   37 TGSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQQ-IAERF   96 (256)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHHH-HHHHT
T ss_pred             CCcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHHH-Hhhcc
Confidence            3458889999999999999988755411   122345799999888887777654 45544

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

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=97.40  E-value=0.0055  Score=61.49  Aligned_cols=150  Identities=13%  Similarity=0.096  Sum_probs=78.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHh
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNM  162 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l  162 (371)
                      .+-|.|+|++|+|||++|+.++...   ..+|   +.++.+      ++...    .       ...........+....
T Consensus       185 ~~gill~G~~G~GKt~~~~~~a~~~---~~~f---~~is~~------~~~~~----~-------~g~~~~~~~~~f~~a~  241 (644)
T PRK10733        185 PKGVLMVGPPGTGKTLLAKAIAGEA---KVPF---FTISGS------DFVEM----F-------VGVGASRVRDMFEQAK  241 (644)
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHHc---CCCE---EEEehH------HhHHh----h-------hcccHHHHHHHHHHHH
Confidence            3459999999999999999998887   3232   222211      11110    0       0111112222222233


Q ss_pred             CCCceEEEEeCCCCccc----------------ccccccccC-CCCCCCcEEEEecCchHH-Hhhc----cCCCceeecC
Q 043737          163 SNKKFVLLLDHIWELVD----------------LSQVGLPVP-CRTSASNKTVFTARELEV-CGQM----EAHKSFKVER  220 (371)
Q Consensus       163 ~~~~~LlVlDdv~~~~~----------------~~~~~~~l~-~~~~~~~~iliTsR~~~~-~~~~----~~~~~~~l~~  220 (371)
                      ...+++|+||+++....                +..+...+. ...+.+..+|.||..... ...+    .-...+.++.
T Consensus       242 ~~~P~IifIDEiD~l~~~r~~~~~g~~~~~~~~ln~lL~~mdg~~~~~~vivIaaTN~p~~lD~Al~RpgRfdr~i~v~~  321 (644)
T PRK10733        242 KAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGL  321 (644)
T ss_pred             hcCCcEEEehhHhhhhhccCCCCCCCchHHHHHHHHHHHhhhcccCCCCeeEEEecCChhhcCHHHhCCcccceEEEcCC
Confidence            45788999999975411                111111111 012334444445555432 1111    1235678888


Q ss_pred             CChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCC
Q 043737          221 LGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGL  259 (371)
Q Consensus       221 L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~  259 (371)
                      -+.++-.+++...+.......+.+    ...+++.+.|.
T Consensus       322 Pd~~~R~~Il~~~~~~~~l~~~~d----~~~la~~t~G~  356 (644)
T PRK10733        322 PDVRGREQILKVHMRRVPLAPDID----AAIIARGTPGF  356 (644)
T ss_pred             CCHHHHHHHHHHHhhcCCCCCcCC----HHHHHhhCCCC
Confidence            888888888888776544322222    34566666663

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

Probab=97.39  E-value=0.0012  Score=60.46  Aligned_cols=86  Identities=21%  Similarity=0.297  Sum_probs=55.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCC---CcCCHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESW---NSRSLQEKSQDI  158 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~---~~~~~~~~~~~l  158 (371)
                      ...++.|-|.+|+|||||..+++.++.   ... .++|++-...  ..+ .+--+.+++....+.   ...+.++....+
T Consensus        92 ~Gs~iLIgGdPGIGKSTLLLQva~~lA---~~~-~vLYVsGEES--~~Q-iklRA~RL~~~~~~l~l~aEt~~e~I~~~l  164 (456)
T COG1066          92 PGSVILIGGDPGIGKSTLLLQVAARLA---KRG-KVLYVSGEES--LQQ-IKLRADRLGLPTNNLYLLAETNLEDIIAEL  164 (456)
T ss_pred             cccEEEEccCCCCCHHHHHHHHHHHHH---hcC-cEEEEeCCcC--HHH-HHHHHHHhCCCccceEEehhcCHHHHHHHH
Confidence            346999999999999999999999983   222 6788765443  222 233455666543321   233334333333


Q ss_pred             HHHhCCCceEEEEeCCCCc
Q 043737          159 VKNMSNKKFVLLLDHIWEL  177 (371)
Q Consensus       159 ~~~l~~~~~LlVlDdv~~~  177 (371)
                      .+   .++-++|+|.++..
T Consensus       165 ~~---~~p~lvVIDSIQT~  180 (456)
T COG1066         165 EQ---EKPDLVVIDSIQTL  180 (456)
T ss_pred             Hh---cCCCEEEEecccee
Confidence            33   57889999999643

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=97.39  E-value=0.0013  Score=59.77  Aligned_cols=93  Identities=16%  Similarity=0.218  Sum_probs=56.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCC---CCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCC-------CcCCH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHT---PNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESW-------NSRSL  151 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~---~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~-------~~~~~  151 (371)
                      ...++-|+|++|+|||+|+.+++-.....   ...-..++|++....+++..+.+ ++..++......       ...+.
T Consensus        95 ~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~~-~a~~~g~d~~~~l~~i~~~~~~~~  173 (313)
T TIGR02238        95 SMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRA-IAERFGVDPDAVLDNILYARAYTS  173 (313)
T ss_pred             CCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHHH-HHHHcCCChHHhcCcEEEecCCCH
Confidence            45688899999999999999887543110   12234799999888777777654 455555432110       11233


Q ss_pred             HHHH---HHHHHHhC-CCceEEEEeCCC
Q 043737          152 QEKS---QDIVKNMS-NKKFVLLLDHIW  175 (371)
Q Consensus       152 ~~~~---~~l~~~l~-~~~~LlVlDdv~  175 (371)
                      ++..   ..+...+. .+.-|+|+|.+.
T Consensus       174 e~~~~~l~~l~~~i~~~~~~LvVIDSis  201 (313)
T TIGR02238       174 EHQMELLDYLAAKFSEEPFRLLIVDSIM  201 (313)
T ss_pred             HHHHHHHHHHHHHhhccCCCEEEEEcch
Confidence            3333   33333333 344589999874

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

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

Probab=97.38  E-value=0.0024  Score=62.14  Aligned_cols=173  Identities=15%  Similarity=0.116  Sum_probs=90.2

Q ss_pred             CccccchhH---HHHHHHHHhcC---------CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHH
Q 043737           62 PTVVGLQST---FDRVWRCLMEE---------QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLE  129 (371)
Q Consensus        62 ~~~vGR~~~---~~~l~~~L~~~---------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~  129 (371)
                      .+.-|.++.   +.++++.|.+.         -++-|.++||+|+|||.||++++...   .-.|     .+.+..    
T Consensus       150 ~DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA---~VPF-----f~iSGS----  217 (596)
T COG0465         150 ADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEA---GVPF-----FSISGS----  217 (596)
T ss_pred             hhhcCcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhccc---CCCc-----eeccch----
Confidence            456787654   45556666642         14578899999999999999999887   2222     222211    


Q ss_pred             HHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCcc----------------cccccccccCCCCCC
Q 043737          130 QIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELV----------------DLSQVGLPVPCRTSA  193 (371)
Q Consensus       130 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~----------------~~~~~~~~l~~~~~~  193 (371)
                      ++.    +.+       ...........+.+..++-++++++|.++...                .+.++..........
T Consensus       218 ~FV----emf-------VGvGAsRVRdLF~qAkk~aP~IIFIDEiDAvGr~Rg~g~GggnderEQTLNQlLvEmDGF~~~  286 (596)
T COG0465         218 DFV----EMF-------VGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGGN  286 (596)
T ss_pred             hhh----hhh-------cCCCcHHHHHHHHHhhccCCCeEEEehhhhcccccCCCCCCCchHHHHHHHHHHhhhccCCCC
Confidence            111    111       11111222333444445678999999987431                222222222211111


Q ss_pred             CcEEEE--ecCchHHHhh-c---cCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcH
Q 043737          194 SNKTVF--TARELEVCGQ-M---EAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPL  261 (371)
Q Consensus       194 ~~~ili--TsR~~~~~~~-~---~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl  261 (371)
                      ...|++  |.|..-+... +   .-...+.++.-+...-.+.++-++........-+    ...|++.+-|.--
T Consensus       287 ~gviviaaTNRpdVlD~ALlRpgRFDRqI~V~~PDi~gRe~IlkvH~~~~~l~~~Vd----l~~iAr~tpGfsG  356 (596)
T COG0465         287 EGVIVIAATNRPDVLDPALLRPGRFDRQILVELPDIKGREQILKVHAKNKPLAEDVD----LKKIARGTPGFSG  356 (596)
T ss_pred             CceEEEecCCCcccchHhhcCCCCcceeeecCCcchhhHHHHHHHHhhcCCCCCcCC----HHHHhhhCCCccc
Confidence            223443  5555333111 1   2234455665565666666776665544333333    3447777777543

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

Probab=97.37  E-value=0.00074  Score=68.38  Aligned_cols=47  Identities=21%  Similarity=0.280  Sum_probs=38.8

Q ss_pred             CCccccchhHHHHHHHHHhc--------C-CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           61 PPTVVGLQSTFDRVWRCLME--------E-QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~--------~-~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...++|-++.++.|...+..        + ....+.++|++|+|||.||+.++..+
T Consensus       457 ~~~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l  512 (758)
T PRK11034        457 KMLVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL  512 (758)
T ss_pred             cceEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHh
Confidence            35689999999999888762        1 13468899999999999999998887

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=97.37  E-value=0.0013  Score=57.41  Aligned_cols=89  Identities=15%  Similarity=0.115  Sum_probs=55.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCC----------------
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNES----------------  145 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~----------------  145 (371)
                      ...++.|.|++|+|||+||.+++....   ..-..++|++...  +..++.+.+. .++.....                
T Consensus        20 ~gs~~lI~G~pGsGKT~la~~~l~~~~---~~ge~~lyvs~ee--~~~~i~~~~~-~~g~~~~~~~~~g~l~~~d~~~~~   93 (237)
T TIGR03877        20 ERNVVLLSGGPGTGKSIFSQQFLWNGL---QMGEPGIYVALEE--HPVQVRRNMA-QFGWDVRKYEEEGKFAIVDAFTGG   93 (237)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHH---HcCCcEEEEEeeC--CHHHHHHHHH-HhCCCHHHHhhcCCEEEEeccccc
Confidence            457999999999999999999887651   2345688887765  4455555432 22221000                


Q ss_pred             ------------CCcCCHHHHHHHHHHHhCC-CceEEEEeCCCC
Q 043737          146 ------------WNSRSLQEKSQDIVKNMSN-KKFVLLLDHIWE  176 (371)
Q Consensus       146 ------------~~~~~~~~~~~~l~~~l~~-~~~LlVlDdv~~  176 (371)
                                  ....+.......+.+.+.. +.-++|+|.+..
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~vVIDSls~  137 (237)
T TIGR03877        94 IGEAAEREKYVVKDPTDVRELIDVLRQAIRDINAKRVVIDSVTT  137 (237)
T ss_pred             cccccccccccccCcccHHHHHHHHHHHHHHhCCCEEEEcChhH
Confidence                        0123455566666665543 344799999854

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.

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

Probab=97.36  E-value=0.0012  Score=56.19  Aligned_cols=46  Identities=20%  Similarity=0.323  Sum_probs=37.0

Q ss_pred             CccccchhHHHHHHHHHhc----CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           62 PTVVGLQSTFDRVWRCLME----EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~----~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..++|-+...+.|.+.-..    -....|.+||..|+|||+|++++....
T Consensus        60 ~~l~Gvd~qk~~L~~NT~~F~~G~pANnVLLwGaRGtGKSSLVKA~~~e~  109 (287)
T COG2607          60 ADLVGVDRQKEALVRNTEQFAEGLPANNVLLWGARGTGKSSLVKALLNEY  109 (287)
T ss_pred             HHHhCchHHHHHHHHHHHHHHcCCcccceEEecCCCCChHHHHHHHHHHH
Confidence            3478988887777665432    345689999999999999999999887

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.35  E-value=0.0025  Score=60.45  Aligned_cols=90  Identities=18%  Similarity=0.127  Sum_probs=53.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCc-CCHHHHHHHHHHHhccCCCCC-CcCCHHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKD-LQLEQIQGSIAKKINLFNESW-NSRSLQEKSQDIV  159 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~l~~~l~~~~~~~-~~~~~~~~~~~l~  159 (371)
                      .+.+|.++|+.|+||||++..++..+. . .. ..+..++++.. +...+.+..++..++.+.... ...++........
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L~-~-~g-~kV~lV~~D~~R~aa~eQL~~la~~~gvp~~~~~~~~d~~~i~~~al  170 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYFK-K-KG-LKVGLVAADTYRPAAYDQLKQLAEKIGVPFYGDPDNKDAVEIAKEGL  170 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHH-H-cC-CeEEEecCCCCCHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHH
Confidence            357899999999999999999998873 2 22 24555554432 233455666677766532211 1233444444444


Q ss_pred             HHhCCCceEEEEeCCC
Q 043737          160 KNMSNKKFVLLLDHIW  175 (371)
Q Consensus       160 ~~l~~~~~LlVlDdv~  175 (371)
                      +.+.+. -++|+|..-
T Consensus       171 ~~~~~~-DvVIIDTAG  185 (437)
T PRK00771        171 EKFKKA-DVIIVDTAG  185 (437)
T ss_pred             HHhhcC-CEEEEECCC
Confidence            444443 467777763

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

Probab=97.33  E-value=0.001  Score=55.00  Aligned_cols=89  Identities=15%  Similarity=0.092  Sum_probs=48.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcC-CHHHHHHHHHHHhccCCCC-CCcCCHHHHHH-HHHHH
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDL-QLEQIQGSIAKKINLFNES-WNSRSLQEKSQ-DIVKN  161 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~l~~~l~~~~~~-~~~~~~~~~~~-~l~~~  161 (371)
                      ++.+.|++|+||||++..++..+.   ..-..+..++..... ...+.+...+...+..... ....++..... .+...
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~~---~~g~~v~~i~~D~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYLK---KKGKKVLLVAADTYRPAAIEQLRVLGEQVGVPVFEEGEGKDPVSIAKRAIEHA   78 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH---HCCCcEEEEEcCCCChHHHHHHHHhcccCCeEEEecCCCCCHHHHHHHHHHHH
Confidence            678999999999999999998873   222345555554322 2334444444444432111 12234444432 33333


Q ss_pred             hCCCceEEEEeCCCC
Q 043737          162 MSNKKFVLLLDHIWE  176 (371)
Q Consensus       162 l~~~~~LlVlDdv~~  176 (371)
                      .....-++|+|....
T Consensus        79 ~~~~~d~viiDt~g~   93 (173)
T cd03115          79 REENFDVVIVDTAGR   93 (173)
T ss_pred             HhCCCCEEEEECccc
Confidence            344444666887643

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.

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=97.32  E-value=0.014  Score=52.53  Aligned_cols=167  Identities=13%  Similarity=0.025  Sum_probs=94.4

Q ss_pred             HHHHHHHHhcCC-ceEEEEEcCCCCcHHHHHHHHHhhccC-------CCCCCCeEEEEEe-CCcCCHHHHHHHHHHHhcc
Q 043737           71 FDRVWRCLMEEQ-MGIVGLYGMGEVGKTTLLTQINKKFLH-------TPNDFDFVIWVVA-SKDLQLEQIQGSIAKKINL  141 (371)
Q Consensus        71 ~~~l~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~-------~~~~f~~~~wv~~-~~~~~~~~~~~~l~~~l~~  141 (371)
                      ++.+.+.+.+++ ..+..++|+.|+||+++|..+++.+-.       ...+.+.+.++.. +.....+++. ++...+..
T Consensus         5 ~~~l~~~i~~~~l~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d~~g~~i~vd~Ir-~l~~~~~~   83 (299)
T PRK07132          5 IKFLDNSATQNKISHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDIFDKDLSKSEFL-SAINKLYF   83 (299)
T ss_pred             HHHHHHHHHhCCCCeEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEeccCCCcCCHHHHH-HHHHHhcc
Confidence            445556665544 467779999999999999999888611       1112223333321 1222233322 33333322


Q ss_pred             CCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc--ccccccccCCCCCCCcEEEE-ecCchHHHh-hccCCCcee
Q 043737          142 FNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD--LSQVGLPVPCRTSASNKTVF-TARELEVCG-QMEAHKSFK  217 (371)
Q Consensus       142 ~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~~~ili-TsR~~~~~~-~~~~~~~~~  217 (371)
                      ..-                 -.+.+-++|+|+++....  ...+...+. ....++.+|+ |+....+.. ..+....++
T Consensus        84 ~~~-----------------~~~~~KvvII~~~e~m~~~a~NaLLK~LE-EPp~~t~~il~~~~~~kll~TI~SRc~~~~  145 (299)
T PRK07132         84 SSF-----------------VQSQKKILIIKNIEKTSNSLLNALLKTIE-EPPKDTYFLLTTKNINKVLPTIVSRCQVFN  145 (299)
T ss_pred             CCc-----------------ccCCceEEEEecccccCHHHHHHHHHHhh-CCCCCeEEEEEeCChHhChHHHHhCeEEEE
Confidence            110                 013556999999976643  334444554 4445555555 544444443 245677899


Q ss_pred             ecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHH
Q 043737          218 VERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALIT  265 (371)
Q Consensus       218 l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~  265 (371)
                      +.++++++..+.+... +     .+   ++.+..++..++|.=.|+..
T Consensus       146 f~~l~~~~l~~~l~~~-~-----~~---~~~a~~~a~~~~~~~~a~~~  184 (299)
T PRK07132        146 VKEPDQQKILAKLLSK-N-----KE---KEYNWFYAYIFSNFEQAEKY  184 (299)
T ss_pred             CCCCCHHHHHHHHHHc-C-----CC---hhHHHHHHHHcCCHHHHHHH
Confidence            9999999999888764 1     11   12366666677763344444

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

Probab=97.31  E-value=0.00018  Score=60.92  Aligned_cols=32  Identities=28%  Similarity=0.406  Sum_probs=25.9

Q ss_pred             HHHhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           76 RCLMEEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        76 ~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+..+..+++.|.|++|+|||+++..+...+
T Consensus        11 ~~~l~~~~~~~~l~G~aGtGKT~~l~~~~~~~   42 (196)
T PF13604_consen   11 RAILTSGDRVSVLQGPAGTGKTTLLKALAEAL   42 (196)
T ss_dssp             HHHHHCTCSEEEEEESTTSTHHHHHHHHHHHH
T ss_pred             HHHHhcCCeEEEEEECCCCCHHHHHHHHHHHH
Confidence            33334556799999999999999999988877

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=97.31  E-value=0.0015  Score=56.97  Aligned_cols=88  Identities=15%  Similarity=0.176  Sum_probs=56.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCC----------------
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNES----------------  145 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~----------------  145 (371)
                      ...++.|+|++|+|||+|+.+++....   ..-..++|++...  +..++.+.+ ..++.....                
T Consensus        24 ~g~~~~i~G~~GsGKt~l~~~~~~~~~---~~g~~~~y~~~e~--~~~~~~~~~-~~~g~~~~~~~~~g~l~i~~~~~~~   97 (234)
T PRK06067         24 FPSLILIEGDHGTGKSVLSQQFVYGAL---KQGKKVYVITTEN--TSKSYLKQM-ESVKIDISDFFLWGYLRIFPLNTEG   97 (234)
T ss_pred             CCcEEEEECCCCCChHHHHHHHHHHHH---hCCCEEEEEEcCC--CHHHHHHHH-HHCCCChhHHHhCCCceEEeccccc
Confidence            457999999999999999999976641   2345788888865  345555543 233321110                


Q ss_pred             --CCcCCHHHHHHHHHHHhCC-CceEEEEeCCC
Q 043737          146 --WNSRSLQEKSQDIVKNMSN-KKFVLLLDHIW  175 (371)
Q Consensus       146 --~~~~~~~~~~~~l~~~l~~-~~~LlVlDdv~  175 (371)
                        ............+.+.+.. ++-++|+|.+.
T Consensus        98 ~~~~~~~~~~ll~~l~~~i~~~~~~~iviDs~t  130 (234)
T PRK06067         98 FEWNSTLANKLLELIIEFIKSKREDVIIIDSLT  130 (234)
T ss_pred             cccCcchHHHHHHHHHHHHHhcCCCEEEEecHH
Confidence              0122335566666666654 55699999985

>cd01131 PilT Pilus retraction ATPase PilT

Probab=97.30  E-value=0.00039  Score=58.94  Aligned_cols=110  Identities=13%  Similarity=0.107  Sum_probs=57.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhC
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMS  163 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~  163 (371)
                      .++.|.|+.|+||||++..++...   .......++..-...   +-...... .+ ..... ...+.......++..+.
T Consensus         2 GlilI~GptGSGKTTll~~ll~~~---~~~~~~~i~t~e~~~---E~~~~~~~-~~-i~q~~-vg~~~~~~~~~i~~aLr   72 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDYI---NKNKTHHILTIEDPI---EFVHESKR-SL-INQRE-VGLDTLSFENALKAALR   72 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh---hhcCCcEEEEEcCCc---cccccCcc-ce-eeecc-cCCCccCHHHHHHHHhc
Confidence            478999999999999999988877   222233333221111   00000000 00 00000 11112234455666666


Q ss_pred             CCceEEEEeCCCCcccccccccccCCCCCCCcEEEEecCchHH
Q 043737          164 NKKFVLLLDHIWELVDLSQVGLPVPCRTSASNKTVFTARELEV  206 (371)
Q Consensus       164 ~~~~LlVlDdv~~~~~~~~~~~~l~~~~~~~~~iliTsR~~~~  206 (371)
                      ..+=++++|++-+.+.......    ....|..++.|+-....
T Consensus        73 ~~pd~ii~gEird~e~~~~~l~----~a~~G~~v~~t~Ha~~~  111 (198)
T cd01131          73 QDPDVILVGEMRDLETIRLALT----AAETGHLVMSTLHTNSA  111 (198)
T ss_pred             CCcCEEEEcCCCCHHHHHHHHH----HHHcCCEEEEEecCCcH
Confidence            6777999999976554433221    12235557777765543

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.

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

Probab=97.30  E-value=0.0021  Score=52.78  Aligned_cols=125  Identities=18%  Similarity=0.150  Sum_probs=70.4

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEe---CC---------------------------------
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVA---SK---------------------------------  124 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~---~~---------------------------------  124 (371)
                      .....++|+|++|.|||||.+.++....    .-.+.+|++-   +.                                 
T Consensus        26 ~~Gef~fl~GpSGAGKSTllkLi~~~e~----pt~G~i~~~~~dl~~l~~~~iP~LRR~IGvVFQD~rLL~~~tvyeNVA  101 (223)
T COG2884          26 PKGEFVFLTGPSGAGKSTLLKLIYGEER----PTRGKILVNGHDLSRLKGREIPFLRRQIGVVFQDFRLLPDRTVYENVA  101 (223)
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHhhhc----CCCceEEECCeecccccccccchhhheeeeEeeeccccccchHhhhhh
Confidence            3456999999999999999999988762    1223344321   00                                 


Q ss_pred             ---------cCCHHHHHHHHHHHhccCCCCC----CcCCHHHHHHHHHHHhCCCceEEEEeCC----CCccccccccccc
Q 043737          125 ---------DLQLEQIQGSIAKKINLFNESW----NSRSLQEKSQDIVKNMSNKKFVLLLDHI----WELVDLSQVGLPV  187 (371)
Q Consensus       125 ---------~~~~~~~~~~l~~~l~~~~~~~----~~~~~~~~~~~l~~~l~~~~~LlVlDdv----~~~~~~~~~~~~l  187 (371)
                               ......-..+.+...++.....    .-..-++..-.+.+.+-+++-+|+-|+-    |....|+-+..+-
T Consensus       102 ~pL~v~G~~~~~i~~rV~~~L~~VgL~~k~~~lP~~LSGGEQQRvaIARAiV~~P~vLlADEPTGNLDp~~s~~im~lfe  181 (223)
T COG2884         102 LPLRVIGKPPREIRRRVSEVLDLVGLKHKARALPSQLSGGEQQRVAIARAIVNQPAVLLADEPTGNLDPDLSWEIMRLFE  181 (223)
T ss_pred             hhhhccCCCHHHHHHHHHHHHHHhccchhhhcCccccCchHHHHHHHHHHHccCCCeEeecCCCCCCChHHHHHHHHHHH
Confidence                     0012222333333333322110    1112223333444555677889999964    4344444443332


Q ss_pred             CCCCCCCcEEEEecCchHHHhhc
Q 043737          188 PCRTSASNKTVFTARELEVCGQM  210 (371)
Q Consensus       188 ~~~~~~~~~iliTsR~~~~~~~~  210 (371)
                      . .+..|+.|+++|.+..+...+
T Consensus       182 e-inr~GtTVl~ATHd~~lv~~~  203 (223)
T COG2884         182 E-INRLGTTVLMATHDLELVNRM  203 (223)
T ss_pred             H-HhhcCcEEEEEeccHHHHHhc
Confidence            2 567799999999998876654

>PRK05541 adenylylsulfate kinase; Provisional

Probab=97.29  E-value=0.00061  Score=56.57  Aligned_cols=36  Identities=19%  Similarity=0.378  Sum_probs=28.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEE
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWV  120 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv  120 (371)
                      ...+|++.|++|+||||+|+.++..+   ...+..++++
T Consensus         6 ~~~~I~i~G~~GsGKst~a~~l~~~l---~~~~~~~~~~   41 (176)
T PRK05541          6 NGYVIWITGLAGSGKTTIAKALYERL---KLKYSNVIYL   41 (176)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHH---HHcCCcEEEE
Confidence            45699999999999999999999988   3444555555

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=97.29  E-value=0.0014  Score=60.88  Aligned_cols=86  Identities=22%  Similarity=0.275  Sum_probs=52.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCC---CcCCHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESW---NSRSLQEKSQDI  158 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~---~~~~~~~~~~~l  158 (371)
                      ...++.|.|++|+|||||+.+++....   .....++|++...  +..++ ..-+..++......   ...+.+...+.+
T Consensus        81 ~GslvLI~G~pG~GKStLllq~a~~~a---~~g~~VlYvs~EE--s~~qi-~~Ra~rlg~~~~~l~l~~e~~le~I~~~i  154 (372)
T cd01121          81 PGSVILIGGDPGIGKSTLLLQVAARLA---KRGGKVLYVSGEE--SPEQI-KLRADRLGISTENLYLLAETNLEDILASI  154 (372)
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHH---hcCCeEEEEECCc--CHHHH-HHHHHHcCCCcccEEEEccCcHHHHHHHH
Confidence            356999999999999999999998872   2234678887643  33332 22234555432221   122333333333


Q ss_pred             HHHhCCCceEEEEeCCCC
Q 043737          159 VKNMSNKKFVLLLDHIWE  176 (371)
Q Consensus       159 ~~~l~~~~~LlVlDdv~~  176 (371)
                      .   ..++-++|+|.+..
T Consensus       155 ~---~~~~~lVVIDSIq~  169 (372)
T cd01121         155 E---ELKPDLVIIDSIQT  169 (372)
T ss_pred             H---hcCCcEEEEcchHH
Confidence            2   23567999999854

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.

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=97.28  E-value=0.0016  Score=53.26  Aligned_cols=118  Identities=14%  Similarity=0.171  Sum_probs=64.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEE---EEEeCCcCCHHHHHHHHHHHhccCCC--CCCcCC-------
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVI---WVVASKDLQLEQIQGSIAKKINLFNE--SWNSRS-------  150 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~---wv~~~~~~~~~~~~~~l~~~l~~~~~--~~~~~~-------  150 (371)
                      ...|-|++..|.||||.|..++-+..  ...+ .++   |+...........+..+.-.+.....  .+...+       
T Consensus         5 ~Gli~v~~g~GkGKtt~a~g~a~ra~--~~g~-~v~ivQFlKg~~~~GE~~~l~~~~~~~~~~g~g~~~~~~~~~~~~~~   81 (173)
T TIGR00708         5 RGIIIVHTGNGKGKTTAAFGMALRAL--GHGK-KVGVIQFIKGAWPNGERAAFEPHGVEFQVMGTGFTWETQNREADTAI   81 (173)
T ss_pred             ccEEEEECCCCCChHHHHHHHHHHHH--HCCC-eEEEEEEecCCcccChHHHHHhcCcEEEECCCCCeecCCCcHHHHHH
Confidence            46888888899999999998888872  2222 333   33333233444444443111110011  011111       


Q ss_pred             HHHHHHHHHHHhCCCce-EEEEeCCCCc-----ccccccccccCCCCCCCcEEEEecCch
Q 043737          151 LQEKSQDIVKNMSNKKF-VLLLDHIWEL-----VDLSQVGLPVPCRTSASNKTVFTAREL  204 (371)
Q Consensus       151 ~~~~~~~l~~~l~~~~~-LlVlDdv~~~-----~~~~~~~~~l~~~~~~~~~iliTsR~~  204 (371)
                      ..+.....++.+...++ |+|||++-..     -+.+.+...+. ....+..+|+|.|+.
T Consensus        82 ~~~~~~~a~~~l~~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~-~rp~~~evVlTGR~~  140 (173)
T TIGR00708        82 AKAAWQHAKEMLADPELDLVLLDELTYALKYGYLDVEEVVEALQ-ERPGHQHVIITGRGC  140 (173)
T ss_pred             HHHHHHHHHHHHhcCCCCEEEehhhHHHHHCCCcCHHHHHHHHH-hCCCCCEEEEECCCC
Confidence            12234444455555554 9999998532     23334444444 555678999999984

Alternate name: corrinoid adenosyltransferase.

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

Probab=97.26  E-value=0.0069  Score=54.78  Aligned_cols=49  Identities=27%  Similarity=0.305  Sum_probs=35.4

Q ss_pred             ccccchhHHHHHHHHHhc--------------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCC
Q 043737           63 TVVGLQSTFDRVWRCLME--------------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDF  114 (371)
Q Consensus        63 ~~vGR~~~~~~l~~~L~~--------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f  114 (371)
                      .+-|-+...+.+.+...=              ...+-|.++||+|.|||-||+.++.+.   ...|
T Consensus        93 DIggLe~v~~~L~e~VilPlr~pelF~~g~Ll~p~kGiLL~GPpG~GKTmlAKA~Akea---ga~f  155 (386)
T KOG0737|consen   93 DIGGLEEVKDALQELVILPLRRPELFAKGKLLRPPKGILLYGPPGTGKTMLAKAIAKEA---GANF  155 (386)
T ss_pred             hccchHHHHHHHHHHHhhcccchhhhcccccccCCccceecCCCCchHHHHHHHHHHHc---CCCc
Confidence            345556666666555320              245689999999999999999999997   4444

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=97.26  E-value=0.0017  Score=59.53  Aligned_cols=93  Identities=14%  Similarity=0.165  Sum_probs=56.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccC---CCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCC-------CCcCCH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLH---TPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNES-------WNSRSL  151 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~---~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~-------~~~~~~  151 (371)
                      ...++-|+|++|+|||+|+.+++-....   ....-..++|++....+++.++.+ ++..++.....       ....+.
T Consensus       125 ~G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~-ia~~~g~d~~~~l~~I~~~~~~~~  203 (344)
T PLN03187        125 TRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVP-IAERFGMDADAVLDNIIYARAYTY  203 (344)
T ss_pred             CCeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHH-HHHHcCCChhhhcCeEEEecCCCH
Confidence            4568889999999999999998754311   112235899999988777777654 45555543211       012233


Q ss_pred             HHHH---HHHHHHhC-CCceEEEEeCCC
Q 043737          152 QEKS---QDIVKNMS-NKKFVLLLDHIW  175 (371)
Q Consensus       152 ~~~~---~~l~~~l~-~~~~LlVlDdv~  175 (371)
                      ++..   ..+...+. .+.-|||+|.+-
T Consensus       204 e~~~~~l~~l~~~i~~~~~~LvVIDSit  231 (344)
T PLN03187        204 EHQYNLLLGLAAKMAEEPFRLLIVDSVI  231 (344)
T ss_pred             HHHHHHHHHHHHHHHhcCCCEEEEeCcH
Confidence            3332   22322332 334588999884

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

Probab=97.26  E-value=0.0014  Score=55.15  Aligned_cols=43  Identities=19%  Similarity=0.149  Sum_probs=29.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCC-------CCCeEEEEEeCCc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTPN-------DFDFVIWVVASKD  125 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~-------~f~~~~wv~~~~~  125 (371)
                      ..++.|.|++|+|||+++.+++........       .-..++|++....
T Consensus        32 g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~   81 (193)
T PF13481_consen   32 GELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS   81 (193)
T ss_dssp             TSEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS-
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC
Confidence            348999999999999999999888743222       2237888887664

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=97.25  E-value=0.00036  Score=67.14  Aligned_cols=45  Identities=20%  Similarity=0.336  Sum_probs=40.2

Q ss_pred             ccccchhHHHHHHHHHh------cCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           63 TVVGLQSTFDRVWRCLM------EEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        63 ~~vGR~~~~~~l~~~L~------~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .++|-++.+++|++.|.      +...+++.++||+|+||||||..+++-+
T Consensus        77 d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~l  127 (644)
T PRK15455         77 EFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSLM  127 (644)
T ss_pred             cccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHHH
Confidence            47999999999999883      2466899999999999999999999987

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

Probab=97.25  E-value=0.00046  Score=61.43  Aligned_cols=87  Identities=23%  Similarity=0.246  Sum_probs=48.2

Q ss_pred             HHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHH
Q 043737           73 RVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQ  152 (371)
Q Consensus        73 ~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~  152 (371)
                      .+++.+... .+.|.++|+.|+|||++++.+.+.+.  ...+ .+.-++.+...+...+...+-..+.....  ....+ 
T Consensus        24 ~ll~~l~~~-~~pvLl~G~~GtGKT~li~~~l~~l~--~~~~-~~~~~~~s~~Tts~~~q~~ie~~l~k~~~--~~~gP-   96 (272)
T PF12775_consen   24 YLLDLLLSN-GRPVLLVGPSGTGKTSLIQNFLSSLD--SDKY-LVITINFSAQTTSNQLQKIIESKLEKRRG--RVYGP-   96 (272)
T ss_dssp             HHHHHHHHC-TEEEEEESSTTSSHHHHHHHHHHCST--TCCE-EEEEEES-TTHHHHHHHHCCCTTECECTT--EEEEE-
T ss_pred             HHHHHHHHc-CCcEEEECCCCCchhHHHHhhhccCC--cccc-ceeEeeccCCCCHHHHHHHHhhcEEcCCC--CCCCC-
Confidence            344444444 56789999999999999999988762  2221 24445566554444433222222111000  00000 


Q ss_pred             HHHHHHHHHhCCCceEEEEeCCC
Q 043737          153 EKSQDIVKNMSNKKFVLLLDHIW  175 (371)
Q Consensus       153 ~~~~~l~~~l~~~~~LlVlDdv~  175 (371)
                               -.+++.++.+||+.
T Consensus        97 ---------~~~k~lv~fiDDlN  110 (272)
T PF12775_consen   97 ---------PGGKKLVLFIDDLN  110 (272)
T ss_dssp             ---------ESSSEEEEEEETTT
T ss_pred             ---------CCCcEEEEEecccC
Confidence                     13678899999995

>PRK13531 regulatory ATPase RavA; Provisional

Probab=97.25  E-value=0.0005  Score=65.16  Aligned_cols=44  Identities=11%  Similarity=0.092  Sum_probs=39.0

Q ss_pred             CccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..++||++.++.+...+..+  ..|.|.|++|+|||+||+.+....
T Consensus        20 ~~i~gre~vI~lll~aalag--~hVLL~GpPGTGKT~LAraLa~~~   63 (498)
T PRK13531         20 KGLYERSHAIRLCLLAALSG--ESVFLLGPPGIAKSLIARRLKFAF   63 (498)
T ss_pred             hhccCcHHHHHHHHHHHccC--CCEEEECCCChhHHHHHHHHHHHh
Confidence            56899999999999988554  488999999999999999999876

>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]

Probab=97.24  E-value=0.00063  Score=61.22  Aligned_cols=135  Identities=14%  Similarity=0.210  Sum_probs=71.4

Q ss_pred             ccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEE----eCCc---------CCHHHH
Q 043737           65 VGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVV----ASKD---------LQLEQI  131 (371)
Q Consensus        65 vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~----~~~~---------~~~~~~  131 (371)
                      -+|..+-.--+++|.++....|.+.|.+|+|||-||..+.-.--..+..|..++-..    +++.         ..+..-
T Consensus       227 ~prn~eQ~~ALdlLld~dI~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~KiiVtRp~vpvG~dIGfLPG~eEeKm~PW  306 (436)
T COG1875         227 RPRNAEQRVALDLLLDDDIDLVSLGGKAGTGKTLLALAAGLEQVLERKRYRKIIVTRPTVPVGEDIGFLPGTEEEKMGPW  306 (436)
T ss_pred             CcccHHHHHHHHHhcCCCCCeEEeeccCCccHhHHHHHHHHHHHHHHhhhceEEEecCCcCcccccCcCCCchhhhccch
Confidence            446666566678888889999999999999999887654332111234454433321    2211         111122


Q ss_pred             HHHHHHHhccCCCCCCcCCHHHHHHHHH----------HHhCCC---ceEEEEeCCCCcccccccccccCCCCCCCcEEE
Q 043737          132 QGSIAKKINLFNESWNSRSLQEKSQDIV----------KNMSNK---KFVLLLDHIWELVDLSQVGLPVPCRTSASNKTV  198 (371)
Q Consensus       132 ~~~l~~~l~~~~~~~~~~~~~~~~~~l~----------~~l~~~---~~LlVlDdv~~~~~~~~~~~~l~~~~~~~~~il  198 (371)
                      +..+..-+..-... .... ...+..+.          .+++++   .-++|+|++++..-- .+...+. ..+.|++|+
T Consensus       307 mq~i~DnLE~L~~~-~~~~-~~~l~~~l~~~~iev~alt~IRGRSl~~~FiIIDEaQNLTph-eikTilt-R~G~GsKIV  382 (436)
T COG1875         307 MQAIFDNLEVLFSP-NEPG-DRALEEILSRGRIEVEALTYIRGRSLPDSFIIIDEAQNLTPH-ELKTILT-RAGEGSKIV  382 (436)
T ss_pred             HHHHHhHHHHHhcc-cccc-hHHHHHHHhccceeeeeeeeecccccccceEEEehhhccCHH-HHHHHHH-hccCCCEEE
Confidence            22222222211111 1111 22333331          123443   459999999765321 1222233 677899999


Q ss_pred             EecCc
Q 043737          199 FTARE  203 (371)
Q Consensus       199 iTsR~  203 (371)
                      .|.-.
T Consensus       383 l~gd~  387 (436)
T COG1875         383 LTGDP  387 (436)
T ss_pred             EcCCH
Confidence            88754

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=97.22  E-value=0.0026  Score=53.77  Aligned_cols=86  Identities=12%  Similarity=0.093  Sum_probs=46.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhccCCCCC-CCeEEEEEeCCcCCHHHHHHHHHHH-hccCCCCCCcCCHHHHHHHHHHHh
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKFLHTPND-FDFVIWVVASKDLQLEQIQGSIAKK-INLFNESWNSRSLQEKSQDIVKNM  162 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~~~~~~~-f~~~~wv~~~~~~~~~~~~~~l~~~-l~~~~~~~~~~~~~~~~~~l~~~l  162 (371)
                      +|+|.|++|+||||||+.+...+...... ......++.............-... -..........+.+...+.+....
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~L~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~p~a~d~~~l~~~l~~L~   80 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQILNKRGIPAMEMDIILSLDDFYDDYHLRDRKGRGENRYNFDHPDAFDFDLLKEDLKALK   80 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHTTCTTTCCCSEEEEEGGGGBHHHHHHHHHHHCTTTSSTTSGGGBSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhCccCcCccceeEEEeecccccccchhhHhhccccccCCCCccccCHHHHHHHHHHHh
Confidence            68999999999999999999998311111 1124444444333222222221111 011112224556666777777666


Q ss_pred             CCCceEEE
Q 043737          163 SNKKFVLL  170 (371)
Q Consensus       163 ~~~~~LlV  170 (371)
                      .++.+-+-
T Consensus        81 ~g~~i~~p   88 (194)
T PF00485_consen   81 NGGSIEIP   88 (194)
T ss_dssp             TTSCEEEE
T ss_pred             CCCccccc
Confidence            66665443

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 ....

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

Probab=97.20  E-value=0.00092  Score=62.96  Aligned_cols=47  Identities=19%  Similarity=0.185  Sum_probs=36.9

Q ss_pred             CCccccchhHHHHHHHHHhc-------C---------CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           61 PPTVVGLQSTFDRVWRCLME-------E---------QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~-------~---------~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...++|.+...+.+..++.+       .         ..+.+.++|++|+|||+||+.++...
T Consensus        70 ~~~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l  132 (412)
T PRK05342         70 DQYVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARIL  132 (412)
T ss_pred             hhHeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHh
Confidence            35689999988888665521       0         23579999999999999999998876

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

Probab=97.19  E-value=0.0062  Score=53.52  Aligned_cols=169  Identities=14%  Similarity=0.158  Sum_probs=87.2

Q ss_pred             cccchhHHHHHHHHHhc---------C---CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHH
Q 043737           64 VVGLQSTFDRVWRCLME---------E---QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQI  131 (371)
Q Consensus        64 ~vGR~~~~~~l~~~L~~---------~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~  131 (371)
                      +-|-+...+.|.++..=         +   ..+-|.++||+|.|||.||++++-..   .     .-|++++..    ++
T Consensus       135 VAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATEA---n-----STFFSvSSS----DL  202 (439)
T KOG0739|consen  135 VAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEA---N-----STFFSVSSS----DL  202 (439)
T ss_pred             hccchhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHHHHHHhhc---C-----CceEEeehH----HH
Confidence            45666666666555321         1   24689999999999999999998876   1     223344332    22


Q ss_pred             HHHHHHHhccCCCCCCcCCHHHHHHHHHHHhC-CCceEEEEeCCCCccc---------ccccc----cccC--CCCCCCc
Q 043737          132 QGSIAKKINLFNESWNSRSLQEKSQDIVKNMS-NKKFVLLLDHIWELVD---------LSQVG----LPVP--CRTSASN  195 (371)
Q Consensus       132 ~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~-~~~~LlVlDdv~~~~~---------~~~~~----~~l~--~~~~~~~  195 (371)
                      ....+   +         ..+.++..+.+..+ +++.+|.+|+++....         ...+.    ....  ...+.|.
T Consensus       203 vSKWm---G---------ESEkLVknLFemARe~kPSIIFiDEiDslcg~r~enEseasRRIKTEfLVQMqGVG~d~~gv  270 (439)
T KOG0739|consen  203 VSKWM---G---------ESEKLVKNLFEMARENKPSIIFIDEIDSLCGSRSENESEASRRIKTEFLVQMQGVGNDNDGV  270 (439)
T ss_pred             HHHHh---c---------cHHHHHHHHHHHHHhcCCcEEEeehhhhhccCCCCCchHHHHHHHHHHHHhhhccccCCCce
Confidence            22221   1         12344555555443 6788999999974311         11110    1111  1233454


Q ss_pred             EEEEecCchHHHhh-c--cCCCceeecCCChHHHH-HHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCc
Q 043737          196 KTVFTARELEVCGQ-M--EAHKSFKVERLGYEDAW-KLFEEKVGKEILDSHPDIPELAETVAKECGGLP  260 (371)
Q Consensus       196 ~iliTsR~~~~~~~-~--~~~~~~~l~~L~~~ea~-~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~P  260 (371)
                      .||-.|..+-+... +  .-...|.+ ||....|+ .+|.-+++...-   .-.++..+++.+++.|..
T Consensus       271 LVLgATNiPw~LDsAIRRRFekRIYI-PLPe~~AR~~MF~lhlG~tp~---~LT~~d~~eL~~kTeGyS  335 (439)
T KOG0739|consen  271 LVLGATNIPWVLDSAIRRRFEKRIYI-PLPEAHARARMFKLHLGDTPH---VLTEQDFKELARKTEGYS  335 (439)
T ss_pred             EEEecCCCchhHHHHHHHHhhcceec-cCCcHHHhhhhheeccCCCcc---ccchhhHHHHHhhcCCCC
Confidence            45545554332211 0  11223333 45555554 345555554321   122344677888887754

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

Probab=97.19  E-value=0.0045  Score=60.34  Aligned_cols=152  Identities=14%  Similarity=0.072  Sum_probs=80.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKN  161 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~  161 (371)
                      ..+.+.++|++|+|||.||+.++...   ..+|-.+     ...    +++...           -..+.......+...
T Consensus       275 ~~~giLl~GpPGtGKT~lAkava~~~---~~~fi~v-----~~~----~l~sk~-----------vGesek~ir~~F~~A  331 (494)
T COG0464         275 PPKGVLLYGPPGTGKTLLAKAVALES---RSRFISV-----KGS----ELLSKW-----------VGESEKNIRELFEKA  331 (494)
T ss_pred             CCCeeEEECCCCCCHHHHHHHHHhhC---CCeEEEe-----eCH----HHhccc-----------cchHHHHHHHHHHHH
Confidence            34589999999999999999999976   3333222     211    111111           111122222223333


Q ss_pred             hCCCceEEEEeCCCCcccc-------------cccccccCC-CCCCCcEEEEecCch-HHHhhc----cCCCceeecCCC
Q 043737          162 MSNKKFVLLLDHIWELVDL-------------SQVGLPVPC-RTSASNKTVFTAREL-EVCGQM----EAHKSFKVERLG  222 (371)
Q Consensus       162 l~~~~~LlVlDdv~~~~~~-------------~~~~~~l~~-~~~~~~~iliTsR~~-~~~~~~----~~~~~~~l~~L~  222 (371)
                      .+..+++|.+|+++.....             .++...+.. ....+..||-+|-.. .+...+    .-...+.+++-+
T Consensus       332 ~~~~p~iiFiDEiDs~~~~r~~~~~~~~~r~~~~lL~~~d~~e~~~~v~vi~aTN~p~~ld~a~lR~gRfd~~i~v~~pd  411 (494)
T COG0464         332 RKLAPSIIFIDEIDSLASGRGPSEDGSGRRVVGQLLTELDGIEKAEGVLVIAATNRPDDLDPALLRPGRFDRLIYVPLPD  411 (494)
T ss_pred             HcCCCcEEEEEchhhhhccCCCCCchHHHHHHHHHHHHhcCCCccCceEEEecCCCccccCHhhcccCccceEeecCCCC
Confidence            3578899999999754221             111122211 122233333333332 221111    224578889999


Q ss_pred             hHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCC
Q 043737          223 YEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGG  258 (371)
Q Consensus       223 ~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g  258 (371)
                      .++..+.|..+.......  -...-..+.+++.+.|
T Consensus       412 ~~~r~~i~~~~~~~~~~~--~~~~~~~~~l~~~t~~  445 (494)
T COG0464         412 LEERLEIFKIHLRDKKPP--LAEDVDLEELAEITEG  445 (494)
T ss_pred             HHHHHHHHHHHhcccCCc--chhhhhHHHHHHHhcC
Confidence            999999999998643311  0111224555566666

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=97.18  E-value=0.0014  Score=55.38  Aligned_cols=26  Identities=27%  Similarity=0.516  Sum_probs=24.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +..+|+|.|.+|+||||+|+.++..+
T Consensus         7 ~~iiIgIaG~SgSGKTTva~~l~~~~   32 (218)
T COG0572           7 KVIIIGIAGGSGSGKTTVAKELSEQL   32 (218)
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            34689999999999999999999998

>PRK10867 signal recognition particle protein; Provisional

Probab=97.18  E-value=0.0019  Score=61.04  Aligned_cols=39  Identities=23%  Similarity=0.269  Sum_probs=28.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeC
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVAS  123 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~  123 (371)
                      +.+|.++|++|+||||++..++..+.  ...-..+..+++.
T Consensus       100 p~vI~~vG~~GsGKTTtaakLA~~l~--~~~G~kV~lV~~D  138 (433)
T PRK10867        100 PTVIMMVGLQGAGKTTTAGKLAKYLK--KKKKKKVLLVAAD  138 (433)
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHHH--HhcCCcEEEEEcc
Confidence            57899999999999999999888772  1112345555544

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=97.18  E-value=0.0027  Score=57.78  Aligned_cols=59  Identities=17%  Similarity=0.213  Sum_probs=39.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccC---CCCCCCeEEEEEeCCcCCHHHHHHHHHHHhcc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLH---TPNDFDFVIWVVASKDLQLEQIQGSIAKKINL  141 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~---~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~  141 (371)
                      ...++.|+|++|+|||+|+.+++.....   .......++|++.....+...+ .++++.++.
T Consensus        95 ~g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~f~~~Rl-~~ia~~~~~  156 (316)
T TIGR02239        95 TGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPERL-LAIAERYGL  156 (316)
T ss_pred             CCeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCCCCHHHH-HHHHHHcCC
Confidence            4579999999999999999998764310   1112236799988776666653 344455443

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

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=97.17  E-value=0.00077  Score=55.86  Aligned_cols=23  Identities=30%  Similarity=0.437  Sum_probs=21.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .|.|.|++|+||||+|+.+++.+
T Consensus         2 riiilG~pGaGK~T~A~~La~~~   24 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKL   24 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999999996

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.17  E-value=0.0023  Score=59.11  Aligned_cols=89  Identities=18%  Similarity=0.150  Sum_probs=51.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcC-CHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDL-QLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVK  160 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~  160 (371)
                      ..++|+|+|++|+||||++..++..+.   ..-..+..+..+... ...+-+...+..++.+..  ...++......+..
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~~L~---~~GkkVglI~aDt~RiaAvEQLk~yae~lgipv~--v~~d~~~L~~aL~~  314 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAWQFH---GKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVI--AVRDEAAMTRALTY  314 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHHHH---HcCCcEEEEecCCcchHHHHHHHHHhhhcCCcEE--ecCCHHHHHHHHHH
Confidence            347899999999999999999998872   222345566654332 222333444445543321  22344555444433


Q ss_pred             HhCC-CceEEEEeCCC
Q 043737          161 NMSN-KKFVLLLDHIW  175 (371)
Q Consensus       161 ~l~~-~~~LlVlDdv~  175 (371)
                      .-.. +.=++++|-.-
T Consensus       315 lk~~~~~DvVLIDTaG  330 (436)
T PRK11889        315 FKEEARVDYILIDTAG  330 (436)
T ss_pred             HHhccCCCEEEEeCcc
Confidence            3221 23488888774

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=97.17  E-value=0.0024  Score=56.72  Aligned_cols=31  Identities=26%  Similarity=0.282  Sum_probs=26.5

Q ss_pred             HHhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           77 CLMEEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        77 ~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+.+.+..++.|.|.+|+|||||+..++..+
T Consensus        98 ~~~~~~~~~v~l~G~pGsGKTTLl~~l~~~l  128 (290)
T PRK10463         98 RFAARKQLVLNLVSSPGSGKTTLLTETLMRL  128 (290)
T ss_pred             HHHhcCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3334567899999999999999999999987

>COG4133 CcmA ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]

Probab=97.17  E-value=0.0026  Score=52.11  Aligned_cols=36  Identities=28%  Similarity=0.321  Sum_probs=27.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEE
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWV  120 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv  120 (371)
                      ..-.+.|.|+.|+|||||.+.++--+   +..-..+.|-
T Consensus        27 ~Ge~~~i~G~NG~GKTtLLRilaGLl---~p~~G~v~~~   62 (209)
T COG4133          27 AGEALQITGPNGAGKTTLLRILAGLL---RPDAGEVYWQ   62 (209)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHccc---CCCCCeEEec
Confidence            34588999999999999999998776   3333455665

>PRK06547 hypothetical protein; Provisional

Probab=97.16  E-value=0.0007  Score=55.87  Aligned_cols=34  Identities=26%  Similarity=0.176  Sum_probs=28.0

Q ss_pred             HHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           74 VWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        74 l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +...+......+|+|.|++|+||||+|..+++..
T Consensus         6 ~~~~~~~~~~~~i~i~G~~GsGKTt~a~~l~~~~   39 (172)
T PRK06547          6 IAARLCGGGMITVLIDGRSGSGKTTLAGALAART   39 (172)
T ss_pred             HHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            3444545677899999999999999999998875

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

Probab=97.16  E-value=0.0072  Score=51.81  Aligned_cols=27  Identities=30%  Similarity=0.293  Sum_probs=24.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +.++-|.++||+|+|||-||+.++++-
T Consensus       187 dpprgvllygppg~gktml~kava~~t  213 (408)
T KOG0727|consen  187 DPPRGVLLYGPPGTGKTMLAKAVANHT  213 (408)
T ss_pred             CCCcceEEeCCCCCcHHHHHHHHhhcc
Confidence            467889999999999999999999886

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=97.16  E-value=0.00073  Score=66.92  Aligned_cols=76  Identities=11%  Similarity=0.121  Sum_probs=57.5

Q ss_pred             CCCccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHh
Q 043737           60 LPPTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKI  139 (371)
Q Consensus        60 ~~~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l  139 (371)
                      .-+.++|.++.++.|...+.+.  +.+.++|++|+||||+|+.+++.+.  ..+++.++|..- ...+...+++.+...+
T Consensus        29 ~~~~vigq~~a~~~L~~~~~~~--~~~l~~G~~G~GKttla~~l~~~l~--~~~~~~~~~~~n-p~~~~~~~~~~v~~~~  103 (637)
T PRK13765         29 LIDQVIGQEHAVEVIKKAAKQR--RHVMMIGSPGTGKSMLAKAMAELLP--KEELQDILVYPN-PEDPNNPKIRTVPAGK  103 (637)
T ss_pred             cHHHcCChHHHHHHHHHHHHhC--CeEEEECCCCCcHHHHHHHHHHHcC--hHhHHHheEeeC-CCcchHHHHHHHHHhc
Confidence            3467899999999888877554  4799999999999999999998872  344577788655 3346667777666555


Q ss_pred             c
Q 043737          140 N  140 (371)
Q Consensus       140 ~  140 (371)
                      +
T Consensus       104 G  104 (637)
T PRK13765        104 G  104 (637)
T ss_pred             C
Confidence            4

>PRK07667 uridine kinase; Provisional

Probab=97.15  E-value=0.0011  Score=56.05  Aligned_cols=36  Identities=22%  Similarity=0.469  Sum_probs=29.0

Q ss_pred             HHHHHHHhc--CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           72 DRVWRCLME--EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        72 ~~l~~~L~~--~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +.|.+.+..  +...+|+|.|.+|+||||+|..+...+
T Consensus         4 ~~~~~~~~~~~~~~~iIgI~G~~gsGKStla~~L~~~l   41 (193)
T PRK07667          4 NELINIMKKHKENRFILGIDGLSRSGKTTFVANLKENM   41 (193)
T ss_pred             HHHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            455555543  345799999999999999999999887

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

Probab=97.15  E-value=0.0031  Score=55.87  Aligned_cols=87  Identities=16%  Similarity=0.175  Sum_probs=56.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHH---HhccCCCCCCcCCHHH---HH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAK---KINLFNESWNSRSLQE---KS  155 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~---~l~~~~~~~~~~~~~~---~~  155 (371)
                      ..+++=|+|+.|+||||+|.+++-..   +.....++|++.-...++..+......   .+...    ...+.++   ..
T Consensus        59 ~g~ItEiyG~~gsGKT~lal~~~~~a---q~~g~~a~fIDtE~~l~p~r~~~l~~~~~d~l~v~----~~~~~e~q~~i~  131 (279)
T COG0468          59 RGRITEIYGPESSGKTTLALQLVANA---QKPGGKAAFIDTEHALDPERAKQLGVDLLDNLLVS----QPDTGEQQLEIA  131 (279)
T ss_pred             cceEEEEecCCCcchhhHHHHHHHHh---hcCCCeEEEEeCCCCCCHHHHHHHHHhhhcceeEe----cCCCHHHHHHHH
Confidence            45788899999999999999988777   444448999999888777665543333   22221    2223333   33


Q ss_pred             HHHHHHhCCCceEEEEeCCC
Q 043737          156 QDIVKNMSNKKFVLLLDHIW  175 (371)
Q Consensus       156 ~~l~~~l~~~~~LlVlDdv~  175 (371)
                      ..+......+--|+|+|.+-
T Consensus       132 ~~~~~~~~~~i~LvVVDSva  151 (279)
T COG0468         132 EKLARSGAEKIDLLVVDSVA  151 (279)
T ss_pred             HHHHHhccCCCCEEEEecCc
Confidence            33333333334599999984

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.15  E-value=0.0019  Score=59.69  Aligned_cols=89  Identities=17%  Similarity=0.192  Sum_probs=53.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCC-cCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASK-DLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVK  160 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~  160 (371)
                      ...+++++|+.|+||||++.+++.... .......+..+.... .....+-+..+.+.++.+..  ...+..+....+ .
T Consensus       136 ~g~ii~lvGptGvGKTTtiakLA~~~~-~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~--~~~~~~~l~~~l-~  211 (374)
T PRK14722        136 RGGVFALMGPTGVGKTTTTAKLAARCV-MRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVH--AVKDGGDLQLAL-A  211 (374)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHH-HhcCCCeEEEEecccccccHHHHHHHHHHHcCCceE--ecCCcccHHHHH-H
Confidence            356999999999999999999998751 111223566666443 23445666666777765432  122222232222 3


Q ss_pred             HhCCCceEEEEeCCC
Q 043737          161 NMSNKKFVLLLDHIW  175 (371)
Q Consensus       161 ~l~~~~~LlVlDdv~  175 (371)
                      .+.++ -++++|..-
T Consensus       212 ~l~~~-DlVLIDTaG  225 (374)
T PRK14722        212 ELRNK-HMVLIDTIG  225 (374)
T ss_pred             HhcCC-CEEEEcCCC
Confidence            34444 467799885

>PTZ00035 Rad51 protein; Provisional

Probab=97.15  E-value=0.0053  Score=56.41  Aligned_cols=93  Identities=19%  Similarity=0.188  Sum_probs=53.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccC---CCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCC-------CCcCCH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLH---TPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNES-------WNSRSL  151 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~---~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~-------~~~~~~  151 (371)
                      ...++.|+|++|+|||+|+.+++-....   ....-..++|++.....+...+ .++++.++.....       ....+.
T Consensus       117 ~G~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~~f~~eri-~~ia~~~g~~~~~~l~nI~~~~~~~~  195 (337)
T PTZ00035        117 TGSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPERI-VQIAERFGLDPEDVLDNIAYARAYNH  195 (337)
T ss_pred             CCeEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEccCCCCHHHH-HHHHHHhCCChHhHhhceEEEccCCH
Confidence            4578999999999999999998765410   1112346789987766565553 3444444432110       012233


Q ss_pred             HHHHHH---HHHHhC-CCceEEEEeCCC
Q 043737          152 QEKSQD---IVKNMS-NKKFVLLLDHIW  175 (371)
Q Consensus       152 ~~~~~~---l~~~l~-~~~~LlVlDdv~  175 (371)
                      ++....   +...+. .+.-|+|+|.+.
T Consensus       196 e~~~~~l~~~~~~l~~~~~~lvVIDSit  223 (337)
T PTZ00035        196 EHQMQLLSQAAAKMAEERFALLIVDSAT  223 (337)
T ss_pred             HHHHHHHHHHHHHhhccCccEEEEECcH
Confidence            333332   233333 344589999884

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

Probab=97.13  E-value=0.025  Score=48.86  Aligned_cols=45  Identities=18%  Similarity=0.214  Sum_probs=35.6

Q ss_pred             ccccchhHHHHHHHHHhc-------------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           63 TVVGLQSTFDRVWRCLME-------------EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        63 ~~vGR~~~~~~l~~~L~~-------------~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+=|-+..+++|++++.-             ..++-|.++||+|.|||-+|+..+.+-
T Consensus       172 DiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT  229 (424)
T KOG0652|consen  172 DIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQT  229 (424)
T ss_pred             ccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhc
Confidence            356778888888887641             245678999999999999999987764

>PRK11823 DNA repair protein RadA; Provisional

Probab=97.11  E-value=0.0024  Score=61.09  Aligned_cols=86  Identities=22%  Similarity=0.273  Sum_probs=51.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCC---CcCCHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESW---NSRSLQEKSQDI  158 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~---~~~~~~~~~~~l  158 (371)
                      ...++.|.|++|+|||||+.+++....   ..-..++|++...  +..++... +..++......   ...+.+.+...+
T Consensus        79 ~Gs~~lI~G~pG~GKTtL~lq~a~~~a---~~g~~vlYvs~Ee--s~~qi~~r-a~rlg~~~~~l~~~~e~~l~~i~~~i  152 (446)
T PRK11823         79 PGSVVLIGGDPGIGKSTLLLQVAARLA---AAGGKVLYVSGEE--SASQIKLR-AERLGLPSDNLYLLAETNLEAILATI  152 (446)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHH---hcCCeEEEEEccc--cHHHHHHH-HHHcCCChhcEEEeCCCCHHHHHHHH
Confidence            356999999999999999999998873   2234678887643  33333322 44554322111   122333333333


Q ss_pred             HHHhCCCceEEEEeCCCC
Q 043737          159 VKNMSNKKFVLLLDHIWE  176 (371)
Q Consensus       159 ~~~l~~~~~LlVlDdv~~  176 (371)
                      .   ..++-++|+|.+..
T Consensus       153 ~---~~~~~lVVIDSIq~  167 (446)
T PRK11823        153 E---EEKPDLVVIDSIQT  167 (446)
T ss_pred             H---hhCCCEEEEechhh
Confidence            2   23566999999853

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=97.10  E-value=0.0051  Score=53.43  Aligned_cols=27  Identities=30%  Similarity=0.421  Sum_probs=24.4

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....+++|.|+.|+|||||++.++..+
T Consensus        31 ~~~~iigi~G~~GsGKTTl~~~L~~~l   57 (229)
T PRK09270         31 QRRTIVGIAGPPGAGKSTLAEFLEALL   57 (229)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            356799999999999999999999887

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

Probab=97.10  E-value=0.0013  Score=52.15  Aligned_cols=41  Identities=32%  Similarity=0.283  Sum_probs=31.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHH
Q 043737           86 VGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQ  132 (371)
Q Consensus        86 v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~  132 (371)
                      |.|+|++|+|||+||+.+++.+   .   ....-+.++...+..++.
T Consensus         2 vlL~G~~G~GKt~l~~~la~~~---~---~~~~~i~~~~~~~~~dl~   42 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAALL---G---RPVIRINCSSDTTEEDLI   42 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHH---T---CEEEEEE-TTTSTHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh---h---cceEEEEeccccccccce
Confidence            7899999999999999999887   1   234456777776766665

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.

>TIGR00959 ffh signal recognition particle protein

Probab=97.09  E-value=0.0028  Score=59.85  Aligned_cols=25  Identities=20%  Similarity=0.259  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +.++.++|++|+||||++..++..+
T Consensus        99 p~vi~~vG~~GsGKTTtaakLA~~l  123 (428)
T TIGR00959        99 PTVILMVGLQGSGKTTTCGKLAYYL  123 (428)
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHH
Confidence            5689999999999999999998886

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.

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

Probab=97.09  E-value=0.0098  Score=50.94  Aligned_cols=151  Identities=12%  Similarity=0.107  Sum_probs=80.4

Q ss_pred             cccc-hhHHHHHHHHHh-------------cCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHH
Q 043737           64 VVGL-QSTFDRVWRCLM-------------EEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLE  129 (371)
Q Consensus        64 ~vGR-~~~~~~l~~~L~-------------~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~  129 (371)
                      ++|+ +..+++|.+.+.             -.+++-|.++|++|.|||-||+.++++-        ...|+.++..    
T Consensus       148 MiGgLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVahht--------~c~firvsgs----  215 (404)
T KOG0728|consen  148 MIGGLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAHHT--------DCTFIRVSGS----  215 (404)
T ss_pred             HhccHHHHHHHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchhHHHHHHHhhc--------ceEEEEechH----
Confidence            4554 556666555442             1366789999999999999999998775        3455666542    


Q ss_pred             HHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHh-CCCceEEEEeCCCCccc-----------------ccccccccCCCC
Q 043737          130 QIQGSIAKKINLFNESWNSRSLQEKSQDIVKNM-SNKKFVLLLDHIWELVD-----------------LSQVGLPVPCRT  191 (371)
Q Consensus       130 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~~~-----------------~~~~~~~l~~~~  191 (371)
                      ++.+.....    .        ......+.-.. ..-+.++..|+++....                 ++.+...-....
T Consensus       216 elvqk~ige----g--------srmvrelfvmarehapsiifmdeidsigs~r~e~~~ggdsevqrtmlellnqldgfea  283 (404)
T KOG0728|consen  216 ELVQKYIGE----G--------SRMVRELFVMAREHAPSIIFMDEIDSIGSSRVESGSGGDSEVQRTMLELLNQLDGFEA  283 (404)
T ss_pred             HHHHHHhhh----h--------HHHHHHHHHHHHhcCCceEeeecccccccccccCCCCccHHHHHHHHHHHHhcccccc
Confidence            222221110    0        01111111111 13466888888875311                 111111111134


Q ss_pred             CCCcEEEEec-CchHHHhh-c---cCCCceeecCCChHHHHHHHHHHhCCCC
Q 043737          192 SASNKTVFTA-RELEVCGQ-M---EAHKSFKVERLGYEDAWKLFEEKVGKEI  238 (371)
Q Consensus       192 ~~~~~iliTs-R~~~~~~~-~---~~~~~~~l~~L~~~ea~~ll~~~~~~~~  238 (371)
                      ..+.+||..| |...+... +   .-...++.++-+.+.-.+++.-+...-+
T Consensus       284 tknikvimatnridild~allrpgridrkiefp~p~e~ar~~ilkihsrkmn  335 (404)
T KOG0728|consen  284 TKNIKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILKIHSRKMN  335 (404)
T ss_pred             ccceEEEEeccccccccHhhcCCCcccccccCCCCCHHHHHHHHHHhhhhhc
Confidence            5677777755 43322111 1   2234577888777777777776654443

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=97.08  E-value=0.0031  Score=57.52  Aligned_cols=58  Identities=16%  Similarity=0.169  Sum_probs=40.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCC---CCCCCeEEEEEeCCcCCHHHHHHHHHHHhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHT---PNDFDFVIWVVASKDLQLEQIQGSIAKKIN  140 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~---~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~  140 (371)
                      ...++-|+|++|+|||+|+.+++......   ...-..++|++.....+...+.+ ++..++
T Consensus        94 ~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~~-~~~~~g  154 (310)
T TIGR02236        94 TQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIMQ-MAEARG  154 (310)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHHH-HHHHcC
Confidence            45788999999999999999998775210   11123799999887767666543 344443

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.

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=97.08  E-value=0.0042  Score=55.28  Aligned_cols=92  Identities=16%  Similarity=0.115  Sum_probs=52.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcC-CHHHHHHHHHHHhccCCC-CCCcCCHHHH-HHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDL-QLEQIQGSIAKKINLFNE-SWNSRSLQEK-SQDI  158 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~l~~~l~~~~~-~~~~~~~~~~-~~~l  158 (371)
                      +.+++.++|++|+||||++..++..+.   ..-..+.++...... ...+-+.......+.... .....++... ...+
T Consensus        71 ~~~vi~l~G~~G~GKTTt~akLA~~l~---~~g~~V~li~~D~~r~~a~~ql~~~~~~~~i~~~~~~~~~dp~~~~~~~l  147 (272)
T TIGR00064        71 KPNVILFVGVNGVGKTTTIAKLANKLK---KQGKSVLLAAGDTFRAAAIEQLEEWAKRLGVDVIKQKEGADPAAVAFDAI  147 (272)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHH---hcCCEEEEEeCCCCCHHHHHHHHHHHHhCCeEEEeCCCCCCHHHHHHHHH
Confidence            457899999999999999999998872   223467777665321 123334445555553211 1112233332 2333


Q ss_pred             HHHhCCCceEEEEeCCCC
Q 043737          159 VKNMSNKKFVLLLDHIWE  176 (371)
Q Consensus       159 ~~~l~~~~~LlVlDdv~~  176 (371)
                      ........=++++|-.-.
T Consensus       148 ~~~~~~~~D~ViIDT~G~  165 (272)
T TIGR00064       148 QKAKARNIDVVLIDTAGR  165 (272)
T ss_pred             HHHHHCCCCEEEEeCCCC
Confidence            333334445888898743

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.

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

Probab=97.08  E-value=0.00046  Score=53.81  Aligned_cols=22  Identities=27%  Similarity=0.650  Sum_probs=20.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043737           86 VGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        86 v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      |+|.|++|+||||+|+.+....
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            6899999999999999998884

...

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.07  E-value=0.00063  Score=54.13  Aligned_cols=26  Identities=35%  Similarity=0.349  Sum_probs=23.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhcc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFL  108 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~  108 (371)
                      ..-|+|+|++|+||||+++.+++.+.
T Consensus         5 ~mki~ITG~PGvGKtTl~~ki~e~L~   30 (179)
T COG1618           5 AMKIFITGRPGVGKTTLVLKIAEKLR   30 (179)
T ss_pred             ceEEEEeCCCCccHHHHHHHHHHHHH
Confidence            35789999999999999999999883

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

Probab=97.07  E-value=0.0023  Score=57.83  Aligned_cols=88  Identities=16%  Similarity=0.141  Sum_probs=53.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCC---CcCCHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESW---NSRSLQEKSQDI  158 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~---~~~~~~~~~~~l  158 (371)
                      ..+++-|+|+.|+||||||.+++...   ......++|++.....+.     ..+..++......   .....++.+...
T Consensus        52 ~G~ivEi~G~~ssGKttLaL~~ia~~---q~~g~~~a~ID~e~~ld~-----~~a~~lGvdl~rllv~~P~~~E~al~~~  123 (322)
T PF00154_consen   52 RGRIVEIYGPESSGKTTLALHAIAEA---QKQGGICAFIDAEHALDP-----EYAESLGVDLDRLLVVQPDTGEQALWIA  123 (322)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHH---HHTT-EEEEEESSS---H-----HHHHHTT--GGGEEEEE-SSHHHHHHHH
T ss_pred             cCceEEEeCCCCCchhhhHHHHHHhh---hcccceeEEecCcccchh-----hHHHhcCccccceEEecCCcHHHHHHHH
Confidence            35699999999999999999998887   233457899988775544     3344444432221   233455666666


Q ss_pred             HHHhCCC-ceEEEEeCCCCc
Q 043737          159 VKNMSNK-KFVLLLDHIWEL  177 (371)
Q Consensus       159 ~~~l~~~-~~LlVlDdv~~~  177 (371)
                      ...++.. .-++|+|.+...
T Consensus       124 e~lirsg~~~lVVvDSv~al  143 (322)
T PF00154_consen  124 EQLIRSGAVDLVVVDSVAAL  143 (322)
T ss_dssp             HHHHHTTSESEEEEE-CTT-
T ss_pred             HHHhhcccccEEEEecCccc
Confidence            6666544 358999998644

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

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=97.06  E-value=0.0032  Score=56.50  Aligned_cols=88  Identities=22%  Similarity=0.271  Sum_probs=49.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcC-CHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDL-QLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVK  160 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~  160 (371)
                      ..++++|+|+.|+||||++..++..+. .......+..++..... .....+......++.+..  ...+..+....+. 
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~~~~-~~~g~~~V~li~~D~~r~~a~eql~~~~~~~~~p~~--~~~~~~~l~~~l~-  268 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAARFV-LEHGNKKVALITTDTYRIGAVEQLKTYAKILGVPVK--VARDPKELRKALD-  268 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH-HHcCCCeEEEEECCccchhHHHHHHHHHHHhCCcee--ccCCHHHHHHHHH-
Confidence            346899999999999999999988772 11111356666655422 223344444555554332  2233444433333 


Q ss_pred             HhCCCceEEEEeCC
Q 043737          161 NMSNKKFVLLLDHI  174 (371)
Q Consensus       161 ~l~~~~~LlVlDdv  174 (371)
                      .+.+ .=++++|..
T Consensus       269 ~~~~-~d~vliDt~  281 (282)
T TIGR03499       269 RLRD-KDLILIDTA  281 (282)
T ss_pred             HccC-CCEEEEeCC
Confidence            3443 347888853

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=97.06  E-value=0.0025  Score=56.43  Aligned_cols=40  Identities=15%  Similarity=0.324  Sum_probs=31.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCC
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASK  124 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~  124 (371)
                      ...++.|.|++|+|||+|+.+++....   ..-..++|++...
T Consensus        35 ~gs~~lI~G~pGtGKT~l~~qf~~~~a---~~Ge~vlyis~Ee   74 (259)
T TIGR03878        35 AYSVINITGVSDTGKSLMVEQFAVTQA---SRGNPVLFVTVES   74 (259)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHH---hCCCcEEEEEecC
Confidence            456999999999999999999877652   2234678888764

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

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

Probab=97.06  E-value=0.0018  Score=57.43  Aligned_cols=96  Identities=15%  Similarity=0.145  Sum_probs=53.9

Q ss_pred             HHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCH
Q 043737           72 DRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSL  151 (371)
Q Consensus        72 ~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~  151 (371)
                      +.+..++ .....++.|.|+.|+||||++..+.....   .....++.+.-........     ..++....  ...   
T Consensus        70 ~~l~~~~-~~~~GlilisG~tGSGKTT~l~all~~i~---~~~~~iitiEdp~E~~~~~-----~~q~~v~~--~~~---  135 (264)
T cd01129          70 EIFRKLL-EKPHGIILVTGPTGSGKTTTLYSALSELN---TPEKNIITVEDPVEYQIPG-----INQVQVNE--KAG---  135 (264)
T ss_pred             HHHHHHH-hcCCCEEEEECCCCCcHHHHHHHHHhhhC---CCCCeEEEECCCceecCCC-----ceEEEeCC--cCC---
Confidence            3343443 44557999999999999999999887762   2222344332211111110     01111110  011   


Q ss_pred             HHHHHHHHHHhCCCceEEEEeCCCCccccc
Q 043737          152 QEKSQDIVKNMSNKKFVLLLDHIWELVDLS  181 (371)
Q Consensus       152 ~~~~~~l~~~l~~~~~LlVlDdv~~~~~~~  181 (371)
                      ......+...++..+=.++++++.+.+...
T Consensus       136 ~~~~~~l~~~lR~~PD~i~vgEiR~~e~a~  165 (264)
T cd01129         136 LTFARGLRAILRQDPDIIMVGEIRDAETAE  165 (264)
T ss_pred             cCHHHHHHHHhccCCCEEEeccCCCHHHHH
Confidence            124455666677778899999998776544

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.

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

Probab=97.06  E-value=0.0023  Score=60.67  Aligned_cols=50  Identities=20%  Similarity=0.338  Sum_probs=37.8

Q ss_pred             chhHHHHHHHHHh-----cC--CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEE
Q 043737           67 LQSTFDRVWRCLM-----EE--QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVV  121 (371)
Q Consensus        67 R~~~~~~l~~~L~-----~~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~  121 (371)
                      ....+.++..||.     ..  +.+++.|+||+|+||||.++.++..+     .+..+=|.+
T Consensus        87 HkkKI~eVk~WL~~~~~~~~~l~~~iLLltGPsGcGKSTtvkvLskel-----g~~~~Ew~N  143 (634)
T KOG1970|consen   87 HKKKISEVKQWLKQVAEFTPKLGSRILLLTGPSGCGKSTTVKVLSKEL-----GYQLIEWSN  143 (634)
T ss_pred             hHHhHHHHHHHHHHHHHhccCCCceEEEEeCCCCCCchhHHHHHHHhh-----CceeeeecC
Confidence            3456677888887     22  45799999999999999999998876     344566663

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=97.05  E-value=0.0044  Score=56.67  Aligned_cols=58  Identities=17%  Similarity=0.233  Sum_probs=40.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCC---CCCCeEEEEEeCCcCCHHHHHHHHHHHhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTP---NDFDFVIWVVASKDLQLEQIQGSIAKKIN  140 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~---~~f~~~~wv~~~~~~~~~~~~~~l~~~l~  140 (371)
                      ...++-|+|++|+|||+|+.+++.......   ..-..++|++.....++..+.+ ++..++
T Consensus       101 ~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~-~~~~~g  161 (317)
T PRK04301        101 TQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQ-MAEALG  161 (317)
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHH-HHHHcC
Confidence            457889999999999999999987752111   1124799999887766666543 334443

>PRK04328 hypothetical protein; Provisional

Probab=97.04  E-value=0.0024  Score=56.22  Aligned_cols=40  Identities=18%  Similarity=0.047  Sum_probs=31.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCC
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASK  124 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~  124 (371)
                      ...++.|.|++|+|||+|+.+++...   -..-..++|++...
T Consensus        22 ~gs~ili~G~pGsGKT~l~~~fl~~~---~~~ge~~lyis~ee   61 (249)
T PRK04328         22 ERNVVLLSGGPGTGKSIFSQQFLWNG---LQMGEPGVYVALEE   61 (249)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH---HhcCCcEEEEEeeC
Confidence            45799999999999999999988774   12234678887765

>PRK05973 replicative DNA helicase; Provisional

Probab=97.04  E-value=0.0049  Score=53.43  Aligned_cols=86  Identities=8%  Similarity=0.022  Sum_probs=49.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCC---------CCcCCHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNES---------WNSRSLQ  152 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~---------~~~~~~~  152 (371)
                      ...++.|.|.+|+|||+++.+++....  . .-..+++++....  ..++...+. .++.....         ......+
T Consensus        63 ~Gsl~LIaG~PG~GKT~lalqfa~~~a--~-~Ge~vlyfSlEes--~~~i~~R~~-s~g~d~~~~~~~~~~d~~d~~~~~  136 (237)
T PRK05973         63 PGDLVLLGARPGHGKTLLGLELAVEAM--K-SGRTGVFFTLEYT--EQDVRDRLR-ALGADRAQFADLFEFDTSDAICAD  136 (237)
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHHH--h-cCCeEEEEEEeCC--HHHHHHHHH-HcCCChHHhccceEeecCCCCCHH
Confidence            456999999999999999999988762  2 2345677766543  344444432 22321110         0112233


Q ss_pred             HHHHHHHHHhCCCceEEEEeCCC
Q 043737          153 EKSQDIVKNMSNKKFVLLLDHIW  175 (371)
Q Consensus       153 ~~~~~l~~~l~~~~~LlVlDdv~  175 (371)
                      .....+...  .+.-++|+|.+.
T Consensus       137 ~ii~~l~~~--~~~~lVVIDsLq  157 (237)
T PRK05973        137 YIIARLASA--PRGTLVVIDYLQ  157 (237)
T ss_pred             HHHHHHHHh--hCCCEEEEEcHH
Confidence            333333331  234589999885

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

Probab=97.04  E-value=0.00057  Score=54.50  Aligned_cols=23  Identities=30%  Similarity=0.498  Sum_probs=21.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +|.++|++|+||||+|+.+....
T Consensus         1 lii~~G~pgsGKSt~a~~l~~~~   23 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLAKRL   23 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHS
T ss_pred             CEEEECCCCCCHHHHHHHHHHHC
Confidence            58899999999999999998886

...

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=97.04  E-value=0.0017  Score=53.90  Aligned_cols=118  Identities=13%  Similarity=0.157  Sum_probs=64.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEe---CCcCCHHHHHHHHHHHhcc--CCC--CCCcCCH---
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVA---SKDLQLEQIQGSIAKKINL--FNE--SWNSRSL---  151 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~---~~~~~~~~~~~~l~~~l~~--~~~--~~~~~~~---  151 (371)
                      ....|.|+|..|-||||.|.-.+-+..   .+-..+..+.+   ....+....+..+- .+..  ...  .+...+.   
T Consensus        21 ~~g~v~v~~g~GkGKtt~a~g~a~ra~---g~G~~V~ivQFlKg~~~~GE~~~l~~l~-~v~~~~~g~~~~~~~~~~~e~   96 (191)
T PRK05986         21 EKGLLIVHTGNGKGKSTAAFGMALRAV---GHGKKVGVVQFIKGAWSTGERNLLEFGG-GVEFHVMGTGFTWETQDRERD   96 (191)
T ss_pred             cCCeEEEECCCCCChHHHHHHHHHHHH---HCCCeEEEEEEecCCCccCHHHHHhcCC-CcEEEECCCCCcccCCCcHHH
Confidence            456999999999999999998888762   22223443333   22234444444321 1100  000  0111111   


Q ss_pred             ----HHHHHHHHHHhCCCce-EEEEeCCCCc-----ccccccccccCCCCCCCcEEEEecCch
Q 043737          152 ----QEKSQDIVKNMSNKKF-VLLLDHIWEL-----VDLSQVGLPVPCRTSASNKTVFTAREL  204 (371)
Q Consensus       152 ----~~~~~~l~~~l~~~~~-LlVlDdv~~~-----~~~~~~~~~l~~~~~~~~~iliTsR~~  204 (371)
                          .......++.+.+.+| |+|||++-..     -+.+.+...+. ....+..||+|-|..
T Consensus        97 ~~~~~~~~~~a~~~l~~~~ydlvVLDEi~~Al~~gli~~eevi~~L~-~rp~~~evVlTGR~~  158 (191)
T PRK05986         97 IAAAREGWEEAKRMLADESYDLVVLDELTYALKYGYLDVEEVLEALN-ARPGMQHVVITGRGA  158 (191)
T ss_pred             HHHHHHHHHHHHHHHhCCCCCEEEEehhhHHHHCCCccHHHHHHHHH-cCCCCCEEEEECCCC
Confidence                1234444455555544 9999998533     23344444444 455677999999974

>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=97.04  E-value=0.0012  Score=54.40  Aligned_cols=42  Identities=21%  Similarity=0.101  Sum_probs=32.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCC-CCCCeEEEEEeCCcCC
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTP-NDFDFVIWVVASKDLQ  127 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~-~~f~~~~wv~~~~~~~  127 (371)
                      ...+.+.||.|+|||.||+.+++.+   . ......+-++++....
T Consensus         3 ~~~~ll~GpsGvGKT~la~~la~~l---~~~~~~~~~~~d~s~~~~   45 (171)
T PF07724_consen    3 KSNFLLAGPSGVGKTELAKALAELL---FVGSERPLIRIDMSEYSE   45 (171)
T ss_dssp             SEEEEEESSTTSSHHHHHHHHHHHH---T-SSCCEEEEEEGGGHCS
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHHh---ccCCccchHHHhhhcccc
Confidence            4578899999999999999999998   4 4555667777665444

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 ....

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

Probab=97.03  E-value=0.0081  Score=54.73  Aligned_cols=25  Identities=24%  Similarity=0.174  Sum_probs=23.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -+-|.++||+|.|||-||++++-..
T Consensus       245 WkgvLm~GPPGTGKTlLAKAvATEc  269 (491)
T KOG0738|consen  245 WKGVLMVGPPGTGKTLLAKAVATEC  269 (491)
T ss_pred             cceeeeeCCCCCcHHHHHHHHHHhh
Confidence            3678999999999999999999987

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=97.01  E-value=0.021  Score=50.89  Aligned_cols=38  Identities=5%  Similarity=0.085  Sum_probs=30.6

Q ss_pred             HHHHHHHHHhcCC-ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           70 TFDRVWRCLMEEQ-MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        70 ~~~~l~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .-++|...+.++. ...+.++|+.|+||+++|..++..+
T Consensus         5 ~~~~L~~~i~~~rl~HAyLf~G~~G~Gk~~lA~~~A~~l   43 (290)
T PRK05917          5 AWEALIQRVRDQKVPSAIILHGQDLSNLSARAYELASLI   43 (290)
T ss_pred             HHHHHHHHHHcCCcCeeEeeECCCCCcHHHHHHHHHHHH
Confidence            3466777776654 4577899999999999999998887

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=97.01  E-value=0.0016  Score=60.61  Aligned_cols=47  Identities=19%  Similarity=0.183  Sum_probs=38.5

Q ss_pred             CCccccchhHHHHHHHHHhcC--------------CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           61 PPTVVGLQSTFDRVWRCLMEE--------------QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~~--------------~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+++|.++..+.+.-++.+.              ..+.|.++|++|+|||++|+.++...
T Consensus        11 d~~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l   71 (441)
T TIGR00390        11 DKYIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLA   71 (441)
T ss_pred             hhhccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            467899998888887666531              23689999999999999999999987

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.

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

Probab=97.00  E-value=0.001  Score=52.17  Aligned_cols=70  Identities=11%  Similarity=0.074  Sum_probs=42.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHh
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNM  162 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l  162 (371)
                      .+.|.|+|.+|+|||||+.+++...        ..-|++++.-..-.++....-.....     ...+.+.+++.+-..+
T Consensus         7 ~PNILvtGTPG~GKstl~~~lae~~--------~~~~i~isd~vkEn~l~~gyDE~y~c-----~i~DEdkv~D~Le~~m   73 (176)
T KOG3347|consen    7 RPNILVTGTPGTGKSTLAERLAEKT--------GLEYIEISDLVKENNLYEGYDEEYKC-----HILDEDKVLDELEPLM   73 (176)
T ss_pred             CCCEEEeCCCCCCchhHHHHHHHHh--------CCceEehhhHHhhhcchhcccccccC-----ccccHHHHHHHHHHHH
Confidence            4678999999999999999999665        34566666543333333322222211     2334455555555555


Q ss_pred             CCC
Q 043737          163 SNK  165 (371)
Q Consensus       163 ~~~  165 (371)
                      .+.
T Consensus        74 ~~G   76 (176)
T KOG3347|consen   74 IEG   76 (176)
T ss_pred             hcC
Confidence            443

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=97.00  E-value=0.0013  Score=52.45  Aligned_cols=44  Identities=18%  Similarity=0.320  Sum_probs=34.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccC
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLF  142 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~  142 (371)
                      +|.|.|++|+||||+|+.++++.   ...+     +      +.-.++++++...+..
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~---gl~~-----v------saG~iFR~~A~e~gms   45 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHL---GLKL-----V------SAGTIFREMARERGMS   45 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHh---CCce-----e------eccHHHHHHHHHcCCC
Confidence            68999999999999999999998   2221     1      2236788888888765

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=96.99  E-value=0.0063  Score=52.82  Aligned_cols=40  Identities=30%  Similarity=0.252  Sum_probs=30.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCC
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASK  124 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~  124 (371)
                      ....+.|.|++|+|||+|+.+++....   ..-..++|++...
T Consensus        19 ~G~~~~i~G~~G~GKT~l~~~~~~~~~---~~g~~~~~is~e~   58 (229)
T TIGR03881        19 RGFFVAVTGEPGTGKTIFCLHFAYKGL---RDGDPVIYVTTEE   58 (229)
T ss_pred             CCeEEEEECCCCCChHHHHHHHHHHHH---hcCCeEEEEEccC
Confidence            457999999999999999999876542   1234678887644

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.

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

Probab=96.99  E-value=0.0033  Score=55.47  Aligned_cols=94  Identities=14%  Similarity=0.258  Sum_probs=54.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcC-CHHHHHHHHHHHhccCC----CCCCcCCHHH---
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDL-QLEQIQGSIAKKINLFN----ESWNSRSLQE---  153 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~l~~~l~~~~----~~~~~~~~~~---  153 (371)
                      +...++|.|.+|+|||+|++++++...  ..+-+.++++-++... .+.++.+.+...=....    -......+..   
T Consensus        68 ~GQr~~If~~~G~GKTtLa~~i~~~i~--~~~~~~~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~  145 (274)
T cd01133          68 KGGKIGLFGGAGVGKTVLIMELINNIA--KAHGGYSVFAGVGERTREGNDLYHEMKESGVLSKTALVYGQMNEPPGARAR  145 (274)
T ss_pred             cCCEEEEecCCCCChhHHHHHHHHHHH--hcCCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHH
Confidence            455889999999999999999999872  1223355666665543 45566666554211100    0001111211   


Q ss_pred             ---HHHHHHHHh---CCCceEEEEeCCCCc
Q 043737          154 ---KSQDIVKNM---SNKKFVLLLDHIWEL  177 (371)
Q Consensus       154 ---~~~~l~~~l---~~~~~LlVlDdv~~~  177 (371)
                         ..-.+.+++   +++.+|+++||+-+.
T Consensus       146 ~~~~a~~~AEyfr~~~g~~Vl~~~Dsltr~  175 (274)
T cd01133         146 VALTGLTMAEYFRDEEGQDVLLFIDNIFRF  175 (274)
T ss_pred             HHHHHHHHHHHHHHhcCCeEEEEEeChhHH
Confidence               122233444   388999999998543

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.

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=96.98  E-value=0.0011  Score=55.50  Aligned_cols=23  Identities=30%  Similarity=0.346  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +|+|.|++|+||||+|+.+++..
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~~   23 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVENF   23 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            47899999999999999998886

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.

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=96.98  E-value=0.0016  Score=50.99  Aligned_cols=39  Identities=23%  Similarity=0.269  Sum_probs=29.6

Q ss_pred             hHHHHHHHHHhc--CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           69 STFDRVWRCLME--EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        69 ~~~~~l~~~L~~--~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ++..++-+.|..  ....++.|.|+-|+|||||++.+++.+
T Consensus         6 ~~t~~l~~~l~~~l~~~~~i~l~G~lGaGKTtl~~~l~~~l   46 (133)
T TIGR00150         6 KAMDKFGKAFAKPLDFGTVVLLKGDLGAGKTTLVQGLLQGL   46 (133)
T ss_pred             HHHHHHHHHHHHhCCCCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            344455444443  344699999999999999999999987

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.

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=96.98  E-value=0.0028  Score=62.93  Aligned_cols=76  Identities=13%  Similarity=0.115  Sum_probs=51.2

Q ss_pred             CCCccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHh
Q 043737           60 LPPTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKI  139 (371)
Q Consensus        60 ~~~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l  139 (371)
                      ..+.++|.++.++.+..++.+.  +.+.++|++|+|||++++.+++.+.  ...|..++++.-. ..+..+++..++..+
T Consensus        16 ~~~~viG~~~a~~~l~~a~~~~--~~~ll~G~pG~GKT~la~~la~~l~--~~~~~~~~~~~n~-~~~~~~~~~~v~~~~   90 (608)
T TIGR00764        16 LIDQVIGQEEAVEIIKKAAKQK--RNVLLIGEPGVGKSMLAKAMAELLP--DEELEDILVYPNP-EDPNMPRIVEVPAGE   90 (608)
T ss_pred             hHhhccCHHHHHHHHHHHHHcC--CCEEEECCCCCCHHHHHHHHHHHcC--chhheeEEEEeCC-CCCchHHHHHHHHhh
Confidence            3467899999888888877554  3677999999999999999998883  2233333433322 224445555555554


Q ss_pred             c
Q 043737          140 N  140 (371)
Q Consensus       140 ~  140 (371)
                      +
T Consensus        91 g   91 (608)
T TIGR00764        91 G   91 (608)
T ss_pred             c
Confidence            3

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

>COG3910 Predicted ATPase [General function prediction only]

Probab=96.98  E-value=0.0036  Score=51.26  Aligned_cols=136  Identities=13%  Similarity=0.082  Sum_probs=69.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhccC----CCCCCCeEEEEE-----------------------eCCcCCHHHHHH
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKFLH----TPNDFDFVIWVV-----------------------ASKDLQLEQIQG  133 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~----~~~~f~~~~wv~-----------------------~~~~~~~~~~~~  133 (371)
                      =..++-+|+|..|+|||||...++-...-    ....|..-+..+                       ...-.++..-+.
T Consensus        35 F~apIT~i~GENGsGKSTLLEaiA~~~~~n~aGg~~n~~~~~~~s~s~l~~~~k~~~~~k~~~g~FlRAEs~yn~as~~D  114 (233)
T COG3910          35 FRAPITFITGENGSGKSTLLEAIAAGMGFNAAGGGKNFKGELDASHSALVDYAKLHKRKKPPIGFFLRAESFYNVASYLD  114 (233)
T ss_pred             ccCceEEEEcCCCccHHHHHHHHHhhccccccCCCcCcCcccccccchHHHhHHHhhcCCCCcceEEehhHHHHHHHHHH
Confidence            36789999999999999999888766521    111122111111                       111112222222


Q ss_pred             HHHHHhccCCCCCCcCCHHH-HHHHHHHHhCCCceEEEEeCCCCcc----cccccccccCCCCCCCcEEEEecCchHHHh
Q 043737          134 SIAKKINLFNESWNSRSLQE-KSQDIVKNMSNKKFVLLLDHIWELV----DLSQVGLPVPCRTSASNKTVFTARELEVCG  208 (371)
Q Consensus       134 ~l~~~l~~~~~~~~~~~~~~-~~~~l~~~l~~~~~LlVlDdv~~~~----~~~~~~~~l~~~~~~~~~iliTsR~~~~~~  208 (371)
                      ++........++....+..+ ....+...+.++ =+.|||+-+...    +++.+...-. ....|+.|||.|.++-+..
T Consensus       115 e~~~e~~~~~~sLh~~SHGEsf~~i~~~rf~~~-GiYiLDEPEa~LSp~RQlella~l~~-la~sGaQ~IiATHSPiLlA  192 (233)
T COG3910         115 EADGEANYGGRSLHHMSHGESFLAIFHNRFNGQ-GIYILDEPEAALSPSRQLELLAILRD-LADSGAQIIIATHSPILLA  192 (233)
T ss_pred             hhhhhcccCCcchhhhccchHHHHHHHHHhccC-ceEEecCccccCCHHHHHHHHHHHHH-HHhcCCeEEEEecChhhee
Confidence            22222222222222333333 334444444444 488999986542    2222222222 3456789999999876654


Q ss_pred             hccCCCceeec
Q 043737          209 QMEAHKSFKVE  219 (371)
Q Consensus       209 ~~~~~~~~~l~  219 (371)
                       +.....+++.
T Consensus       193 -iP~A~I~~~~  202 (233)
T COG3910         193 -IPGAEIYEIS  202 (233)
T ss_pred             -CCCcEEEEEe
Confidence             3555555553

>PRK08233 hypothetical protein; Provisional

Probab=96.98  E-value=0.00072  Score=56.36  Aligned_cols=25  Identities=28%  Similarity=0.418  Sum_probs=23.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+|+|.|++|+||||||..++..+
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~l   27 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHKL   27 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhC
Confidence            4689999999999999999999887

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

Probab=96.97  E-value=0.0056  Score=52.35  Aligned_cols=25  Identities=28%  Similarity=0.343  Sum_probs=21.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      ..-.|+|.|++|+|||||...+.--
T Consensus        30 ~Ge~vaI~GpSGSGKSTLLniig~l   54 (226)
T COG1136          30 AGEFVAIVGPSGSGKSTLLNLLGGL   54 (226)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcc
Confidence            4459999999999999999877544

>PRK14974 cell division protein FtsY; Provisional

Probab=96.97  E-value=0.0079  Score=55.03  Aligned_cols=93  Identities=14%  Similarity=0.121  Sum_probs=52.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCc-CCHHHHHHHHHHHhccCCCC-CCcCCHHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKD-LQLEQIQGSIAKKINLFNES-WNSRSLQEKSQDIV  159 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~l~~~l~~~~~~-~~~~~~~~~~~~l~  159 (371)
                      +..++.++|++|+||||++..++..+.  ...+ .+..+..... ......+...+..++.+... ....++........
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~~l~--~~g~-~V~li~~Dt~R~~a~eqL~~~a~~lgv~v~~~~~g~dp~~v~~~ai  215 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAYYLK--KNGF-SVVIAAGDTFRAGAIEQLEEHAERLGVKVIKHKYGADPAAVAYDAI  215 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHH--HcCC-eEEEecCCcCcHHHHHHHHHHHHHcCCceecccCCCCHHHHHHHHH
Confidence            357999999999999999999988773  2222 3444543321 22334456667777653221 12233333322222


Q ss_pred             HHh-CCCceEEEEeCCCCc
Q 043737          160 KNM-SNKKFVLLLDHIWEL  177 (371)
Q Consensus       160 ~~l-~~~~~LlVlDdv~~~  177 (371)
                      +.. ....-++++|.....
T Consensus       216 ~~~~~~~~DvVLIDTaGr~  234 (336)
T PRK14974        216 EHAKARGIDVVLIDTAGRM  234 (336)
T ss_pred             HHHHhCCCCEEEEECCCcc
Confidence            222 222239999998543

>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=96.96  E-value=0.00097  Score=53.64  Aligned_cols=36  Identities=22%  Similarity=0.151  Sum_probs=27.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEE
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVV  121 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~  121 (371)
                      ..+|.|+|.+|+||||||+.+.+++   ......+.+++
T Consensus         2 g~vIwltGlsGsGKtTlA~~L~~~L---~~~g~~~~~LD   37 (156)
T PF01583_consen    2 GFVIWLTGLSGSGKTTLARALERRL---FARGIKVYLLD   37 (156)
T ss_dssp             -EEEEEESSTTSSHHHHHHHHHHHH---HHTTS-EEEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHH---HHcCCcEEEec
Confidence            4589999999999999999999998   33334566664

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 ....

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=96.95  E-value=0.0038  Score=58.76  Aligned_cols=25  Identities=24%  Similarity=0.388  Sum_probs=23.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+|.++|+.|+||||++..++..+
T Consensus       100 ~~vi~lvG~~GvGKTTtaaKLA~~l  124 (429)
T TIGR01425       100 QNVIMFVGLQGSGKTTTCTKLAYYY  124 (429)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            5799999999999999999998877

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.

>PRK14527 adenylate kinase; Provisional

Probab=96.95  E-value=0.0015  Score=55.07  Aligned_cols=26  Identities=19%  Similarity=0.272  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|++|+||||+|+.+++..
T Consensus         5 ~~~~i~i~G~pGsGKsT~a~~La~~~   30 (191)
T PRK14527          5 KNKVVIFLGPPGAGKGTQAERLAQEL   30 (191)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            45789999999999999999998876

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=96.95  E-value=0.0081  Score=55.46  Aligned_cols=89  Identities=20%  Similarity=0.181  Sum_probs=53.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcC-CHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDL-QLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVK  160 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~  160 (371)
                      +.++|.++||.|+||||-..+++.+. ...+.-..+..++.+... ...+-++..+.-++.+..  ...++.+....+..
T Consensus       202 ~~~vi~LVGPTGVGKTTTlAKLAar~-~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~--vv~~~~el~~ai~~  278 (407)
T COG1419         202 QKRVIALVGPTGVGKTTTLAKLAARY-VMLKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPLE--VVYSPKELAEAIEA  278 (407)
T ss_pred             cCcEEEEECCCCCcHHHHHHHHHHHH-HhhccCcceEEEEeccchhhHHHHHHHHHHHhCCceE--EecCHHHHHHHHHH
Confidence            47899999999999986555555554 122444567777665432 445666777777776543  33444444444433


Q ss_pred             HhCCCceEEEEeCCC
Q 043737          161 NMSNKKFVLLLDHIW  175 (371)
Q Consensus       161 ~l~~~~~LlVlDdv~  175 (371)
                       +++.. ++.+|-+.
T Consensus       279 -l~~~d-~ILVDTaG  291 (407)
T COG1419         279 -LRDCD-VILVDTAG  291 (407)
T ss_pred             -hhcCC-EEEEeCCC
Confidence             33333 66677664

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=96.95  E-value=0.004  Score=51.54  Aligned_cols=116  Identities=15%  Similarity=0.112  Sum_probs=58.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCC--CC---CC--CeEEEEEeCCcCCHHHHHHHHHHHhccCCC----CCCcCC
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHT--PN---DF--DFVIWVVASKDLQLEQIQGSIAKKINLFNE----SWNSRS  150 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~--~~---~f--~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~----~~~~~~  150 (371)
                      ...+++|.|+.|+|||||.+.+......+  ..   .+  ..+.|+.  +        .+.+..++....    ....-+
T Consensus        20 ~G~~~~l~G~nG~GKSTLl~~il~~~G~v~~~~~~~~~~~~~~~~~~--q--------~~~l~~~~L~~~~~~~~~~~LS   89 (176)
T cd03238          20 LNVLVVVTGVSGSGKSTLVNEGLYASGKARLISFLPKFSRNKLIFID--Q--------LQFLIDVGLGYLTLGQKLSTLS   89 (176)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhhcCCcEEECCcccccccccEEEEh--H--------HHHHHHcCCCccccCCCcCcCC
Confidence            45699999999999999999886321100  00   00  0122321  1        345566654321    111222


Q ss_pred             HHHH-HHHHHHHhCCC--ceEEEEeCCCCccc---ccccccccCCCCCCCcEEEEecCchHHH
Q 043737          151 LQEK-SQDIVKNMSNK--KFVLLLDHIWELVD---LSQVGLPVPCRTSASNKTVFTARELEVC  207 (371)
Q Consensus       151 ~~~~-~~~l~~~l~~~--~~LlVlDdv~~~~~---~~~~~~~l~~~~~~~~~iliTsR~~~~~  207 (371)
                      ..+. .-.+...+-.+  +-++++|+-....+   .+.+...+......+..||++|.+....
T Consensus        90 gGq~qrl~laral~~~~~p~llLlDEPt~~LD~~~~~~l~~~l~~~~~~g~tvIivSH~~~~~  152 (176)
T cd03238          90 GGELQRVKLASELFSEPPGTLFILDEPSTGLHQQDINQLLEVIKGLIDLGNTVILIEHNLDVL  152 (176)
T ss_pred             HHHHHHHHHHHHHhhCCCCCEEEEeCCcccCCHHHHHHHHHHHHHHHhCCCEEEEEeCCHHHH
Confidence            2222 22233333445  66999999754322   2222222221112466788888776654

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

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

Probab=96.94  E-value=0.0035  Score=58.89  Aligned_cols=47  Identities=17%  Similarity=0.182  Sum_probs=37.1

Q ss_pred             CCccccchhHHHHHHHHHhc----------C--------CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           61 PPTVVGLQSTFDRVWRCLME----------E--------QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~----------~--------~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...++|.++..+.+..++.+          .        ....+.++|++|+|||+||+.++..+
T Consensus        76 ~~~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~~l  140 (413)
T TIGR00382        76 DEYVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARIL  140 (413)
T ss_pred             cceecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHHhc
Confidence            46679999998888766521          0        12579999999999999999999776

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.

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

Probab=96.94  E-value=0.00056  Score=51.69  Aligned_cols=22  Identities=32%  Similarity=0.625  Sum_probs=20.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043737           86 VGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        86 v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      |.|+|++|+|||+||..++..+
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l   22 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDL   22 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHH
Confidence            5799999999999999988887

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

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=96.94  E-value=0.0055  Score=59.44  Aligned_cols=88  Identities=17%  Similarity=0.137  Sum_probs=57.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCC-------------CCc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNES-------------WNS  148 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~-------------~~~  148 (371)
                      ...++.|.|++|+|||||+.+++....   ..-..+++++...  +..++.... ..++.....             ...
T Consensus       262 ~gs~~li~G~~G~GKt~l~~~f~~~~~---~~ge~~~y~s~eE--s~~~i~~~~-~~lg~~~~~~~~~g~l~~~~~~p~~  335 (484)
T TIGR02655       262 KDSIILATGATGTGKTLLVSKFLENAC---ANKERAILFAYEE--SRAQLLRNA-YSWGIDFEEMEQQGLLKIICAYPES  335 (484)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHH---HCCCeEEEEEeeC--CHHHHHHHH-HHcCCChHHHhhCCcEEEEEccccc
Confidence            457999999999999999999998863   2334577776654  445555443 344432111             123


Q ss_pred             CCHHHHHHHHHHHhCC-CceEEEEeCCC
Q 043737          149 RSLQEKSQDIVKNMSN-KKFVLLLDHIW  175 (371)
Q Consensus       149 ~~~~~~~~~l~~~l~~-~~~LlVlDdv~  175 (371)
                      ...++.+..+.+.+.. ++-.+|+|.+.
T Consensus       336 ~~~~~~~~~i~~~i~~~~~~~vvIDsi~  363 (484)
T TIGR02655       336 AGLEDHLQIIKSEIADFKPARIAIDSLS  363 (484)
T ss_pred             CChHHHHHHHHHHHHHcCCCEEEEcCHH
Confidence            3456677777777654 55689999985

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.

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

Probab=96.93  E-value=0.00091  Score=61.85  Aligned_cols=105  Identities=10%  Similarity=0.140  Sum_probs=58.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKN  161 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~  161 (371)
                      ..+-+.|||..|.|||.|.-.+++... .+..          ...-...+..++-+.+.....  ..    +.+..+.+.
T Consensus        61 ~~~GlYl~G~vG~GKT~Lmd~f~~~lp-~~~k----------~R~HFh~Fm~~vh~~l~~~~~--~~----~~l~~va~~  123 (362)
T PF03969_consen   61 PPKGLYLWGPVGRGKTMLMDLFYDSLP-IKRK----------RRVHFHEFMLDVHSRLHQLRG--QD----DPLPQVADE  123 (362)
T ss_pred             CCceEEEECCCCCchhHHHHHHHHhCC-cccc----------ccccccHHHHHHHHHHHHHhC--CC----ccHHHHHHH
Confidence            467899999999999999999999983 2111          111223455555444432110  11    223344455


Q ss_pred             hCCCceEEEEeCCC--CcccccccccccCCCCCCCcEEEEecCc
Q 043737          162 MSNKKFVLLLDHIW--ELVDLSQVGLPVPCRTSASNKTVFTARE  203 (371)
Q Consensus       162 l~~~~~LlVlDdv~--~~~~~~~~~~~l~~~~~~~~~iliTsR~  203 (371)
                      +.++..||.||+++  +..+---+...+......|..++.||-.
T Consensus       124 l~~~~~lLcfDEF~V~DiaDAmil~rLf~~l~~~gvvlVaTSN~  167 (362)
T PF03969_consen  124 LAKESRLLCFDEFQVTDIADAMILKRLFEALFKRGVVLVATSNR  167 (362)
T ss_pred             HHhcCCEEEEeeeeccchhHHHHHHHHHHHHHHCCCEEEecCCC
Confidence            55666799999985  3333211222222233456555555543

AFG1 also has substantial homology to these proteins outside the ATPase domain []. This family of proteins contains a P-loop motif.; GO: 0005524 ATP binding

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=96.93  E-value=0.0071  Score=54.14  Aligned_cols=82  Identities=15%  Similarity=0.026  Sum_probs=43.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHH
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVK  160 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~  160 (371)
                      ..+.+|+|.|+.|+||||+|+.+..-+... ..-..+..++...-...........  +.....-....+.......+..
T Consensus        60 ~~p~IIGIaG~~GSGKSTlar~L~~ll~~~-~~~g~V~vi~~D~f~~~~~~l~~~g--~~~~~g~P~s~D~~~l~~~L~~  136 (290)
T TIGR00554        60 KIPYIISIAGSVAVGKSTTARILQALLSRW-PEHRKVELITTDGFLHPNQVLKERN--LMKKKGFPESYDMHRLVKFLSD  136 (290)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHhhc-CCCCceEEEecccccccHHHHHHcC--CccccCCChhccHHHHHHHHHH
Confidence            346799999999999999998776655211 1112345555444332223222211  1111111245566666666666


Q ss_pred             HhCCC
Q 043737          161 NMSNK  165 (371)
Q Consensus       161 ~l~~~  165 (371)
                      ...++
T Consensus       137 Lk~g~  141 (290)
T TIGR00554       137 LKSGK  141 (290)
T ss_pred             HHCCC
Confidence            55544

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.

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

Probab=96.93  E-value=0.0018  Score=56.10  Aligned_cols=89  Identities=20%  Similarity=0.146  Sum_probs=55.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccC-------------CCCCC-
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLF-------------NESWN-  147 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~-------------~~~~~-  147 (371)
                      ...++.|.|++|+|||+|+.+++....  ...-..++|++....  ..++.+.+. .++..             ..... 
T Consensus        18 ~gs~~li~G~~GsGKT~l~~q~l~~~~--~~~ge~vlyvs~ee~--~~~l~~~~~-s~g~d~~~~~~~g~l~~~d~~~~~   92 (226)
T PF06745_consen   18 KGSVVLISGPPGSGKTTLALQFLYNGL--KNFGEKVLYVSFEEP--PEELIENMK-SFGWDLEEYEDSGKLKIIDAFPER   92 (226)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHH--HHHT--EEEEESSS---HHHHHHHHH-TTTS-HHHHHHTTSEEEEESSGGG
T ss_pred             CCcEEEEEeCCCCCcHHHHHHHHHHhh--hhcCCcEEEEEecCC--HHHHHHHHH-HcCCcHHHHhhcCCEEEEeccccc
Confidence            457999999999999999999876642  111346788887654  344444432 33221             00001 


Q ss_pred             ----cCCHHHHHHHHHHHhCC-CceEEEEeCCC
Q 043737          148 ----SRSLQEKSQDIVKNMSN-KKFVLLLDHIW  175 (371)
Q Consensus       148 ----~~~~~~~~~~l~~~l~~-~~~LlVlDdv~  175 (371)
                          ..+.......+.+.++. +...+|+|.+.
T Consensus        93 ~~~~~~~~~~l~~~i~~~i~~~~~~~vVIDsls  125 (226)
T PF06745_consen   93 IGWSPNDLEELLSKIREAIEELKPDRVVIDSLS  125 (226)
T ss_dssp             ST-TSCCHHHHHHHHHHHHHHHTSSEEEEETHH
T ss_pred             ccccccCHHHHHHHHHHHHHhcCCCEEEEECHH
Confidence                35677777777776654 45799999974

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 ....

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=96.92  E-value=0.007  Score=52.57  Aligned_cols=49  Identities=16%  Similarity=0.170  Sum_probs=33.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSI  135 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l  135 (371)
                      ...++.|.|++|+|||||+.+++....  + .-..+++++...  +..++.+.+
T Consensus        23 ~g~~~~i~G~~G~GKTtl~~~~~~~~~--~-~g~~~~yi~~e~--~~~~~~~~~   71 (230)
T PRK08533         23 AGSLILIEGDESTGKSILSQRLAYGFL--Q-NGYSVSYVSTQL--TTTEFIKQM   71 (230)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHH--h-CCCcEEEEeCCC--CHHHHHHHH
Confidence            345999999999999999988877652  1 124566666433  455666555

>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=96.92  E-value=0.0026  Score=56.47  Aligned_cols=25  Identities=28%  Similarity=0.324  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhcc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKFL  108 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~~  108 (371)
                      ++|.|+|.+|+||||+|+++...+.
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~~~~   26 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKKYLE   26 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHHHHH
T ss_pred             EEEEEEcCCCCcHHHHHHHHHHHHH
Confidence            5799999999999999999999883

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>TIGR00416 sms DNA repair protein RadA

Probab=96.92  E-value=0.0044  Score=59.33  Aligned_cols=86  Identities=20%  Similarity=0.253  Sum_probs=50.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCC---CcCCHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESW---NSRSLQEKSQDI  158 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~---~~~~~~~~~~~l  158 (371)
                      ...++.|.|++|+|||||+.+++....   ..-..++|++...  +..++.. -+..++......   ...+.+.+...+
T Consensus        93 ~GsvilI~G~pGsGKTTL~lq~a~~~a---~~g~kvlYvs~EE--s~~qi~~-ra~rlg~~~~~l~~~~e~~~~~I~~~i  166 (454)
T TIGR00416        93 PGSLILIGGDPGIGKSTLLLQVACQLA---KNQMKVLYVSGEE--SLQQIKM-RAIRLGLPEPNLYVLSETNWEQICANI  166 (454)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHH---hcCCcEEEEECcC--CHHHHHH-HHHHcCCChHHeEEcCCCCHHHHHHHH
Confidence            457999999999999999999988763   2223577877643  3333322 223343321111   122333333333


Q ss_pred             HHHhCCCceEEEEeCCCC
Q 043737          159 VKNMSNKKFVLLLDHIWE  176 (371)
Q Consensus       159 ~~~l~~~~~LlVlDdv~~  176 (371)
                      .   +.+.-++|+|.+..
T Consensus       167 ~---~~~~~~vVIDSIq~  181 (454)
T TIGR00416       167 E---EENPQACVIDSIQT  181 (454)
T ss_pred             H---hcCCcEEEEecchh
Confidence            2   23566899999864

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)).

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=96.91  E-value=0.0033  Score=63.31  Aligned_cols=86  Identities=15%  Similarity=0.161  Sum_probs=56.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCC---CcCCHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESW---NSRSLQEKSQDI  158 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~---~~~~~~~~~~~l  158 (371)
                      ..+++-|+|++|+|||||+.+++...   ...-..++|++.....+.     ..++.++......   ...+.++....+
T Consensus        59 ~GsiteI~G~~GsGKTtLal~~~~~a---~~~G~~v~yId~E~t~~~-----~~A~~lGvDl~~llv~~~~~~E~~l~~i  130 (790)
T PRK09519         59 RGRVIEIYGPESSGKTTVALHAVANA---QAAGGVAAFIDAEHALDP-----DYAKKLGVDTDSLLVSQPDTGEQALEIA  130 (790)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH---HHcCCcEEEECCccchhH-----HHHHHcCCChhHeEEecCCCHHHHHHHH
Confidence            46799999999999999999987765   222356789887765553     2556665532211   233445555555


Q ss_pred             HHHhCC-CceEEEEeCCC
Q 043737          159 VKNMSN-KKFVLLLDHIW  175 (371)
Q Consensus       159 ~~~l~~-~~~LlVlDdv~  175 (371)
                      ...+.. ..-|+|+|.+.
T Consensus       131 ~~lv~~~~~~LVVIDSI~  148 (790)
T PRK09519        131 DMLIRSGALDIVVIDSVA  148 (790)
T ss_pred             HHHhhcCCCeEEEEcchh
Confidence            555543 56699999985

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

Probab=96.91  E-value=0.00078  Score=46.37  Aligned_cols=23  Identities=22%  Similarity=0.485  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +++|.|.+|+||||+++.+.+.+
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999999885

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.

>PF13245 AAA_19: Part of AAA domain

Probab=96.90  E-value=0.0025  Score=44.68  Aligned_cols=42  Identities=19%  Similarity=0.139  Sum_probs=26.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccC-CCCCCCeEEEEEeC
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLH-TPNDFDFVIWVVAS  123 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~-~~~~f~~~~wv~~~  123 (371)
                      +.+++.|.|++|+|||+++.+.+..+.. .......++.+..+
T Consensus         9 ~~~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t   51 (76)
T PF13245_consen    9 GSPLFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPT   51 (76)
T ss_pred             hCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCC
Confidence            4568888999999999766666555521 12223456665443

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=96.89  E-value=0.01  Score=54.43  Aligned_cols=93  Identities=14%  Similarity=0.181  Sum_probs=55.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccC---CCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCC-------CcCCH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLH---TPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESW-------NSRSL  151 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~---~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~-------~~~~~  151 (371)
                      ...++-|+|++|+|||+|+.+++-....   ....-..++|++....++++++. ++++.++......       ...+.
T Consensus       122 ~g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl~-qia~~~~~~~~~~l~~i~~~~~~~~  200 (342)
T PLN03186        122 TGSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRLI-QIAERFGLNGADVLENVAYARAYNT  200 (342)
T ss_pred             CceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHHH-HHHHHcCCChhhhccceEEEecCCH
Confidence            3568889999999999999988755311   01122379999998877776654 4455555432110       11233


Q ss_pred             HHHHHHH---HHHhC-CCceEEEEeCCC
Q 043737          152 QEKSQDI---VKNMS-NKKFVLLLDHIW  175 (371)
Q Consensus       152 ~~~~~~l---~~~l~-~~~~LlVlDdv~  175 (371)
                      +.....+   ...+. .+.-|||+|.+.
T Consensus       201 e~~~~ll~~~~~~~~~~~~~LIVIDSI~  228 (342)
T PLN03186        201 DHQSELLLEAASMMAETRFALMIVDSAT  228 (342)
T ss_pred             HHHHHHHHHHHHHhhccCCCEEEEeCcH
Confidence            3332222   22232 345588888874

>PRK06762 hypothetical protein; Provisional

Probab=96.88  E-value=0.00093  Score=54.88  Aligned_cols=25  Identities=24%  Similarity=0.432  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +.+|.|+|++|+||||+|+.+.+.+
T Consensus         2 ~~li~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          2 TTLIIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998886

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=96.88  E-value=0.006  Score=53.43  Aligned_cols=51  Identities=14%  Similarity=0.140  Sum_probs=35.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIA  136 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~  136 (371)
                      ...++.|.|++|+|||+++.+++.+..  ..+-..++|++...  +..++...+.
T Consensus        12 ~G~l~lI~G~~G~GKT~~~~~~~~~~~--~~~g~~vly~s~E~--~~~~~~~r~~   62 (242)
T cd00984          12 PGDLIIIAARPSMGKTAFALNIAENIA--KKQGKPVLFFSLEM--SKEQLLQRLL   62 (242)
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHH--HhCCCceEEEeCCC--CHHHHHHHHH
Confidence            346999999999999999999888762  22234677777654  3444444443

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

>PTZ00301 uridine kinase; Provisional

Probab=96.88  E-value=0.00093  Score=56.97  Aligned_cols=25  Identities=28%  Similarity=0.523  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+|+|.|++|+||||||+.+.+.+
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~~l   27 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVSEL   27 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHHHH
Confidence            4689999999999999999988776

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=96.88  E-value=0.013  Score=52.02  Aligned_cols=126  Identities=17%  Similarity=0.081  Sum_probs=65.1

Q ss_pred             HHHHHHHhc-CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhcc-CCCC----
Q 043737           72 DRVWRCLME-EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINL-FNES----  145 (371)
Q Consensus        72 ~~l~~~L~~-~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~-~~~~----  145 (371)
                      +.++..+.+ .....++|.|+.|+|||||.+.++....    ...+.+++.-..-... +-..++...... +...    
T Consensus        99 ~~~l~~l~~~~~~~~~~i~g~~g~GKttl~~~l~~~~~----~~~G~i~~~g~~v~~~-d~~~ei~~~~~~~~q~~~~~r  173 (270)
T TIGR02858        99 DKLLPYLVRNNRVLNTLIISPPQCGKTTLLRDLARILS----TGISQLGLRGKKVGIV-DERSEIAGCVNGVPQHDVGIR  173 (270)
T ss_pred             HHHHHHHHhCCCeeEEEEEcCCCCCHHHHHHHHhCccC----CCCceEEECCEEeecc-hhHHHHHHHhccccccccccc
Confidence            444444443 3456899999999999999999998762    2233344321111001 111233322211 1110    


Q ss_pred             CCcCCHHHHHHHHHHHhC-CCceEEEEeCCCCcccccccccccCCCCCCCcEEEEecCchHH
Q 043737          146 WNSRSLQEKSQDIVKNMS-NKKFVLLLDHIWELVDLSQVGLPVPCRTSASNKTVFTARELEV  206 (371)
Q Consensus       146 ~~~~~~~~~~~~l~~~l~-~~~~LlVlDdv~~~~~~~~~~~~l~~~~~~~~~iliTsR~~~~  206 (371)
                      ....+.......+...+. -.+-++++|++.....+..+...+    ..|..+|+||-+..+
T Consensus       174 ~~v~~~~~k~~~~~~~i~~~~P~villDE~~~~e~~~~l~~~~----~~G~~vI~ttH~~~~  231 (270)
T TIGR02858       174 TDVLDGCPKAEGMMMLIRSMSPDVIVVDEIGREEDVEALLEAL----HAGVSIIATAHGRDV  231 (270)
T ss_pred             ccccccchHHHHHHHHHHhCCCCEEEEeCCCcHHHHHHHHHHH----hCCCEEEEEechhHH
Confidence            011111111222333333 467799999987655444443322    247789999987554

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.

>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=96.86  E-value=0.0023  Score=55.47  Aligned_cols=56  Identities=18%  Similarity=0.236  Sum_probs=35.5

Q ss_pred             HHHHHHHHHhc--CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcC
Q 043737           70 TFDRVWRCLME--EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDL  126 (371)
Q Consensus        70 ~~~~l~~~L~~--~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~  126 (371)
                      ...++++.+..  ++..+|+|+|++|+|||||+..+...+. ..++--.++-++-+...
T Consensus        14 ~~~~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~~~~~-~~g~~VaVlAVDPSSp~   71 (266)
T PF03308_consen   14 EARELLKRLYPHTGRAHVIGITGPPGAGKSTLIDALIRELR-ERGKRVAVLAVDPSSPF   71 (266)
T ss_dssp             HHHHHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHHHHHHH-HTT--EEEEEE-GGGGC
T ss_pred             HHHHHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHHHHHHh-hcCCceEEEEECCCCCC
Confidence            33455555543  4678999999999999999999999883 23333455555544443

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.

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

Probab=96.85  E-value=0.0023  Score=59.68  Aligned_cols=38  Identities=24%  Similarity=0.233  Sum_probs=31.3

Q ss_pred             HHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           70 TFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        70 ~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .++.+++.+.......++|.|+||+|||+|.+.+.+..
T Consensus         9 ~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~~~~   46 (364)
T PF05970_consen    9 VFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAIIDYL   46 (364)
T ss_pred             HHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHHHHh
Confidence            34555666666667899999999999999999999888

The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].

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

Probab=96.85  E-value=0.0032  Score=57.95  Aligned_cols=64  Identities=25%  Similarity=0.293  Sum_probs=48.0

Q ss_pred             CccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHH
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQG  133 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  133 (371)
                      ..++|+++.+..+..++..+  +.+.+.|++|+|||+||+.++...   ..   ..+++.+.......++.-
T Consensus        24 ~~~~g~~~~~~~~l~a~~~~--~~vll~G~PG~gKT~la~~lA~~l---~~---~~~~i~~t~~l~p~d~~G   87 (329)
T COG0714          24 KVVVGDEEVIELALLALLAG--GHVLLEGPPGVGKTLLARALARAL---GL---PFVRIQCTPDLLPSDLLG   87 (329)
T ss_pred             CeeeccHHHHHHHHHHHHcC--CCEEEECCCCccHHHHHHHHHHHh---CC---CeEEEecCCCCCHHHhcC
Confidence            44899998888887777544  488899999999999999999998   32   345566666555555543

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.85  E-value=0.0059  Score=56.99  Aligned_cols=90  Identities=13%  Similarity=0.118  Sum_probs=54.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCC-CCCCeEEEEEeCCcC-CHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHH
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTP-NDFDFVIWVVASKDL-QLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVK  160 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~-~~f~~~~wv~~~~~~-~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~  160 (371)
                      .++|.++|+.|+||||.+..++..+.... ..-..+..++..... ....-+..+++.++.+..  ......+....+..
T Consensus       174 ~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~--~~~~~~~l~~~L~~  251 (388)
T PRK12723        174 KRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPVK--AIESFKDLKEEITQ  251 (388)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcceE--eeCcHHHHHHHHHH
Confidence            57999999999999999999988762111 123356666665421 223336666666665432  23334444444433


Q ss_pred             HhCCCceEEEEeCCCC
Q 043737          161 NMSNKKFVLLLDHIWE  176 (371)
Q Consensus       161 ~l~~~~~LlVlDdv~~  176 (371)
                       + .+.-++++|....
T Consensus       252 -~-~~~DlVLIDTaGr  265 (388)
T PRK12723        252 -S-KDFDLVLVDTIGK  265 (388)
T ss_pred             -h-CCCCEEEEcCCCC
Confidence             3 3445899998853

>PF00006 ATP-synt_ab: ATP synthase alpha/beta family, nucleotide-binding domain This Pfam entry corresponds to chains a,b,c,d,e and f; InterPro: IPR000194 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane

Probab=96.84  E-value=0.011  Score=50.61  Aligned_cols=95  Identities=18%  Similarity=0.276  Sum_probs=56.6

Q ss_pred             HHHHhc-CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCc-CCHHHHHHHHHHHhccCC----CCCCc
Q 043737           75 WRCLME-EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKD-LQLEQIQGSIAKKINLFN----ESWNS  148 (371)
Q Consensus        75 ~~~L~~-~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~l~~~l~~~~----~~~~~  148 (371)
                      ++.|.. .+...++|.|.+|+|||+|+.++++..     .-+.++++.++.. ....++.+++...-....    -....
T Consensus         6 ID~l~Pig~Gqr~~I~g~~g~GKt~Ll~~i~~~~-----~~d~~V~~~iGer~~Ev~~~~~~~~~~~~~~~t~vv~~t~~   80 (215)
T PF00006_consen    6 IDLLFPIGRGQRIGIFGGAGVGKTVLLQEIANNQ-----DADVVVYALIGERGREVTEFIEELKGEGALERTVVVAATSD   80 (215)
T ss_dssp             HHHHSCEETTSEEEEEESTTSSHHHHHHHHHHHC-----TTTEEEEEEESECHHHHHHHHHHHHHTTGGGGEEEEEEETT
T ss_pred             eccccccccCCEEEEEcCcccccchhhHHHHhcc-----cccceeeeeccccchhHHHHHHHHhhcccccccccccccch
Confidence            444433 344588999999999999999999887     2344577777654 356666666644311100    00011


Q ss_pred             CCHHH----------HHHHHHHHhCCCceEEEEeCCCC
Q 043737          149 RSLQE----------KSQDIVKNMSNKKFVLLLDHIWE  176 (371)
Q Consensus       149 ~~~~~----------~~~~l~~~l~~~~~LlVlDdv~~  176 (371)
                      ..+..          ..+.++.  +++.+|+++||+..
T Consensus        81 ~~~~~r~~~~~~a~t~AEyfrd--~G~dVlli~Dsltr  116 (215)
T PF00006_consen   81 EPPAARYRAPYTALTIAEYFRD--QGKDVLLIIDSLTR  116 (215)
T ss_dssp             S-HHHHHHHHHHHHHHHHHHHH--TTSEEEEEEETHHH
T ss_pred             hhHHHHhhhhccchhhhHHHhh--cCCceeehhhhhHH
Confidence            12111          1222222  68999999999843

ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The F-ATPases (or F1F0-ATPases), V-ATPases (or V1V0-ATPases) and A-ATPases (or A1A0-ATPases) are composed of two linked complexes: the F1, V1 or A1 complex contains the catalytic core that synthesizes/hydrolyses ATP, and the F0, V0 or A0 complex that forms the membrane-spanning pore. The F-, V- and A-ATPases all contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, ]. In F-ATPases, there are three copies each of the alpha and beta subunits that form the catalytic core of the F1 complex, while the remaining F1 subunits (gamma, delta, epsilon) form part of the stalks. There is a substrate-binding site on each of the alpha and beta subunits, those on the beta subunits being catalytic, while those on the alpha subunits are regulatory. The alpha and beta subunits form a cylinder that is attached to the central stalk. The alpha/beta subunits undergo a sequence of conformational changes leading to the formation of ATP from ADP, which are induced by the rotation of the gamma subunit, itself driven by the movement of protons through the F0 complex C subunit []. In V- and A-ATPases, the alpha/A and beta/B subunits of the V1 or A1 complex are homologous to the alpha and beta subunits in the F1 complex of F-ATPases, except that the alpha subunit is catalytic and the beta subunit is regulatory. The structure of the alpha and beta subunits is almost identical. Each subunit consists of a N-terminal beta-barrel, a central domain containing the nucleotide-binding site and a C-terminal alpha bundle domain []. This entry represents the central domain. It is found in the alpha and beta subunits from F1, V1, and A1 complexes, as well as in flagellar ATPase and the termination factor Rho. ; GO: 0005524 ATP binding; PDB: 3OEE_N 2HLD_W 3FKS_N 3OE7_O 3OFN_M 2XOK_D 3OEH_V 2WPD_F 3ZRY_D 2OBL_A ....

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.83  E-value=0.0081  Score=55.37  Aligned_cols=90  Identities=20%  Similarity=0.137  Sum_probs=55.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcC-CHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDL-QLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVK  160 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~  160 (371)
                      ..++++++|+.|+||||++..++....   ..-..+.+++..... ...+-+...+..++.+..  ...++.+....+..
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA~~l~---~~g~~V~lItaDtyR~gAveQLk~yae~lgvpv~--~~~dp~dL~~al~~  279 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLGWQLL---KQNRTVGFITTDTFRSGAVEQFQGYADKLDVELI--VATSPAELEEAVQY  279 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH---HcCCeEEEEeCCccCccHHHHHHHHhhcCCCCEE--ecCCHHHHHHHHHH
Confidence            467999999999999999999987762   122357777765432 234455566666654322  23455555444433


Q ss_pred             HhC-CCceEEEEeCCCC
Q 043737          161 NMS-NKKFVLLLDHIWE  176 (371)
Q Consensus       161 ~l~-~~~~LlVlDdv~~  176 (371)
                      .-. +..=++++|-.-.
T Consensus       280 l~~~~~~D~VLIDTAGr  296 (407)
T PRK12726        280 MTYVNCVDHILIDTVGR  296 (407)
T ss_pred             HHhcCCCCEEEEECCCC
Confidence            321 3345888888753

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

Probab=96.81  E-value=0.0063  Score=50.69  Aligned_cols=121  Identities=18%  Similarity=0.188  Sum_probs=62.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEE---eCCcCCHHH------HHHHHHHHhccCC---CCCCcC
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVV---ASKDLQLEQ------IQGSIAKKINLFN---ESWNSR  149 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~---~~~~~~~~~------~~~~l~~~l~~~~---~~~~~~  149 (371)
                      ...+++|.|+.|+|||||++.++...   . ...+.++++   +.. .+...      ...+++..++...   ......
T Consensus        24 ~G~~~~l~G~nGsGKStLl~~i~G~~---~-~~~G~v~~~g~~~~~-~~~~~~~~~i~~~~q~l~~~gl~~~~~~~~~~L   98 (180)
T cd03214          24 AGEIVGILGPNGAGKSTLLKTLAGLL---K-PSSGEILLDGKDLAS-LSPKELARKIAYVPQALELLGLAHLADRPFNEL   98 (180)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC---C-CCCcEEEECCEECCc-CCHHHHHHHHhHHHHHHHHcCCHhHhcCCcccC
Confidence            45699999999999999999998765   2 233334332   111 11111      1122445554321   111222


Q ss_pred             CHHHH-HHHHHHHhCCCceEEEEeCCCCccc---ccccccccCCCCCC-CcEEEEecCchHHH
Q 043737          150 SLQEK-SQDIVKNMSNKKFVLLLDHIWELVD---LSQVGLPVPCRTSA-SNKTVFTARELEVC  207 (371)
Q Consensus       150 ~~~~~-~~~l~~~l~~~~~LlVlDdv~~~~~---~~~~~~~l~~~~~~-~~~iliTsR~~~~~  207 (371)
                      +..+. .-.+...+-..+-++++|+-....+   .+.+...+...... +..+|++|.+....
T Consensus        99 S~G~~qrl~laral~~~p~llllDEP~~~LD~~~~~~~~~~l~~~~~~~~~tiii~sh~~~~~  161 (180)
T cd03214          99 SGGERQRVLLARALAQEPPILLLDEPTSHLDIAHQIELLELLRRLARERGKTVVMVLHDLNLA  161 (180)
T ss_pred             CHHHHHHHHHHHHHhcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHHH
Confidence            22322 2223344455677999999764322   22222222211122 56788888775543

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

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

Probab=96.81  E-value=0.012  Score=59.99  Aligned_cols=102  Identities=16%  Similarity=0.168  Sum_probs=66.7

Q ss_pred             CccccchhHHHHHHHHHhcC--------CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHH
Q 043737           62 PTVVGLQSTFDRVWRCLMEE--------QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQG  133 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~--------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  133 (371)
                      ..++|-++.+..|.+++...        ..-...+.||.|+|||-||+.++..+   .+..+..+-++.+.      ...
T Consensus       562 ~~V~gQ~eAv~aIa~AI~~sr~gl~~~~~~awflflGpdgvGKt~lAkaLA~~~---Fgse~~~IriDmse------~~e  632 (898)
T KOG1051|consen  562 ERVIGQDEAVAAIAAAIRRSRAGLKDPNPDAWFLFLGPDGVGKTELAKALAEYV---FGSEENFIRLDMSE------FQE  632 (898)
T ss_pred             hhccchHHHHHHHHHHHHhhhcccCCCCCCeEEEEECCCchhHHHHHHHHHHHH---cCCccceEEechhh------hhh
Confidence            44688888888888887641        23467789999999999999999988   45555555554443      222


Q ss_pred             HHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCce-EEEEeCCCCc
Q 043737          134 SIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKF-VLLLDHIWEL  177 (371)
Q Consensus       134 ~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~-LlVlDdv~~~  177 (371)
                        ..++...++.   ..-.+...++.+.++.+++ +|+|||++..
T Consensus       633 --vskligsp~g---yvG~e~gg~LteavrrrP~sVVLfdeIEkA  672 (898)
T KOG1051|consen  633 --VSKLIGSPPG---YVGKEEGGQLTEAVKRRPYSVVLFEEIEKA  672 (898)
T ss_pred             --hhhccCCCcc---cccchhHHHHHHHHhcCCceEEEEechhhc
Confidence              3333222221   2222334466677777764 8889999854

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

Probab=96.80  E-value=0.0057  Score=50.23  Aligned_cols=26  Identities=15%  Similarity=0.225  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....++|.|+.|+|||||++.++...
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   51 (166)
T cd03223          26 PGDRLLITGPSGTGKSSLFRALAGLW   51 (166)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45699999999999999999998775

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

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=96.80  E-value=0.012  Score=48.98  Aligned_cols=26  Identities=31%  Similarity=0.415  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||++.++...
T Consensus        27 ~Ge~~~i~G~nGsGKStLl~~l~G~~   52 (178)
T cd03247          27 QGEKIALLGRSGSGKSTLLQLLTGDL   52 (178)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccC
Confidence            45689999999999999999998765

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

>PF02456 Adeno_IVa2: Adenovirus IVa2 protein; InterPro: IPR003389 Va2 protein can interact with the adenoviral packaging signal and this interaction involves DNA sequences that have previously been demonstrated to be required for packaging []

Probab=96.80  E-value=0.069  Score=47.37  Aligned_cols=40  Identities=23%  Similarity=0.208  Sum_probs=30.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCC
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASK  124 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~  124 (371)
                      -+.+|+||.|+|||+|.+.+...- ........|+||.-..
T Consensus        88 ~I~~VYGPTG~GKSqLlRNLis~~-lI~P~PETVfFItP~~  127 (369)
T PF02456_consen   88 FIGVVYGPTGSGKSQLLRNLISCQ-LIQPPPETVFFITPQK  127 (369)
T ss_pred             eEEEEECCCCCCHHHHHHHhhhcC-cccCCCCceEEECCCC
Confidence            466789999999999999988765 3455666888886443

During the course of lytic infection, the adenovirus major late promoter (MLP) is induced to high levels after replication of viral DNA has started. IVa2 is a transcriptional activator of the major late promoter [].; GO: 0019083 viral transcription

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

Probab=96.80  E-value=0.0043  Score=57.88  Aligned_cols=47  Identities=19%  Similarity=0.171  Sum_probs=39.2

Q ss_pred             CCccccchhHHHHHHHHHhcC--------------CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           61 PPTVVGLQSTFDRVWRCLMEE--------------QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~~--------------~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+++|.++..+.+..++.+.              ..+.+.++|++|+|||+||+.++...
T Consensus        14 d~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l   74 (443)
T PRK05201         14 DKYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLA   74 (443)
T ss_pred             ccccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            467899999998888777430              14688999999999999999999887

>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=96.80  E-value=0.0079  Score=51.82  Aligned_cols=40  Identities=23%  Similarity=0.197  Sum_probs=27.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKD  125 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~  125 (371)
                      +|+|.|++|+||||||+.+...+. ....-..+..++...-
T Consensus         1 IigI~G~sGSGKTTla~~L~~~l~-~~~~~~~v~vi~~D~f   40 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQALLS-RWPDHPNVELITTDGF   40 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHHHh-hcCCCCcEEEEecCcc
Confidence            489999999999999999998872 1011123555555543

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>PRK05480 uridine/cytidine kinase; Provisional

Probab=96.80  E-value=0.0013  Score=56.33  Aligned_cols=27  Identities=30%  Similarity=0.442  Sum_probs=24.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+..+|+|.|++|+|||||+..++..+
T Consensus         4 ~~~~iI~I~G~sGsGKTTl~~~l~~~l   30 (209)
T PRK05480          4 KKPIIIGIAGGSGSGKTTVASTIYEEL   30 (209)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            356799999999999999999999886

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.80  E-value=0.0059  Score=58.68  Aligned_cols=89  Identities=16%  Similarity=0.213  Sum_probs=48.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcC-CHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDL-QLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVK  160 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~  160 (371)
                      ...+++|+|+.|+||||++.+++..+. .......+..++..... ...+.+......++....  ...+.......+ +
T Consensus       349 ~G~vIaLVGPtGvGKTTtaakLAa~la-~~~~gkkVaLIdtDtyRigA~EQLk~ya~iLgv~v~--~a~d~~~L~~aL-~  424 (559)
T PRK12727        349 RGGVIALVGPTGAGKTTTIAKLAQRFA-AQHAPRDVALVTTDTQRVGGREQLHSYGRQLGIAVH--EADSAESLLDLL-E  424 (559)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHH-HhcCCCceEEEecccccccHHHHHHHhhcccCceeE--ecCcHHHHHHHH-H
Confidence            457999999999999999999887762 12222345555543321 222333333344433221  222333333333 3


Q ss_pred             HhCCCceEEEEeCCC
Q 043737          161 NMSNKKFVLLLDHIW  175 (371)
Q Consensus       161 ~l~~~~~LlVlDdv~  175 (371)
                      .+.+ .-+|++|..-
T Consensus       425 ~l~~-~DLVLIDTaG  438 (559)
T PRK12727        425 RLRD-YKLVLIDTAG  438 (559)
T ss_pred             Hhcc-CCEEEecCCC
Confidence            3333 4488899874

>PRK06217 hypothetical protein; Validated

Probab=96.79  E-value=0.0028  Score=52.98  Aligned_cols=23  Identities=22%  Similarity=0.361  Sum_probs=21.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .|+|.|.+|+||||||+++...+
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l   25 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERL   25 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            58999999999999999999887

>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=96.79  E-value=0.0025  Score=52.33  Aligned_cols=44  Identities=18%  Similarity=0.157  Sum_probs=33.6

Q ss_pred             cccchhHHHHHHHHHhc--CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           64 VVGLQSTFDRVWRCLME--EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        64 ~vGR~~~~~~l~~~L~~--~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ++|.+..+.++.+.+..  .....|.|+|+.|+||+.+|+.+.+.-
T Consensus         1 liG~s~~m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~lA~~IH~~s   46 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAASSDLPVLITGETGTGKELLARAIHNNS   46 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTTSTS-EEEECSTTSSHHHHHHHHHHCS
T ss_pred             CEeCCHHHHHHHHHHHHHhCCCCCEEEEcCCCCcHHHHHHHHHHhh
Confidence            47888888888887764  344678899999999999999998765

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 ....

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

Probab=96.79  E-value=0.011  Score=51.58  Aligned_cols=125  Identities=16%  Similarity=0.103  Sum_probs=68.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCC-----cCCHHHHHHHHHHHhccCCCC----CCcCCHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASK-----DLQLEQIQGSIAKKINLFNES----WNSRSLQ  152 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~-----~~~~~~~~~~l~~~l~~~~~~----~~~~~~~  152 (371)
                      ....++|+|.+|+|||||++.++.-.   ... .+.++..-..     .....+-..+++..++.....    ...-+-+
T Consensus        38 ~ge~~glVGESG~GKSTlgr~i~~L~---~pt-~G~i~f~g~~i~~~~~~~~~~~v~elL~~Vgl~~~~~~ryPhelSGG  113 (268)
T COG4608          38 EGETLGLVGESGCGKSTLGRLILGLE---EPT-SGEILFEGKDITKLSKEERRERVLELLEKVGLPEEFLYRYPHELSGG  113 (268)
T ss_pred             CCCEEEEEecCCCCHHHHHHHHHcCc---CCC-CceEEEcCcchhhcchhHHHHHHHHHHHHhCCCHHHhhcCCcccCch
Confidence            45699999999999999999998776   223 3333333211     112334455666666643211    1112222


Q ss_pred             HH-HHHHHHHhCCCceEEEEeCCCCcccc---ccccccc-CCCCCCCcEEEEecCchHHHhhc
Q 043737          153 EK-SQDIVKNMSNKKFVLLLDHIWELVDL---SQVGLPV-PCRTSASNKTVFTARELEVCGQM  210 (371)
Q Consensus       153 ~~-~~~l~~~l~~~~~LlVlDdv~~~~~~---~~~~~~l-~~~~~~~~~iliTsR~~~~~~~~  210 (371)
                      +. .-.+.+.+.-++-++|.|+.....+.   .++...+ ......+...++.|-+-.+...+
T Consensus       114 QrQRi~IARALal~P~liV~DEpvSaLDvSiqaqIlnLL~dlq~~~~lt~lFIsHDL~vv~~i  176 (268)
T COG4608         114 QRQRIGIARALALNPKLIVADEPVSALDVSVQAQILNLLKDLQEELGLTYLFISHDLSVVRYI  176 (268)
T ss_pred             hhhhHHHHHHHhhCCcEEEecCchhhcchhHHHHHHHHHHHHHHHhCCeEEEEEEEHHhhhhh
Confidence            22 22344556678889999998654332   1111111 11233456677777766665543

>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]

Probab=96.78  E-value=0.0036  Score=55.03  Aligned_cols=99  Identities=11%  Similarity=0.122  Sum_probs=54.8

Q ss_pred             cccchhHHHHHHHHHh----cC---CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHH
Q 043737           64 VVGLQSTFDRVWRCLM----EE---QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIA  136 (371)
Q Consensus        64 ~vGR~~~~~~l~~~L~----~~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~  136 (371)
                      ++|..-..+.++..+.    +.   ++-++.+||.+|+||.-++..+++......-.               ......+.
T Consensus        84 lfGQHla~~~Vv~alk~~~~n~~p~KPLvLSfHG~tGTGKN~Va~iiA~n~~~~Gl~---------------S~~V~~fv  148 (344)
T KOG2170|consen   84 LFGQHLAKQLVVNALKSHWANPNPRKPLVLSFHGWTGTGKNYVAEIIAENLYRGGLR---------------SPFVHHFV  148 (344)
T ss_pred             hhchHHHHHHHHHHHHHHhcCCCCCCCeEEEecCCCCCchhHHHHHHHHHHHhcccc---------------chhHHHhh
Confidence            5665444444555544    32   34588899999999999999999887322211               12233333


Q ss_pred             HHhccCCCCCCcCCHHHHHHHHHHHhC-CCceEEEEeCCCCc
Q 043737          137 KKINLFNESWNSRSLQEKSQDIVKNMS-NKKFVLLLDHIWEL  177 (371)
Q Consensus       137 ~~l~~~~~~~~~~~~~~~~~~l~~~l~-~~~~LlVlDdv~~~  177 (371)
                      ..+..+.+.....--+++...++...+ -++.|+|||+++.+
T Consensus       149 at~hFP~~~~ie~Yk~eL~~~v~~~v~~C~rslFIFDE~DKm  190 (344)
T KOG2170|consen  149 ATLHFPHASKIEDYKEELKNRVRGTVQACQRSLFIFDEVDKL  190 (344)
T ss_pred             hhccCCChHHHHHHHHHHHHHHHHHHHhcCCceEEechhhhc
Confidence            333322211111112223333333333 36789999999876

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

Probab=96.77  E-value=0.0058  Score=50.42  Aligned_cols=26  Identities=27%  Similarity=0.355  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||.+.++...
T Consensus        27 ~G~~~~l~G~nGsGKstLl~~i~G~~   52 (171)
T cd03228          27 PGEKVAIVGPSGSGKSTLLKLLLRLY   52 (171)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            45699999999999999999998775

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

>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=96.76  E-value=0.00087  Score=51.60  Aligned_cols=28  Identities=36%  Similarity=0.412  Sum_probs=20.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhccCCCCCCCe
Q 043737           86 VGLYGMGEVGKTTLLTQINKKFLHTPNDFDF  116 (371)
Q Consensus        86 v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~  116 (371)
                      |.|+|.+|+|||++|+.++...   ...|..
T Consensus         2 vLleg~PG~GKT~la~~lA~~~---~~~f~R   29 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALARSL---GLSFKR   29 (131)
T ss_dssp             EEEES---HHHHHHHHHHHHHT---T--EEE
T ss_pred             EeeECCCccHHHHHHHHHHHHc---CCceeE
Confidence            6799999999999999999998   556654

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.

>CHL00206 ycf2 Ycf2; Provisional

Probab=96.75  E-value=0.014  Score=63.42  Aligned_cols=26  Identities=12%  Similarity=0.083  Sum_probs=23.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+-|.++|++|+|||.||++++.+.
T Consensus      1629 pPKGILLiGPPGTGKTlLAKALA~es 1654 (2281)
T CHL00206       1629 PSRGILVIGSIGTGRSYLVKYLATNS 1654 (2281)
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHhc
Confidence            45689999999999999999999887

>PRK12678 transcription termination factor Rho; Provisional

Probab=96.75  E-value=0.0018  Score=62.23  Aligned_cols=101  Identities=20%  Similarity=0.200  Sum_probs=53.2

Q ss_pred             HHHHHhc-CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEE-EEEeCCcC-CHHHHHHHHHHHhccCCCCCC---
Q 043737           74 VWRCLME-EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVI-WVVASKDL-QLEQIQGSIAKKINLFNESWN---  147 (371)
Q Consensus        74 l~~~L~~-~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~-wv~~~~~~-~~~~~~~~l~~~l~~~~~~~~---  147 (371)
                      +++.|.. +......|+|++|+|||+|++.+++...  ..+.+..+ .+-+...+ .+.++...+-..+-....+.+   
T Consensus       406 vIDll~PIGkGQR~LIvgpp~aGKTtLL~~IAn~i~--~n~~~~~~ivvLIgERpeEVtdm~rsVkgeVVasT~D~p~~~  483 (672)
T PRK12678        406 VIDLIMPIGKGQRGLIVSPPKAGKTTILQNIANAIT--TNNPECHLMVVLVDERPEEVTDMQRSVKGEVIASTFDRPPSD  483 (672)
T ss_pred             eeeeecccccCCEeEEeCCCCCCHHHHHHHHHHHHh--hcCCCeEEEEEEEeCchhhHHHHHHhccceEEEECCCCCHHH
Confidence            3444433 3455788999999999999999998763  22334333 33444433 333333333111111111000   


Q ss_pred             cCCHHHHHHHHHHHh--CCCceEEEEeCCCC
Q 043737          148 SRSLQEKSQDIVKNM--SNKKFVLLLDHIWE  176 (371)
Q Consensus       148 ~~~~~~~~~~l~~~l--~~~~~LlVlDdv~~  176 (371)
                      ........-.+.+++  .++.+||++|++..
T Consensus       484 ~~~~a~~ai~~Ae~fre~G~dVlillDSlTR  514 (672)
T PRK12678        484 HTTVAELAIERAKRLVELGKDVVVLLDSITR  514 (672)
T ss_pred             HHHHHHHHHHHHHHHHHcCCCEEEEEeCchH
Confidence            011112222233444  57899999999853

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.74  E-value=0.0065  Score=56.81  Aligned_cols=57  Identities=16%  Similarity=0.153  Sum_probs=34.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCc-CCHHHHHHHHHHHhcc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKD-LQLEQIQGSIAKKINL  141 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~l~~~l~~  141 (371)
                      ..+++++|++|+||||++.+++..... ... ..+..++.... ......+...+..++.
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~~~~~-~~G-~~V~Lit~Dt~R~aA~eQLk~yAe~lgv  280 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAAKYFL-HMG-KSVSLYTTDNYRIAAIEQLKRYADTMGM  280 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHH-hcC-CeEEEecccchhhhHHHHHHHHHHhcCC
Confidence            357899999999999999999876411 111 23444444331 1233444455555554

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=96.73  E-value=0.0023  Score=53.53  Aligned_cols=36  Identities=28%  Similarity=0.404  Sum_probs=29.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEE
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVV  121 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~  121 (371)
                      .++++|+|++|+|||||+..++...   ...|..++..+
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~~~---~~~~~~~v~~T   37 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQEF---PDKFGRVVSHT   37 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHHHS---TTTEEEEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhc---ccccccceeec
Confidence            5789999999999999999999988   56675444443

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 ....

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

Probab=96.73  E-value=0.003  Score=51.76  Aligned_cols=114  Identities=15%  Similarity=0.171  Sum_probs=58.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCc--CCHHHHHHHHHHHhccCCCCCCcCCHHHH-HHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKD--LQLEQIQGSIAKKINLFNESWNSRSLQEK-SQDI  158 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~--~~~~~~~~~l~~~l~~~~~~~~~~~~~~~-~~~l  158 (371)
                      ...+++|.|+.|+|||||.+.++...    ....+.+++.-...  .+..+.   ....++...   + -+..+. .-.+
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~i~G~~----~~~~G~v~~~g~~~~~~~~~~~---~~~~i~~~~---q-LS~G~~qrl~l   93 (163)
T cd03216          25 RGEVHALLGENGAGKSTLMKILSGLY----KPDSGEILVDGKEVSFASPRDA---RRAGIAMVY---Q-LSVGERQMVEI   93 (163)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC----CCCCeEEEECCEECCcCCHHHH---HhcCeEEEE---e-cCHHHHHHHHH
Confidence            44699999999999999999998765    23344455432111  111111   111122111   1 222222 2233


Q ss_pred             HHHhCCCceEEEEeCCCCccc---ccccccccCCCCCCCcEEEEecCchHH
Q 043737          159 VKNMSNKKFVLLLDHIWELVD---LSQVGLPVPCRTSASNKTVFTARELEV  206 (371)
Q Consensus       159 ~~~l~~~~~LlVlDdv~~~~~---~~~~~~~l~~~~~~~~~iliTsR~~~~  206 (371)
                      ...+-..+-++++|+-....+   ...+...+......+..||++|.+...
T Consensus        94 aral~~~p~illlDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~~  144 (163)
T cd03216          94 ARALARNARLLILDEPTAALTPAEVERLFKVIRRLRAQGVAVIFISHRLDE  144 (163)
T ss_pred             HHHHhcCCCEEEEECCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHH
Confidence            344455667999999864433   222222222112236678888877654

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

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=96.73  E-value=0.0047  Score=62.73  Aligned_cols=46  Identities=15%  Similarity=0.170  Sum_probs=37.8

Q ss_pred             CccccchhHHHHHHHHHhc--CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           62 PTVVGLQSTFDRVWRCLME--EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~--~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..++|+...+.++.+.+..  .....|.|+|+.|+|||.+|+.+....
T Consensus       376 ~~liG~S~~~~~~~~~~~~~a~~~~pVLI~GE~GTGK~~lA~~ih~~s  423 (686)
T PRK15429        376 GEIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLS  423 (686)
T ss_pred             cceeecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhc
Confidence            4689999998888776653  344689999999999999999997765

>COG5635 Predicted NTPase (NACHT family) [Signal transduction mechanisms]

Probab=96.73  E-value=0.0022  Score=66.25  Aligned_cols=198  Identities=14%  Similarity=0.100  Sum_probs=104.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCC-CCCCeEEEEEeCCcC----CHH--HHHHHHHHHhccCCCCCCcCCHHHHH
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTP-NDFDFVIWVVASKDL----QLE--QIQGSIAKKINLFNESWNSRSLQEKS  155 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~-~~f~~~~wv~~~~~~----~~~--~~~~~l~~~l~~~~~~~~~~~~~~~~  155 (371)
                      ..-+.|+|.+|+||||+...++-...... ..-+..+++.+....    ...  .+..-+...+....      ...+..
T Consensus       222 ~~~~~Ilg~pGsGKTtfl~~lA~~~~~~~~~~~~vpi~~~l~~~~~~~~~~~q~~~~~~l~~~~~~~~------~~~~~~  295 (824)
T COG5635         222 YAKLLILGAPGSGKTTFLQRLALWLAQRTLEPEDVPIFLLLNAFALARKFEKQLSLIDYLAEELFSQG------IAKQLI  295 (824)
T ss_pred             hhheeeecCCCCCceehHHHHHHHhccCcCCcccCceeeechhHHHhhhhHhhccHHHHHHHHHhccC------Ccchhh
Confidence            34788999999999999998887764222 122344455443111    111  33333333332211      112222


Q ss_pred             HHHHHHhCCCceEEEEeCCCCccc------ccccccccCCCCCCCcEEEEecCchHHHhhccCCCceeecCCChHHHHHH
Q 043737          156 QDIVKNMSNKKFVLLLDHIWELVD------LSQVGLPVPCRTSASNKTVFTARELEVCGQMEAHKSFKVERLGYEDAWKL  229 (371)
Q Consensus       156 ~~l~~~l~~~~~LlVlDdv~~~~~------~~~~~~~l~~~~~~~~~iliTsR~~~~~~~~~~~~~~~l~~L~~~ea~~l  229 (371)
                      ....+.++..++++++|.++....      ...+...++  .-+.+.+|+|+|....-........+++..+.++.-...
T Consensus       296 ~~~~e~l~~g~~llLlDGlDe~~~~~~~~~~~~i~~f~~--~~~~~~~iltcR~~~~~~~~~~f~~~ei~~~~~~~i~~~  373 (824)
T COG5635         296 EAHQELLKTGKLLLLLDGLDELEPKNQRALIREINKFLQ--EYPDAQVLLTCRPDTYKEEFKGFAVFEIYKFLDLQINQF  373 (824)
T ss_pred             HHHHHHHhccchhhHhhccchhhhhhHHHHHHHHHHHhh--hccCCeEEEEeccchhhhhhhhhhhccchhhhHHHHHHH
Confidence            233677888999999999985522      222222222  334789999999876654444455666767666655544


Q ss_pred             HHHHh-----CCC-CCCCCC---CHHHH---HHHHHHHcCCCcHHHHHHHHHHcCC-----CChhHHHHHHHHHhc
Q 043737          230 FEEKV-----GKE-ILDSHP---DIPEL---AETVAKECGGLPLALITVGRAMASK-----KTPREWEHAIEVLRS  288 (371)
Q Consensus       230 l~~~~-----~~~-~~~~~~---~~~~~---~~~i~~~~~g~Plal~~~a~~l~~~-----~~~~~~~~~l~~l~~  288 (371)
                      .....     ... ......   ....+   ...-.+.....|+.|.+.+..-...     ...+-++..++.+-.
T Consensus       374 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ik~l~~~p~~L~l~c~~~~~~~~lP~~~~~ly~~~~~~~~~  449 (824)
T COG5635         374 ILYQWLDAFIEDWFGDSRLLAKKLLERLKLPENRRIKELALTPLLLALECLIWQAQGDLPESRAELYEQAVDALLG  449 (824)
T ss_pred             HHHHHHHHHHHhhhcccchhhHHHHHHhcchhhHHHHHhccCHHHHHHHHHhhhHHhhCCCCcHHHHHHHHHHHHh
Confidence            43111     110 000111   00000   1222333478899999998555411     234445555544443

>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]

Probab=96.73  E-value=0.011  Score=60.15  Aligned_cols=130  Identities=14%  Similarity=0.067  Sum_probs=76.2

Q ss_pred             hhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCC--
Q 043737           68 QSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNES--  145 (371)
Q Consensus        68 ~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~--  145 (371)
                      .....+|.+++.+  ..++.|.|+.|+||||-.-+++.+..   -...+.+-+.=.......++...++++++.....  
T Consensus        52 ~~~~~~i~~ai~~--~~vvii~getGsGKTTqlP~~lle~g---~~~~g~I~~tQPRRlAArsvA~RvAeel~~~~G~~V  126 (845)
T COG1643          52 TAVRDEILKAIEQ--NQVVIIVGETGSGKTTQLPQFLLEEG---LGIAGKIGCTQPRRLAARSVAERVAEELGEKLGETV  126 (845)
T ss_pred             HHHHHHHHHHHHh--CCEEEEeCCCCCChHHHHHHHHHhhh---cccCCeEEecCchHHHHHHHHHHHHHHhCCCcCcee
Confidence            4566788888844  55999999999999999999888762   1222333333333334567777888887653221  


Q ss_pred             ---------------CCcCCHHHHHHHHHH-HhCCCceEEEEeCCCCccccccc-----ccccCCCCCCCcEEEEecCc
Q 043737          146 ---------------WNSRSLQEKSQDIVK-NMSNKKFVLLLDHIWELVDLSQV-----GLPVPCRTSASNKTVFTARE  203 (371)
Q Consensus       146 ---------------~~~~~~~~~~~~l~~-~l~~~~~LlVlDdv~~~~~~~~~-----~~~l~~~~~~~~~iliTsR~  203 (371)
                                     ....+.+.++..+.. .+-++--.+|+|++++..--.++     ...+. .....-||||+|-.
T Consensus       127 GY~iRfe~~~s~~Trik~mTdGiLlrei~~D~~Ls~ys~vIiDEaHERSl~tDilLgllk~~~~-~rr~DLKiIimSAT  204 (845)
T COG1643         127 GYSIRFESKVSPRTRIKVMTDGILLREIQNDPLLSGYSVVIIDEAHERSLNTDILLGLLKDLLA-RRRDDLKLIIMSAT  204 (845)
T ss_pred             eEEEEeeccCCCCceeEEeccHHHHHHHhhCcccccCCEEEEcchhhhhHHHHHHHHHHHHHHh-hcCCCceEEEEecc
Confidence                           012344444444441 11233448999999865332221     11122 22234899998765

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

Probab=96.72  E-value=0.0047  Score=51.07  Aligned_cols=26  Identities=23%  Similarity=0.201  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||++.++...
T Consensus        27 ~Ge~~~i~G~nGsGKStLl~~l~G~~   52 (173)
T cd03246          27 PGESLAIIGPSGSGKSTLARLILGLL   52 (173)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            45699999999999999999998765

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

>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=96.72  E-value=0.0027  Score=57.57  Aligned_cols=46  Identities=22%  Similarity=0.336  Sum_probs=41.5

Q ss_pred             CccccchhHHHHHHHHHhc------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           62 PTVVGLQSTFDRVWRCLME------EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~------~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..|+|.++.++++++.+..      ...+++.+.||.|.|||||+..+.+-+
T Consensus        61 ~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~~l  112 (358)
T PF08298_consen   61 DEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKRGL  112 (358)
T ss_pred             ccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHHHh
Confidence            5799999999999999874      356899999999999999999998887

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

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

Probab=96.72  E-value=0.0092  Score=45.87  Aligned_cols=45  Identities=13%  Similarity=0.218  Sum_probs=32.1

Q ss_pred             ccccchhHHHHHHHHHh----c---CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           63 TVVGLQSTFDRVWRCLM----E---EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        63 ~~vGR~~~~~~l~~~L~----~---~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +++|-.-..+.+.+++.    +   .++-++.++|.+|+|||.+++.+++.+
T Consensus        26 ~l~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~l   77 (127)
T PF06309_consen   26 NLFGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEHL   77 (127)
T ss_pred             HccCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHHH
Confidence            45665555555555543    3   244577899999999999999999885

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

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

Probab=96.72  E-value=0.0039  Score=53.96  Aligned_cols=65  Identities=26%  Similarity=0.300  Sum_probs=34.0

Q ss_pred             HHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCC----CCCCCeEEEEEeCCcCCHHHHHHHHHH
Q 043737           71 FDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHT----PNDFDFVIWVVASKDLQLEQIQGSIAK  137 (371)
Q Consensus        71 ~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~----~~~f~~~~wv~~~~~~~~~~~~~~l~~  137 (371)
                      .+.+..++..  ..+..|+||+|+|||+++..++..+...    .......+-+....+..++.++..+..
T Consensus         7 ~~Ai~~~~~~--~~~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~   75 (236)
T PF13086_consen    7 REAIQSALSS--NGITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKK   75 (236)
T ss_dssp             HHHHHHHCTS--SE-EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC
T ss_pred             HHHHHHHHcC--CCCEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHh
Confidence            3444444422  2278999999999998887777776110    123333334444444445555555444

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

Probab=96.72  E-value=0.017  Score=51.47  Aligned_cols=53  Identities=15%  Similarity=0.081  Sum_probs=37.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKK  138 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~  138 (371)
                      ...++.|.|++|+|||+++.+++....  ..+-..++|+++..  +..++...+...
T Consensus        29 ~g~~~~i~g~~G~GKT~l~~~~~~~~~--~~~g~~vl~iS~E~--~~~~~~~r~~~~   81 (271)
T cd01122          29 KGELIILTAGTGVGKTTFLREYALDLI--TQHGVRVGTISLEE--PVVRTARRLLGQ   81 (271)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHH--HhcCceEEEEEccc--CHHHHHHHHHHH
Confidence            345899999999999999999988762  22245788888765  345555555443

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

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=96.71  E-value=0.0014  Score=54.86  Aligned_cols=26  Identities=27%  Similarity=0.304  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +.++|+|.|++|+||||+++.++..+
T Consensus         2 ~~~ii~i~G~~GsGKsTl~~~l~~~~   27 (188)
T TIGR01360         2 KCKIIFIVGGPGSGKGTQCEKIVEKY   27 (188)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            35789999999999999999998775

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.

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=96.71  E-value=0.012  Score=51.36  Aligned_cols=23  Identities=26%  Similarity=0.421  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +..|.|++|+|||+|+.+++...
T Consensus         3 ~~ll~g~~G~GKS~lal~la~~v   25 (239)
T cd01125           3 VSALVAPGGTGKSSLLLVLALAM   25 (239)
T ss_pred             eeEEEcCCCCCHHHHHHHHHHHH
Confidence            56789999999999999998765

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

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

Probab=96.71  E-value=0.0053  Score=50.78  Aligned_cols=120  Identities=18%  Similarity=0.144  Sum_probs=59.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCC---CCc--------CC
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNES---WNS--------RS  150 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~---~~~--------~~  150 (371)
                      ....++|.|+.|+|||||++.++...    ....+.++++-.......   ..+...++.....   ...        -+
T Consensus        25 ~Ge~~~i~G~nGsGKStLl~~l~G~~----~~~~G~i~~~g~~~~~~~---~~~~~~i~~~~q~~~~~~~~tv~~~~~LS   97 (173)
T cd03230          25 KGEIYGLLGPNGAGKTTLIKIILGLL----KPDSGEIKVLGKDIKKEP---EEVKRRIGYLPEEPSLYENLTVRENLKLS   97 (173)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC----CCCCeEEEECCEEcccch---HhhhccEEEEecCCccccCCcHHHHhhcC
Confidence            45699999999999999999988765    123444444321110100   1111222211110   011        11


Q ss_pred             HHHH-HHHHHHHhCCCceEEEEeCCCCcccc---cccccccCCCCCCCcEEEEecCchHHHh
Q 043737          151 LQEK-SQDIVKNMSNKKFVLLLDHIWELVDL---SQVGLPVPCRTSASNKTVFTARELEVCG  208 (371)
Q Consensus       151 ~~~~-~~~l~~~l~~~~~LlVlDdv~~~~~~---~~~~~~l~~~~~~~~~iliTsR~~~~~~  208 (371)
                      ..+. .-.+...+-.++-++++|+-....+.   ..+...+......+..+|++|.+.....
T Consensus        98 ~G~~qrv~laral~~~p~illlDEPt~~LD~~~~~~l~~~l~~~~~~g~tiii~th~~~~~~  159 (173)
T cd03230          98 GGMKQRLALAQALLHDPELLILDEPTSGLDPESRREFWELLRELKKEGKTILLSSHILEEAE  159 (173)
T ss_pred             HHHHHHHHHHHHHHcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHCCCEEEEECCCHHHHH
Confidence            1221 22334445567779999998644332   2222222111123567888887765543

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

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

Probab=96.70  E-value=0.0049  Score=49.60  Aligned_cols=23  Identities=26%  Similarity=0.543  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ++.|+|.+|+||||||+.+...+
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~l   23 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEKL   23 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHH
Confidence            47899999999999999999887

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=96.70  E-value=0.0022  Score=59.23  Aligned_cols=111  Identities=11%  Similarity=0.105  Sum_probs=59.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHH
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVK  160 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~  160 (371)
                      .....+.|.|+.|+||||++..++...   .......++.- ...  .+-..... ..+ ..... ...........+..
T Consensus       120 ~~~g~ili~G~tGSGKTT~l~al~~~i---~~~~~~~i~ti-Edp--~E~~~~~~-~~~-i~q~e-vg~~~~~~~~~l~~  190 (343)
T TIGR01420       120 RPRGLILVTGPTGSGKSTTLASMIDYI---NKNAAGHIITI-EDP--IEYVHRNK-RSL-INQRE-VGLDTLSFANALRA  190 (343)
T ss_pred             hcCcEEEEECCCCCCHHHHHHHHHHhh---CcCCCCEEEEE-cCC--hhhhccCc-cce-EEccc-cCCCCcCHHHHHHH
Confidence            345799999999999999999988876   32333333332 111  11000000 000 00000 11112234555666


Q ss_pred             HhCCCceEEEEeCCCCcccccccccccCCCCCCCcEEEEecCch
Q 043737          161 NMSNKKFVLLLDHIWELVDLSQVGLPVPCRTSASNKTVFTAREL  204 (371)
Q Consensus       161 ~l~~~~~LlVlDdv~~~~~~~~~~~~l~~~~~~~~~iliTsR~~  204 (371)
                      .++..+=.+++|++-+.+.......    ....|..++.|.-..
T Consensus       191 ~lr~~pd~i~vgEird~~~~~~~l~----aa~tGh~v~~T~Ha~  230 (343)
T TIGR01420       191 ALREDPDVILIGEMRDLETVELALT----AAETGHLVFGTLHTN  230 (343)
T ss_pred             hhccCCCEEEEeCCCCHHHHHHHHH----HHHcCCcEEEEEcCC
Confidence            7778888999999976655543211    223355566665543

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.

>PRK05439 pantothenate kinase; Provisional

Probab=96.70  E-value=0.016  Score=52.28  Aligned_cols=83  Identities=16%  Similarity=0.031  Sum_probs=43.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHH
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVK  160 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~  160 (371)
                      ...-+|+|.|.+|+||||+|..+...+. .......+.-++...-......+..  ..+..........+.+.....+..
T Consensus        84 ~~~~iIgIaG~~gsGKSTla~~L~~~l~-~~~~~~~v~vi~~DdFy~~~~~l~~--~~l~~~kg~Pes~D~~~l~~~L~~  160 (311)
T PRK05439         84 KVPFIIGIAGSVAVGKSTTARLLQALLS-RWPEHPKVELVTTDGFLYPNAVLEE--RGLMKRKGFPESYDMRALLRFLSD  160 (311)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH-hhCCCCceEEEeccccccCHHHHhh--hhccccCCCcccccHHHHHHHHHH
Confidence            3456899999999999999999888662 1111223444554443322222221  111110111134455555655555


Q ss_pred             HhCCCc
Q 043737          161 NMSNKK  166 (371)
Q Consensus       161 ~l~~~~  166 (371)
                      ...++.
T Consensus       161 Lk~G~~  166 (311)
T PRK05439        161 VKSGKP  166 (311)
T ss_pred             HHcCCC
Confidence            555554

>PRK00131 aroK shikimate kinase; Reviewed

Probab=96.68  E-value=0.0016  Score=53.74  Aligned_cols=26  Identities=23%  Similarity=0.277  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....|.|+|++|+||||+|+.+++.+
T Consensus         3 ~~~~i~l~G~~GsGKstla~~La~~l   28 (175)
T PRK00131          3 KGPNIVLIGFMGAGKSTIGRLLAKRL   28 (175)
T ss_pred             CCCeEEEEcCCCCCHHHHHHHHHHHh
Confidence            34689999999999999999999987

>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=96.67  E-value=0.0073  Score=48.29  Aligned_cols=26  Identities=35%  Similarity=0.479  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||++.++...
T Consensus        25 ~Ge~~~i~G~nGsGKStLl~~l~G~~   50 (144)
T cd03221          25 PGDRIGLVGRNGAGKSTLLKLIAGEL   50 (144)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            45699999999999999999987765

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.

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=96.67  E-value=0.0016  Score=53.99  Aligned_cols=25  Identities=20%  Similarity=0.300  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .++|.+.|++|+||||+|+.+....
T Consensus         2 ~~~i~l~G~~gsGKst~a~~l~~~~   26 (175)
T cd00227           2 GRIIILNGGSSAGKSSIARALQSVL   26 (175)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhh
Confidence            3589999999999999999998876

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>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=96.67  E-value=0.0049  Score=51.11  Aligned_cols=27  Identities=22%  Similarity=0.438  Sum_probs=23.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....+++|.|+.|+|||||++.++.-.
T Consensus        23 ~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   49 (177)
T cd03222          23 KEGEVIGIVGPNGTGKTTAVKILAGQL   49 (177)
T ss_pred             CCCCEEEEECCCCChHHHHHHHHHcCC
Confidence            345699999999999999999988765

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.

>TIGR00235 udk uridine kinase

Probab=96.67  E-value=0.0017  Score=55.44  Aligned_cols=26  Identities=31%  Similarity=0.408  Sum_probs=23.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+|+|.|++|+|||||++.++..+
T Consensus         5 ~g~vi~I~G~sGsGKSTl~~~l~~~l   30 (207)
T TIGR00235         5 KGIIIGIGGGSGSGKTTVARKIYEQL   30 (207)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHHh
Confidence            45799999999999999999999876

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=96.66  E-value=0.0088  Score=49.23  Aligned_cols=84  Identities=11%  Similarity=0.171  Sum_probs=45.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCc-CCHHHHHHHHHHHh
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNS-RSLQEKSQDIVKNM  162 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~-~~~~~~~~~l~~~l  162 (371)
                      ..+.|.|.+|+|||++|..++...   ..   .++++.... +...+....+..........+.. ..+.++...+....
T Consensus         2 ~~ili~G~~~sGKS~~a~~l~~~~---~~---~~~~iat~~-~~~~e~~~ri~~h~~~R~~~w~t~E~~~~l~~~i~~~~   74 (170)
T PRK05800          2 MLILVTGGARSGKSRFAERLAAQS---GL---QVLYIATAQ-PFDDEMAARIAHHRQRRPAHWQTVEEPLDLAELLRADA   74 (170)
T ss_pred             CEEEEECCCCccHHHHHHHHHHHc---CC---CcEeCcCCC-CChHHHHHHHHHHHhcCCCCCeEecccccHHHHHHhhc
Confidence            368999999999999999998775   11   133443332 33344555554443322222211 11222333333323


Q ss_pred             CCCceEEEEeCCC
Q 043737          163 SNKKFVLLLDHIW  175 (371)
Q Consensus       163 ~~~~~LlVlDdv~  175 (371)
                      .+ .-++++|.+.
T Consensus        75 ~~-~~~VlID~Lt   86 (170)
T PRK05800         75 AP-GRCVLVDCLT   86 (170)
T ss_pred             CC-CCEEEehhHH
Confidence            33 3378999873

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=96.66  E-value=0.0052  Score=55.59  Aligned_cols=45  Identities=20%  Similarity=0.172  Sum_probs=35.1

Q ss_pred             CCccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           61 PPTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+.|+=..+....++.++..  .+.|.|.|++|+|||++|.+++..+
T Consensus        44 d~~y~f~~~~~~~vl~~l~~--~~~ilL~G~pGtGKTtla~~lA~~l   88 (327)
T TIGR01650        44 DPAYLFDKATTKAICAGFAY--DRRVMVQGYHGTGKSTHIEQIAARL   88 (327)
T ss_pred             CCCccCCHHHHHHHHHHHhc--CCcEEEEeCCCChHHHHHHHHHHHH
Confidence            34455555566777777743  4579999999999999999999998

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.

>PRK07276 DNA polymerase III subunit delta'; Validated

Probab=96.66  E-value=0.085  Score=47.25  Aligned_cols=67  Identities=10%  Similarity=0.079  Sum_probs=39.3

Q ss_pred             CCceEEEEeCCCCccc--ccccccccCCCCCCCcEEEEec-CchHHHhh-ccCCCceeecCCChHHHHHHHHH
Q 043737          164 NKKFVLLLDHIWELVD--LSQVGLPVPCRTSASNKTVFTA-RELEVCGQ-MEAHKSFKVERLGYEDAWKLFEE  232 (371)
Q Consensus       164 ~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~~~iliTs-R~~~~~~~-~~~~~~~~l~~L~~~ea~~ll~~  232 (371)
                      +++-++|+|+++.+..  .+.+...+. ....++.+|++| ....+... .+....+.+.+ +.++..+.+..
T Consensus       103 ~~~kV~II~~ad~m~~~AaNaLLKtLE-EPp~~t~~iL~t~~~~~lLpTI~SRcq~i~f~~-~~~~~~~~L~~  173 (290)
T PRK07276        103 GKQQVFIIKDADKMHVNAANSLLKVIE-EPQSEIYIFLLTNDENKVLPTIKSRTQIFHFPK-NEAYLIQLLEQ  173 (290)
T ss_pred             CCcEEEEeehhhhcCHHHHHHHHHHhc-CCCCCeEEEEEECChhhCchHHHHcceeeeCCC-cHHHHHHHHHH
Confidence            4556999999987643  444545554 344445555544 44444333 34456777866 66766666653

>PRK03839 putative kinase; Provisional

Probab=96.65  E-value=0.0016  Score=54.30  Aligned_cols=23  Identities=35%  Similarity=0.543  Sum_probs=21.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .|+|.|++|+||||+++.+++.+
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~   24 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKL   24 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58899999999999999999987

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

Probab=96.65  E-value=0.0034  Score=55.26  Aligned_cols=55  Identities=20%  Similarity=0.338  Sum_probs=39.0

Q ss_pred             HHHHHHHhc--CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCC
Q 043737           72 DRVWRCLME--EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQ  127 (371)
Q Consensus        72 ~~l~~~L~~--~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~  127 (371)
                      .+|+..+..  ++..+|+|+|.||+|||||.-.+...+ ....+--.++=|+-+...+
T Consensus        38 ~~ll~~l~p~tG~a~viGITG~PGaGKSTli~~L~~~l-~~~G~rVaVlAVDPSSp~T   94 (323)
T COG1703          38 RELLRALYPRTGNAHVIGITGVPGAGKSTLIEALGREL-RERGHRVAVLAVDPSSPFT   94 (323)
T ss_pred             HHHHHHHhhcCCCCcEEEecCCCCCchHHHHHHHHHHH-HHCCcEEEEEEECCCCCCC
Confidence            455555543  466799999999999999999999888 3344444566666555544

>PRK04040 adenylate kinase; Provisional

Probab=96.64  E-value=0.0018  Score=54.32  Aligned_cols=25  Identities=40%  Similarity=0.543  Sum_probs=23.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+|+|+|++|+||||+++.+++.+
T Consensus         2 ~~~i~v~G~pG~GKtt~~~~l~~~l   26 (188)
T PRK04040          2 MKVVVVTGVPGVGKTTVLNKALEKL   26 (188)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHh
Confidence            3589999999999999999999887

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

Probab=96.64  E-value=0.0097  Score=55.31  Aligned_cols=40  Identities=18%  Similarity=0.332  Sum_probs=30.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCC
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASK  124 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~  124 (371)
                      .+++|.|.+|+|||.||..++.++ ..........+++.+.
T Consensus         2 ~v~~I~G~aGTGKTvla~~l~~~l-~~~~~~~~~~~l~~n~   41 (352)
T PF09848_consen    2 QVILITGGAGTGKTVLALNLAKEL-QNSEEGKKVLYLCGNH   41 (352)
T ss_pred             eEEEEEecCCcCHHHHHHHHHHHh-hccccCCceEEEEecc
Confidence            588999999999999999999987 2234445566666665

It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].

>KOG3928 consensus Mitochondrial ribosome small subunit component, mediator of apoptosis DAP3 [Translation, ribosomal structure and biogenesis]

Probab=96.63  E-value=0.15  Score=47.07  Aligned_cols=59  Identities=12%  Similarity=0.027  Sum_probs=38.4

Q ss_pred             CCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHHHH
Q 043737          212 AHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAM  270 (371)
Q Consensus       212 ~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~~l  270 (371)
                      ...+++++..+.+|+..+..=.+...-......-++.-+++.=..+|+|--+..++.++
T Consensus       402 pf~pi~v~nYt~~E~~~~i~YYl~~nwl~kkv~~Ee~~kql~fLSngNP~l~~~lca~~  460 (461)
T KOG3928|consen  402 PFVPIEVENYTLDEFEALIDYYLQSNWLLKKVPGEENIKQLYFLSNGNPSLMERLCAFL  460 (461)
T ss_pred             CcCccccCCCCHHHHHHHHHHHHHhhHHHhhcCcccchhhhhhhcCCCHHHHHHHHHhc
Confidence            44568899999999988875443222111111114457888888899997777776665

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.63  E-value=0.011  Score=56.24  Aligned_cols=88  Identities=20%  Similarity=0.173  Sum_probs=50.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcC-CHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHH
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDL-QLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKN  161 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~  161 (371)
                      .++++++|++|+||||++..++.... .......+..++..... ....-+......++.+..  ...+..+....+.. 
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~~-~~~~g~~V~li~~D~~r~~a~eqL~~~a~~~~vp~~--~~~~~~~l~~~l~~-  296 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARYA-LLYGKKKVALITLDTYRIGAVEQLKTYAKIMGIPVE--VVYDPKELAKALEQ-  296 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHH-HhcCCCeEEEEECCccHHHHHHHHHHHHHHhCCceE--ccCCHHhHHHHHHH-
Confidence            46899999999999999999887761 01223456677665421 122334444455554322  22333444444433 


Q ss_pred             hCCCceEEEEeCCC
Q 043737          162 MSNKKFVLLLDHIW  175 (371)
Q Consensus       162 l~~~~~LlVlDdv~  175 (371)
                      +. ..=++++|..-
T Consensus       297 ~~-~~DlVlIDt~G  309 (424)
T PRK05703        297 LR-DCDVILIDTAG  309 (424)
T ss_pred             hC-CCCEEEEeCCC
Confidence            33 34589999763

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

Probab=96.63  E-value=0.017  Score=47.49  Aligned_cols=81  Identities=17%  Similarity=0.322  Sum_probs=44.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCC
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSN  164 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~  164 (371)
                      ++.|.|.+|+|||++|.+++...   .   ..++++......+. +....+..........+..   .+....+.+.+..
T Consensus         1 ~~li~G~~~sGKS~~a~~~~~~~---~---~~~~y~at~~~~d~-em~~rI~~H~~~R~~~w~t---~E~~~~l~~~l~~   70 (169)
T cd00544           1 IILVTGGARSGKSRFAERLAAEL---G---GPVTYIATAEAFDD-EMAERIARHRKRRPAHWRT---IETPRDLVSALKE   70 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHHHhc---C---CCeEEEEccCcCCH-HHHHHHHHHHHhCCCCceE---eecHHHHHHHHHh
Confidence            36799999999999999998653   1   24566655554433 3444433322222222222   2222233333321


Q ss_pred             --CceEEEEeCCC
Q 043737          165 --KKFVLLLDHIW  175 (371)
Q Consensus       165 --~~~LlVlDdv~  175 (371)
                        +.-.+++|.+.
T Consensus        71 ~~~~~~VLIDclt   83 (169)
T cd00544          71 LDPGDVVLIDCLT   83 (169)
T ss_pred             cCCCCEEEEEcHh
Confidence              33479999873

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

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

Probab=96.62  E-value=0.0052  Score=54.50  Aligned_cols=49  Identities=18%  Similarity=0.170  Sum_probs=38.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSI  135 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l  135 (371)
                      ..+++.|+|.+|+|||+++.+++...   ......++|++....  ..++....
T Consensus        22 ~g~~~lI~G~pGsGKT~f~~qfl~~~---~~~ge~vlyvs~~e~--~~~l~~~~   70 (260)
T COG0467          22 RGSVVLITGPPGTGKTIFALQFLYEG---AREGEPVLYVSTEES--PEELLENA   70 (260)
T ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHH---HhcCCcEEEEEecCC--HHHHHHHH
Confidence            56799999999999999999999987   344678999988764  34444444

>PTZ00088 adenylate kinase 1; Provisional

Probab=96.62  E-value=0.0021  Score=55.56  Aligned_cols=23  Identities=35%  Similarity=0.434  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .|+|.|++|+||||+|+.+++..
T Consensus         8 rIvl~G~PGsGK~T~a~~La~~~   30 (229)
T PTZ00088          8 KIVLFGAPGVGKGTFAEILSKKE   30 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            48899999999999999998886

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=96.62  E-value=0.0064  Score=49.31  Aligned_cols=30  Identities=20%  Similarity=0.424  Sum_probs=26.0

Q ss_pred             HhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           78 LMEEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        78 L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +...+..+|.++|.+|+||||+|..+.+.+
T Consensus        18 ~~~~~~~viW~TGLSGsGKSTiA~ale~~L   47 (197)
T COG0529          18 LKGQKGAVIWFTGLSGSGKSTIANALEEKL   47 (197)
T ss_pred             HhCCCCeEEEeecCCCCCHHHHHHHHHHHH
Confidence            334566799999999999999999999998

>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=96.61  E-value=0.0042  Score=51.96  Aligned_cols=45  Identities=22%  Similarity=0.094  Sum_probs=31.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHH
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGS  134 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  134 (371)
                      ++.|.|++|+|||+|+.+++....   ..-..++|++...  +..++...
T Consensus         1 ~~li~G~~G~GKT~l~~~~~~~~~---~~g~~v~~~s~e~--~~~~~~~~   45 (187)
T cd01124           1 STLLSGGPGTGKTTFALQFLYAGL---ARGEPGLYVTLEE--SPEELIEN   45 (187)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHH---HCCCcEEEEECCC--CHHHHHHH
Confidence            367999999999999999988762   2234577887654  34444433

A related protein is found in archaea.

>PHA02244 ATPase-like protein

Probab=96.61  E-value=0.0046  Score=56.73  Aligned_cols=45  Identities=22%  Similarity=0.208  Sum_probs=32.0

Q ss_pred             CCccccchhHHHH----HHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           61 PPTVVGLQSTFDR----VWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        61 ~~~~vGR~~~~~~----l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...|+|....+..    +..++  .....|.|+|++|+|||+||.+++...
T Consensus        95 d~~~ig~sp~~~~~~~ri~r~l--~~~~PVLL~GppGtGKTtLA~aLA~~l  143 (383)
T PHA02244         95 DTTKIASNPTFHYETADIAKIV--NANIPVFLKGGAGSGKNHIAEQIAEAL  143 (383)
T ss_pred             CCcccCCCHHHHHHHHHHHHHH--hcCCCEEEECCCCCCHHHHHHHHHHHh
Confidence            3556776555543    33444  233467889999999999999999886

>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=96.60  E-value=0.0056  Score=50.91  Aligned_cols=26  Identities=38%  Similarity=0.335  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||++.++...
T Consensus        25 ~G~~~~i~G~nGsGKSTLl~~l~G~~   50 (178)
T cd03229          25 AGEIVALLGPSGSGKSTLLRCIAGLE   50 (178)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45699999999999999999998664

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.

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=96.59  E-value=0.018  Score=52.45  Aligned_cols=92  Identities=13%  Similarity=0.070  Sum_probs=48.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcC-CHHHHHHHHHHHhccCCCC-CCcCCHHH-HHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDL-QLEQIQGSIAKKINLFNES-WNSRSLQE-KSQDI  158 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~l~~~l~~~~~~-~~~~~~~~-~~~~l  158 (371)
                      ...+++++|++|+||||++..++..+.   ..-..+..+...... ...+-+.......+...-. ....++.. ....+
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~l~---~~g~~V~Li~~D~~r~~a~eql~~~a~~~~i~~~~~~~~~dpa~~v~~~l  189 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHKYK---AQGKKVLLAAGDTFRAAAIEQLQVWGERVGVPVIAQKEGADPASVAFDAI  189 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHH---hcCCeEEEEecCccchhhHHHHHHHHHHcCceEEEeCCCCCHHHHHHHHH
Confidence            357999999999999999999998873   222345555543211 1111122333343332110 11222222 22333


Q ss_pred             HHHhCCCceEEEEeCCCC
Q 043737          159 VKNMSNKKFVLLLDHIWE  176 (371)
Q Consensus       159 ~~~l~~~~~LlVlDdv~~  176 (371)
                      ........=++++|-.-.
T Consensus       190 ~~~~~~~~D~ViIDTaGr  207 (318)
T PRK10416        190 QAAKARGIDVLIIDTAGR  207 (318)
T ss_pred             HHHHhCCCCEEEEeCCCC
Confidence            333334444888898753

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=96.56  E-value=0.0049  Score=51.54  Aligned_cols=25  Identities=24%  Similarity=0.364  Sum_probs=23.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+|+|-||-|+||||||+.++++.
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~l   28 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEHL   28 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHHh
Confidence            4689999999999999999999998

>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=96.55  E-value=0.0019  Score=53.11  Aligned_cols=22  Identities=36%  Similarity=0.502  Sum_probs=19.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043737           86 VGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        86 v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ++|+|++|+|||||++.+++.+
T Consensus         2 i~iTG~pG~GKTTll~k~i~~l   23 (168)
T PF03266_consen    2 IFITGPPGVGKTTLLKKVIEEL   23 (168)
T ss_dssp             EEEES-TTSSHHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHHh
Confidence            7899999999999999999887

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.

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=96.55  E-value=0.0018  Score=52.21  Aligned_cols=23  Identities=22%  Similarity=0.460  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +++|+|++|+||||+|+.+....
T Consensus         1 li~l~G~~GsGKST~a~~l~~~~   23 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAERL   23 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhhc
Confidence            47899999999999999998775

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>PRK15453 phosphoribulokinase; Provisional

Probab=96.54  E-value=0.016  Score=51.24  Aligned_cols=80  Identities=15%  Similarity=0.086  Sum_probs=44.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcC--CHHHHHHHH--HHHhc--cCCCCCCcCCHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDL--QLEQIQGSI--AKKIN--LFNESWNSRSLQEKS  155 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~--~~~~~~~~l--~~~l~--~~~~~~~~~~~~~~~  155 (371)
                      +..+|+|.|.+|+||||+++.+.+.+.   ..-.....++...-.  +..+.-...  ...-+  ...-.....+.+.+.
T Consensus         4 k~piI~ItG~SGsGKTTva~~l~~if~---~~~~~~~vi~~D~yh~ydr~~~~~~~~~~~r~g~nfdhf~PdAnd~dlL~   80 (290)
T PRK15453          4 KHPIIAVTGSSGAGTTTVKRAFEKIFR---RENINAAVVEGDSFHRYTRPEMKAAIAKARAAGRHFSHFGPEANLFDELE   80 (290)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHh---hcCCCeEEEecccccccChhhHhhhhHHHHhcCCCCCCCCCCcccHHHHH
Confidence            467999999999999999999987762   211234555544322  222222211  11222  222113555666666


Q ss_pred             HHHHHHhCC
Q 043737          156 QDIVKNMSN  164 (371)
Q Consensus       156 ~~l~~~l~~  164 (371)
                      +.+..+..+
T Consensus        81 ~~l~~l~~~   89 (290)
T PRK15453         81 QLFREYGET   89 (290)
T ss_pred             HHHHHHhcC
Confidence            666665543

>cd00046 DEXDc DEAD-like helicases superfamily

Probab=96.53  E-value=0.0083  Score=46.93  Aligned_cols=37  Identities=19%  Similarity=-0.055  Sum_probs=27.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEe
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVA  122 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~  122 (371)
                      .+.|.|+.|+|||+.+..++.... .......++|+..
T Consensus         2 ~~~i~~~~G~GKT~~~~~~~~~~~-~~~~~~~~lv~~p   38 (144)
T cd00046           2 DVLLAAPTGSGKTLAALLPILELL-DSLKGGQVLVLAP   38 (144)
T ss_pred             CEEEECCCCCchhHHHHHHHHHHH-hcccCCCEEEEcC
Confidence            478999999999999998888872 2234456677643

A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

>TIGR01069 mutS2 MutS2 family protein

Probab=96.53  E-value=0.0012  Score=67.10  Aligned_cols=118  Identities=14%  Similarity=0.132  Sum_probs=56.5

Q ss_pred             CCceEEEEeCCCCcccc---cccc-cccCCCCCCCcEEEEecCchHHHhhccCCCceeecCCChH-HHHHHHHHHhCCCC
Q 043737          164 NKKFVLLLDHIWELVDL---SQVG-LPVPCRTSASNKTVFTARELEVCGQMEAHKSFKVERLGYE-DAWKLFEEKVGKEI  238 (371)
Q Consensus       164 ~~~~LlVlDdv~~~~~~---~~~~-~~l~~~~~~~~~iliTsR~~~~~~~~~~~~~~~l~~L~~~-ea~~ll~~~~~~~~  238 (371)
                      ..+.|+++|++....+.   ..+. ..+......++.+|+||....+.........+.-..+..+ +......+...   
T Consensus       401 ~~~sLvLlDE~g~GtD~~eg~ala~aiLe~l~~~g~~viitTH~~eL~~~~~~~~~v~~~~~~~d~~~l~p~Ykl~~---  477 (771)
T TIGR01069       401 TENSLVLFDELGAGTDPDEGSALAISILEYLLKQNAQVLITTHYKELKALMYNNEGVENASVLFDEETLSPTYKLLK---  477 (771)
T ss_pred             CCCcEEEecCCCCCCCHHHHHHHHHHHHHHHHhcCCEEEEECChHHHHHHhcCCCCeEEeEEEEcCCCCceEEEECC---
Confidence            46789999999754332   1121 1111112357889999998776432211111111111111 11110000000   


Q ss_pred             CCCCCCHHHHHHHHHHHcCCCcHHHHHHHHHHcCCCChhHHHHHHHHHhcc
Q 043737          239 LDSHPDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSS  289 (371)
Q Consensus       239 ~~~~~~~~~~~~~i~~~~~g~Plal~~~a~~l~~~~~~~~~~~~l~~l~~~  289 (371)
                       +.+.  ...+-.|++.+ |+|-.+..-|..+.. .....+..+++.|...
T Consensus       478 -G~~g--~S~a~~iA~~~-Glp~~ii~~A~~~~~-~~~~~~~~li~~L~~~  523 (771)
T TIGR01069       478 -GIPG--ESYAFEIAQRY-GIPHFIIEQAKTFYG-EFKEEINVLIEKLSAL  523 (771)
T ss_pred             -CCCC--CcHHHHHHHHh-CcCHHHHHHHHHHHH-hhHHHHHHHHHHHHHH
Confidence             1111  22477787776 788777777776654 3344555555555443

Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.

>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic

Probab=96.50  E-value=0.01  Score=54.26  Aligned_cols=22  Identities=27%  Similarity=0.457  Sum_probs=20.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043737           86 VGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        86 v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +++.|++|+||||+++.+.+.+
T Consensus         2 ~~l~Gl~GaGKST~~~~l~~~l   23 (340)
T TIGR03575         2 CVLCGLPAAGKSTLARSLSATL   23 (340)
T ss_pred             eEEECCCCCCHHHHHHHHHHHH
Confidence            6789999999999999999887

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 eukaryotic proteins with this activity.

>PRK10875 recD exonuclease V subunit alpha; Provisional

Probab=96.50  E-value=0.013  Score=58.10  Aligned_cols=55  Identities=16%  Similarity=0.172  Sum_probs=34.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIA  136 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~  136 (371)
                      ..++..|.|.+|+||||++..++..+......-...+.+..........+.+.+.
T Consensus       166 ~~~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~  220 (615)
T PRK10875        166 TRRISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLG  220 (615)
T ss_pred             cCCeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHH
Confidence            3569999999999999999988877522111112345555544433444444443

>PF13479 AAA_24: AAA domain

Probab=96.49  E-value=0.012  Score=50.39  Aligned_cols=20  Identities=35%  Similarity=0.413  Sum_probs=18.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHH
Q 043737           84 GIVGLYGMGEVGKTTLLTQI  103 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~  103 (371)
                      -.+.|+|++|+||||+|..+
T Consensus         4 ~~~lIyG~~G~GKTt~a~~~   23 (213)
T PF13479_consen    4 IKILIYGPPGSGKTTLAASL   23 (213)
T ss_pred             eEEEEECCCCCCHHHHHHhC
Confidence            46889999999999999876

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=96.48  E-value=0.0025  Score=53.07  Aligned_cols=24  Identities=25%  Similarity=0.389  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+++|.|++|+|||||++.++..+
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~~   25 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARARL   25 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            478999999999999999998876

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.

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=96.48  E-value=0.0042  Score=49.37  Aligned_cols=39  Identities=18%  Similarity=0.311  Sum_probs=28.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCC
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASK  124 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~  124 (371)
                      ++|.|+|+.|+|||||+..+++.+.  +..+...+..+...
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l~--~~g~~v~~ik~~~~   39 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINELK--RRGYRVAVIKHTDH   39 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHH--HTT--EEEEEE-ST
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHh--HcCCceEEEEEccC
Confidence            4789999999999999999999983  34444455565554

>PF02374 ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_A 3IBG_B 3SJA_A 3H84_B 3SJD_A 3ZS9_A 3A37_A 2WOJ_A 3SJC_B 3A36_B

Probab=96.48  E-value=0.0033  Score=56.95  Aligned_cols=47  Identities=23%  Similarity=0.265  Sum_probs=33.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHH
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQG  133 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  133 (371)
                      +++++.|-||+||||+|...+-...+   .-..++-++.+...++.+++.
T Consensus         2 r~~~~~GKGGVGKTT~aaA~A~~~A~---~G~rtLlvS~Dpa~~L~d~l~   48 (305)
T PF02374_consen    2 RILFFGGKGGVGKTTVAAALALALAR---RGKRTLLVSTDPAHSLSDVLG   48 (305)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHHH---TTS-EEEEESSTTTHHHHHHT
T ss_pred             eEEEEecCCCCCcHHHHHHHHHHHhh---CCCCeeEeecCCCccHHHHhC
Confidence            68999999999999999888877732   223467777666655555443

...

>TIGR01351 adk adenylate kinases

Probab=96.48  E-value=0.0044  Score=53.07  Aligned_cols=22  Identities=32%  Similarity=0.403  Sum_probs=20.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043737           86 VGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        86 v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      |+|.|++|+||||+|+.++...
T Consensus         2 I~i~G~pGsGKsT~a~~La~~~   23 (210)
T TIGR01351         2 LVLLGPPGSGKGTQAKRIAEKY   23 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            7899999999999999998876

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.

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

Probab=96.47  E-value=0.014  Score=50.46  Aligned_cols=45  Identities=20%  Similarity=0.224  Sum_probs=35.5

Q ss_pred             ccccchhHHHHHHHHHhc-------------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           63 TVVGLQSTFDRVWRCLME-------------EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        63 ~~vGR~~~~~~l~~~L~~-------------~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..=|-.+++++|.+...-             +.++-|.++|++|.|||-+|++++++-
T Consensus       178 dvggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravanrt  235 (435)
T KOG0729|consen  178 DVGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANRT  235 (435)
T ss_pred             cccchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhccc
Confidence            345677788887766531             356789999999999999999999886

>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=96.47  E-value=0.0048  Score=49.92  Aligned_cols=36  Identities=19%  Similarity=0.250  Sum_probs=29.6

Q ss_pred             hHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           69 STFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        69 ~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+++|...+.+   +.+++.|++|+|||||+..+....
T Consensus        24 ~g~~~l~~~l~~---k~~vl~G~SGvGKSSLiN~L~~~~   59 (161)
T PF03193_consen   24 EGIEELKELLKG---KTSVLLGQSGVGKSSLINALLPEA   59 (161)
T ss_dssp             TTHHHHHHHHTT---SEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             cCHHHHHHHhcC---CEEEEECCCCCCHHHHHHHHHhhc
Confidence            455777777733   799999999999999999998764

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.

>PRK14737 gmk guanylate kinase; Provisional

Probab=96.47  E-value=0.0031  Score=52.75  Aligned_cols=26  Identities=12%  Similarity=0.203  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..++|+|+|++|+|||||++.+..+.
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhcC
Confidence            45789999999999999999998775

>PRK00625 shikimate kinase; Provisional

Probab=96.46  E-value=0.0028  Score=52.32  Aligned_cols=23  Identities=30%  Similarity=0.382  Sum_probs=21.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .|+|+|++|+||||+++.+++++
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l   24 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFL   24 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48899999999999999999887

>COG3598 RepA RecA-family ATPase [DNA replication, recombination, and repair]

Probab=96.46  E-value=0.017  Score=51.44  Aligned_cols=91  Identities=18%  Similarity=0.176  Sum_probs=54.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhccCCC-------CCCCeEEEEEeCCc-CCHHHHHHHHHHHhccCCCCCCcCCH-----
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKFLHTP-------NDFDFVIWVVASKD-LQLEQIQGSIAKKINLFNESWNSRSL-----  151 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~~~~~-------~~f~~~~wv~~~~~-~~~~~~~~~l~~~l~~~~~~~~~~~~-----  151 (371)
                      .+.|+|++|+|||||+..++-.+...+       .....++++++... .++-.=++.+..++++++.+....+.     
T Consensus        91 ~~~~~gdsg~GKttllL~l~IalaaG~~lfG~~v~epGkvlyvslEl~re~~L~Rl~~v~a~mgLsPadvrn~dltd~~G  170 (402)
T COG3598          91 VSILYGDSGVGKTTLLLYLCIALAAGKNLFGNKVKEPGKVLYVSLELYREDILERLEPVRARMGLSPADVRNMDLTDVSG  170 (402)
T ss_pred             eEEEecCCcccHhHHHHHHHHHHHhhHHHhcccccCCCeEEEEEeccChHHHHHHHHHHHHHcCCChHhhhheecccccc
Confidence            667789999999999987765543222       23347788877543 34555566777777775433222111     


Q ss_pred             -------H--HHHHHHHHHhC-CCceEEEEeCCC
Q 043737          152 -------Q--EKSQDIVKNMS-NKKFVLLLDHIW  175 (371)
Q Consensus       152 -------~--~~~~~l~~~l~-~~~~LlVlDdv~  175 (371)
                             -  .+...+...+. .++-++|+|-+-
T Consensus       171 aa~~~d~l~pkl~rRfek~~~Q~rp~~vViDp~v  204 (402)
T COG3598         171 AADESDVLSPKLYRRFEKILEQKRPDFVVIDPFV  204 (402)
T ss_pred             CCCccccccHHHHHHHHHHHHHhCCCeEEEcchh
Confidence                   0  12233333333 466799999863

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=96.46  E-value=0.014  Score=57.56  Aligned_cols=27  Identities=26%  Similarity=0.295  Sum_probs=23.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .....++|+|+.|+|||||++.+..-.
T Consensus       359 ~~G~~vaIvG~SGsGKSTLl~lL~g~~  385 (529)
T TIGR02868       359 PPGERVAILGPSGSGKSTLLMLLTGLL  385 (529)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            456799999999999999999987665

The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.46  E-value=0.021  Score=53.78  Aligned_cols=88  Identities=17%  Similarity=0.241  Sum_probs=47.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCC-cCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASK-DLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVK  160 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~  160 (371)
                      ...+++++|+.|+||||++..++.... .......+.++.... .....+-+..+.+.++.+..  ...+..+....+ .
T Consensus       190 ~g~vi~lvGpnG~GKTTtlakLA~~~~-~~~~~~~v~~i~~d~~rigalEQL~~~a~ilGvp~~--~v~~~~dl~~al-~  265 (420)
T PRK14721        190 QGGVYALIGPTGVGKTTTTAKLAARAV-IRHGADKVALLTTDSYRIGGHEQLRIYGKLLGVSVR--SIKDIADLQLML-H  265 (420)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHH-HhcCCCeEEEEecCCcchhHHHHHHHHHHHcCCcee--cCCCHHHHHHHH-H
Confidence            356899999999999999998887641 112223344444332 12333445556666654432  223333333222 2


Q ss_pred             HhCCCceEEEEeCC
Q 043737          161 NMSNKKFVLLLDHI  174 (371)
Q Consensus       161 ~l~~~~~LlVlDdv  174 (371)
                      .+.+. -++++|-.
T Consensus       266 ~l~~~-d~VLIDTa  278 (420)
T PRK14721        266 ELRGK-HMVLIDTV  278 (420)
T ss_pred             HhcCC-CEEEecCC
Confidence            33433 36667765

>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]

Probab=96.46  E-value=0.012  Score=57.26  Aligned_cols=123  Identities=14%  Similarity=0.091  Sum_probs=67.5

Q ss_pred             HHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCC-----
Q 043737           72 DRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESW-----  146 (371)
Q Consensus        72 ~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~-----  146 (371)
                      .+|+..+.  ...+|+|+|..|+||||=..+++...   ...-++.+-..-......-.+.+.+...++......     
T Consensus       362 ~~ll~~ir--~n~vvvivgETGSGKTTQl~QyL~ed---GY~~~GmIGcTQPRRvAAiSVAkrVa~EM~~~lG~~VGYsI  436 (1042)
T KOG0924|consen  362 DQLLSVIR--ENQVVVIVGETGSGKTTQLAQYLYED---GYADNGMIGCTQPRRVAAISVAKRVAEEMGVTLGDTVGYSI  436 (1042)
T ss_pred             HHHHHHHh--hCcEEEEEecCCCCchhhhHHHHHhc---ccccCCeeeecCchHHHHHHHHHHHHHHhCCccccccceEE
Confidence            44455553  35699999999999987666665554   333334443333333334566777777775422110     


Q ss_pred             -----C-------cCCHHHHHHHHHHHhC----CCceEEEEeCCCCccccccc-----ccccCCCCCCCcEEEEecCch
Q 043737          147 -----N-------SRSLQEKSQDIVKNMS----NKKFVLLLDHIWELVDLSQV-----GLPVPCRTSASNKTVFTAREL  204 (371)
Q Consensus       147 -----~-------~~~~~~~~~~l~~~l~----~~~~LlVlDdv~~~~~~~~~-----~~~l~~~~~~~~~iliTsR~~  204 (371)
                           .       -.+.+   -.+++.|.    .+--.+|+|++++...-..+     ...+  ......++||||-.-
T Consensus       437 RFEdvT~~~T~IkymTDG---iLLrEsL~d~~L~kYSviImDEAHERslNtDilfGllk~~l--arRrdlKliVtSATm  510 (1042)
T KOG0924|consen  437 RFEDVTSEDTKIKYMTDG---ILLRESLKDRDLDKYSVIIMDEAHERSLNTDILFGLLKKVL--ARRRDLKLIVTSATM  510 (1042)
T ss_pred             EeeecCCCceeEEEeccc---hHHHHHhhhhhhhheeEEEechhhhcccchHHHHHHHHHHH--HhhccceEEEeeccc
Confidence                 0       01111   22344443    34559999999865332221     1111  344577899998763

>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=96.45  E-value=0.0028  Score=52.80  Aligned_cols=23  Identities=30%  Similarity=0.605  Sum_probs=21.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +|+|.|.+|+||||||..+...+
T Consensus         1 ii~i~G~sgsGKttla~~l~~~l   23 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQL   23 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            58999999999999999999887

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>PRK06002 fliI flagellum-specific ATP synthase; Validated

Probab=96.44  E-value=0.012  Score=55.54  Aligned_cols=89  Identities=16%  Similarity=0.212  Sum_probs=49.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHh-----ccCCCCCCcCCHH----
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKI-----NLFNESWNSRSLQ----  152 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l-----~~~~~~~~~~~~~----  152 (371)
                      ....++|.|++|+|||||+..++...    ....++++..-....++..+....+...     .....  ....+.    
T Consensus       164 ~Gqri~I~G~SGsGKTTLL~~Ia~l~----~pd~gvv~liGergrev~e~~~~~l~~~r~rtI~vV~q--sd~~~~~r~~  237 (450)
T PRK06002        164 AGQRIGIFAGSGVGKSTLLAMLARAD----AFDTVVIALVGERGREVREFLEDTLADNLKKAVAVVAT--SDESPMMRRL  237 (450)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC----CCCeeeeeecccCCccHHHHhHHHHHHhhCCeEEEEEc--CCCCHHHHHH
Confidence            44589999999999999998887654    2223455544333344555444333322     11111  111111    


Q ss_pred             --HHHHHHHHHh--CCCceEEEEeCCCC
Q 043737          153 --EKSQDIVKNM--SNKKFVLLLDHIWE  176 (371)
Q Consensus       153 --~~~~~l~~~l--~~~~~LlVlDdv~~  176 (371)
                        .....+.+++  +++.+|+++||+-+
T Consensus       238 ~~~~a~~iAEyfrd~G~~Vll~~DslTr  265 (450)
T PRK06002        238 APLTATAIAEYFRDRGENVLLIVDSVTR  265 (450)
T ss_pred             HHHHHHHHHHHHHHcCCCEEEeccchHH
Confidence              1122223333  47899999999854

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=96.44  E-value=0.0027  Score=50.31  Aligned_cols=23  Identities=39%  Similarity=0.645  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +++|.|+.|+|||||++.+++..
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~~~   23 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLEEF   23 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHhcC
Confidence            37899999999999999998875

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.

>PRK14528 adenylate kinase; Provisional

Probab=96.43  E-value=0.0058  Score=51.23  Aligned_cols=24  Identities=17%  Similarity=0.167  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +.++|.|++|+||||+|+.++...
T Consensus         2 ~~i~i~G~pGsGKtt~a~~la~~~   25 (186)
T PRK14528          2 KNIIFMGPPGAGKGTQAKILCERL   25 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            468899999999999999998776

>PRK00279 adk adenylate kinase; Reviewed

Probab=96.42  E-value=0.005  Score=52.90  Aligned_cols=23  Identities=30%  Similarity=0.290  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .|+|+|++|+||||+|+.++...
T Consensus         2 ~I~v~G~pGsGKsT~a~~la~~~   24 (215)
T PRK00279          2 RLILLGPPGAGKGTQAKFIAEKY   24 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48899999999999999998876

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=96.41  E-value=0.01  Score=56.40  Aligned_cols=93  Identities=15%  Similarity=0.210  Sum_probs=56.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcC-CHHHHHHHHHHHhccCC----CCCCcCCHHH---
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDL-QLEQIQGSIAKKINLFN----ESWNSRSLQE---  153 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~l~~~l~~~~----~~~~~~~~~~---  153 (371)
                      ....++|.|.+|+|||+|+.++++...  +.+-+.++++-++... ...++...+...-....    -.....++..   
T Consensus       142 kGQR~gIfa~~G~GKt~Ll~~~~~~~~--~~~~dv~V~~liGER~rEv~ef~~~~~~~~~l~rsvvv~atsd~~~~~R~~  219 (461)
T PRK12597        142 KGGKTGLFGGAGVGKTVLMMELIFNIS--KQHSGSSVFAGVGERSREGHELYHEMKESGVLDKTVMVYGQMNEPPGARMR  219 (461)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHHHH--hhCCCEEEEEcCCcchHHHHHHHHHHHhcCCcceeEEEecCCCCCHHHHHH
Confidence            456899999999999999999998873  2355677777665443 45566666654321110    0001122221   


Q ss_pred             ---HHHHHHHHh---CCCceEEEEeCCCC
Q 043737          154 ---KSQDIVKNM---SNKKFVLLLDHIWE  176 (371)
Q Consensus       154 ---~~~~l~~~l---~~~~~LlVlDdv~~  176 (371)
                         ....+.+++   .++.+||++|++-+
T Consensus       220 a~~~a~tiAEyfrd~~G~~VLl~~DslTR  248 (461)
T PRK12597        220 VVLTGLTIAEYLRDEEKEDVLLFIDNIFR  248 (461)
T ss_pred             HHHHHHHHHHHHHHhcCCceEEEeccchH
Confidence               223334444   37899999999954

>PLN02165 adenylate isopentenyltransferase

Probab=96.41  E-value=0.0038  Score=56.55  Aligned_cols=29  Identities=21%  Similarity=0.338  Sum_probs=25.3

Q ss_pred             hcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           79 MEEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        79 ~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+....+++|.|+.|+|||+||..++..+
T Consensus        39 ~~~~g~iivIiGPTGSGKStLA~~LA~~l   67 (334)
T PLN02165         39 QNCKDKVVVIMGATGSGKSRLSVDLATRF   67 (334)
T ss_pred             cCCCCCEEEEECCCCCcHHHHHHHHHHHc
Confidence            34556799999999999999999999886

>COG2401 ABC-type ATPase fused to a predicted acetyltransferase domain [General function prediction only]

Probab=96.40  E-value=0.0029  Score=58.13  Aligned_cols=134  Identities=19%  Similarity=0.164  Sum_probs=68.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCC---C-CCeEEEEEeC---------CcC--CHHHHHHH-------------
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTPN---D-FDFVIWVVAS---------KDL--QLEQIQGS-------------  134 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~---~-f~~~~wv~~~---------~~~--~~~~~~~~-------------  134 (371)
                      .-+++|+|.+|+||||+.+++.........   . -.+.+-+..+         -.+  +-..++.+             
T Consensus       409 GdvvaVvGqSGaGKttllRmi~G~~~~~~ee~y~p~sg~v~vp~nt~~a~iPge~Ep~f~~~tilehl~s~tGD~~~Ave  488 (593)
T COG2401         409 GDVVAVVGQSGAGKTTLLRMILGAQKGRGEEKYRPDSGKVEVPKNTVSALIPGEYEPEFGEVTILEHLRSKTGDLNAAVE  488 (593)
T ss_pred             CCeEEEEecCCCCcchHHHHHHHHhhcccccccCCCCCceeccccchhhccCcccccccCchhHHHHHhhccCchhHHHH
Confidence            348999999999999999998877521111   0 0122222110         011  11133333             


Q ss_pred             HHHHhccCCCC-----CCcCCHH-HHHHHHHHHhCCCceEEEEeCCCCccc-c--cccccccC-CCCCCCcEEEEecCch
Q 043737          135 IAKKINLFNES-----WNSRSLQ-EKSQDIVKNMSNKKFVLLLDHIWELVD-L--SQVGLPVP-CRTSASNKTVFTAREL  204 (371)
Q Consensus       135 l~~~l~~~~~~-----~~~~~~~-~~~~~l~~~l~~~~~LlVlDdv~~~~~-~--~~~~~~l~-~~~~~~~~iliTsR~~  204 (371)
                      +++..++....     ....+.+ .--..+.+.+.+++-++++|.+....+ .  ..+...+. .....++.+++.|+.+
T Consensus       489 ILnraGlsDAvlyRr~f~ELStGQKeR~KLAkllaerpn~~~iDEF~AhLD~~TA~rVArkiselaRe~giTlivvThrp  568 (593)
T COG2401         489 ILNRAGLSDAVLYRRKFSELSTGQKERAKLAKLLAERPNVLLIDEFAAHLDELTAVRVARKISELAREAGITLIVVTHRP  568 (593)
T ss_pred             HHHhhccchhhhhhccHhhcCcchHHHHHHHHHHhcCCCcEEhhhhhhhcCHHHHHHHHHHHHHHHHHhCCeEEEEecCH
Confidence            33333332111     1112222 234556677778888999999864322 1  11111111 1233566777767767


Q ss_pred             HHHhhccCCCce
Q 043737          205 EVCGQMEAHKSF  216 (371)
Q Consensus       205 ~~~~~~~~~~~~  216 (371)
                      .+.+.+.+...+
T Consensus       569 Ev~~AL~PD~li  580 (593)
T COG2401         569 EVGNALRPDTLI  580 (593)
T ss_pred             HHHhccCCceeE
Confidence            777666555443

>PRK00889 adenylylsulfate kinase; Provisional

Probab=96.40  E-value=0.0044  Score=51.34  Aligned_cols=26  Identities=27%  Similarity=0.355  Sum_probs=23.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|++|+||||+|+.++..+
T Consensus         3 ~g~~i~~~G~~GsGKST~a~~la~~l   28 (175)
T PRK00889          3 RGVTVWFTGLSGAGKTTIARALAEKL   28 (175)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            34689999999999999999999987

>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=96.40  E-value=0.0042  Score=54.13  Aligned_cols=35  Identities=20%  Similarity=0.144  Sum_probs=24.0

Q ss_pred             EEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCc
Q 043737           88 LYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKD  125 (371)
Q Consensus        88 I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~  125 (371)
                      |.||+|+||||+++.+.+..   ......+..+++...
T Consensus         1 ViGpaGSGKTT~~~~~~~~~---~~~~~~~~~vNLDPa   35 (238)
T PF03029_consen    1 VIGPAGSGKTTFCKGLSEWL---ESNGRDVYIVNLDPA   35 (238)
T ss_dssp             -EESTTSSHHHHHHHHHHHH---TTT-S-EEEEE--TT
T ss_pred             CCCCCCCCHHHHHHHHHHHH---HhccCCceEEEcchH
Confidence            68999999999999999998   333345666665543

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

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

Probab=96.39  E-value=0.0025  Score=53.24  Aligned_cols=23  Identities=39%  Similarity=0.639  Sum_probs=21.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +|+|.|.+|+||||||+.++..+
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~~   23 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRIL   23 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            58899999999999999999886

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.

>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop

Probab=96.37  E-value=0.0072  Score=46.54  Aligned_cols=27  Identities=22%  Similarity=0.300  Sum_probs=23.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....+|.+.|.-|+||||+++.+++.+
T Consensus        13 ~~g~vi~L~GdLGaGKTtf~r~l~~~l   39 (123)
T PF02367_consen   13 KPGDVILLSGDLGAGKTTFVRGLARAL   39 (123)
T ss_dssp             SS-EEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHc
Confidence            345799999999999999999999987

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.

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=96.36  E-value=0.0071  Score=51.37  Aligned_cols=42  Identities=33%  Similarity=0.381  Sum_probs=30.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCH
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQL  128 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~  128 (371)
                      .|+|+|-||+||||+|..++.++.  ..+-..++-++...+.++
T Consensus         2 kIaI~GKGG~GKTtiaalll~~l~--~~~~~~VLvVDaDpd~nL   43 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLKRLL--SKGGYNVLVVDADPDSNL   43 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHHHHH--hcCCceEEEEeCCCCCCh
Confidence            589999999999999999777763  222235666776665543

>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=96.35  E-value=0.0064  Score=55.14  Aligned_cols=49  Identities=27%  Similarity=0.245  Sum_probs=35.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHH
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGS  134 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  134 (371)
                      .+++++.|-||+||||+|...+-.+.   .....++-++.....+..+++..
T Consensus         2 ~riv~f~GKGGVGKTT~aaA~A~~lA---~~g~kvLlvStDPAhsL~d~f~~   50 (322)
T COG0003           2 TRIVFFTGKGGVGKTTIAAATAVKLA---ESGKKVLLVSTDPAHSLGDVFDL   50 (322)
T ss_pred             cEEEEEecCCcccHHHHHHHHHHHHH---HcCCcEEEEEeCCCCchHhhhcc
Confidence            47899999999999999999777763   22244777777666666555544

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.35  E-value=0.02  Score=54.90  Aligned_cols=88  Identities=17%  Similarity=0.220  Sum_probs=48.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCC-cCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHH
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASK-DLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKN  161 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~  161 (371)
                      ..+++++|+.|+||||++.+++..+. .......+..+.... ..+..+-+..+...++....  ...+..+....+ ..
T Consensus       256 g~Vi~LvGpnGvGKTTTiaKLA~~~~-~~~G~~kV~LI~~Dt~RigA~EQLr~~AeilGVpv~--~~~~~~Dl~~aL-~~  331 (484)
T PRK06995        256 GGVFALMGPTGVGKTTTTAKLAARCV-MRHGASKVALLTTDSYRIGGHEQLRIYGKILGVPVH--AVKDAADLRLAL-SE  331 (484)
T ss_pred             CcEEEEECCCCccHHHHHHHHHHHHH-HhcCCCeEEEEeCCccchhHHHHHHHHHHHhCCCee--ccCCchhHHHHH-Hh
Confidence            46999999999999999999998762 111122455555443 22334455555666654322  111222222222 23


Q ss_pred             hCCCceEEEEeCCC
Q 043737          162 MSNKKFVLLLDHIW  175 (371)
Q Consensus       162 l~~~~~LlVlDdv~  175 (371)
                      +.++ -.+++|-.-
T Consensus       332 L~d~-d~VLIDTaG  344 (484)
T PRK06995        332 LRNK-HIVLIDTIG  344 (484)
T ss_pred             ccCC-CeEEeCCCC
Confidence            3333 377777764

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=96.35  E-value=0.0046  Score=56.54  Aligned_cols=46  Identities=17%  Similarity=0.276  Sum_probs=37.5

Q ss_pred             CccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..++|.+..+..+.-.+.+.+..-+.+.|++|+||||+|+.+..-+
T Consensus         8 ~~i~Gq~~~~~~l~~~~~~~~~~~vLl~G~pG~gKT~lar~la~ll   53 (334)
T PRK13407          8 SAIVGQEEMKQAMVLTAIDPGIGGVLVFGDRGTGKSTAVRALAALL   53 (334)
T ss_pred             HHhCCHHHHHHHHHHHHhccCCCcEEEEcCCCCCHHHHHHHHHHHC
Confidence            5679999998887765544444579999999999999999997776

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=96.35  E-value=0.0039  Score=51.13  Aligned_cols=25  Identities=28%  Similarity=0.275  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+++|.||+|+|||||++++..+.
T Consensus         4 G~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           4 GLLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhc
Confidence            4688999999999999999998774

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=96.34  E-value=0.0027  Score=53.84  Aligned_cols=23  Identities=35%  Similarity=0.564  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +|+|.|++|+|||||++.+...+
T Consensus         1 iigi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999998775

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.

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=96.34  E-value=0.0038  Score=52.70  Aligned_cols=25  Identities=28%  Similarity=0.251  Sum_probs=23.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+++|.|.+|+||||+|..++.+.
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~~   27 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARHR   27 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999999999886

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=96.33  E-value=0.0048  Score=51.69  Aligned_cols=36  Identities=22%  Similarity=0.093  Sum_probs=26.7

Q ss_pred             HHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           71 FDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        71 ~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +..++..... ....++|.|+.|+|||||++.++...
T Consensus        14 ~~~~l~~~v~-~g~~i~I~G~tGSGKTTll~aL~~~i   49 (186)
T cd01130          14 QAAYLWLAVE-ARKNILISGGTGSGKTTLLNALLAFI   49 (186)
T ss_pred             HHHHHHHHHh-CCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            3334443333 35689999999999999999998776

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.

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

Probab=96.33  E-value=0.046  Score=54.21  Aligned_cols=43  Identities=23%  Similarity=0.227  Sum_probs=34.8

Q ss_pred             ccchhHHHHHHHHHhcC---------CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           65 VGLQSTFDRVWRCLMEE---------QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        65 vGR~~~~~~l~~~L~~~---------~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+++..+..+.+.+...         -..++.++|++|+||||+++.++.++
T Consensus       404 ~~~~~~~~~l~~vl~p~~~~s~~~~~~~~~vLLhG~~g~GK~t~V~~vas~l  455 (953)
T KOG0736|consen  404 PGLEAKVLELVAVLSPQKQPSGALLTLNPSVLLHGPPGSGKTTVVRAVASEL  455 (953)
T ss_pred             ccchHHHHHHHHHhCcccCcchhccccceEEEEeCCCCCChHHHHHHHHHHh
Confidence            56677777777777542         34688999999999999999999998

>PRK08972 fliI flagellum-specific ATP synthase; Validated

Probab=96.32  E-value=0.015  Score=54.83  Aligned_cols=91  Identities=15%  Similarity=0.184  Sum_probs=52.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcC-CHHHHHHHHHHHhccCC----CCCCcCCHHH---
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDL-QLEQIQGSIAKKINLFN----ESWNSRSLQE---  153 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~l~~~l~~~~----~~~~~~~~~~---  153 (371)
                      ....++|.|+.|+|||||++.++...     ..+.+++.-++... .+.++...++..-+...    -......+..   
T Consensus       161 ~GqrigI~G~sG~GKSTLL~~I~~~~-----~~dv~Vi~lIGER~rEv~efi~~~l~~~~l~rtvvv~atsd~p~~~R~~  235 (444)
T PRK08972        161 KGQRMGLFAGSGVGKSVLLGMMTRGT-----TADVIVVGLVGERGREVKEFIEEILGEEGRARSVVVAAPADTSPLMRLK  235 (444)
T ss_pred             CCCEEEEECCCCCChhHHHHHhccCC-----CCCEEEEEEEcCChHHHHHHHHHhhccCCcccEEEEEECCCCCHHHHHH
Confidence            45689999999999999999988654     22455555555443 34556655544321110    0001111211   


Q ss_pred             ---HHHHHHHHh--CCCceEEEEeCCCCc
Q 043737          154 ---KSQDIVKNM--SNKKFVLLLDHIWEL  177 (371)
Q Consensus       154 ---~~~~l~~~l--~~~~~LlVlDdv~~~  177 (371)
                         ..-.+.+++  +++.+|+++||+-+.
T Consensus       236 a~~~A~tiAEyfrd~G~~VLl~~DslTR~  264 (444)
T PRK08972        236 GCETATTIAEYFRDQGLNVLLLMDSLTRY  264 (444)
T ss_pred             HHHHHHHHHHHHHHcCCCEEEEEcChHHH
Confidence               112233333  579999999999543

>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B

Probab=96.32  E-value=0.014  Score=51.49  Aligned_cols=96  Identities=8%  Similarity=0.083  Sum_probs=56.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccC-CCCCCCeEEEEEeCCcC-CHHHHHHHHHHHhccCCC----CCCcCCHHH--
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLH-TPNDFDFVIWVVASKDL-QLEQIQGSIAKKINLFNE----SWNSRSLQE--  153 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~-~~~~f~~~~wv~~~~~~-~~~~~~~~l~~~l~~~~~----~~~~~~~~~--  153 (371)
                      ....++|.|.+|+|||+|+.+++++... .+.+-+.++++-+++.. ...++..++...=.....    ......+..  
T Consensus        68 ~GQR~gIfgg~GvGKt~L~~~i~~~~~~~~~~~~~v~V~~~IGeR~rev~e~~~~~~~~~~l~~tv~v~~t~~~~~~~r~  147 (276)
T cd01135          68 RGQKIPIFSGSGLPHNELAAQIARQAGVVGEEENFAVVFAAMGITMEDARFFKDDFEETGALERVVLFLNLANDPTIERI  147 (276)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHhhhccccCCCCEEEEEEeccccHHHHHHHHHhhhcCCcceEEEEEecCCCCHHHHH
Confidence            4458899999999999999998877621 12334677887776543 456666666543211100    001111111  


Q ss_pred             ----HHHHHHHHh---CCCceEEEEeCCCCc
Q 043737          154 ----KSQDIVKNM---SNKKFVLLLDHIWEL  177 (371)
Q Consensus       154 ----~~~~l~~~l---~~~~~LlVlDdv~~~  177 (371)
                          ..-.+.+++   .++++|+++||+-+.
T Consensus       148 ~a~~~a~aiAEyfrd~~g~~VLl~~D~ltr~  178 (276)
T cd01135         148 ITPRMALTTAEYLAYEKGKHVLVILTDMTNY  178 (276)
T ss_pred             HHHHHHHHHHHHHHhccCCeEEEEEcChhHH
Confidence                122233443   368999999998543

These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria. This subfamily consists of the non-catalytic beta subunit.

>PRK13947 shikimate kinase; Provisional

Probab=96.32  E-value=0.0034  Score=51.79  Aligned_cols=23  Identities=26%  Similarity=0.335  Sum_probs=21.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .|+|.|++|+||||+++.+++.+
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~l   25 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTL   25 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHh
Confidence            58999999999999999999987

>TIGR03263 guanyl_kin guanylate kinase

Probab=96.32  E-value=0.0032  Score=52.42  Aligned_cols=24  Identities=25%  Similarity=0.328  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ++++|.|+.|+|||||++.++...
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~~~   25 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLEED   25 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHccC
Confidence            579999999999999999998865

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.

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=96.31  E-value=0.0027  Score=51.93  Aligned_cols=22  Identities=23%  Similarity=0.486  Sum_probs=20.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043737           86 VGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        86 v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ++|+|++|+||||+|+.+...+
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l   22 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRL   22 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999998886

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.

>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=96.30  E-value=0.003  Score=50.50  Aligned_cols=23  Identities=30%  Similarity=0.498  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +|.|.|++|+||||+|+.++..+
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~~   23 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKKL   23 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999999886

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

Probab=96.30  E-value=0.0031  Score=50.96  Aligned_cols=20  Identities=30%  Similarity=0.517  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q 043737           85 IVGLYGMGEVGKTTLLTQIN  104 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~  104 (371)
                      .|+|+|.||+||||++..+.
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            68999999999999999987

>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=96.30  E-value=0.013  Score=51.34  Aligned_cols=79  Identities=11%  Similarity=0.033  Sum_probs=43.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCC--HHHHHHHHHHH----hccCCCCCCcCCHHHHHHHH
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQ--LEQIQGSIAKK----INLFNESWNSRSLQEKSQDI  158 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~--~~~~~~~l~~~----l~~~~~~~~~~~~~~~~~~l  158 (371)
                      +|+|.|.+|+||||++..+.+.+.   ..-..+..++...-..  -...-..+...    .....-.....+.+.+.+.+
T Consensus         1 IIgItG~SGSGKTTv~~~l~~~l~---~~g~~v~vI~~D~yyr~~r~~~~~~~~~a~~~~~nfdHf~PeAnd~dlL~~~l   77 (277)
T cd02029           1 VIAVTGSSGAGTTTVKRAFEHIFA---REGIHPAVVEGDSFHRYERMEMKMAIAEALDAGRNFSHFGPEANLFDLLEELF   77 (277)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHH---hcCCceEEEeccccccCCchhHHHHHHHHhhcCCCCCCCCcccccHHHHHHHH
Confidence            489999999999999999988872   1112344554433222  11222222221    12222112455666666777


Q ss_pred             HHHhCCCc
Q 043737          159 VKNMSNKK  166 (371)
Q Consensus       159 ~~~l~~~~  166 (371)
                      +.+..++.
T Consensus        78 ~~L~~g~~   85 (277)
T cd02029          78 RTYGETGR   85 (277)
T ss_pred             HHHHcCCC
Confidence            76666543

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.

>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=96.29  E-value=0.0037  Score=47.93  Aligned_cols=22  Identities=27%  Similarity=0.380  Sum_probs=20.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043737           86 VGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        86 v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      |+|.|..|+|||||++.++...
T Consensus         2 I~V~G~~g~GKTsLi~~l~~~~   23 (119)
T PF08477_consen    2 IVVLGDSGVGKTSLIRRLCGGE   23 (119)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEECcCCCCHHHHHHHHhcCC
Confidence            7899999999999999999776

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.

>COG2842 Uncharacterized ATPase, putative transposase [General function prediction only]

Probab=96.28  E-value=0.036  Score=48.91  Aligned_cols=106  Identities=12%  Similarity=0.159  Sum_probs=67.4

Q ss_pred             CCCccccchhHHHHHHHHHhc--CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHH
Q 043737           60 LPPTVVGLQSTFDRVWRCLME--EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAK  137 (371)
Q Consensus        60 ~~~~~vGR~~~~~~l~~~L~~--~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~  137 (371)
                      ..+.|+|-..- .++...+..  ...+.+.++|.+|+|||+-++++++..       +..+.+..+...+...+...+..
T Consensus        70 ~~~~~l~tkt~-r~~~~~~~~A~k~g~l~~vyg~~g~gKt~a~~~y~~s~-------p~~~l~~~~p~~~a~~~i~~i~~  141 (297)
T COG2842          70 LAPDFLETKTV-RRIFFRTRPASKTGSLVVVYGYAGLGKTQAAKNYAPSN-------PNALLIEADPSYTALVLILIICA  141 (297)
T ss_pred             ccccccccchh-HhHhhhhhhhhhcCceEEEeccccchhHHHHHhhcccC-------ccceeecCChhhHHHHHHHHHHH
Confidence            34566665432 223333321  234489999999999999999998776       23334455555566666666655


Q ss_pred             HhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCc
Q 043737          138 KINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWEL  177 (371)
Q Consensus       138 ~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~  177 (371)
                      .....    ......+....+...+.+..-+++.|+.+..
T Consensus       142 ~~~~~----~~~~~~d~~~~~~~~l~~~~~~iivDEA~~L  177 (297)
T COG2842         142 AAFGA----TDGTINDLTERLMIRLRDTVRLIIVDEADRL  177 (297)
T ss_pred             HHhcc----cchhHHHHHHHHHHHHccCcceeeeehhhcc
Confidence            55433    3344555666666677787889999998754

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=96.28  E-value=0.0036  Score=53.65  Aligned_cols=23  Identities=26%  Similarity=0.346  Sum_probs=20.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHh
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINK  105 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~  105 (371)
                      .+.++|+|+.|.|||||.+.+..
T Consensus        29 ~~~~~itGpNg~GKStlLk~i~~   51 (213)
T cd03281          29 PSIMVITGPNSSGKSVYLKQVAL   51 (213)
T ss_pred             ceEEEEECCCCCChHHHHHHHHH
Confidence            48999999999999999998874

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=96.27  E-value=0.015  Score=55.11  Aligned_cols=93  Identities=14%  Similarity=0.249  Sum_probs=55.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcC-CHHHHHHHHHHHhccCC----CCCCcCCHHH---
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDL-QLEQIQGSIAKKINLFN----ESWNSRSLQE---  153 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~l~~~l~~~~----~~~~~~~~~~---  153 (371)
                      ....++|.|.+|+|||+|+.+++....  .++-+.++++-++... .+.++.+.+...=....    -.....++..   
T Consensus       143 kGQR~gIfa~~GvGKt~Ll~~i~~~~~--~~~~~v~V~~liGER~rEv~efi~~~~~~~~l~rsvvV~atsd~p~~~r~~  220 (463)
T PRK09280        143 KGGKIGLFGGAGVGKTVLIQELINNIA--KEHGGYSVFAGVGERTREGNDLYHEMKESGVLDKTALVFGQMNEPPGARLR  220 (463)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHHHH--hcCCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHH
Confidence            456899999999999999999887762  2223456666665443 45666666665321110    0001121221   


Q ss_pred             ---HHHHHHHHh---CCCceEEEEeCCCC
Q 043737          154 ---KSQDIVKNM---SNKKFVLLLDHIWE  176 (371)
Q Consensus       154 ---~~~~l~~~l---~~~~~LlVlDdv~~  176 (371)
                         ..-.+.+++   +++++||++|++-+
T Consensus       221 a~~~a~tiAEyfrd~~G~~VLll~DslTR  249 (463)
T PRK09280        221 VALTGLTMAEYFRDVEGQDVLLFIDNIFR  249 (463)
T ss_pred             HHHHHHHHHHHHHHhcCCceEEEecchHH
Confidence               122334444   67899999999954

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

Probab=96.27  E-value=0.011  Score=47.97  Aligned_cols=117  Identities=17%  Similarity=0.132  Sum_probs=59.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHH-HHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQ-EKSQDIVK  160 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~-~~~~~l~~  160 (371)
                      ...+++|.|+.|.|||||++.+....    ....+.+++........  ........+.....    -+.+ ...-.+..
T Consensus        24 ~g~~~~i~G~nGsGKStll~~l~g~~----~~~~G~i~~~~~~~~~~--~~~~~~~~i~~~~q----lS~G~~~r~~l~~   93 (157)
T cd00267          24 AGEIVALVGPNGSGKSTLLRAIAGLL----KPTSGEILIDGKDIAKL--PLEELRRRIGYVPQ----LSGGQRQRVALAR   93 (157)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC----CCCccEEEECCEEcccC--CHHHHHhceEEEee----CCHHHHHHHHHHH
Confidence            34699999999999999999998765    22344455432211110  01112222222111    1112 22222344


Q ss_pred             HhCCCceEEEEeCCCCccc---ccccccccCCCCCCCcEEEEecCchHHHh
Q 043737          161 NMSNKKFVLLLDHIWELVD---LSQVGLPVPCRTSASNKTVFTARELEVCG  208 (371)
Q Consensus       161 ~l~~~~~LlVlDdv~~~~~---~~~~~~~l~~~~~~~~~iliTsR~~~~~~  208 (371)
                      .+-..+-++++|+.....+   ...+...+......+..++++|.......
T Consensus        94 ~l~~~~~i~ilDEp~~~lD~~~~~~l~~~l~~~~~~~~tii~~sh~~~~~~  144 (157)
T cd00267          94 ALLLNPDLLLLDEPTSGLDPASRERLLELLRELAEEGRTVIIVTHDPELAE  144 (157)
T ss_pred             HHhcCCCEEEEeCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHHH
Confidence            4445567999999864433   22222222101122467777777765544

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.

>COG4240 Predicted kinase [General function prediction only]

Probab=96.26  E-value=0.03  Score=47.40  Aligned_cols=85  Identities=13%  Similarity=-0.012  Sum_probs=49.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhcc---CCCCCCcCCHHHHHHH
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINL---FNESWNSRSLQEKSQD  157 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~---~~~~~~~~~~~~~~~~  157 (371)
                      +++-+++|+|+-|+||||++..+...+. .++. ..+...++..-+-...-...++++...   ........++.-....
T Consensus        48 grPli~gisGpQGSGKStls~~i~~~L~-~kg~-ert~~lSLDDlYlthadrl~La~q~npllq~RGlpGTHD~tlglnV  125 (300)
T COG4240          48 GRPLIVGISGPQGSGKSTLSALIVRLLA-AKGL-ERTATLSLDDLYLTHADRLRLARQVNPLLQTRGLPGTHDPTLGLNV  125 (300)
T ss_pred             CCceEEEeecCCCCchhhHHHHHHHHHH-Hhcc-cceEEeehhhhhcchHHHHHHHHhcCchhcccCCCCCCchHHHHHH
Confidence            4566899999999999999999998883 2221 366666655444333333344444211   1111134455555555


Q ss_pred             HHHHhCCCce
Q 043737          158 IVKNMSNKKF  167 (371)
Q Consensus       158 l~~~l~~~~~  167 (371)
                      +....+++..
T Consensus       126 Lnai~~g~~~  135 (300)
T COG4240         126 LNAIARGGPT  135 (300)
T ss_pred             HHHHhcCCCC
Confidence            6666666544

>PRK00300 gmk guanylate kinase; Provisional

Probab=96.25  E-value=0.0043  Score=52.86  Aligned_cols=26  Identities=23%  Similarity=0.269  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|+|++|+|||||++.++...
T Consensus         4 ~g~~i~i~G~sGsGKstl~~~l~~~~   29 (205)
T PRK00300          4 RGLLIVLSGPSGAGKSTLVKALLERD   29 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            35689999999999999999998876

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=96.25  E-value=0.032  Score=54.67  Aligned_cols=88  Identities=14%  Similarity=0.095  Sum_probs=55.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCC-------------CCCCc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFN-------------ESWNS  148 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~-------------~~~~~  148 (371)
                      ...++.|.|++|+|||+|+.+++....   ..-..++|++....  ..++.... ..++...             .....
T Consensus       272 ~g~~~li~G~~G~GKT~l~~~~~~~~~---~~g~~~~yis~e~~--~~~i~~~~-~~~g~~~~~~~~~g~l~i~~~~~~~  345 (509)
T PRK09302        272 RGSIILVSGATGTGKTLLASKFAEAAC---RRGERCLLFAFEES--RAQLIRNA-RSWGIDLEKMEEKGLLKIICARPES  345 (509)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHH---hCCCcEEEEEecCC--HHHHHHHH-HHcCCChHHHhhcCCceeecCCccc
Confidence            356889999999999999999987762   23457888877653  44444433 3333211             00122


Q ss_pred             CCHHHHHHHHHHHhCC-CceEEEEeCCC
Q 043737          149 RSLQEKSQDIVKNMSN-KKFVLLLDHIW  175 (371)
Q Consensus       149 ~~~~~~~~~l~~~l~~-~~~LlVlDdv~  175 (371)
                      ...++....+.+.+.. +.-++|+|.+.
T Consensus       346 ~~~~~~~~~i~~~i~~~~~~~vVIDslt  373 (509)
T PRK09302        346 YGLEDHLIIIKREIEEFKPSRVAIDPLS  373 (509)
T ss_pred             CCHHHHHHHHHHHHHHcCCCEEEEcCHH
Confidence            2345555666665543 45589999985

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=96.22  E-value=0.0073  Score=55.36  Aligned_cols=46  Identities=17%  Similarity=0.247  Sum_probs=38.3

Q ss_pred             CccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+||.++.+..|.-.+.+....-|.|.|+.|+|||||++.+..-+
T Consensus         4 ~~ivgq~~~~~al~~~~~~~~~g~vli~G~~G~gKttl~r~~~~~~   49 (337)
T TIGR02030         4 TAIVGQDEMKLALLLNVIDPKIGGVMVMGDRGTGKSTAVRALAALL   49 (337)
T ss_pred             cccccHHHHHHHHHHHhcCCCCCeEEEEcCCCCCHHHHHHHHHHhh
Confidence            4579999998888777766556678899999999999999998766

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.

>PRK08927 fliI flagellum-specific ATP synthase; Validated

Probab=96.22  E-value=0.023  Score=53.65  Aligned_cols=90  Identities=14%  Similarity=0.177  Sum_probs=51.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcC-CHHHHHHHHHHHhccCC----CCCCcCCHHH---
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDL-QLEQIQGSIAKKINLFN----ESWNSRSLQE---  153 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~l~~~l~~~~----~~~~~~~~~~---  153 (371)
                      ....++|.|..|+|||||+++++...     ..+.+++.-++... ...++....+..-+...    -.....++..   
T Consensus       157 ~Gqri~I~G~sG~GKTtLL~~I~~~~-----~~d~~v~~~iGER~rEv~ef~~~~l~~~~l~rsvvv~atsd~~~~~r~~  231 (442)
T PRK08927        157 RGQRMGIFAGSGVGKSVLLSMLARNA-----DADVSVIGLIGERGREVQEFLQDDLGPEGLARSVVVVATSDEPALMRRQ  231 (442)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcc-----CCCEEEEEEEecCcHHHHHHHHHHhhccCceeEEEEEECCCCCHHHHHH
Confidence            45689999999999999999988765     12345555554433 34455544443322110    0001111111   


Q ss_pred             ---HHHHHHHHh--CCCceEEEEeCCCC
Q 043737          154 ---KSQDIVKNM--SNKKFVLLLDHIWE  176 (371)
Q Consensus       154 ---~~~~l~~~l--~~~~~LlVlDdv~~  176 (371)
                         ..-.+.+++  +++.+|+++||+-+
T Consensus       232 a~~~a~tiAEyfrd~G~~Vll~~DslTr  259 (442)
T PRK08927        232 AAYLTLAIAEYFRDQGKDVLCLMDSVTR  259 (442)
T ss_pred             HHHHHHHHHHHHHHCCCcEEEEEeCcHH
Confidence               122233333  57899999999954

>PRK13949 shikimate kinase; Provisional

Probab=96.22  E-value=0.0043  Score=51.12  Aligned_cols=24  Identities=29%  Similarity=0.332  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +.|+|+|++|+||||+++.++..+
T Consensus         2 ~~I~liG~~GsGKstl~~~La~~l   25 (169)
T PRK13949          2 ARIFLVGYMGAGKTTLGKALAREL   25 (169)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            358999999999999999999987

>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=96.22  E-value=0.011  Score=53.87  Aligned_cols=47  Identities=21%  Similarity=0.256  Sum_probs=33.9

Q ss_pred             CCccccchhHHHH---HHHHHhcCC--ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           61 PPTVVGLQSTFDR---VWRCLMEEQ--MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        61 ~~~~vGR~~~~~~---l~~~L~~~~--~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+||..+..+.   +++.+.+.+  .+.+.+.|++|+|||+||..+++.+
T Consensus        23 ~~GlVGQ~~AReAagiiv~mIk~~K~aGr~iLiaGppGtGKTAlA~~ia~eL   74 (398)
T PF06068_consen   23 ADGLVGQEKAREAAGIIVDMIKEGKIAGRAILIAGPPGTGKTALAMAIAKEL   74 (398)
T ss_dssp             ETTEES-HHHHHHHHHHHHHHHTT--TT-EEEEEE-TTSSHHHHHHHHHHHC
T ss_pred             cccccChHHHHHHHHHHHHHHhcccccCcEEEEeCCCCCCchHHHHHHHHHh
Confidence            4678998765443   455555543  5899999999999999999999998

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.

>PRK14530 adenylate kinase; Provisional

Probab=96.22  E-value=0.004  Score=53.55  Aligned_cols=24  Identities=25%  Similarity=0.333  Sum_probs=22.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +.|+|.|++|+||||+++.++...
T Consensus         4 ~~I~i~G~pGsGKsT~~~~La~~~   27 (215)
T PRK14530          4 PRILLLGAPGAGKGTQSSNLAEEF   27 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHh
Confidence            468999999999999999998887

>PRK05922 type III secretion system ATPase; Validated

Probab=96.21  E-value=0.017  Score=54.43  Aligned_cols=92  Identities=10%  Similarity=0.172  Sum_probs=50.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeC-CcCCHHHHHHHHHHHhccCCCC----CCcCCHHH--
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVAS-KDLQLEQIQGSIAKKINLFNES----WNSRSLQE--  153 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~-~~~~~~~~~~~l~~~l~~~~~~----~~~~~~~~--  153 (371)
                      .....++|.|+.|+|||||++.++...   . . +...+..++ ......+.+.+..........-    ....++..  
T Consensus       155 ~~GqrigI~G~nG~GKSTLL~~Ia~~~---~-~-d~gvi~liGerg~ev~eyl~q~~~~~~~~rTVlv~atsd~~~~~r~  229 (434)
T PRK05922        155 GKGQRIGVFSEPGSGKSSLLSTIAKGS---K-S-TINVIALIGERGREVREYIEQHKEGLAAQRTIIIASPAHETAPTKV  229 (434)
T ss_pred             cCCcEEEEECCCCCChHHHHHHHhccC---C-C-CceEEEEeCCCCchHHHHHHHHHhhccccceEEEEECCCCCHHHHH
Confidence            345579999999999999999998764   1 2 223332232 2334455665555433221100    01111111  


Q ss_pred             ----HHHHHHHHh--CCCceEEEEeCCCCc
Q 043737          154 ----KSQDIVKNM--SNKKFVLLLDHIWEL  177 (371)
Q Consensus       154 ----~~~~l~~~l--~~~~~LlVlDdv~~~  177 (371)
                          ..-.+.+++  +++++|+++|++-+.
T Consensus       230 ~a~~~a~tiAEyfrd~G~~VLl~~DslTR~  259 (434)
T PRK05922        230 IAGRAAMTIAEYFRDQGHRVLFIMDSLSRW  259 (434)
T ss_pred             HHHHHHHHHHHHHHHcCCCEEEeccchhHH
Confidence                122233333  478999999999543

>PRK03846 adenylylsulfate kinase; Provisional

Probab=96.20  E-value=0.0071  Score=51.24  Aligned_cols=27  Identities=15%  Similarity=0.294  Sum_probs=24.4

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....+++|+|.+|+||||||+.+...+
T Consensus        22 ~~~~~i~i~G~~GsGKSTla~~l~~~l   48 (198)
T PRK03846         22 HKGVVLWFTGLSGSGKSTVAGALEEAL   48 (198)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            456799999999999999999999876

>PRK14529 adenylate kinase; Provisional

Probab=96.20  E-value=0.023  Score=48.87  Aligned_cols=83  Identities=14%  Similarity=0.075  Sum_probs=44.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhccCCCCCCC-e-EEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHh
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKFLHTPNDFD-F-VIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNM  162 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~-~-~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l  162 (371)
                      .|+|.|++|+||||+++.++....  -.+.+ + ++.-.+..........+.++..=       .....+.....+.+.+
T Consensus         2 ~I~l~G~PGsGK~T~a~~La~~~~--~~~is~gdllr~~i~~~t~lg~~i~~~i~~G-------~lvpdei~~~lv~~~l   72 (223)
T PRK14529          2 NILIFGPNGSGKGTQGALVKKKYD--LAHIESGAIFREHIGGGTELGKKAKEYIDRG-------DLVPDDITIPMILETL   72 (223)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC--CCCcccchhhhhhccCCChHHHHHHHHHhcc-------CcchHHHHHHHHHHHH
Confidence            378899999999999999998872  12222 1 11111222222223333333221       2223334455555555


Q ss_pred             CCC-ceEEEEeCCCC
Q 043737          163 SNK-KFVLLLDHIWE  176 (371)
Q Consensus       163 ~~~-~~LlVlDdv~~  176 (371)
                      .+. ..=+|||.+-.
T Consensus        73 ~~~~~~g~iLDGfPR   87 (223)
T PRK14529         73 KQDGKNGWLLDGFPR   87 (223)
T ss_pred             hccCCCcEEEeCCCC
Confidence            431 34599999853

>PRK09099 type III secretion system ATPase; Provisional

Probab=96.20  E-value=0.021  Score=54.16  Aligned_cols=93  Identities=16%  Similarity=0.211  Sum_probs=52.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCC----CCCcCCHHH---
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNE----SWNSRSLQE---  153 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~----~~~~~~~~~---  153 (371)
                      .....++|.|+.|+|||||++.++...   .. ...+++..-.+...+.++.+.+...-+....    .....++..   
T Consensus       161 ~~Gq~~~I~G~sG~GKTtLl~~ia~~~---~~-d~~vi~~iGer~~ev~ef~~~~~~~~~l~rtvvv~~tsd~p~~~r~~  236 (441)
T PRK09099        161 GEGQRMGIFAPAGVGKSTLMGMFARGT---QC-DVNVIALIGERGREVREFIELILGEDGMARSVVVCATSDRSSIERAK  236 (441)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCC---CC-CeEEEEEEccChHHHHHHHHHHhhcCCcceEEEEEECCCCCHHHHHH
Confidence            355689999999999999999998765   11 1244444434444566666666543221100    001111111   


Q ss_pred             ---HHHHHHHHh--CCCceEEEEeCCCCc
Q 043737          154 ---KSQDIVKNM--SNKKFVLLLDHIWEL  177 (371)
Q Consensus       154 ---~~~~l~~~l--~~~~~LlVlDdv~~~  177 (371)
                         ..-.+.+++  +++.+|+++|++-+.
T Consensus       237 a~~~a~tiAEyfrd~G~~VLl~~DslTr~  265 (441)
T PRK09099        237 AAYVATAIAEYFRDRGLRVLLMMDSLTRF  265 (441)
T ss_pred             HHHHHHHHHHHHHHcCCCEEEeccchhHH
Confidence               122233333  478999999998543

>PRK08149 ATP synthase SpaL; Validated

Probab=96.20  E-value=0.026  Score=53.27  Aligned_cols=90  Identities=13%  Similarity=0.195  Sum_probs=51.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeC-CcCCHHHHHHHHHHHhccC-----CCCCCcCCHH---
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVAS-KDLQLEQIQGSIAKKINLF-----NESWNSRSLQ---  152 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~-~~~~~~~~~~~l~~~l~~~-----~~~~~~~~~~---  152 (371)
                      +...++|.|++|+|||||+..++...     ..+.++...+. ....+..+...........     ... ...++.   
T Consensus       150 ~Gq~i~I~G~sG~GKTTLl~~i~~~~-----~~dv~v~g~Ig~rg~ev~e~~~~~l~~~~~~~~~vV~~~-sd~p~~~r~  223 (428)
T PRK08149        150 VGQRMGIFASAGCGKTSLMNMLIEHS-----EADVFVIGLIGERGREVTEFVESLRASSRREKCVLVYAT-SDFSSVDRC  223 (428)
T ss_pred             cCCEEEEECCCCCChhHHHHHHhcCC-----CCCeEEEEEEeeCCccHHHHHHHHhhcccccceEEEEEC-CCCCHHHHH
Confidence            45589999999999999999887654     22333333333 2334566666665532211     111 111111   


Q ss_pred             ---HHHHHHHHHh--CCCceEEEEeCCCCc
Q 043737          153 ---EKSQDIVKNM--SNKKFVLLLDHIWEL  177 (371)
Q Consensus       153 ---~~~~~l~~~l--~~~~~LlVlDdv~~~  177 (371)
                         .....+.+++  +++++||++||+-+.
T Consensus       224 ~a~~~a~tiAE~fr~~G~~Vll~~DslTr~  253 (428)
T PRK08149        224 NAALVATTVAEYFRDQGKRVVLFIDSMTRY  253 (428)
T ss_pred             hHHHHHHHHHHHHHHcCCCEEEEccchHHH
Confidence               1222233333  488999999999543

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.19  E-value=0.04  Score=55.59  Aligned_cols=58  Identities=16%  Similarity=0.204  Sum_probs=35.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCc-CCHHHHHHHHHHHhcc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKD-LQLEQIQGSIAKKINL  141 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~l~~~l~~  141 (371)
                      .++++++|+.|+||||++.+++..+. .......+..+..... ....+-+....+.++.
T Consensus       185 g~Vi~lVGpnGvGKTTTiaKLA~~~~-~~~G~kkV~lit~Dt~RigA~eQL~~~a~~~gv  243 (767)
T PRK14723        185 GGVLALVGPTGVGKTTTTAKLAARCV-AREGADQLALLTTDSFRIGALEQLRIYGRILGV  243 (767)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHhhHH-HHcCCCeEEEecCcccchHHHHHHHHHHHhCCC
Confidence            46999999999999999999987762 1111234555554322 1233444555555554

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

Probab=96.19  E-value=0.088  Score=46.35  Aligned_cols=45  Identities=24%  Similarity=0.270  Sum_probs=35.7

Q ss_pred             ccccchhHHHHHHHHHhc-------------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           63 TVVGLQSTFDRVWRCLME-------------EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        63 ~~vGR~~~~~~l~~~L~~-------------~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ++=|-+..+++|.+...=             ..++-|.++|++|.|||-||+++++.-
T Consensus       186 diGGle~QiQEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLLAKAVANqT  243 (440)
T KOG0726|consen  186 DIGGLESQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQT  243 (440)
T ss_pred             ccccHHHHHHHHHHhhcCCCCCHHHHHHcCCCCCCeeEEeCCCCCchhHHHHHHhccc
Confidence            345678888888777641             245688899999999999999999886

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=96.18  E-value=0.013  Score=49.47  Aligned_cols=25  Identities=24%  Similarity=0.268  Sum_probs=23.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...|+|.|+.|+||||+++.+.+.+
T Consensus         3 g~~IvieG~~GsGKsT~~~~L~~~l   27 (195)
T TIGR00041         3 GMFIVIEGIDGAGKTTQANLLKKLL   27 (195)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHH
Confidence            3589999999999999999999987

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.

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

Probab=96.17  E-value=0.0071  Score=51.72  Aligned_cols=26  Identities=23%  Similarity=0.259  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....++|+|++|+|||||++.++--.
T Consensus        32 ~Ge~lgivGeSGsGKSTL~r~l~Gl~   57 (252)
T COG1124          32 RGETLGIVGESGSGKSTLARLLAGLE   57 (252)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhccc
Confidence            45699999999999999999987664

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

Probab=96.16  E-value=0.013  Score=52.79  Aligned_cols=49  Identities=16%  Similarity=0.196  Sum_probs=37.6

Q ss_pred             CCCCccccchhHHHH---HHHHHhcC--CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           59 PLPPTVVGLQSTFDR---VWRCLMEE--QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        59 ~~~~~~vGR~~~~~~---l~~~L~~~--~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +..+.|||..+..+.   +++.+.++  ..+.|.+.||+|+|||+||..+++.+
T Consensus        36 ~~~dG~VGQ~~AReAaGvIv~mik~gk~aGrgiLi~GppgTGKTAlA~gIa~eL   89 (450)
T COG1224          36 FIGDGLVGQEEAREAAGVIVKMIKQGKMAGRGILIVGPPGTGKTALAMGIAREL   89 (450)
T ss_pred             EcCCcccchHHHHHhhhHHHHHHHhCcccccEEEEECCCCCcHHHHHHHHHHHh
Confidence            445779997654433   45555544  35799999999999999999999998

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=96.16  E-value=0.021  Score=55.64  Aligned_cols=134  Identities=16%  Similarity=0.141  Sum_probs=71.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCC-----CCCeEEEEEeCC-----cCC------------HHHHHHHHHHHh
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPN-----DFDFVIWVVASK-----DLQ------------LEQIQGSIAKKI  139 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~-----~f~~~~wv~~~~-----~~~------------~~~~~~~l~~~l  139 (371)
                      ....|+|.|+-|+|||||.+.+........+     ..-.+.|+.-..     ..+            .....+..+..+
T Consensus       347 ~g~riaiiG~NG~GKSTLlk~l~g~~~~~~G~v~~g~~v~igyf~Q~~~~l~~~~t~~d~l~~~~~~~~e~~~r~~L~~f  426 (530)
T COG0488         347 RGDRIAIVGPNGAGKSTLLKLLAGELGPLSGTVKVGETVKIGYFDQHRDELDPDKTVLEELSEGFPDGDEQEVRAYLGRF  426 (530)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhhhcccCCceEEeCCceEEEEEEehhhhcCccCcHHHHHHhhCccccHHHHHHHHHHc
Confidence            4458999999999999999999666521111     111233332111     001            134455555566


Q ss_pred             ccCCCCC----CcCCHHHHHHHH-HHHhCCCceEEEEeCCCCcccccc---cccccCCCCCCCcEEEEecCchHHHhhcc
Q 043737          140 NLFNESW----NSRSLQEKSQDI-VKNMSNKKFVLLLDHIWELVDLSQ---VGLPVPCRTSASNKTVFTARELEVCGQME  211 (371)
Q Consensus       140 ~~~~~~~----~~~~~~~~~~~l-~~~l~~~~~LlVlDdv~~~~~~~~---~~~~l~~~~~~~~~iliTsR~~~~~~~~~  211 (371)
                      +.+....    ..-+-++..+.. ...+-.++-+||||+--+..+++.   +...+.   .-.+.||+.|-++.+.....
T Consensus       427 ~F~~~~~~~~v~~LSGGEk~Rl~La~ll~~~pNvLiLDEPTNhLDi~s~~aLe~aL~---~f~Gtvl~VSHDr~Fl~~va  503 (530)
T COG0488         427 GFTGEDQEKPVGVLSGGEKARLLLAKLLLQPPNLLLLDEPTNHLDIESLEALEEALL---DFEGTVLLVSHDRYFLDRVA  503 (530)
T ss_pred             CCChHHHhCchhhcCHhHHHHHHHHHHhccCCCEEEEcCCCccCCHHHHHHHHHHHH---hCCCeEEEEeCCHHHHHhhc
Confidence            5543321    122333433333 344456788999999766544333   222222   22346777888877765432


Q ss_pred             CCCceeec
Q 043737          212 AHKSFKVE  219 (371)
Q Consensus       212 ~~~~~~l~  219 (371)
                       ...+.+.
T Consensus       504 -~~i~~~~  510 (530)
T COG0488         504 -TRIWLVE  510 (530)
T ss_pred             -ceEEEEc
Confidence             3444444

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=96.15  E-value=0.0054  Score=50.38  Aligned_cols=26  Identities=23%  Similarity=0.387  Sum_probs=23.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..++++|+|+.|+|||||+..++..+
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~l   30 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPAL   30 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHHH
Confidence            45789999999999999999999887

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=96.15  E-value=0.0077  Score=55.32  Aligned_cols=46  Identities=17%  Similarity=0.251  Sum_probs=39.5

Q ss_pred             CccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+||-++....|...+.+....-|.|.|+.|+||||+|+.+++-+
T Consensus        17 ~~ivGq~~~k~al~~~~~~p~~~~vli~G~~GtGKs~~ar~~~~~l   62 (350)
T CHL00081         17 TAIVGQEEMKLALILNVIDPKIGGVMIMGDRGTGKSTTIRALVDLL   62 (350)
T ss_pred             HHHhChHHHHHHHHHhccCCCCCeEEEEcCCCCCHHHHHHHHHHHH
Confidence            4579999988888888877777778899999999999999987765

>PRK14738 gmk guanylate kinase; Provisional

Probab=96.15  E-value=0.0052  Score=52.41  Aligned_cols=26  Identities=23%  Similarity=0.395  Sum_probs=22.4

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhh
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      ...+.++|+|++|+|||||+..+...
T Consensus        11 ~~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738         11 AKPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CCCeEEEEECcCCCCHHHHHHHHHhc
Confidence            35678999999999999999998654

>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB

Probab=96.14  E-value=0.008  Score=55.67  Aligned_cols=101  Identities=19%  Similarity=0.284  Sum_probs=53.3

Q ss_pred             HHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHH--HHHHHhccCCCCCCcCCH
Q 043737           74 VWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQG--SIAKKINLFNESWNSRSL  151 (371)
Q Consensus        74 l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~--~l~~~l~~~~~~~~~~~~  151 (371)
                      +.+++. .....|.|+|+.|+||||++..++.........-..++.+.-.-.........  ....+..      .....
T Consensus       126 ~~~~~~-~~~glilI~GpTGSGKTTtL~aLl~~i~~~~~~~~~Ivt~EdpiE~~~~~~~~~~~~v~Q~~------v~~~~  198 (358)
T TIGR02524       126 IIDAIA-PQEGIVFITGATGSGKSTLLAAIIRELAEAPDSHRKILTYEAPIEFVYDEIETISASVCQSE------IPRHL  198 (358)
T ss_pred             HHHHHh-ccCCEEEEECCCCCCHHHHHHHHHHHHhhcCCCCcEEEEeCCCceEeccccccccceeeeee------ccccc
Confidence            344443 34579999999999999999999887621111111333332111111111100  0000100      11111


Q ss_pred             HHHHHHHHHHhCCCceEEEEeCCCCccccc
Q 043737          152 QEKSQDIVKNMSNKKFVLLLDHIWELVDLS  181 (371)
Q Consensus       152 ~~~~~~l~~~l~~~~~LlVlDdv~~~~~~~  181 (371)
                      ......++..++..+-.+++.++.+.+...
T Consensus       199 ~~~~~~l~~aLR~~Pd~i~vGEiRd~et~~  228 (358)
T TIGR02524       199 NNFAAGVRNALRRKPHAILVGEARDAETIS  228 (358)
T ss_pred             cCHHHHHHHHhccCCCEEeeeeeCCHHHHH
Confidence            234455666777788899999887666554

Members of this protein family are the DotB component of Dot/Icm secretion systems, as found in obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the liturature now seems to favor calling this the Dot/Icm system. This family is most closely related to TraJ proteins of plasmid transfer, rather than to proteins of other type IV secretion systems.

>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=96.14  E-value=0.0045  Score=49.97  Aligned_cols=22  Identities=36%  Similarity=0.418  Sum_probs=20.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043737           86 VGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        86 v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      |.|+|++|+||||+|+.++..+
T Consensus         2 i~l~G~~GsGKstla~~la~~l   23 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKAL   23 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHh
Confidence            6899999999999999998886

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.

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

Probab=96.14  E-value=0.0088  Score=58.91  Aligned_cols=47  Identities=19%  Similarity=0.200  Sum_probs=37.1

Q ss_pred             CCccccchhHHHHHHHHHhc--CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           61 PPTVVGLQSTFDRVWRCLME--EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~--~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ++..+-|.+..+.|.++...  ....+|+|+|++|+||||+|+.++..+
T Consensus       368 pP~~f~rpeV~~iL~~~~~~r~~~g~~Ivl~Gl~GSGKSTia~~La~~L  416 (568)
T PRK05537        368 IPEWFSFPEVVAELRRTYPPRHKQGFTVFFTGLSGAGKSTIAKALMVKL  416 (568)
T ss_pred             CChhhcHHHHHHHHHHHhccccCCCeEEEEECCCCChHHHHHHHHHHHh
Confidence            45667787777766666543  344589999999999999999999988

>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=96.14  E-value=0.012  Score=49.52  Aligned_cols=23  Identities=26%  Similarity=0.536  Sum_probs=21.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +|+|.|+.|+||||+++.+++.+
T Consensus         2 ~I~ieG~~GsGKtT~~~~L~~~l   24 (200)
T cd01672           2 FIVFEGIDGAGKTTLIELLAERL   24 (200)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68999999999999999999988

TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).

>smart00072 GuKc Guanylate kinase homologues

Probab=96.14  E-value=0.0064  Score=50.86  Aligned_cols=25  Identities=32%  Similarity=0.388  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .++++|+|++|+||+||+..+....
T Consensus         2 ~r~ivl~Gpsg~GK~tl~~~L~~~~   26 (184)
T smart00072        2 RRPIVLSGPSGVGKGTLLAELIQEI   26 (184)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHhcC
Confidence            4689999999999999999998875

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.

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=96.13  E-value=0.0071  Score=51.64  Aligned_cols=30  Identities=20%  Similarity=0.336  Sum_probs=26.5

Q ss_pred             HhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           78 LMEEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        78 L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +...+.++|++.|+.|+|||||..++++..
T Consensus        17 ~~~~~~~~i~~~G~~gsGKTTli~~l~~~~   46 (207)
T TIGR00073        17 LDKHGLVVLNFMSSPGSGKTTLIEKLIDNL   46 (207)
T ss_pred             hhhcCcEEEEEECCCCCCHHHHHHHHHHHH
Confidence            334678999999999999999999999886

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>cd01136 ATPase_flagellum-secretory_path_III Flagellum-specific ATPase/type III secretory pathway virulence-related protein

Probab=96.13  E-value=0.034  Score=50.57  Aligned_cols=90  Identities=18%  Similarity=0.209  Sum_probs=49.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeC-CcCCHHHHHHHHHHHhccCC----CCCCcCCHHH---
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVAS-KDLQLEQIQGSIAKKINLFN----ESWNSRSLQE---  153 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~-~~~~~~~~~~~l~~~l~~~~----~~~~~~~~~~---  153 (371)
                      ....++|.|+.|+|||||++.++...   .  .+..+..-+. ....+..+.......-+...    -......+..   
T Consensus        68 ~Gqri~I~G~sG~GKTtLl~~Ia~~~---~--~~~~vi~~iGer~~ev~~~~~~~~~~~~l~rtvvv~~t~d~~~~~r~~  142 (326)
T cd01136          68 KGQRLGIFAGSGVGKSTLLGMIARGT---T--ADVNVIALIGERGREVREFIEKDLGEEGLKRSVVVVATSDESPLLRVK  142 (326)
T ss_pred             CCcEEEEECCCCCChHHHHHHHhCCC---C--CCEEEEEEEecCCccHHHHHHHHHhcCccceEEEEEcCCCCCHHHHHH
Confidence            44688999999999999999888765   2  2233333333 33355565555554322110    0001111111   


Q ss_pred             ---HHHHHHHHh--CCCceEEEEeCCCC
Q 043737          154 ---KSQDIVKNM--SNKKFVLLLDHIWE  176 (371)
Q Consensus       154 ---~~~~l~~~l--~~~~~LlVlDdv~~  176 (371)
                         ..-.+.+++  +++.+|+++||+.+
T Consensus       143 ~~~~a~~~AEyfr~~g~~Vll~~Dsltr  170 (326)
T cd01136         143 AAYTATAIAEYFRDQGKDVLLLMDSLTR  170 (326)
T ss_pred             HHHHHHHHHHHHHHcCCCeEEEeccchH
Confidence               112222333  57899999999854

This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they both are proton driven rotary molecular devices. However, the main function of the bacterial flagellar motor is to rotate the flagellar filament for cell motility. Intracellular pathogens such as Salmonella and Chlamydia also have proteins which are similar to the flagellar-specific ATPase, but function in the secretion of virulence-related proteins via the type III secretory pathway.

>TIGR01039 atpD ATP synthase, F1 beta subunit

Probab=96.11  E-value=0.022  Score=53.99  Aligned_cols=94  Identities=13%  Similarity=0.254  Sum_probs=56.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcC-CHHHHHHHHHHHhccCC----CCCCcCCHHH---
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDL-QLEQIQGSIAKKINLFN----ESWNSRSLQE---  153 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~l~~~l~~~~----~~~~~~~~~~---  153 (371)
                      ....++|.|.+|+|||+|+.+++....  .++-..+++.-++... .+.++.+++...=....    -.....++..   
T Consensus       142 ~GQr~~If~~~G~GKt~L~~~~~~~~~--~~~~~v~V~alIGER~rEv~ef~~~~~~~~~l~rtvvV~atsd~p~~~R~~  219 (461)
T TIGR01039       142 KGGKIGLFGGAGVGKTVLIQELINNIA--KEHGGYSVFAGVGERTREGNDLYHEMKESGVIDKTALVYGQMNEPPGARMR  219 (461)
T ss_pred             cCCEEEeecCCCCChHHHHHHHHHHHH--hcCCCeEEEEEecCCchHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHH
Confidence            456899999999999999999987762  2233466777665543 45666666654321110    0001222221   


Q ss_pred             ---HHHHHHHHh---CCCceEEEEeCCCCc
Q 043737          154 ---KSQDIVKNM---SNKKFVLLLDHIWEL  177 (371)
Q Consensus       154 ---~~~~l~~~l---~~~~~LlVlDdv~~~  177 (371)
                         ..-.+.+++   +++++||++|++-+.
T Consensus       220 a~~~a~tiAEyfrd~~G~~VLll~DslTR~  249 (461)
T TIGR01039       220 VALTGLTMAEYFRDEQGQDVLLFIDNIFRF  249 (461)
T ss_pred             HHHHHHHHHHHHHHhcCCeeEEEecchhHH
Confidence               122333444   568999999999543

The sequences of ATP synthase F1 alpha and beta subunits are related and both contain a nucleotide-binding site for ATP and ADP. They have a common amino terminal domain but vary at the C-terminus. The beta chain has catalytic activity, while the alpha chain is a regulatory subunit. Proton translocating ATP synthase, F1 beta subunit is homologous to proton translocating ATP synthase archaeal/vacuolar(V1), A subunit.

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=96.11  E-value=0.0062  Score=52.78  Aligned_cols=26  Identities=31%  Similarity=0.503  Sum_probs=23.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ++..+.++||+|+||||+.+.+..+.
T Consensus        18 ~p~~ilVvGMAGSGKTTF~QrL~~hl   43 (366)
T KOG1532|consen   18 RPVIILVVGMAGSGKTTFMQRLNSHL   43 (366)
T ss_pred             CCcEEEEEecCCCCchhHHHHHHHHH
Confidence            45688899999999999999999988

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

Probab=96.10  E-value=0.0048  Score=52.33  Aligned_cols=90  Identities=12%  Similarity=0.138  Sum_probs=42.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHH
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVK  160 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~  160 (371)
                      +.+.++.+.|.+|+||||++..+...+   .  ....+.++...-.........+...-..............+...+.+
T Consensus        13 ~~P~~~i~aG~~GsGKSt~~~~~~~~~---~--~~~~v~i~~D~~r~~~p~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~   87 (199)
T PF06414_consen   13 EKPTLIIIAGQPGSGKSTLARQLLEEF---G--GGGIVVIDADEFRQFHPDYDELLKADPDEASELTQKEASRLAEKLIE   87 (199)
T ss_dssp             SS-EEEEEES-TTSTTHHHHHHHHHHT------TT-SEEE-GGGGGGGSTTHHHHHHHHCCCTHHHHHHHHHHHHHHHHH
T ss_pred             cCCEEEEEeCCCCCCHHHHHHHhhhhc---c--CCCeEEEehHHHHHhccchhhhhhhhhhhhHHHHHHHHHHHHHHHHH
Confidence            467788999999999999999998876   2  45667776543221111122222211000000011112233444444


Q ss_pred             HhCCCceEEEEeCCC
Q 043737          161 NMSNKKFVLLLDHIW  175 (371)
Q Consensus       161 ~l~~~~~LlVlDdv~  175 (371)
                      ..-.+++=+|+|..-
T Consensus        88 ~a~~~~~nii~E~tl  102 (199)
T PF06414_consen   88 YAIENRYNIIFEGTL  102 (199)
T ss_dssp             HHHHCT--EEEE--T
T ss_pred             HHHHcCCCEEEecCC
Confidence            444566677778764

It has subsequently been found in a number of other proteins, such as polynucleotide kinase and 2',3'-cyclic-nucleotide 3'-phosphodiesterase. It appears to function as a kinase domain [, ].; GO: 0005524 ATP binding, 0016301 kinase activity; PDB: 2P5T_H 1GVN_B 3Q8X_D.

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=96.10  E-value=0.01  Score=54.40  Aligned_cols=46  Identities=15%  Similarity=0.143  Sum_probs=37.7

Q ss_pred             CccccchhHHHHHHHHHhc--CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           62 PTVVGLQSTFDRVWRCLME--EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~--~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..++|+...+.++.+.+..  .....|.|+|..|+||+++|+.+...-
T Consensus         6 ~~liG~S~~~~~~~~~i~~~a~~~~pVlI~GE~GtGK~~lA~~iH~~s   53 (326)
T PRK11608          6 DNLLGEANSFLEVLEQVSRLAPLDKPVLIIGERGTGKELIASRLHYLS   53 (326)
T ss_pred             CccEECCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhC
Confidence            4589999999988888764  345678999999999999999887543

>PLN02200 adenylate kinase family protein

Probab=96.09  E-value=0.0059  Score=53.12  Aligned_cols=26  Identities=27%  Similarity=0.160  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+|+|.|++|+||||+|+.+++..
T Consensus        42 ~~~ii~I~G~PGSGKsT~a~~La~~~   67 (234)
T PLN02200         42 TPFITFVLGGPGSGKGTQCEKIVETF   67 (234)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            34688999999999999999998876

>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=96.07  E-value=0.0068  Score=45.38  Aligned_cols=23  Identities=26%  Similarity=0.167  Sum_probs=20.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQIN  104 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~  104 (371)
                      ....++|.|++|+|||||+..+.
T Consensus        14 ~ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          14 GKVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             CCEEEEEEcCCCCCHHHHHHHhh
Confidence            34689999999999999999875

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

>PRK13768 GTPase; Provisional

Probab=96.07  E-value=0.0089  Score=52.71  Aligned_cols=37  Identities=27%  Similarity=0.117  Sum_probs=27.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeC
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVAS  123 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~  123 (371)
                      .+++|.|++|+||||++..+...+.   ..-..+..++..
T Consensus         3 ~~i~v~G~~G~GKTt~~~~~~~~l~---~~g~~v~~i~~D   39 (253)
T PRK13768          3 YIVFFLGTAGSGKTTLTKALSDWLE---EQGYDVAIVNLD   39 (253)
T ss_pred             EEEEEECCCCccHHHHHHHHHHHHH---hcCCceEEEECC
Confidence            5789999999999999999988873   222345555543

>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA

Probab=96.06  E-value=0.023  Score=58.07  Aligned_cols=25  Identities=24%  Similarity=0.363  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+++.|.|.+|+||||++..+...+
T Consensus       368 ~~~~il~G~aGTGKTtll~~i~~~~  392 (744)
T TIGR02768       368 GDIAVVVGRAGTGKSTMLKAAREAW  392 (744)
T ss_pred             CCEEEEEecCCCCHHHHHHHHHHHH
Confidence            4688999999999999999988776

This protein contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, pfam03389) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, TIGR02760). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer.

>PRK13975 thymidylate kinase; Provisional

Probab=96.06  E-value=0.0057  Score=51.65  Aligned_cols=24  Identities=25%  Similarity=0.360  Sum_probs=22.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..|+|.|+.|+||||+++.+++.+
T Consensus         3 ~~I~ieG~~GsGKtT~~~~L~~~l   26 (196)
T PRK13975          3 KFIVFEGIDGSGKTTQAKLLAEKL   26 (196)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            589999999999999999999998

>PRK06761 hypothetical protein; Provisional

Probab=96.06  E-value=0.013  Score=52.07  Aligned_cols=25  Identities=20%  Similarity=0.325  Sum_probs=23.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .++|+|.|++|+||||+++.+++.+
T Consensus         3 ~~lIvI~G~~GsGKTTla~~L~~~L   27 (282)
T PRK06761          3 TKLIIIEGLPGFGKSTTAKMLNDIL   27 (282)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhc
Confidence            3589999999999999999999998

>TIGR03498 FliI_clade3 flagellar protein export ATPase FliI

Probab=96.05  E-value=0.022  Score=53.69  Aligned_cols=92  Identities=18%  Similarity=0.240  Sum_probs=50.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCC----CCCcCCHH-H---
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNE----SWNSRSLQ-E---  153 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~----~~~~~~~~-~---  153 (371)
                      ....++|.|+.|+|||||+..++...   . ....++...-.+...+.++....+..-+....    ......+. .   
T Consensus       139 ~Gq~i~I~G~sG~GKTtLl~~I~~~~---~-~~~gvi~~iGer~~ev~~~~~~~l~~~~~~~tvvv~atsd~~~~~r~~a  214 (418)
T TIGR03498       139 RGQRLGIFAGSGVGKSTLLSMLARNT---D-ADVVVIALVGERGREVREFLEDDLGEEGLKRSVVVVATSDESPLMRRQA  214 (418)
T ss_pred             CCcEEEEECCCCCChHHHHHHHhCCC---C-CCEEEEEEEeeechHHHHHHHHhhhccccceeEEEEECCCCCHHHHHHH
Confidence            44689999999999999998887665   2 22233333333333455565554433221100    00111111 1   


Q ss_pred             --HHHHHHHHh--CCCceEEEEeCCCCc
Q 043737          154 --KSQDIVKNM--SNKKFVLLLDHIWEL  177 (371)
Q Consensus       154 --~~~~l~~~l--~~~~~LlVlDdv~~~  177 (371)
                        ....+.+++  +++.+|+++||+-+.
T Consensus       215 ~~~a~~iAEyfrd~G~~Vll~~DslTr~  242 (418)
T TIGR03498       215 AYTATAIAEYFRDQGKDVLLLMDSVTRF  242 (418)
T ss_pred             HHHHHHHHHHHHHcCCCEEEeccchhHH
Confidence              122233443  578999999998543

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta

Probab=96.05  E-value=0.016  Score=54.82  Aligned_cols=94  Identities=20%  Similarity=0.287  Sum_probs=56.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcC-CHHHHHHHHHHHhccCC----CCCCcCCHHH---
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDL-QLEQIQGSIAKKINLFN----ESWNSRSLQE---  153 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~l~~~l~~~~----~~~~~~~~~~---  153 (371)
                      ....++|.|.+|+|||+|+.+++....  +.+-+.++++-++... ...++.+++...=....    -.....++..   
T Consensus       137 kGQr~~Ifg~~G~GKt~l~~~~~~~~~--~~~~~v~V~~~iGeR~rEv~e~~~~~~~~~~l~rtvvv~~ts~~~~~~r~~  214 (449)
T TIGR03305       137 RGGKAGLFGGAGVGKTVLLTEMIHNMV--GQHQGVSIFCGIGERCREGEELYREMKEAGVLDNTVMVFGQMNEPPGARFR  214 (449)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHHHH--hcCCCEEEEEEeccCcHHHHHHHHHHhhccccceEEEEEeCCCCCHHHHHH
Confidence            456899999999999999999988862  2234677787776543 45566666554311110    0001121221   


Q ss_pred             ---HHHHHHHHh---CCCceEEEEeCCCCc
Q 043737          154 ---KSQDIVKNM---SNKKFVLLLDHIWEL  177 (371)
Q Consensus       154 ---~~~~l~~~l---~~~~~LlVlDdv~~~  177 (371)
                         ..-.+.+++   +++++|+++||+-+.
T Consensus       215 ~~~~a~tiAEyfrd~~G~~VLl~~DslTR~  244 (449)
T TIGR03305       215 VGHTALTMAEYFRDDEKQDVLLLIDNIFRF  244 (449)
T ss_pred             HHHHHHHHHHHHHHhcCCceEEEecChHHH
Confidence               122333444   468999999999543

A small number of taxonomically diverse prokaryotic species have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 beta subunit of this apparent second ATP synthase.

>PRK10646 ADP-binding protein; Provisional

Probab=96.04  E-value=0.014  Score=46.82  Aligned_cols=40  Identities=18%  Similarity=0.171  Sum_probs=30.4

Q ss_pred             hhHHHHHHHHHhc--CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           68 QSTFDRVWRCLME--EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        68 ~~~~~~l~~~L~~--~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +++..++-+.|..  ....+|.+.|.=|+||||+++.+++.+
T Consensus        11 ~~~t~~l~~~la~~l~~g~vi~L~GdLGaGKTtf~rgl~~~L   52 (153)
T PRK10646         11 EQATLDLGARVAKACDGATVIYLYGDLGAGKTTFSRGFLQAL   52 (153)
T ss_pred             HHHHHHHHHHHHHhCCCCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            3455555555543  234589999999999999999999987

>PRK13946 shikimate kinase; Provisional

Probab=96.04  E-value=0.0067  Score=50.76  Aligned_cols=25  Identities=24%  Similarity=0.280  Sum_probs=23.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+.|++.|++|+||||+++.+++.+
T Consensus        10 ~~~I~l~G~~GsGKsti~~~LA~~L   34 (184)
T PRK13946         10 KRTVVLVGLMGAGKSTVGRRLATML   34 (184)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHc
Confidence            4689999999999999999999987

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=96.04  E-value=0.0052  Score=50.27  Aligned_cols=21  Identities=29%  Similarity=0.453  Sum_probs=17.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 043737           86 VGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        86 v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      |+|+|..|+|||||+..+...
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            789999999999999999866

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.03  E-value=0.005  Score=51.19  Aligned_cols=25  Identities=28%  Similarity=0.388  Sum_probs=22.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhcc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKFL  108 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~~  108 (371)
                      +.|.++|.+|+||||+|+++++.++
T Consensus         2 pLiIlTGyPgsGKTtfakeLak~L~   26 (261)
T COG4088           2 PLIILTGYPGSGKTTFAKELAKELR   26 (261)
T ss_pred             ceEEEecCCCCCchHHHHHHHHHHH
Confidence            5788999999999999999999883

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=96.03  E-value=0.0055  Score=51.37  Aligned_cols=24  Identities=25%  Similarity=0.425  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+++|.|+.|+|||||++.++...
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~~   26 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQRE   26 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhccC
Confidence            478999999999999999997765

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=96.03  E-value=0.024  Score=48.14  Aligned_cols=118  Identities=19%  Similarity=0.152  Sum_probs=60.5

Q ss_pred             HHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCC--eEEEEEeCCcCCHHHH-----HHHHHHHhccCCCCC
Q 043737           74 VWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFD--FVIWVVASKDLQLEQI-----QGSIAKKINLFNESW  146 (371)
Q Consensus        74 l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~--~~~wv~~~~~~~~~~~-----~~~l~~~l~~~~~~~  146 (371)
                      +...|-+.......|.|++|+|||||.+.+++-.......|-  .+.-++-+..  +...     ...+...+..     
T Consensus       128 li~~ly~~g~lntLiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDersE--Iag~~~gvpq~~~g~R~dV-----  200 (308)
T COG3854         128 LIKDLYQNGWLNTLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERSE--IAGCLNGVPQHGRGRRMDV-----  200 (308)
T ss_pred             HHHHHHhcCceeeEEecCCCCChHHHHHHHHHHhhccccccCCceEEEEeccch--hhccccCCchhhhhhhhhh-----
Confidence            444554455556889999999999999999888743223332  3333322111  0000     0111111111     


Q ss_pred             CcCCHHHHHHHHHHHhC-CCceEEEEeCCCCcccccccccccCCCCCCCcEEEEecCch
Q 043737          147 NSRSLQEKSQDIVKNMS-NKKFVLLLDHIWELVDLSQVGLPVPCRTSASNKTVFTAREL  204 (371)
Q Consensus       147 ~~~~~~~~~~~l~~~l~-~~~~LlVlDdv~~~~~~~~~~~~l~~~~~~~~~iliTsR~~  204 (371)
                        .+..-...-+....+ -.+=++|+|++-..++...+..    ..+.|.+++.|..-.
T Consensus       201 --ld~cpk~~gmmmaIrsm~PEViIvDEIGt~~d~~A~~t----a~~~GVkli~TaHG~  253 (308)
T COG3854         201 --LDPCPKAEGMMMAIRSMSPEVIIVDEIGTEEDALAILT----ALHAGVKLITTAHGN  253 (308)
T ss_pred             --cccchHHHHHHHHHHhcCCcEEEEeccccHHHHHHHHH----HHhcCcEEEEeeccc
Confidence              111111111222222 2466999999977665544433    344687877776543

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=96.02  E-value=0.0064  Score=50.25  Aligned_cols=25  Identities=24%  Similarity=0.239  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...|+|.|+.|+||||+++.++..+
T Consensus         4 ~~~I~liG~~GaGKStl~~~La~~l   28 (172)
T PRK05057          4 KRNIFLVGPMGAGKSTIGRQLAQQL   28 (172)
T ss_pred             CCEEEEECCCCcCHHHHHHHHHHHc
Confidence            3579999999999999999999886

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=96.01  E-value=0.021  Score=52.20  Aligned_cols=36  Identities=19%  Similarity=0.410  Sum_probs=28.5

Q ss_pred             HHHHHHHh--cCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           72 DRVWRCLM--EEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        72 ~~l~~~L~--~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+.+.+.  .+...+|+|.|++|+|||||+..+...+
T Consensus        43 ~~l~~~~~~~~~~~~~igi~G~~GaGKSTl~~~l~~~l   80 (332)
T PRK09435         43 QELLDALLPHTGNALRIGITGVPGVGKSTFIEALGMHL   80 (332)
T ss_pred             HHHHHHHhhcCCCcEEEEEECCCCCCHHHHHHHHHHHH
Confidence            34444443  2567899999999999999999998887

>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain

Probab=96.01  E-value=0.031  Score=49.35  Aligned_cols=91  Identities=12%  Similarity=0.108  Sum_probs=49.3

Q ss_pred             CceEEEEEcCCCCcHHHHH-HHHHhhccCCCCCCCeE-EEEEeCCc-CCHHHHHHHHHHHhccCC----CCCCcCCHHH-
Q 043737           82 QMGIVGLYGMGEVGKTTLL-TQINKKFLHTPNDFDFV-IWVVASKD-LQLEQIQGSIAKKINLFN----ESWNSRSLQE-  153 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa-~~~~~~~~~~~~~f~~~-~wv~~~~~-~~~~~~~~~l~~~l~~~~----~~~~~~~~~~-  153 (371)
                      +...++|.|.+|+|||+|| ..+++..     ..+.+ +++-++.. ....++.+.+...=....    -......+.. 
T Consensus        68 rGQr~~Ifg~~g~GKt~L~l~~i~~~~-----~~~v~~V~~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r  142 (274)
T cd01132          68 RGQRELIIGDRQTGKTAIAIDTIINQK-----GKKVYCIYVAIGQKASTVAQVVKTLEEHGAMEYTIVVAATASDPAPLQ  142 (274)
T ss_pred             cCCEEEeeCCCCCCccHHHHHHHHHhc-----CCCeEEEEEecccchHHHHHHHHHHHhcCccceeEEEEeCCCCchhHH
Confidence            4458899999999999996 4454432     22333 55555554 345566666654321100    0001111111 


Q ss_pred             -----HHHHHHHHh--CCCceEEEEeCCCCc
Q 043737          154 -----KSQDIVKNM--SNKKFVLLLDHIWEL  177 (371)
Q Consensus       154 -----~~~~l~~~l--~~~~~LlVlDdv~~~  177 (371)
                           ..-.+.+++  +++.+|+++||+.+.
T Consensus       143 ~~a~~~a~aiAE~fr~~G~~Vlvl~DslTr~  173 (274)
T cd01132         143 YLAPYTGCAMGEYFMDNGKHALIIYDDLSKQ  173 (274)
T ss_pred             HHHHHHHHHHHHHHHHCCCCEEEEEcChHHH
Confidence                 112222222  478999999999544

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 alpha subunit of the F1 ATP synthase can bind nucleotides, but is non-catalytic.

>PRK14531 adenylate kinase; Provisional

Probab=96.01  E-value=0.0062  Score=50.88  Aligned_cols=24  Identities=17%  Similarity=0.120  Sum_probs=21.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +.|+|.|++|+||||+++.++...
T Consensus         3 ~~i~i~G~pGsGKsT~~~~la~~~   26 (183)
T PRK14531          3 QRLLFLGPPGAGKGTQAARLCAAH   26 (183)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            468899999999999999998886

>PRK13948 shikimate kinase; Provisional

Probab=96.00  E-value=0.0071  Score=50.34  Aligned_cols=26  Identities=19%  Similarity=0.307  Sum_probs=23.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+.|+|.|+.|+||||+++.+++.+
T Consensus         9 ~~~~I~LiG~~GsGKSTvg~~La~~l   34 (182)
T PRK13948          9 PVTWVALAGFMGTGKSRIGWELSRAL   34 (182)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHc
Confidence            45789999999999999999999887

>PRK14532 adenylate kinase; Provisional

Probab=96.00  E-value=0.0057  Score=51.34  Aligned_cols=23  Identities=22%  Similarity=0.235  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .|+|.|++|+||||+|+.+++..
T Consensus         2 ~i~~~G~pGsGKsT~a~~la~~~   24 (188)
T PRK14532          2 NLILFGPPAAGKGTQAKRLVEER   24 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            37889999999999999998876

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=95.99  E-value=0.023  Score=55.69  Aligned_cols=90  Identities=16%  Similarity=0.029  Sum_probs=54.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCC----------------
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNES----------------  145 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~----------------  145 (371)
                      ..+++.|.|.+|+|||+|+.+++....  ..+-..++|++....  ..++...+.. ++.....                
T Consensus        30 ~Gs~~li~G~pGsGKT~l~~qf~~~~~--~~~ge~~lyis~ee~--~~~i~~~~~~-~g~d~~~~~~~g~l~~~~~~~~~  104 (509)
T PRK09302         30 KGRPTLVSGTAGTGKTLFALQFLVNGI--KRFDEPGVFVTFEES--PEDIIRNVAS-FGWDLQKLIDEGKLFILDASPDP  104 (509)
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHH--HhcCCCEEEEEccCC--HHHHHHHHHH-cCCCHHHHhhCCeEEEEecCccc
Confidence            457999999999999999999987652  222356888887663  4444444322 2321000                


Q ss_pred             -----CCcCCHHHHHHHHHHHhCC-CceEEEEeCCCC
Q 043737          146 -----WNSRSLQEKSQDIVKNMSN-KKFVLLLDHIWE  176 (371)
Q Consensus       146 -----~~~~~~~~~~~~l~~~l~~-~~~LlVlDdv~~  176 (371)
                           ....+.+.....+.+.+.. +.-.+|+|.+..
T Consensus       105 ~~~~~~~~~~~~~l~~~l~~~i~~~~~~~vVIDSls~  141 (509)
T PRK09302        105 SEQEEAGEYDLEALFIRIEYAIDKIGAKRVVLDSIEA  141 (509)
T ss_pred             ccccccccccHHHHHHHHHHHHHhhCCCEEEECCHHH
Confidence                 0112334455555555543 445799999853

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

Probab=95.98  E-value=0.024  Score=47.86  Aligned_cols=27  Identities=22%  Similarity=0.365  Sum_probs=23.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .....++|.|+.|+|||||.+.++.-.
T Consensus        33 ~~Ge~~~l~G~nGsGKStLl~~i~Gl~   59 (194)
T cd03213          33 KPGELTAIMGPSGAGKSTLLNALAGRR   59 (194)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            345699999999999999999997654

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

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=95.98  E-value=0.0065  Score=55.13  Aligned_cols=24  Identities=25%  Similarity=0.249  Sum_probs=22.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+|.+.|++|+||||+|+.+++++
T Consensus         3 ~liil~G~pGSGKSTla~~L~~~~   26 (300)
T PHA02530          3 KIILTVGVPGSGKSTWAREFAAKN   26 (300)
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHHC
Confidence            578899999999999999998876

>PRK13657 cyclic beta-1,2-glucan ABC transporter; Provisional

Probab=95.97  E-value=0.043  Score=54.81  Aligned_cols=27  Identities=26%  Similarity=0.432  Sum_probs=23.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+...++|+|+.|+|||||++-+....
T Consensus       359 ~~G~~v~IvG~sGsGKSTLl~lL~gl~  385 (588)
T PRK13657        359 KPGQTVAIVGPTGAGKSTLINLLQRVF  385 (588)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCc
Confidence            355689999999999999999887665

>PHA02774 E1; Provisional

Probab=95.97  E-value=0.095  Score=50.96  Aligned_cols=49  Identities=16%  Similarity=0.180  Sum_probs=35.8

Q ss_pred             hHHHHHHHHHhcC-CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEe
Q 043737           69 STFDRVWRCLMEE-QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVA  122 (371)
Q Consensus        69 ~~~~~l~~~L~~~-~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~  122 (371)
                      ..+..|..++... +...+.|+||+|+|||.+|..+++-+   .  ...+.|++.
T Consensus       419 ~fl~~lk~~l~~~PKknciv~~GPP~TGKS~fa~sL~~~L---~--G~vi~fvN~  468 (613)
T PHA02774        419 SFLTALKDFLKGIPKKNCLVIYGPPDTGKSMFCMSLIKFL---K--GKVISFVNS  468 (613)
T ss_pred             HHHHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHh---C--CCEEEEEEC
Confidence            4556666666543 34689999999999999999999887   2  234666765

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=95.96  E-value=0.005  Score=54.25  Aligned_cols=23  Identities=35%  Similarity=0.585  Sum_probs=21.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +|+++|.+|+||||+|+.++..+
T Consensus         1 LIvl~G~pGSGKST~a~~La~~l   23 (249)
T TIGR03574         1 LIILTGLPGVGKSTFSKELAKKL   23 (249)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHH
Confidence            47899999999999999999887

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.

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

Probab=95.95  E-value=0.069  Score=50.14  Aligned_cols=79  Identities=23%  Similarity=0.211  Sum_probs=59.6

Q ss_pred             CccccchhHHHHHHHHHh---cCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcC-------CHHHH
Q 043737           62 PTVVGLQSTFDRVWRCLM---EEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDL-------QLEQI  131 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~---~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~-------~~~~~  131 (371)
                      .--|||+.+++.|.+.|.   ++....-+|.|.=|+|||.+.+.+.+...  ...| .+..+.++...       ....+
T Consensus        25 ~~~VGr~~e~~~l~~~l~~v~~G~s~~kfi~G~YGsGKTf~l~~i~~~A~--~~~f-vvs~v~ls~e~~lh~~~g~~~~~  101 (416)
T PF10923_consen   25 HIAVGREREIEALDRDLDRVADGGSSFKFIRGEYGSGKTFFLRLIRERAL--EKGF-VVSEVDLSPERPLHGTGGQLEAL  101 (416)
T ss_pred             ceeechHHHHHHHHHHHHHHhCCCCeEEEEEeCCCCcHHHHHHHHHHHHH--HcCC-EEEEEecCCCcccccccccHHHH
Confidence            335999999999988876   36677889999999999999998887762  3333 56667666532       35578


Q ss_pred             HHHHHHHhccCC
Q 043737          132 QGSIAKKINLFN  143 (371)
Q Consensus       132 ~~~l~~~l~~~~  143 (371)
                      +++|...+....
T Consensus       102 Yr~l~~nL~t~~  113 (416)
T PF10923_consen  102 YRELMRNLSTKT  113 (416)
T ss_pred             HHHHHHhcCCCC
Confidence            888888887543

Some of the proteins in this family are annotated as being methyl-accepting chemotaxis proteins and ATP/GTP binding proteins.

>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=95.93  E-value=0.015  Score=48.99  Aligned_cols=44  Identities=18%  Similarity=0.125  Sum_probs=31.3

Q ss_pred             CccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..++|-+.....+.-+...  ..-+.+.|++|+|||++|+.+..-+
T Consensus         3 ~dI~GQe~aKrAL~iAAaG--~h~lLl~GppGtGKTmlA~~l~~lL   46 (206)
T PF01078_consen    3 SDIVGQEEAKRALEIAAAG--GHHLLLIGPPGTGKTMLARRLPSLL   46 (206)
T ss_dssp             CCSSSTHHHHHHHHHHHHC--C--EEEES-CCCTHHHHHHHHHHCS
T ss_pred             hhhcCcHHHHHHHHHHHcC--CCCeEEECCCCCCHHHHHHHHHHhC
Confidence            3567887776666555543  4689999999999999999987665

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.

>PRK00698 tmk thymidylate kinase; Validated

Probab=95.93  E-value=0.018  Score=48.84  Aligned_cols=25  Identities=16%  Similarity=0.303  Sum_probs=23.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .++|+|.|+.|+||||+++.+.+.+
T Consensus         3 ~~~I~ieG~~gsGKsT~~~~L~~~l   27 (205)
T PRK00698          3 GMFITIEGIDGAGKSTQIELLKELL   27 (205)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999999887

>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=95.91  E-value=0.0064  Score=51.18  Aligned_cols=22  Identities=32%  Similarity=0.415  Sum_probs=20.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043737           86 VGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        86 v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      |+|.|++|+||||+|+.++...
T Consensus         2 I~i~G~pGsGKst~a~~La~~~   23 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAKKY   23 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            7899999999999999998875

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

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

Probab=95.91  E-value=0.013  Score=47.31  Aligned_cols=25  Identities=24%  Similarity=0.359  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .-.++|.||+|+|||||.++++.-.
T Consensus        29 Ge~iaitGPSG~GKStllk~va~Li   53 (223)
T COG4619          29 GEFIAITGPSGCGKSTLLKIVASLI   53 (223)
T ss_pred             CceEEEeCCCCccHHHHHHHHHhcc
Confidence            3478999999999999999999876

>TIGR01817 nifA Nif-specific regulatory protein

Probab=95.90  E-value=0.028  Score=55.38  Aligned_cols=47  Identities=17%  Similarity=0.126  Sum_probs=39.4

Q ss_pred             CCccccchhHHHHHHHHHhc--CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           61 PPTVVGLQSTFDRVWRCLME--EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~--~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...++|....+.++.+.+..  .....|.|+|+.|+|||++|+.+.+..
T Consensus       195 ~~~liG~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~lA~~ih~~s  243 (534)
T TIGR01817       195 EDGIIGKSPAMRQVVDQARVVARSNSTVLLRGESGTGKELIAKAIHYLS  243 (534)
T ss_pred             cCceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCccHHHHHHHHHHhC
Confidence            46789999999998887754  344578899999999999999998775

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.

>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.90  E-value=0.048  Score=46.38  Aligned_cols=26  Identities=23%  Similarity=0.215  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..-+-+|-||.|+|||||+..+.-+.
T Consensus        29 ~GEvhaiMGPNGsGKSTLa~~i~G~p   54 (251)
T COG0396          29 EGEVHAIMGPNGSGKSTLAYTIMGHP   54 (251)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            44588999999999999999987775

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=95.90  E-value=0.014  Score=53.49  Aligned_cols=44  Identities=16%  Similarity=0.151  Sum_probs=34.9

Q ss_pred             cccchhHHHHHHHHHhc--CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           64 VVGLQSTFDRVWRCLME--EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        64 ~vGR~~~~~~l~~~L~~--~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ++|+...+.++.+.+..  .....|.|+|+.|+||+++|+.+...-
T Consensus         1 liG~S~~m~~~~~~~~~~a~~~~pVLI~GE~GtGK~~lAr~iH~~s   46 (329)
T TIGR02974         1 LIGESNAFLEVLEQVSRLAPLDRPVLIIGERGTGKELIAARLHYLS   46 (329)
T ss_pred             CCcCCHHHHHHHHHHHHHhCCCCCEEEECCCCChHHHHHHHHHHhc
Confidence            47888778887777654  345678999999999999999887654

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

>PRK06936 type III secretion system ATPase; Provisional

Probab=95.90  E-value=0.035  Score=52.47  Aligned_cols=92  Identities=17%  Similarity=0.261  Sum_probs=53.2

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcC-CHHHHHHHHHHHhccCC----CCCCcCCHHH--
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDL-QLEQIQGSIAKKINLFN----ESWNSRSLQE--  153 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~l~~~l~~~~----~~~~~~~~~~--  153 (371)
                      .+...++|.|..|+|||||...++...     ..+.+++.-++... .+.++....+..-+...    -......+..  
T Consensus       160 ~~Gq~~~I~G~sG~GKStLl~~Ia~~~-----~~dv~V~~liGERgrEv~ef~~~~l~~~~l~rtvvv~atsd~p~~~R~  234 (439)
T PRK06936        160 GEGQRMGIFAAAGGGKSTLLASLIRSA-----EVDVTVLALIGERGREVREFIESDLGEEGLRKAVLVVATSDRPSMERA  234 (439)
T ss_pred             cCCCEEEEECCCCCChHHHHHHHhcCC-----CCCEEEEEEEccCcHHHHHHHHHHhcccccceeEEEEECCCCCHHHHH
Confidence            345689999999999999999998775     22456666665543 45555544333211110    0001122221  


Q ss_pred             ----HHHHHHHHh--CCCceEEEEeCCCCc
Q 043737          154 ----KSQDIVKNM--SNKKFVLLLDHIWEL  177 (371)
Q Consensus       154 ----~~~~l~~~l--~~~~~LlVlDdv~~~  177 (371)
                          ....+.+++  +++++|+++|++-+.
T Consensus       235 ~a~~~a~tiAEyfrd~G~~Vll~~DslTR~  264 (439)
T PRK06936        235 KAGFVATSIAEYFRDQGKRVLLLMDSVTRF  264 (439)
T ss_pred             HHHHHHHHHHHHHHHcCCCEEEeccchhHH
Confidence                112233333  589999999999543

>TIGR01287 nifH nitrogenase iron protein

Probab=95.86  E-value=0.009  Score=53.47  Aligned_cols=38  Identities=24%  Similarity=0.362  Sum_probs=27.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCC
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASK  124 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~  124 (371)
                      +.|+|+|-||+||||++..++..+.+  .. ..++-++...
T Consensus         1 ~~ia~~gKGGVGKTT~a~nLA~~La~--~G-~~VlliD~D~   38 (275)
T TIGR01287         1 RQIAIYGKGGIGKSTTTQNIAAALAE--MG-KKVMIVGCDP   38 (275)
T ss_pred             CeeEEeCCCcCcHHHHHHHHHHHHHH--CC-CeEEEEeCCC
Confidence            46889999999999999999988842  22 2455555543

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.

>PRK07721 fliI flagellum-specific ATP synthase; Validated

Probab=95.85  E-value=0.045  Score=52.06  Aligned_cols=91  Identities=18%  Similarity=0.224  Sum_probs=49.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHH------hccCCCCCCcCCHH--
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKK------INLFNESWNSRSLQ--  152 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~------l~~~~~~~~~~~~~--  152 (371)
                      .....++|.|..|+|||||+..++...   . ...+++++.-.......++....+..      ....... ......  
T Consensus       156 ~~Gq~i~I~G~sG~GKStLl~~I~~~~---~-~~~gvI~~~Gerg~ev~e~~~~~l~~~~l~r~v~vv~~~-~~~~~~r~  230 (438)
T PRK07721        156 GKGQRVGIFAGSGVGKSTLMGMIARNT---S-ADLNVIALIGERGREVREFIERDLGPEGLKRSIVVVATS-DQPALMRI  230 (438)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhccc---C-CCeEEEEEEecCCccHHHHHHhhcChhhhcCeEEEEECC-CCCHHHHH
Confidence            455799999999999999998887665   1 22345554333333455544332221      1111110 111111  


Q ss_pred             ---HHHHHHHHHh--CCCceEEEEeCCCC
Q 043737          153 ---EKSQDIVKNM--SNKKFVLLLDHIWE  176 (371)
Q Consensus       153 ---~~~~~l~~~l--~~~~~LlVlDdv~~  176 (371)
                         .....+.+++  +++++||++||+-+
T Consensus       231 ~~~~~a~~iAEyfr~~g~~Vll~~Dsltr  259 (438)
T PRK07721        231 KGAYTATAIAEYFRDQGLNVMLMMDSVTR  259 (438)
T ss_pred             HHHHHHHHHHHHHHHCCCcEEEEEeChHH
Confidence               1122233333  47899999999853

>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]

Probab=95.84  E-value=0.0095  Score=48.52  Aligned_cols=24  Identities=25%  Similarity=0.278  Sum_probs=22.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +.|+++|+.|+||||+.+.+++.+
T Consensus         3 ~~IvLiG~mGaGKSTIGr~LAk~L   26 (172)
T COG0703           3 MNIVLIGFMGAGKSTIGRALAKAL   26 (172)
T ss_pred             ccEEEEcCCCCCHhHHHHHHHHHc
Confidence            468899999999999999999998

>PLN02348 phosphoribulokinase

Probab=95.84  E-value=0.06  Score=49.98  Aligned_cols=27  Identities=22%  Similarity=0.471  Sum_probs=24.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +...+|+|.|.+|+||||||+.+.+.+
T Consensus        47 ~~p~IIGIaG~SGSGKSTfA~~L~~~L   73 (395)
T PLN02348         47 DGTVVIGLAADSGCGKSTFMRRLTSVF   73 (395)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            456799999999999999999999987

>TIGR02533 type_II_gspE general secretory pathway protein E

Probab=95.83  E-value=0.026  Score=54.61  Aligned_cols=105  Identities=16%  Similarity=0.183  Sum_probs=56.4

Q ss_pred             ccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCC
Q 043737           65 VGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNE  144 (371)
Q Consensus        65 vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~  144 (371)
                      .|-..+..+....+......++.|+|+.|+||||+...+.+.+.   ..-..++-+.-.-......+     .+....  
T Consensus       224 Lg~~~~~~~~l~~~~~~~~GlilitGptGSGKTTtL~a~L~~l~---~~~~~iiTiEDpvE~~~~~~-----~q~~v~--  293 (486)
T TIGR02533       224 LGMSPELLSRFERLIRRPHGIILVTGPTGSGKTTTLYAALSRLN---TPERNILTVEDPVEYQIEGI-----GQIQVN--  293 (486)
T ss_pred             cCCCHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHhccC---CCCCcEEEEcCCeeeecCCC-----ceEEEc--
Confidence            44433333333334445567999999999999999998887762   11112222211111111110     111110  


Q ss_pred             CCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCcccccc
Q 043737          145 SWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLSQ  182 (371)
Q Consensus       145 ~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~~~~  182 (371)
                         ..........++..|+..+=.+++.++-+.+....
T Consensus       294 ---~~~g~~f~~~lr~~LR~dPDvI~vGEiRd~eta~~  328 (486)
T TIGR02533       294 ---PKIGLTFAAGLRAILRQDPDIIMVGEIRDLETAQI  328 (486)
T ss_pred             ---cccCccHHHHHHHHHhcCCCEEEEeCCCCHHHHHH
Confidence               00011344566677777888999999977765443

This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.

>TIGR02173 cyt_kin_arch cytidylate kinase, putative

Probab=95.82  E-value=0.0084  Score=49.30  Aligned_cols=23  Identities=30%  Similarity=0.439  Sum_probs=21.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +|.|.|+.|+||||+|+.+.+.+
T Consensus         2 iI~i~G~~GSGKstia~~la~~l   24 (171)
T TIGR02173         2 IITISGPPGSGKTTVAKILAEKL   24 (171)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            68999999999999999998876

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.

>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]

Probab=95.81  E-value=0.0092  Score=47.91  Aligned_cols=25  Identities=36%  Similarity=0.426  Sum_probs=22.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .++++|+|.+|+||||+.+.+....
T Consensus         4 ~kvvvitGVpGvGKTTVl~~~~~~l   28 (189)
T COG2019           4 RKVVVITGVPGVGKTTVLKIALKEL   28 (189)
T ss_pred             ceEEEEEcCCCCChHHHHHHHHHHH
Confidence            4789999999999999998887665

>cd01134 V_A-ATPase_A V/A-type ATP synthase catalytic subunit A

Probab=95.80  E-value=0.14  Score=46.89  Aligned_cols=50  Identities=20%  Similarity=0.272  Sum_probs=36.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcC-CHHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDL-QLEQIQGSIA  136 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~l~  136 (371)
                      +...++|.|+.|+|||+|++++++..     +-+.++++-++... .+.+++.++-
T Consensus       156 kGqr~~I~G~~G~GKT~L~~~Iak~~-----~~dvvVyv~iGERg~Ev~e~l~ef~  206 (369)
T cd01134         156 KGGTAAIPGPFGCGKTVIQQSLSKYS-----NSDIVIYVGCGERGNEMTEVLEEFP  206 (369)
T ss_pred             CCCEEEEECCCCCChHHHHHHHHhCC-----CCCEEEEEEeCCChHHHHHHHHHHH
Confidence            44589999999999999999998764     23467777776543 4556666553

These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	371
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	1e-43
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	5e-41
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-30
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	6e-14

>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 =  157 bits (399), Expect = 1e-43
 Identities = 48/321 (14%), Positives = 100/321 (31%), Gaps = 29/321 (9%)

Query: 59  PLPPTVVGLQSTFDRVWRCLME---EQMGIVGLYGMGEVGKTTLLTQI-NKKFLHTPNDF 114
           P   T    +   DRV + L E        + L+G    GK+ + +Q  +K       ++
Sbjct: 125 PKQMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINY 184

Query: 115 DFVIWVVASKDL------QLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKN--MSNKK 166
           D ++W+  S             I   +  + +L N            + ++ N  +    
Sbjct: 185 DSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPN 244

Query: 167 FVLLLDHIWELVDLSQVGLPVPCRTSASNKTVFTARELEVCGQMEAHKS-FKVERLGYED 225
            + + D + +  +  +    +  R       + T R++E+           +V  L  ++
Sbjct: 245 TLFVFDDVVQ-EETIRWAQELRLRC------LVTTRDVEISNAASQTCEFIEVTSLEIDE 297

Query: 226 AWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEV 285
            +   E               ++     +   G P  L+   ++   K T  +       
Sbjct: 298 CYDFLEAYGMPM--PVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPK-TFEKMAQLNNK 354

Query: 286 LRSSAYK-----FSGMESRVFSRLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDC 340
           L S                +   L+   + L  DE R  L +    P    I V+     
Sbjct: 355 LESRGLVGVECITPYSYKSLAMALQRCVEVLS-DEDRSALAFAVVMPPGVDIPVKLWSCV 413

Query: 341 WICEGFLDEYDGFEHEIKDTL 361
              +   +E +  + E+ D L
Sbjct: 414 IPVDICSNEEEQLDDEVADRL 434

>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 =  151 bits (382), Expect = 5e-41
 Identities = 64/353 (18%), Positives = 128/353 (36%), Gaps = 36/353 (10%)

Query: 14  SKNCSSGYK-IGRKVFKTLQQVQGLTNEGDFKEVPQPVPENLVDER--PLPPTVVGLQST 70
           +     GYK +   +   +  V   + +     +   V   L +      P   V  +  
Sbjct: 73  NALLHEGYKDLAALLHDGIPVVSSSSGKDSVSGITSYVRTVLCEGGVPQRPVVFVTRKKL 132

Query: 71  FDRVWRCLM--EEQMGIVGLYGMGEVGKTTLLTQI-NKKFLHTPNDFDFVIWVVASKD-- 125
            + + + L   + + G V ++GM   GK+ L  +      L        V WV   K   
Sbjct: 133 VNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDK 192

Query: 126 ----LQLEQIQGSIAKKINLFN-ESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDL 180
               ++L+ +   + +  +       N    +++ +  +    + + +L+LD +W+   L
Sbjct: 193 SGLLMKLQNLCTRLDQDESFSQRLPLNIEEAKDRLRI-LMLRKHPRSLLILDDVWDSWVL 251

Query: 181 SQVGLPVPCRTSASNKTVFTARELEVCGQMEAHKS--FKVERLGYEDAWKLFEEKVGKEI 238
                      S   + + T R+  V   +   K        LG E   ++    V  + 
Sbjct: 252 KAFD-------SQC-QILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFVNMK- 302

Query: 239 LDSHPDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSAYKFSGMES 298
                D+PE A ++ KEC G PL +  +G  +     P  WE+ ++ L++  +K     S
Sbjct: 303 ---KADLPEQAHSIIKECKGSPLVVSLIGALLRDF--PNRWEYYLKQLQNKQFKRIRKSS 357

Query: 299 -----RVFSRLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGF 346
                 +   + IS + L  ++ + Y    S   +D K+  + L   W  E  
Sbjct: 358 SYDYEALDEAMSISVEMLR-EDIKDYYTDLSILQKDVKVPTKVLCILWDMETE 409

>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 =  121 bits (305), Expect = 2e-30
 Identities = 48/320 (15%), Positives = 106/320 (33%), Gaps = 62/320 (19%)

Query: 56  DERPLPPTVVGLQSTFDRVWRCLMEEQ-MGIVGLYGMGEVGKTTLLTQI--NKKFLHTPN 112
           D +      V     + ++ + L+E +    V + G+   GKT +   +  + K      
Sbjct: 122 DNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCK-- 179

Query: 113 DFDF-VIWV----VASKDLQLEQIQGSIAKKI---------NLFNESWNSRSLQEKSQDI 158
             DF + W+      S +  LE +Q  +  +I         +  N      S+Q + + +
Sbjct: 180 -MDFKIFWLNLKNCNSPETVLEMLQ-KLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRL 237

Query: 159 VKNMSNKKFVLLLDHIW--ELVDLSQVGLPVPCRTSASNKTVFTARELEVCGQMEAHKSF 216
           +K+   +  +L+L ++   +  +   +     C      K + T R  +V   + A  + 
Sbjct: 238 LKSKPYENCLLVLLNVQNAKAWNAFNLS----C------KILLTTRFKQVTDFLSAATTT 287

Query: 217 KVERLGYEDAWKLFEEKVGKEIL-----DSHPDIPELAETVAKECGGLPLALITVGRAMA 271
            +     +           K +L         D+P             P  L  +  ++ 
Sbjct: 288 HIS---LDHHSMTLTPDEVKSLLLKYLDCRPQDLPREV------LTTNPRRLSIIAESI- 337

Query: 272 SKKTPREWEHAIEVLRSSAYKFSGMESRVFSRLKISYDFLPGDETRFYLLYCSSYPEDYK 331
            +     W++         +K    + ++ + ++ S + L   E R      S +P    
Sbjct: 338 -RDGLATWDN---------WKHVNCD-KLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAH 386

Query: 332 IFVEDLIDCWICEGFLDEYD 351
           I    L   W     + + D
Sbjct: 387 IPTILLSLIW---FDVIKSD 403

>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 = 72.6 bits (178), Expect = 6e-14
 Identities = 59/300 (19%), Positives = 110/300 (36%), Gaps = 33/300 (11%)

Query: 59  PLPPTVVGLQSTFDRVWRCL--MEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDF-D 115
             P   V  +     + + L  +  + G V +YGM   GK+ L  +  +        F  
Sbjct: 121 QRPVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSG 180

Query: 116 FVIWV-VASKD-LQLEQIQGSIAKKINLFNESWNS--RSLQEKSQDIVKNMSNK--KFVL 169
            V WV +  +D   L     ++  +++           +++E    +   M  K  + +L
Sbjct: 181 GVHWVSIGKQDKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLL 240

Query: 170 LLDHIWELVDLSQVGLPVPCRTSASNKTVFTARELEVCGQMEAHKSFKV--ERLGYEDAW 227
           +LD +W+   L        C+       + T R+  V   +   K        LG E   
Sbjct: 241 ILDDVWDPWVLKA--FDNQCQ------ILLTTRDKSVTDSVMGPKHVVPVESGLGREKGL 292

Query: 228 KLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLR 287
           ++    V  +      D+P  A ++ KEC G PL +  +G  +  +  P  W + +  L+
Sbjct: 293 EILSLFVNMKK----EDLPAEAHSIIKECKGSPLVVSLIGALL--RDFPNRWAYYLRQLQ 346

Query: 288 SSAYK-FSGMESRVFSR----LKISYDFLPGDE-TRFYLLYCSSYPEDYKIFVEDLIDCW 341
           +  +K      S  +      + IS + L  D    +  L  S   +D K+  + L   W
Sbjct: 347 NKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDL--SILQKDVKVPTKVLCVLW 404

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	371
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	100.0
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	100.0
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	100.0
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	100.0
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	99.83
2fna_A	357	Conserved hypothetical protein; structural genomic	99.8
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.8
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.71
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.71
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.69
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.68
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.53
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.5
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	99.42
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	99.33
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	99.27
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	99.21
2chq_A	319	Replication factor C small subunit; DNA-binding pr	99.18
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	99.17
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	99.06
3bos_A	242	Putative DNA replication factor; P-loop containing	99.06
3pvs_A	447	Replication-associated recombination protein A; ma	99.01
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	98.99
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	98.98
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	98.97
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	98.96
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	98.95
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	98.86
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	98.86
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	98.84
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	98.83
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	98.8
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	98.79
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	98.76
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	98.75
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	98.74
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	98.74
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	98.7
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	98.69
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	98.67
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	98.67
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	98.67
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	98.64
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	98.64
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	98.6
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	98.58
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	98.56
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	98.56
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	98.53
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	98.51
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	98.49
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	98.47
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	98.47
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	98.46
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	98.45
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	98.41
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	98.4
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	98.4
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	98.39
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	98.38
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	98.36
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	98.36
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	98.27
3co5_A	143	Putative two-component system transcriptional RES	98.26
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	98.19
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	98.19
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	98.18
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	98.13
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	98.11
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	98.11
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	98.09
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	98.06
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	98.06
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	97.99
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	97.96
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	97.92
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.86
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	97.75
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	97.75
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	97.73
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.72
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	97.63
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	97.6
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	97.59
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	97.58
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	97.53
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	97.5
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	97.49
3io5_A	333	Recombination and repair protein; storage dimer, i	97.48
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.47
1xp8_A	366	RECA protein, recombinase A; recombination, radior	97.45
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	97.44
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	97.4
2z43_A	324	DNA repair and recombination protein RADA; archaea	97.4
1u94_A	356	RECA protein, recombinase A; homologous recombinat	97.36
2qgz_A	308	Helicase loader, putative primosome component; str	97.31
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	97.26
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.24
2r44_A	331	Uncharacterized protein; putative ATPase, structur	97.19
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	97.16
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	97.13
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	97.07
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	97.07
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	97.02
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.95
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	96.92
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	96.91
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.89
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	96.86
3ice_A	422	Transcription termination factor RHO; transcriptio	96.85
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.83
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	96.82
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	96.82
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	96.77
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	96.77
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	96.77
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	96.76
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	96.75
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	96.73
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	96.73
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	96.73
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.7
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	96.7
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.69
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	96.67
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.66
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.66
2hf9_A	226	Probable hydrogenase nickel incorporation protein	96.65
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	96.64
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.64
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	96.63
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.63
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.61
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.61
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.58
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.58
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	96.56
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.56
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	96.55
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.55
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.54
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.53
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.53
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.52
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	96.51
1tue_A	212	Replication protein E1; helicase, replication, E1E	96.51
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.51
2r6a_A	454	DNAB helicase, replicative helicase; replication,	96.51
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.49
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.49
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	96.49
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	96.49
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	96.49
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	96.48
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	96.48
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	96.47
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	96.47
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.44
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.42
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	96.41
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.4
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.39
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.38
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.38
1via_A	175	Shikimate kinase; structural genomics, transferase	96.37
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	96.37
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	96.37
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	96.37
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	96.36
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	96.36
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.35
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.35
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	96.34
2xxa_A	433	Signal recognition particle protein; protein trans	96.33
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	96.33
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.32
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	96.31
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.31
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.3
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	96.3
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	96.27
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.27
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.26
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.26
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	96.23
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	96.23
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	96.22
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	96.22
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	96.21
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.2
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	96.19
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.19
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	96.19
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	96.19
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	96.18
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	96.18
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	96.17
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	96.16
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	96.16
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.16
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	96.16
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.16
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	96.16
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	96.13
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	96.12
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	96.11
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.11
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	96.1
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	96.08
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	96.07
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	96.06
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	96.06
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	96.04
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	96.01
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	96.0
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	95.96
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	95.96
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	95.95
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	95.94
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	95.93
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	95.92
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	95.92
3l0o_A	427	Transcription termination factor RHO; helicase, RH	95.91
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	95.9
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	95.89
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	95.89
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	95.88
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	95.87
3end_A	307	Light-independent protochlorophyllide reductase ir	95.87
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	95.86
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	95.86
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	95.85
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	95.82
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	95.82
3fwy_A	314	Light-independent protochlorophyllide reductase I	95.8
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	95.8
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	95.8
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	95.8
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	95.79
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	95.78
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	95.78
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	95.76
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	95.75
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	95.75
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	95.74
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	95.72
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	95.72
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	95.7
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	95.69
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	95.69
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	95.68
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	95.68
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	95.67
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	95.65
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	95.65
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	95.65
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	95.64
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	95.63
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	95.62
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	95.6
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	95.58
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	95.56
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	95.55
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	95.54
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	95.54
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	95.53
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	95.5
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	95.48
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	95.45
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	95.44
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	95.42
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	95.42
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	95.41
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	95.41
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	95.4
1p9r_A	418	General secretion pathway protein E; bacterial typ	95.35
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	95.34
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	95.31
3mfy_A	588	V-type ATP synthase alpha chain; A-type ATP syntha	95.3
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	95.3
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	95.23
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	95.22
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	95.21
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	95.2
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	95.2
2orv_A	234	Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2	95.2
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	95.19
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	95.17
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	95.17
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	95.16
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	95.16
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	95.14
2eyu_A	261	Twitching motility protein PILT; pilus retraction	95.14
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	95.11
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	95.11
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	95.11
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	95.1
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	95.09
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	95.07
2woj_A	354	ATPase GET3; tail-anchored, membrane protein, targ	95.07
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	95.07
2ged_A	193	SR-beta, signal recognition particle receptor beta	95.02
2wji_A	165	Ferrous iron transport protein B homolog; membrane	95.01
2woo_A	329	ATPase GET3; tail-anchored, membrane protein, targ	95.0
1b0u_A	262	Histidine permease; ABC transporter, transport pro	95.0
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	94.99
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	94.98
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	94.98
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	94.97
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	94.96
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	94.95
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	94.94
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	94.94
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	94.93
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	94.93
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	94.93
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	94.91
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	94.9
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	94.87
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	94.87
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	94.86
1ji0_A	240	ABC transporter; ATP binding protein, structural g	94.85
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	94.85
1g6h_A	257	High-affinity branched-chain amino acid transport	94.84
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	94.83
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	94.83
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	94.8
2og2_A	359	Putative signal recognition particle receptor; nuc	94.8
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	94.8
2ghi_A	260	Transport protein; multidrug resistance protein, M	94.8
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	94.79
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	94.78
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	94.78
1sgw_A	214	Putative ABC transporter; structural genomics, P p	94.78
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	94.77
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	94.76
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	94.74
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	94.73
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	94.71
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	94.71
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	94.69
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	94.66
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	94.63
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	94.61
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	94.6
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	94.6
3zq6_A	324	Putative arsenical pump-driving ATPase; tail-ancho	94.6
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	94.6
3vr4_A	600	V-type sodium ATPase catalytic subunit A; V-ATPase	94.58
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	94.57
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	94.56
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	94.53
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	94.52
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	94.52
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	94.5
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	94.49
1nrj_B	218	SR-beta, signal recognition particle receptor beta	94.48
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	94.47
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	94.44
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	94.44
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	94.44
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	94.43
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	94.43
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	94.43
3llu_A	196	RAS-related GTP-binding protein C; structural geno	94.43
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	94.43
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	94.41
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	94.4
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	94.39
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	94.39
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	94.39
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	94.37
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	94.36
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	94.36
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	94.36
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	94.35
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	94.35
3ug7_A	349	Arsenical pump-driving ATPase; tail-anchored, memb	94.35
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	94.35
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	94.34
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	94.34
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	94.34
1ihu_A	589	Arsenical pump-driving ATPase; aluminum fluoride,	94.34
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	94.34
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	94.33
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	94.32
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	94.32
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	94.3
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	94.3
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	94.29
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	94.26
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	94.25
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	94.24
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	94.22
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	94.21
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	94.2
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	94.2
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	94.19
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	94.18
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	94.16
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	94.16
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	94.15
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	94.14
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	94.13
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	94.13
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	94.12
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	94.1
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	94.1
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	94.09
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	94.09
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	94.08
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	94.07
3kta_A	182	Chromosome segregation protein SMC; structural mai	94.07
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	94.06
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	94.06
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	94.04
2oze_A	298	ORF delta'; para, walker type atpases, DNA segrega	94.04
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	94.04
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	94.03
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	94.03
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	94.02
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	94.01
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	94.01
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	93.98
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	93.97
2ewv_A	372	Twitching motility protein PILT; pilus retraction	93.96
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	93.95
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	93.94
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	93.91
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	93.91
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	93.9
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	93.9
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	93.9
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	93.89
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	93.89
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	93.87
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	93.86
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	93.86
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	93.85
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	93.85
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	93.85
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	93.85
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	93.83
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	93.81
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	93.81
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	93.79
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	93.78
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	93.78
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	93.78
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	93.77
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	93.73
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	93.73
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	93.71
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	93.7
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	93.7
2fh5_B	214	SR-beta, signal recognition particle receptor beta	93.7
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	93.68
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	93.68
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	93.65
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	93.64
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	93.64
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	93.63
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	93.62
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	93.61
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	93.61
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	93.59
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	93.58
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	93.58
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	93.57
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	93.57
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	93.56
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	93.56
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	93.55
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	93.51
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	93.51
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	93.5
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	93.48
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	93.48
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	93.45
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	93.45
3hdt_A	223	Putative kinase; structura genomics, PSI-2, protei	93.4
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	93.4
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	93.39
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	93.33
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	93.28
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	93.27
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	93.27
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	93.27
3igf_A	374	ALL4481 protein; two-domained protein consisting o	93.25
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	93.25
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	93.25
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	93.21
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	93.21
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	93.18
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	93.17
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	93.16
3k9g_A	267	PF-32 protein; ssgcid, SBRI, decode biostructures,	93.15
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	93.15
3cwq_A	209	Para family chromosome partitioning protein; alpha	93.15
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	93.14

>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=6.5e-43  Score=341.21  Aligned_cols=284  Identities=14%  Similarity=0.125  Sum_probs=222.0

Q ss_pred             ccchhHHHHHHHHHhcC---CceEEEEEcCCCCcHHHHHHHHHh--hccCCCCCCCeEEEEEeCCcC--CHHHHHHHHHH
Q 043737           65 VGLQSTFDRVWRCLMEE---QMGIVGLYGMGEVGKTTLLTQINK--KFLHTPNDFDFVIWVVASKDL--QLEQIQGSIAK  137 (371)
Q Consensus        65 vGR~~~~~~l~~~L~~~---~~~~v~I~G~~GiGKTtLa~~~~~--~~~~~~~~f~~~~wv~~~~~~--~~~~~~~~l~~  137 (371)
                      |||+.++++|.++|..+   ..++|+|+|+||+||||||+++++  +. ....+|++++|++++...  +...++..++.
T Consensus       131 ~GR~~~~~~l~~~L~~~~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~-~~~~~F~~~~wv~vs~~~~~~~~~~~~~il~  209 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQ-LIGINYDSIVWLKDSGTAPKSTFDLFTDILL  209 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSS-TBTTTBSEEEEEECCCCSTTHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhcccCCCceEEEEEcCCCCCHHHHHHHHHHhhhH-HHhccCCcEEEEEECCCCCCCHHHHHHHHHH
Confidence            59999999999999753   579999999999999999999997  23 347899999999998875  78999999999


Q ss_pred             HhccCCC-----CCCcCCHHHHHHHHHHHhCCC-ceEEEEeCCCCcccccccccccCCCCCCCcEEEEecCchHHHhhcc
Q 043737          138 KINLFNE-----SWNSRSLQEKSQDIVKNMSNK-KFVLLLDHIWELVDLSQVGLPVPCRTSASNKTVFTARELEVCGQME  211 (371)
Q Consensus       138 ~l~~~~~-----~~~~~~~~~~~~~l~~~l~~~-~~LlVlDdv~~~~~~~~~~~~l~~~~~~~~~iliTsR~~~~~~~~~  211 (371)
                      +++....     .....+.......+.+.+.++ ++||||||+|+..++ .+.      ...||+||||||+..++..+.
T Consensus       210 ~l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~~~-~~~------~~~gs~ilvTTR~~~v~~~~~  282 (549)
T 2a5y_B          210 MLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETI-RWA------QELRLRCLVTTRDVEISNAAS  282 (549)
T ss_dssp             HHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHH-HHH------HHTTCEEEEEESBGGGGGGCC
T ss_pred             HHhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCchhh-ccc------ccCCCEEEEEcCCHHHHHHcC
Confidence            9976421     112335567788999999996 999999999987654 111      226999999999999887654


Q ss_pred             -CCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHHHHcCCCChhHHHHHHHHHhccc
Q 043737          212 -AHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSA  290 (371)
Q Consensus       212 -~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~~l~~~~~~~~~~~~l~~l~~~~  290 (371)
                       ....|++++|+.++|++||.+.++...  .++..++++++|+++|+|+||||.++|+.++.+ +   |... +.+....
T Consensus       283 ~~~~~~~l~~L~~~ea~~Lf~~~a~~~~--~~~~~~~~~~~I~~~c~GlPLAl~~~g~~l~~~-~---w~~~-~~l~~~l  355 (549)
T 2a5y_B          283 QTCEFIEVTSLEIDECYDFLEAYGMPMP--VGEKEEDVLNKTIELSSGNPATLMMFFKSCEPK-T---FEKM-AQLNNKL  355 (549)
T ss_dssp             SCEEEEECCCCCHHHHHHHHHHTSCCCC----CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSS-S---HHHH-HHHHHHH
T ss_pred             CCCeEEECCCCCHHHHHHHHHHHhcCCC--CchhHHHHHHHHHHHhCCChHHHHHHHHHhccc-h---HHHH-HHhHHHh
Confidence             335799999999999999999976543  235677889999999999999999999999763 2   5443 4444443


Q ss_pred             ccCCCChhHHHHHHhhccCCCCCcchhHHhc-----------hhccCCCCCccCHHHHHHHHHHc--CCcccCC-----C
Q 043737          291 YKFSGMESRVFSRLKISYDFLPGDETRFYLL-----------YCSSYPEDYKIFVEDLIDCWICE--GFLDEYD-----G  352 (371)
Q Consensus       291 ~~~~~~~~~~~~~l~~s~~~L~~~~~~~~l~-----------~la~fp~~~~i~~~~li~~w~a~--g~~~~~~-----~  352 (371)
                      ....  ...+..++..||+.||+ ..+.||+           +||+||+++.|+    +.+|+|+  ||+...+     .
T Consensus       356 ~~~~--~~~i~~~l~~Sy~~L~~-~lk~~f~~Ls~~er~l~~~ls~fp~~~~i~----i~~w~a~~~G~i~~~~~~~~~~  428 (549)
T 2a5y_B          356 ESRG--LVGVECITPYSYKSLAM-ALQRCVEVLSDEDRSALAFAVVMPPGVDIP----VKLWSCVIPVDICSNEEEQLDD  428 (549)
T ss_dssp             HHHC--SSTTCCCSSSSSSSHHH-HHHHHHHTSCHHHHHHTTGGGSSCTTCCEE----HHHHHHHSCC-------CCCTH
T ss_pred             hccc--HHHHHHHHhcccccccH-HHHHHHhccchhhhhHhhheeeeCCCCeee----eeeeeeeccceeccCCCCCCHH
Confidence            3221  12577778888888877 7888888           999999999999    8899999  9997654     1


Q ss_pred             hHHHHHHHHHhCcCCccc
Q 043737          353 FEHEIKDTLLFVSFFMHV  370 (371)
Q Consensus       353 ~~~~~l~~L~~~sll~~~  370 (371)
                      .+.++|++|+++||||++
T Consensus       429 ~~~~~l~~L~~rsLl~~~  446 (549)
T 2a5y_B          429 EVADRLKRLSKRGALLSG  446 (549)
T ss_dssp             HHHHHHHHTTTBSSCSEE
T ss_pred             HHHHHHHHHHHcCCeeEe
Confidence            244599999999999863

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=100.00  E-value=4.7e-38  Score=313.64  Aligned_cols=271  Identities=15%  Similarity=0.170  Sum_probs=213.2

Q ss_pred             CCccccchhHHHHHHHHHhc-CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCe-EEEEEeCCcCCHHHHHHHHHHH
Q 043737           61 PPTVVGLQSTFDRVWRCLME-EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDF-VIWVVASKDLQLEQIQGSIAKK  138 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~-~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~-~~wv~~~~~~~~~~~~~~l~~~  138 (371)
                      .+..|||+.++++|.++|.+ +..++|+|+||||+||||||++++++. +...+|+. ++|++++...+...++..++..
T Consensus       127 tk~~VGRe~eLeeL~elL~~~d~~RVV~IvGmGGIGKTTLAk~Vy~d~-rV~~~Fd~gV~WVsVs~~~d~~~IL~~Ll~l  205 (1221)
T 1vt4_I          127 AKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSY-KVQCKMDFKIFWLNLKNCNSPETVLEMLQKL  205 (1221)
T ss_dssp             CCSCCCCHHHHHHHHHHHHHCCSSCEEEECCSTTSSHHHHHHHHHHHC-HHHHHHSSCEEEEECCCSSSHHHHHHHHHHH
T ss_pred             CCCCCCcHHHHHHHHHHHhccCCCeEEEEEcCCCccHHHHHHHHHHhh-HHHHhCCCcEEEEEeCCCCCHHHHHHHHHHH
Confidence            34569999999999999976 557899999999999999999999764 33567774 9999999988888888888776


Q ss_pred             hccCCCCC---C------cCCHHHHHHHHHHHh---CCCceEEEEeCCCCcccccccccccCCCCCCCcEEEEecCchHH
Q 043737          139 INLFNESW---N------SRSLQEKSQDIVKNM---SNKKFVLLLDHIWELVDLSQVGLPVPCRTSASNKTVFTARELEV  206 (371)
Q Consensus       139 l~~~~~~~---~------~~~~~~~~~~l~~~l---~~~~~LlVlDdv~~~~~~~~~~~~l~~~~~~~~~iliTsR~~~~  206 (371)
                      ++...+..   .      ..+.+.....+...+   .++++||||||+|+...|+.+.        .|++||||||++.+
T Consensus       206 L~~i~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd~eqLe~f~--------pGSRILVTTRd~~V  277 (1221)
T 1vt4_I          206 LYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFN--------LSCKILLTTRFKQV  277 (1221)
T ss_dssp             HHHHCSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCCHHHHHHHH--------SSCCEEEECSCSHH
T ss_pred             HhhcCcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcChHHHHHhhC--------CCeEEEEeccChHH
Confidence            54321110   0      112334455666655   6899999999999977776541        58999999999988


Q ss_pred             HhhccCCCceeec------CCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHHHHcCCC-ChhHH
Q 043737          207 CGQMEAHKSFKVE------RLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAMASKK-TPREW  279 (371)
Q Consensus       207 ~~~~~~~~~~~l~------~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~~l~~~~-~~~~~  279 (371)
                      +..+.....+.++      +|+.+||++||.+.+...    ..   ++..+   .|+|+||||.++|+.|+.+. +...|
T Consensus       278 a~~l~g~~vy~LeL~d~dL~LS~eEA~eLF~~~~g~~----~e---eL~~e---ICgGLPLALkLaGs~Lr~k~~s~eeW  347 (1221)
T 1vt4_I          278 TDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCR----PQ---DLPRE---VLTTNPRRLSIIAESIRDGLATWDNW  347 (1221)
T ss_dssp             HHHHHHHSSCEEEECSSSSCCCHHHHHHHHHHHHCCC----TT---THHHH---HCCCCHHHHHHHHHHHHHSCSSHHHH
T ss_pred             HHhcCCCeEEEecCccccCCcCHHHHHHHHHHHcCCC----HH---HHHHH---HhCCCHHHHHHHHHHHhCCCCCHHHH
Confidence            7543333456676      999999999999986432    11   22333   39999999999999999753 56677


Q ss_pred             HHHHHHHhcccccCCCChhHHHHHHhhccCCCCCcch-hHHhchhccCCCCCccCHHHHHHHHHHcCCcccCCChHHHHH
Q 043737          280 EHAIEVLRSSAYKFSGMESRVFSRLKISYDFLPGDET-RFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDEYDGFEHEIK  358 (371)
Q Consensus       280 ~~~l~~l~~~~~~~~~~~~~~~~~l~~s~~~L~~~~~-~~~l~~la~fp~~~~i~~~~li~~w~a~g~~~~~~~~~~~~l  358 (371)
                      ...             ....+..+|..||+.|++ +. |.||+++|+||+++.|+.+.++.+|+++|     ...++.+|
T Consensus       348 ~~~-------------~~~~I~aaLelSYd~Lp~-eelK~cFL~LAIFPed~~I~~elLa~LW~aeG-----eedAe~~L  408 (1221)
T 1vt4_I          348 KHV-------------NCDKLTTIIESSLNVLEP-AEYRKMFDRLSVFPPSAHIPTILLSLIWFDVI-----KSDVMVVV  408 (1221)
T ss_dssp             HHC-------------SCHHHHHHHHHHHHHSCT-THHHHHHHHTTSSCTTSCEEHHHHHHHHCSSC-----SHHHHHHH
T ss_pred             hcC-------------ChhHHHHHHHHHHHhCCH-HHHHHHHHHHhCCCCCCCCCHHHHHHHhcCCC-----HHHHHHHH
Confidence            542             135899999999999999 78 99999999999999999999999999887     12388999


Q ss_pred             HHHHhCcCCcc
Q 043737          359 DTLLFVSFFMH  369 (371)
Q Consensus       359 ~~L~~~sll~~  369 (371)
                      ++|+++|||+.
T Consensus       409 ~eLvdRSLLq~  419 (1221)
T 1vt4_I          409 NKLHKYSLVEK  419 (1221)
T ss_dssp             HHHHTSSSSSB
T ss_pred             HHHHhhCCEEE
Confidence            99999999985

>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=6.5e-37  Score=326.26  Aligned_cols=291  Identities=21%  Similarity=0.271  Sum_probs=232.4

Q ss_pred             CCCCCccccchhHHHHHHHHHhc--CCceEEEEEcCCCCcHHHHHHHHHhhccCCC-CCCCeEEEEEeCCcCC--HHHHH
Q 043737           58 RPLPPTVVGLQSTFDRVWRCLME--EQMGIVGLYGMGEVGKTTLLTQINKKFLHTP-NDFDFVIWVVASKDLQ--LEQIQ  132 (371)
Q Consensus        58 ~~~~~~~vGR~~~~~~l~~~L~~--~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~-~~f~~~~wv~~~~~~~--~~~~~  132 (371)
                      |+.++.||||++++++|.++|..  +..++|+|+|+||+||||||++++++..... .+++.++|++++....  ....+
T Consensus       120 p~~~~~~vgR~~~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~  199 (1249)
T 3sfz_A          120 PQRPVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKL  199 (1249)
T ss_dssp             CCCCSSCCCCHHHHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHHHHHHH
T ss_pred             CCCCceeccHHHHHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchHHHHHH
Confidence            44567799999999999999963  5678999999999999999999998852223 3556899999987533  34456


Q ss_pred             HHHHHHhccCCC--CCCcCCHHHHHHHHHHHhCCC--ceEEEEeCCCCcccccccccccCCCCCCCcEEEEecCchHHHh
Q 043737          133 GSIAKKINLFNE--SWNSRSLQEKSQDIVKNMSNK--KFVLLLDHIWELVDLSQVGLPVPCRTSASNKTVFTARELEVCG  208 (371)
Q Consensus       133 ~~l~~~l~~~~~--~~~~~~~~~~~~~l~~~l~~~--~~LlVlDdv~~~~~~~~~~~~l~~~~~~~~~iliTsR~~~~~~  208 (371)
                      ..++..+.....  .....+.+.....++..+.++  ++||||||+|+..++..+        .++++||||||++.++.
T Consensus       200 ~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~~~~~~~--------~~~~~ilvTtR~~~~~~  271 (1249)
T 3sfz_A          200 QNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAF--------DNQCQILLTTRDKSVTD  271 (1249)
T ss_dssp             HHHHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCHHHHTTT--------CSSCEEEEEESSTTTTT
T ss_pred             HHHHHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCHHHHHhh--------cCCCEEEEEcCCHHHHH
Confidence            667777654321  123557788888999999877  999999999988766533        56899999999998874


Q ss_pred             h-ccCCCceeecC-CChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHHHHcCCCChhHHHHHHHHH
Q 043737          209 Q-MEAHKSFKVER-LGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVL  286 (371)
Q Consensus       209 ~-~~~~~~~~l~~-L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~~l~~~~~~~~~~~~l~~l  286 (371)
                      . ......+.+.+ |+.++|++||...++...    +..++.+++|+++|+|+||||.++|++|+.+.  ..|...++.+
T Consensus       272 ~~~~~~~~~~~~~~l~~~~a~~l~~~~~~~~~----~~~~~~~~~i~~~~~glPLal~~~~~~l~~~~--~~~~~~l~~l  345 (1249)
T 3sfz_A          272 SVMGPKHVVPVESGLGREKGLEILSLFVNMKK----EDLPAEAHSIIKECKGSPLVVSLIGALLRDFP--NRWAYYLRQL  345 (1249)
T ss_dssp             TCCSCBCCEECCSSCCHHHHHHHHHHHHTSCS----TTCCTHHHHHHHHTTTCHHHHHHHHHHHHHSS--SCHHHHHHHH
T ss_pred             hhcCCceEEEecCCCCHHHHHHHHHHhhCCCh----hhCcHHHHHHHHHhCCCHHHHHHHHHHhhcCh--hHHHHHHHHH
Confidence            3 35567789986 999999999998885432    23345699999999999999999999998643  4699988888


Q ss_pred             hcccccC-----CCChhHHHHHHhhccCCCCCcchhHHhchhccCCCCCccCHHHHHHHHHHcCCcccCCChHHHHHHHH
Q 043737          287 RSSAYKF-----SGMESRVFSRLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDEYDGFEHEIKDTL  361 (371)
Q Consensus       287 ~~~~~~~-----~~~~~~~~~~l~~s~~~L~~~~~~~~l~~la~fp~~~~i~~~~li~~w~a~g~~~~~~~~~~~~l~~L  361 (371)
                      .......     ......+..+|..||+.|++ +.|.||++||+||+++.|+.+.++.+|.+++      ..++++|++|
T Consensus       346 ~~~~~~~~~~~~~~~~~~~~~~l~~s~~~L~~-~~~~~~~~l~~f~~~~~i~~~~~~~~~~~~~------~~~~~~l~~L  418 (1249)
T 3sfz_A          346 QNKQFKRIRKSSSYDYEALDEAMSISVEMLRE-DIKDYYTDLSILQKDVKVPTKVLCVLWDLET------EEVEDILQEF  418 (1249)
T ss_dssp             HSCCCCCSSCTTCTTHHHHHHHHHHHHHTSCT-TTHHHHHHGGGSCTTCCEEHHHHHHHHTCCH------HHHHHHHHHH
T ss_pred             hhhhhhhcccccccchHHHHHHHHHHHHhCCH-HHHHHHHHhCccCCCCeeCHHHHHHHhCCCH------HHHHHHHHHH
Confidence            7664322     12224799999999999999 8999999999999999999999999996542      3489999999


Q ss_pred             HhCcCCcc
Q 043737          362 LFVSFFMH  369 (371)
Q Consensus       362 ~~~sll~~  369 (371)
                      +++||++.
T Consensus       419 ~~~sl~~~  426 (1249)
T 3sfz_A          419 VNKSLLFC  426 (1249)
T ss_dssp             HHTTSCEE
T ss_pred             HhccceEE
Confidence            99999974

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=100.00  E-value=6.4e-35  Score=288.12  Aligned_cols=287  Identities=21%  Similarity=0.296  Sum_probs=219.5

Q ss_pred             CCCCCccccchhHHHHHHHHHhc--CCceEEEEEcCCCCcHHHHHHHHHhhccCC-CCCC-CeEEEEEeCCcCCHHHHHH
Q 043737           58 RPLPPTVVGLQSTFDRVWRCLME--EQMGIVGLYGMGEVGKTTLLTQINKKFLHT-PNDF-DFVIWVVASKDLQLEQIQG  133 (371)
Q Consensus        58 ~~~~~~~vGR~~~~~~l~~~L~~--~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-~~~f-~~~~wv~~~~~~~~~~~~~  133 (371)
                      |+.++.||||+.++++|.++|..  +..++|+|+|+||+||||||.+++++. .. ..+| +.++|++++.. +...++.
T Consensus       120 P~~~~~~vGR~~~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~-~~~~~~f~~~v~wv~~~~~-~~~~~~~  197 (591)
T 1z6t_A          120 PQRPVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDH-SLLEGCFPGGVHWVSVGKQ-DKSGLLM  197 (591)
T ss_dssp             CCCCSSCCCCHHHHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCH-HHHHHHCTTCEEEEEEESC-CHHHHHH
T ss_pred             CCCCCeecccHHHHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhch-hHHHhhCCCceEEEECCCC-chHHHHH
Confidence            44567899999999999999974  467899999999999999999999875 22 3456 58999998765 3333333


Q ss_pred             HH---HHHhccC--CCCCCcCCHHHHHHHHHHHhCC--CceEEEEeCCCCcccccccccccCCCCCCCcEEEEecCchHH
Q 043737          134 SI---AKKINLF--NESWNSRSLQEKSQDIVKNMSN--KKFVLLLDHIWELVDLSQVGLPVPCRTSASNKTVFTARELEV  206 (371)
Q Consensus       134 ~l---~~~l~~~--~~~~~~~~~~~~~~~l~~~l~~--~~~LlVlDdv~~~~~~~~~~~~l~~~~~~~~~iliTsR~~~~  206 (371)
                      .+   +..++..  .......+.+.....+...+.+  +++||||||+|+...+..        ...+++||||||+..+
T Consensus       198 ~l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~~~l~~--------l~~~~~ilvTsR~~~~  269 (591)
T 1z6t_A          198 KLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKA--------FDSQCQILLTTRDKSV  269 (591)
T ss_dssp             HHHHHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCHHHHHT--------TCSSCEEEEEESCGGG
T ss_pred             HHHHHHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCHHHHHH--------hcCCCeEEEECCCcHH
Confidence            33   4444421  1122345667777788877765  789999999998665542        2468999999999887


Q ss_pred             HhhccCCCceee---cCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHHHHcCCCChhHHHHHH
Q 043737          207 CGQMEAHKSFKV---ERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAI  283 (371)
Q Consensus       207 ~~~~~~~~~~~l---~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~~l~~~~~~~~~~~~l  283 (371)
                      ..... ...+.+   ++|+.+++.+||...++...    ....+.+.+|++.|+|+|+||.++|+.++..  ...|...+
T Consensus       270 ~~~~~-~~~~~v~~l~~L~~~ea~~L~~~~~~~~~----~~~~~~~~~i~~~~~G~PLal~~~a~~l~~~--~~~w~~~l  342 (591)
T 1z6t_A          270 TDSVM-GPKYVVPVESSLGKEKGLEILSLFVNMKK----ADLPEQAHSIIKECKGSPLVVSLIGALLRDF--PNRWEYYL  342 (591)
T ss_dssp             GTTCC-SCEEEEECCSSCCHHHHHHHHHHHHTSCG----GGSCTHHHHHHHHHTTCHHHHHHHHHHHHHS--TTCHHHHH
T ss_pred             HHhcC-CCceEeecCCCCCHHHHHHHHHHHhCCCc----ccccHHHHHHHHHhCCCcHHHHHHHHHHhcC--chhHHHHH
Confidence            65433 345555   48999999999999886532    1112358999999999999999999999864  34688888


Q ss_pred             HHHhccccc-----CCCChhHHHHHHhhccCCCCCcchhHHhchhccCCCCCccCHHHHHHHHHHcCCcccCCChHHHHH
Q 043737          284 EVLRSSAYK-----FSGMESRVFSRLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLIDCWICEGFLDEYDGFEHEIK  358 (371)
Q Consensus       284 ~~l~~~~~~-----~~~~~~~~~~~l~~s~~~L~~~~~~~~l~~la~fp~~~~i~~~~li~~w~a~g~~~~~~~~~~~~l  358 (371)
                      +.+......     .......+..++..||+.|++ ..+.||.++|+||+++.|+.+.+..+|.++      ...+..++
T Consensus       343 ~~l~~~~~~~~~~~~~~~~~~l~~~l~~s~~~L~~-~~~~~l~~la~f~~~~~i~~~~l~~l~~~~------~~~~~~~l  415 (591)
T 1z6t_A          343 KQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLRE-DIKDYYTDLSILQKDVKVPTKVLCILWDME------TEEVEDIL  415 (591)
T ss_dssp             HHHHSCCCCCSSCCCSSCCHHHHHHHHHHHHTSCT-TTHHHHHHGGGCCTTCCEEHHHHHHHHTCC------HHHHHHHH
T ss_pred             HHHHHhHHHHhhhccccchHHHHHHHHHHHHhCCH-HHHHHHHHccccCCCCccCHHHHHHHhccC------HHHHHHHH
Confidence            888765322     112235799999999999999 899999999999999999999999999643      12388999


Q ss_pred             HHHHhCcCCc
Q 043737          359 DTLLFVSFFM  368 (371)
Q Consensus       359 ~~L~~~sll~  368 (371)
                      ++|+++||++
T Consensus       416 ~~L~~~~Ll~  425 (591)
T 1z6t_A          416 QEFVNKSLLF  425 (591)
T ss_dssp             HHHHHTTSSE
T ss_pred             HHHHhCcCeE
Confidence            9999999996

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.83  E-value=2e-19  Score=165.53  Aligned_cols=278  Identities=13%  Similarity=0.055  Sum_probs=172.3

Q ss_pred             CCCCCccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcC------CHHHH
Q 043737           58 RPLPPTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDL------QLEQI  131 (371)
Q Consensus        58 ~~~~~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~------~~~~~  131 (371)
                      ...++.|+||++++++|.+++..+  +++.|+|++|+|||+|+++++++.   .     ++|+++....      +...+
T Consensus         8 ~~~~~~~~gR~~el~~L~~~l~~~--~~v~i~G~~G~GKT~Ll~~~~~~~---~-----~~~~~~~~~~~~~~~~~~~~~   77 (350)
T 2qen_A            8 KTRREDIFDREEESRKLEESLENY--PLTLLLGIRRVGKSSLLRAFLNER---P-----GILIDCRELYAERGHITREEL   77 (350)
T ss_dssp             CCSGGGSCSCHHHHHHHHHHHHHC--SEEEEECCTTSSHHHHHHHHHHHS---S-----EEEEEHHHHHHTTTCBCHHHH
T ss_pred             CCChHhcCChHHHHHHHHHHHhcC--CeEEEECCCcCCHHHHHHHHHHHc---C-----cEEEEeecccccccCCCHHHH
Confidence            334577999999999999998654  799999999999999999999875   1     6788765432      55666


Q ss_pred             HHHHHHHhccC----------------CCCCCcCCHHHHHHHHHHHhCC-CceEEEEeCCCCccc---------cccccc
Q 043737          132 QGSIAKKINLF----------------NESWNSRSLQEKSQDIVKNMSN-KKFVLLLDHIWELVD---------LSQVGL  185 (371)
Q Consensus       132 ~~~l~~~l~~~----------------~~~~~~~~~~~~~~~l~~~l~~-~~~LlVlDdv~~~~~---------~~~~~~  185 (371)
                      +..+...+...                ..........+....+.+.... ++++|||||++....         +..+..
T Consensus        78 ~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~~~~~~~~~~L~~  157 (350)
T 2qen_A           78 IKELQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGKELLALFAY  157 (350)
T ss_dssp             HHHHHHHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTTTTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCccchhhHHHHHHH
Confidence            66666654320                0000123455566666555542 489999999986543         111221


Q ss_pred             ccCCCCCCCcEEEEecCchHHHhh----------c--cCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHH
Q 043737          186 PVPCRTSASNKTVFTARELEVCGQ----------M--EAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVA  253 (371)
Q Consensus       186 ~l~~~~~~~~~iliTsR~~~~~~~----------~--~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~  253 (371)
                      ...  ...+..+++|++.......          .  .....+.+.+|+.+|+.+++...+......   ...+.+..++
T Consensus       158 ~~~--~~~~~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~~~~~~~~---~~~~~~~~i~  232 (350)
T 2qen_A          158 AYD--SLPNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFLKRGFREVNLD---VPENEIEEAV  232 (350)
T ss_dssp             HHH--HCTTEEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHHHHHHHHHHHHTTTCC---CCHHHHHHHH
T ss_pred             HHH--hcCCeEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHH
Confidence            111  1247888999887543111          0  112368999999999999998866432211   1245688999


Q ss_pred             HHcCCCcHHHHHHHHHHcCCCChhHHHHHHHHHhcccccCCCChhHHHHHHhhccCCC---CCcchhHHhchhccCCCCC
Q 043737          254 KECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSAYKFSGMESRVFSRLKISYDFL---PGDETRFYLLYCSSYPEDY  330 (371)
Q Consensus       254 ~~~~g~Plal~~~a~~l~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~l~~s~~~L---~~~~~~~~l~~la~fp~~~  330 (371)
                      +.++|+|+++..++..+....+...+..   .+..          .+...+...+..+   ++ ..+.++..+|+ .   
T Consensus       233 ~~tgG~P~~l~~~~~~~~~~~~~~~~~~---~~~~----------~~~~~~~~~l~~l~~~~~-~~~~~l~~la~-g---  294 (350)
T 2qen_A          233 ELLDGIPGWLVVFGVEYLRNGDFGRAMK---RTLE----------VAKGLIMGELEELRRRSP-RYVDILRAIAL-G---  294 (350)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCCHHHHHH---HHHH----------HHHHHHHHHHHHHHHHCH-HHHHHHHHHHT-T---
T ss_pred             HHhCCCHHHHHHHHHHHhccccHhHHHH---HHHH----------HHHHHHHHHHHHHHhCCh-hHHHHHHHHHh-C---
Confidence            9999999999999876532122222211   1111          1111111111222   55 78889998988 3   


Q ss_pred             ccCHHHHHHHHHHcCCcccCCChHHHHHHHHHhCcCCcc
Q 043737          331 KIFVEDLIDCWICEGFLDEYDGFEHEIKDTLLFVSFFMH  369 (371)
Q Consensus       331 ~i~~~~li~~w~a~g~~~~~~~~~~~~l~~L~~~sll~~  369 (371)
                      ..+...+.....+. .-.-.......+++.|.+++|+..
T Consensus       295 ~~~~~~l~~~~~~~-~~~~~~~~~~~~l~~L~~~gli~~  332 (350)
T 2qen_A          295 YNRWSLIRDYLAVK-GTKIPEPRLYALLENLKKMNWIVE  332 (350)
T ss_dssp             CCSHHHHHHHHHHT-TCCCCHHHHHHHHHHHHHTTSEEE
T ss_pred             CCCHHHHHHHHHHH-hCCCCHHHHHHHHHHHHhCCCEEe
Confidence            24556665544221 101111227889999999999864

>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=99.80  E-value=3e-18  Score=158.01  Aligned_cols=279  Identities=15%  Similarity=0.091  Sum_probs=165.3

Q ss_pred             CCCccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCc-----CCHHHHHHH
Q 043737           60 LPPTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKD-----LQLEQIQGS  134 (371)
Q Consensus        60 ~~~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~-----~~~~~~~~~  134 (371)
                      .++.||||+++++.|.+ +..   +++.|+|++|+|||+|++++++..   ..   ..+|+++...     .+...++..
T Consensus        11 ~~~~~~gR~~el~~L~~-l~~---~~v~i~G~~G~GKT~L~~~~~~~~---~~---~~~~~~~~~~~~~~~~~~~~~~~~   80 (357)
T 2fna_A           11 NRKDFFDREKEIEKLKG-LRA---PITLVLGLRRTGKSSIIKIGINEL---NL---PYIYLDLRKFEERNYISYKDFLLE   80 (357)
T ss_dssp             SGGGSCCCHHHHHHHHH-TCS---SEEEEEESTTSSHHHHHHHHHHHH---TC---CEEEEEGGGGTTCSCCCHHHHHHH
T ss_pred             CHHHhcChHHHHHHHHH-hcC---CcEEEECCCCCCHHHHHHHHHHhc---CC---CEEEEEchhhccccCCCHHHHHHH
Confidence            45779999999999999 754   699999999999999999999887   22   2578887643     344555555


Q ss_pred             HHHHhcc------------------CCCCC---------CcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc-----cc-
Q 043737          135 IAKKINL------------------FNESW---------NSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD-----LS-  181 (371)
Q Consensus       135 l~~~l~~------------------~~~~~---------~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~-----~~-  181 (371)
                      +...+..                  ..+..         ...........+.+... ++++|||||++....     +. 
T Consensus        81 l~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~-~~~vlvlDe~~~~~~~~~~~~~~  159 (357)
T 2fna_A           81 LQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASK-DNVIIVLDEAQELVKLRGVNLLP  159 (357)
T ss_dssp             HHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCS-SCEEEEEETGGGGGGCTTCCCHH
T ss_pred             HHHHHHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcCC-CCeEEEEECHHHhhccCchhHHH
Confidence            5443310                  00000         12234445555544322 489999999976432     11 


Q ss_pred             ccccccCCCCCCCcEEEEecCchHHHhh----------cc-C-CCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHH
Q 043737          182 QVGLPVPCRTSASNKTVFTARELEVCGQ----------ME-A-HKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELA  249 (371)
Q Consensus       182 ~~~~~l~~~~~~~~~iliTsR~~~~~~~----------~~-~-~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~  249 (371)
                      .+.....  ...+..+|+|++.......          .. . ...+.+.+|+.+++.+++...+....... ..    .
T Consensus       160 ~l~~~~~--~~~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~l~~~~~~~~~~~-~~----~  232 (357)
T 2fna_A          160 ALAYAYD--NLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDF-KD----Y  232 (357)
T ss_dssp             HHHHHHH--HCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCC-CC----H
T ss_pred             HHHHHHH--cCCCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHHHHHHHHHcCCCC-Cc----H
Confidence            1211111  1246789999987643211          11 1 24689999999999999988653211111 12    3


Q ss_pred             HHHHHHcCCCcHHHHHHHHHHcCCCChhHHHHHHHHHhcccccCCCChhHHHHHHhhccCCCCCcchhHHhchhccCCCC
Q 043737          250 ETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVLRSSAYKFSGMESRVFSRLKISYDFLPGDETRFYLLYCSSYPED  329 (371)
Q Consensus       250 ~~i~~~~~g~Plal~~~a~~l~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~~l~~la~fp~~  329 (371)
                      ..|++.++|+|+++..++..+....+...|..   .+-.....  .....+...+... ..+++ ..+.++..+|+ .. 
T Consensus       233 ~~i~~~t~G~P~~l~~~~~~~~~~~~~~~~~~---~~~~~~~~--~~~~~l~~~~~~~-~~l~~-~~~~~l~~la~-g~-  303 (357)
T 2fna_A          233 EVVYEKIGGIPGWLTYFGFIYLDNKNLDFAIN---QTLEYAKK--LILKEFENFLHGR-EIARK-RYLNIMRTLSK-CG-  303 (357)
T ss_dssp             HHHHHHHCSCHHHHHHHHHHHHHHCCHHHHHH---HHHHHHHH--HHHHHHHHHHTTC-GGGHH-HHHHHHHHHTT-CB-
T ss_pred             HHHHHHhCCCHHHHHHHHHHHccccchHHHHH---HHHHHHHH--HHHHHHHHHhhcc-ccccH-HHHHHHHHHHc-CC-
Confidence            88999999999999999887653233333322   11110000  0001122111111 15777 78899999998 32 


Q ss_pred             CccCHHHHHHHHH-HcCCcccCCChHHHHHHHHHhCcCCcc
Q 043737          330 YKIFVEDLIDCWI-CEGFLDEYDGFEHEIKDTLLFVSFFMH  369 (371)
Q Consensus       330 ~~i~~~~li~~w~-a~g~~~~~~~~~~~~l~~L~~~sll~~  369 (371)
                         +...|....- ..|. .-.......+++.|.+++|+..
T Consensus       304 ---~~~~l~~~~~~~~g~-~~~~~~~~~~L~~L~~~gli~~  340 (357)
T 2fna_A          304 ---KWSDVKRALELEEGI-EISDSEIYNYLTQLTKHSWIIK  340 (357)
T ss_dssp             ---CHHHHHHHHHHHHCS-CCCHHHHHHHHHHHHHTTSEEE
T ss_pred             ---CHHHHHHHHHHhcCC-CCCHHHHHHHHHHHHhCCCEEe
Confidence               4555543221 1231 0111227889999999999854

>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=99.80  E-value=1.8e-18  Score=162.82  Aligned_cols=295  Identities=13%  Similarity=0.039  Sum_probs=181.6

Q ss_pred             CCCccccchhHHHHHHHHH-hc------CCceEEEE--EcCCCCcHHHHHHHHHhhccCC--CCCC-CeEEEEEeCCcCC
Q 043737           60 LPPTVVGLQSTFDRVWRCL-ME------EQMGIVGL--YGMGEVGKTTLLTQINKKFLHT--PNDF-DFVIWVVASKDLQ  127 (371)
Q Consensus        60 ~~~~~vGR~~~~~~l~~~L-~~------~~~~~v~I--~G~~GiGKTtLa~~~~~~~~~~--~~~f-~~~~wv~~~~~~~  127 (371)
                      .+..|+||+.++++|.+++ ..      ...+.+.|  +|++|+|||+|++.+++.....  ...+ ..++|+++....+
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            4578999999999999988 42      24567888  9999999999999999886210  0012 2467888767778


Q ss_pred             HHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhC--CCceEEEEeCCCCccc--------ccccccccCCCC--C--C
Q 043737          128 LEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMS--NKKFVLLLDHIWELVD--------LSQVGLPVPCRT--S--A  193 (371)
Q Consensus       128 ~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~--~~~~LlVlDdv~~~~~--------~~~~~~~l~~~~--~--~  193 (371)
                      ...++..++..++...+. ...+.......+...+.  +++++|||||++....        +..+...+....  .  .
T Consensus       100 ~~~~~~~l~~~l~~~~~~-~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~~  178 (412)
T 1w5s_A          100 LYTILSLIVRQTGYPIQV-RGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVN  178 (412)
T ss_dssp             HHHHHHHHHHHHTCCCCC-TTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCC
T ss_pred             HHHHHHHHHHHhCCCCCC-CCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhcccCCCCc
Confidence            889999999998764321 23345556666666664  6789999999976422        221211111011  2  4


Q ss_pred             CcEEEEecCchHHHhhc--------c-CCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcC------C
Q 043737          194 SNKTVFTARELEVCGQM--------E-AHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECG------G  258 (371)
Q Consensus       194 ~~~iliTsR~~~~~~~~--------~-~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~------g  258 (371)
                      +..+|+||+...+...+        . ....+.+++|+.+++.++|...+.... .......+.+..+++.++      |
T Consensus       179 ~v~lI~~~~~~~~~~~l~~~~~~~~~~~~~~i~l~~l~~~e~~~ll~~~~~~~~-~~~~~~~~~~~~i~~~~~~~~~~~G  257 (412)
T 1w5s_A          179 RIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGL-RDTVWEPRHLELISDVYGEDKGGDG  257 (412)
T ss_dssp             BEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHB-CTTSCCHHHHHHHHHHHCGGGTSCC
T ss_pred             eEEEEEEeccccHHHHHhhhcchhhhhcCCeeeeCCCCHHHHHHHHHHHHHhcC-CCCCCChHHHHHHHHHHHHhccCCC
Confidence            55677788754432111        1 122389999999999999976643111 111223566889999999      9


Q ss_pred             CcHHHHHHHHHHc-----CCC---ChhHHHHHHHHHhcccccCCCChhHHHHHHhhccCCCCCcchhHHhchhccCC--C
Q 043737          259 LPLALITVGRAMA-----SKK---TPREWEHAIEVLRSSAYKFSGMESRVFSRLKISYDFLPGDETRFYLLYCSSYP--E  328 (371)
Q Consensus       259 ~Plal~~~a~~l~-----~~~---~~~~~~~~l~~l~~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~~l~~la~fp--~  328 (371)
                      +|..+..++....     ...   +...+.........            ...+..++..|++ ..+.++..++.+.  .
T Consensus       258 ~p~~~~~l~~~a~~~a~~~~~~~i~~~~v~~~~~~~~~------------~~~~~~~l~~l~~-~~~~~l~aia~l~~~~  324 (412)
T 1w5s_A          258 SARRAIVALKMACEMAEAMGRDSLSEDLVRKAVSENEA------------ASIQTHELEALSI-HELIILRLIAEATLGG  324 (412)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHC------------------CCSSSSSCH-HHHHHHHHHHHHHHTT
T ss_pred             cHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhc------------cchHHHHHHcCCH-HHHHHHHHHHHHHhcC
Confidence            9976655543321     111   22233322221100            2345567788988 7888888888653  3


Q ss_pred             CCccCHHHHHHHHH--H---cCCcccCCChHHHHHHHHHhCcCCcc
Q 043737          329 DYKIFVEDLIDCWI--C---EGFLDEYDGFEHEIKDTLLFVSFFMH  369 (371)
Q Consensus       329 ~~~i~~~~li~~w~--a---~g~~~~~~~~~~~~l~~L~~~sll~~  369 (371)
                      +..++...+...+.  +   .|.-.-.......++++|.+.+|+..
T Consensus       325 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~~gli~~  370 (412)
T 1w5s_A          325 MEWINAGLLRQRYEDASLTMYNVKPRGYTQYHIYLKHLTSLGLVDA  370 (412)
T ss_dssp             CSSBCHHHHHHHHHHHHHHHSCCCCCCHHHHHHHHHHHHHTTSEEE
T ss_pred             CCCccHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhCCCEEe
Confidence            34566666655442  1   13211111227789999999999854

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.71  E-value=6.1e-16  Score=144.11  Aligned_cols=291  Identities=14%  Similarity=0.080  Sum_probs=180.8

Q ss_pred             CCCccccchhHHHHHHHHHhc----CCceEEEEEcCCCCcHHHHHHHHHhhccCCC---CCCCeEEEEEeCCcCCHHHHH
Q 043737           60 LPPTVVGLQSTFDRVWRCLME----EQMGIVGLYGMGEVGKTTLLTQINKKFLHTP---NDFDFVIWVVASKDLQLEQIQ  132 (371)
Q Consensus        60 ~~~~~vGR~~~~~~l~~~L~~----~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~---~~f~~~~wv~~~~~~~~~~~~  132 (371)
                      .|+.|+||+.+++++..++..    ...+.+.|+|++|+|||+||+.+++......   .....++|+++....+...++
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            347899999999999998853    4567899999999999999999998762110   112357788888888889999


Q ss_pred             HHHHHHhccCCCCCCcCCHHHHHHHHHHHhC--CCceEEEEeCCCCcccc----cccccccCCC---C-CCCcEEEEecC
Q 043737          133 GSIAKKINLFNESWNSRSLQEKSQDIVKNMS--NKKFVLLLDHIWELVDL----SQVGLPVPCR---T-SASNKTVFTAR  202 (371)
Q Consensus       133 ~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~--~~~~LlVlDdv~~~~~~----~~~~~~l~~~---~-~~~~~iliTsR  202 (371)
                      ..++..++...+. ...+..+....+...+.  +++.+||||+++....-    +.+...+.+.   . ..+..+|+||+
T Consensus        97 ~~l~~~l~~~~~~-~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~~~~~~~I~~t~  175 (387)
T 2v1u_A           97 SAIAEAVGVRVPF-TGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLVGITN  175 (387)
T ss_dssp             HHHHHHHSCCCCS-SCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----CEEEEECS
T ss_pred             HHHHHHhCCCCCC-CCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcCCCceEEEEEEEC
Confidence            9999998764332 34456666677777664  46889999999864321    2221111101   1 44667777776


Q ss_pred             chHH--------HhhccCCCceeecCCChHHHHHHHHHHhCC--CCCCCCCCHHHHHHHHHHHcC---CCcHHHHHHHHH
Q 043737          203 ELEV--------CGQMEAHKSFKVERLGYEDAWKLFEEKVGK--EILDSHPDIPELAETVAKECG---GLPLALITVGRA  269 (371)
Q Consensus       203 ~~~~--------~~~~~~~~~~~l~~L~~~ea~~ll~~~~~~--~~~~~~~~~~~~~~~i~~~~~---g~Plal~~~a~~  269 (371)
                      ....        ...+ ....+.+++++.++..+++...+..  .....+++   .++.+++.++   |.|..+..+...
T Consensus       176 ~~~~~~~l~~~l~~r~-~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~---~~~~l~~~~~~~~G~~r~~~~~l~~  251 (387)
T 2v1u_A          176 SLGFVENLEPRVKSSL-GEVELVFPPYTAPQLRDILETRAEEAFNPGVLDPD---VVPLCAALAAREHGDARRALDLLRV  251 (387)
T ss_dssp             CSTTSSSSCHHHHTTT-TSEECCBCCCCHHHHHHHHHHHHHHHBCTTTBCSS---HHHHHHHHHHSSSCCHHHHHHHHHH
T ss_pred             CCchHhhhCHHHHhcC-CCeEEeeCCCCHHHHHHHHHHHHHhhccCCCCCHH---HHHHHHHHHHHhccCHHHHHHHHHH
Confidence            6422        1111 1147899999999999999987532  11122333   3777888888   999433332222


Q ss_pred             -H---c--CC--CChhHHHHHHHHHhcccccCCCChhHHHHHHhhccCCCCCcchhHHhchhc-cCCCCCccCHHHHHHH
Q 043737          270 -M---A--SK--KTPREWEHAIEVLRSSAYKFSGMESRVFSRLKISYDFLPGDETRFYLLYCS-SYPEDYKIFVEDLIDC  340 (371)
Q Consensus       270 -l---~--~~--~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~~l~~la-~fp~~~~i~~~~li~~  340 (371)
                       .   .  +.  -+.+.+...+....             ...+..++..|++ ..+.++..++ ++.....+....+.+.
T Consensus       252 a~~~a~~~~~~~i~~~~v~~a~~~~~-------------~~~~~~~~~~l~~-~~~~~l~a~~~~~~~~~~~~~~~~~~~  317 (387)
T 2v1u_A          252 AGEIAERRREERVRREHVYSARAEIE-------------RDRVSEVVRTLPL-HAKLVLLSIMMLEDGGRPASTGEIYER  317 (387)
T ss_dssp             HHHHHHHTTCSCBCHHHHHHHHHHHH-------------HHHHHHHHHSSCH-HHHHHHHHHHHHSSSSCCEEHHHHHHH
T ss_pred             HHHHHHHcCCCCcCHHHHHHHHHHHh-------------hchHHHHHHcCCH-HHHHHHHHHHHHhcCCCCCcHHHHHHH
Confidence             1   1  11  24455555554432             1235556778888 6666666555 4443345666644444


Q ss_pred             HHH----cCCcccCCChHHHHHHHHHhCcCCcc
Q 043737          341 WIC----EGFLDEYDGFEHEIKDTLLFVSFFMH  369 (371)
Q Consensus       341 w~a----~g~~~~~~~~~~~~l~~L~~~sll~~  369 (371)
                      ...    .|...........+++.|...|++..
T Consensus       318 ~~~~~~~~~~~~~~~~~~~~~l~~L~~~gli~~  350 (387)
T 2v1u_A          318 YKELTSTLGLEHVTLRRVSGIISELDMLGIVKS  350 (387)
T ss_dssp             HHHHHHHTTCCCCCHHHHHHHHHHHHHTTSEEE
T ss_pred             HHHHHHhcCCCCCCHHHHHHHHHHHHhCCCeEE
Confidence            322    34212122238889999999998753

>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=99.71  E-value=5.4e-16  Score=144.50  Aligned_cols=288  Identities=15%  Similarity=0.011  Sum_probs=179.1

Q ss_pred             CCccccchhHHHHHHHHHhc----CCceEEEEEcCCCCcHHHHHHHHHhhccCC----CCC-CCeEEEEEeCCcC-CHHH
Q 043737           61 PPTVVGLQSTFDRVWRCLME----EQMGIVGLYGMGEVGKTTLLTQINKKFLHT----PND-FDFVIWVVASKDL-QLEQ  130 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~----~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~----~~~-f~~~~wv~~~~~~-~~~~  130 (371)
                      |..|+||+.+++++.+++..    ...+.+.|+|++|+|||+||+.+++.....    ... ...++|+++.... +...
T Consensus        19 p~~l~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~   98 (384)
T 2qby_B           19 FKEIPFREDILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQA   98 (384)
T ss_dssp             CSSCTTCHHHHHHHHHHHHHHHTTCCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHHHHCSCHHH
T ss_pred             CCCCCChHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECccCCCCHHH
Confidence            37899999999999887754    346789999999999999999999876211    011 3467888877666 7888


Q ss_pred             HHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc---ccc-cccccCCCCCCCcEEEEecCchHH
Q 043737          131 IQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD---LSQ-VGLPVPCRTSASNKTVFTARELEV  206 (371)
Q Consensus       131 ~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~---~~~-~~~~l~~~~~~~~~iliTsR~~~~  206 (371)
                      ++..++..+..................+...+..++.+|||||++....   .+. +...+. .. .+..+|+||+....
T Consensus        99 ~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~vlilDEi~~l~~~~~~~~~l~~l~~-~~-~~~~iI~~t~~~~~  176 (384)
T 2qby_B           99 VLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRRGGDIVLYQLLR-SD-ANISVIMISNDINV  176 (384)
T ss_dssp             HHHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSSCEEEEEETTHHHHHSTTSHHHHHHHHT-SS-SCEEEEEECSSTTT
T ss_pred             HHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccCCCEEEEECHHHhccCCCCceeHHHHhc-CC-cceEEEEEECCCch
Confidence            8888888873322222344456677778888877666999999976432   222 222222 22 67788888886532


Q ss_pred             H----hhc--cCCCceeecCCChHHHHHHHHHHhCC--CCCCCCCCHHHHHHHHHHHcC---CCcH-HHHHHHHH--HcC
Q 043737          207 C----GQM--EAHKSFKVERLGYEDAWKLFEEKVGK--EILDSHPDIPELAETVAKECG---GLPL-ALITVGRA--MAS  272 (371)
Q Consensus       207 ~----~~~--~~~~~~~l~~L~~~ea~~ll~~~~~~--~~~~~~~~~~~~~~~i~~~~~---g~Pl-al~~~a~~--l~~  272 (371)
                      .    ...  .....+.+++++.++..+++...+..  .....+   .+.++.+++.++   |.|. ++..+-..  +..
T Consensus       177 ~~~l~~~l~sr~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~---~~~~~~i~~~~~~~~G~~r~a~~~l~~a~~~a~  253 (384)
T 2qby_B          177 RDYMEPRVLSSLGPSVIFKPYDAEQLKFILSKYAEYGLIKGTYD---DEILSYIAAISAKEHGDARKAVNLLFRAAQLAS  253 (384)
T ss_dssp             TTTSCHHHHHTCCCEEEECCCCHHHHHHHHHHHHHHTSCTTSCC---SHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHTT
T ss_pred             HhhhCHHHHhcCCCeEEECCCCHHHHHHHHHHHHHhhcccCCcC---HHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhc
Confidence            1    100  11238999999999999999987631  111122   344778888888   9887 43333222  221


Q ss_pred             ---CCChhHHHHHHHHHhcccccCCCChhHHHHHHhhccCCCCCcchhHHhchhccCCCC-CccCHHHHHHHHHHcCCcc
Q 043737          273 ---KKTPREWEHAIEVLRSSAYKFSGMESRVFSRLKISYDFLPGDETRFYLLYCSSYPED-YKIFVEDLIDCWICEGFLD  348 (371)
Q Consensus       273 ---~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~~l~~la~fp~~-~~i~~~~li~~w~a~g~~~  348 (371)
                         .-+.+.+...++....             ..+..++..|++ ..+.++..++. ... ..+. +.....--..|...
T Consensus       254 ~~~~i~~~~v~~~~~~~~~-------------~~~~~~~~~l~~-~~~~~l~al~~-~~~~~~~~-~~~~~~~~~~g~~~  317 (384)
T 2qby_B          254 GGGIIRKEHVDKAIVDYEQ-------------ERLIEAVKALPF-HYKLALRSLIE-SEDVMSAH-KMYTDLCNKFKQKP  317 (384)
T ss_dssp             SSSCCCHHHHHHHHHHHHH-------------HHHHHHHHSSCH-HHHHHHHHHHT-CCBHHHHH-HHHHHHHHHTTCCC
T ss_pred             CCCccCHHHHHHHHHHHhc-------------chHHHHHHcCCH-HHHHHHHHHHH-hcccChHH-HHHHHHHHHcCCCC
Confidence               1245666665554321             335566777887 67777776766 211 1111 11122211234222


Q ss_pred             cCCChHHHHHHHHHhCcCCcc
Q 043737          349 EYDGFEHEIKDTLLFVSFFMH  369 (371)
Q Consensus       349 ~~~~~~~~~l~~L~~~sll~~  369 (371)
                      .......++++.|.++||+..
T Consensus       318 ~~~~~~~~~l~~L~~~gli~~  338 (384)
T 2qby_B          318 LSYRRFSDIISELDMFGIVKI  338 (384)
T ss_dssp             CCHHHHHHHHHHHHHTTSEEE
T ss_pred             CCHHHHHHHHHHHHhCCCEEE
Confidence            222238889999999998753

>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=99.69  E-value=1.4e-15  Score=141.83  Aligned_cols=290  Identities=13%  Similarity=0.076  Sum_probs=181.7

Q ss_pred             CCccccchhHHHHHHHHHhc----CCce--EEEEEcCCCCcHHHHHHHHHhhccCCCCC-CCeEEEEEeCCcCCHHHHHH
Q 043737           61 PPTVVGLQSTFDRVWRCLME----EQMG--IVGLYGMGEVGKTTLLTQINKKFLHTPND-FDFVIWVVASKDLQLEQIQG  133 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~----~~~~--~v~I~G~~GiGKTtLa~~~~~~~~~~~~~-f~~~~wv~~~~~~~~~~~~~  133 (371)
                      |+.++||+.+++++..++..    ....  .+.|+|++|+|||||++.+++..   ... -..++++++....+...++.
T Consensus        16 p~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~---~~~~~~~~~~i~~~~~~~~~~~~~   92 (389)
T 1fnn_A           16 PKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELY---KDKTTARFVYINGFIYRNFTAIIG   92 (389)
T ss_dssp             CSCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHH---TTSCCCEEEEEETTTCCSHHHHHH
T ss_pred             CCCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHH---hhhcCeeEEEEeCccCCCHHHHHH
Confidence            47899999999999998865    2334  89999999999999999999887   222 23677888877778889999


Q ss_pred             HHHHHhccCCCCCCcCCHHHHHHHHHHHhC--CCceEEEEeCCCCcc--cccccccccCCCCC---CCcEEEEecCchHH
Q 043737          134 SIAKKINLFNESWNSRSLQEKSQDIVKNMS--NKKFVLLLDHIWELV--DLSQVGLPVPCRTS---ASNKTVFTARELEV  206 (371)
Q Consensus       134 ~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~--~~~~LlVlDdv~~~~--~~~~~~~~l~~~~~---~~~~iliTsR~~~~  206 (371)
                      .++..++...+. ...........+...+.  +++.+||||+++...  .+..+...+.....   .+..+|++|+...+
T Consensus        93 ~l~~~l~~~~~~-~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~~~iI~~~~~~~~  171 (389)
T 1fnn_A           93 EIARSLNIPFPR-RGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAV  171 (389)
T ss_dssp             HHHHHTTCCCCS-SCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHH
T ss_pred             HHHHHhCccCCC-CCCCHHHHHHHHHHHHhhcCCeEEEEEECccccchHHHHHHHHHHHhCCCCCcCCEEEEEEECCchH
Confidence            999888654322 33345566666655553  568899999997652  22223222220111   46677777766533


Q ss_pred             Hhhcc-------CCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHc---------CCCcHHHHHHHHHH
Q 043737          207 CGQME-------AHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKEC---------GGLPLALITVGRAM  270 (371)
Q Consensus       207 ~~~~~-------~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~---------~g~Plal~~~a~~l  270 (371)
                      .....       ....+.+++++.++..+++...+.... ....-..+.++.+++.+         +|.|..+..+....
T Consensus       172 ~~~l~~~~~~r~~~~~i~~~pl~~~~~~~~l~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~~~G~~r~~~~~l~~a  250 (389)
T 1fnn_A          172 LNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGL-AEGSYSEDILQMIADITGAQTPLDTNRGDARLAIDILYRS  250 (389)
T ss_dssp             HHTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHB-CTTSSCHHHHHHHHHHHSBSSTTCTTSCCHHHHHHHHHHH
T ss_pred             HHHhCHHhhhcCCCceEEeCCCCHHHHHHHHHHHHHhhc-CCCCCCHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHHHH
Confidence            22111       123689999999999999988764211 01122346688899999         79876555444322


Q ss_pred             c------CC--CChhHHHHHHHHHhcccccCCCChhHHHHHHhhccCCCCCcchhHHhchhccCC---CCCccCHHHHHH
Q 043737          271 A------SK--KTPREWEHAIEVLRSSAYKFSGMESRVFSRLKISYDFLPGDETRFYLLYCSSYP---EDYKIFVEDLID  339 (371)
Q Consensus       271 ~------~~--~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~~l~~la~fp---~~~~i~~~~li~  339 (371)
                      .      ..  -+.+...........             ..+...+..|++ ..+.++..++.+.   .+..+....+..
T Consensus       251 ~~~a~~~~~~~i~~~~v~~~~~~~~~-------------~~~~~~l~~l~~-~~~~~L~~l~~~~~~~~~~~~~~~~i~~  316 (389)
T 1fnn_A          251 AYAAQQNGRKHIAPEDVRKSSKEVLF-------------GISEEVLIGLPL-HEKLFLLAIVRSLKISHTPYITFGDAEE  316 (389)
T ss_dssp             HHHHHHTTCSSCCHHHHHHHHHHHSC-------------CCCHHHHHHSCH-HHHHHHHHHHHHHHHHCSSCEEHHHHHH
T ss_pred             HHHHHHhCCCCcCHHHHHHHHHHHhh-------------hhHHHHHHcCCH-HHHHHHHHHHHHHhhccCCCccHHHHHH
Confidence            1      11  122333333322211             112223455776 6777777777654   222566677766


Q ss_pred             HHHH----cCCcccCCChHHHHHHHHHhCcCCcc
Q 043737          340 CWIC----EGFLDEYDGFEHEIKDTLLFVSFFMH  369 (371)
Q Consensus       340 ~w~a----~g~~~~~~~~~~~~l~~L~~~sll~~  369 (371)
                      .+-.    .|...-......+++++|.+++|+..
T Consensus       317 ~~~~~~~~~~~~~~~~~~~~~~l~~L~~~gli~~  350 (389)
T 1fnn_A          317 SYKIVCEEYGERPRVHSQLWSYLNDLREKGIVET  350 (389)
T ss_dssp             HHHHHHHHTTCCCCCHHHHHHHHHHHHHTTSSEE
T ss_pred             HHHHHHHHcCCCCCCHHHHHHHHHHHHhCCCeEE
Confidence            5543    24322222338899999999999864

>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=99.68  E-value=5.6e-16  Score=144.24  Aligned_cols=293  Identities=12%  Similarity=0.102  Sum_probs=174.9

Q ss_pred             CCCccccchhHHHHHHHHHhc----CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHH
Q 043737           60 LPPTVVGLQSTFDRVWRCLME----EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSI  135 (371)
Q Consensus        60 ~~~~~vGR~~~~~~l~~~L~~----~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l  135 (371)
                      .+..|+||+.+++.+.+++..    ...+.+.|+|++|+|||||++.+++...........++|+++....+...++..+
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            457899999999999998863    4467899999999999999999998762111102357788877666777888888


Q ss_pred             HHHhccCCCCCCcCCHHHHHHHHHHHhC--CCceEEEEeCCCCccc------ccccccccCCCCCCCcEEEEecCchHHH
Q 043737          136 AKKINLFNESWNSRSLQEKSQDIVKNMS--NKKFVLLLDHIWELVD------LSQVGLPVPCRTSASNKTVFTARELEVC  207 (371)
Q Consensus       136 ~~~l~~~~~~~~~~~~~~~~~~l~~~l~--~~~~LlVlDdv~~~~~------~~~~~~~l~~~~~~~~~iliTsR~~~~~  207 (371)
                      +..++...+. ...+..+....+...+.  +++.+||||+++....      +..+...+......+..+|+||+.....
T Consensus        98 ~~~l~~~~~~-~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~~~~~I~~~~~~~~~  176 (386)
T 2qby_A           98 LESLDVKVPF-TGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITNDVKFV  176 (386)
T ss_dssp             TTTTSCCCCS-SSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC--EEEEEEESCGGGG
T ss_pred             HHHhCCCCCC-CCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcCCCeEEEEEEECCCChH
Confidence            8877654322 33345565666666554  4589999999975421      2222111210123456677777755321


Q ss_pred             hhc-----c--CCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcC---CCcHHHHHHHHHHc------
Q 043737          208 GQM-----E--AHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECG---GLPLALITVGRAMA------  271 (371)
Q Consensus       208 ~~~-----~--~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~---g~Plal~~~a~~l~------  271 (371)
                      ..+     .  ....+.+++++.++..+++...+.... .......+..+.+++.++   |.|..+..+.....      
T Consensus       177 ~~~~~~~~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~G~~r~~~~ll~~a~~~a~~~  255 (386)
T 2qby_A          177 DLLDPRVKSSLSEEEIIFPPYNAEELEDILTKRAQMAF-KPGVLPDNVIKLCAALAAREHGDARRALDLLRVSGEIAERM  255 (386)
T ss_dssp             GGCTTHHHHTTTTEEEEECCCCHHHHHHHHHHHHHHHB-CSSCSCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHT
T ss_pred             hhhCHHHhccCCCeeEEeCCCCHHHHHHHHHHHHHhhc-cCCCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhc
Confidence            111     1  124789999999999999988653111 111223455777888887   99984443332221      


Q ss_pred             C--CCChhHHHHHHHHHhcccccCCCChhHHHHHHhhccCCCCCcchhHHhchhccCC--CCCccCHHHHHHHHH----H
Q 043737          272 S--KKTPREWEHAIEVLRSSAYKFSGMESRVFSRLKISYDFLPGDETRFYLLYCSSYP--EDYKIFVEDLIDCWI----C  343 (371)
Q Consensus       272 ~--~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~~l~~la~fp--~~~~i~~~~li~~w~----a  343 (371)
                      .  .-+.+.+..++....             ...+..++..+++ ..+.++..++.+.  ....+....+.+...    .
T Consensus       256 ~~~~i~~~~v~~a~~~~~-------------~~~~~~~~~~l~~-~~~~il~ai~~~~~~g~~~~~~~~l~~~~~~~~~~  321 (386)
T 2qby_A          256 KDTKVKEEYVYMAKEEIE-------------RDRVRDIILTLPF-HSKLVLMAVVSISSEENVVSTTGAVYETYLNICKK  321 (386)
T ss_dssp             TCSSCCHHHHHHHHHHHH-------------HHHHHHHHHTSCH-HHHHHHHHHHHHC-----CEEHHHHHHHHHHHHHH
T ss_pred             CCCccCHHHHHHHHHHHh-------------hchHHHHHHcCCH-HHHHHHHHHHHHHhcCCCceeHHHHHHHHHHHHHh
Confidence            1  124445554444322             2345556677877 6677766666321  112344544433221    1


Q ss_pred             cCCcccCCChHHHHHHHHHhCcCCc
Q 043737          344 EGFLDEYDGFEHEIKDTLLFVSFFM  368 (371)
Q Consensus       344 ~g~~~~~~~~~~~~l~~L~~~sll~  368 (371)
                      .|.-.-.......+++.|.+.|++.
T Consensus       322 ~g~~~~~~~~~~~~l~~L~~~gli~  346 (386)
T 2qby_A          322 LGVEAVTQRRVSDIINELDMVGILT  346 (386)
T ss_dssp             HTCCCCCHHHHHHHHHHHHHHTSEE
T ss_pred             cCCCCCCHHHHHHHHHHHHhCCCEE
Confidence            2421111123788999999999875

>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=99.53  E-value=1.2e-13  Score=119.78  Aligned_cols=198  Identities=15%  Similarity=0.146  Sum_probs=116.6

Q ss_pred             CccccchhHHHHHHHHHhcCC-ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhc
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQ-MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKIN  140 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~  140 (371)
                      ..++||+.+++.|..++..+. .+.+.|+|++|+|||+||+.+++.... ...+..   ....   .... ...+.....
T Consensus        23 ~~~~g~~~~~~~l~~~l~~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~~-~~~~~~---~~~~---~~~~-~~~~~~~~~   94 (250)
T 1njg_A           23 ADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNC-ETGITA---TPCG---VCDN-CREIEQGRF   94 (250)
T ss_dssp             GGCCSCHHHHHHHHHHHHHTCCCSEEEEECSTTSCHHHHHHHHHHHHHC-TTCSCS---SCCS---CSHH-HHHHHTTCC
T ss_pred             HHHhCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcC-CCCCCC---CCCc---ccHH-HHHHhccCC
Confidence            569999999999999997643 458999999999999999999988731 111100   0000   0000 000100000


Q ss_pred             cC--CCCCCcCCHHHHHHHHHHHh-----CCCceEEEEeCCCCc--ccccccccccCCCCCCCcEEEEecCchHH-Hh-h
Q 043737          141 LF--NESWNSRSLQEKSQDIVKNM-----SNKKFVLLLDHIWEL--VDLSQVGLPVPCRTSASNKTVFTARELEV-CG-Q  209 (371)
Q Consensus       141 ~~--~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~~~~~~~~l~~~~~~~~~iliTsR~~~~-~~-~  209 (371)
                      ..  ...............+...+     .+++.+|||||++..  ..++.+...+. ....+..+|+||+.... .. .
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlviDe~~~l~~~~~~~l~~~l~-~~~~~~~~i~~t~~~~~~~~~l  173 (250)
T 1njg_A           95 VDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLE-EPPEHVKFLLATTDPQKLPVTI  173 (250)
T ss_dssp             SSEEEEETTCGGGHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHH-SCCTTEEEEEEESCGGGSCHHH
T ss_pred             cceEEecCcccccHHHHHHHHHHhhhchhcCCceEEEEECcccccHHHHHHHHHHHh-cCCCceEEEEEeCChHhCCHHH
Confidence            00  00000001111222222222     246789999999764  23344433333 33456778887765432 11 1


Q ss_pred             ccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHHHHc
Q 043737          210 MEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAMA  271 (371)
Q Consensus       210 ~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~~l~  271 (371)
                      ......+.+++++.++..+++...+.......   ..+.++.|++.++|+|..+..+...+.
T Consensus       174 ~~r~~~i~l~~l~~~e~~~~l~~~~~~~~~~~---~~~~~~~l~~~~~G~~~~~~~~~~~~~  232 (250)
T 1njg_A          174 LSRCLQFHLKALDVEQIRHQLEHILNEEHIAH---EPRALQLLARAAEGSLRDALSLTDQAI  232 (250)
T ss_dssp             HTTSEEEECCCCCHHHHHHHHHHHHHHTTCCB---CHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHhhhccCCCCCHHHHHHHHHHHHHhcCCCC---CHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            12346789999999999999998774332111   245688999999999999888776543

>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=99.50  E-value=1.5e-13  Score=117.52  Aligned_cols=186  Identities=16%  Similarity=0.080  Sum_probs=116.5

Q ss_pred             CccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhcc
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINL  141 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~  141 (371)
                      ..++||+..++.+.+++.....+.+.|+|++|+|||+||+.+++... ........+.++.+...+...+...+......
T Consensus        17 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (226)
T 2chg_A           17 DEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLF-GENWRDNFIEMNASDERGIDVVRHKIKEFART   95 (226)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTCCCCEEEECSTTSSHHHHHHHHHHHHH-GGGGGGGEEEEETTCTTCHHHHHHHHHHHHTS
T ss_pred             HHHcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHh-ccccccceEEeccccccChHHHHHHHHHHhcc
Confidence            56899999999999999776555699999999999999999998752 11111123444444433333332222221111


Q ss_pred             CCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCcc--cccccccccCCCCCCCcEEEEecCchHH-Hh-hccCCCcee
Q 043737          142 FNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELV--DLSQVGLPVPCRTSASNKTVFTARELEV-CG-QMEAHKSFK  217 (371)
Q Consensus       142 ~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~--~~~~~~~~l~~~~~~~~~iliTsR~~~~-~~-~~~~~~~~~  217 (371)
                      ..                 ...+++.+|||||++...  ..+.+...+. ....++.+|+||+.... .. .......+.
T Consensus        96 ~~-----------------~~~~~~~vliiDe~~~l~~~~~~~l~~~l~-~~~~~~~~i~~~~~~~~~~~~l~~r~~~i~  157 (226)
T 2chg_A           96 AP-----------------IGGAPFKIIFLDEADALTADAQAALRRTME-MYSKSCRFILSCNYVSRIIEPIQSRCAVFR  157 (226)
T ss_dssp             CC-----------------STTCSCEEEEEETGGGSCHHHHHHHHHHHH-HTTTTEEEEEEESCGGGSCHHHHTTSEEEE
T ss_pred             cC-----------------CCccCceEEEEeChhhcCHHHHHHHHHHHH-hcCCCCeEEEEeCChhhcCHHHHHhCceee
Confidence            00                 012567899999998652  2333333333 33456778888776431 11 112334789


Q ss_pred             ecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHHH
Q 043737          218 VERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRA  269 (371)
Q Consensus       218 l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~~  269 (371)
                      +.+++.++..+++...+......   -..+..+.+++.++|+|..+..+...
T Consensus       158 ~~~~~~~~~~~~l~~~~~~~~~~---~~~~~~~~l~~~~~g~~r~l~~~l~~  206 (226)
T 2chg_A          158 FKPVPKEAMKKRLLEICEKEGVK---ITEDGLEALIYISGGDFRKAINALQG  206 (226)
T ss_dssp             CCCCCHHHHHHHHHHHHHHHTCC---BCHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             cCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            99999999999998876432211   12456788999999999965554443

>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=99.42  E-value=2.1e-12  Score=117.30  Aligned_cols=268  Identities=12%  Similarity=0.030  Sum_probs=143.6

Q ss_pred             CCccccchhHHHHHHHHHhc-----CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHH
Q 043737           61 PPTVVGLQSTFDRVWRCLME-----EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSI  135 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~-----~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l  135 (371)
                      -..|+|++..+..+..++..     ...+.+.|+|++|+|||+||+.+++..   ...   .++++.+......++..  
T Consensus        11 ~~~~ig~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~i~~~~---~~~---~~~~~~~~~~~~~~l~~--   82 (324)
T 1hqc_A           11 LDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHEL---GVN---LRVTSGPAIEKPGDLAA--   82 (324)
T ss_dssp             TTTCCSCHHHHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCHHHHHHHHHHH---TCC---EEEECTTTCCSHHHHHH--
T ss_pred             HHHhhCHHHHHHHHHHHHHHHHccCCCCCcEEEECCCCCCHHHHHHHHHHHh---CCC---EEEEeccccCChHHHHH--
Confidence            36799999999998888753     244688999999999999999999887   222   33444433322222211  


Q ss_pred             HHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc--ccccccccC---------C-C-------CCCCcE
Q 043737          136 AKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD--LSQVGLPVP---------C-R-------TSASNK  196 (371)
Q Consensus       136 ~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~--~~~~~~~l~---------~-~-------~~~~~~  196 (371)
                        .+                   ... ..++.+|+||+++....  ...+...+.         . .       ...+..
T Consensus        83 --~l-------------------~~~-~~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~  140 (324)
T 1hqc_A           83 --IL-------------------ANS-LEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFT  140 (324)
T ss_dssp             --HH-------------------TTT-CCTTCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCCCE
T ss_pred             --HH-------------------HHh-ccCCCEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCCCCEE
Confidence              11                   100 13456999999986531  111110000         0 0       012345


Q ss_pred             EEEecCchH-HHhhc-cC-CCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHHHHcCC
Q 043737          197 TVFTARELE-VCGQM-EA-HKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAMASK  273 (371)
Q Consensus       197 iliTsR~~~-~~~~~-~~-~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~~l~~~  273 (371)
                      ++.||.... +...+ .. ...+.+.+++.++..+++...+......   -..+..+.+++.++|+|..+..+...+...
T Consensus       141 ~i~~t~~~~~~~~~l~~R~~~~i~l~~~~~~e~~~~l~~~~~~~~~~---~~~~~~~~l~~~~~G~~r~l~~~l~~~~~~  217 (324)
T 1hqc_A          141 LIGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGVR---ITEEAALEIGRRSRGTMRVAKRLFRRVRDF  217 (324)
T ss_dssp             EEEEESCCSSCSCSTTTTCSCEEECCCCCHHHHHHHHHHHHHTTTCC---CCHHHHHHHHHHSCSCHHHHHHHHHHHTTT
T ss_pred             EEEeCCCcccCCHHHHhcccEEEecCCCCHHHHHHHHHHHHHhcCCC---CCHHHHHHHHHHccCCHHHHHHHHHHHHHH
Confidence            665554332 21111 11 2578999999999999998887543322   224568899999999999888776655321


Q ss_pred             --------CChhHHHHHHHHHhcccccCCCChhHHHHHHhhccCCCCCcchhHHhchhccCCCCCccCHHHHH----HHH
Q 043737          274 --------KTPREWEHAIEVLRSSAYKFSGMESRVFSRLKISYDFLPGDETRFYLLYCSSYPEDYKIFVEDLI----DCW  341 (371)
Q Consensus       274 --------~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~~l~~la~fp~~~~i~~~~li----~~w  341 (371)
                              -+.+.....+..+......+...+..+...+...+..-+. ....+-..+.+       +...+.    .+-
T Consensus       218 a~~~~~~~i~~~~~~~~~~~~~~~~~~l~~~e~~~i~~~~~~~~g~~~-~~~~~a~~lgi-------~~~tl~~~l~~~~  289 (324)
T 1hqc_A          218 AQVAGEEVITRERALEALAALGLDELGLEKRDREILEVLILRFGGGPV-GLATLATALSE-------DPGTLEEVHEPYL  289 (324)
T ss_dssp             STTTSCSCCCHHHHHHHHHHHTCCTTCCCHHHHHHHHHHHHHSCSSCC-CHHHHHHHTTS-------CHHHHHHHTHHHH
T ss_pred             HHHhcCCCCCHHHHHHHHHHhcccccCCCHHHHHHHHHHHHHhcCCCc-hHHHHHHHhCC-------CHHHHHHHHhHHH
Confidence                    1334444444433221111111122233333333322222 23333333332       222222    234


Q ss_pred             HHcCCcccCC-C-----hHHHHHH-HHHhCcCCcc
Q 043737          342 ICEGFLDEYD-G-----FEHEIKD-TLLFVSFFMH  369 (371)
Q Consensus       342 ~a~g~~~~~~-~-----~~~~~l~-~L~~~sll~~  369 (371)
                      +..|++.... +     .+.++++ ++++|||+|+
T Consensus       290 i~~~li~~~~~g~~~~~~~~~~~~~~~~~~~~~~~  324 (324)
T 1hqc_A          290 IRQGLLKRTPRGRVPTELAYRHLGYPPPVGPLLEP  324 (324)
T ss_dssp             HHTTSEEEETTEEEECHHHHHHTTCCCCC------
T ss_pred             HHhcchhcCCccceecHHHHHHHhcCCCCCCCCCC
Confidence            5678886432 1     2899998 9999999996

>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=99.33  E-value=4e-12  Score=115.21  Aligned_cols=185  Identities=17%  Similarity=0.172  Sum_probs=114.2

Q ss_pred             CccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhcc
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINL  141 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~  141 (371)
                      ..++|++..++.+..++..+..+.+.|+|++|+|||++|+.+++.... ......+++++.+...+...+ ..++..+..
T Consensus        21 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~-~~~~~~~~~~~~~~~~~~~~i-~~~~~~~~~   98 (323)
T 1sxj_B           21 SDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLG-RSYADGVLELNASDDRGIDVV-RNQIKHFAQ   98 (323)
T ss_dssp             GGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHHG-GGHHHHEEEECTTSCCSHHHH-HTHHHHHHH
T ss_pred             HHHHCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhcC-CcccCCEEEecCccccChHHH-HHHHHHHHh
Confidence            568999999999999998766555999999999999999999988621 111112344443332232222 222222210


Q ss_pred             CCCCCCcCCHHHHHHHHHHHh-CCCceEEEEeCCCCcc--cccccccccCCCCCCCcEEEEecCchH-HH-hhccCCCce
Q 043737          142 FNESWNSRSLQEKSQDIVKNM-SNKKFVLLLDHIWELV--DLSQVGLPVPCRTSASNKTVFTARELE-VC-GQMEAHKSF  216 (371)
Q Consensus       142 ~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~~--~~~~~~~~l~~~~~~~~~iliTsR~~~-~~-~~~~~~~~~  216 (371)
                      ...                .+ .+++.++|+||++...  ..+.+...+. ....++.+|+||.... +. ...+....+
T Consensus        99 ~~~----------------~~~~~~~~viiiDe~~~l~~~~~~~L~~~le-~~~~~~~~il~~~~~~~l~~~l~sr~~~i  161 (323)
T 1sxj_B           99 KKL----------------HLPPGKHKIVILDEADSMTAGAQQALRRTME-LYSNSTRFAFACNQSNKIIEPLQSQCAIL  161 (323)
T ss_dssp             BCC----------------CCCTTCCEEEEEESGGGSCHHHHHTTHHHHH-HTTTTEEEEEEESCGGGSCHHHHTTSEEE
T ss_pred             ccc----------------cCCCCCceEEEEECcccCCHHHHHHHHHHHh-ccCCCceEEEEeCChhhchhHHHhhceEE
Confidence            000                01 3457899999998642  2333333333 3345667777776532 11 112334579


Q ss_pred             eecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHH-HHHHHH
Q 043737          217 KVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLA-LITVGR  268 (371)
Q Consensus       217 ~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pla-l~~~a~  268 (371)
                      .+.+++.++..+++...+.......   ..+.+..+++.++|.|.. +..+..
T Consensus       162 ~~~~~~~~~~~~~l~~~~~~~~~~~---~~~~~~~l~~~~~G~~r~a~~~l~~  211 (323)
T 1sxj_B          162 RYSKLSDEDVLKRLLQIIKLEDVKY---TNDGLEAIIFTAEGDMRQAINNLQS  211 (323)
T ss_dssp             ECCCCCHHHHHHHHHHHHHHHTCCB---CHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             eecCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            9999999999999988764322111   245578999999999954 454433

>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=99.27  E-value=1.4e-11  Score=111.83  Aligned_cols=187  Identities=16%  Similarity=0.098  Sum_probs=114.2

Q ss_pred             CCccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCC-CeEEEEEeCCcCCHHHHHHHHHHHh
Q 043737           61 PPTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDF-DFVIWVVASKDLQLEQIQGSIAKKI  139 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f-~~~~wv~~~~~~~~~~~~~~l~~~l  139 (371)
                      -..++|++..++.+..++..+..+.+.|+|++|+|||++|+.+++...  ...+ ...+.++.+...+...+ ......+
T Consensus        24 ~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~l~~~l~--~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~  100 (327)
T 1iqp_A           24 LDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELF--GENWRHNFLELNASDERGINVI-REKVKEF  100 (327)
T ss_dssp             TTTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHH--GGGHHHHEEEEETTCHHHHHTT-HHHHHHH
T ss_pred             HHHhhCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhc--CCcccCceEEeeccccCchHHH-HHHHHHH
Confidence            356899999999999999877666799999999999999999998862  1111 12333433321111111 1111111


Q ss_pred             ccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCcc--cccccccccCCCCCCCcEEEEecCchHH-Hhh-ccCCCc
Q 043737          140 NLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELV--DLSQVGLPVPCRTSASNKTVFTARELEV-CGQ-MEAHKS  215 (371)
Q Consensus       140 ~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~--~~~~~~~~l~~~~~~~~~iliTsR~~~~-~~~-~~~~~~  215 (371)
                      ....+                ...+++.++|+||++...  ..+.+...+. ....++++|+||....- ... ......
T Consensus       101 ~~~~~----------------~~~~~~~vliiDe~~~l~~~~~~~L~~~le-~~~~~~~~i~~~~~~~~l~~~l~sr~~~  163 (327)
T 1iqp_A          101 ARTKP----------------IGGASFKIIFLDEADALTQDAQQALRRTME-MFSSNVRFILSCNYSSKIIEPIQSRCAI  163 (327)
T ss_dssp             HHSCC----------------GGGCSCEEEEEETGGGSCHHHHHHHHHHHH-HTTTTEEEEEEESCGGGSCHHHHHTEEE
T ss_pred             HhhCC----------------cCCCCCeEEEEeCCCcCCHHHHHHHHHHHH-hcCCCCeEEEEeCCccccCHHHHhhCcE
Confidence            00000                012567799999998652  2333333333 33456778877765321 111 122347


Q ss_pred             eeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHHHH
Q 043737          216 FKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAM  270 (371)
Q Consensus       216 ~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~~l  270 (371)
                      +.+.+++.++..+++...+.......   ..+.++.|++.++|.|..+..+...+
T Consensus       164 ~~~~~l~~~~~~~~l~~~~~~~~~~~---~~~~~~~l~~~~~g~~r~~~~~l~~~  215 (327)
T 1iqp_A          164 FRFRPLRDEDIAKRLRYIAENEGLEL---TEEGLQAILYIAEGDMRRAINILQAA  215 (327)
T ss_dssp             EECCCCCHHHHHHHHHHHHHTTTCEE---CHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             EEecCCCHHHHHHHHHHHHHhcCCCC---CHHHHHHHHHHCCCCHHHHHHHHHHH
Confidence            89999999999999988775433222   24568889999999998665554443

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=99.21  E-value=6.1e-11  Score=106.16  Aligned_cols=170  Identities=10%  Similarity=0.107  Sum_probs=107.1

Q ss_pred             ccccchhHHHHHHHHHhc----CCceEEEEEcCCCCcHHHHHHHHHhhccCCCC--C--CCeEEEEEeCCcCCHHHHHHH
Q 043737           63 TVVGLQSTFDRVWRCLME----EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPN--D--FDFVIWVVASKDLQLEQIQGS  134 (371)
Q Consensus        63 ~~vGR~~~~~~l~~~L~~----~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~--~--f~~~~wv~~~~~~~~~~~~~~  134 (371)
                      .+.||++++++|...|..    +..+.+.|+|++|+|||++++.+++.+.....  .  .-.++++++....+...++..
T Consensus        21 ~L~~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~~~~~  100 (318)
T 3te6_A           21 LLKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALYEK  100 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HHHHHH
T ss_pred             ccCCHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCHHHHHHH
Confidence            478999999999888764    56789999999999999999999999832211  1  124667777777788899999


Q ss_pred             HHHHhccCCCCCCcCCHHHHHHHHHHHh---CCCceEEEEeCCCCcccccccccccCCCCCCCc--EEE-EecCch----
Q 043737          135 IAKKINLFNESWNSRSLQEKSQDIVKNM---SNKKFVLLLDHIWELVDLSQVGLPVPCRTSASN--KTV-FTAREL----  204 (371)
Q Consensus       135 l~~~l~~~~~~~~~~~~~~~~~~l~~~l---~~~~~LlVlDdv~~~~~~~~~~~~l~~~~~~~~--~il-iTsR~~----  204 (371)
                      |+.++.....  ........+..+...+   .+++++++||+++....-+.+...+.+.....+  .+| |+....    
T Consensus       101 I~~~L~g~~~--~~~~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~~q~~L~~l~~~~~~~~s~~~vI~i~n~~d~~~~  178 (318)
T 3te6_A          101 IWFAISKENL--CGDISLEALNFYITNVPKAKKRKTLILIQNPENLLSEKILQYFEKWISSKNSKLSIICVGGHNVTIRE  178 (318)
T ss_dssp             HHHHHSCCC----CCCCHHHHHHHHHHSCGGGSCEEEEEEECCSSSCCTHHHHHHHHHHHCSSCCEEEEEECCSSCCCHH
T ss_pred             HHHHhcCCCC--CchHHHHHHHHHHHHhhhccCCceEEEEecHHHhhcchHHHHHHhcccccCCcEEEEEEecCcccchh
Confidence            9999854321  1122233344444433   457899999999876532222222211111222  233 333321    


Q ss_pred             HHH----hhccCCCceeecCCChHHHHHHHHHHhC
Q 043737          205 EVC----GQMEAHKSFKVERLGYEDAWKLFEEKVG  235 (371)
Q Consensus       205 ~~~----~~~~~~~~~~l~~L~~~ea~~ll~~~~~  235 (371)
                      .+.    ..+ ....+.+++++.+|-.+++..++.
T Consensus       179 ~L~~~v~SR~-~~~~i~F~pYt~~el~~Il~~Rl~  212 (318)
T 3te6_A          179 QINIMPSLKA-HFTEIKLNKVDKNELQQMIITRLK  212 (318)
T ss_dssp             HHHTCHHHHT-TEEEEECCCCCHHHHHHHHHHHHH
T ss_pred             hcchhhhccC-CceEEEeCCCCHHHHHHHHHHHHH
Confidence            111    111 124689999999999999998874

>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=99.18  E-value=1.2e-10  Score=105.20  Aligned_cols=181  Identities=15%  Similarity=0.149  Sum_probs=113.3

Q ss_pred             CccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCC-eEEEEEeCCcCCHHHHHHHHHHHhc
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFD-FVIWVVASKDLQLEQIQGSIAKKIN  140 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~-~~~wv~~~~~~~~~~~~~~l~~~l~  140 (371)
                      ..++|++..++.+.+++..+..+.+.++|++|+|||++|+.+++...  ...+. .++.++.+...+..           
T Consensus        17 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~--~~~~~~~~~~~~~~~~~~~~-----------   83 (319)
T 2chq_A           17 DEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLF--GENWRDNFIEMNASDERGID-----------   83 (319)
T ss_dssp             GGSCSCHHHHHHHHTTTTTTCCCCEEEESSSSSSHHHHHHHHHHHHH--TTCHHHHCEEEETTSTTCTT-----------
T ss_pred             HHHhCCHHHHHHHHHHHhCCCCCeEEEECcCCcCHHHHHHHHHHHhc--CCcccCCeEEEeCccccChH-----------
Confidence            56899999999999988776655699999999999999999998862  11111 23334433221111           


Q ss_pred             cCCCCCCcCCHHHHHHHHHHH--h-CCCceEEEEeCCCCcc--cccccccccCCCCCCCcEEEEecCchH-HHh-hccCC
Q 043737          141 LFNESWNSRSLQEKSQDIVKN--M-SNKKFVLLLDHIWELV--DLSQVGLPVPCRTSASNKTVFTARELE-VCG-QMEAH  213 (371)
Q Consensus       141 ~~~~~~~~~~~~~~~~~l~~~--l-~~~~~LlVlDdv~~~~--~~~~~~~~l~~~~~~~~~iliTsR~~~-~~~-~~~~~  213 (371)
                               ........+...  + .+++.++|+|+++...  ..+.+...+. ....++.+|+||.... +.. .....
T Consensus        84 ---------~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le-~~~~~~~~i~~~~~~~~l~~~l~sr~  153 (319)
T 2chq_A           84 ---------VVRHKIKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTME-MYSKSCRFILSCNYVSRIIEPIQSRC  153 (319)
T ss_dssp             ---------TSSHHHHHHHHSCCSSSCCCEEEEEETGGGSCHHHHHTTGGGTS-SSSSSEEEEEEESCGGGSCHHHHTTC
T ss_pred             ---------HHHHHHHHHHhcCCCCCCCceEEEEeCCCcCCHHHHHHHHHHHH-hcCCCCeEEEEeCChhhcchHHHhhC
Confidence                     011111111111  1 2457899999997653  2333444444 3445667777765532 111 12334


Q ss_pred             CceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHH
Q 043737          214 KSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGR  268 (371)
Q Consensus       214 ~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~  268 (371)
                      ..+.+.+++.++..+++...+.......   ..+.+..++..++|.+..+.....
T Consensus       154 ~~i~~~~~~~~~~~~~l~~~~~~~~~~i---~~~~l~~l~~~~~G~~r~~~~~l~  205 (319)
T 2chq_A          154 AVFRFKPVPKEAMKKRLLEICEKEGVKI---TEDGLEALIYISGGDFRKAINALQ  205 (319)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHHTTCCCB---CHHHHHHHHHTTTTCHHHHHHHHH
T ss_pred             eEEEecCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHHHHHHH
Confidence            5789999999999999998875443222   245578899999999986554443

>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=99.17  E-value=2.2e-10  Score=105.91  Aligned_cols=195  Identities=13%  Similarity=0.126  Sum_probs=111.3

Q ss_pred             CccccchhHHHHHHHHHhcCC-ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHh-
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQ-MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKI-  139 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l-  139 (371)
                      ..++||+..++.+..++..+. ...+.|+|++|+|||++|+.+++... ......   ...+..   .. ....+.... 
T Consensus        16 ~~~vg~~~~~~~L~~~l~~~~~~~~~ll~G~~G~GKT~la~~la~~l~-~~~~~~---~~~~~~---~~-~~~~~~~~~~   87 (373)
T 1jr3_A           16 ADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLN-CETGIT---ATPCGV---CD-NCREIEQGRF   87 (373)
T ss_dssp             TTSCSCHHHHHHHHHHHHHTCCCSEEEEESCTTSSHHHHHHHHHHHHS-CTTCSC---SSCCSS---SH-HHHHHHTSCC
T ss_pred             hhccCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHHhC-CCCCCC---CCCCcc---cH-HHHHHhccCC
Confidence            569999999999999997654 45789999999999999999998872 111110   000000   00 111111100 


Q ss_pred             ----ccCCCC-CCcCCHHHHHHHHHHH-hCCCceEEEEeCCCCcc--cccccccccCCCCCCCcEEEEecCchH-HH-hh
Q 043737          140 ----NLFNES-WNSRSLQEKSQDIVKN-MSNKKFVLLLDHIWELV--DLSQVGLPVPCRTSASNKTVFTARELE-VC-GQ  209 (371)
Q Consensus       140 ----~~~~~~-~~~~~~~~~~~~l~~~-l~~~~~LlVlDdv~~~~--~~~~~~~~l~~~~~~~~~iliTsR~~~-~~-~~  209 (371)
                          ...... ............+... ..+++.++|+||++...  ..+.+...+. ....++.+|++|.... +. ..
T Consensus        88 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~Ll~~le-~~~~~~~~Il~~~~~~~l~~~l  166 (373)
T 1jr3_A           88 VDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLE-EPPEHVKFLLATTDPQKLPVTI  166 (373)
T ss_dssp             SSCEEEETTCSCCSSCHHHHHHHTTSCCSSSSSEEEEEECGGGSCHHHHHHHHHHHH-SCCSSEEEEEEESCGGGSCHHH
T ss_pred             CceEEecccccCCHHHHHHHHHHHhhccccCCeEEEEEECcchhcHHHHHHHHHHHh-cCCCceEEEEEeCChHhCcHHH
Confidence                000000 0111222222211110 12457899999997542  2333333333 3344566666665432 21 11


Q ss_pred             ccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHH
Q 043737          210 MEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGR  268 (371)
Q Consensus       210 ~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~  268 (371)
                      ......+.+.+++.++..+++...+.......   ..+.+..|++.++|+|..+..+..
T Consensus       167 ~sr~~~i~~~~l~~~~~~~~l~~~~~~~~~~~---~~~a~~~l~~~~~G~~r~~~~~l~  222 (373)
T 1jr3_A          167 LSRCLQFHLKALDVEQIRHQLEHILNEEHIAH---EPRALQLLARAAEGSLRDALSLTD  222 (373)
T ss_dssp             HTTSEEEECCCCCHHHHHHHHHHHHHHHTCCB---CHHHHHHHHHHSSSCHHHHHHHHH
T ss_pred             HhheeEeeCCCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHCCCCHHHHHHHHH
Confidence            23346789999999999999987764322111   245578899999999998766553

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=99.06  E-value=2e-10  Score=95.56  Aligned_cols=47  Identities=21%  Similarity=0.299  Sum_probs=42.3

Q ss_pred             CCccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           61 PPTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -..++||+++++++.+++.....+.+.|+|++|+|||+||+.+++..
T Consensus        21 ~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~~~~~~   67 (195)
T 1jbk_A           21 LDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRI   67 (195)
T ss_dssp             SCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ccccccchHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHH
Confidence            35689999999999999977667789999999999999999999886

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=99.06  E-value=1.3e-10  Score=100.50  Aligned_cols=177  Identities=6%  Similarity=0.027  Sum_probs=105.1

Q ss_pred             CCccccc---hhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHH
Q 043737           61 PPTVVGL---QSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAK  137 (371)
Q Consensus        61 ~~~~vGR---~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~  137 (371)
                      -..|+|+   +..++.+..+......+.+.|+|++|+|||+||+.+++...   .....+.|++.......      +..
T Consensus        27 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~la~~l~~~~~---~~~~~~~~~~~~~~~~~------~~~   97 (242)
T 3bos_A           27 FTSYYPAAGNDELIGALKSAASGDGVQAIYLWGPVKSGRTHLIHAACARAN---ELERRSFYIPLGIHASI------STA   97 (242)
T ss_dssp             TTTSCC--CCHHHHHHHHHHHHTCSCSEEEEECSTTSSHHHHHHHHHHHHH---HTTCCEEEEEGGGGGGS------CGG
T ss_pred             hhhccCCCCCHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHH---HcCCeEEEEEHHHHHHH------HHH
Confidence            3567773   35666666666555678999999999999999999998873   22234566665432110      000


Q ss_pred             HhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc----ccccccccCCCCCCC-cEEEEecCchH-------
Q 043737          138 KINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD----LSQVGLPVPCRTSAS-NKTVFTARELE-------  205 (371)
Q Consensus       138 ~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~----~~~~~~~l~~~~~~~-~~iliTsR~~~-------  205 (371)
                      .+                    ..+ .++.+|||||++....    .+.+...+......+ ..+|+||+...       
T Consensus        98 ~~--------------------~~~-~~~~vliiDe~~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~~~~~~~~~~~~~~  156 (242)
T 3bos_A           98 LL--------------------EGL-EQFDLICIDDVDAVAGHPLWEEAIFDLYNRVAEQKRGSLIVSASASPMEAGFVL  156 (242)
T ss_dssp             GG--------------------TTG-GGSSEEEEETGGGGTTCHHHHHHHHHHHHHHHHHCSCEEEEEESSCTTTTTCCC
T ss_pred             HH--------------------Hhc-cCCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCCeEEEEcCCCHHHHHHhh
Confidence            00                    001 3456999999975422    122222111001112 24777766322       


Q ss_pred             --HHhhccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHHHH
Q 043737          206 --VCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAM  270 (371)
Q Consensus       206 --~~~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~~l  270 (371)
                        +.........+.+++++.++..+++...+......   -..+.++.+++.++|++..+..+...+
T Consensus       157 ~~l~~r~~~~~~i~l~~~~~~~~~~~l~~~~~~~~~~---~~~~~~~~l~~~~~g~~r~l~~~l~~~  220 (242)
T 3bos_A          157 PDLVSRMHWGLTYQLQPMMDDEKLAALQRRAAMRGLQ---LPEDVGRFLLNRMARDLRTLFDVLDRL  220 (242)
T ss_dssp             HHHHHHHHHSEEEECCCCCGGGHHHHHHHHHHHTTCC---CCHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             hhhhhHhhcCceEEeCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHccCCHHHHHHHHHHH
Confidence              11111223678999999999999999877433222   234568889999999987776554433

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=99.01  E-value=5.7e-09  Score=98.41  Aligned_cols=180  Identities=13%  Similarity=0.139  Sum_probs=108.0

Q ss_pred             CCccccchhHH---HHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHH
Q 043737           61 PPTVVGLQSTF---DRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAK  137 (371)
Q Consensus        61 ~~~~vGR~~~~---~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~  137 (371)
                      -..++|.+..+   ..|...+..+..+.+.|+|++|+||||||+.+++..   ...|   ..++... .....+ ..+..
T Consensus        25 l~~ivGq~~~~~~~~~L~~~i~~~~~~~vLL~GppGtGKTtlAr~ia~~~---~~~f---~~l~a~~-~~~~~i-r~~~~   96 (447)
T 3pvs_A           25 LAQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTTLAEVIARYA---NADV---ERISAVT-SGVKEI-REAIE   96 (447)
T ss_dssp             TTTCCSCHHHHSTTSHHHHHHHHTCCCEEEEECSTTSSHHHHHHHHHHHT---TCEE---EEEETTT-CCHHHH-HHHHH
T ss_pred             HHHhCCcHHHHhchHHHHHHHHcCCCcEEEEECCCCCcHHHHHHHHHHHh---CCCe---EEEEecc-CCHHHH-HHHHH
Confidence            46789999988   788888877777889999999999999999999887   2222   2222211 122221 11111


Q ss_pred             HhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCcc--cccccccccCCCCCCCcEEEE-ecCchHH---Hhhcc
Q 043737          138 KINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELV--DLSQVGLPVPCRTSASNKTVF-TARELEV---CGQME  211 (371)
Q Consensus       138 ~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~--~~~~~~~~l~~~~~~~~~ili-TsR~~~~---~~~~~  211 (371)
                      ...                  .....+++.+|+||+++...  ..+.+...+.   .....+|. ||.+...   .....
T Consensus        97 ~a~------------------~~~~~~~~~iLfIDEI~~l~~~~q~~LL~~le---~~~v~lI~att~n~~~~l~~aL~s  155 (447)
T 3pvs_A           97 RAR------------------QNRNAGRRTILFVDEVHRFNKSQQDAFLPHIE---DGTITFIGATTENPSFELNSALLS  155 (447)
T ss_dssp             HHH------------------HHHHTTCCEEEEEETTTCC------CCHHHHH---TTSCEEEEEESSCGGGSSCHHHHT
T ss_pred             HHH------------------HhhhcCCCcEEEEeChhhhCHHHHHHHHHHHh---cCceEEEecCCCCcccccCHHHhC
Confidence            110                  01113567899999998652  2333333332   12334443 5444321   11123


Q ss_pred             CCCceeecCCChHHHHHHHHHHhCCCC--CC--CCCCHHHHHHHHHHHcCCCcHHHHHHHHH
Q 043737          212 AHKSFKVERLGYEDAWKLFEEKVGKEI--LD--SHPDIPELAETVAKECGGLPLALITVGRA  269 (371)
Q Consensus       212 ~~~~~~l~~L~~~ea~~ll~~~~~~~~--~~--~~~~~~~~~~~i~~~~~g~Plal~~~a~~  269 (371)
                      ....+.+.+++.++...++.+.+....  ..  ...-..+..+.|++.++|.+..+..+...
T Consensus       156 R~~v~~l~~l~~edi~~il~~~l~~~~~~~~~~~~~i~~~al~~L~~~~~Gd~R~lln~Le~  217 (447)
T 3pvs_A          156 RARVYLLKSLSTEDIEQVLTQAMEDKTRGYGGQDIVLPDETRRAIAELVNGDARRALNTLEM  217 (447)
T ss_dssp             TEEEEECCCCCHHHHHHHHHHHHHCTTTSSTTSSEECCHHHHHHHHHHHCSCHHHHHHHHHH
T ss_pred             ceeEEeeCCcCHHHHHHHHHHHHHHHhhhhccccCcCCHHHHHHHHHHCCCCHHHHHHHHHH
Confidence            345788999999999999998875411  00  11123566888999999998766555443

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.99  E-value=1.6e-09  Score=99.31  Aligned_cols=195  Identities=13%  Similarity=0.105  Sum_probs=110.8

Q ss_pred             CCccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhc
Q 043737           61 PPTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKIN  140 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~  140 (371)
                      -..++|+++.++.+..++..+..+.+.|+|++|+|||++|+.+++........-..+..++.+.......+. +....+.
T Consensus        36 ~~~i~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~  114 (353)
T 1sxj_D           36 LDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVR-EKVKNFA  114 (353)
T ss_dssp             TTTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHT-THHHHHH
T ss_pred             HHHhhCCHHHHHHHHHHHhcCCCCEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEccccccchHHHH-HHHHHHh
Confidence            366899999999999999776545599999999999999999988852000000123344443322333222 2222111


Q ss_pred             cCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc--ccccccccCCCCCCCcEEEEecCch-HHHhh-ccCCCce
Q 043737          141 LFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD--LSQVGLPVPCRTSASNKTVFTAREL-EVCGQ-MEAHKSF  216 (371)
Q Consensus       141 ~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~~~iliTsR~~-~~~~~-~~~~~~~  216 (371)
                      ..... .....     .....-.+++-++++|+++....  ...+...+. ......+++++|... .+... ......+
T Consensus       115 ~~~~~-~~~~~-----~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le-~~~~~~~~il~~~~~~~l~~~l~sR~~~i  187 (353)
T 1sxj_D          115 RLTVS-KPSKH-----DLENYPCPPYKIIILDEADSMTADAQSALRRTME-TYSGVTRFCLICNYVTRIIDPLASQCSKF  187 (353)
T ss_dssp             HSCCC-CCCTT-----HHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHH-HTTTTEEEEEEESCGGGSCHHHHHHSEEE
T ss_pred             hhccc-ccchh-----hcccCCCCCceEEEEECCCccCHHHHHHHHHHHH-hcCCCceEEEEeCchhhCcchhhccCceE
Confidence            10000 00000     00011123456999999975432  222322222 223355666655432 22111 1223478


Q ss_pred             eecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHH
Q 043737          217 KVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITV  266 (371)
Q Consensus       217 ~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~  266 (371)
                      .+.+++.++....+...+.......   ..+.++.|++.++|.|..+...
T Consensus       188 ~~~~~~~~~~~~~l~~~~~~~~~~i---~~~~l~~l~~~~~G~~r~~~~~  234 (353)
T 1sxj_D          188 RFKALDASNAIDRLRFISEQENVKC---DDGVLERILDISAGDLRRGITL  234 (353)
T ss_dssp             ECCCCCHHHHHHHHHHHHHTTTCCC---CHHHHHHHHHHTSSCHHHHHHH
T ss_pred             EeCCCCHHHHHHHHHHHHHHhCCCC---CHHHHHHHHHHcCCCHHHHHHH
Confidence            9999999999999998775433222   2456899999999999865443

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=98.98  E-value=5.8e-09  Score=98.43  Aligned_cols=185  Identities=13%  Similarity=0.112  Sum_probs=108.5

Q ss_pred             Cccc-cchhH--HHHHHHHHhcCC-ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHH
Q 043737           62 PTVV-GLQST--FDRVWRCLMEEQ-MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAK  137 (371)
Q Consensus        62 ~~~v-GR~~~--~~~l~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~  137 (371)
                      +.|+ |....  ...+........ ...+.|+|++|+||||||+.+++..... .....+++++..      .+...+..
T Consensus       105 d~fv~g~~n~~a~~~~~~~a~~~~~~~~lll~Gp~G~GKTtLa~aia~~l~~~-~~~~~v~~v~~~------~~~~~~~~  177 (440)
T 2z4s_A          105 ENFVVGPGNSFAYHAALEVAKHPGRYNPLFIYGGVGLGKTHLLQSIGNYVVQN-EPDLRVMYITSE------KFLNDLVD  177 (440)
T ss_dssp             GGCCCCTTTHHHHHHHHHHHHSTTSSCCEEEECSSSSSHHHHHHHHHHHHHHH-CCSSCEEEEEHH------HHHHHHHH
T ss_pred             hhcCCCCchHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHh-CCCCeEEEeeHH------HHHHHHHH
Confidence            4466 64433  333343333322 5789999999999999999999876211 111234555433      33444444


Q ss_pred             HhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc----ccccccccCCCCCCCcEEEEecCch---------
Q 043737          138 KINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD----LSQVGLPVPCRTSASNKTVFTAREL---------  204 (371)
Q Consensus       138 ~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~----~~~~~~~l~~~~~~~~~iliTsR~~---------  204 (371)
                      .+...       .    ...+...+..++.+|+|||++....    .+.+...+......+..||+||...         
T Consensus       178 ~~~~~-------~----~~~~~~~~~~~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~~~~~~iIitt~~~~~~l~~l~~  246 (440)
T 2z4s_A          178 SMKEG-------K----LNEFREKYRKKVDILLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQD  246 (440)
T ss_dssp             HHHTT-------C----HHHHHHHHTTTCSEEEEECGGGGSSCHHHHHHHHHHHHHHHTTTCEEEEEESSCGGGCSSCCH
T ss_pred             HHHcc-------c----HHHHHHHhcCCCCEEEEeCcccccCChHHHHHHHHHHHHHHHCCCeEEEEECCCHHHHHHHHH
Confidence            44211       1    1123334443667999999975432    2222222211123467788887752         


Q ss_pred             HHHhhccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHH
Q 043737          205 EVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVG  267 (371)
Q Consensus       205 ~~~~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a  267 (371)
                      .+...+..+..+.+++++.++-.+++.+.+.......+++   .+..|++.++|.+.-+.-+.
T Consensus       247 ~L~sR~~~g~~i~l~~p~~e~r~~iL~~~~~~~~~~i~~e---~l~~la~~~~gn~R~l~~~L  306 (440)
T 2z4s_A          247 RLVSRFQMGLVAKLEPPDEETRKSIARKMLEIEHGELPEE---VLNFVAENVDDNLRRLRGAI  306 (440)
T ss_dssp             HHHHHHHSSBCCBCCCCCHHHHHHHHHHHHHHHTCCCCTT---HHHHHHHHCCSCHHHHHHHH
T ss_pred             HHHhhccCCeEEEeCCCCHHHHHHHHHHHHHHcCCCCCHH---HHHHHHHhcCCCHHHHHHHH
Confidence            2233334456789999999999999988774333233343   37888999999987665443

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.97  E-value=2.9e-09  Score=102.67  Aligned_cols=186  Identities=14%  Similarity=0.117  Sum_probs=106.7

Q ss_pred             CccccchhHHHHHHHHHhc-----------------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCC
Q 043737           62 PTVVGLQSTFDRVWRCLME-----------------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASK  124 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~-----------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~  124 (371)
                      ..++|++..+++|.+++..                 ...+.+.|+|++|+|||++|+.+++..   .  + .++.++.+.
T Consensus        39 ~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l---~--~-~~i~in~s~  112 (516)
T 1sxj_A           39 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQEL---G--Y-DILEQNASD  112 (516)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHT---T--C-EEEEECTTS
T ss_pred             HHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHc---C--C-CEEEEeCCC
Confidence            5689999999999999864                 134789999999999999999999887   1  1 344455544


Q ss_pred             cCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHH--HHhCCCceEEEEeCCCCccc-----ccccccccCCCCCCCcEE
Q 043737          125 DLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIV--KNMSNKKFVLLLDHIWELVD-----LSQVGLPVPCRTSASNKT  197 (371)
Q Consensus       125 ~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~--~~l~~~~~LlVlDdv~~~~~-----~~~~~~~l~~~~~~~~~i  197 (371)
                      ..+.. +....+.......      ..........  ....+++.+|+||+++....     +..+...+.   ..+..+
T Consensus       113 ~~~~~-~~~~~i~~~~~~~------~~~~~~~~~~~~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~l~---~~~~~i  182 (516)
T 1sxj_A          113 VRSKT-LLNAGVKNALDNM------SVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCR---KTSTPL  182 (516)
T ss_dssp             CCCHH-HHHHTGGGGTTBC------CSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHH---HCSSCE
T ss_pred             cchHH-HHHHHHHHHhccc------cHHHHHhhhhhhhhccCCCeEEEEECCCccchhhHHHHHHHHHHHH---hcCCCE
Confidence            43332 2222222111000      0000000000  01135678999999975532     122222222   122334


Q ss_pred             EEecCch---HHHhhccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcH-HHHHH
Q 043737          198 VFTAREL---EVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPL-ALITV  266 (371)
Q Consensus       198 liTsR~~---~~~~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl-al~~~  266 (371)
                      |+++...   .+.........+.+++++.++..+++...+.......+++   .+..|++.++|.+. ++..+
T Consensus       183 Ili~~~~~~~~l~~l~~r~~~i~f~~~~~~~~~~~L~~i~~~~~~~i~~~---~l~~la~~s~GdiR~~i~~L  252 (516)
T 1sxj_A          183 ILICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLDPN---VIDRLIQTTRGDIRQVINLL  252 (516)
T ss_dssp             EEEESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCCTT---HHHHHHHHTTTCHHHHHHHH
T ss_pred             EEEEcCCCCccchhhHhceEEEEeCCCCHHHHHHHHHHHHHHcCCCCCHH---HHHHHHHHcCCcHHHHHHHH
Confidence            4443322   1222223345689999999999999987764433233333   37889999999554 45544

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=98.96  E-value=8.8e-09  Score=91.50  Aligned_cols=178  Identities=17%  Similarity=0.159  Sum_probs=103.9

Q ss_pred             CccccchhHHHHHHHHHhc-------------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCH
Q 043737           62 PTVVGLQSTFDRVWRCLME-------------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQL  128 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~-------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~  128 (371)
                      ..++|.+..+++|.+.+..             ...+.+.|+|++|+|||+||+.+++..   ...   .+.++...-.. 
T Consensus        17 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~---~~~---~~~v~~~~~~~-   89 (285)
T 3h4m_A           17 EDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATET---NAT---FIRVVGSELVK-   89 (285)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHT---TCE---EEEEEGGGGCC-
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHh---CCC---EEEEehHHHHH-
Confidence            5689999999999887743             345689999999999999999999887   222   23333221100 


Q ss_pred             HHHHHHHHHHhccCCCCCCcCCHHHHHHHHH-HHhCCCceEEEEeCCCCcc----------c------ccccccccC-CC
Q 043737          129 EQIQGSIAKKINLFNESWNSRSLQEKSQDIV-KNMSNKKFVLLLDHIWELV----------D------LSQVGLPVP-CR  190 (371)
Q Consensus       129 ~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~-~~l~~~~~LlVlDdv~~~~----------~------~~~~~~~l~-~~  190 (371)
                                      . ...........+. ......+.+|+||+++...          .      +..+...+. ..
T Consensus        90 ----------------~-~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~  152 (285)
T 3h4m_A           90 ----------------K-FIGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFD  152 (285)
T ss_dssp             ----------------C-STTHHHHHHHHHHHHHHHTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTC
T ss_pred             ----------------h-ccchHHHHHHHHHHHHHHcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCCC
Confidence                            0 0011111222222 2223567899999997531          0      111111110 02


Q ss_pred             CCCCcEEEEecCchHH-----HhhccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCC-CcHHHH
Q 043737          191 TSASNKTVFTARELEV-----CGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGG-LPLALI  264 (371)
Q Consensus       191 ~~~~~~iliTsR~~~~-----~~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g-~Plal~  264 (371)
                      ...+..||.||.....     .....-...+.+++.+.++..+++...+.......+..    ...++..+.| .|..|.
T Consensus       153 ~~~~~~vI~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~----~~~l~~~~~g~~~~~i~  228 (285)
T 3h4m_A          153 ARGDVKIIGATNRPDILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKMNLAEDVN----LEEIAKMTEGCVGAELK  228 (285)
T ss_dssp             SSSSEEEEEECSCGGGBCHHHHSTTSEEEEEECCCCCHHHHHHHHHHHHTTSCBCTTCC----HHHHHHHCTTCCHHHHH
T ss_pred             CCCCEEEEEeCCCchhcCHHHcCCCcCCeEEEECCCCHHHHHHHHHHHHhcCCCCCcCC----HHHHHHHcCCCCHHHHH
Confidence            2345667777765422     11101123688999999999999998876554333333    5677778877 465555


Q ss_pred             HHH
Q 043737          265 TVG  267 (371)
Q Consensus       265 ~~a  267 (371)
                      .+.
T Consensus       229 ~l~  231 (285)
T 3h4m_A          229 AIC  231 (285)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            543

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=98.95  E-value=3e-08  Score=90.30  Aligned_cols=175  Identities=13%  Similarity=0.057  Sum_probs=103.4

Q ss_pred             CCccccchhHHHHHHHHHhc-----CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHH
Q 043737           61 PPTVVGLQSTFDRVWRCLME-----EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSI  135 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~-----~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l  135 (371)
                      -..++|++..++.+..++..     ...+.|.|+|++|+|||+||+.+++..   ...   .+.++.........+    
T Consensus        28 ~~~iiG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~~~---~~~---~~~~~~~~~~~~~~~----   97 (338)
T 3pfi_A           28 FDGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYEM---SAN---IKTTAAPMIEKSGDL----   97 (338)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHHHT---TCC---EEEEEGGGCCSHHHH----
T ss_pred             HHHhCChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHHHh---CCC---eEEecchhccchhHH----
Confidence            35689999999999888864     334678999999999999999998886   222   233333222111111    


Q ss_pred             HHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc--ccccccccCC-----------------CCCCCcE
Q 043737          136 AKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD--LSQVGLPVPC-----------------RTSASNK  196 (371)
Q Consensus       136 ~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~--~~~~~~~l~~-----------------~~~~~~~  196 (371)
                                         ...+. . ..+..+|+||+++....  ...+...+..                 ...++..
T Consensus        98 -------------------~~~~~-~-~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  156 (338)
T 3pfi_A           98 -------------------AAILT-N-LSEGDILFIDEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPKFT  156 (338)
T ss_dssp             -------------------HHHHH-T-CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCC---------CCCCCCCCCCCE
T ss_pred             -------------------HHHHH-h-ccCCCEEEEechhhcCHHHHHHHHHHHHhccchhhcccCccccceecCCCCeE
Confidence                               11111 1 23556999999985521  1111110000                 0111345


Q ss_pred             EEEecCchH-HHhh-c-cCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHHH
Q 043737          197 TVFTARELE-VCGQ-M-EAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRA  269 (371)
Q Consensus       197 iliTsR~~~-~~~~-~-~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~~  269 (371)
                      +|.+|.... +... . .....+.+++++.++...++...+......   ...+..+.+++.+.|+|..+..+...
T Consensus       157 ~i~atn~~~~l~~~L~~R~~~~i~l~~~~~~e~~~il~~~~~~~~~~---~~~~~~~~l~~~~~G~~r~l~~~l~~  229 (338)
T 3pfi_A          157 LIGATTRAGMLSNPLRDRFGMQFRLEFYKDSELALILQKAALKLNKT---CEEKAALEIAKRSRSTPRIALRLLKR  229 (338)
T ss_dssp             EEEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTCE---ECHHHHHHHHHTTTTCHHHHHHHHHH
T ss_pred             EEEeCCCccccCHHHHhhcCEEeeCCCcCHHHHHHHHHHHHHhcCCC---CCHHHHHHHHHHHCcCHHHHHHHHHH
Confidence            555554422 1111 1 123578999999999999998876433211   12456788889999999766655443

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=98.86  E-value=3.1e-08  Score=91.34  Aligned_cols=196  Identities=12%  Similarity=0.081  Sum_probs=104.2

Q ss_pred             CCccccchhHHHH---HHHHHhcCC--ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEe----CCcCCHHHH
Q 043737           61 PPTVVGLQSTFDR---VWRCLMEEQ--MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVA----SKDLQLEQI  131 (371)
Q Consensus        61 ~~~~vGR~~~~~~---l~~~L~~~~--~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~----~~~~~~~~~  131 (371)
                      .+.|+|++..++.   +.+.+..+.  .+.+.|+|++|+|||+||+.+++..   ..... .+.++.    +........
T Consensus        43 ~~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l---~~~~~-~~~~~~~~~~~~~~~~~~~  118 (368)
T 3uk6_A           43 SQGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQAL---GPDTP-FTAIAGSEIFSLEMSKTEA  118 (368)
T ss_dssp             ETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHH---CSSCC-EEEEEGGGGSCSSSCHHHH
T ss_pred             hhhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHh---cccCC-cccccchhhhhcccchhHH
Confidence            4679999988766   444454443  3589999999999999999999998   22211 122221    122233344


Q ss_pred             HHHHHHHhc-cC--------------------CC-------CCCcCCHHHHHHHH---HHHh--CCC----ceEEEEeCC
Q 043737          132 QGSIAKKIN-LF--------------------NE-------SWNSRSLQEKSQDI---VKNM--SNK----KFVLLLDHI  174 (371)
Q Consensus       132 ~~~l~~~l~-~~--------------------~~-------~~~~~~~~~~~~~l---~~~l--~~~----~~LlVlDdv  174 (371)
                      +........ ..                    ..       .............+   ....  .++    +.+|+||++
T Consensus       119 ~~~~~~~~~~~~~~~~~~~~~~~~~ld~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~g~~~~~~~vl~IDEi  198 (368)
T 3uk6_A          119 LTQAFRRSIGVRIKAGAVHTVSLHEIDVINSRTQGFLALFSGDTGEIKSEVREQINAKVAEWREEGKAEIIPGVLFIDEV  198 (368)
T ss_dssp             HHHHHHHSBEECC------CEEHHHHHHHTC----CCSCC-------CHHHHHHHHHHHHHHHHHTC---CBCEEEEESG
T ss_pred             HHHHHHHHHHHHhhhhccccccHhhhhhhhcccccchhhccCcccccHHHHHHHHHHHHHHhhhhccccccCceEEEhhc
Confidence            443333211 00                    00       00000011222222   1111  122    469999999


Q ss_pred             CCcc--cccccccccCCCCCCCcEEEEecC-c----------------hHHHhhccCCCceeecCCChHHHHHHHHHHhC
Q 043737          175 WELV--DLSQVGLPVPCRTSASNKTVFTAR-E----------------LEVCGQMEAHKSFKVERLGYEDAWKLFEEKVG  235 (371)
Q Consensus       175 ~~~~--~~~~~~~~l~~~~~~~~~iliTsR-~----------------~~~~~~~~~~~~~~l~~L~~~ea~~ll~~~~~  235 (371)
                      +...  ....+...+. ..... .++++|. .                +.+..   ....+.+++++.++..+++...+.
T Consensus       199 ~~l~~~~~~~L~~~le-~~~~~-~~ii~t~~~~~~i~~t~~~~~~~l~~~l~s---R~~~i~~~~~~~~e~~~il~~~~~  273 (368)
T 3uk6_A          199 HMLDIESFSFLNRALE-SDMAP-VLIMATNRGITRIRGTSYQSPHGIPIDLLD---RLLIVSTTPYSEKDTKQILRIRCE  273 (368)
T ss_dssp             GGSBHHHHHHHHHHTT-CTTCC-EEEEEESCSEEECBTSSCEEETTCCHHHHT---TEEEEEECCCCHHHHHHHHHHHHH
T ss_pred             cccChHHHHHHHHHhh-CcCCC-eeeeecccceeeeeccCCCCcccCCHHHHh---hccEEEecCCCHHHHHHHHHHHHH
Confidence            8652  2222222222 22222 3333332 1                12222   234589999999999999998775


Q ss_pred             CCCCCCCCCHHHHHHHHHHHcC-CCcHHHHHHHH
Q 043737          236 KEILDSHPDIPELAETVAKECG-GLPLALITVGR  268 (371)
Q Consensus       236 ~~~~~~~~~~~~~~~~i~~~~~-g~Plal~~~a~  268 (371)
                      .....   -..+....|++.+. |.|..+..+..
T Consensus       274 ~~~~~---~~~~~l~~l~~~~~~G~~r~~~~ll~  304 (368)
T 3uk6_A          274 EEDVE---MSEDAYTVLTRIGLETSLRYAIQLIT  304 (368)
T ss_dssp             HTTCC---BCHHHHHHHHHHHHHSCHHHHHHHHH
T ss_pred             HcCCC---CCHHHHHHHHHHhcCCCHHHHHHHHH
Confidence            43222   22456888999997 88776555443

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.86  E-value=3.9e-09  Score=96.82  Aligned_cols=196  Identities=8%  Similarity=0.082  Sum_probs=105.0

Q ss_pred             CccccchhHHHHHHHHH-hcCCceEEEEEcCCCCcHHHHHHHHHhhccCCC-C--CCCe--------------------E
Q 043737           62 PTVVGLQSTFDRVWRCL-MEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTP-N--DFDF--------------------V  117 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L-~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~-~--~f~~--------------------~  117 (371)
                      ..++|++..++.+.+++ ..+..+.+.|+|++|+||||+++.++..+.... +  .++.                    .
T Consensus        14 ~~~vg~~~~~~~l~~~~~~~~~~~~~ll~Gp~G~GKTtl~~~la~~l~~~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~   93 (354)
T 1sxj_E           14 NALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVVSSPYH   93 (354)
T ss_dssp             GGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCEECSSE
T ss_pred             HHhcCCHHHHHHHHHHHhhCCCCCeEEEECCCCCCHHHHHHHHHHHHcCCCCCeEEecceeecccccccceeeeecccce
Confidence            56899999999999988 555444499999999999999999988641111 0  0000                    1


Q ss_pred             EEEEeCCcC-CHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc--ccccccccCCCCCCC
Q 043737          118 IWVVASKDL-QLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD--LSQVGLPVPCRTSAS  194 (371)
Q Consensus       118 ~wv~~~~~~-~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~  194 (371)
                      +.+..+... ......++++..+.....      ..... .+ ..+.+++-++|+|+++....  .+.+...+. ....+
T Consensus        94 ~~~~~~~~~~~~~~~~~~~i~~~~~~~~------~~~~~-~l-s~l~~~~~vlilDE~~~L~~~~~~~L~~~le-~~~~~  164 (354)
T 1sxj_E           94 LEITPSDMGNNDRIVIQELLKEVAQMEQ------VDFQD-SK-DGLAHRYKCVIINEANSLTKDAQAALRRTME-KYSKN  164 (354)
T ss_dssp             EEECCC----CCHHHHHHHHHHHTTTTC--------------------CCEEEEEECTTSSCHHHHHHHHHHHH-HSTTT
T ss_pred             EEecHhhcCCcchHHHHHHHHHHHHhcc------ccccc-cc-cccCCCCeEEEEeCccccCHHHHHHHHHHHH-hhcCC
Confidence            111111000 000012222222211000      00000 00 00233567999999986422  222322222 22345


Q ss_pred             cEEEEecCch-HHH-hhccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHH
Q 043737          195 NKTVFTAREL-EVC-GQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGR  268 (371)
Q Consensus       195 ~~iliTsR~~-~~~-~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~  268 (371)
                      +.+|++|... .+. ...+....+.+.+++.++..+++...+.......+.  .+.+..|++.++|.+..+..+..
T Consensus       165 ~~~Il~t~~~~~l~~~l~sR~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~--~~~l~~i~~~~~G~~r~a~~~l~  238 (354)
T 1sxj_E          165 IRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLET--KDILKRIAQASNGNLRVSLLMLE  238 (354)
T ss_dssp             EEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCEECC--SHHHHHHHHHHTTCHHHHHHHHT
T ss_pred             CEEEEEeCCHHHHHHHHHhhceEEecCCcCHHHHHHHHHHHHHHcCCCCCc--HHHHHHHHHHcCCCHHHHHHHHH
Confidence            6677666542 221 112334678999999999999998876433322220  23478899999999876555443

>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=98.84  E-value=1.8e-08  Score=91.25  Aligned_cols=180  Identities=14%  Similarity=0.128  Sum_probs=101.6

Q ss_pred             CCccc-cch--hHHHHHHHHHhcC--CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHH
Q 043737           61 PPTVV-GLQ--STFDRVWRCLMEE--QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSI  135 (371)
Q Consensus        61 ~~~~v-GR~--~~~~~l~~~L~~~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l  135 (371)
                      -++|+ |..  .....+...+...  ....+.|+|++|+|||+||+.+++.....   -..+++++.      ..+...+
T Consensus        10 f~~fv~g~~~~~a~~~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~~~~~---~~~~~~i~~------~~~~~~~   80 (324)
T 1l8q_A           10 LENFIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKR---GYRVIYSSA------DDFAQAM   80 (324)
T ss_dssp             SSSCCCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHT---TCCEEEEEH------HHHHHHH
T ss_pred             cccCCCCCcHHHHHHHHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHHHHHHC---CCEEEEEEH------HHHHHHH
Confidence            35565 533  2334444544433  34689999999999999999999887311   123455543      2333344


Q ss_pred             HHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc----ccccccccCCCCCCCcEEEEecCch-------
Q 043737          136 AKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD----LSQVGLPVPCRTSASNKTVFTAREL-------  204 (371)
Q Consensus       136 ~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~----~~~~~~~l~~~~~~~~~iliTsR~~-------  204 (371)
                      ...+..       ....    .+...+. ++.+|+||+++....    .+.+...+......+..+++||...       
T Consensus        81 ~~~~~~-------~~~~----~~~~~~~-~~~vL~iDEi~~l~~~~~~~~~l~~~l~~~~~~~~~iii~~~~~~~~l~~l  148 (324)
T 1l8q_A           81 VEHLKK-------GTIN----EFRNMYK-SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGV  148 (324)
T ss_dssp             HHHHHH-------TCHH----HHHHHHH-TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTS
T ss_pred             HHHHHc-------CcHH----HHHHHhc-CCCEEEEcCcccccCChHHHHHHHHHHHHHHHCCCeEEEEecCChHHHHHh
Confidence            433321       0111    1222222 366999999976432    1222222211122355777776532       


Q ss_pred             --HHHhhccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHH
Q 043737          205 --EVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITV  266 (371)
Q Consensus       205 --~~~~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~  266 (371)
                        .+...+.....+.+++ +.++..+++...+.......   ..+....|++.+ |....+..+
T Consensus       149 ~~~L~sR~~~~~~i~l~~-~~~e~~~il~~~~~~~~~~l---~~~~l~~l~~~~-g~~r~l~~~  207 (324)
T 1l8q_A          149 SDRLVSRFEGGILVEIEL-DNKTRFKIIKEKLKEFNLEL---RKEVIDYLLENT-KNVREIEGK  207 (324)
T ss_dssp             CHHHHHHHHTSEEEECCC-CHHHHHHHHHHHHHHTTCCC---CHHHHHHHHHHC-SSHHHHHHH
T ss_pred             hhHhhhcccCceEEEeCC-CHHHHHHHHHHHHHhcCCCC---CHHHHHHHHHhC-CCHHHHHHH
Confidence              1222233345789999 99999999988875333222   245688899999 877654433

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=98.83  E-value=1.5e-07  Score=82.95  Aligned_cols=197  Identities=15%  Similarity=0.130  Sum_probs=103.0

Q ss_pred             CccccchhHHHHHHHH-------Hh---cCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHH
Q 043737           62 PTVVGLQSTFDRVWRC-------LM---EEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQI  131 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~-------L~---~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~  131 (371)
                      ..++|....++++...       +.   ....+.+.|+|++|+|||+||+.+++..   ...|   +.++....      
T Consensus        33 ~~~i~~~~~~~~i~~~~~~l~~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~~---~~~~---~~i~~~~~------  100 (272)
T 1d2n_A           33 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEES---NFPF---IKICSPDK------  100 (272)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHH---TCSE---EEEECGGG------
T ss_pred             cCCCCccHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHHh---CCCE---EEEeCHHH------
Confidence            4578888777776663       32   2346789999999999999999999886   2221   22222210      


Q ss_pred             HHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCcc---------c---ccccccccCC--CCCCCcEE
Q 043737          132 QGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELV---------D---LSQVGLPVPC--RTSASNKT  197 (371)
Q Consensus       132 ~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~---------~---~~~~~~~l~~--~~~~~~~i  197 (371)
                             +  .... ...........+......++.+|+||+++...         .   ++.+...+..  .......|
T Consensus       101 -------~--~g~~-~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~i  170 (272)
T 1d2n_A          101 -------M--IGFS-ETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLI  170 (272)
T ss_dssp             -------C--TTCC-HHHHHHHHHHHHHHHHTSSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEEE
T ss_pred             -------h--cCCc-hHHHHHHHHHHHHHHHhcCCcEEEEEChhhhhccCCCChhHHHHHHHHHHHHhcCccCCCCCEEE
Confidence                   0  0000 00000111122222234567899999986531         0   1112112210  12233445


Q ss_pred             EEecCchHHHhh---ccC-CCceeecCCCh-HHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCC------cHHHHHH
Q 043737          198 VFTARELEVCGQ---MEA-HKSFKVERLGY-EDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGL------PLALITV  266 (371)
Q Consensus       198 liTsR~~~~~~~---~~~-~~~~~l~~L~~-~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~------Plal~~~  266 (371)
                      |.||........   ... ...+.+++++. ++...++....     ..   ..+....+++.+.|.      +.++..+
T Consensus       171 i~ttn~~~~l~~~~l~~rf~~~i~~p~l~~r~~i~~i~~~~~-----~~---~~~~~~~l~~~~~g~~~~g~ir~l~~~l  242 (272)
T 1d2n_A          171 IGTTSRKDVLQEMEMLNAFSTTIHVPNIATGEQLLEALELLG-----NF---KDKERTTIAQQVKGKKVWIGIKKLLMLI  242 (272)
T ss_dssp             EEEESCHHHHHHTTCTTTSSEEEECCCEEEHHHHHHHHHHHT-----CS---CHHHHHHHHHHHTTSEEEECHHHHHHHH
T ss_pred             EEecCChhhcchhhhhcccceEEcCCCccHHHHHHHHHHhcC-----CC---CHHHHHHHHHHhcCCCccccHHHHHHHH
Confidence            666666543221   111 34678899988 66666665532     11   234578888888883      3333333


Q ss_pred             HHHHcCCCChhHHHHHHHHHhcc
Q 043737          267 GRAMASKKTPREWEHAIEVLRSS  289 (371)
Q Consensus       267 a~~l~~~~~~~~~~~~l~~l~~~  289 (371)
                       ...........+...++.+...
T Consensus       243 -~~a~~~~~~~~~~~~~~~l~~~  264 (272)
T 1d2n_A          243 -EMSLQMDPEYRVRKFLALLREE  264 (272)
T ss_dssp             -HHHTTSCGGGHHHHHHHHHHHT
T ss_pred             -HHHhhhchHHHHHHHHHHHHHc
Confidence             2333324445666666555443

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=98.80  E-value=9.6e-08  Score=86.81  Aligned_cols=171  Identities=12%  Similarity=0.112  Sum_probs=101.1

Q ss_pred             chhHHHHHHHHHhcCC-ceEEEEEcCCCCcHHHHHHHHHhhccCCCC-------------------CCCeEEEEEeC---
Q 043737           67 LQSTFDRVWRCLMEEQ-MGIVGLYGMGEVGKTTLLTQINKKFLHTPN-------------------DFDFVIWVVAS---  123 (371)
Q Consensus        67 R~~~~~~l~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~-------------------~f~~~~wv~~~---  123 (371)
                      .++..+.+...+.+++ ...+.++|++|+|||++|+.+++.+.....                   +++ +.++...   
T Consensus         7 ~~~~~~~l~~~i~~~~~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d-~~~~~~~~~~   85 (334)
T 1a5t_A            7 LRPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPD-YYTLAPEKGK   85 (334)
T ss_dssp             GHHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTT-EEEECCCTTC
T ss_pred             hHHHHHHHHHHHHcCCcceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCC-EEEEeccccC
Confidence            3566777888877655 457999999999999999999988721110                   111 2222221   


Q ss_pred             CcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc--ccccccccCCCCCCCcEEEEec
Q 043737          124 KDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD--LSQVGLPVPCRTSASNKTVFTA  201 (371)
Q Consensus       124 ~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~~~iliTs  201 (371)
                      ....++. .+.+...+....                  ..+++-++|+|+++....  .+.+...+. ....++.+|++|
T Consensus        86 ~~~~i~~-ir~l~~~~~~~~------------------~~~~~kvviIdead~l~~~a~naLLk~lE-ep~~~~~~Il~t  145 (334)
T 1a5t_A           86 NTLGVDA-VREVTEKLNEHA------------------RLGGAKVVWVTDAALLTDAAANALLKTLE-EPPAETWFFLAT  145 (334)
T ss_dssp             SSBCHHH-HHHHHHHTTSCC------------------TTSSCEEEEESCGGGBCHHHHHHHHHHHT-SCCTTEEEEEEE
T ss_pred             CCCCHHH-HHHHHHHHhhcc------------------ccCCcEEEEECchhhcCHHHHHHHHHHhc-CCCCCeEEEEEe
Confidence            1111111 122222221100                  124567999999986532  333433343 334456666555


Q ss_pred             Cch-HHHh-hccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHH
Q 043737          202 REL-EVCG-QMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITV  266 (371)
Q Consensus       202 R~~-~~~~-~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~  266 (371)
                      .+. .+.. ..+....+.+.+++.++..+++....     ..   ..+.+..+++.++|.|..+..+
T Consensus       146 ~~~~~l~~ti~SRc~~~~~~~~~~~~~~~~L~~~~-----~~---~~~~~~~l~~~s~G~~r~a~~~  204 (334)
T 1a5t_A          146 REPERLLATLRSRCRLHYLAPPPEQYAVTWLSREV-----TM---SQDALLAALRLSAGSPGAALAL  204 (334)
T ss_dssp             SCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHC-----CC---CHHHHHHHHHHTTTCHHHHHHT
T ss_pred             CChHhCcHHHhhcceeeeCCCCCHHHHHHHHHHhc-----CC---CHHHHHHHHHHcCCCHHHHHHH
Confidence            543 2222 22445679999999999999998875     11   1345688999999999766443

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=98.79  E-value=6.3e-08  Score=87.63  Aligned_cols=181  Identities=10%  Similarity=0.011  Sum_probs=104.4

Q ss_pred             CCccccchhHHHHHHHHHhcCC-ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHh
Q 043737           61 PPTVVGLQSTFDRVWRCLMEEQ-MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKI  139 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l  139 (371)
                      -+.++|++..++.+.+++..+. ..++.++|++|+|||++|+.+++..   .   ..++.++.+.. ... .....+...
T Consensus        25 ~~~ivg~~~~~~~l~~~l~~~~~~~~~L~~G~~G~GKT~la~~la~~l---~---~~~~~i~~~~~-~~~-~i~~~~~~~   96 (324)
T 3u61_B           25 IDECILPAFDKETFKSITSKGKIPHIILHSPSPGTGKTTVAKALCHDV---N---ADMMFVNGSDC-KID-FVRGPLTNF   96 (324)
T ss_dssp             TTTSCCCHHHHHHHHHHHHTTCCCSEEEECSSTTSSHHHHHHHHHHHT---T---EEEEEEETTTC-CHH-HHHTHHHHH
T ss_pred             HHHHhCcHHHHHHHHHHHHcCCCCeEEEeeCcCCCCHHHHHHHHHHHh---C---CCEEEEccccc-CHH-HHHHHHHHH
Confidence            4679999999999999998654 3677888999999999999999887   1   23445554332 222 222222221


Q ss_pred             ccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCcc---cccccccccCCCCCCCcEEEEecCchH-HHh-hccCCC
Q 043737          140 NLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELV---DLSQVGLPVPCRTSASNKTVFTARELE-VCG-QMEAHK  214 (371)
Q Consensus       140 ~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~---~~~~~~~~l~~~~~~~~~iliTsR~~~-~~~-~~~~~~  214 (371)
                      ....+                 ..+++.++++||++...   ..+.+...+. ....++.+|+||.... +.. ..+...
T Consensus        97 ~~~~~-----------------~~~~~~vliiDEi~~l~~~~~~~~L~~~le-~~~~~~~iI~~~n~~~~l~~~l~sR~~  158 (324)
T 3u61_B           97 ASAAS-----------------FDGRQKVIVIDEFDRSGLAESQRHLRSFME-AYSSNCSIIITANNIDGIIKPLQSRCR  158 (324)
T ss_dssp             HHBCC-----------------CSSCEEEEEEESCCCGGGHHHHHHHHHHHH-HHGGGCEEEEEESSGGGSCTTHHHHSE
T ss_pred             Hhhcc-----------------cCCCCeEEEEECCcccCcHHHHHHHHHHHH-hCCCCcEEEEEeCCccccCHHHHhhCc
Confidence            11000                 12367799999998664   2222322222 2224567777766532 111 011234


Q ss_pred             ceeecCCChHHHHHH-------HHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHHH
Q 043737          215 SFKVERLGYEDAWKL-------FEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRA  269 (371)
Q Consensus       215 ~~~l~~L~~~ea~~l-------l~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~~  269 (371)
                      .+.+++++.++-.++       +...+.......++  .+.+..+++.++|.+..+......
T Consensus       159 ~i~~~~~~~~e~~~il~~~~~~l~~~~~~~~~~~~~--~~~~~~l~~~~~gd~R~a~~~L~~  218 (324)
T 3u61_B          159 VITFGQPTDEDKIEMMKQMIRRLTEICKHEGIAIAD--MKVVAALVKKNFPDFRKTIGELDS  218 (324)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHHHHHHHHHHTCCBSC--HHHHHHHHHHTCSCTTHHHHHHHH
T ss_pred             EEEeCCCCHHHHHHHHHHHHHHHHHHHHHcCCCCCc--HHHHHHHHHhCCCCHHHHHHHHHH
Confidence            789999998874333       22222222212222  255888999999887654433333

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.76  E-value=4.1e-08  Score=89.52  Aligned_cols=180  Identities=14%  Similarity=0.196  Sum_probs=104.5

Q ss_pred             CccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCC-eEEEEEeCCcCCHHHHHHHHHHHhc
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFD-FVIWVVASKDLQLEQIQGSIAKKIN  140 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~-~~~wv~~~~~~~~~~~~~~l~~~l~  140 (371)
                      ..++|.+..++.|..++..+..+.+.++|++|+||||+|+.++....  ...+. .+..++.+...+...+. .....+.
T Consensus        25 ~~~~g~~~~~~~L~~~i~~g~~~~~ll~Gp~G~GKTtla~~la~~l~--~~~~~~~~~~~~~~~~~~~~~ir-~~i~~~~  101 (340)
T 1sxj_C           25 DEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIY--GKNYSNMVLELNASDDRGIDVVR-NQIKDFA  101 (340)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHH--TTSHHHHEEEECTTSCCSHHHHH-THHHHHH
T ss_pred             HHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHc--CCCccceEEEEcCcccccHHHHH-HHHHHHH
Confidence            45789999999999988776655599999999999999999998862  11111 22223332222222221 1111111


Q ss_pred             cCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCcc--cccccccccCCCCCCCcEEEEecCch-HHHh-hccCCCce
Q 043737          141 LFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELV--DLSQVGLPVPCRTSASNKTVFTAREL-EVCG-QMEAHKSF  216 (371)
Q Consensus       141 ~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~--~~~~~~~~l~~~~~~~~~iliTsR~~-~~~~-~~~~~~~~  216 (371)
                      ....                ...+.+-++|+|+++...  ..+.+...+. .....+.++++|... .+.. ..+....+
T Consensus       102 ~~~~----------------~~~~~~~viiiDe~~~l~~~~~~~L~~~le-~~~~~~~~il~~n~~~~i~~~i~sR~~~~  164 (340)
T 1sxj_C          102 STRQ----------------IFSKGFKLIILDEADAMTNAAQNALRRVIE-RYTKNTRFCVLANYAHKLTPALLSQCTRF  164 (340)
T ss_dssp             HBCC----------------SSSCSCEEEEETTGGGSCHHHHHHHHHHHH-HTTTTEEEEEEESCGGGSCHHHHTTSEEE
T ss_pred             hhcc----------------cCCCCceEEEEeCCCCCCHHHHHHHHHHHh-cCCCCeEEEEEecCccccchhHHhhceeE
Confidence            0000                012346699999997542  2222222222 223455666655432 1111 11234578


Q ss_pred             eecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHH
Q 043737          217 KVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALI  264 (371)
Q Consensus       217 ~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~  264 (371)
                      .+.+++.++..+.+...+.......+   .+..+.+++.++|.+.-+.
T Consensus       165 ~~~~l~~~~~~~~l~~~~~~~~~~i~---~~~~~~i~~~s~G~~r~~~  209 (340)
T 1sxj_C          165 RFQPLPQEAIERRIANVLVHEKLKLS---PNAEKALIELSNGDMRRVL  209 (340)
T ss_dssp             ECCCCCHHHHHHHHHHHHHTTTCCBC---HHHHHHHHHHHTTCHHHHH
T ss_pred             eccCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCCHHHHH
Confidence            89999999999999887743322222   3457889999999887443

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=98.75  E-value=3.2e-08  Score=88.89  Aligned_cols=150  Identities=12%  Similarity=0.158  Sum_probs=85.5

Q ss_pred             ccccchhHHHHHHHHHh---------------cCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCC--eEEEEEeCCc
Q 043737           63 TVVGLQSTFDRVWRCLM---------------EEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFD--FVIWVVASKD  125 (371)
Q Consensus        63 ~~vGR~~~~~~l~~~L~---------------~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~--~~~wv~~~~~  125 (371)
                      .++|.+...+.|.+.+.               ......+.|+|++|+|||+||+.+++.+.. .....  ..+.++.+. 
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~-~~~~~~~~~~~~~~~~-  109 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHR-LGYVRKGHLVSVTRDD-  109 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHH-TTSSSSCCEEEECGGG-
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHh-cCCcCCCcEEEEcHHH-
Confidence            48999988888876653               223457999999999999999988887621 11111  222332111 


Q ss_pred             CCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCc-----------ccccccccccCCCCCCC
Q 043737          126 LQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWEL-----------VDLSQVGLPVPCRTSAS  194 (371)
Q Consensus       126 ~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~-----------~~~~~~~~~l~~~~~~~  194 (371)
                                   +.   ..... ........+....  ++.+|+||+++..           .....+...+. ....+
T Consensus       110 -------------l~---~~~~g-~~~~~~~~~~~~~--~~~vl~iDEid~l~~~~~~~~~~~~~~~~Ll~~l~-~~~~~  169 (309)
T 3syl_A          110 -------------LV---GQYIG-HTAPKTKEVLKRA--MGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVME-NNRDD  169 (309)
T ss_dssp             -------------TC---CSSTT-CHHHHHHHHHHHH--TTSEEEEETGGGSCCCC---CCTHHHHHHHHHHHH-HCTTT
T ss_pred             -------------hh---hhccc-ccHHHHHHHHHhc--CCCEEEEEChhhhccCCCcccccHHHHHHHHHHHh-cCCCC
Confidence                         00   00011 1111122222222  3459999999843           11222322332 33445


Q ss_pred             cEEEEecCchHH----------HhhccCCCceeecCCChHHHHHHHHHHhCC
Q 043737          195 NKTVFTARELEV----------CGQMEAHKSFKVERLGYEDAWKLFEEKVGK  236 (371)
Q Consensus       195 ~~iliTsR~~~~----------~~~~~~~~~~~l~~L~~~ea~~ll~~~~~~  236 (371)
                      ..+|+||.....          ...  ....+.+++++.++-.+++...+..
T Consensus       170 ~~~i~~~~~~~~~~~~~~~~~l~~R--~~~~i~~~~~~~~~~~~il~~~l~~  219 (309)
T 3syl_A          170 LVVILAGYADRMENFFQSNPGFRSR--IAHHIEFPDYSDEELFEIAGHMLDD  219 (309)
T ss_dssp             CEEEEEECHHHHHHHHHHSTTHHHH--EEEEEEECCCCHHHHHHHHHHHHHH
T ss_pred             EEEEEeCChHHHHHHHhhCHHHHHh--CCeEEEcCCcCHHHHHHHHHHHHHH
Confidence            677777754321          111  1267899999999999999887753

>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=98.74  E-value=1.3e-07  Score=82.65  Aligned_cols=183  Identities=10%  Similarity=0.090  Sum_probs=99.1

Q ss_pred             CccccchhHHHHHHHHHh---c---------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHH
Q 043737           62 PTVVGLQSTFDRVWRCLM---E---------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLE  129 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~---~---------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~  129 (371)
                      ..++|.+...+.|.+.+.   .         ...+.+.|+|++|+|||++|+.+++..   ...   .+.++.+.-.+  
T Consensus         6 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~---~~~---~~~~~~~~~~~--   77 (262)
T 2qz4_A            6 KDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEA---QVP---FLAMAGAEFVE--   77 (262)
T ss_dssp             TSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHH---TCC---EEEEETTTTSS--
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHh---CCC---EEEechHHHHh--
Confidence            568999988877766542   1         234578999999999999999999987   222   23344332110  


Q ss_pred             HHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc-----------------ccccccccCC-CC
Q 043737          130 QIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD-----------------LSQVGLPVPC-RT  191 (371)
Q Consensus       130 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~-----------------~~~~~~~l~~-~~  191 (371)
                                     .............+.......+.+|+||+++....                 +..+...+.. ..
T Consensus        78 ---------------~~~~~~~~~~~~~~~~a~~~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~  142 (262)
T 2qz4_A           78 ---------------VIGGLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGT  142 (262)
T ss_dssp             ---------------SSTTHHHHHHHHHHHHHHHTCSEEEEEECC-------------------CHHHHHHHHHHHTCCT
T ss_pred             ---------------hccChhHHHHHHHHHHHHhcCCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcCC
Confidence                           00011111111222222234678999999986410                 1111111110 12


Q ss_pred             CCCcEEEEecCchHH-Hhhc-c---CCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcH-HHHH
Q 043737          192 SASNKTVFTARELEV-CGQM-E---AHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPL-ALIT  265 (371)
Q Consensus       192 ~~~~~iliTsR~~~~-~~~~-~---~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl-al~~  265 (371)
                      ..+..+|.||..... .... .   -...+.++..+.++-.+++...+....  ...........+++.+.|.+- .|..
T Consensus       143 ~~~~~vi~~tn~~~~ld~~l~~~~R~~~~i~i~~p~~~~r~~il~~~~~~~~--~~~~~~~~~~~l~~~~~g~~~~~l~~  220 (262)
T 2qz4_A          143 TDHVIVLASTNRADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLK--LTQSSTFYSQRLAELTPGFSGADIAN  220 (262)
T ss_dssp             TCCEEEEEEESCGGGGGSGGGSTTSCCEEEECCSCCHHHHHHHHHHHHHHTT--CCBTHHHHHHHHHHTCTTCCHHHHHH
T ss_pred             CCCEEEEecCCChhhcCHHHhcCCcCCeEEEeCCcCHHHHHHHHHHHHHhCC--CCcchhhHHHHHHHHCCCCCHHHHHH
Confidence            234555556654332 1111 1   124678889999999999988764333  222222335778888888754 5555


Q ss_pred             HHHH
Q 043737          266 VGRA  269 (371)
Q Consensus       266 ~a~~  269 (371)
                      +...
T Consensus       221 l~~~  224 (262)
T 2qz4_A          221 ICNE  224 (262)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5443

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=98.74  E-value=6.4e-07  Score=80.87  Aligned_cols=181  Identities=12%  Similarity=0.116  Sum_probs=104.3

Q ss_pred             CccccchhHHHHHHHHHhc------------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHH
Q 043737           62 PTVVGLQSTFDRVWRCLME------------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLE  129 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~  129 (371)
                      ..++|.+...+.|.+.+..            ...+.|.|+|++|+|||+||+.+++...   .  ...+.++.+.-.+  
T Consensus        12 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~---~--~~~~~i~~~~l~~--   84 (322)
T 1xwi_A           12 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEAN---N--STFFSISSSDLVS--   84 (322)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHTT---S--CEEEEEECCSSCC--
T ss_pred             HHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHcC---C--CcEEEEEhHHHHh--
Confidence            5689999888888776631            1346899999999999999999998861   1  1223333332110  


Q ss_pred             HHHHHHHHHhccCCCCCCcCCHHHHHHHHHHH-hCCCceEEEEeCCCCccc-------------ccccccccCC--CCCC
Q 043737          130 QIQGSIAKKINLFNESWNSRSLQEKSQDIVKN-MSNKKFVLLLDHIWELVD-------------LSQVGLPVPC--RTSA  193 (371)
Q Consensus       130 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~-l~~~~~LlVlDdv~~~~~-------------~~~~~~~l~~--~~~~  193 (371)
                                     ...... +.....+... ...++.+|+||+++....             ...+...+..  ....
T Consensus        85 ---------------~~~g~~-~~~~~~lf~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~  148 (322)
T 1xwi_A           85 ---------------KWLGES-EKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDND  148 (322)
T ss_dssp             ---------------SSCCSC-HHHHHHHHHHHHHTSSEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHHHCSSSCCT
T ss_pred             ---------------hhhhHH-HHHHHHHHHHHHhcCCcEEEeecHHHhccccccccchHHHHHHHHHHHHHhcccccCC
Confidence                           001112 2222233322 235678999999975411             0111111110  1234


Q ss_pred             CcEEEEecCchH-----HHhhccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCC-cHHHHHHH
Q 043737          194 SNKTVFTARELE-----VCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGL-PLALITVG  267 (371)
Q Consensus       194 ~~~iliTsR~~~-----~~~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~-Plal~~~a  267 (371)
                      +..||.||....     +.+  .-...+.++..+.++-.+++...+.......   .......|++.+.|. +-.|..++
T Consensus       149 ~v~vI~atn~~~~ld~al~r--Rf~~~i~i~~P~~~~r~~il~~~l~~~~~~l---~~~~l~~la~~t~G~sgadl~~l~  223 (322)
T 1xwi_A          149 GILVLGATNIPWVLDSAIRR--RFEKRIYIPLPEPHARAAMFKLHLGTTQNSL---TEADFRELGRKTDGYSGADISIIV  223 (322)
T ss_dssp             TEEEEEEESCTTTSCHHHHH--TCCEEEECCCCCHHHHHHHHHHHHTTCCBCC---CHHHHHHHHHTCTTCCHHHHHHHH
T ss_pred             CEEEEEecCCcccCCHHHHh--hcCeEEEeCCcCHHHHHHHHHHHHhcCCCCC---CHHHHHHHHHHcCCCCHHHHHHHH
Confidence            445555554321     122  2235678888899999999988875443211   234578899999887 55566665


Q ss_pred             HHH
Q 043737          268 RAM  270 (371)
Q Consensus       268 ~~l  270 (371)
                      ...
T Consensus       224 ~~A  226 (322)
T 1xwi_A          224 RDA  226 (322)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

>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=98.70  E-value=3.5e-07  Score=83.88  Aligned_cols=181  Identities=11%  Similarity=0.032  Sum_probs=103.6

Q ss_pred             CccccchhHHHHHHHHHhc------------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHH
Q 043737           62 PTVVGLQSTFDRVWRCLME------------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLE  129 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~  129 (371)
                      ..++|.+..++.|.+.+..            ...+.|.|+|++|+|||+||+.++...   ..   ..+.++.+.-..  
T Consensus        84 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~---~~---~~~~i~~~~l~~--  155 (357)
T 3d8b_A           84 EDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQS---GA---TFFSISASSLTS--  155 (357)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHHT---TC---EEEEEEGGGGCC--
T ss_pred             HHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHHc---CC---eEEEEehHHhhc--
Confidence            4689999999999887642            345689999999999999999999886   22   233444432110  


Q ss_pred             HHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHh-CCCceEEEEeCCCCccc-------------ccccccccC---CCCC
Q 043737          130 QIQGSIAKKINLFNESWNSRSLQEKSQDIVKNM-SNKKFVLLLDHIWELVD-------------LSQVGLPVP---CRTS  192 (371)
Q Consensus       130 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~~~-------------~~~~~~~l~---~~~~  192 (371)
                                     . ...........+.... ..++.+|+||+++....             ...+...+.   ....
T Consensus       156 ---------------~-~~g~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~  219 (357)
T 3d8b_A          156 ---------------K-WVGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGATTSSE  219 (357)
T ss_dssp             ---------------S-STTHHHHHHHHHHHHHHHTCSEEEEEETHHHHTBC------CHHHHHHHHHHHHHHC----CC
T ss_pred             ---------------c-ccchHHHHHHHHHHHHHhcCCeEEEEeCchhhhccCCCCcchHHHHHHHHHHHHHhcccccCC
Confidence                           0 0001112222222222 35678999999964311             111111111   0122


Q ss_pred             CCcEEEEecCchH-HHhh-c-cCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCC-CcHHHHHHHH
Q 043737          193 ASNKTVFTARELE-VCGQ-M-EAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGG-LPLALITVGR  268 (371)
Q Consensus       193 ~~~~iliTsR~~~-~~~~-~-~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g-~Plal~~~a~  268 (371)
                      .+..||.||.... +... . .-...+.+...+.++..+++...+.......   ..+....|++.+.| .+..|..++.
T Consensus       220 ~~v~vI~atn~~~~l~~~l~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~l---~~~~l~~la~~t~G~s~~dl~~l~~  296 (357)
T 3d8b_A          220 DRILVVGATNRPQEIDEAARRRLVKRLYIPLPEASARKQIVINLMSKEQCCL---SEEEIEQIVQQSDAFSGADMTQLCR  296 (357)
T ss_dssp             CCEEEEEEESCGGGBCHHHHTTCCEEEECCCCCHHHHHHHHHHHHHTSCBCC---CHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             CCEEEEEecCChhhCCHHHHhhCceEEEeCCcCHHHHHHHHHHHHhhcCCCc---cHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            3445555554422 1111 1 1224678888899999999888764432111   24557889999998 5666766654


Q ss_pred             H
Q 043737          269 A  269 (371)
Q Consensus       269 ~  269 (371)
                      .
T Consensus       297 ~  297 (357)
T 3d8b_A          297 E  297 (357)
T ss_dssp             H
T ss_pred             H
Confidence            4

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=98.69  E-value=4.7e-08  Score=80.56  Aligned_cols=47  Identities=23%  Similarity=0.266  Sum_probs=42.3

Q ss_pred             CCccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           61 PPTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -..++||+.+++.+.+.+.....+.+.|+|++|+|||+||+.+++..
T Consensus        21 ~~~~~g~~~~~~~l~~~l~~~~~~~vll~G~~G~GKT~la~~~~~~~   67 (187)
T 2p65_A           21 LDPVIGRDTEIRRAIQILSRRTKNNPILLGDPGVGKTAIVEGLAIKI   67 (187)
T ss_dssp             SCCCCSCHHHHHHHHHHHTSSSSCEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             cchhhcchHHHHHHHHHHhCCCCCceEEECCCCCCHHHHHHHHHHHH
Confidence            35689999999999999977667788999999999999999999886

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=98.67  E-value=6.6e-07  Score=79.80  Aligned_cols=178  Identities=11%  Similarity=0.057  Sum_probs=101.4

Q ss_pred             CccccchhHHHHHHHHHhc------------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHH
Q 043737           62 PTVVGLQSTFDRVWRCLME------------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLE  129 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~  129 (371)
                      ..++|.+..++.|.+.+..            ...+.+.|+|++|+|||+||+.++...   ..   ..+.++.+....  
T Consensus        21 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~---~~---~~~~i~~~~l~~--   92 (297)
T 3b9p_A           21 TDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATEC---SA---TFLNISAASLTS--   92 (297)
T ss_dssp             GGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHT---TC---EEEEEESTTTSS--
T ss_pred             HHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHh---CC---CeEEeeHHHHhh--
Confidence            5689999999998887632            235689999999999999999999886   22   223344322110  


Q ss_pred             HHHHHHHHHhccCCCCCCcCCHHHHHHHHHHH-hCCCceEEEEeCCCCcccc-------------ccccc---ccCC-CC
Q 043737          130 QIQGSIAKKINLFNESWNSRSLQEKSQDIVKN-MSNKKFVLLLDHIWELVDL-------------SQVGL---PVPC-RT  191 (371)
Q Consensus       130 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~-l~~~~~LlVlDdv~~~~~~-------------~~~~~---~l~~-~~  191 (371)
                                     . ...........+... ....+.+|+||+++....-             ..+..   ..+. ..
T Consensus        93 ---------------~-~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  156 (297)
T 3b9p_A           93 ---------------K-YVGDGEKLVRALFAVARHMQPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPGNPD  156 (297)
T ss_dssp             ---------------S-SCSCHHHHHHHHHHHHHHTCSEEEEEETGGGTSBCC-----CCSHHHHHHHHHHHHHCC----
T ss_pred             ---------------c-ccchHHHHHHHHHHHHHHcCCcEEEeccHHHhccccccCcchHHHHHHHHHHHHHhcccccCC
Confidence                           0 111122222222222 2356789999999754210             00110   1110 11


Q ss_pred             CCCcEEEEecCchH-----HHhhccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcH-HHHH
Q 043737          192 SASNKTVFTARELE-----VCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPL-ALIT  265 (371)
Q Consensus       192 ~~~~~iliTsR~~~-----~~~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl-al~~  265 (371)
                      ..+..||.||....     +.+.  -...+.++..+.++-..++...+......   -..+....+++.+.|.+- .|..
T Consensus       157 ~~~v~vi~~tn~~~~l~~~l~~R--~~~~i~~~~p~~~~r~~il~~~~~~~~~~---~~~~~~~~la~~~~g~~~~~l~~  231 (297)
T 3b9p_A          157 GDRIVVLAATNRPQELDEAALRR--FTKRVYVSLPDEQTRELLLNRLLQKQGSP---LDTEALRRLAKITDGYSGSDLTA  231 (297)
T ss_dssp             --CEEEEEEESCGGGBCHHHHHH--CCEEEECCCCCHHHHHHHHHHHHGGGSCC---SCHHHHHHHHHHTTTCCHHHHHH
T ss_pred             CCcEEEEeecCChhhCCHHHHhh--CCeEEEeCCcCHHHHHHHHHHHHHhcCCC---CCHHHHHHHHHHcCCCCHHHHHH
Confidence            13445555665432     2221  22456777778888888887776433211   123457889999999875 6655


Q ss_pred             HHH
Q 043737          266 VGR  268 (371)
Q Consensus       266 ~a~  268 (371)
                      +..
T Consensus       232 l~~  234 (297)
T 3b9p_A          232 LAK  234 (297)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            544

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=98.67  E-value=6.6e-07  Score=83.05  Aligned_cols=181  Identities=10%  Similarity=0.052  Sum_probs=100.6

Q ss_pred             CccccchhHHHHHHHHHhc------------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHH
Q 043737           62 PTVVGLQSTFDRVWRCLME------------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLE  129 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~  129 (371)
                      ..++|.+..++.|..++..            ...+.|.|+|++|+|||+||+.++...   ..   ..+.++++.-.+  
T Consensus       115 ~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~---~~---~~~~v~~~~l~~--  186 (389)
T 3vfd_A          115 DDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAES---NA---TFFNISAASLTS--  186 (389)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHT---TC---EEEEECSCCC----
T ss_pred             HHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhh---cC---cEEEeeHHHhhc--
Confidence            5689999999999888732            234689999999999999999998886   22   223333322111  


Q ss_pred             HHHHHHHHHhccCCCCCCcCCHHHHHHHHHHH-hCCCceEEEEeCCCCccc-------------ccccccc---cCCCCC
Q 043737          130 QIQGSIAKKINLFNESWNSRSLQEKSQDIVKN-MSNKKFVLLLDHIWELVD-------------LSQVGLP---VPCRTS  192 (371)
Q Consensus       130 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~-l~~~~~LlVlDdv~~~~~-------------~~~~~~~---l~~~~~  192 (371)
                      ..               .... ......+... ....+.+|+||+++....             ...+...   +.....
T Consensus       187 ~~---------------~g~~-~~~~~~~~~~a~~~~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  250 (389)
T 3vfd_A          187 KY---------------VGEG-EKLVRALFAVARELQPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQSAGD  250 (389)
T ss_dssp             --------------------C-HHHHHHHHHHHHHSSSEEEEEETGGGGC--------CTHHHHHHHHHHHHHHHC----
T ss_pred             cc---------------cchH-HHHHHHHHHHHHhcCCeEEEEECchhhcccCCCccchHHHHHHHHHHHHhhcccccCC
Confidence            00               0011 1112222222 234567999999975411             0011000   110112


Q ss_pred             CCcEEEEecCchH-HHhh-ccC-CCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcH-HHHHHHH
Q 043737          193 ASNKTVFTARELE-VCGQ-MEA-HKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPL-ALITVGR  268 (371)
Q Consensus       193 ~~~~iliTsR~~~-~~~~-~~~-~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl-al~~~a~  268 (371)
                      ....||.||.... +... ... ...+.+...+.++-.+++...+......   -..+....|++.+.|..- .|..+..
T Consensus       251 ~~v~vI~atn~~~~l~~~l~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~---l~~~~~~~la~~~~g~~~~~l~~L~~  327 (389)
T 3vfd_A          251 DRVLVMGATNRPQELDEAVLRRFIKRVYVSLPNEETRLLLLKNLLCKQGSP---LTQKELAQLARMTDGYSGSDLTALAK  327 (389)
T ss_dssp             -CEEEEEEESCGGGCCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCCC---SCHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             CCEEEEEecCCchhcCHHHHcCcceEEEcCCcCHHHHHHHHHHHHHhcCCC---CCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            3344555554422 1111 112 2457888899999999998887553322   223457889999988644 6665544


Q ss_pred             H
Q 043737          269 A  269 (371)
Q Consensus       269 ~  269 (371)
                      .
T Consensus       328 ~  328 (389)
T 3vfd_A          328 D  328 (389)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=98.67  E-value=3.5e-07  Score=82.62  Aligned_cols=179  Identities=14%  Similarity=0.103  Sum_probs=104.4

Q ss_pred             CccccchhHHHHHHHHHhc------------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHH
Q 043737           62 PTVVGLQSTFDRVWRCLME------------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLE  129 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~  129 (371)
                      ..++|.+..++.|.+.+.-            ...+.+.|+|++|+|||+||+.+++..   ...   .+.++.+      
T Consensus        18 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~---~~~---~~~v~~~------   85 (322)
T 3eie_A           18 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEA---NST---FFSVSSS------   85 (322)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHH---TCE---EEEEEHH------
T ss_pred             HHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHH---CCC---EEEEchH------
Confidence            5689999999999887731            124679999999999999999999887   222   2233221      


Q ss_pred             HHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHh-CCCceEEEEeCCCCccc-------------ccccccccCC--CCCC
Q 043737          130 QIQGSIAKKINLFNESWNSRSLQEKSQDIVKNM-SNKKFVLLLDHIWELVD-------------LSQVGLPVPC--RTSA  193 (371)
Q Consensus       130 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~~~-------------~~~~~~~l~~--~~~~  193 (371)
                      ++.    ..        .....+.....+.... ..++.+|+||+++....             ...+...+..  ....
T Consensus        86 ~l~----~~--------~~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  153 (322)
T 3eie_A           86 DLV----SK--------WMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQ  153 (322)
T ss_dssp             HHH----TT--------TGGGHHHHHHHHHHHHHHTSSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGGTSCC
T ss_pred             HHh----hc--------ccchHHHHHHHHHHHHHhcCCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhccccccCC
Confidence            111    00        0111222233333222 35678999999975421             1111111110  1234


Q ss_pred             CcEEEEecCchHH-----HhhccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCC-CcHHHHHHH
Q 043737          194 SNKTVFTARELEV-----CGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGG-LPLALITVG  267 (371)
Q Consensus       194 ~~~iliTsR~~~~-----~~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g-~Plal~~~a  267 (371)
                      +..||.||.....     .+  .-...+.++..+.++-.+++...+.......   .......|++.+.| .+-.|..++
T Consensus       154 ~v~vi~atn~~~~ld~al~~--Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~---~~~~l~~la~~t~g~sg~di~~l~  228 (322)
T 3eie_A          154 GVLVLGATNIPWQLDSAIRR--RFERRIYIPLPDLAARTTMFEINVGDTPCVL---TKEDYRTLGAMTEGYSGSDIAVVV  228 (322)
T ss_dssp             CEEEEEEESCGGGSCHHHHH--HCCEEEECCCCCHHHHHHHHHHHHTTCCCCC---CHHHHHHHHHTTTTCCHHHHHHHH
T ss_pred             ceEEEEecCChhhCCHHHHc--ccCeEEEeCCCCHHHHHHHHHHHhccCCCCC---CHHHHHHHHHHcCCCCHHHHHHHH
Confidence            4555556654321     22  2234678888999999999998886543211   23457888898887 455666554


Q ss_pred             HH
Q 043737          268 RA  269 (371)
Q Consensus       268 ~~  269 (371)
                      ..
T Consensus       229 ~~  230 (322)
T 3eie_A          229 KD  230 (322)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=98.64  E-value=2.8e-07  Score=84.44  Aligned_cols=178  Identities=15%  Similarity=0.123  Sum_probs=102.5

Q ss_pred             CccccchhHHHHHHHHHhc------------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHH
Q 043737           62 PTVVGLQSTFDRVWRCLME------------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLE  129 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~  129 (371)
                      ..++|.+..++.|...+..            ...+.|.|+|++|+|||+||+.+++..   ...   .+.++.+      
T Consensus        51 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~---~~~---~~~v~~~------  118 (355)
T 2qp9_X           51 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEA---NST---FFSVSSS------  118 (355)
T ss_dssp             GGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHH---TCE---EEEEEHH------
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHh---CCC---EEEeeHH------
Confidence            5689999999999887631            123568999999999999999999987   222   2223221      


Q ss_pred             HHHHHHHHHhccCCCCCCcCCHHHHHHHHHHH-hCCCceEEEEeCCCCccc-------------ccccccccCC--CCCC
Q 043737          130 QIQGSIAKKINLFNESWNSRSLQEKSQDIVKN-MSNKKFVLLLDHIWELVD-------------LSQVGLPVPC--RTSA  193 (371)
Q Consensus       130 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~-l~~~~~LlVlDdv~~~~~-------------~~~~~~~l~~--~~~~  193 (371)
                      ++..    ..       .... +.....+... ...++.+|+||+++....             ...+...+..  ....
T Consensus       119 ~l~~----~~-------~g~~-~~~~~~~f~~a~~~~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~~~~~  186 (355)
T 2qp9_X          119 DLVS----KW-------MGES-EKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQ  186 (355)
T ss_dssp             HHHS----CC----------C-HHHHHHHHHHHHHTSSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC---C
T ss_pred             HHhh----hh-------cchH-HHHHHHHHHHHHHcCCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhcccccCC
Confidence            1111    00       1111 2222222222 235778999999985421             1111111110  1233


Q ss_pred             CcEEEEecCchH-----HHhhccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCC-CcHHHHHHH
Q 043737          194 SNKTVFTARELE-----VCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGG-LPLALITVG  267 (371)
Q Consensus       194 ~~~iliTsR~~~-----~~~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g-~Plal~~~a  267 (371)
                      +..||.||....     +.+  .-...+.++..+.++-.+++...+.......   .......|++.+.| .+-.|..++
T Consensus       187 ~v~vI~atn~~~~ld~al~r--Rf~~~i~i~~P~~~~r~~il~~~l~~~~~~~---~~~~l~~la~~t~G~sg~dl~~l~  261 (355)
T 2qp9_X          187 GVLVLGATNIPWQLDSAIRR--RFERRIYIPLPDLAARTTMFEINVGDTPSVL---TKEDYRTLGAMTEGYSGSDIAVVV  261 (355)
T ss_dssp             CEEEEEEESCGGGSCHHHHH--TCCEEEECCCCCHHHHHHHHHHHHTTSCBCC---CHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             CeEEEeecCCcccCCHHHHc--ccCEEEEeCCcCHHHHHHHHHHHHhhCCCCC---CHHHHHHHHHHcCCCCHHHHHHHH
Confidence            445555555432     222  2235678888999999999998876543211   23457889999988 455566555


Q ss_pred             H
Q 043737          268 R  268 (371)
Q Consensus       268 ~  268 (371)
                      .
T Consensus       262 ~  262 (355)
T 2qp9_X          262 K  262 (355)
T ss_dssp             H
T ss_pred             H
Confidence            4

>2gno_A DNA polymerase III, gamma subunit-related protein; structural genomics, joint center for structural genomics, J protein structure initiative; HET: DNA; 2.00A {Thermotoga maritima} SCOP: a.80.1.1 c.37.1.20

Probab=98.64  E-value=2.1e-07  Score=83.17  Aligned_cols=148  Identities=10%  Similarity=0.073  Sum_probs=90.8

Q ss_pred             cchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCC-cCCHHHHHHHHHHHhccCCC
Q 043737           66 GLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASK-DLQLEQIQGSIAKKINLFNE  144 (371)
Q Consensus        66 GR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~l~~~l~~~~~  144 (371)
                      |-++.++.|...+.+++.+.+.++|++|+|||++|..+++........+..+.+++.+. ..+++.+ +++...+.... 
T Consensus         1 g~~~~~~~L~~~i~~~~~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~~~~~~~~id~i-r~li~~~~~~p-   78 (305)
T 2gno_A            1 GAKDQLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDI-RTIKDFLNYSP-   78 (305)
T ss_dssp             ---CHHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHHH-HHHHHHHTSCC-
T ss_pred             ChHHHHHHHHHHHHCCCCcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEcCCcCCCCHHHH-HHHHHHHhhcc-
Confidence            45667788888887766789999999999999999999875311112222345555432 2333333 33444443211 


Q ss_pred             CCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCcc--cccccccccCCCCCCCcEEEEec-CchHHHhhccCCCceeecCC
Q 043737          145 SWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELV--DLSQVGLPVPCRTSASNKTVFTA-RELEVCGQMEAHKSFKVERL  221 (371)
Q Consensus       145 ~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~--~~~~~~~~l~~~~~~~~~iliTs-R~~~~~~~~~~~~~~~l~~L  221 (371)
                                       ..+++-++|+|+++...  ..+.+...+. ....++.+|++| ....+....... .+++.++
T Consensus        79 -----------------~~~~~kvviIdead~lt~~a~naLLk~LE-ep~~~t~fIl~t~~~~kl~~tI~SR-~~~f~~l  139 (305)
T 2gno_A           79 -----------------ELYTRKYVIVHDCERMTQQAANAFLKALE-EPPEYAVIVLNTRRWHYLLPTIKSR-VFRVVVN  139 (305)
T ss_dssp             -----------------SSSSSEEEEETTGGGBCHHHHHHTHHHHH-SCCTTEEEEEEESCGGGSCHHHHTT-SEEEECC
T ss_pred             -----------------ccCCceEEEeccHHHhCHHHHHHHHHHHh-CCCCCeEEEEEECChHhChHHHHce-eEeCCCC
Confidence                             02445699999998653  2333444443 334455665554 333443333334 8999999


Q ss_pred             ChHHHHHHHHHHh
Q 043737          222 GYEDAWKLFEEKV  234 (371)
Q Consensus       222 ~~~ea~~ll~~~~  234 (371)
                      +.++..+++....
T Consensus       140 ~~~~i~~~L~~~~  152 (305)
T 2gno_A          140 VPKEFRDLVKEKI  152 (305)
T ss_dssp             CCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHh
Confidence            9999999998876

>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=98.60  E-value=7.8e-07  Score=79.53  Aligned_cols=174  Identities=13%  Similarity=0.111  Sum_probs=99.3

Q ss_pred             CccccchhHHHHHHHHHhc-------------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCH
Q 043737           62 PTVVGLQSTFDRVWRCLME-------------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQL  128 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~-------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~  128 (371)
                      ..++|.+..+++|.+++..             ...+.+.|+|++|+|||+||+.++...   ...     ++.++    .
T Consensus        15 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~---~~~-----~i~v~----~   82 (301)
T 3cf0_A           15 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC---QAN-----FISIK----G   82 (301)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHT---TCE-----EEEEC----H
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHh---CCC-----EEEEE----h
Confidence            4689999988888877642             345689999999999999999999887   221     22222    2


Q ss_pred             HHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc----------------ccccccccC-CCC
Q 043737          129 EQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD----------------LSQVGLPVP-CRT  191 (371)
Q Consensus       129 ~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~----------------~~~~~~~l~-~~~  191 (371)
                      .++...+   .+.     ...   .....+.......+.+++||+++....                ...+...+. ...
T Consensus        83 ~~l~~~~---~g~-----~~~---~~~~~f~~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~~~  151 (301)
T 3cf0_A           83 PELLTMW---FGE-----SEA---NVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMST  151 (301)
T ss_dssp             HHHHHHH---HTT-----CTT---HHHHHHHHHHHTCSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSSCT
T ss_pred             HHHHhhh---cCc-----hHH---HHHHHHHHHHhcCCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhcccC
Confidence            2332222   111     111   112222222235688999999974210                111111111 012


Q ss_pred             CCCcEEEEecCchH-HHhh-cc---CCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHH
Q 043737          192 SASNKTVFTARELE-VCGQ-ME---AHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLA  262 (371)
Q Consensus       192 ~~~~~iliTsR~~~-~~~~-~~---~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pla  262 (371)
                      ..+..||.||.... +... ..   -...+.++..+.++-.+++...+.......+.+    ...++..+.|.|-+
T Consensus       152 ~~~v~vi~atn~~~~ld~al~r~gRf~~~i~i~~p~~~~r~~il~~~l~~~~~~~~~~----~~~la~~~~g~sg~  223 (301)
T 3cf0_A          152 KKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVD----LEFLAKMTNGFSGA  223 (301)
T ss_dssp             TSSEEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCSSCC----HHHHHHTCSSCCHH
T ss_pred             CCCEEEEEecCCccccChHHhcCCccceEEecCCcCHHHHHHHHHHHHccCCCCccch----HHHHHHHcCCCCHH
Confidence            33556666665442 2111 11   224688999999999999988876544332233    35566678887654

>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=98.58  E-value=1.5e-06  Score=82.04  Aligned_cols=183  Identities=12%  Similarity=0.088  Sum_probs=102.4

Q ss_pred             CccccchhHHHHHHHHHhc------------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHH
Q 043737           62 PTVVGLQSTFDRVWRCLME------------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLE  129 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~  129 (371)
                      ..++|.+...+.|...+..            ...+.|.|+|++|+|||+||+.++....   .    ..++.++..    
T Consensus       134 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~~---~----~~~~~v~~~----  202 (444)
T 2zan_A          134 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEAN---N----STFFSISSS----  202 (444)
T ss_dssp             GGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHCC---S----SEEEEECCC----
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHcC---C----CCEEEEeHH----
Confidence            4589999998888887631            2346899999999999999999998861   1    122333221    


Q ss_pred             HHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc-------------ccccccccCC--CCCCC
Q 043737          130 QIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD-------------LSQVGLPVPC--RTSAS  194 (371)
Q Consensus       130 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~-------------~~~~~~~l~~--~~~~~  194 (371)
                      ++....   .+.     ............   ....+.+|+||+++....             ...+...+..  ....+
T Consensus       203 ~l~~~~---~g~-----~~~~~~~~f~~a---~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~  271 (444)
T 2zan_A          203 DLVSKW---LGE-----SEKLVKNLFQLA---RENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDG  271 (444)
T ss_dssp             -----------------CCCTHHHHHHHH---HHSCSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTCSSCCCSS
T ss_pred             HHHhhh---cch-----HHHHHHHHHHHH---HHcCCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhCcccCCCC
Confidence            111111   110     111222222211   235678999999985411             1111111210  12345


Q ss_pred             cEEEEecCchHH-Hhh-c-cCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCC-cHHHHHHHHH
Q 043737          195 NKTVFTARELEV-CGQ-M-EAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGL-PLALITVGRA  269 (371)
Q Consensus       195 ~~iliTsR~~~~-~~~-~-~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~-Plal~~~a~~  269 (371)
                      ..||.||..... ... . .-...+.++..+.++-..++...+.......   .......|++.+.|. +-.|..++..
T Consensus       272 v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~l---~~~~l~~la~~t~G~sgadl~~l~~~  347 (444)
T 2zan_A          272 ILVLGATNIPWVLDSAIRRRFEKRIYIPLPEAHARAAMFRLHLGSTQNSL---TEADFQELGRKTDGYSGADISIIVRD  347 (444)
T ss_dssp             CEEEEEESCGGGSCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCEEC---CHHHHHHHHHHTTTCCHHHHHHHHHH
T ss_pred             EEEEecCCCccccCHHHHhhcceEEEeCCcCHHHHHHHHHHHHhcCCCCC---CHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence            556656654321 111 1 1224677888888888999988875433111   234578899999884 5566665543

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.56  E-value=3.4e-06  Score=77.44  Aligned_cols=170  Identities=15%  Similarity=0.117  Sum_probs=96.8

Q ss_pred             ccccchhHHHHHHHHHhc-------------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHH
Q 043737           63 TVVGLQSTFDRVWRCLME-------------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLE  129 (371)
Q Consensus        63 ~~vGR~~~~~~l~~~L~~-------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~  129 (371)
                      ++.|-++..++|.+.+.-             ...+-|.++||+|+|||.||+.++...   ...   .+.++.+.-.+  
T Consensus       149 dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~---~~~---f~~v~~s~l~s--  220 (405)
T 4b4t_J          149 MVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHT---DCK---FIRVSGAELVQ--  220 (405)
T ss_dssp             GSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHH---TCE---EEEEEGGGGSC--
T ss_pred             HhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhh---CCC---ceEEEhHHhhc--
Confidence            367888888877766531             245789999999999999999999998   322   23333322110  


Q ss_pred             HHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHh-CCCceEEEEeCCCCccc----------------ccccccccC-CCC
Q 043737          130 QIQGSIAKKINLFNESWNSRSLQEKSQDIVKNM-SNKKFVLLLDHIWELVD----------------LSQVGLPVP-CRT  191 (371)
Q Consensus       130 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~~~----------------~~~~~~~l~-~~~  191 (371)
                                     .+... .+..+..+.... ...+++|+||+++....                +..+...+. ...
T Consensus       221 ---------------k~vGe-se~~vr~lF~~Ar~~aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~  284 (405)
T 4b4t_J          221 ---------------KYIGE-GSRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFET  284 (405)
T ss_dssp             ---------------SSTTH-HHHHHHHHHHHHHHTCSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTTC
T ss_pred             ---------------cccch-HHHHHHHHHHHHHHhCCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccCC
Confidence                           00111 112222222222 35789999999984311                111111111 122


Q ss_pred             CCCcEEEEecCc-hHH----HhhccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCc
Q 043737          192 SASNKTVFTARE-LEV----CGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLP  260 (371)
Q Consensus       192 ~~~~~iliTsR~-~~~----~~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~P  260 (371)
                      ..+..||.||.. ..+    .+...-...+.++.-+.++-.++|+.++.......+-+    ...|++.+.|.-
T Consensus       285 ~~~V~vIaATNrpd~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~l~~dvd----l~~lA~~t~G~S  354 (405)
T 4b4t_J          285 SKNIKIIMATNRLDILDPALLRPGRIDRKIEFPPPSVAARAEILRIHSRKMNLTRGIN----LRKVAEKMNGCS  354 (405)
T ss_dssp             CCCEEEEEEESCSSSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSBCCSSCC----HHHHHHHCCSCC
T ss_pred             CCCeEEEeccCChhhCCHhHcCCCcCceEEEcCCcCHHHHHHHHHHHhcCCCCCccCC----HHHHHHHCCCCC
Confidence            334445555543 222    21112346788888889999999988876654333333    567778888754

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=98.56  E-value=5.6e-07  Score=85.53  Aligned_cols=150  Identities=13%  Similarity=0.153  Sum_probs=83.1

Q ss_pred             CccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCC--CCC-C-eEEEEEeCCcCCHHHHHHHHHH
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTP--NDF-D-FVIWVVASKDLQLEQIQGSIAK  137 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~--~~f-~-~~~wv~~~~~~~~~~~~~~l~~  137 (371)
                      +.++||+.++.++...+.......+.|+|++|+|||++|+.+++......  ... + .++.++++             .
T Consensus       180 d~iiGr~~~i~~l~~~l~r~~~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~-------------~  246 (468)
T 3pxg_A          180 DPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMG-------------T  246 (468)
T ss_dssp             CCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC-----------------
T ss_pred             CCccCcHHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeCC-------------c
Confidence            46899999999999999776666789999999999999999998862111  001 1 12222222             0


Q ss_pred             HhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCcccccccccccCCCCCCCcEEEEecCchHHH-------hhc
Q 043737          138 KINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLSQVGLPVPCRTSASNKTVFTARELEVC-------GQM  210 (371)
Q Consensus       138 ~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~~~~~~~~l~~~~~~~~~iliTsR~~~~~-------~~~  210 (371)
                      ..   ... ...........   .-..++.+|++|  ........+...+   .....++|.+|......       ...
T Consensus       247 ~~---~g~-~e~~~~~~~~~---~~~~~~~iLfiD--~~~~a~~~L~~~L---~~g~v~vI~at~~~e~~~~~~~~~al~  314 (468)
T 3pxg_A          247 KY---RGE-FEDRLKKVMDE---IRQAGNIILFID--AAIDASNILKPSL---ARGELQCIGATTLDEYRKYIEKDAALE  314 (468)
T ss_dssp             ----------CTTHHHHHHH---HHTCCCCEEEEC--C--------CCCT---TSSSCEEEEECCTTTTHHHHTTCSHHH
T ss_pred             cc---cch-HHHHHHHHHHH---HHhcCCeEEEEe--CchhHHHHHHHhh---cCCCEEEEecCCHHHHHHHhhcCHHHH
Confidence            00   000 01111222222   223567899999  1222222222222   23345566555443310       011


Q ss_pred             cCCCceeecCCChHHHHHHHHHHhCC
Q 043737          211 EAHKSFKVERLGYEDAWKLFEEKVGK  236 (371)
Q Consensus       211 ~~~~~~~l~~L~~~ea~~ll~~~~~~  236 (371)
                      .....+.+++.+.++..+++......
T Consensus       315 ~Rf~~i~v~~p~~e~~~~iL~~~~~~  340 (468)
T 3pxg_A          315 RRFQPIQVDQPSVDESIQILQGLRDR  340 (468)
T ss_dssp             HSEEEEECCCCCHHHHHHHHHHTTTT
T ss_pred             HhCccceeCCCCHHHHHHHHHHHHHH
Confidence            22346899999999999999877643

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=98.53  E-value=3e-07  Score=93.94  Aligned_cols=154  Identities=12%  Similarity=0.178  Sum_probs=86.2

Q ss_pred             CccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCC--CC--CCeEEEEEeCCcCCHHHHHHHHHH
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTP--ND--FDFVIWVVASKDLQLEQIQGSIAK  137 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~--~~--f~~~~wv~~~~~~~~~~~~~~l~~  137 (371)
                      +.++||+.++.++.+.+.....+.+.|+|++|+|||+||+.+++......  ..  -..+++++++.-..          
T Consensus       170 d~viGr~~~i~~l~~~l~~~~~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~l~~----------  239 (854)
T 1qvr_A          170 DPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLA----------  239 (854)
T ss_dssp             CCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC---------------
T ss_pred             cccCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHHhhc----------
Confidence            56899999999999999776666789999999999999999998862111  11  12344444322100          


Q ss_pred             HhccCCCCCCcCCHHHHHHHHHHHhC--CCceEEEEeCCCCccc-------cc---ccccccCCCCCCCcEEEEecCchH
Q 043737          138 KINLFNESWNSRSLQEKSQDIVKNMS--NKKFVLLLDHIWELVD-------LS---QVGLPVPCRTSASNKTVFTARELE  205 (371)
Q Consensus       138 ~l~~~~~~~~~~~~~~~~~~l~~~l~--~~~~LlVlDdv~~~~~-------~~---~~~~~l~~~~~~~~~iliTsR~~~  205 (371)
                        +..    ...........+...+.  +++.+|+||+++....       .+   .+...+.   ..+..+|.+|....
T Consensus       240 --g~~----~~g~~~~~l~~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~g~~~~~~~L~~~l~---~~~i~~I~at~~~~  310 (854)
T 1qvr_A          240 --GAK----YRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALA---RGELRLIGATTLDE  310 (854)
T ss_dssp             ------------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHH---TTCCCEEEEECHHH
T ss_pred             --cCc----cchHHHHHHHHHHHHHHhcCCCeEEEEecHHHHhccCCccchHHHHHHHHHHHh---CCCeEEEEecCchH
Confidence              000    11122333333333332  3678999999976431       11   1111111   23344555554433


Q ss_pred             HH------hhccCCCceeecCCChHHHHHHHHHHh
Q 043737          206 VC------GQMEAHKSFKVERLGYEDAWKLFEEKV  234 (371)
Q Consensus       206 ~~------~~~~~~~~~~l~~L~~~ea~~ll~~~~  234 (371)
                      ..      ........+.+++++.++..++++...
T Consensus       311 ~~~~~~d~aL~rRf~~i~l~~p~~~e~~~iL~~~~  345 (854)
T 1qvr_A          311 YREIEKDPALERRFQPVYVDEPTVEETISILRGLK  345 (854)
T ss_dssp             HHHHTTCTTTCSCCCCEEECCCCHHHHHHHHHHHH
T ss_pred             HhhhccCHHHHhCCceEEeCCCCHHHHHHHHHhhh
Confidence            21      111233468999999999999997543

>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=98.51  E-value=1.7e-06  Score=82.44  Aligned_cols=179  Identities=13%  Similarity=0.150  Sum_probs=102.1

Q ss_pred             CccccchhHHHHHHHHHhc-------------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCH
Q 043737           62 PTVVGLQSTFDRVWRCLME-------------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQL  128 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~-------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~  128 (371)
                      ..++|.+..+++|.+.+..             ...+.|.|+|++|+|||+||+.+++..   ..   ..+.++++     
T Consensus       204 ~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~---~~---~fv~vn~~-----  272 (489)
T 3hu3_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GA---FFFLINGP-----  272 (489)
T ss_dssp             GGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHC---SS---EEEEEEHH-----
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHh---CC---CEEEEEch-----
Confidence            4589999999999887642             344679999999999999999998886   22   22333321     


Q ss_pred             HHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc-------------ccccccccC-CCCCCC
Q 043737          129 EQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD-------------LSQVGLPVP-CRTSAS  194 (371)
Q Consensus       129 ~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~-------------~~~~~~~l~-~~~~~~  194 (371)
                       .+.    ..+       ...........+.....+++.+|+||+++....             ...+...+. .....+
T Consensus       273 -~l~----~~~-------~g~~~~~~~~~f~~A~~~~p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~~~~~~  340 (489)
T 3hu3_A          273 -EIM----SKL-------AGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAH  340 (489)
T ss_dssp             -HHH----TSC-------TTHHHHHHHHHHHHHHHTCSEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHSCTTSC
T ss_pred             -Hhh----hhh-------cchhHHHHHHHHHHHHhcCCcEEEecchhhhccccccccchHHHHHHHHHHHHhhccccCCc
Confidence             111    100       111111222233333346778999999953211             111111111 012334


Q ss_pred             cEEEEecCchH-HHhhc----cCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCC-cHHHHHHH
Q 043737          195 NKTVFTARELE-VCGQM----EAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGL-PLALITVG  267 (371)
Q Consensus       195 ~~iliTsR~~~-~~~~~----~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~-Plal~~~a  267 (371)
                      ..||.||.... +...+    .-...+.+...+.++-.+++...+.......+..    ..++++.+.|+ +-.|..+.
T Consensus       341 v~vIaaTn~~~~Ld~al~r~gRf~~~i~i~~P~~~eR~~IL~~~~~~~~l~~~~~----l~~la~~t~g~s~~dL~~L~  415 (489)
T 3hu3_A          341 VIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVD----LEQVANETHGHVGADLAALC  415 (489)
T ss_dssp             EEEEEEESCGGGBCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHTTTSCBCTTCC----HHHHHHTCTTCCHHHHHHHH
T ss_pred             eEEEEecCCccccCHHHhCCCcCceEEEeCCCCHHHHHHHHHHHHhcCCCcchhh----HHHHHHHccCCcHHHHHHHH
Confidence            45555555432 21111    1224688999999999999998876544333333    45667777775 55555443

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=98.49  E-value=1.8e-07  Score=74.11  Aligned_cols=45  Identities=22%  Similarity=0.194  Sum_probs=36.8

Q ss_pred             ccccchhHHHHHHHHHhc--CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           63 TVVGLQSTFDRVWRCLME--EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        63 ~~vGR~~~~~~l~~~L~~--~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .++|+...+.++.+.+..  .....|.|+|++|+|||++|+.+++..
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~~~~~vll~G~~GtGKt~lA~~i~~~~   48 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSETDIAVWLYGAPGTGRMTGARYLHQFG   48 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTTCCSCEEEESSTTSSHHHHHHHHHHSS
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCCHHHHHHHHHHhC
Confidence            579999999999888754  344578899999999999999998875

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.47  E-value=3.9e-06  Score=78.19  Aligned_cols=170  Identities=13%  Similarity=0.167  Sum_probs=95.5

Q ss_pred             ccccchhHHHHHHHHHhc-------------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHH
Q 043737           63 TVVGLQSTFDRVWRCLME-------------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLE  129 (371)
Q Consensus        63 ~~vGR~~~~~~l~~~L~~-------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~  129 (371)
                      .+.|-++..++|.+.+.-             ...+-|.++||+|+|||.||+.++...   ...   .+.++.+.-.+  
T Consensus       182 digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~---~~~---~~~v~~s~l~s--  253 (437)
T 4b4t_L          182 GIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATI---GAN---FIFSPASGIVD--  253 (437)
T ss_dssp             GGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHH---TCE---EEEEEGGGTCC--
T ss_pred             HhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHh---CCC---EEEEehhhhcc--
Confidence            367888888777666531             245789999999999999999999998   222   23333322110  


Q ss_pred             HHHHHHHHHhccCCCCCCcCCHHHHHHHHHH-HhCCCceEEEEeCCCCccc----------------ccccccccC-CCC
Q 043737          130 QIQGSIAKKINLFNESWNSRSLQEKSQDIVK-NMSNKKFVLLLDHIWELVD----------------LSQVGLPVP-CRT  191 (371)
Q Consensus       130 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~-~l~~~~~LlVlDdv~~~~~----------------~~~~~~~l~-~~~  191 (371)
                                     .+... .+..+..+.. .-...+++|+||+++....                +..+...+. ...
T Consensus       254 ---------------k~~Ge-se~~ir~~F~~A~~~~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~  317 (437)
T 4b4t_L          254 ---------------KYIGE-SARIIREMFAYAKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFDN  317 (437)
T ss_dssp             ---------------SSSSH-HHHHHHHHHHHHHHSCSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSSC
T ss_pred             ---------------ccchH-HHHHHHHHHHHHHhcCCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhcccC
Confidence                           00111 1122222222 2235789999999974311                011111111 123


Q ss_pred             CCCcEEEEecCchH-HHhhc-cC---CCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCc
Q 043737          192 SASNKTVFTARELE-VCGQM-EA---HKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLP  260 (371)
Q Consensus       192 ~~~~~iliTsR~~~-~~~~~-~~---~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~P  260 (371)
                      ..+..||.||-... +-..+ ..   ...+.++.-+.++-.++|+.++.......+.+    ...|++.+.|+-
T Consensus       318 ~~~vivI~ATNrp~~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~d~d----l~~lA~~t~G~s  387 (437)
T 4b4t_L          318 LGQTKIIMATNRPDTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKVKKTGEFD----FEAAVKMSDGFN  387 (437)
T ss_dssp             TTSSEEEEEESSTTSSCTTTTSTTSEEEEECCCCCCHHHHHHHHHHHHHTSCBCSCCC----HHHHHHTCCSCC
T ss_pred             CCCeEEEEecCCchhhCHHHhCCCccceeeecCCcCHHHHHHHHHHHhcCCCCCcccC----HHHHHHhCCCCC
Confidence            34455666554432 21111 12   34578887888888888887775544333333    467778888754

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.47  E-value=7.5e-06  Score=76.22  Aligned_cols=170  Identities=12%  Similarity=0.157  Sum_probs=96.3

Q ss_pred             ccccchhHHHHHHHHHhc-------------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHH
Q 043737           63 TVVGLQSTFDRVWRCLME-------------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLE  129 (371)
Q Consensus        63 ~~vGR~~~~~~l~~~L~~-------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~  129 (371)
                      .+.|-++..++|.+.+.-             ...+-|.++||+|+|||.||+.++...   ...   .+.++.+.-.+  
T Consensus       210 DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~---~~~---fi~vs~s~L~s--  281 (467)
T 4b4t_H          210 DVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRT---DAT---FIRVIGSELVQ--  281 (467)
T ss_dssp             SCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHH---TCE---EEEEEGGGGCC--
T ss_pred             HhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhcc---CCC---eEEEEhHHhhc--
Confidence            478888888887765421             356789999999999999999999998   222   23333322100  


Q ss_pred             HHHHHHHHHhccCCCCCCcCCHHHHHHHHHH-HhCCCceEEEEeCCCCccc----------------ccccccccC-CCC
Q 043737          130 QIQGSIAKKINLFNESWNSRSLQEKSQDIVK-NMSNKKFVLLLDHIWELVD----------------LSQVGLPVP-CRT  191 (371)
Q Consensus       130 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~-~l~~~~~LlVlDdv~~~~~----------------~~~~~~~l~-~~~  191 (371)
                                     .+... .+..+..+.. .-...+++|+||+++....                +..+...+. ...
T Consensus       282 ---------------k~vGe-sek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~  345 (467)
T 4b4t_H          282 ---------------KYVGE-GARMVRELFEMARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDP  345 (467)
T ss_dssp             ---------------CSSSH-HHHHHHHHHHHHHHTCSEEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSSCC
T ss_pred             ---------------ccCCH-HHHHHHHHHHHHHhcCCceEeecccccccccccCcCCCccHHHHHHHHHHHHHhhccCC
Confidence                           00111 1122222222 2235789999999974311                001111111 122


Q ss_pred             CCCcEEEEecCch-HH----HhhccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCc
Q 043737          192 SASNKTVFTAREL-EV----CGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLP  260 (371)
Q Consensus       192 ~~~~~iliTsR~~-~~----~~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~P  260 (371)
                      ..+..||.||-.. .+    .+...-...+.++.-+.++-.++|+.++.......+-+    ...|++.|.|+-
T Consensus       346 ~~~ViVIaATNrpd~LDpALlRpGRFD~~I~i~lPd~~~R~~Ilk~~l~~~~l~~dvd----l~~LA~~T~GfS  415 (467)
T 4b4t_H          346 RGNIKVMFATNRPNTLDPALLRPGRIDRKVEFSLPDLEGRANIFRIHSKSMSVERGIR----WELISRLCPNST  415 (467)
T ss_dssp             TTTEEEEEECSCTTSBCHHHHSTTTCCEEECCCCCCHHHHHHHHHHHHTTSCBCSSCC----HHHHHHHCCSCC
T ss_pred             CCcEEEEeCCCCcccCChhhhccccccEEEEeCCcCHHHHHHHHHHHhcCCCCCCCCC----HHHHHHHCCCCC
Confidence            3344455555432 22    11112345688888888888999988876554333333    466778888853

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=98.46  E-value=1.6e-06  Score=87.60  Aligned_cols=157  Identities=13%  Similarity=0.224  Sum_probs=91.5

Q ss_pred             CccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCC---CCeEEE-EEeCCcCCHHHHHHHHHH
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPND---FDFVIW-VVASKDLQLEQIQGSIAK  137 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~---f~~~~w-v~~~~~~~~~~~~~~l~~  137 (371)
                      +.++||+.+++++.+.|.......+.|+|++|+|||++|+.+++........   ....+| ++.+..            
T Consensus       186 d~~iGr~~~i~~l~~~l~~~~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~~~l------------  253 (758)
T 1r6b_X          186 DPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSL------------  253 (758)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC--------------
T ss_pred             CCccCCHHHHHHHHHHHhccCCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcHHHH------------
Confidence            5689999999999999977667788999999999999999999876211111   122222 211110            


Q ss_pred             HhccCCCCCCcCCHHHHHHHHHHHhC-CCceEEEEeCCCCcc--------cccccccccCCCCCCCcEEEEecCchHHHh
Q 043737          138 KINLFNESWNSRSLQEKSQDIVKNMS-NKKFVLLLDHIWELV--------DLSQVGLPVPCRTSASNKTVFTARELEVCG  208 (371)
Q Consensus       138 ~l~~~~~~~~~~~~~~~~~~l~~~l~-~~~~LlVlDdv~~~~--------~~~~~~~~l~~~~~~~~~iliTsR~~~~~~  208 (371)
                       +.  . .......+.....+...+. .++.+|+||+++...        ..+......+........+|.+|.......
T Consensus       254 -~~--~-~~~~g~~e~~l~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~~~~~~~~~~L~~~l~~~~~~~I~at~~~~~~~  329 (758)
T 1r6b_X          254 -LA--G-TKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSGKIRVIGSTTYQEFSN  329 (758)
T ss_dssp             --C--C-CCCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSSCCCEEEEEECHHHHHC
T ss_pred             -hc--c-ccccchHHHHHHHHHHHHHhcCCeEEEEechHHHhhcCCCCcchHHHHHHHHHHHhCCCeEEEEEeCchHHhh
Confidence             00  0 0022234444444444444 357899999998551        111111111112234556666665443211


Q ss_pred             h-------ccCCCceeecCCChHHHHHHHHHHh
Q 043737          209 Q-------MEAHKSFKVERLGYEDAWKLFEEKV  234 (371)
Q Consensus       209 ~-------~~~~~~~~l~~L~~~ea~~ll~~~~  234 (371)
                      .       ......+.+++.+.++..+++....
T Consensus       330 ~~~~d~aL~~Rf~~i~v~~p~~~e~~~il~~l~  362 (758)
T 1r6b_X          330 IFEKDRALARRFQKIDITEPSIEETVQIINGLK  362 (758)
T ss_dssp             CCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHH
T ss_pred             hhhcCHHHHhCceEEEcCCCCHHHHHHHHHHHH
Confidence            1       1122358899999999998887654

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=98.45  E-value=6.3e-06  Score=71.77  Aligned_cols=178  Identities=13%  Similarity=0.089  Sum_probs=95.0

Q ss_pred             CccccchhHHHHHHHHHh---c---------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHH
Q 043737           62 PTVVGLQSTFDRVWRCLM---E---------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLE  129 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~---~---------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~  129 (371)
                      ..++|.+..++++.+.+.   .         ...+-+.|+|++|+|||+||+.++...   ...   .+.++.+.-..  
T Consensus        12 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~---~~~---~~~i~~~~~~~--   83 (257)
T 1lv7_A           12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA---KVP---FFTISGSDFVE--   83 (257)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHH---TCC---EEEECSCSSTT--
T ss_pred             HHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHc---CCC---EEEEeHHHHHH--
Confidence            568999888777665432   1         124568999999999999999999886   222   23333221100  


Q ss_pred             HHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc----------------ccccccccC-CCCC
Q 043737          130 QIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD----------------LSQVGLPVP-CRTS  192 (371)
Q Consensus       130 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~----------------~~~~~~~l~-~~~~  192 (371)
                                     .............+.......+.++++|+++....                +..+...+. ....
T Consensus        84 ---------------~~~~~~~~~~~~~~~~a~~~~~~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~  148 (257)
T 1lv7_A           84 ---------------MFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGN  148 (257)
T ss_dssp             ---------------SCCCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSS
T ss_pred             ---------------HhhhhhHHHHHHHHHHHHHcCCeeehhhhhhhhccCCCCCcCCCchHHHHHHHHHHHHhhCcccC
Confidence                           00111122222223333345678999999953211                011111111 0123


Q ss_pred             CCcEEEEecCchH-HHhhc-c---CCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCC-CcHHHHHH
Q 043737          193 ASNKTVFTARELE-VCGQM-E---AHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGG-LPLALITV  266 (371)
Q Consensus       193 ~~~~iliTsR~~~-~~~~~-~---~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g-~Plal~~~  266 (371)
                      .+..||.||.... +.... .   -...+.++..+.++-.+++...+.......+..    ...++..+.| ++--|..+
T Consensus       149 ~~~~vI~~tn~~~~l~~~l~r~~rf~~~i~i~~P~~~~r~~il~~~~~~~~l~~~~~----~~~la~~~~G~~~~dl~~l  224 (257)
T 1lv7_A          149 EGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDID----AAIIARGTPGFSGADLANL  224 (257)
T ss_dssp             SCEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCC----HHHHHHTCTTCCHHHHHHH
T ss_pred             CCEEEEEeeCCchhCCHHHcCCCcCCeEEEeCCCCHHHHHHHHHHHHhcCCCCcccc----HHHHHHHcCCCCHHHHHHH
Confidence            3445555655432 21111 1   124577777788888888887765443222222    4556777778 66655544

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.41  E-value=7.2e-06  Score=75.61  Aligned_cols=170  Identities=15%  Similarity=0.159  Sum_probs=94.2

Q ss_pred             ccccchhHHHHHHHHHhc-------------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHH
Q 043737           63 TVVGLQSTFDRVWRCLME-------------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLE  129 (371)
Q Consensus        63 ~~vGR~~~~~~l~~~L~~-------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~  129 (371)
                      ++.|-++..++|.+.+.-             ...+-|.++||+|+|||.||++++...   ...   .+.++.+.-.   
T Consensus       183 DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~---~~~---fi~v~~s~l~---  253 (437)
T 4b4t_I          183 DIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQT---SAT---FLRIVGSELI---  253 (437)
T ss_dssp             GTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHH---TCE---EEEEESGGGC---
T ss_pred             ecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHh---CCC---EEEEEHHHhh---
Confidence            357788877777665431             245789999999999999999999998   222   2233322110   


Q ss_pred             HHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHh-CCCceEEEEeCCCCccc----------------ccccccccC-CCC
Q 043737          130 QIQGSIAKKINLFNESWNSRSLQEKSQDIVKNM-SNKKFVLLLDHIWELVD----------------LSQVGLPVP-CRT  191 (371)
Q Consensus       130 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~~~----------------~~~~~~~l~-~~~  191 (371)
                                    .. .....+..+..+.... ...+++|+||+++....                +..+...+. ...
T Consensus       254 --------------sk-~vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~~~  318 (437)
T 4b4t_I          254 --------------QK-YLGDGPRLCRQIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDD  318 (437)
T ss_dssp             --------------CS-SSSHHHHHHHHHHHHHHHTCSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHCCC
T ss_pred             --------------hc-cCchHHHHHHHHHHHHHhcCCcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCcCC
Confidence                          00 1111122222222222 35789999999974311                001111111 122


Q ss_pred             CCCcEEEEecCc-hHHHhhc-c---CCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCc
Q 043737          192 SASNKTVFTARE-LEVCGQM-E---AHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLP  260 (371)
Q Consensus       192 ~~~~~iliTsR~-~~~~~~~-~---~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~P  260 (371)
                      ..+..||.||-. ..+-..+ .   -...+.++.-+.++-.++|+.++.......+-+    ...|++.+.|+-
T Consensus       319 ~~~ViVIaATNrpd~LDpALlRpGRfD~~I~v~lPd~~~R~~Il~~~l~~~~l~~dvd----l~~LA~~T~GfS  388 (437)
T 4b4t_I          319 RGDVKVIMATNKIETLDPALIRPGRIDRKILFENPDLSTKKKILGIHTSKMNLSEDVN----LETLVTTKDDLS  388 (437)
T ss_dssp             SSSEEEEEEESCSTTCCTTSSCTTTEEEEECCCCCCHHHHHHHHHHHHTTSCBCSCCC----HHHHHHHCCSCC
T ss_pred             CCCEEEEEeCCChhhcCHHHhcCCceeEEEEcCCcCHHHHHHHHHHHhcCCCCCCcCC----HHHHHHhCCCCC
Confidence            334445555543 3332221 1   123577887788888888988876554333333    567778888753

>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=98.40  E-value=8.6e-07  Score=77.80  Aligned_cols=173  Identities=14%  Similarity=0.095  Sum_probs=90.8

Q ss_pred             CccccchhHHHHHHHHHhc------------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHH
Q 043737           62 PTVVGLQSTFDRVWRCLME------------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLE  129 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~  129 (371)
                      ..++|.+..++.+.+.+..            ...+.+.|+|++|+|||+||+.++...   ...|-   .++.+.-.+  
T Consensus        11 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~---~~~~~---~v~~~~~~~--   82 (268)
T 2r62_A           11 KDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEA---HVPFF---SMGGSSFIE--   82 (268)
T ss_dssp             TTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHH---TCCCC---CCCSCTTTT--
T ss_pred             HHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHh---CCCEE---EechHHHHH--
Confidence            5689999888887776541            123458899999999999999999987   22221   111111000  


Q ss_pred             HHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc-----------------ccccccccCCC--
Q 043737          130 QIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD-----------------LSQVGLPVPCR--  190 (371)
Q Consensus       130 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~-----------------~~~~~~~l~~~--  190 (371)
                              .+...    .........   .......+.+|+||+++....                 +..+...+...  
T Consensus        83 --------~~~~~----~~~~~~~~~---~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~  147 (268)
T 2r62_A           83 --------MFVGL----GASRVRDLF---ETAKKQAPSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFGS  147 (268)
T ss_dssp             --------SCSSS----CSSSSSTTH---HHHHHSCSCEEEESCGGGTTC----------CCCSCSSTTTTTTTTTCSSC
T ss_pred             --------hhcch----HHHHHHHHH---HHHHhcCCeEEEEeChhhhcccccccccCCCchhHHHHHHHHHHHhhCccc
Confidence                    00000    011111111   111224568999999975421                 11222222101  


Q ss_pred             CCCCcEEEEecCchHHH-hh-c---cCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcH
Q 043737          191 TSASNKTVFTARELEVC-GQ-M---EAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPL  261 (371)
Q Consensus       191 ~~~~~~iliTsR~~~~~-~~-~---~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl  261 (371)
                      ......||.||...... .. .   .-...+.++..+.++-.+++...+.......+..    ...+++.+.|.|-
T Consensus       148 ~~~~v~vi~ttn~~~~ld~~l~r~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~----~~~la~~~~g~~g  219 (268)
T 2r62_A          148 ENAPVIVLAATNRPEILDPALMRPGRFDRQVLVDKPDFNGRVEILKVHIKGVKLANDVN----LQEVAKLTAGLAG  219 (268)
T ss_dssp             SCSCCEEEECBSCCTTSCGGGGSSSSSCCCCBCCCCCTTTHHHHHHHHTSSSCCCSSCC----TTTTTSSSCSSCH
T ss_pred             CCCCEEEEEecCCchhcCHhHcCCCCCCeEEEecCcCHHHHHHHHHHHHhcCCCCCccC----HHHHHHHcCCCCH
Confidence            11224566666554321 11 1   1234678888999999999988775433222222    2345556666653

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.40  E-value=6.5e-06  Score=76.54  Aligned_cols=170  Identities=15%  Similarity=0.191  Sum_probs=89.7

Q ss_pred             ccccchhHHHHHHHHHhc-------------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHH
Q 043737           63 TVVGLQSTFDRVWRCLME-------------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLE  129 (371)
Q Consensus        63 ~~vGR~~~~~~l~~~L~~-------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~  129 (371)
                      .+.|-++..++|.+.+.-             ...+-|.++||+|+|||+||+.+++..   ..+   .+.++.+.-.+  
T Consensus       173 digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~---~~~---~~~v~~~~l~~--  244 (428)
T 4b4t_K          173 DVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANST---KAA---FIRVNGSEFVH--  244 (428)
T ss_dssp             GSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHH---TCE---EEEEEGGGTCC--
T ss_pred             HhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHh---CCC---eEEEecchhhc--
Confidence            468888888887776531             245679999999999999999999998   222   23333332110  


Q ss_pred             HHHHHHHHHhccCCCCCCcCCHHHHHHHHHH-HhCCCceEEEEeCCCCccc----------------ccccccccC-CCC
Q 043737          130 QIQGSIAKKINLFNESWNSRSLQEKSQDIVK-NMSNKKFVLLLDHIWELVD----------------LSQVGLPVP-CRT  191 (371)
Q Consensus       130 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~-~l~~~~~LlVlDdv~~~~~----------------~~~~~~~l~-~~~  191 (371)
                                     .+... .+..+..+.. .-...++++++|+++....                +..+...+. ...
T Consensus       245 ---------------~~~Ge-~e~~ir~lF~~A~~~aP~IifiDEiD~i~~~R~~~~~~~~~~~~r~l~~lL~~ldg~~~  308 (428)
T 4b4t_K          245 ---------------KYLGE-GPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFDQ  308 (428)
T ss_dssp             ---------------SSCSH-HHHHHHHHHHHHHHTCSEEEEEECTHHHHCSCSSSCSCCCCHHHHHHHHHHHHHHHSCS
T ss_pred             ---------------cccch-hHHHHHHHHHHHHHcCCCeeechhhhhhhccccCCCCCCChHHHHHHHHHHHHhhCCCC
Confidence                           00111 1122222222 2235789999999963210                111111111 123


Q ss_pred             CCCcEEEEecCchH-HHhh-ccC---CCceeecCCChHH-HHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCc
Q 043737          192 SASNKTVFTARELE-VCGQ-MEA---HKSFKVERLGYED-AWKLFEEKVGKEILDSHPDIPELAETVAKECGGLP  260 (371)
Q Consensus       192 ~~~~~iliTsR~~~-~~~~-~~~---~~~~~l~~L~~~e-a~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~P  260 (371)
                      ..+..||.||.... +-.. ..+   ...+.++.++..+ -..+|...+.......+.+    ...|++.+.|.-
T Consensus       309 ~~~v~vI~aTN~~~~LD~AllRpGRfd~~I~~p~lPd~~~R~~Il~~~~~~~~l~~~~d----l~~lA~~t~G~s  379 (428)
T 4b4t_K          309 STNVKVIMATNRADTLDPALLRPGRLDRKIEFPSLRDRRERRLIFGTIASKMSLAPEAD----LDSLIIRNDSLS  379 (428)
T ss_dssp             SCSEEEEEEESCSSSCCHHHHSSSSEEEEEECCSSCCHHHHHHHHHHHHHSSCBCTTCC----HHHHHHHTTTCC
T ss_pred             CCCEEEEEecCChhhcChhhhcCCcceEEEEcCCCCCHHHHHHHHHHHhcCCCCCcccC----HHHHHHHCCCCC
Confidence            34445555554422 2111 112   2357777675544 4556666554433233333    567777887753

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=98.39  E-value=3e-06  Score=75.78  Aligned_cols=46  Identities=20%  Similarity=0.170  Sum_probs=39.0

Q ss_pred             CccccchhHHHHHHHHHhc--------------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           62 PTVVGLQSTFDRVWRCLME--------------EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~--------------~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..++|++..++.+...+..              .....+.|+|++|+|||++|+.+++..
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l   74 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA   74 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            5689999999999887754              235678899999999999999999887

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=98.38  E-value=1.1e-05  Score=73.16  Aligned_cols=172  Identities=16%  Similarity=0.115  Sum_probs=94.6

Q ss_pred             CccccchhHHHHHHHHHhc-----CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHH
Q 043737           62 PTVVGLQSTFDRVWRCLME-----EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIA  136 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~-----~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~  136 (371)
                      ..++|.+..++.+...+..     .....++|+|++|+||||||+.++...   ...+   ...+........+      
T Consensus        25 ~~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l---~~~~---~~~sg~~~~~~~~------   92 (334)
T 1in4_A           25 DEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASEL---QTNI---HVTSGPVLVKQGD------   92 (334)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHH---TCCE---EEEETTTCCSHHH------
T ss_pred             HHccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHHHh---CCCE---EEEechHhcCHHH------
Confidence            5689998888887776643     234679999999999999999999987   2221   1111111011111      


Q ss_pred             HHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc--ccccccccCCC-----------------CCCCcEE
Q 043737          137 KKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD--LSQVGLPVPCR-----------------TSASNKT  197 (371)
Q Consensus       137 ~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~--~~~~~~~l~~~-----------------~~~~~~i  197 (371)
                                       .. .+...+ .++.++++|+++....  .+.+...+...                 ......+
T Consensus        93 -----------------l~-~~~~~~-~~~~v~~iDE~~~l~~~~~e~L~~~~~~~~~~i~~~~~~~~~~i~~~l~~~~l  153 (334)
T 1in4_A           93 -----------------MA-AILTSL-ERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTL  153 (334)
T ss_dssp             -----------------HH-HHHHHC-CTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEE
T ss_pred             -----------------HH-HHHHHc-cCCCEEEEcchhhcCHHHHHHHHHHHHhcccceeeccCcccccccccCCCeEE
Confidence                             11 111112 2344778888864321  11110000000                 0011222


Q ss_pred             -EEecCchHHHhhc--cCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHH
Q 043737          198 -VFTARELEVCGQM--EAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVG  267 (371)
Q Consensus       198 -liTsR~~~~~~~~--~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a  267 (371)
                       ..|++...+....  .....+.+++.+.++-.+++.+.......   .-..+.+..|++.+.|.|..+..+.
T Consensus       154 i~at~~~~~Ls~~l~sR~~l~~~Ld~~~~~~l~~iL~~~~~~~~~---~~~~~~~~~ia~~~~G~~R~a~~ll  223 (334)
T 1in4_A          154 VGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMDV---EIEDAAAEMIAKRSRGTPRIAIRLT  223 (334)
T ss_dssp             EEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTC---CBCHHHHHHHHHTSTTCHHHHHHHH
T ss_pred             EEecCCcccCCHHHHHhcCceeeCCCCCHHHHHHHHHHHHHHcCC---CcCHHHHHHHHHhcCCChHHHHHHH
Confidence             2355543332211  11234789999999999999887643221   1224568999999999997654443

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.36  E-value=3.6e-06  Score=78.35  Aligned_cols=170  Identities=10%  Similarity=0.098  Sum_probs=93.9

Q ss_pred             CccccchhHHHHHHHHHhc-------------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCH
Q 043737           62 PTVVGLQSTFDRVWRCLME-------------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQL  128 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~-------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~  128 (371)
                      ..+.|-++..++|.+.+.-             ...+-|.++||+|+|||.||+.++...   ...   .+.++.+.-.+ 
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~---~~~---f~~v~~s~l~~-  253 (434)
T 4b4t_M          181 SDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQT---NAT---FLKLAAPQLVQ-  253 (434)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHH---TCE---EEEEEGGGGCS-
T ss_pred             HhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHh---CCC---EEEEehhhhhh-
Confidence            3468888888888766431             246789999999999999999999998   222   23333322100 


Q ss_pred             HHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHh-CCCceEEEEeCCCCcc-------c---------ccccccccCC-C
Q 043737          129 EQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNM-SNKKFVLLLDHIWELV-------D---------LSQVGLPVPC-R  190 (371)
Q Consensus       129 ~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~~-------~---------~~~~~~~l~~-~  190 (371)
                                      . .....+..+..+.... ...+++|+||+++...       .         +..+...+.. .
T Consensus       254 ----------------~-~vGese~~ir~lF~~A~~~aP~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~  316 (434)
T 4b4t_M          254 ----------------M-YIGEGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFS  316 (434)
T ss_dssp             ----------------S-CSSHHHHHHHHHHHHHHHHCSEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSC
T ss_pred             ----------------c-ccchHHHHHHHHHHHHHhcCCeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhccC
Confidence                            0 0111112222222222 3468999999996320       0         0111111111 2


Q ss_pred             CCCCcEEEEecCchH-HHhhc-c---CCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCC
Q 043737          191 TSASNKTVFTARELE-VCGQM-E---AHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGL  259 (371)
Q Consensus       191 ~~~~~~iliTsR~~~-~~~~~-~---~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~  259 (371)
                      ...+..||.||.... +-..+ .   -...+.++.-+.++-.++|+.++.......+-+    ...|++.+.|+
T Consensus       317 ~~~~ViVIaaTNrp~~LD~AllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~dvd----l~~lA~~t~G~  386 (434)
T 4b4t_M          317 SDDRVKVLAATNRVDVLDPALLRSGRLDRKIEFPLPSEDSRAQILQIHSRKMTTDDDIN----WQELARSTDEF  386 (434)
T ss_dssp             SSCSSEEEEECSSCCCCCTTTCSTTSEEEEEECCCCCHHHHHHHHHHHHHHSCBCSCCC----HHHHHHHCSSC
T ss_pred             CCCCEEEEEeCCCchhcCHhHhcCCceeEEEEeCCcCHHHHHHHHHHHhcCCCCCCcCC----HHHHHHhCCCC
Confidence            233445555654432 21111 1   224578888888888888887765433223233    56777888875

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=98.36  E-value=4.6e-06  Score=84.23  Aligned_cols=150  Identities=12%  Similarity=0.096  Sum_probs=83.9

Q ss_pred             CccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCC---C-eEEEEEeCCcCCHHHHHHHHHH
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDF---D-FVIWVVASKDLQLEQIQGSIAK  137 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f---~-~~~wv~~~~~~~~~~~~~~l~~  137 (371)
                      +.++||+.+++++...+.......+.|+|++|+|||++|+.+++........+   . .++.++.               
T Consensus       180 d~iiG~~~~i~~l~~~l~~~~~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~~---------------  244 (758)
T 3pxi_A          180 DPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDM---------------  244 (758)
T ss_dssp             CCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC-----------------
T ss_pred             CCccCchHHHHHHHHHHhCCCCCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEecc---------------
Confidence            56899999999999999776667789999999999999999998862211111   1 1122222               


Q ss_pred             HhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCcccccccccccCCCCCCCcEEEEecCchHHHh-------hc
Q 043737          138 KINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLSQVGLPVPCRTSASNKTVFTARELEVCG-------QM  210 (371)
Q Consensus       138 ~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~~~~~~~~l~~~~~~~~~iliTsR~~~~~~-------~~  210 (371)
                        +...............   ......++.+|++|.  .......+...   ......++|.+|.......       ..
T Consensus       245 --g~~~~G~~e~~l~~~~---~~~~~~~~~iLfiD~--~~~~~~~L~~~---l~~~~v~~I~at~~~~~~~~~~~d~al~  314 (758)
T 3pxi_A          245 --GTKYRGEFEDRLKKVM---DEIRQAGNIILFIDA--AIDASNILKPS---LARGELQCIGATTLDEYRKYIEKDAALE  314 (758)
T ss_dssp             ----------CTTHHHHH---HHHHTCCCCEEEECC----------CCC---TTSSSCEEEEECCTTTTHHHHTTCSHHH
T ss_pred             --cccccchHHHHHHHHH---HHHHhcCCEEEEEcC--chhHHHHHHHH---HhcCCEEEEeCCChHHHHHHhhccHHHH
Confidence              0000000111122222   222235678999992  12222222222   2234556666655443100       01


Q ss_pred             cCCCceeecCCChHHHHHHHHHHhCC
Q 043737          211 EAHKSFKVERLGYEDAWKLFEEKVGK  236 (371)
Q Consensus       211 ~~~~~~~l~~L~~~ea~~ll~~~~~~  236 (371)
                      .....+.+++.+.++..+++......
T Consensus       315 rRf~~i~v~~p~~~~~~~il~~~~~~  340 (758)
T 3pxi_A          315 RRFQPIQVDQPSVDESIQILQGLRDR  340 (758)
T ss_dssp             HSEEEEECCCCCHHHHHHHHHHTTTT
T ss_pred             hhCcEEEeCCCCHHHHHHHHHHHHHH
Confidence            12356899999999999999876543

>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=98.27  E-value=5.1e-07  Score=74.24  Aligned_cols=117  Identities=15%  Similarity=0.122  Sum_probs=62.3

Q ss_pred             chhHHHHHHHHHhc---CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCC
Q 043737           67 LQSTFDRVWRCLME---EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFN  143 (371)
Q Consensus        67 R~~~~~~l~~~L~~---~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~  143 (371)
                      .+..++.+.+++.+   .....++|+|++|+|||||++.++.......+ . .++++      +..++...+........
T Consensus        19 ~~~~~~~~~~~~~~~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g-~-~~~~~------~~~~~~~~~~~~~~~~~   90 (180)
T 3ec2_A           19 QNRALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKG-I-RGYFF------DTKDLIFRLKHLMDEGK   90 (180)
T ss_dssp             HHHHHHHHHHHHHSCCGGGCCEEEECCSSSSSHHHHHHHHHHHHHHHSC-C-CCCEE------EHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHhccccCCCEEEEECCCCCCHHHHHHHHHHHHHHHcC-C-eEEEE------EHHHHHHHHHHHhcCch
Confidence            34455555555543   23578999999999999999999988721111 1 23333      34455555544432211


Q ss_pred             CCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCC--ccccc--ccccccCCCCCCCcEEEEecCc
Q 043737          144 ESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWE--LVDLS--QVGLPVPCRTSASNKTVFTARE  203 (371)
Q Consensus       144 ~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~--~~~~~--~~~~~l~~~~~~~~~iliTsR~  203 (371)
                          ..   ...    ..+. ++-+|||||++.  ...+.  .+...+......+..+|+||..
T Consensus        91 ----~~---~~~----~~~~-~~~llilDE~~~~~~~~~~~~~l~~ll~~~~~~~~~ii~tsn~  142 (180)
T 3ec2_A           91 ----DT---KFL----KTVL-NSPVLVLDDLGSERLSDWQRELISYIITYRYNNLKSTIITTNY  142 (180)
T ss_dssp             ----CS---HHH----HHHH-TCSEEEEETCSSSCCCHHHHHHHHHHHHHHHHTTCEEEEECCC
T ss_pred             ----HH---HHH----HHhc-CCCEEEEeCCCCCcCCHHHHHHHHHHHHHHHHcCCCEEEEcCC
Confidence                10   112    2222 455999999973  22221  1222221112246778888864

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=98.26  E-value=3.8e-07  Score=72.03  Aligned_cols=46  Identities=15%  Similarity=0.034  Sum_probs=35.0

Q ss_pred             CccccchhHHHHHHHHHhc--CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           62 PTVVGLQSTFDRVWRCLME--EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~--~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -.++|++..++++.+.+..  .....|.|+|++|+|||++|+.+++..
T Consensus         4 ~~~iG~s~~~~~l~~~~~~~~~~~~~vll~G~~GtGKt~lA~~i~~~~   51 (143)
T 3co5_A            4 FDKLGNSAAIQEMNREVEAAAKRTSPVFLTGEAGSPFETVARYFHKNG   51 (143)
T ss_dssp             ----CCCHHHHHHHHHHHHHHTCSSCEEEEEETTCCHHHHHGGGCCTT
T ss_pred             cCceeCCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhC
Confidence            3579999999998888754  344568899999999999999887665

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=98.19  E-value=5.4e-06  Score=74.24  Aligned_cols=60  Identities=20%  Similarity=0.285  Sum_probs=44.1

Q ss_pred             CccccchhHHHHHHHHHhcC---------CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCC
Q 043737           62 PTVVGLQSTFDRVWRCLMEE---------QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASK  124 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~---------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~  124 (371)
                      ..++|.+..++.+...+...         ....+.|+|++|+|||++|+.++....   ......+.++++.
T Consensus        17 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~~---~~~~~~~~~~~~~   85 (311)
T 4fcw_A           17 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLF---DTEEAMIRIDMTE   85 (311)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHHH---SCGGGEEEEEGGG
T ss_pred             hhcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHHc---CCCcceEEeeccc
Confidence            45789999999988887642         135899999999999999999998872   2222345555544

>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=98.19  E-value=1.9e-05  Score=74.56  Aligned_cols=172  Identities=14%  Similarity=0.139  Sum_probs=95.0

Q ss_pred             CccccchhHHHHHHHHHh---c---------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHH
Q 043737           62 PTVVGLQSTFDRVWRCLM---E---------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLE  129 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~---~---------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~  129 (371)
                      ..++|.++.++++.+.+.   .         ...+-|.|+|++|+|||+||+.++...   ...|   +.++.+.-... 
T Consensus        16 ~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~---~~~f---~~is~~~~~~~-   88 (476)
T 2ce7_A           16 KDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEA---NVPF---FHISGSDFVEL-   88 (476)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHH---TCCE---EEEEGGGTTTC-
T ss_pred             HHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHc---CCCe---eeCCHHHHHHH-
Confidence            458999887777665542   1         123468899999999999999999887   2222   33333221110 


Q ss_pred             HHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc----------------ccccccccC-CCCC
Q 043737          130 QIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD----------------LSQVGLPVP-CRTS  192 (371)
Q Consensus       130 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~----------------~~~~~~~l~-~~~~  192 (371)
                               +       ...........+.......+.+|+||+++....                +..+...+. ....
T Consensus        89 ---------~-------~g~~~~~~r~lf~~A~~~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~~  152 (476)
T 2ce7_A           89 ---------F-------VGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSK  152 (476)
T ss_dssp             ---------C-------TTHHHHHHHHHHHHHHHTCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCGG
T ss_pred             ---------H-------hcccHHHHHHHHHHHHhcCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCCC
Confidence                     0       000111122223333346789999999975311                111111111 0112


Q ss_pred             CCcEEEEecCchHHH-hh-cc---CCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCc
Q 043737          193 ASNKTVFTARELEVC-GQ-ME---AHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLP  260 (371)
Q Consensus       193 ~~~~iliTsR~~~~~-~~-~~---~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~P  260 (371)
                      .+..||.||...... .. ..   -...+.++..+.++-.+++...+.......+.+    ...++..+.|+.
T Consensus       153 ~~viVIaaTn~~~~Ld~allR~gRFd~~i~i~~Pd~~~R~~Il~~~~~~~~l~~~v~----l~~la~~t~G~s  221 (476)
T 2ce7_A          153 EGIIVMAATNRPDILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNKPLAEDVN----LEIIAKRTPGFV  221 (476)
T ss_dssp             GTEEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCC----HHHHHHTCTTCC
T ss_pred             CCEEEEEecCChhhhchhhcccCcceeEeecCCCCHHHHHHHHHHHHHhCCCcchhh----HHHHHHhcCCCc
Confidence            345566566554321 11 11   123678888888888888887776544332222    455788888887

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=98.18  E-value=5.6e-06  Score=72.42  Aligned_cols=46  Identities=15%  Similarity=0.143  Sum_probs=35.3

Q ss_pred             CccccchhHHHHHHHHHhc--CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           62 PTVVGLQSTFDRVWRCLME--EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~--~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..++|++..+.++.+.+..  .....|.|+|++|+|||+||+.+++..
T Consensus         6 ~~~ig~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKt~la~~i~~~~   53 (265)
T 2bjv_A            6 DNLLGEANSFLEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLHYLS   53 (265)
T ss_dssp             ----CCCHHHHHHHHHHHHHTTSCSCEEEECCTTSCHHHHHHHHHHTS
T ss_pred             ccceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhc
Confidence            4589999999888776653  334678899999999999999999886

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=98.13  E-value=1.7e-05  Score=70.92  Aligned_cols=46  Identities=11%  Similarity=0.133  Sum_probs=38.4

Q ss_pred             CccccchhHHHHHHHHHhc--CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           62 PTVVGLQSTFDRVWRCLME--EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~--~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +.++|+...+.++.+.+..  .....|.|+|++|+|||++|+.+++..
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            4589999999998888764  345678899999999999999998875

>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=98.11  E-value=1e-05  Score=76.67  Aligned_cols=47  Identities=21%  Similarity=0.188  Sum_probs=37.0

Q ss_pred             CCccccchhHHHHHHHHH---hcC--CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           61 PPTVVGLQSTFDRVWRCL---MEE--QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L---~~~--~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...++|.++.++.+..++   ..+  ..+.+.++|++|+|||+||+.+++..
T Consensus        36 ~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~iLl~GppGtGKT~la~ala~~l   87 (456)
T 2c9o_A           36 ASGLVGQENAREACGVIVELIKSKKMAGRAVLLAGPPGTGKTALALAIAQEL   87 (456)
T ss_dssp             ETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             hhhccCHHHHHHHHHHHHHHHHhCCCCCCeEEEECCCcCCHHHHHHHHHHHh
Confidence            367999998877655443   333  33679999999999999999999887

>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=98.11  E-value=1.6e-05  Score=79.45  Aligned_cols=171  Identities=13%  Similarity=0.128  Sum_probs=95.7

Q ss_pred             ccccchhHHHHHHHHHh----c---------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHH
Q 043737           63 TVVGLQSTFDRVWRCLM----E---------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLE  129 (371)
Q Consensus        63 ~~vGR~~~~~~l~~~L~----~---------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~  129 (371)
                      .+.|-++.+++|.+.+.    .         ...+-|.++|++|+|||+||+.+++..   ..+   .+.++.+      
T Consensus       205 dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~el---g~~---~~~v~~~------  272 (806)
T 3cf2_A          205 DIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAF---FFLINGP------  272 (806)
T ss_dssp             GCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTT---TCE---EEEEEHH------
T ss_pred             hhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHh---CCe---EEEEEhH------
Confidence            46788887777776643    1         245689999999999999999999887   222   2334322      


Q ss_pred             HHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc-------------ccccccccC-CCCCCCc
Q 043737          130 QIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD-------------LSQVGLPVP-CRTSASN  195 (371)
Q Consensus       130 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~-------------~~~~~~~l~-~~~~~~~  195 (371)
                      ++.    ..       +.......+...+.......+++|+||+++....             ...+...+. .....+.
T Consensus       273 ~l~----sk-------~~gese~~lr~lF~~A~~~~PsIIfIDEiDal~~~r~~~~~~~~~riv~~LL~~mdg~~~~~~V  341 (806)
T 3cf2_A          273 EIM----SK-------LAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHV  341 (806)
T ss_dssp             HHH----SS-------CTTHHHHHHHHHHHHHTTSCSEEEEEESGGGTCCTTTTCCCTTHHHHHHHHHTHHHHCCGGGCE
T ss_pred             Hhh----cc-------cchHHHHHHHHHHHHHHHcCCeEEEEehhcccccccCCCCChHHHHHHHHHHHHHhcccccCCE
Confidence            111    00       0111122222223333356789999999974311             111111111 0122233


Q ss_pred             EEEEecCc-hHHHhhc----cCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCc
Q 043737          196 KTVFTARE-LEVCGQM----EAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLP  260 (371)
Q Consensus       196 ~iliTsR~-~~~~~~~----~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~P  260 (371)
                      .||.||.. ..+...+    .-...++++.-+.++-.++|+..+.......+.+    ...|++.+.|+-
T Consensus       342 ~VIaaTN~~d~LD~ALrR~GRFd~~I~i~~Pd~~~R~~IL~~~l~~~~~~~dvd----l~~lA~~T~Gfs  407 (806)
T 3cf2_A          342 IVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVD----LEQVANETHGHV  407 (806)
T ss_dssp             EEEEECSSTTTSCTTTTSTTSSCEEEECCCCCHHHHHHHHHHTCSSSEECTTCC----HHHHHHHCCSCC
T ss_pred             EEEEecCChhhcCHHHhCCcccceEEecCCCCHHHHHHHHHHHhcCCCCCcccC----HHHHHHhcCCCC
Confidence            44444443 3332221    1234678888888888888888775544333333    567778888864

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=98.09  E-value=7.7e-07  Score=70.72  Aligned_cols=46  Identities=17%  Similarity=0.202  Sum_probs=31.5

Q ss_pred             HHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeC
Q 043737           75 WRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVAS  123 (371)
Q Consensus        75 ~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~  123 (371)
                      ...+.+-....++|+|+.|+|||||++.++.....  .. ..+++++..
T Consensus        28 ~~~l~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~--~g-~~~~~~~~~   73 (149)
T 2kjq_A           28 VYVLRHKHGQFIYVWGEEGAGKSHLLQAWVAQALE--AG-KNAAYIDAA   73 (149)
T ss_dssp             HHHCCCCCCSEEEEESSSTTTTCHHHHHHHHHHHT--TT-CCEEEEETT
T ss_pred             HHHHHhcCCCEEEEECCCCCCHHHHHHHHHHHHHh--cC-CcEEEEcHH
Confidence            33343324568999999999999999999988731  11 125666544

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=98.06  E-value=1.1e-05  Score=67.38  Aligned_cols=58  Identities=24%  Similarity=0.095  Sum_probs=38.4

Q ss_pred             Cccccch----hHHHHHHHHHhcC----CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEe
Q 043737           62 PTVVGLQ----STFDRVWRCLMEE----QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVA  122 (371)
Q Consensus        62 ~~~vGR~----~~~~~l~~~L~~~----~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~  122 (371)
                      ++|++..    ..++.+.+++...    ..+.+.|+|++|+|||+||+.+++...   .....++|+++
T Consensus        25 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~~~~---~~~~~~~~~~~   90 (202)
T 2w58_A           25 SDVDLNDDGRIKAIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANELA---KRNVSSLIVYV   90 (202)
T ss_dssp             TSSCCSSHHHHHHHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHHHHH---TTTCCEEEEEH
T ss_pred             hhccCCChhHHHHHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHHHHH---HcCCeEEEEEh
Confidence            4566543    3445555665443    127899999999999999999999873   22234556544

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=98.06  E-value=0.00034  Score=61.44  Aligned_cols=172  Identities=13%  Similarity=0.078  Sum_probs=89.4

Q ss_pred             CCccccchhHHHHHHHHHhc------------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCH
Q 043737           61 PPTVVGLQSTFDRVWRCLME------------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQL  128 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~  128 (371)
                      -..++|.++...++.+....            .-.+-+.|+|++|+|||||++.++...   .   ...+.++..     
T Consensus        39 ~~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~---~---~~~i~~~~~-----  107 (278)
T 1iy2_A           39 FKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA---R---VPFITASGS-----  107 (278)
T ss_dssp             GGGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHT---T---CCEEEEEHH-----
T ss_pred             HHHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHc---C---CCEEEecHH-----
Confidence            45689988776666554321            112348999999999999999999886   2   123333221     


Q ss_pred             HHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHh-CCCceEEEEeCCCCcc----------------cccccccccCCCC
Q 043737          129 EQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNM-SNKKFVLLLDHIWELV----------------DLSQVGLPVPCRT  191 (371)
Q Consensus       129 ~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~~----------------~~~~~~~~l~~~~  191 (371)
                       ++.    ...       . ......+..+.+.. ...+.++++||++...                .+..+...+....
T Consensus       108 -~~~----~~~-------~-~~~~~~i~~~~~~~~~~~~~i~~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~lsgg~  174 (278)
T 1iy2_A          108 -DFV----EMF-------V-GVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFE  174 (278)
T ss_dssp             -HHH----HST-------T-THHHHHHHHHHHHHHTSCSEEEEEETHHHHHCC--------CHHHHHHHHHHHHHHTTCC
T ss_pred             -HHH----HHH-------h-hHHHHHHHHHHHHHHhcCCcEEehhhhHhhhcccccccCCcchHHHHHHHHHHHHHhCCC
Confidence             111    000       0 00111222223322 2456899999995321                0111111122011


Q ss_pred             CCC-cEEEEecCchHH-----HhhccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCc
Q 043737          192 SAS-NKTVFTARELEV-----CGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLP  260 (371)
Q Consensus       192 ~~~-~~iliTsR~~~~-----~~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~P  260 (371)
                      ... ..++.+|.....     .+...-...+.++..+.++-.+++...........+..    ...++..+.|+.
T Consensus       175 ~~~~~i~~a~t~~p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~----~~~la~~~~G~~  245 (278)
T 1iy2_A          175 KDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVD----LALLAKRTPGFV  245 (278)
T ss_dssp             TTCCEEEEEEESCTTSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSCBCTTCC----HHHHHHTCTTCC
T ss_pred             CCCCEEEEEecCCchhCCHhHcCCCcCCeEEEeCCcCHHHHHHHHHHHHccCCCCcccC----HHHHHHHcCCCC
Confidence            122 233334444322     21112345688888888888888887765433222222    456777777765

>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=97.99  E-value=0.00016  Score=62.58  Aligned_cols=171  Identities=13%  Similarity=0.106  Sum_probs=87.9

Q ss_pred             CccccchhHHHHHHHHHh---c---------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHH
Q 043737           62 PTVVGLQSTFDRVWRCLM---E---------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLE  129 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~---~---------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~  129 (371)
                      ..++|.+....++.+...   .         .-.+-+.|+|++|+|||||++.++...   .   ...+.++..      
T Consensus        16 ~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~---~---~~~i~~~~~------   83 (254)
T 1ixz_A           16 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA---R---VPFITASGS------   83 (254)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHT---T---CCEEEEEHH------
T ss_pred             HHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHh---C---CCEEEeeHH------
Confidence            568898876666544332   1         112348999999999999999999886   2   122333211      


Q ss_pred             HHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhC-CCceEEEEeCCCCccc----------------ccccccccCCCCC
Q 043737          130 QIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMS-NKKFVLLLDHIWELVD----------------LSQVGLPVPCRTS  192 (371)
Q Consensus       130 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~-~~~~LlVlDdv~~~~~----------------~~~~~~~l~~~~~  192 (371)
                      ++.    ...       . .........+.+... ..+.++++||++....                ...+...+.....
T Consensus        84 ~~~----~~~-------~-~~~~~~i~~~~~~~~~~~~~i~~~Deid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~g~~~  151 (254)
T 1ixz_A           84 DFV----EMF-------V-GVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEK  151 (254)
T ss_dssp             HHH----HSC-------T-THHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCT
T ss_pred             HHH----HHH-------h-hHHHHHHHHHHHHHHhcCCeEEEehhhhhhhcccCccccccchHHHHHHHHHHHHHhCCCC
Confidence            111    100       0 001122233333332 4568999999953210                1111111110112


Q ss_pred             CC-cEEEEecCchHHH-hhc----cCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCc
Q 043737          193 AS-NKTVFTARELEVC-GQM----EAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLP  260 (371)
Q Consensus       193 ~~-~~iliTsR~~~~~-~~~----~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~P  260 (371)
                      .. ..++.||...... ...    .-...+.++..+.++-.++++..........+..    ...+++.+.|+-
T Consensus       152 ~~~~i~~a~t~~p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~----~~~la~~~~G~~  221 (254)
T 1ixz_A          152 DTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVD----LALLAKRTPGFV  221 (254)
T ss_dssp             TCCEEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCTTCC----HHHHHHTCTTCC
T ss_pred             CCCEEEEEccCCchhCCHHHcCCCcCCeEEeeCCcCHHHHHHHHHHHHcCCCCCcccC----HHHHHHHcCCCC
Confidence            22 2333345443331 111    2234678888888888888887764433222222    455777777754

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=97.96  E-value=9.6e-05  Score=65.58  Aligned_cols=26  Identities=23%  Similarity=0.290  Sum_probs=23.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .++.+.|+|++|+|||+||+.+++..
T Consensus        35 ~p~~lLl~GppGtGKT~la~aiA~~l   60 (293)
T 3t15_A           35 VPLILGIWGGKGQGKSFQCELVFRKM   60 (293)
T ss_dssp             CCSEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            34688999999999999999999998

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=97.92  E-value=0.00033  Score=66.53  Aligned_cols=169  Identities=12%  Similarity=0.092  Sum_probs=91.2

Q ss_pred             CCccccchhHHHHHHHHHh---cC---------CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCH
Q 043737           61 PPTVVGLQSTFDRVWRCLM---EE---------QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQL  128 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~---~~---------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~  128 (371)
                      -..++|.++.+.++.+...   ..         -.+-+.|+|++|+|||+||+.++...   ..   ..+.++.+.-.. 
T Consensus        30 f~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~---~~---~~i~i~g~~~~~-  102 (499)
T 2dhr_A           30 FKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA---RV---PFITASGSDFVE-  102 (499)
T ss_dssp             TTSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHT---TC---CEEEEEGGGGTS-
T ss_pred             HHHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHh---CC---CEEEEehhHHHH-
Confidence            4678999887776655532   11         13458999999999999999999886   21   233444322110 


Q ss_pred             HHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhC----CCceEEEEeCCCCccc----------------ccccccccC
Q 043737          129 EQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMS----NKKFVLLLDHIWELVD----------------LSQVGLPVP  188 (371)
Q Consensus       129 ~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~----~~~~LlVlDdv~~~~~----------------~~~~~~~l~  188 (371)
                                          .........+...++    ..+.++++|+++....                +..+...+.
T Consensus       103 --------------------~~~g~~~~~v~~lfq~a~~~~p~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ld  162 (499)
T 2dhr_A          103 --------------------MFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMD  162 (499)
T ss_dssp             --------------------SCTTHHHHHHHHHTTTSSSSSSCEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGG
T ss_pred             --------------------hhhhhHHHHHHHHHHHHHhcCCCEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhc
Confidence                                000111122222222    2457999999964311                111111111


Q ss_pred             C-CCCCCcEEEEecCchHHHh-h-c---cCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCc
Q 043737          189 C-RTSASNKTVFTARELEVCG-Q-M---EAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLP  260 (371)
Q Consensus       189 ~-~~~~~~~iliTsR~~~~~~-~-~---~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~P  260 (371)
                      . .......++.+|....... . .   .-...+.++..+.++-.+++...+.......+..    ...|+..+.|+.
T Consensus       163 g~~~~~~viviAatn~p~~LD~aLlr~gRfdr~i~i~~Pd~~~R~~IL~~~~~~~~l~~dv~----l~~lA~~t~G~~  236 (499)
T 2dhr_A          163 GFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVD----LALLAKRTPGFV  236 (499)
T ss_dssp             GCCSSCCCEEEECCSCGGGSCTTTSSTTSSCCEEECCCCCHHHHHHHHHHTTSSSCCCCSST----THHHHTTSCSCC
T ss_pred             ccccCccEEEEEecCChhhcCcccccccccceEEecCCCCHHHHHHHHHHHHhcCCCChHHH----HHHHHHhcCCCC
Confidence            0 1122334444555543311 1 1   1234678888888888888887764432222222    456777888876

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.86  E-value=1.4e-05  Score=80.74  Aligned_cols=147  Identities=16%  Similarity=0.135  Sum_probs=81.9

Q ss_pred             CccccchhHHHHHHHHHhcC---------CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHH
Q 043737           62 PTVVGLQSTFDRVWRCLMEE---------QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQ  132 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~---------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~  132 (371)
                      ..++|.+..++.+...+...         ....+.++|++|+|||++|+.+++...   ......+.++++......   
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~---~~~~~~i~i~~s~~~~~~---  564 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESIF---GDEESMIRIDMSEYMEKH---  564 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHHH---SCTTCEEEEEGGGGCSSC---
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhc---CCCcceEEEechhccccc---
Confidence            45899999998888887631         113699999999999999999998872   222234555554321100   


Q ss_pred             HHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc--ccccccccC----------CCCCCCcEEEEe
Q 043737          133 GSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD--LSQVGLPVP----------CRTSASNKTVFT  200 (371)
Q Consensus       133 ~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~--~~~~~~~l~----------~~~~~~~~iliT  200 (371)
                                     ..........+.   .....+|+||+++....  ...+...+.          .....++.||+|
T Consensus       565 ---------------~~~~~~l~~~~~---~~~~~vl~lDEi~~~~~~~~~~Ll~~le~g~~~~~~g~~~~~~~~~iI~t  626 (758)
T 3pxi_A          565 ---------------STSGGQLTEKVR---RKPYSVVLLDAIEKAHPDVFNILLQVLEDGRLTDSKGRTVDFRNTILIMT  626 (758)
T ss_dssp             ---------------CCC---CHHHHH---HCSSSEEEEECGGGSCHHHHHHHHHHHHHSBCC-----CCBCTTCEEEEE
T ss_pred             ---------------ccccchhhHHHH---hCCCeEEEEeCccccCHHHHHHHHHHhccCeEEcCCCCEeccCCeEEEEe
Confidence                           000111111111   12345999999975421  111111110          012245678888


Q ss_pred             cCc-----------------hHHHhhccCCCceeecCCChHHHHHHHHHHh
Q 043737          201 ARE-----------------LEVCGQMEAHKSFKVERLGYEDAWKLFEEKV  234 (371)
Q Consensus       201 sR~-----------------~~~~~~~~~~~~~~l~~L~~~ea~~ll~~~~  234 (371)
                      |..                 +.+...  -...+.+.+++.++..+++...+
T Consensus       627 tn~~~~~~~~~~~~~~~~f~p~l~~R--l~~~i~~~~l~~~~~~~i~~~~l  675 (758)
T 3pxi_A          627 SNVGASEKDKVMGELKRAFRPEFINR--IDEIIVFHSLEKKHLTEIVSLMS  675 (758)
T ss_dssp             ESSSTTCCHHHHHHHHHHSCHHHHTT--SSEEEECC--CHHHHHHHHHHHH
T ss_pred             CCCChhhHHHHHHHHHhhCCHHHHhh--CCeEEecCCCCHHHHHHHHHHHH
Confidence            762                 111121  12478899999988888876654

>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=97.75  E-value=0.00062  Score=65.74  Aligned_cols=45  Identities=31%  Similarity=0.345  Sum_probs=34.7

Q ss_pred             ccccchhHHHHHHHHHhc------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           63 TVVGLQSTFDRVWRCLME------EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        63 ~~vGR~~~~~~l~~~L~~------~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .++|-+...+.+.+.+.-      .....+.|+|++|+||||||+.++...
T Consensus        82 di~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~~l  132 (543)
T 3m6a_A           82 EHHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKSL  132 (543)
T ss_dssp             HCSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHHhc
Confidence            368887777766554321      245689999999999999999999887

>1jr3_D DNA polymerase III, delta subunit; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1jqj_C* 1xxh_A* 1xxi_A* 3glf_A* 3glg_A* 3glh_A* 3gli_A*

Probab=97.73  E-value=0.00018  Score=65.25  Aligned_cols=166  Identities=9%  Similarity=-0.078  Sum_probs=98.9

Q ss_pred             HHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHH
Q 043737           74 VWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQE  153 (371)
Q Consensus        74 l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~  153 (371)
                      +.+.+.+.-.+++.++|+.|.||++.+..+.....  ...|+....+......++.++...+...               
T Consensus         9 l~~~l~~~~~~~yl~~G~e~~~~~~~~~~l~~~~~--~~~~~~~~~~~~~~~~~~~~l~~~~~~~---------------   71 (343)
T 1jr3_D            9 LRAQLNEGLRAAYLLLGNDPLLLQESQDAVRQVAA--AQGFEEHHTFSIDPNTDWNAIFSLCQAM---------------   71 (343)
T ss_dssp             HHHHHHHCCCSEEEEEESCHHHHHHHHHHHHHHHH--HHTCCEEEEEECCTTCCHHHHHHHHHHH---------------
T ss_pred             HHHHHhcCCCcEEEEECCcHHHHHHHHHHHHHHHH--hCCCCeeEEEEecCCCCHHHHHHHhcCc---------------
Confidence            33444434567999999999999999999888752  1223211112233333444433332111               


Q ss_pred             HHHHHHHHhCCCceEEEEeCCCC-c--ccccccccccCCCCCCCcEEEEecCc-------hHHHhh-ccCCCceeecCCC
Q 043737          154 KSQDIVKNMSNKKFVLLLDHIWE-L--VDLSQVGLPVPCRTSASNKTVFTARE-------LEVCGQ-MEAHKSFKVERLG  222 (371)
Q Consensus       154 ~~~~l~~~l~~~~~LlVlDdv~~-~--~~~~~~~~~l~~~~~~~~~iliTsR~-------~~~~~~-~~~~~~~~l~~L~  222 (371)
                             -+-+++-++|+|+++. .  ...+.+...+. ....++.+|+++..       ..+... .+....++..+++
T Consensus        72 -------plf~~~kvvii~~~~~kl~~~~~~aLl~~le-~p~~~~~~il~~~~~~~~~~~~k~~~~i~sr~~~~~~~~l~  143 (343)
T 1jr3_D           72 -------SLFASRQTLLLLLPENGPNAAINEQLLTLTG-LLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTCQTPE  143 (343)
T ss_dssp             -------HHCCSCEEEEEECCSSCCCTTHHHHHHHHHT-TCBTTEEEEEEESCCCTTTTTSHHHHHHTTTCEEEEECCCC
T ss_pred             -------CCccCCeEEEEECCCCCCChHHHHHHHHHHh-cCCCCeEEEEEcCCCChhhHhhHHHHHHHhCceEEEeeCCC
Confidence                   1224456999999976 3  23344444444 33456666655432       123222 3455788999999


Q ss_pred             hHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHH
Q 043737          223 YEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVG  267 (371)
Q Consensus       223 ~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a  267 (371)
                      .++...++...+...+...+   .+.+..+++.++|....+....
T Consensus       144 ~~~l~~~l~~~~~~~g~~i~---~~a~~~l~~~~~gdl~~~~~el  185 (343)
T 1jr3_D          144 QAQLPRWVAARAKQLNLELD---DAANQVLCYCYEGNLLALAQAL  185 (343)
T ss_dssp             TTHHHHHHHHHHHHTTCEEC---HHHHHHHHHSSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHhchHHHHHHHHH
Confidence            99999999888754332222   3558889999999887766543

>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=97.72  E-value=0.00017  Score=60.81  Aligned_cols=88  Identities=19%  Similarity=0.195  Sum_probs=53.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhc-----------cCCCCCCcCC
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKIN-----------LFNESWNSRS  150 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~-----------~~~~~~~~~~  150 (371)
                      ...++.|.|++|+|||||+.+++. .     .-..++|++.....+...+.. +...++           .... .....
T Consensus        19 ~G~~~~i~G~~GsGKTtl~~~l~~-~-----~~~~v~~i~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~-~~~~~   90 (220)
T 2cvh_A           19 PGVLTQVYGPYASGKTTLALQTGL-L-----SGKKVAYVDTEGGFSPERLVQ-MAETRGLNPEEALSRFILFTP-SDFKE   90 (220)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHH-H-----HCSEEEEEESSCCCCHHHHHH-HHHTTTCCHHHHHHHEEEECC-TTTSH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH-H-----cCCcEEEEECCCCCCHHHHHH-HHHhcCCChHHHhhcEEEEec-CCHHH
Confidence            456999999999999999999987 2     124688888766444444433 222222           1111 01112


Q ss_pred             HHHHHHHHHHHhCCCceEEEEeCCCCc
Q 043737          151 LQEKSQDIVKNMSNKKFVLLLDHIWEL  177 (371)
Q Consensus       151 ~~~~~~~l~~~l~~~~~LlVlDdv~~~  177 (371)
                      .......+...+..++-++|+|.+...
T Consensus        91 ~~~~~~~~~~l~~~~~~lliiD~~~~~  117 (220)
T 2cvh_A           91 QRRVIGSLKKTVDSNFALVVVDSITAH  117 (220)
T ss_dssp             HHHHHHHHHHHCCTTEEEEEEECCCCC
T ss_pred             HHHHHHHHHHHhhcCCCEEEEcCcHHH
Confidence            233455555555445779999998644

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=97.63  E-value=0.0021  Score=56.17  Aligned_cols=150  Identities=12%  Similarity=0.080  Sum_probs=77.9

Q ss_pred             CccccchhHHHHHHHHHhc-------------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCH
Q 043737           62 PTVVGLQSTFDRVWRCLME-------------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQL  128 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~-------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~  128 (371)
                      ..+.|-++..++|.+.+..             .-.+-+.|+|++|+|||||++.++...   ..   ..+.++...-.+.
T Consensus        10 ~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~GvlL~Gp~GtGKTtLakala~~~---~~---~~i~i~g~~l~~~   83 (274)
T 2x8a_A           10 ADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANES---GL---NFISVKGPELLNM   83 (274)
T ss_dssp             --CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSEEEEESSTTSCHHHHHHHHHHHT---TC---EEEEEETTTTCSS
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCeEEEECCCCCcHHHHHHHHHHHc---CC---CEEEEEcHHHHhh
Confidence            4567777777777654321             122349999999999999999999886   21   2344443221100


Q ss_pred             HHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHh-CCCceEEEEeCCCCcccc-------------cccccccCC-CCCC
Q 043737          129 EQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNM-SNKKFVLLLDHIWELVDL-------------SQVGLPVPC-RTSA  193 (371)
Q Consensus       129 ~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~~~~-------------~~~~~~l~~-~~~~  193 (371)
                                        ........+..+.+.. ...++++++|+++.....             ..+...+.. ....
T Consensus        84 ------------------~~~~~~~~i~~vf~~a~~~~p~i~~~Deid~~~~~r~~~~~~~~~~~~~~~l~~Lsgg~~~~  145 (274)
T 2x8a_A           84 ------------------YVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDRETGASVRVVNQLLTEMDGLEARQ  145 (274)
T ss_dssp             ------------------TTHHHHHHHHHHHHHHHHTCSEEEEEETCTTTCC---------CTTHHHHHHHHHHTCCSTT
T ss_pred             ------------------hhhHHHHHHHHHHHHHHhcCCCeEeeehhhhhhcccCCCcchHHHHHHHHHHHhhhcccccC
Confidence                              0000111122222222 346789999999743110             011111110 1122


Q ss_pred             CcEEEEecCchHHH-hhc----cCCCceeecCCChHHHHHHHHHHhC
Q 043737          194 SNKTVFTARELEVC-GQM----EAHKSFKVERLGYEDAWKLFEEKVG  235 (371)
Q Consensus       194 ~~~iliTsR~~~~~-~~~----~~~~~~~l~~L~~~ea~~ll~~~~~  235 (371)
                      ...++.+|....+. ...    .-...+.++..+.++-.++++....
T Consensus       146 ~~i~ia~tn~p~~LD~al~r~gRfd~~i~~~~P~~~~r~~il~~~~~  192 (274)
T 2x8a_A          146 QVFIMAATNRPDIIDPAILRPGRLDKTLFVGLPPPADRLAILKTITK  192 (274)
T ss_dssp             CEEEEEEESCGGGSCHHHHSTTSSCEEEECCSCCHHHHHHHHHHHTT
T ss_pred             CEEEEeecCChhhCCHhhcCcccCCeEEEeCCcCHHHHHHHHHHHHh
Confidence            33334445443331 111    2235678888888888889887764

>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=97.60  E-value=0.00012  Score=74.80  Aligned_cols=45  Identities=24%  Similarity=0.333  Sum_probs=37.4

Q ss_pred             ccccchhHHHHHHHHHhcC---------CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           63 TVVGLQSTFDRVWRCLMEE---------QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        63 ~~vGR~~~~~~l~~~L~~~---------~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .++|.+..++.+...+...         ....+.|+|++|+|||++|+.+++..
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            4799999998888877531         12589999999999999999999887

>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=97.59  E-value=2.6e-05  Score=66.02  Aligned_cols=113  Identities=14%  Similarity=-0.030  Sum_probs=65.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKN  161 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~  161 (371)
                      ...+++++|+.|+||||++..++.+..   .+...++.+......  . ....+++.++...+........+....+.+.
T Consensus        11 ~G~i~litG~mGsGKTT~ll~~~~r~~---~~g~kVli~~~~~d~--r-~~~~i~srlG~~~~~~~~~~~~~i~~~i~~~   84 (223)
T 2b8t_A           11 IGWIEFITGPMFAGKTAELIRRLHRLE---YADVKYLVFKPKIDT--R-SIRNIQSRTGTSLPSVEVESAPEILNYIMSN   84 (223)
T ss_dssp             CCEEEEEECSTTSCHHHHHHHHHHHHH---HTTCCEEEEEECCCG--G-GCSSCCCCCCCSSCCEEESSTHHHHHHHHST
T ss_pred             CcEEEEEECCCCCcHHHHHHHHHHHHH---hcCCEEEEEEeccCc--h-HHHHHHHhcCCCccccccCCHHHHHHHHHHH
Confidence            457999999999999999999988872   222234444433321  1 2224455555433322233444555555554


Q ss_pred             hCCC-ceEEEEeCCCCc--ccccccccccCCCCCCCcEEEEecCch
Q 043737          162 MSNK-KFVLLLDHIWEL--VDLSQVGLPVPCRTSASNKTVFTAREL  204 (371)
Q Consensus       162 l~~~-~~LlVlDdv~~~--~~~~~~~~~l~~~~~~~~~iliTsR~~  204 (371)
                      +.+. .-+||+|+++..  ..++.+.. +.   ..+..|++|.+..
T Consensus        85 ~~~~~~dvViIDEaQ~l~~~~ve~l~~-L~---~~gi~Vil~Gl~~  126 (223)
T 2b8t_A           85 SFNDETKVIGIDEVQFFDDRICEVANI-LA---ENGFVVIISGLDK  126 (223)
T ss_dssp             TSCTTCCEEEECSGGGSCTHHHHHHHH-HH---HTTCEEEEECCSB
T ss_pred             hhCCCCCEEEEecCccCcHHHHHHHHH-HH---hCCCeEEEEeccc
Confidence            4444 449999999643  22222222 11   1367899998853

>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=97.58  E-value=0.00025  Score=64.27  Aligned_cols=88  Identities=17%  Similarity=0.135  Sum_probs=57.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCC---CcCCHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESW---NSRSLQEKSQDI  158 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~---~~~~~~~~~~~l  158 (371)
                      ...++.|.|++|+|||||+.+++....   ..-..++|++.....+..     .+..++......   ...+.++....+
T Consensus        60 ~G~i~~I~GppGsGKSTLal~la~~~~---~~gg~VlyId~E~s~~~~-----ra~rlgv~~~~l~i~~~~~~e~~l~~~  131 (356)
T 3hr8_A           60 RGRIVEIFGQESSGKTTLALHAIAEAQ---KMGGVAAFIDAEHALDPV-----YAKNLGVDLKSLLISQPDHGEQALEIV  131 (356)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHHH---HTTCCEEEEESSCCCCHH-----HHHHHTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHH---hcCCeEEEEecccccchH-----HHHHcCCchhhhhhhhccCHHHHHHHH
Confidence            457999999999999999999998862   122357888776655543     445555432211   234556666555


Q ss_pred             HHHhC-CCceEEEEeCCCCc
Q 043737          159 VKNMS-NKKFVLLLDHIWEL  177 (371)
Q Consensus       159 ~~~l~-~~~~LlVlDdv~~~  177 (371)
                      ...++ .+.-++|+|.+...
T Consensus       132 ~~l~~~~~~dlvVIDSi~~l  151 (356)
T 3hr8_A          132 DELVRSGVVDLIVVDSVAAL  151 (356)
T ss_dssp             HHHHHTSCCSEEEEECTTTC
T ss_pred             HHHhhhcCCCeEEehHhhhh
Confidence            55543 45569999998543

>1g5t_A COB(I)alamin adenosyltransferase; P-loop protein, cobalamin biosynthesis, RECA fold; HET: ATP; 1.80A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1g5r_A* 1g64_A*

Probab=97.53  E-value=6.5e-05  Score=61.77  Aligned_cols=118  Identities=14%  Similarity=0.116  Sum_probs=64.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCC---cCCHHHHHHHHHHHhccCCCC--CCc-------CC
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASK---DLQLEQIQGSIAKKINLFNES--WNS-------RS  150 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~---~~~~~~~~~~l~~~l~~~~~~--~~~-------~~  150 (371)
                      ...|.|++..|.||||+|.-.+-+.   -.+--.+.++.+..   ..+...++..+.-.+......  +..       ..
T Consensus        28 ~g~i~v~tG~GkGKTTaA~GlalRA---~g~G~rV~~vQF~Kg~~~~gE~~~l~~L~v~~~~~g~gf~~~~~~~~~~~~~  104 (196)
T 1g5t_A           28 RGIIIVFTGNGKGKTTAAFGTAARA---VGHGKNVGVVQFIKGTWPNGERNLLEPHGVEFQVMATGFTWETQNREADTAA  104 (196)
T ss_dssp             CCCEEEEESSSSCHHHHHHHHHHHH---HHTTCCEEEEESSCCSSCCHHHHHHGGGTCEEEECCTTCCCCGGGHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHH---HHCCCeEEEEEeeCCCCCccHHHHHHhCCcEEEEcccccccCCCCcHHHHHH
Confidence            4567777777799999999888776   23333566665443   223344444431000000000  111       11


Q ss_pred             HHHHHHHHHHHhCCCce-EEEEeCCCC-----cccccccccccCCCCCCCcEEEEecCch
Q 043737          151 LQEKSQDIVKNMSNKKF-VLLLDHIWE-----LVDLSQVGLPVPCRTSASNKTVFTAREL  204 (371)
Q Consensus       151 ~~~~~~~l~~~l~~~~~-LlVlDdv~~-----~~~~~~~~~~l~~~~~~~~~iliTsR~~  204 (371)
                      ........++.+.+.+| |||||++-.     ....+.+...+. ....+..||+|+|..
T Consensus       105 a~~~l~~a~~~l~~~~yDlvILDEi~~al~~g~l~~~ev~~~l~-~Rp~~~~vIlTGr~a  163 (196)
T 1g5t_A          105 CMAVWQHGKRMLADPLLDMVVLDELTYMVAYDYLPLEEVISALN-ARPGHQTVIITGRGC  163 (196)
T ss_dssp             HHHHHHHHHHHTTCTTCSEEEEETHHHHHHTTSSCHHHHHHHHH-TSCTTCEEEEECSSC
T ss_pred             HHHHHHHHHHHHhcCCCCEEEEeCCCccccCCCCCHHHHHHHHH-hCcCCCEEEEECCCC
Confidence            12334555566665555 999999842     233333333343 444677899999984

>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=97.50  E-value=0.00041  Score=63.00  Aligned_cols=88  Identities=17%  Similarity=0.180  Sum_probs=56.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCC---CcCCHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESW---NSRSLQEKSQDI  158 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~---~~~~~~~~~~~l  158 (371)
                      ..+++.|.|++|+||||||.+++....   ..-..++|++.....+..     .+..++......   ...+.++....+
T Consensus        60 ~G~iv~I~G~pGsGKTtLal~la~~~~---~~g~~vlyi~~E~~~~~~-----~a~~lG~~~~~l~i~~~~~~e~~l~~~  131 (349)
T 2zr9_A           60 RGRVIEIYGPESSGKTTVALHAVANAQ---AAGGIAAFIDAEHALDPE-----YAKKLGVDTDSLLVSQPDTGEQALEIA  131 (349)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHH---HTTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH---hCCCeEEEEECCCCcCHH-----HHHHcCCCHHHeEEecCCCHHHHHHHH
Confidence            456999999999999999999987762   122468888887655432     244555332111   223455555555


Q ss_pred             HHHhC-CCceEEEEeCCCCc
Q 043737          159 VKNMS-NKKFVLLLDHIWEL  177 (371)
Q Consensus       159 ~~~l~-~~~~LlVlDdv~~~  177 (371)
                      ..... .+.-+||+|.+...
T Consensus       132 ~~l~~~~~~~lIVIDsl~~l  151 (349)
T 2zr9_A          132 DMLVRSGALDIIVIDSVAAL  151 (349)
T ss_dssp             HHHHTTTCCSEEEEECGGGC
T ss_pred             HHHHhcCCCCEEEEcChHhh
Confidence            55544 35669999998543

>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=97.49  E-value=9.7e-05  Score=65.57  Aligned_cols=70  Identities=19%  Similarity=0.328  Sum_probs=45.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEe--CCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHH
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVA--SKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVK  160 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~--~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~  160 (371)
                      .+++.|+|++|+|||+||.+++...   .   ..++|++.  ...             +..     ...+.+.....+.+
T Consensus       123 gsviLI~GpPGsGKTtLAlqlA~~~---G---~~VlyIs~~~eE~-------------v~~-----~~~~le~~l~~i~~  178 (331)
T 2vhj_A          123 SGMVIVTGKGNSGKTPLVHALGEAL---G---GKDKYATVRFGEP-------------LSG-----YNTDFNVFVDDIAR  178 (331)
T ss_dssp             SEEEEEECSCSSSHHHHHHHHHHHH---H---TTSCCEEEEBSCS-------------STT-----CBCCHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHhC---C---CCEEEEEecchhh-------------hhh-----hhcCHHHHHHHHHH
Confidence            4578899999999999999998762   1   12455555  221             100     01345566666666


Q ss_pred             HhCCCceEEEEeCCCCc
Q 043737          161 NMSNKKFVLLLDHIWEL  177 (371)
Q Consensus       161 ~l~~~~~LlVlDdv~~~  177 (371)
                      .+...+ ++|+|++...
T Consensus       179 ~l~~~~-LLVIDsI~aL  194 (331)
T 2vhj_A          179 AMLQHR-VIVIDSLKNV  194 (331)
T ss_dssp             HHHHCS-EEEEECCTTT
T ss_pred             HHhhCC-EEEEeccccc
Confidence            665556 9999999643

>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=97.48  E-value=0.00042  Score=61.32  Aligned_cols=88  Identities=13%  Similarity=0.156  Sum_probs=56.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCC---CcCCHHHH-HHHHH
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESW---NSRSLQEK-SQDIV  159 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~---~~~~~~~~-~~~l~  159 (371)
                      .++.|.|++|+|||||+.+++.... ....-..++|++........     .++.++......   ...+.++. ...+.
T Consensus        29 GiteI~G~pGsGKTtL~Lq~~~~~~-~~g~g~~vlyId~E~s~~~~-----ra~~lGvd~d~llv~~~~~~E~~~l~i~~  102 (333)
T 3io5_A           29 GLLILAGPSKSFKSNFGLTMVSSYM-RQYPDAVCLFYDSEFGITPA-----YLRSMGVDPERVIHTPVQSLEQLRIDMVN  102 (333)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHHHHH-HHCTTCEEEEEESSCCCCHH-----HHHHTTCCGGGEEEEECSBHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHH-hcCCCceEEEEeccchhhHH-----HHHHhCCCHHHeEEEcCCCHHHHHHHHHH
Confidence            3789999999999999999988762 11113478999887766543     366666543321   23344554 33333


Q ss_pred             HH--h-CCCceEEEEeCCCCc
Q 043737          160 KN--M-SNKKFVLLLDHIWEL  177 (371)
Q Consensus       160 ~~--l-~~~~~LlVlDdv~~~  177 (371)
                      ..  + .+++-++|+|.+...
T Consensus       103 ~l~~i~~~~~~lvVIDSI~aL  123 (333)
T 3io5_A          103 QLDAIERGEKVVVFIDSLGNL  123 (333)
T ss_dssp             HHHTCCTTCCEEEEEECSTTC
T ss_pred             HHHHhhccCceEEEEeccccc
Confidence            32  3 346789999999654

>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=97.47  E-value=0.00015  Score=73.27  Aligned_cols=46  Identities=22%  Similarity=0.287  Sum_probs=37.9

Q ss_pred             CccccchhHHHHHHHHHhcC---------CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           62 PTVVGLQSTFDRVWRCLMEE---------QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~---------~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..++|.+..++.+...+...         ....+.++|++|+|||++|+.+++..
T Consensus       458 ~~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l  512 (758)
T 1r6b_X          458 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL  512 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHh
Confidence            55899999998888877531         22479999999999999999999887

>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=97.45  E-value=0.00052  Score=62.60  Aligned_cols=88  Identities=17%  Similarity=0.137  Sum_probs=57.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCC---CCcCCHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNES---WNSRSLQEKSQDI  158 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~---~~~~~~~~~~~~l  158 (371)
                      ...++.|.|++|+|||+||.+++.....   .-..++|++.....+..     .+..++.....   ....+.++....+
T Consensus        73 ~G~li~I~G~pGsGKTtlal~la~~~~~---~g~~vlyi~~E~s~~~~-----~a~~~g~d~~~l~i~~~~~~e~~l~~l  144 (366)
T 1xp8_A           73 RGRITEIYGPESGGKTTLALAIVAQAQK---AGGTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIM  144 (366)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHH---TTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHHHHH---CCCeEEEEECCCChhHH-----HHHHcCCCHHHceeecCCcHHHHHHHH
Confidence            4468999999999999999999887621   22368899887655433     24445443211   0223556666666


Q ss_pred             HHHhCC-CceEEEEeCCCCc
Q 043737          159 VKNMSN-KKFVLLLDHIWEL  177 (371)
Q Consensus       159 ~~~l~~-~~~LlVlDdv~~~  177 (371)
                      ....+. ..-+||+|.+...
T Consensus       145 ~~l~~~~~~~lVVIDsl~~l  164 (366)
T 1xp8_A          145 ELLVRSGAIDVVVVDSVAAL  164 (366)
T ss_dssp             HHHHTTTCCSEEEEECTTTC
T ss_pred             HHHHhcCCCCEEEEeChHHh
Confidence            655543 4569999998543

>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=97.44  E-value=0.00048  Score=58.91  Aligned_cols=95  Identities=13%  Similarity=0.138  Sum_probs=54.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCC---CCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCC----C---CCcCCH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTP---NDFDFVIWVVASKDLQLEQIQGSIAKKINLFNE----S---WNSRSL  151 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~---~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~----~---~~~~~~  151 (371)
                      ...++.|.|++|+|||||+..++.......   ..-..++|++.........+. .++..++....    .   ....+.
T Consensus        23 ~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~~~~~~~~~-~~~~~~g~~~~~~~~~~~~~~~~~~  101 (243)
T 1n0w_A           23 TGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLL-AVAERYGLSGSDVLDNVAYARAFNT  101 (243)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHH-HHHHHTTCCHHHHHHTEEEEECCSH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCCCcCHHHHH-HHHHHcCCCHHHHhhCeEEEecCCH
Confidence            446999999999999999999988631100   023578888876644443332 33344433210    0   011222


Q ss_pred             HH---HHHHHHHHhC-CCceEEEEeCCCCc
Q 043737          152 QE---KSQDIVKNMS-NKKFVLLLDHIWEL  177 (371)
Q Consensus       152 ~~---~~~~l~~~l~-~~~~LlVlDdv~~~  177 (371)
                      .+   ....+.+.+. .++-++|+|++...
T Consensus       102 ~~~~~~~~~~~~~~~~~~~~lliiD~~~~~  131 (243)
T 1n0w_A          102 DHQTQLLYQASAMMVESRYALLIVDSATAL  131 (243)
T ss_dssp             HHHHHHHHHHHHHHHHSCEEEEEEETSSGG
T ss_pred             HHHHHHHHHHHHHHhcCCceEEEEeCchHH
Confidence            22   2333444443 46679999998543

>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=97.40  E-value=0.00099  Score=60.39  Aligned_cols=94  Identities=17%  Similarity=0.228  Sum_probs=55.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCC---CCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCC----------CCCc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTP---NDFDFVIWVVASKDLQLEQIQGSIAKKINLFNE----------SWNS  148 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~---~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~----------~~~~  148 (371)
                      ...++.|+|++|+|||+||.+++.......   ..-..++|++.....+...+.. ++..++....          ....
T Consensus       121 ~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~~~~~~~l~~-~~~~~g~~~~~~l~~l~~~~~~~~  199 (343)
T 1v5w_A          121 SMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRD-IADRFNVDHDAVLDNVLYARAYTS  199 (343)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHHHH-HHHHTTCCHHHHHHTEEEEECCST
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHH-HHHHcCCCHHHHHhceeEeecCCH
Confidence            457999999999999999999988741110   1234789998877655555443 3344433210          0011


Q ss_pred             CCHHHHHHHHHHHhC---CCceEEEEeCCCC
Q 043737          149 RSLQEKSQDIVKNMS---NKKFVLLLDHIWE  176 (371)
Q Consensus       149 ~~~~~~~~~l~~~l~---~~~~LlVlDdv~~  176 (371)
                      ....+.+..+...+.   .+.-+||+|.+..
T Consensus       200 e~~~~ll~~l~~~i~~~~~~~~lvVIDsl~~  230 (343)
T 1v5w_A          200 EHQMELLDYVAAKFHEEAGIFKLLIIDSIMA  230 (343)
T ss_dssp             THHHHHHHHHHHHHHHSCSSEEEEEEETSGG
T ss_pred             HHHHHHHHHHHHHHHhcCCCccEEEEechHH
Confidence            122233333444443   4456899998853

>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=97.40  E-value=0.0006  Score=61.33  Aligned_cols=94  Identities=16%  Similarity=0.216  Sum_probs=56.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCC---CCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCC-------CCcCCH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTP---NDFDFVIWVVASKDLQLEQIQGSIAKKINLFNES-------WNSRSL  151 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~---~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~-------~~~~~~  151 (371)
                      ...++.|+|++|+|||+||.+++.......   ..-..++|++.....+...+.. ++..++.....       ....+.
T Consensus       106 ~G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~~~~~~l~~-~~~~~g~~~~~~~~~l~~~~~~~~  184 (324)
T 2z43_A          106 TRTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFRWERIEN-MAKALGLDIDNVMNNIYYIRAINT  184 (324)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHHH-HHHHTTCCHHHHHHTEEEEECCSH
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHH-HHHHhCCCHHHHhccEEEEeCCCH
Confidence            346999999999999999999988752110   1134789998877655555543 34445432110       011222


Q ss_pred             H---HHHHHHHHHhC--CCceEEEEeCCCC
Q 043737          152 Q---EKSQDIVKNMS--NKKFVLLLDHIWE  176 (371)
Q Consensus       152 ~---~~~~~l~~~l~--~~~~LlVlDdv~~  176 (371)
                      +   +.+..+...+.  .+.-+||+|.+..
T Consensus       185 ~~~~~~l~~l~~~~~~~~~~~lvVIDsl~~  214 (324)
T 2z43_A          185 DHQIAIVDDLQELVSKDPSIKLIVVDSVTS  214 (324)
T ss_dssp             HHHHHHHHHHHHHHHHCTTEEEEEETTTTH
T ss_pred             HHHHHHHHHHHHHHHhccCCCEEEEeCcHH
Confidence            2   23444444443  4566999999853

>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=97.36  E-value=0.0005  Score=62.52  Aligned_cols=87  Identities=18%  Similarity=0.137  Sum_probs=54.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCC---CcCCHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESW---NSRSLQEKSQDI  158 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~---~~~~~~~~~~~l  158 (371)
                      ..+++.|.|++|+||||||.+++.....   .-..++|++.....+..     .+..++......   ...+.++....+
T Consensus        62 ~G~ii~I~G~pGsGKTtLal~la~~~~~---~g~~vlyid~E~s~~~~-----~a~~~g~~~~~l~i~~~~~~e~~~~~~  133 (356)
T 1u94_A           62 MGRIVEIYGPESSGKTTLTLQVIAAAQR---EGKTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDTGEQALEIC  133 (356)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHHH---TTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH---CCCeEEEEeCCCCccHH-----HHHHcCCChhheeeeCCCCHHHHHHHH
Confidence            4569999999999999999999887621   22368899887655533     234454332111   122344444444


Q ss_pred             HHHhC-CCceEEEEeCCCC
Q 043737          159 VKNMS-NKKFVLLLDHIWE  176 (371)
Q Consensus       159 ~~~l~-~~~~LlVlDdv~~  176 (371)
                      ....+ .+.-+||+|.+..
T Consensus       134 ~~l~~~~~~~lVVIDsl~~  152 (356)
T 1u94_A          134 DALARSGAVDVIVVDSVAA  152 (356)
T ss_dssp             HHHHHHTCCSEEEEECGGG
T ss_pred             HHHHhccCCCEEEEcCHHH
Confidence            43332 4456999999853

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=97.31  E-value=0.0002  Score=63.89  Aligned_cols=41  Identities=20%  Similarity=0.290  Sum_probs=30.6

Q ss_pred             chhHHHHHHHHHhcC---CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           67 LQSTFDRVWRCLMEE---QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        67 R~~~~~~l~~~L~~~---~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +...++.+.+++..-   ....+.|+|++|+|||+||..+++..
T Consensus       133 ~~~~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~~~  176 (308)
T 2qgz_A          133 RMEAFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHEL  176 (308)
T ss_dssp             HHHHHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            334445555666542   25789999999999999999999887

>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=97.26  E-value=0.0009  Score=60.09  Aligned_cols=93  Identities=11%  Similarity=0.141  Sum_probs=55.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCC---------CCC----CeEEEEEeCCcCCHHHHHHHHHHHhccCCC----
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTP---------NDF----DFVIWVVASKDLQLEQIQGSIAKKINLFNE----  144 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~---------~~f----~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~----  144 (371)
                      ...++.|+|++|+|||+||.+++.......         ..-    ..++|++.....+...+.. ++..++....    
T Consensus        97 ~g~i~~i~G~~gsGKT~la~~la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~~~~~~l~~-~~~~~g~~~~~~~~  175 (322)
T 2i1q_A           97 SQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQ-MAEHAGIDGQTVLD  175 (322)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHHHHH-HHHHHTCCHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhccccccccccccccCCCCCceEEEEECCCCCCHHHHHH-HHHHcCCCHHHHhc
Confidence            457999999999999999999987631000         111    4788998877655555553 3444443211    


Q ss_pred             C---CCcCCHH---HHHHHHHHHhCC--CceEEEEeCCC
Q 043737          145 S---WNSRSLQ---EKSQDIVKNMSN--KKFVLLLDHIW  175 (371)
Q Consensus       145 ~---~~~~~~~---~~~~~l~~~l~~--~~~LlVlDdv~  175 (371)
                      .   ....+.+   +....+...+..  +.-+||+|.+.
T Consensus       176 ~l~~~~~~~~~~~~~~l~~l~~~~~~~~~~~lvVIDsl~  214 (322)
T 2i1q_A          176 NTFVARAYNSDMQMLFAEKIEDLIQEGNNIKLVVIDSLT  214 (322)
T ss_dssp             TEEEEECSSHHHHHHHHHTHHHHHHTTCEEEEEEEECSS
T ss_pred             CEEEEeCCCHHHHHHHHHHHHHHHhhccCccEEEEECcH
Confidence            0   0112222   234444454443  45699999985

>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=97.24  E-value=0.002  Score=64.58  Aligned_cols=170  Identities=14%  Similarity=0.148  Sum_probs=77.5

Q ss_pred             CccccchhHHHHHHHHHhc-------------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCH
Q 043737           62 PTVVGLQSTFDRVWRCLME-------------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQL  128 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~-------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~  128 (371)
                      ..+.|-++..++|.+.+.-             ...+-|.++|++|+|||.||+.++...   ..     -++.++.    
T Consensus       477 ~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~---~~-----~f~~v~~----  544 (806)
T 3cf2_A          477 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC---QA-----NFISIKG----  544 (806)
T ss_dssp             TTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTT---TC-----EEEECCH----
T ss_pred             HHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHh---CC-----ceEEecc----
Confidence            4567777777777665431             134568899999999999999999997   22     2333321    


Q ss_pred             HHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHh-CCCceEEEEeCCCCccc----------------ccccccccCCCC
Q 043737          129 EQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNM-SNKKFVLLLDHIWELVD----------------LSQVGLPVPCRT  191 (371)
Q Consensus       129 ~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~~~----------------~~~~~~~l~~~~  191 (371)
                      .+++    ...       ...+ +..+..+.+.. +..+++|+||+++....                +..+...+....
T Consensus       545 ~~l~----s~~-------vGes-e~~vr~lF~~Ar~~~P~IifiDEiDsl~~~R~~~~~~~~~~~~rv~~~lL~~mdg~~  612 (806)
T 3cf2_A          545 PELL----TMW-------FGES-EANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMS  612 (806)
T ss_dssp             HHHH----TTT-------CSSC-HHHHHHHHHHHHTTCSEEEECSCGGGCC--------------CHHHHHHHHHHHSSC
T ss_pred             chhh----ccc-------cchH-HHHHHHHHHHHHHcCCceeechhhhHHhhccCCCCCCCchHHHHHHHHHHHHHhCCC
Confidence            1221    111       2222 23344444443 45789999999974311                111111111111


Q ss_pred             CCCcEEEE-ec-CchHH----HhhccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCC
Q 043737          192 SASNKTVF-TA-RELEV----CGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGL  259 (371)
Q Consensus       192 ~~~~~ili-Ts-R~~~~----~~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~  259 (371)
                      .....++| || |...+    .+...-...+.++.-+.++-.++|+..+.......+-+    ...|++.+.|+
T Consensus       613 ~~~~V~vi~aTN~p~~lD~AllRpgRfd~~i~v~lPd~~~R~~il~~~l~~~~~~~~~d----l~~la~~t~g~  682 (806)
T 3cf2_A          613 TKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVD----LEFLAKMTNGF  682 (806)
T ss_dssp             SSSSEEEECC-CCSSSSCHHHHSTTTSCCEEEC-----CHHHHTTTTTSSCC--CCC-----------------
T ss_pred             CCCCEEEEEeCCCchhCCHhHcCCCcceEEEEECCcCHHHHHHHHHHHhcCCCCCCCCC----HHHHHHhCCCC
Confidence            22223344 33 33322    21112245677766666666677776665443222222    45566666664

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=97.19  E-value=0.00028  Score=63.62  Aligned_cols=44  Identities=23%  Similarity=0.307  Sum_probs=38.4

Q ss_pred             CccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +.++|++..++.+...+..+  ..+.++|++|+|||+||+.+++..
T Consensus        27 ~~i~g~~~~~~~l~~~l~~~--~~vll~G~pGtGKT~la~~la~~~   70 (331)
T 2r44_A           27 KVVVGQKYMINRLLIGICTG--GHILLEGVPGLAKTLSVNTLAKTM   70 (331)
T ss_dssp             TTCCSCHHHHHHHHHHHHHT--CCEEEESCCCHHHHHHHHHHHHHT
T ss_pred             cceeCcHHHHHHHHHHHHcC--CeEEEECCCCCcHHHHHHHHHHHh
Confidence            45899999999998888654  478899999999999999999887

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=97.16  E-value=0.0012  Score=55.90  Aligned_cols=117  Identities=17%  Similarity=0.105  Sum_probs=61.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCC---------------
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESW---------------  146 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~---------------  146 (371)
                      ...+++|.|++|+|||||+..++....   ..-..++|+....  ....+...+. .++......               
T Consensus        22 ~G~~~~i~G~~GsGKTtl~~~l~~~~~---~~~~~v~~~~~~~--~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~   95 (235)
T 2w0m_A           22 QGFFIALTGEPGTGKTIFSLHFIAKGL---RDGDPCIYVTTEE--SRDSIIRQAK-QFNWDFEEYIEKKLIIIDALMKEK   95 (235)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHHHHH---HHTCCEEEEESSS--CHHHHHHHHH-HTTCCCGGGBTTTEEEEECCC---
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHH---HCCCeEEEEEccc--CHHHHHHHHH-HhcchHHHHhhCCEEEEecccccc
Confidence            346899999999999999999987652   1122466766543  3344433332 333211100               


Q ss_pred             ------CcCCHHHHHHHHHHHhC-CCce--EEEEeCCCCcc--c---ccccccccC-CCCCCCcEEEEecCch
Q 043737          147 ------NSRSLQEKSQDIVKNMS-NKKF--VLLLDHIWELV--D---LSQVGLPVP-CRTSASNKTVFTAREL  204 (371)
Q Consensus       147 ------~~~~~~~~~~~l~~~l~-~~~~--LlVlDdv~~~~--~---~~~~~~~l~-~~~~~~~~iliTsR~~  204 (371)
                            ...+..+....+...+. .++-  ++|+|+.....  +   ...+...+. .....+..||++|...
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~llilDe~~~~~~~d~~~~~~~~~~l~~~~~~~~~~vi~~~h~~  168 (235)
T 2w0m_A           96 EDQWSLVNLTPEELVNKVIEAKQKLGYGKARLVIDSVSALFLDKPAMARKISYYLKRVLNKWNFTIYATSQYA  168 (235)
T ss_dssp             -CTTBCSSCCHHHHHHHHHHHHHHHCSSCEEEEEETGGGGSSSCGGGHHHHHHHHHHHHHHTTEEEEEEEC--
T ss_pred             CceeeecCCCHHHHHHHHHHHHHhhCCCceEEEEECchHhhcCCHHHHHHHHHHHHHHHHhCCCeEEEEeccC
Confidence                  11244555555544442 2344  99999986332  1   111111111 0123467788887654

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=97.13  E-value=0.00051  Score=57.13  Aligned_cols=42  Identities=24%  Similarity=0.460  Sum_probs=34.3

Q ss_pred             cchhHHHHHHHHHhc---CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           66 GLQSTFDRVWRCLME---EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        66 GR~~~~~~l~~~L~~---~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .|++.++.|.+.+..   ....+|+|.|+.|+|||||++.+...+
T Consensus         2 ~~~~~~~~l~~~~~~~~~~~~~~i~i~G~~GsGKstl~~~l~~~~   46 (201)
T 1rz3_A            2 ELRDRIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQTL   46 (201)
T ss_dssp             CHHHHHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhccCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            356677888877764   345799999999999999999998876

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=97.07  E-value=0.003  Score=58.78  Aligned_cols=26  Identities=27%  Similarity=0.409  Sum_probs=23.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhcc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFL  108 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~  108 (371)
                      ..+|.++|++|+||||++..++..+.
T Consensus       100 p~vIlivG~~G~GKTTt~~kLA~~l~  125 (443)
T 3dm5_A          100 PTILLMVGIQGSGKTTTVAKLARYFQ  125 (443)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CeEEEEECcCCCCHHHHHHHHHHHHH
Confidence            67999999999999999999998873

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=97.07  E-value=0.0025  Score=56.93  Aligned_cols=51  Identities=14%  Similarity=0.068  Sum_probs=36.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAK  137 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~  137 (371)
                      ...++.|.|.+|+||||||.+++..... .+  ..++|++...  +..++...+..
T Consensus        67 ~G~l~li~G~pG~GKTtl~l~ia~~~a~-~g--~~vl~~slE~--s~~~l~~R~~~  117 (315)
T 3bh0_A           67 RRNFVLIAARPSMGKTAFALKQAKNMSD-ND--DVVNLHSLEM--GKKENIKRLIV  117 (315)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHHHHHT-TT--CEEEEEESSS--CHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHH-cC--CeEEEEECCC--CHHHHHHHHHH
Confidence            4569999999999999999999877632 12  5688887653  44555554443

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=97.02  E-value=0.00061  Score=64.80  Aligned_cols=44  Identities=11%  Similarity=0.092  Sum_probs=38.1

Q ss_pred             CccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +.++|++..++.+...+..+  ..|.|+|++|+|||+||+.++...
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            45799999999888887654  488999999999999999999887

>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=96.95  E-value=0.00047  Score=55.93  Aligned_cols=24  Identities=17%  Similarity=0.315  Sum_probs=22.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+|.|+|++|+||||+++.+.+.+
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~~l   27 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQSVL   27 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhc
Confidence            589999999999999999999987

>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=96.92  E-value=0.0004  Score=63.02  Aligned_cols=46  Identities=17%  Similarity=0.252  Sum_probs=35.3

Q ss_pred             CccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..++|.+.....+...+.......+.|+|++|+|||+||+.+++..
T Consensus        24 ~~i~G~~~~~~~l~~~~~~~~~~~vLl~G~~GtGKT~la~~la~~~   69 (350)
T 1g8p_A           24 SAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAALL   69 (350)
T ss_dssp             GGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHHHS
T ss_pred             hhccChHHHHHHHHHHhhCCCCceEEEECCCCccHHHHHHHHHHhC
Confidence            4589998866655444433334459999999999999999999876

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=96.91  E-value=4.8e-05  Score=62.55  Aligned_cols=24  Identities=25%  Similarity=0.199  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+++++|+.|+||||++.+++.+.
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            588999999999999998887765

>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=96.89  E-value=0.0052  Score=51.82  Aligned_cols=44  Identities=20%  Similarity=0.241  Sum_probs=31.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCC--C-CCCCeEEEEEeCCc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHT--P-NDFDFVIWVVASKD  125 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~--~-~~f~~~~wv~~~~~  125 (371)
                      ...+++|.|++|+|||||++.++......  . .....++|+.....
T Consensus        24 ~G~~~~l~G~nGsGKSTll~~l~g~~~~~~~~g~~~~~~i~~~~~~~   70 (231)
T 4a74_A           24 TQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENT   70 (231)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCEEEEEECCCC
Confidence            45699999999999999999998754110  0 12346888876543

>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=96.86  E-value=0.00042  Score=56.80  Aligned_cols=24  Identities=25%  Similarity=0.416  Sum_probs=22.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      |.|+|+||+|+|||||++.+..+.
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~~~   25 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhC
Confidence            568999999999999999998876

>3ice_A Transcription termination factor RHO; transcription, ATPase, hexamer, helicase, RNA, RECA, OB fold ATP-binding, hydrolase; HET: MSE ADP SPD; 2.80A {Escherichia coli k-12} PDB: 1pv4_A 1pvo_A* 1xpo_A* 1xpr_A* 1xpu_A* 2ht1_A

Probab=96.85  E-value=0.00048  Score=62.55  Aligned_cols=51  Identities=16%  Similarity=0.101  Sum_probs=33.3

Q ss_pred             HHHHHhc-CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCc
Q 043737           74 VWRCLME-EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKD  125 (371)
Q Consensus        74 l~~~L~~-~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~  125 (371)
                      .++.+.. .....++|+|++|+|||||++.+++...+....+ .++++-++..
T Consensus       164 aID~~~pi~rGQr~~IvG~sG~GKTtLl~~Iar~i~~~~~~v-~~I~~lIGER  215 (422)
T 3ice_A          164 VLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDC-VLMVLLIDER  215 (422)
T ss_dssp             HHHHHSCCBTTCEEEEECCSSSSHHHHHHHHHHHHHHHCTTS-EEEEEEESSC
T ss_pred             eeeeeeeecCCcEEEEecCCCCChhHHHHHHHHHHhhcCCCe-eEEEEEecCC
Confidence            3444443 3456899999999999999999887652112222 3445666654

>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=96.83  E-value=0.00063  Score=54.74  Aligned_cols=24  Identities=21%  Similarity=0.247  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+|+|.|++|+||||+++.++..+
T Consensus         2 ~~i~l~G~~GsGKsT~~~~L~~~l   25 (173)
T 3kb2_A            2 TLIILEGPDCCFKSTVAAKLSKEL   25 (173)
T ss_dssp             CEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            478999999999999999999887

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=96.82  E-value=0.00098  Score=55.72  Aligned_cols=39  Identities=23%  Similarity=0.233  Sum_probs=30.5

Q ss_pred             hHHHHHHHHHhc--CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           69 STFDRVWRCLME--EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        69 ~~~~~l~~~L~~--~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +.+++|.+.+..  ....+|+|.|+.|+|||||++.++...
T Consensus         6 ~~~~~~~~~~~~~~~~g~~v~I~G~sGsGKSTl~~~l~~~~   46 (208)
T 3c8u_A            6 ALCQGVLERLDPRQPGRQLVALSGAPGSGKSTLSNPLAAAL   46 (208)
T ss_dssp             HHHHHHHHHSCTTCCSCEEEEEECCTTSCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            345566665543  356799999999999999999998877

>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=96.82  E-value=0.0012  Score=60.33  Aligned_cols=45  Identities=18%  Similarity=0.158  Sum_probs=37.2

Q ss_pred             ccccchhHHHHHHHHHhc---------------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           63 TVVGLQSTFDRVWRCLME---------------EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        63 ~~vGR~~~~~~l~~~L~~---------------~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .++|.+..++.+..++..               ...+.+.++|++|+|||++|+.+++..
T Consensus        16 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~   75 (363)
T 3hws_A           16 YVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLL   75 (363)
T ss_dssp             HCCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             hccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHc
Confidence            469999999988887731               134678999999999999999999887

>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=96.77  E-value=0.0054  Score=57.05  Aligned_cols=25  Identities=28%  Similarity=0.258  Sum_probs=23.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+|.++|++|+||||++..++..+
T Consensus        97 ~~vI~lvG~~GsGKTTt~~kLA~~l  121 (433)
T 3kl4_A           97 PFIIMLVGVQGSGKTTTAGKLAYFY  121 (433)
T ss_dssp             SEEEEECCCTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            5799999999999999999999887

>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1 b.49.1.1 c.37.1.11

Probab=96.77  E-value=0.0076  Score=56.35  Aligned_cols=100  Identities=13%  Similarity=0.177  Sum_probs=54.3

Q ss_pred             HHHHhc-CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcC-CHHHHHHHHHHHhccCC----CCCCc
Q 043737           75 WRCLME-EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDL-QLEQIQGSIAKKINLFN----ESWNS  148 (371)
Q Consensus        75 ~~~L~~-~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~l~~~l~~~~----~~~~~  148 (371)
                      ++.|.. .+...++|+|++|+|||||+..++....  ......+++..++... ...++..++...=....    -....
T Consensus       142 ID~L~pi~kGq~~~i~G~sGvGKTtL~~~l~~~~~--~~~~~i~V~~~iGerttev~el~~~l~~~~~l~~tvvv~~~~~  219 (473)
T 1sky_E          142 VDLLAPYIKGGKIGLFGGAGVGKTVLIQELIHNIA--QEHGGISVFAGVGERTREGNDLYHEMKDSGVISKTAMVFGQMN  219 (473)
T ss_dssp             HHHHSCEETTCEEEEECCSSSCHHHHHHHHHHHHH--HHTCCCEEEEEESSCHHHHHHHHHHHHHTSGGGGEEEEEECTT
T ss_pred             HHHHhhhccCCEEEEECCCCCCccHHHHHHHhhhh--hccCcEEEEeeeccCchHHHHHHHHhhhcCCcceeEEEEEcCC
Confidence            444433 2334688999999999999999987752  1122345666666544 34455555543200000    00011


Q ss_pred             CCHHHHH------HHHHHH---hCCCceEEEEeCCCC
Q 043737          149 RSLQEKS------QDIVKN---MSNKKFVLLLDHIWE  176 (371)
Q Consensus       149 ~~~~~~~------~~l~~~---l~~~~~LlVlDdv~~  176 (371)
                      ..+....      -.+.++   .+++.+|+++||+..
T Consensus       220 d~pg~r~~~~~~~ltiAEyFrd~~G~~VLl~~D~itR  256 (473)
T 1sky_E          220 EPPGARMRVALTGLTMAEYFRDEQGQDGLLFIDNIFR  256 (473)
T ss_dssp             SCHHHHHHHHHHHHHHHHHHHHHSCCEEEEEEECTHH
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccHHH
Confidence            2222111      122222   258899999999953

>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=96.77  E-value=0.0047  Score=51.44  Aligned_cols=77  Identities=14%  Similarity=0.067  Sum_probs=44.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHH-------hccCCCCCCcCCHHHHHHH
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKK-------INLFNESWNSRSLQEKSQD  157 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~-------l~~~~~~~~~~~~~~~~~~  157 (371)
                      +|+|.|++|+||+|.|+.+++++        ++..++.      -+++++-+..       .......-.-...+-....
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~--------g~~~ist------GdllR~~i~~~t~lg~~~~~~~~~G~lvpd~iv~~l   67 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEK--------GFVHIST------GDILREAVQKGTPLGKKAKEYMERGELVPDDLIIAL   67 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH--------CCEEEEH------HHHHHHHHHHTCHHHHHHHHHHHHTCCCCHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH--------CCeEEcH------HHHHHHHHHhcChhhhhHHHHHhcCCcCCHHHHHHH
Confidence            67899999999999999999887        2334433      2333322111       0000000022334455666


Q ss_pred             HHHHhCCCceEEEEeCCCC
Q 043737          158 IVKNMSNKKFVLLLDHIWE  176 (371)
Q Consensus       158 l~~~l~~~~~LlVlDdv~~  176 (371)
                      +.+.+..... +|||.+-.
T Consensus        68 v~~~l~~~~~-~ilDGfPR   85 (206)
T 3sr0_A           68 IEEVFPKHGN-VIFDGFPR   85 (206)
T ss_dssp             HHHHCCSSSC-EEEESCCC
T ss_pred             HHHhhccCCc-eEecCCch
Confidence            7777765554 78899853

>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=96.76  E-value=0.0064  Score=56.05  Aligned_cols=93  Identities=14%  Similarity=0.162  Sum_probs=52.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCC---CCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCC-------CCcCCH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHT---PNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNES-------WNSRSL  151 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~---~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~-------~~~~~~  151 (371)
                      ...++.|.|++|+|||||+.+++-.....   ......++|++.........+ ..++..++.....       ....+.
T Consensus       177 ~Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~~~~~~rl-~~~a~~~gl~~~~vleni~~~~~~~~  255 (400)
T 3lda_A          177 TGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRL-VSIAQRFGLDPDDALNNVAYARAYNA  255 (400)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHH-HHHHHHTTCCHHHHHHTEEEEECCSH
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCCccCHHHH-HHHHHHcCCChHhHhhcEEEeccCCh
Confidence            44699999999999999999876443110   112346888887665444433 3355555432110       011122


Q ss_pred             H---HHHHHHHHHhC-CCceEEEEeCCC
Q 043737          152 Q---EKSQDIVKNMS-NKKFVLLLDHIW  175 (371)
Q Consensus       152 ~---~~~~~l~~~l~-~~~~LlVlDdv~  175 (371)
                      .   +....+...+. .+.-++|+|.+.
T Consensus       256 ~~~~~~l~~~~~~l~~~~~~llVIDs~t  283 (400)
T 3lda_A          256 DHQLRLLDAAAQMMSESRFSLIVVDSVM  283 (400)
T ss_dssp             HHHHHHHHHHHHHHHHSCEEEEEEETGG
T ss_pred             HHHHHHHHHHHHHHHhcCCceEEecchh
Confidence            2   22233333332 356799999974

>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=96.75  E-value=0.0046  Score=54.91  Aligned_cols=91  Identities=13%  Similarity=0.096  Sum_probs=50.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcC-CHHHHHHHHHHHhccCCC-CCCcCCHHHH-HHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDL-QLEQIQGSIAKKINLFNE-SWNSRSLQEK-SQDI  158 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~l~~~l~~~~~-~~~~~~~~~~-~~~l  158 (371)
                      ...++.|+|++|+||||++..++..+.   ..-..+.++...... ...+-+..++...+...- .....++... ...+
T Consensus       103 ~~~vi~ivG~~GsGKTTl~~~LA~~l~---~~g~kV~lv~~D~~r~~a~eqL~~~~~~~gl~~~~~~s~~~~~~v~~~al  179 (306)
T 1vma_A          103 PPFVIMVVGVNGTGKTTSCGKLAKMFV---DEGKSVVLAAADTFRAAAIEQLKIWGERVGATVISHSEGADPAAVAFDAV  179 (306)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHH---HTTCCEEEEEECTTCHHHHHHHHHHHHHHTCEEECCSTTCCHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHHHHH---hcCCEEEEEccccccHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHH
Confidence            346899999999999999999998873   122345666554321 122223344555443211 1122333333 2334


Q ss_pred             HHHhCCCceEEEEeCCC
Q 043737          159 VKNMSNKKFVLLLDHIW  175 (371)
Q Consensus       159 ~~~l~~~~~LlVlDdv~  175 (371)
                      ...+..+.-++|+|..-
T Consensus       180 ~~a~~~~~dvvIiDtpg  196 (306)
T 1vma_A          180 AHALARNKDVVIIDTAG  196 (306)
T ss_dssp             HHHHHTTCSEEEEEECC
T ss_pred             HHHHhcCCCEEEEECCC
Confidence            44344455588999764

>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=96.73  E-value=0.0049  Score=55.87  Aligned_cols=95  Identities=21%  Similarity=0.278  Sum_probs=52.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCC---CCeEEEEEeCCcCCHHHHHHHHHHHhccCCC----------CCCc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPND---FDFVIWVVASKDLQLEQIQGSIAKKINLFNE----------SWNS  148 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~---f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~----------~~~~  148 (371)
                      ...++.|+|++|+|||||+.+++.........   -..++|++.........+ ..+....+....          ....
T Consensus       130 ~G~i~~I~G~~GsGKTTL~~~l~~~~~~~~~~Gg~~G~vi~i~~e~~~~~~~i-~~i~q~~~~~~~~v~~ni~~~~~~~~  208 (349)
T 1pzn_A          130 TQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERI-REIAQNRGLDPDEVLKHIYVARAFNS  208 (349)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHH-HHHHHTTTCCHHHHGGGEEEEECCSH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhccchhcCCCCCeEEEEeCCCCCCHHHH-HHHHHHcCCCHHHHhhCEEEEecCCh
Confidence            45799999999999999999998875111111   124588877554333332 233333322110          0011


Q ss_pred             CCHHHHHHHHHHHhC------CCceEEEEeCCCCc
Q 043737          149 RSLQEKSQDIVKNMS------NKKFVLLLDHIWEL  177 (371)
Q Consensus       149 ~~~~~~~~~l~~~l~------~~~~LlVlDdv~~~  177 (371)
                      ....+.+..+...+.      .++-+||+|.+...
T Consensus       209 ~~~~~~l~~~~~~~~~lS~G~~~~~llIlDs~ta~  243 (349)
T 1pzn_A          209 NHQMLLVQQAEDKIKELLNTDRPVKLLIVDSLTSH  243 (349)
T ss_dssp             HHHHHHHHHHHHHHHHSSSSSSCEEEEEEETSSTT
T ss_pred             HHHHHHHHHHHHHHHHhccccCCCCEEEEeCchHh
Confidence            112233444444443      35679999998643

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=96.73  E-value=0.0037  Score=56.16  Aligned_cols=49  Identities=20%  Similarity=0.095  Sum_probs=34.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSI  135 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l  135 (371)
                      ...++.|.|.+|+||||||.+++.....   .-..++|++..-  +..++...+
T Consensus        45 ~G~LiiIaG~pG~GKTt~al~ia~~~a~---~g~~Vl~fSlEm--s~~ql~~Rl   93 (338)
T 4a1f_A           45 KGSLVIIGARPSMGKTSLMMNMVLSALN---DDRGVAVFSLEM--SAEQLALRA   93 (338)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHHHHHHH---TTCEEEEEESSS--CHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHH---cCCeEEEEeCCC--CHHHHHHHH
Confidence            4469999999999999999999988732   234677776543  344444444

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=96.73  E-value=0.0015  Score=59.92  Aligned_cols=46  Identities=17%  Similarity=0.161  Sum_probs=36.6

Q ss_pred             CccccchhHHHHHHHHHhc------------------------------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           62 PTVVGLQSTFDRVWRCLME------------------------------EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~------------------------------~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..++|.+...+.|..++..                              .....+.++|++|+|||++|+.+++..
T Consensus        21 ~~viGq~~ak~~l~~~~~~~~~~~~~g~~~~~~~~~~~~~p~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l   96 (376)
T 1um8_A           21 NYVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHL   96 (376)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             hHccCcHHHHHHHHHHHHHHHHHHHhhhhhhhccccccccccccccccccCCCCEEEECCCCCCHHHHHHHHHHHh
Confidence            4578998888888776620                              123578999999999999999999887

>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=96.70  E-value=0.00089  Score=53.91  Aligned_cols=23  Identities=22%  Similarity=0.343  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+|+|.|++|+||||+|+.+ ...
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L-~~~   24 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL-KER   24 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH-HHT
T ss_pred             cEEEEECCCCCCHHHHHHHH-HHC
Confidence            47899999999999999999 554

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=96.70  E-value=0.0065  Score=53.69  Aligned_cols=87  Identities=14%  Similarity=0.106  Sum_probs=48.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCc-CCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKD-LQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVK  160 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~  160 (371)
                      ...+++|+|++|+||||++..++..+....  -..+..+..... ....+.+.......+....  ...+.......+. 
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~~l~~~~--G~~V~lv~~D~~r~~a~eqL~~~~~~~gl~~~--~~~~~~~l~~al~-  178 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAAISMLEK--HKKIAFITTDTYRIAAVEQLKTYAELLQAPLE--VCYTKEEFQQAKE-  178 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHHHHTT--CCCEEEEECCCSSTTHHHHHHHHHTTTTCCCC--BCSSHHHHHHHHH-
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHhc--CCEEEEEecCcccchHHHHHHHHHHhcCCCeE--ecCCHHHHHHHHH-
Confidence            456999999999999999999988773111  124566655432 2333334444444443221  1123333333333 


Q ss_pred             HhCCCceEEEEeCC
Q 043737          161 NMSNKKFVLLLDHI  174 (371)
Q Consensus       161 ~l~~~~~LlVlDdv  174 (371)
                      .+ .+.=++|+|-.
T Consensus       179 ~~-~~~dlvIiDT~  191 (296)
T 2px0_A          179 LF-SEYDHVFVDTA  191 (296)
T ss_dssp             HG-GGSSEEEEECC
T ss_pred             Hh-cCCCEEEEeCC
Confidence            33 33458889943

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.69  E-value=0.001  Score=53.86  Aligned_cols=22  Identities=23%  Similarity=0.200  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q 043737           84 GIVGLYGMGEVGKTTLLTQINK  105 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~  105 (371)
                      .+|+|.|++|+||||+|+.+.+
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

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=96.67  E-value=0.0045  Score=67.53  Aligned_cols=86  Identities=19%  Similarity=0.133  Sum_probs=56.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCC---CcCCHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESW---NSRSLQEKSQDI  158 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~---~~~~~~~~~~~l  158 (371)
                      ..+.+.|+|++|+|||+||.+++....   ..-..+.|+++....+...     +..++......   .....++....+
T Consensus      1426 ~g~~vll~GppGtGKT~LA~ala~ea~---~~G~~v~Fi~~e~~~~~l~-----a~~~G~dl~~l~v~~~~~~E~~l~~~ 1497 (2050)
T 3cmu_A         1426 MGRIVEIYGPESSGKTTLTLQVIAAAQ---REGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEIC 1497 (2050)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHHH---TTTCCEEEECTTSCCCHHH-----HHHTTCCTTTCEEECCSSHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH---HcCCcEEEEEcccccCHHH-----HHHcCCCchhceeecCChHHHHHHHH
Confidence            567999999999999999999988862   2334678887776655444     44444221111   122334455555


Q ss_pred             HHHhC-CCceEEEEeCCC
Q 043737          159 VKNMS-NKKFVLLLDHIW  175 (371)
Q Consensus       159 ~~~l~-~~~~LlVlDdv~  175 (371)
                      ....+ .+..+||+|.+.
T Consensus      1498 ~~lvr~~~~~lVVIDsi~ 1515 (2050)
T 3cmu_A         1498 DALARSGAVDVIVVDSVA 1515 (2050)
T ss_dssp             HHHHHHTCCSEEEESCGG
T ss_pred             HHHHhcCCCCEEEEcChh
Confidence            54443 567799999995

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.66  E-value=0.001  Score=54.34  Aligned_cols=25  Identities=28%  Similarity=0.312  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+.|+|+|++|+||||+++.+++.+
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            4588999999999999999999887

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.66  E-value=0.0011  Score=55.05  Aligned_cols=26  Identities=35%  Similarity=0.303  Sum_probs=23.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....|+|.|++|+||||+++.++..+
T Consensus        24 ~~~~i~l~G~~GsGKsTl~~~La~~l   49 (199)
T 3vaa_A           24 AMVRIFLTGYMGAGKTTLGKAFARKL   49 (199)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            45689999999999999999999887

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=96.65  E-value=0.0021  Score=54.21  Aligned_cols=40  Identities=18%  Similarity=0.223  Sum_probs=31.1

Q ss_pred             hhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           68 QSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        68 ~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ++..+.+...+.......|+|.|.+|+|||||+..++...
T Consensus        23 ~~~a~~~r~~~~~~~~~~i~ivG~~gvGKTtl~~~l~~~~   62 (226)
T 2hf9_A           23 KRLADKNRKLLNKHGVVAFDFMGAIGSGKTLLIEKLIDNL   62 (226)
T ss_dssp             HHHHHHHHHHHHHTTCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCeEEEEEcCCCCCHHHHHHHHHHHh
Confidence            3344555555555667889999999999999999999886

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=96.64  E-value=0.0012  Score=53.81  Aligned_cols=25  Identities=20%  Similarity=0.260  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .++++|+|++|+|||||++.+....
T Consensus         5 g~~i~i~GpsGsGKSTL~~~L~~~~   29 (180)
T 1kgd_A            5 RKTLVLLGAHGVGRRHIKNTLITKH   29 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            4589999999999999999998865

>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=96.64  E-value=0.0017  Score=53.89  Aligned_cols=27  Identities=22%  Similarity=0.401  Sum_probs=24.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....+|+|.|++|+|||||++.++..+
T Consensus        23 ~~g~~i~l~G~sGsGKSTl~~~La~~l   49 (200)
T 3uie_A           23 QKGCVIWVTGLSGSGKSTLACALNQML   49 (200)
T ss_dssp             SCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            456899999999999999999999887

>2ck3_D ATP synthase subunit beta\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1cow_D* 1bmf_D* 1e1q_D* 1e1r_D* 1efr_D* 1e79_D* 1h8h_D* 1ohh_D* 1qo1_D 1w0j_D* 1w0k_D* 1h8e_D* 2jdi_D* 2jiz_D* 2jj1_D* 2jj2_D* 2v7q_D* 2wss_D* 2w6j_D 2w6e_D ...

Probab=96.63  E-value=0.02  Score=53.52  Aligned_cols=63  Identities=17%  Similarity=0.288  Sum_probs=44.4

Q ss_pred             HHHHHhc-CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcC-CHHHHHHHHHHH
Q 043737           74 VWRCLME-EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDL-QLEQIQGSIAKK  138 (371)
Q Consensus        74 l~~~L~~-~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~l~~~  138 (371)
                      .++.|.. .+...++|.|.+|+|||+|+.++++...  +.+.+.++++-++... ...++.+++...
T Consensus       143 ~ID~l~pigkGQr~~Ifgg~G~GKT~L~~~i~~~~~--~~~~~v~V~~~iGER~rEv~e~~~~~~~~  207 (482)
T 2ck3_D          143 VVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVA--KAHGGYSVFAGVGERTREGNDLYHEMIES  207 (482)
T ss_dssp             HHHHHSCEETTCEEEEEECTTSSHHHHHHHHHHHTT--TTCSSEEEEEEESCCHHHHHHHHHHHHHH
T ss_pred             EEecccccccCCeeeeecCCCCChHHHHHHHHHhhH--hhCCCEEEEEECCCcchHHHHHHHHhhhc
Confidence            4555543 3456899999999999999999998752  3344667777776654 456666666654

>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=96.63  E-value=0.0013  Score=53.99  Aligned_cols=25  Identities=24%  Similarity=0.309  Sum_probs=23.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+|+|.|++|+||||+++.+...+
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            4689999999999999999999876

>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=96.61  E-value=0.0013  Score=53.89  Aligned_cols=26  Identities=23%  Similarity=0.179  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|++|+|||||++.++...
T Consensus         8 ~g~~i~l~G~~GsGKSTl~~~La~~~   33 (191)
T 1zp6_A            8 GGNILLLSGHPGSGKSTIAEALANLP   33 (191)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTCS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhcc
Confidence            45689999999999999999998763

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.61  E-value=0.0012  Score=54.18  Aligned_cols=24  Identities=29%  Similarity=0.443  Sum_probs=22.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+|+|.|++|+||||+++.+.+.+
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~~l   25 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKEIL   25 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            478999999999999999999987

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.58  E-value=0.0022  Score=56.55  Aligned_cols=26  Identities=27%  Similarity=0.153  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+|+|.|++|+||||+|+.+...+
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            35689999999999999999998876

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.58  E-value=0.0011  Score=53.48  Aligned_cols=24  Identities=25%  Similarity=0.268  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+|+|+|++|+|||||++.++..+
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~l   28 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQL   28 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            579999999999999999999886

>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=96.56  E-value=0.0064  Score=53.74  Aligned_cols=90  Identities=14%  Similarity=0.026  Sum_probs=53.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcC-CHHHHHHHHHHHhccCCCC-CCcCCHHHHHHHHHH
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDL-QLEQIQGSIAKKINLFNES-WNSRSLQEKSQDIVK  160 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~l~~~l~~~~~~-~~~~~~~~~~~~l~~  160 (371)
                      ..++++.|++|+||||++..++..+.   ..-..+.++...... ...+.+..+....+...-. ....++........+
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~~~---~~g~~v~l~~~D~~r~~a~~ql~~~~~~~~v~v~~~~~~~~p~~~~~~~l~  174 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYFYK---KKGFKVGLVGADVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIAKRGVE  174 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHHH---HTTCCEEEEECCCSSSHHHHHHHHHHHHHTCCEECCTTCCCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH---HCCCeEEEEecCCCCHHHHHHHHHHhccCCeEEEecCCCCCHHHHHHHHHH
Confidence            56899999999999999999998873   222356666665332 2333344445554442111 123455555544555


Q ss_pred             HhC-CCceEEEEeCCC
Q 043737          161 NMS-NKKFVLLLDHIW  175 (371)
Q Consensus       161 ~l~-~~~~LlVlDdv~  175 (371)
                      .++ ...=++|+|-.-
T Consensus       175 ~~~~~~~D~ViIDTpg  190 (297)
T 1j8m_F          175 KFLSEKMEIIIVDTAG  190 (297)
T ss_dssp             HHHHTTCSEEEEECCC
T ss_pred             HHHhCCCCEEEEeCCC
Confidence            553 333388888763

>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=96.56  E-value=0.0015  Score=54.65  Aligned_cols=26  Identities=27%  Similarity=0.206  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|+|+.|+|||||++.++...
T Consensus         7 ~g~~i~l~GpsGsGKsTl~~~L~~~~   32 (208)
T 3tau_A            7 RGLLIVLSGPSGVGKGTVREAVFKDP   32 (208)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHST
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhhC
Confidence            45689999999999999999998876

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=96.55  E-value=0.0066  Score=57.03  Aligned_cols=52  Identities=12%  Similarity=-0.084  Sum_probs=36.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAK  137 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~  137 (371)
                      ...++.|.|.+|+|||+||.+++.....  ..-..++|++...  +...+...++.
T Consensus       199 ~G~l~ii~G~pg~GKT~lal~ia~~~a~--~~g~~vl~~slE~--~~~~l~~R~~~  250 (444)
T 2q6t_A          199 PGSLNIIAARPAMGKTAFALTIAQNAAL--KEGVGVGIYSLEM--PAAQLTLRMMC  250 (444)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHHHHHHH--TTCCCEEEEESSS--CHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHH--hCCCeEEEEECCC--CHHHHHHHHHH
Confidence            4469999999999999999999888631  1123577776653  45566655543

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=96.55  E-value=0.0013  Score=53.80  Aligned_cols=24  Identities=25%  Similarity=0.243  Sum_probs=22.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+|+|.|++|+||||+++.++..+
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~~l   27 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMDNL   27 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            589999999999999999999887

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.54  E-value=0.017  Score=51.47  Aligned_cols=59  Identities=19%  Similarity=0.141  Sum_probs=36.1

Q ss_pred             ccchhHHHHHHHHHhcC----CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCC
Q 043737           65 VGLQSTFDRVWRCLMEE----QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASK  124 (371)
Q Consensus        65 vGR~~~~~~l~~~L~~~----~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~  124 (371)
                      +|-...+..+...+...    ...+|+|.|+.|+|||||++.+...+. ....-..+..+....
T Consensus        70 ~~~~~~l~~~~~~~l~~~~~~~p~iigI~GpsGSGKSTl~~~L~~ll~-~~~~~~~v~~i~~D~  132 (321)
T 3tqc_A           70 VTARQTLQQATYQFLGKPEPKVPYIIGIAGSVAVGKSTTSRVLKALLS-RWPDHPNVEVITTDG  132 (321)
T ss_dssp             HHHHHHHHHHHHHHHTCCCCCCCEEEEEECCTTSSHHHHHHHHHHHHT-TSTTCCCEEEEEGGG
T ss_pred             hcchHHHHHHHHHHhccCCCCCCEEEEEECCCCCCHHHHHHHHHHHhc-ccCCCCeEEEEeecc
Confidence            44444444444444332    345899999999999999999887762 111122355555544

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.53  E-value=0.0011  Score=55.10  Aligned_cols=25  Identities=20%  Similarity=0.324  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+|+|.|++|+||||+|+.++..+
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            4589999999999999999998886

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.53  E-value=0.0015  Score=53.45  Aligned_cols=26  Identities=31%  Similarity=0.353  Sum_probs=23.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+|+|.|++|+||||+++.++..+
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~~~l   37 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLADLL   37 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            45789999999999999999999887

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.52  E-value=0.0041  Score=51.76  Aligned_cols=25  Identities=16%  Similarity=0.252  Sum_probs=23.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+|+|.|++|+||||+++.+++.+
T Consensus         4 ~~~I~i~G~~GsGKsT~~~~L~~~l   28 (213)
T 2plr_A            4 GVLIAFEGIDGSGKSSQATLLKDWI   28 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999999987

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=96.51  E-value=0.011  Score=52.87  Aligned_cols=56  Identities=18%  Similarity=0.143  Sum_probs=36.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCC-cCCHHHHHHHHHHHhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASK-DLQLEQIQGSIAKKIN  140 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~l~~~l~  140 (371)
                      ...+++|+|+.|+||||+++.++....   ..-..+.+..... .....+.+......++
T Consensus       128 ~g~vi~lvG~nGaGKTTll~~Lag~l~---~~~g~V~l~g~D~~r~~a~eql~~~~~~~g  184 (328)
T 3e70_C          128 KPYVIMFVGFNGSGKTTTIAKLANWLK---NHGFSVVIAASDTFRAGAIEQLEEHAKRIG  184 (328)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHH---HTTCCEEEEEECCSSTTHHHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH---hcCCEEEEEeecccccchHHHHHHHHHHcC
Confidence            457999999999999999999988773   1222345544332 2233444555555555

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=96.51  E-value=0.0024  Score=52.75  Aligned_cols=40  Identities=10%  Similarity=0.052  Sum_probs=30.1

Q ss_pred             hhHHHHHHHHHhcC-CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           68 QSTFDRVWRCLMEE-QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        68 ~~~~~~l~~~L~~~-~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..-+..+..++..- ..+.+.|+|++|+|||++|..+++.+
T Consensus        42 ~~f~~~l~~~~~~iPkkn~ili~GPPGtGKTt~a~ala~~l   82 (212)
T 1tue_A           42 ITFLGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFI   82 (212)
T ss_dssp             HHHHHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHh
Confidence            34456666666432 23479999999999999999999887

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.51  E-value=0.0013  Score=54.76  Aligned_cols=26  Identities=27%  Similarity=0.447  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..++|+|.|++|+|||||++.+....
T Consensus        11 ~~~~i~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A           11 RIPPLVVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHHHC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            45689999999999999999998876

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=96.51  E-value=0.0084  Score=56.48  Aligned_cols=50  Identities=14%  Similarity=0.118  Sum_probs=34.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSI  135 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l  135 (371)
                      ...++.|.|++|+|||||+.+++......  .-..++|++...  +...+...+
T Consensus       202 ~G~liiI~G~pG~GKTtl~l~ia~~~~~~--~g~~Vl~~s~E~--s~~~l~~r~  251 (454)
T 2r6a_A          202 RSDLIIVAARPSVGKTAFALNIAQNVATK--TNENVAIFSLEM--SAQQLVMRM  251 (454)
T ss_dssp             TTCEEEEECCTTSCHHHHHHHHHHHHHHH--SSCCEEEEESSS--CHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHHh--CCCcEEEEECCC--CHHHHHHHH
Confidence            44699999999999999999998886311  122577777543  334444443

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=96.49  E-value=0.0013  Score=53.46  Aligned_cols=25  Identities=36%  Similarity=0.340  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+.|+|+|++|+||||+++.+++.+
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            4578999999999999999999886

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.49  E-value=0.0016  Score=54.03  Aligned_cols=27  Identities=26%  Similarity=0.316  Sum_probs=23.4

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....+++|.|+.|+|||||++.++...
T Consensus        27 ~~g~~i~l~G~~GsGKSTl~~~L~~~~   53 (200)
T 4eun_A           27 EPTRHVVVMGVSGSGKTTIAHGVADET   53 (200)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHhh
Confidence            345799999999999999999998776

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=96.49  E-value=0.0031  Score=54.11  Aligned_cols=40  Identities=18%  Similarity=0.117  Sum_probs=29.0

Q ss_pred             hhHHHHHHHHHhc--CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           68 QSTFDRVWRCLME--EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        68 ~~~~~~l~~~L~~--~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+.++......  .....|+|.|++|+||||+|+.+++.+
T Consensus        12 ~~~~~~~~~~~~~~~~~~~~I~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           12 IDLLNELKRRYACLSKPDGRYIFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             HHHHHHHHHHHHHHTSCCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccCCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            3344444433322  356789999999999999999998876

>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=96.49  E-value=0.0093  Score=55.33  Aligned_cols=38  Identities=21%  Similarity=0.158  Sum_probs=28.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeC
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVAS  123 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~  123 (371)
                      ..++.++|++|+||||++..++..+.   ..-..+..+...
T Consensus        98 ~~vi~i~G~~GsGKTT~~~~LA~~l~---~~g~~Vllvd~D  135 (425)
T 2ffh_A           98 RNLWFLVGLQGSGKTTTAAKLALYYK---GKGRRPLLVAAD  135 (425)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHHH---TTTCCEEEEECC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH---HcCCeEEEeecc
Confidence            56899999999999999999998873   222345555553

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=96.49  E-value=0.015  Score=51.33  Aligned_cols=40  Identities=13%  Similarity=0.003  Sum_probs=29.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeC
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVAS  123 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~  123 (371)
                      ...+++|.|++|+|||||+..++......  .-..++|++..
T Consensus        34 ~G~~~~i~G~~G~GKTTl~~~ia~~~~~~--~G~~v~~~~~e   73 (296)
T 1cr0_A           34 GGEVIMVTSGSGMGKSTFVRQQALQWGTA--MGKKVGLAMLE   73 (296)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHHHHHHT--SCCCEEEEESS
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHHH--cCCeEEEEeCc
Confidence            45699999999999999999998876311  11146666543

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=96.48  E-value=0.0026  Score=53.45  Aligned_cols=41  Identities=20%  Similarity=0.199  Sum_probs=32.0

Q ss_pred             chhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           67 LQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        67 R~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .++..+.+...+.....+.|+|.|.+|+|||||+..++...
T Consensus        14 ~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKTTl~~~l~~~~   54 (221)
T 2wsm_A           14 NKRLAEKNREALRESGTVAVNIMGAIGSGKTLLIERTIERI   54 (221)
T ss_dssp             HHHHHHHHHHHHHHHTCEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHhhcccCceEEEEEcCCCCCHHHHHHHHHHHh
Confidence            34455555555545577899999999999999999999886

>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=96.48  E-value=0.015  Score=55.45  Aligned_cols=51  Identities=8%  Similarity=-0.033  Sum_probs=35.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIA  136 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~  136 (371)
                      ...++.|.|++|+|||+||.+++....  ..+-..++|++...  +..++...++
T Consensus       241 ~G~l~li~G~pG~GKT~lal~~a~~~a--~~~g~~vl~~s~E~--s~~~l~~r~~  291 (503)
T 1q57_A          241 GGEVIMVTSGSGMVMSTFVRQQALQWG--TAMGKKVGLAMLEE--SVEETAEDLI  291 (503)
T ss_dssp             TTCEEEEEESSCHHHHHHHHHHHHHHT--TTSCCCEEEEESSS--CHHHHHHHHH
T ss_pred             CCeEEEEeecCCCCchHHHHHHHHHHH--HhcCCcEEEEeccC--CHHHHHHHHH
Confidence            345899999999999999999998873  11123577877654  3455555443

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=96.47  E-value=0.002  Score=58.59  Aligned_cols=113  Identities=12%  Similarity=0.128  Sum_probs=60.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhc-cCCCCCCcCCHHHHHHHHH
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKIN-LFNESWNSRSLQEKSQDIV  159 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~-~~~~~~~~~~~~~~~~~l~  159 (371)
                      ....+++|.|+.|+|||||.+.++.....  ..-..++.+.-........       ... ..... ...........+.
T Consensus       121 ~~~g~i~I~GptGSGKTTlL~~l~g~~~~--~~~~~i~t~ed~~e~~~~~-------~~~~v~q~~-~~~~~~~~~~~La  190 (356)
T 3jvv_A          121 VPRGLVLVTGPTGSGKSTTLAAMLDYLNN--TKYHHILTIEDPIEFVHES-------KKCLVNQRE-VHRDTLGFSEALR  190 (356)
T ss_dssp             CSSEEEEEECSTTSCHHHHHHHHHHHHHH--HCCCEEEEEESSCCSCCCC-------SSSEEEEEE-BTTTBSCHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhcccC--CCCcEEEEccCcHHhhhhc-------cccceeeee-eccccCCHHHHHH
Confidence            44569999999999999999998877621  1112233222111110000       000 00000 0011112334677


Q ss_pred             HHhCCCceEEEEeCCCCcccccccccccCCCCCCCcEEEEecCchHHH
Q 043737          160 KNMSNKKFVLLLDHIWELVDLSQVGLPVPCRTSASNKTVFTARELEVC  207 (371)
Q Consensus       160 ~~l~~~~~LlVlDdv~~~~~~~~~~~~l~~~~~~~~~iliTsR~~~~~  207 (371)
                      ..|...+=+|++|+.-+.+..+.+...    ...|..+++|+......
T Consensus       191 ~aL~~~PdvillDEp~d~e~~~~~~~~----~~~G~~vl~t~H~~~~~  234 (356)
T 3jvv_A          191 SALREDPDIILVGEMRDLETIRLALTA----AETGHLVFGTLHTTSAA  234 (356)
T ss_dssp             HHTTSCCSEEEESCCCSHHHHHHHHHH----HHTTCEEEEEESCSSHH
T ss_pred             HHhhhCcCEEecCCCCCHHHHHHHHHH----HhcCCEEEEEEccChHH
Confidence            777788889999999765554433222    12356688888765443

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=96.47  E-value=0.0016  Score=56.27  Aligned_cols=24  Identities=29%  Similarity=0.306  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ++++|.|++|+||||||+.++...
T Consensus         2 ~li~I~G~~GSGKSTla~~La~~~   25 (253)
T 2ze6_A            2 LLHLIYGPTCSGKTDMAIQIAQET   25 (253)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHhcC
Confidence            478999999999999999999886

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.44  E-value=0.0018  Score=53.13  Aligned_cols=25  Identities=28%  Similarity=0.250  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+|+|.|++|+||||+|+.+++.+
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            4689999999999999999998876

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.42  E-value=0.0018  Score=53.20  Aligned_cols=26  Identities=27%  Similarity=0.318  Sum_probs=23.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+|+|.|++|+||||+++.+++.+
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~La~~l   33 (196)
T 2c95_A            8 KTNIIFVVGGPGSGKGTQCEKIVQKY   33 (196)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            45689999999999999999999876

>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=96.41  E-value=0.0025  Score=59.36  Aligned_cols=46  Identities=20%  Similarity=0.170  Sum_probs=37.0

Q ss_pred             CccccchhHHHHHHHHHhc--------------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           62 PTVVGLQSTFDRVWRCLME--------------EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~--------------~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..++|.++..+.|..++..              ...+.+.++|++|+|||++|+.++...
T Consensus        15 ~~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~l   74 (444)
T 1g41_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA   74 (444)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHHc
Confidence            4679988888888766632              134679999999999999999999887

>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=96.40  E-value=0.0022  Score=51.82  Aligned_cols=25  Identities=20%  Similarity=0.402  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+++|.|++|+||||+++.++...
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            4689999999999999999998775

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.39  E-value=0.0023  Score=53.01  Aligned_cols=26  Identities=23%  Similarity=0.350  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+|+|.|++|+||||+++.+++.+
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            45789999999999999999998876

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=96.38  E-value=0.0038  Score=55.03  Aligned_cols=27  Identities=19%  Similarity=0.079  Sum_probs=23.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....+|+|.|+.|+|||||++.+...+
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~~~l   55 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIYNHL   55 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            346799999999999999999988876

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.38  E-value=0.0021  Score=52.38  Aligned_cols=25  Identities=20%  Similarity=0.216  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...|+|.|++|+||||+++.+++.+
T Consensus         4 g~~I~l~G~~GsGKST~~~~La~~l   28 (186)
T 3cm0_A            4 GQAVIFLGPPGAGKGTQASRLAQEL   28 (186)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4579999999999999999998876

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.37  E-value=0.0016  Score=52.75  Aligned_cols=24  Identities=25%  Similarity=0.342  Sum_probs=22.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +.|+|.|++|+||||+|+.++..+
T Consensus         5 ~~i~i~G~~GsGKsTla~~La~~l   28 (175)
T 1via_A            5 KNIVFIGFMGSGKSTLARALAKDL   28 (175)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHc
Confidence            368999999999999999999887

>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=96.37  E-value=0.01  Score=52.34  Aligned_cols=89  Identities=13%  Similarity=0.118  Sum_probs=49.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCC-HHHHHHHHHHHhccCCCC-CCcCCHHHHHHHHHH
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQ-LEQIQGSIAKKINLFNES-WNSRSLQEKSQDIVK  160 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~-~~~~~~~l~~~l~~~~~~-~~~~~~~~~~~~l~~  160 (371)
                      ..+++|+|++|+||||++..++..+.   ..-..+.++....... ....+..+....+...-. ....++.+.......
T Consensus        98 ~~~i~i~g~~G~GKTT~~~~la~~~~---~~~~~v~l~~~d~~~~~~~~ql~~~~~~~~l~~~~~~~~~~p~~l~~~~l~  174 (295)
T 1ls1_A           98 RNLWFLVGLQGSGKTTTAAKLALYYK---GKGRRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEE  174 (295)
T ss_dssp             SEEEEEECCTTTTHHHHHHHHHHHHH---HTTCCEEEEECCSSCHHHHHHHHHHHHHHTCCEEECCTTCCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH---HcCCeEEEecCCcccHhHHHHHHHhcccCCeEEEEcCCCCCHHHHHHHHHH
Confidence            56899999999999999999998873   2223466666543221 112233344444432211 012344454443333


Q ss_pred             Hh-CCCceEEEEeCC
Q 043737          161 NM-SNKKFVLLLDHI  174 (371)
Q Consensus       161 ~l-~~~~~LlVlDdv  174 (371)
                      .+ ....=++|+|.-
T Consensus       175 ~~~~~~~D~viiDtp  189 (295)
T 1ls1_A          175 KARLEARDLILVDTA  189 (295)
T ss_dssp             HHHHHTCCEEEEECC
T ss_pred             HHHhCCCCEEEEeCC
Confidence            33 234458889976

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=96.37  E-value=0.0041  Score=56.03  Aligned_cols=43  Identities=23%  Similarity=0.202  Sum_probs=32.2

Q ss_pred             ccchhHHHHHHHHHh----cCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           65 VGLQSTFDRVWRCLM----EEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        65 vGR~~~~~~l~~~L~----~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      |+-+...+++++.+.    .+....++|.|++|+||||+++.++..+
T Consensus         2 ~~~~~L~~~il~~l~~~i~~g~~~~i~l~G~~G~GKTTl~~~la~~l   48 (359)
T 2ga8_A            2 VDTHKLADDVLQLLDNRIEDNYRVCVILVGSPGSGKSTIAEELCQII   48 (359)
T ss_dssp             CCHHHHHHHHHHHHHHTTTTCSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHhccCCeeEEEEECCCCCcHHHHHHHHHHHh
Confidence            444555666666653    3455679999999999999999988876

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=96.37  E-value=0.0022  Score=53.12  Aligned_cols=25  Identities=20%  Similarity=0.287  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+++|.|+.|+|||||++.++...
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            4589999999999999999998765

>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=96.36  E-value=0.0023  Score=52.86  Aligned_cols=26  Identities=15%  Similarity=0.208  Sum_probs=23.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..++++|+|+.|+|||||++.++...
T Consensus        18 ~g~~ivl~GPSGaGKsTL~~~L~~~~   43 (197)
T 3ney_A           18 GRKTLVLIGASGVGRSHIKNALLSQN   43 (197)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCCEEEEECcCCCCHHHHHHHHHhhC
Confidence            45799999999999999999998775

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.35  E-value=0.002  Score=53.12  Aligned_cols=25  Identities=24%  Similarity=0.285  Sum_probs=23.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+|+|.|++|+||||+|+.+++.+
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~~l   36 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVEKY   36 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999999887

>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=96.35  E-value=0.0023  Score=52.30  Aligned_cols=25  Identities=20%  Similarity=0.171  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      ....|+|+|++|+||||+++.++..
T Consensus         9 ~~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A            9 KGINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHh
Confidence            3468999999999999999999887

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=96.34  E-value=0.0023  Score=53.71  Aligned_cols=27  Identities=22%  Similarity=0.298  Sum_probs=24.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...++|+|.|++|+||||.|+.+++++
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            356899999999999999999999887

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=96.33  E-value=0.019  Score=53.54  Aligned_cols=41  Identities=24%  Similarity=0.224  Sum_probs=30.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCC
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASK  124 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~  124 (371)
                      ..++|.++|.+|+||||++..++..+.. . +-..+..+++..
T Consensus        99 ~~~vI~ivG~~GvGKTT~a~~LA~~l~~-~-~G~kVllvd~D~  139 (433)
T 2xxa_A           99 PPAVVLMAGLQGAGKTTSVGKLGKFLRE-K-HKKKVLVVSADV  139 (433)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHHHH-T-SCCCEEEEECCC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH-h-cCCeEEEEecCC
Confidence            3578999999999999999999988732 1 123456666543

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=96.33  E-value=0.0021  Score=53.25  Aligned_cols=23  Identities=30%  Similarity=0.602  Sum_probs=21.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .|+|.|+.|+||||+++.+++.+
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l   24 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKL   24 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHHhc
Confidence            68999999999999999999987

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=96.32  E-value=0.0016  Score=53.05  Aligned_cols=24  Identities=25%  Similarity=0.318  Sum_probs=22.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ++|+|.|++|+||||+|+.++..+
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            468999999999999999999886

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=96.31  E-value=0.0025  Score=52.87  Aligned_cols=26  Identities=27%  Similarity=0.216  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|++|+||||+++.+....
T Consensus         5 ~g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            5 KGLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            34689999999999999999998775

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.31  E-value=0.0015  Score=53.08  Aligned_cols=25  Identities=24%  Similarity=0.297  Sum_probs=18.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+|+|.|++|+||||+|+.+.+.+
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~~l   29 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHERL   29 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHHHS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhc
Confidence            4589999999999999999998886

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.30  E-value=0.0032  Score=54.29  Aligned_cols=26  Identities=35%  Similarity=0.291  Sum_probs=23.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+|.|.|++|+||||+|+.+...+
T Consensus        31 ~~~~i~l~G~~GsGKSTla~~L~~~l   56 (253)
T 2p5t_B           31 QPIAILLGGQSGAGKTTIHRIKQKEF   56 (253)
T ss_dssp             SCEEEEEESCGGGTTHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            35689999999999999999999886

>1fx0_B ATP synthase beta chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_B*

Probab=96.30  E-value=0.015  Score=54.46  Aligned_cols=100  Identities=13%  Similarity=0.204  Sum_probs=61.4

Q ss_pred             HHHHhc-CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcC-CHHHHHHHHHHHhccCC------C--
Q 043737           75 WRCLME-EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDL-QLEQIQGSIAKKINLFN------E--  144 (371)
Q Consensus        75 ~~~L~~-~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~l~~~l~~~~------~--  144 (371)
                      ++.|.. .+...++|.|.+|+|||+|+.++++...  +.+.+.++++-++... ...++.+++...=....      .  
T Consensus       156 ID~l~pigkGqr~gIfgg~GvGKT~L~~~l~~~~a--~~~~~v~V~~~iGER~rEv~e~~~~~~~~~~l~~~~l~~~rtv  233 (498)
T 1fx0_B          156 VNLLAPYRRGGKIGLFGGAGVGKTVLIMELINNIA--KAHGGVSVFGGVGERTREGNDLYMEMKESGVINEQNIAESKVA  233 (498)
T ss_dssp             HHHHSCCCTTCCEEEEECSSSSHHHHHHHHHHHTT--TTCSSCEEEEEESCCSHHHHHHHHHHHHTTSSCSSTTCCCCEE
T ss_pred             eeeecccccCCeEEeecCCCCCchHHHHHHHHHHH--hhCCCEEEEEEcccCcHHHHHHHHhhhcccccccccccccceE
Confidence            455543 3456899999999999999999998752  3445677888777654 46677777765311110      0  


Q ss_pred             ---CCCcCCHH------HHHHHHHHHh---CCCceEEEEeCCCC
Q 043737          145 ---SWNSRSLQ------EKSQDIVKNM---SNKKFVLLLDHIWE  176 (371)
Q Consensus       145 ---~~~~~~~~------~~~~~l~~~l---~~~~~LlVlDdv~~  176 (371)
                         ......+.      ...-.+.+++   +++.+|+++||+.+
T Consensus       234 vV~~t~d~p~~~R~~~~~~altiAEyfrd~~G~dVLl~~DsitR  277 (498)
T 1fx0_B          234 LVYGQMNEPPGARMRVGLTALTMAEYFRDVNEQDVLLFIDNIFR  277 (498)
T ss_dssp             EEEECTTSCHHHHTTHHHHHHHTHHHHTTTSCCEEEEEEECSHH
T ss_pred             EEEeCCCCCHHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccHHH
Confidence               00112222      2223334444   35789999999853

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=96.27  E-value=0.0019  Score=51.96  Aligned_cols=24  Identities=17%  Similarity=0.227  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ++|+|.|++|+||||+|+.+.+.+
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            468999999999999999999886

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=96.27  E-value=0.0026  Score=52.05  Aligned_cols=25  Identities=28%  Similarity=0.297  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+|+|.|++|+||||+++.+++.+
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            4689999999999999999998876

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.26  E-value=0.0024  Score=51.14  Aligned_cols=25  Identities=24%  Similarity=0.345  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+|+|.|++|+||||+++.++..+
T Consensus         7 ~~~i~l~G~~GsGKSTva~~La~~l   31 (168)
T 1zuh_A            7 MQHLVLIGFMGSGKSSLAQELGLAL   31 (168)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             cceEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999999887

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.26  E-value=0.0026  Score=53.08  Aligned_cols=25  Identities=16%  Similarity=0.198  Sum_probs=23.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+|+|.|++|+||||+++.+.+.+
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~~l   34 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVEYL   34 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999999886

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=96.23  E-value=0.0029  Score=54.84  Aligned_cols=25  Identities=28%  Similarity=0.441  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+|+|.|++|+||||+|+.+...+
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~~L   28 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAKIL   28 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999999875

>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=96.23  E-value=0.0027  Score=52.62  Aligned_cols=26  Identities=27%  Similarity=0.216  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....|+|.|++|+||||+|+.++..+
T Consensus        19 ~~~~I~l~G~~GsGKST~a~~La~~l   44 (201)
T 2cdn_A           19 SHMRVLLLGPPGAGKGTQAVKLAEKL   44 (201)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            34589999999999999999999876

>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=96.22  E-value=0.0029  Score=51.79  Aligned_cols=23  Identities=22%  Similarity=0.299  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      .+++|.|+.|+|||||++.++..
T Consensus         3 ~ii~l~G~~GaGKSTl~~~L~~~   25 (189)
T 2bdt_A            3 KLYIITGPAGVGKSTTCKRLAAQ   25 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHhcc
Confidence            47899999999999999999764

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=96.22  E-value=0.0084  Score=58.64  Aligned_cols=44  Identities=18%  Similarity=0.213  Sum_probs=38.2

Q ss_pred             CccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..++|.+..++.+...+..+  ..+.|+|++|+||||||+.++...
T Consensus        41 ~~i~G~~~~l~~l~~~i~~g--~~vll~Gp~GtGKTtlar~ia~~l   84 (604)
T 3k1j_A           41 DQVIGQEHAVEVIKTAANQK--RHVLLIGEPGTGKSMLGQAMAELL   84 (604)
T ss_dssp             HHCCSCHHHHHHHHHHHHTT--CCEEEECCTTSSHHHHHHHHHHTS
T ss_pred             ceEECchhhHhhccccccCC--CEEEEEeCCCCCHHHHHHHHhccC
Confidence            45899999998888887554  589999999999999999999887

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=96.21  E-value=0.011  Score=55.45  Aligned_cols=40  Identities=18%  Similarity=0.091  Sum_probs=30.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCC
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASK  124 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~  124 (371)
                      ...++.|.|.+|+|||+||.+++......   -..++|++...
T Consensus       196 ~G~liiIaG~pG~GKTtlal~ia~~~a~~---g~~vl~fSlEm  235 (444)
T 3bgw_A          196 RRNFVLIAARPSMGKTAFALKQAKNMSDN---DDVVNLHSLEM  235 (444)
T ss_dssp             SSCEEEEEECSSSSHHHHHHHHHHHHHHT---TCEEEEECSSS
T ss_pred             CCcEEEEEeCCCCChHHHHHHHHHHHHHc---CCEEEEEECCC
Confidence            44699999999999999999999887322   23677776543

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=96.20  E-value=0.0028  Score=52.90  Aligned_cols=26  Identities=19%  Similarity=0.335  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+|+|.|++|+||||+++.+.+.+
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~L~~~l   33 (215)
T 1nn5_A            8 RGALIVLEGVDRAGKSTQSRKLVEAL   33 (215)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            34689999999999999999999886

>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=96.19  E-value=0.0035  Score=51.80  Aligned_cols=26  Identities=23%  Similarity=0.275  Sum_probs=22.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhh
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      .+..+|+|.|+.|+||||+++.++..
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            45678999999999999999999764

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=96.19  E-value=0.0032  Score=52.48  Aligned_cols=26  Identities=27%  Similarity=0.424  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+|+|.|+.|+|||||++.++...
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~~~   30 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALARTL   30 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHh
Confidence            45689999999999999999998876

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=96.19  E-value=0.0029  Score=53.58  Aligned_cols=25  Identities=24%  Similarity=0.321  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...|+|.|++|+||||+++.+++.+
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            4689999999999999999999876

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=96.18  E-value=0.0092  Score=53.32  Aligned_cols=40  Identities=25%  Similarity=0.275  Sum_probs=29.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCC
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASK  124 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~  124 (371)
                      ...+++|+|++|+||||++..++..+.   ..-..+.++....
T Consensus       104 ~~~vI~ivG~~G~GKTT~~~~LA~~l~---~~g~kVllid~D~  143 (320)
T 1zu4_A          104 RLNIFMLVGVNGTGKTTSLAKMANYYA---ELGYKVLIAAADT  143 (320)
T ss_dssp             SCEEEEEESSTTSSHHHHHHHHHHHHH---HTTCCEEEEECCC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH---HCCCeEEEEeCCC
Confidence            356899999999999999999998873   2223466665543

>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=96.18  E-value=0.0029  Score=51.41  Aligned_cols=23  Identities=35%  Similarity=0.478  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .++|.|+.|+|||||++.++...
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l   24 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58899999999999999998776

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=96.17  E-value=0.0029  Score=50.58  Aligned_cols=23  Identities=22%  Similarity=0.296  Sum_probs=21.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .|+|.|++|+||||+++.+.+.+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l   24 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSL   24 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            68999999999999999999876

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=96.16  E-value=0.0029  Score=51.87  Aligned_cols=23  Identities=22%  Similarity=0.424  Sum_probs=21.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +|+|.|+.|+||||+++.+.+.+
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l   24 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYL   24 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68999999999999999999876

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=96.16  E-value=0.0034  Score=54.09  Aligned_cols=27  Identities=19%  Similarity=0.311  Sum_probs=23.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....+|+|.|++|+||||+|+.+...+
T Consensus        20 ~~~~iI~I~G~~GSGKST~a~~L~~~l   46 (252)
T 1uj2_A           20 GEPFLIGVSGGTASGKSSVCAKIVQLL   46 (252)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHh
Confidence            355789999999999999999998876

>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=96.16  E-value=0.0029  Score=53.43  Aligned_cols=24  Identities=21%  Similarity=0.362  Sum_probs=22.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+|+|.|++|+||||+++.+...+
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            589999999999999999998775

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=96.16  E-value=0.0033  Score=52.03  Aligned_cols=25  Identities=24%  Similarity=0.328  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...|+|.|+.|+||||+++.+.+.+
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            4689999999999999999998876

>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=96.16  E-value=0.0036  Score=52.06  Aligned_cols=26  Identities=35%  Similarity=0.577  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+|+|.|++|+||||+++.+....
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            45689999999999999999998764

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=96.16  E-value=0.0024  Score=52.88  Aligned_cols=25  Identities=32%  Similarity=0.345  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+.++|+|+.|+|||||++.+....
T Consensus         4 g~~i~lvGpsGaGKSTLl~~L~~~~   28 (198)
T 1lvg_A            4 PRPVVLSGPSGAGKSTLLKKLFQEH   28 (198)
T ss_dssp             -CCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            3578999999999999999998765

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=96.13  E-value=0.04  Score=52.28  Aligned_cols=25  Identities=20%  Similarity=0.375  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .++|+|+|.+|+||||++..++..+
T Consensus       101 ~~vI~ivG~~GvGKTTl~~kLA~~l  125 (504)
T 2j37_W          101 QNVIMFVGLQGSGKTTTCSKLAYYY  125 (504)
T ss_dssp             -EEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            5689999999999999999999877

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=96.12  E-value=0.0033  Score=52.90  Aligned_cols=25  Identities=24%  Similarity=0.252  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...|+|.|++|+||||+++.+++.+
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~~l   28 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQERF   28 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc
Confidence            4589999999999999999999887

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=96.11  E-value=0.0031  Score=52.81  Aligned_cols=23  Identities=35%  Similarity=0.430  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .|+|.|++|+||||+|+.++..+
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            57899999999999999998876

>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=96.11  E-value=0.0033  Score=53.95  Aligned_cols=26  Identities=23%  Similarity=0.308  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||++.+++.+
T Consensus        26 ~~~~i~l~G~~GsGKSTl~k~La~~l   51 (246)
T 2bbw_A           26 KLLRAVILGPPGSGKGTVCQRIAQNF   51 (246)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            35699999999999999999999776

>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=96.10  E-value=0.0034  Score=52.59  Aligned_cols=23  Identities=30%  Similarity=0.356  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .|+|.|++|+||||+|+.++..+
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            47899999999999999998876

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=96.08  E-value=0.0032  Score=50.73  Aligned_cols=22  Identities=27%  Similarity=0.439  Sum_probs=19.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQI  103 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~  103 (371)
                      ...+++|+|+.|+|||||++.+
T Consensus         8 ~gei~~l~G~nGsGKSTl~~~~   29 (171)
T 4gp7_A            8 ELSLVVLIGSSGSGKSTFAKKH   29 (171)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHH
Confidence            3568999999999999999953

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=96.07  E-value=0.0031  Score=53.18  Aligned_cols=26  Identities=27%  Similarity=0.203  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....|+|.|++|+||||+++.+++.+
T Consensus         4 ~~~~I~l~G~~GsGKsT~~~~La~~l   29 (222)
T 1zak_A            4 DPLKVMISGAPASGKGTQCELIKTKY   29 (222)
T ss_dssp             CSCCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            34579999999999999999999887

>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=96.06  E-value=0.0035  Score=51.98  Aligned_cols=22  Identities=27%  Similarity=0.354  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q 043737           84 GIVGLYGMGEVGKTTLLTQINK  105 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~  105 (371)
                      .+|+|.|+.|+||||+++.++.
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            3789999999999999999987

>3iqw_A Tail-anchored protein targeting factor GET3; ATPase, Zn binding, protein transport; HET: ANP; 3.00A {Chaetomium thermophilum} PDB: 3iqx_A* 3ibg_A*

Probab=96.06  E-value=0.0096  Score=53.53  Aligned_cols=51  Identities=20%  Similarity=0.188  Sum_probs=37.1

Q ss_pred             HhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHH
Q 043737           78 LMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQI  131 (371)
Q Consensus        78 L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~  131 (371)
                      +.+...+++++.|-||+||||+|..++..+.   ..-..++-++.....+....
T Consensus        11 l~~~~~~i~~~sgkGGvGKTt~a~~lA~~la---~~g~~vllid~D~~~~l~~~   61 (334)
T 3iqw_A           11 LDQRSLRWIFVGGKGGVGKTTTSCSLAIQLA---KVRRSVLLLSTDPAHNLSDA   61 (334)
T ss_dssp             HHCTTCCEEEEECSTTSSHHHHHHHHHHHHT---TSSSCEEEEECCSSCHHHHH
T ss_pred             hcCCCeEEEEEeCCCCccHHHHHHHHHHHHH---hCCCcEEEEECCCCCChhHH
Confidence            3345578999999999999999999998883   23346777777755544433

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=96.04  E-value=0.017  Score=63.16  Aligned_cols=88  Identities=19%  Similarity=0.149  Sum_probs=58.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCC---CcCCHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESW---NSRSLQEKSQDI  158 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~---~~~~~~~~~~~l  158 (371)
                      ...++.|+|++|+||||||.+++....   ..-..++|++.....+..     .+..++......   ...+.++....+
T Consensus       382 ~G~lilI~G~pGsGKTtLaLqia~~~a---~~G~~vlyis~E~s~~~~-----~a~~lGvd~~~L~I~~~~~~e~il~~~  453 (2050)
T 3cmu_A          382 MGRIVEIYGPESSGKTTLTLQVIAAAQ---REGKTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDTGEQALEIC  453 (2050)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHHH---TTTCCEEEECTTSCCCHH-----HHHHTTCCTTTCEEECCSSHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHH---hcCCeEEEEEcCCCHHHH-----HHHHcCCCHHHeEEeCCCCHHHHHHHH
Confidence            456999999999999999999998873   222468888877665543     145565432221   234556665555


Q ss_pred             HHHhC-CCceEEEEeCCCCc
Q 043737          159 VKNMS-NKKFVLLLDHIWEL  177 (371)
Q Consensus       159 ~~~l~-~~~~LlVlDdv~~~  177 (371)
                      ..... ...-++|+|.+...
T Consensus       454 ~~lv~~~~~~lIVIDSL~al  473 (2050)
T 3cmu_A          454 DALARSGAVDVIVVDSVAAL  473 (2050)
T ss_dssp             HHHHHHTCCSEEEESCGGGC
T ss_pred             HHHHHhcCCcEEEECCHHHh
Confidence            54432 45669999998643

>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=96.01  E-value=0.004  Score=51.73  Aligned_cols=22  Identities=41%  Similarity=0.398  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q 043737           84 GIVGLYGMGEVGKTTLLTQINK  105 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~  105 (371)
                      .+|+|.|+.|+||||+++.++.
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

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=96.00  E-value=0.027  Score=49.95  Aligned_cols=43  Identities=16%  Similarity=0.096  Sum_probs=29.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCC
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASK  124 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~  124 (371)
                      ....+|+|.|+.|+|||||++.+..... ....-..+.+++...
T Consensus        78 ~~g~iigI~G~~GsGKSTl~~~L~~~l~-~~~~~G~i~vi~~d~  120 (308)
T 1sq5_A           78 RIPYIISIAGSVAVGKSTTARVLQALLS-RWPEHRRVELITTDG  120 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHHHT-TSTTCCCEEEEEGGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHh-hCCCCCeEEEEecCC
Confidence            3457999999999999999999988761 001122355555544

>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=95.96  E-value=0.0045  Score=49.70  Aligned_cols=26  Identities=27%  Similarity=0.326  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+++.|.|+.|+|||||+..++..+
T Consensus         3 ~~~~i~i~G~sGsGKTTl~~~L~~~l   28 (169)
T 1xjc_A            3 AMNVWQVVGYKHSGKTTLMEKWVAAA   28 (169)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhh
Confidence            35689999999999999999999887

>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=95.96  E-value=0.0022  Score=53.61  Aligned_cols=23  Identities=26%  Similarity=0.618  Sum_probs=21.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +|+|.|+.|+||||+++.+...+
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~l   24 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGAF   24 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHH
Confidence            78999999999999999998886

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=95.95  E-value=0.015  Score=62.71  Aligned_cols=88  Identities=19%  Similarity=0.149  Sum_probs=58.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCC---CcCCHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESW---NSRSLQEKSQDI  158 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~---~~~~~~~~~~~l  158 (371)
                      ..+++.|+|++|+||||||.+++....   ..-..++|++.....+..     .+..++......   ...+.++....+
T Consensus       382 ~G~lilI~G~pGsGKTtLaLq~a~~~~---~~G~~vlyis~E~s~~~~-----~a~~lGvd~~~L~i~~~~~~e~~l~~l  453 (1706)
T 3cmw_A          382 MGRIVEIYGPESSGKTTLTLQVIAAAQ---REGKTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDTGEQALEIC  453 (1706)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHH---HTTCCEEEECTTSCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHH---HhCCCeEEEEccCchHHH-----HHHHcCCCHHHeEEcCCCCHHHHHHHH
Confidence            457999999999999999999988873   223468888877665543     245555432221   233455555555


Q ss_pred             HHHhC-CCceEEEEeCCCCc
Q 043737          159 VKNMS-NKKFVLLLDHIWEL  177 (371)
Q Consensus       159 ~~~l~-~~~~LlVlDdv~~~  177 (371)
                      ..... .+.-++|+|.+...
T Consensus       454 ~~lv~~~~~~lVVIDSL~al  473 (1706)
T 3cmw_A          454 DALARSGAVDVIVVDSVAAL  473 (1706)
T ss_dssp             HHHHHHTCCSEEEESCSTTC
T ss_pred             HHHHHhcCCCEEEECCHHHh
Confidence            54442 45669999998644

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=95.94  E-value=0.009  Score=54.02  Aligned_cols=52  Identities=15%  Similarity=0.224  Sum_probs=35.8

Q ss_pred             HhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHH
Q 043737           78 LMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQ  130 (371)
Q Consensus        78 L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~  130 (371)
                      +.+...+++++.|-||+||||+|..++..+... ..-..++-++.....+...
T Consensus        13 l~~~~~~i~~~~gkGGvGKTt~a~~lA~~la~~-~~g~~vllid~D~~~~l~~   64 (348)
T 3io3_A           13 VQHDSLKWIFVGGKGGVGKTTTSSSVAVQLALA-QPNEQFLLISTDPAHNLSD   64 (348)
T ss_dssp             HTCTTCSEEEEECSTTSSHHHHHHHHHHHHHHH-CTTSCEEEEECCSSCHHHH
T ss_pred             hcCCCcEEEEEeCCCCCcHHHHHHHHHHHHHHh-cCCCeEEEEECCCCCChHH
Confidence            334556899999999999999999998887300 2333577777765444333

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=95.93  E-value=0.013  Score=63.27  Aligned_cols=86  Identities=19%  Similarity=0.139  Sum_probs=61.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCC---CcCCHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESW---NSRSLQEKSQDI  158 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~---~~~~~~~~~~~l  158 (371)
                      ..++|-|+|+.|+||||||.+++...   +..-...+|+.+.+..+..-     +..++......   ....-++.+..+
T Consensus      1430 rg~~iei~g~~~sGkttl~~~~~a~~---~~~g~~~~~i~~e~~~~~~~-----~~~~Gv~~~~l~~~~p~~~e~~l~~~ 1501 (1706)
T 3cmw_A         1430 MGRIVEIYGPESSGKTTLTLQVIAAA---QREGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEIC 1501 (1706)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHH---HHTTCCEEEECTTSCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHH---HhcCCeEEEEecCCCCCHHH-----HHHcCCCHHHeEEeCCCcHHHHHHHH
Confidence            34799999999999999999999776   33445788888877665542     66776654432   233446666666


Q ss_pred             HHHhC-CCceEEEEeCCC
Q 043737          159 VKNMS-NKKFVLLLDHIW  175 (371)
Q Consensus       159 ~~~l~-~~~~LlVlDdv~  175 (371)
                      ...++ +..-++|+|-|.
T Consensus      1502 ~~~~~s~~~~~vvvDsv~ 1519 (1706)
T 3cmw_A         1502 DALARSGAVDVIVVDSVA 1519 (1706)
T ss_dssp             HHHHHHTCCSEEEESCST
T ss_pred             HHHHHcCCCCEEEEccHH
Confidence            66665 455699999984

>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=95.92  E-value=0.0048  Score=51.93  Aligned_cols=26  Identities=19%  Similarity=0.167  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||++.++...
T Consensus        15 ~G~ii~l~GpsGsGKSTLlk~L~g~~   40 (219)
T 1s96_A           15 QGTLYIVSAPSGAGKSSLIQALLKTQ   40 (219)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhccC
Confidence            45699999999999999999998876

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=95.92  E-value=0.005  Score=53.09  Aligned_cols=26  Identities=19%  Similarity=0.299  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+|+|.|+.|+||||+++.++..+
T Consensus        26 ~g~~I~I~G~~GsGKSTl~k~La~~L   51 (252)
T 4e22_A           26 IAPVITVDGPSGAGKGTLCKALAESL   51 (252)
T ss_dssp             TSCEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhc
Confidence            34699999999999999999999776

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=95.91  E-value=0.0032  Score=57.13  Aligned_cols=53  Identities=17%  Similarity=0.150  Sum_probs=34.6

Q ss_pred             HHHHHHHhc-CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCc
Q 043737           72 DRVWRCLME-EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKD  125 (371)
Q Consensus        72 ~~l~~~L~~-~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~  125 (371)
                      -++++.+.. .....++|.|.+|+|||+|+.++++........+ .++++-++..
T Consensus       163 iraID~l~PigrGQR~lIfg~~g~GKT~Ll~~Ia~~i~~~~~dv-~~V~~lIGER  216 (427)
T 3l0o_A          163 TRLIDLFAPIGKGQRGMIVAPPKAGKTTILKEIANGIAENHPDT-IRIILLIDER  216 (427)
T ss_dssp             HHHHHHHSCCBTTCEEEEEECTTCCHHHHHHHHHHHHHHHCTTS-EEEEEECSCC
T ss_pred             chhhhhcccccCCceEEEecCCCCChhHHHHHHHHHHhhcCCCe-EEEEEEeccC
Confidence            345666654 4456889999999999999999888752111222 2345555543

>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=95.90  E-value=0.0048  Score=51.38  Aligned_cols=26  Identities=27%  Similarity=0.387  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||++.++.-.
T Consensus        19 ~Gei~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           19 VGRVVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            45699999999999999999998776

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=95.89  E-value=0.0056  Score=52.47  Aligned_cols=27  Identities=22%  Similarity=0.294  Sum_probs=23.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....+|+|.|+.|+|||||++.++..+
T Consensus        23 ~~g~iigI~G~~GsGKSTl~k~L~~~l   49 (245)
T 2jeo_A           23 MRPFLIGVSGGTASGKSTVCEKIMELL   49 (245)
T ss_dssp             CCSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            355699999999999999999988765

>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=95.89  E-value=0.0086  Score=49.95  Aligned_cols=27  Identities=22%  Similarity=0.381  Sum_probs=24.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....+|+|.|+.|+||||+++.+...+
T Consensus        23 ~~~~~i~~~G~~GsGKsT~~~~l~~~l   49 (211)
T 1m7g_A           23 QRGLTIWLTGLSASGKSTLAVELEHQL   49 (211)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            456799999999999999999998876

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=95.88  E-value=0.0042  Score=52.29  Aligned_cols=26  Identities=27%  Similarity=0.424  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|+|+.|+|||||++.++...
T Consensus        22 ~G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           22 NIYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            45689999999999999999998765

>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=95.87  E-value=0.0056  Score=49.57  Aligned_cols=25  Identities=28%  Similarity=0.308  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+|+|.|+.|+||||+++.+...+
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~~l   29 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEEYL   29 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999998876

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=95.86  E-value=0.0057  Score=54.06  Aligned_cols=25  Identities=28%  Similarity=0.404  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .++|+|.||.|+||||||..++..+
T Consensus         3 ~~~i~i~GptgsGKt~la~~La~~~   27 (322)
T 3exa_A            3 EKLVAIVGPTAVGKTKTSVMLAKRL   27 (322)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHTT
T ss_pred             CcEEEEECCCcCCHHHHHHHHHHhC
Confidence            4689999999999999999999876

>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=95.86  E-value=0.0052  Score=50.59  Aligned_cols=26  Identities=23%  Similarity=0.434  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+|+|+|+.|+||||+++.+.+.+
T Consensus        11 ~~~iIgltG~~GSGKSTva~~L~~~l   36 (192)
T 2grj_A           11 HHMVIGVTGKIGTGKSTVCEILKNKY   36 (192)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHhc
Confidence            45789999999999999999998875

>2j9r_A Thymidine kinase; TK1, DNK, lasso, transferase, ATP-binding, deoxyribonucleoside kinase, DNA synthesis, phosphate accept nucleotide-binding; HET: THM; 2.7A {Bacillus anthracis} PDB: 2ja1_A*

Probab=95.85  E-value=0.0071  Score=50.33  Aligned_cols=111  Identities=13%  Similarity=0.064  Sum_probs=53.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKN  161 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~  161 (371)
                      ...+.+++|+-|.||||.+...+.+..  ..... ++.+......  ..-...+.+.++...+.....+..    .+.+.
T Consensus        27 ~G~l~vitG~MgsGKTT~lL~~a~r~~--~~g~k-Vli~k~~~d~--R~ge~~i~s~~g~~~~a~~~~~~~----~~~~~   97 (214)
T 2j9r_A           27 NGWIEVICGSMFSGKSEELIRRVRRTQ--FAKQH-AIVFKPCIDN--RYSEEDVVSHNGLKVKAVPVSASK----DIFKH   97 (214)
T ss_dssp             SCEEEEEECSTTSCHHHHHHHHHHHHH--HTTCC-EEEEECC-------------------CCEEECSSGG----GGGGG
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHH--HCCCE-EEEEEeccCC--cchHHHHHhhcCCeeEEeecCCHH----HHHHH
Confidence            456889999999999999999888872  22233 3333322211  111223444444332211111111    22333


Q ss_pred             hCCCceEEEEeCCCCc--ccccccccccCCCCCCCcEEEEecCchH
Q 043737          162 MSNKKFVLLLDHIWEL--VDLSQVGLPVPCRTSASNKTVFTARELE  205 (371)
Q Consensus       162 l~~~~~LlVlDdv~~~--~~~~~~~~~l~~~~~~~~~iliTsR~~~  205 (371)
                      +.+.--+|++|++.-.  +.++.+....    ..+..|++|.++.+
T Consensus        98 ~~~~~dvViIDEaQF~~~~~V~~l~~l~----~~~~~Vi~~Gl~~D  139 (214)
T 2j9r_A           98 ITEEMDVIAIDEVQFFDGDIVEVVQVLA----NRGYRVIVAGLDQD  139 (214)
T ss_dssp             CCSSCCEEEECCGGGSCTTHHHHHHHHH----HTTCEEEEEECSBC
T ss_pred             HhcCCCEEEEECcccCCHHHHHHHHHHh----hCCCEEEEEecccc
Confidence            3333349999998643  3333232211    23778999998643

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=95.82  E-value=0.0065  Score=51.78  Aligned_cols=40  Identities=25%  Similarity=0.116  Sum_probs=30.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCC
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASK  124 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~  124 (371)
                      ...++.|.|++|+|||||+.+++....   ..-..++|++...
T Consensus        22 ~G~~~~i~G~~GsGKTtl~~~~~~~~~---~~~~~v~~~~~e~   61 (247)
T 2dr3_A           22 ERNVVLLSGGPGTGKTIFSQQFLWNGL---KMGEPGIYVALEE   61 (247)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHHHH---HTTCCEEEEESSS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHH---hcCCeEEEEEccC
Confidence            346999999999999999998877652   1223677877554

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=95.82  E-value=0.017  Score=52.46  Aligned_cols=37  Identities=22%  Similarity=0.351  Sum_probs=28.5

Q ss_pred             HHHHHHHHh--cCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           71 FDRVWRCLM--EEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        71 ~~~l~~~L~--~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..++...+.  .....+|+|+|.+|+|||||+..++..+
T Consensus        65 ~~~~~~~~~~~~~~~~~I~i~G~~G~GKSTl~~~L~~~l  103 (355)
T 3p32_A           65 AQQLLLRLLPDSGNAHRVGITGVPGVGKSTAIEALGMHL  103 (355)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHhHhhcCCceEEEEECCCCCCHHHHHHHHHHHH
Confidence            334444443  2456799999999999999999998876

>3fwy_A Light-independent protochlorophyllide reductase I ATP-binding protein; BCHL, electron donor, DPOR, Fe protein, nitrogenase; HET: ADP; 1.63A {Rhodobacter sphaeroides 2}

Probab=95.80  E-value=0.0085  Score=53.40  Aligned_cols=41  Identities=20%  Similarity=0.277  Sum_probs=31.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCC
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASK  124 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~  124 (371)
                      ++.++|+|+|-|||||||.+..++.-+.   ..-..+.-+++..
T Consensus        46 ~~aKVIAIaGKGGVGKTTtavNLA~aLA---~~GkkVllID~Dp   86 (314)
T 3fwy_A           46 TGAKVFAVYGKGGIGKSTTSSNLSAAFS---ILGKRVLQIGCDP   86 (314)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHHH---HTTCCEEEEEESS
T ss_pred             CCceEEEEECCCccCHHHHHHHHHHHHH---HCCCeEEEEecCC
Confidence            5679999999999999999999888873   2223577777764

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=95.80  E-value=0.006  Score=54.58  Aligned_cols=26  Identities=23%  Similarity=0.392  Sum_probs=23.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..++|+|.|+.|+|||||+..++..+
T Consensus        39 ~~~lIvI~GPTgsGKTtLa~~LA~~l   64 (339)
T 3a8t_A           39 KEKLLVLMGATGTGKSRLSIDLAAHF   64 (339)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHTTS
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHC
Confidence            34689999999999999999999887

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=95.80  E-value=0.0047  Score=51.84  Aligned_cols=25  Identities=28%  Similarity=0.231  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...|+|.|++|+||||+++.+++.+
T Consensus         5 ~~~I~l~G~~GsGKsT~a~~La~~l   29 (217)
T 3be4_A            5 KHNLILIGAPGSGKGTQCEFIKKEY   29 (217)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh
Confidence            3578999999999999999999887

>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=95.80  E-value=0.013  Score=49.71  Aligned_cols=26  Identities=19%  Similarity=0.393  Sum_probs=23.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....|+|.|++|+||||+++.+.+.+
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~l   50 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHRL   50 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHH
Confidence            45689999999999999999999998

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=95.79  E-value=0.037  Score=52.10  Aligned_cols=26  Identities=27%  Similarity=0.479  Sum_probs=23.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|+|+.|+|||||++.++..+
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAgll  317 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLARQF  317 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHHh
Confidence            35699999999999999999998876

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=95.78  E-value=0.0071  Score=48.02  Aligned_cols=27  Identities=33%  Similarity=0.250  Sum_probs=23.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....+++|.|+.|+|||||++.++.-.
T Consensus        31 ~~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           31 EKAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            455699999999999999999998875

>3llm_A ATP-dependent RNA helicase A; alpha-beta-alpha, structural genomics, structural genomics consortium, SGC, activator, ATP-binding, DNA-binding; HET: ADP; 2.80A {Homo sapiens}

Probab=95.78  E-value=0.043  Score=46.45  Aligned_cols=102  Identities=12%  Similarity=0.074  Sum_probs=51.7

Q ss_pred             HHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCC--CeEEEEEeCCcCCHHHHHHHHHHHhccCCC-----
Q 043737           72 DRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDF--DFVIWVVASKDLQLEQIQGSIAKKINLFNE-----  144 (371)
Q Consensus        72 ~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f--~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~-----  144 (371)
                      +++...+.++  +.+.|.|+.|+||||+...+.-+........  ..++++. .......++...+...++....     
T Consensus        67 ~~~i~~i~~g--~~~~i~g~TGsGKTt~~~~~~~~~~~~~~~~~~~~~l~~~-p~~~la~q~~~~~~~~~~~~~~~~~g~  143 (235)
T 3llm_A           67 SEILEAISQN--SVVIIRGATGCGKTTQVPQFILDDFIQNDRAAECNIVVTQ-PRRISAVSVAERVAFERGEEPGKSCGY  143 (235)
T ss_dssp             HHHHHHHHHC--SEEEEECCTTSSHHHHHHHHHHHHHHHTTCGGGCEEEEEE-SSHHHHHHHHHHHHHTTTCCTTSSEEE
T ss_pred             HHHHHHHhcC--CEEEEEeCCCCCcHHhHHHHHhcchhhcCCCCceEEEEec-cchHHHHHHHHHHHHHhccccCceEEE
Confidence            3444444333  5899999999999987665543321111111  1333332 2222233444444444332110     


Q ss_pred             -------------CCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCc
Q 043737          145 -------------SWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWEL  177 (371)
Q Consensus       145 -------------~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~  177 (371)
                                   .....+++.+...+...+.+- -+||+|+++..
T Consensus       144 ~~~~~~~~~~~~~~Ivv~Tpg~l~~~l~~~l~~~-~~lVlDEah~~  188 (235)
T 3llm_A          144 SVRFESILPRPHASIMFCTVGVLLRKLEAGIRGI-SHVIVDEIHER  188 (235)
T ss_dssp             EETTEEECCCSSSEEEEEEHHHHHHHHHHCCTTC-CEEEECCTTSC
T ss_pred             eechhhccCCCCCeEEEECHHHHHHHHHhhhcCC-cEEEEECCccC
Confidence                         001235566666665544333 38999999864

>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=95.76  E-value=0.01  Score=56.36  Aligned_cols=46  Identities=13%  Similarity=0.007  Sum_probs=34.6

Q ss_pred             CccccchhHHHHHHHHHh--cCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           62 PTVVGLQSTFDRVWRCLM--EEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~--~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +..+.|.+..+.+.+...  .....+|++.|++|+||||+++.+++++
T Consensus       372 P~~f~rpeV~~vLr~~~~~~~~~~~~I~l~GlsGsGKSTIa~~La~~L  419 (511)
T 1g8f_A          372 PEWFSYPEVVKILRESNPPRPKQGFSIVLGNSLTVSREQLSIALLSTF  419 (511)
T ss_dssp             CTTTSCHHHHHHHHHHSCCGGGCCEEEEECTTCCSCHHHHHHHHHHHH
T ss_pred             CccccChhhHHHHHHhcccccccceEEEecccCCCCHHHHHHHHHHHH
Confidence            344556665556666552  2355789999999999999999999998

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=95.75  E-value=0.006  Score=54.69  Aligned_cols=24  Identities=33%  Similarity=0.454  Sum_probs=22.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+|+|.|+.|+||||||..++..+
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l   31 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKF   31 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHc
Confidence            589999999999999999999887

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=95.75  E-value=0.0061  Score=54.28  Aligned_cols=25  Identities=24%  Similarity=0.255  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .++|+|+|+.|+|||||+..++..+
T Consensus         5 ~~~i~i~GptGsGKTtla~~La~~l   29 (323)
T 3crm_A            5 PPAIFLMGPTAAGKTDLAMALADAL   29 (323)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc
Confidence            3589999999999999999999887

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=95.74  E-value=0.0067  Score=54.01  Aligned_cols=42  Identities=21%  Similarity=0.144  Sum_probs=29.4

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeC
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVAS  123 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~  123 (371)
                      ....+|+|.|+.|+|||||++.+..-.....+. ..+.++.-.
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~gll~~~~G~-~~v~~v~qd  129 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQALLARWDHH-PRVDLVTTD  129 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHHHHTSTTC-CCEEEEEGG
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHhhccccCCC-CeEEEEecC
Confidence            345799999999999999999998876321111 235555544

>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=95.72  E-value=0.0066  Score=51.58  Aligned_cols=26  Identities=27%  Similarity=0.239  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....|+|.|++|+||||+|+.+++.+
T Consensus        15 ~~~~I~l~G~~GsGKsT~a~~La~~l   40 (233)
T 1ak2_A           15 KGVRAVLLGPPGAGKGTQAPKLAKNF   40 (233)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            34579999999999999999999887

>1xx6_A Thymidine kinase; NESG, northeast structural genomics consortium, protein STRU initiative, PSI, structural genomics, DNA synthesis; HET: ADP; 2.00A {Clostridium acetobutylicum} SCOP: c.37.1.24 g.39.1.14

Probab=95.72  E-value=0.0029  Score=52.00  Aligned_cols=110  Identities=9%  Similarity=0.082  Sum_probs=55.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKN  161 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~  161 (371)
                      ..++.+++|+.|+||||.+...+++..  .......++ ......  ..-...+.+.++...+.....+..    .+.+.
T Consensus         7 ~g~i~v~~G~mgsGKTT~ll~~a~r~~--~~g~kV~v~-k~~~d~--r~~~~~i~s~~g~~~~a~~~~~~~----~i~~~   77 (191)
T 1xx6_A            7 HGWVEVIVGPMYSGKSEELIRRIRRAK--IAKQKIQVF-KPEIDN--RYSKEDVVSHMGEKEQAVAIKNSR----EILKY   77 (191)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHH--HTTCCEEEE-EEC---------CEEECTTSCEEECEEESSST----HHHHH
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHH--HCCCEEEEE-EeccCc--cchHHHHHhhcCCceeeEeeCCHH----HHHHH
Confidence            346899999999999999999888872  223333333 221110  101112223333211111111111    33444


Q ss_pred             hCCCceEEEEeCCCCc--ccccccccccCCCCCCCcEEEEecCch
Q 043737          162 MSNKKFVLLLDHIWEL--VDLSQVGLPVPCRTSASNKTVFTAREL  204 (371)
Q Consensus       162 l~~~~~LlVlDdv~~~--~~~~~~~~~l~~~~~~~~~iliTsR~~  204 (371)
                      +.+.-=+|++|++...  ..++.+....    ..+..||+|.++.
T Consensus        78 ~~~~~dvViIDEaqfl~~~~v~~l~~l~----~~~~~Vi~~Gl~~  118 (191)
T 1xx6_A           78 FEEDTEVIAIDEVQFFDDEIVEIVNKIA----ESGRRVICAGLDM  118 (191)
T ss_dssp             CCTTCSEEEECSGGGSCTHHHHHHHHHH----HTTCEEEEEECSB
T ss_pred             HhccCCEEEEECCCCCCHHHHHHHHHHH----hCCCEEEEEeccc
Confidence            4433349999998643  2233332211    2367899988854

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=95.70  E-value=0.006  Score=51.48  Aligned_cols=23  Identities=22%  Similarity=0.340  Sum_probs=21.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .|+|.|++|+||||+++.++..+
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            58899999999999999998876

>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=95.69  E-value=0.0077  Score=50.48  Aligned_cols=23  Identities=30%  Similarity=0.248  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHh
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINK  105 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~  105 (371)
                      ..+|+|.|+.|+||||+++.+..
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            46899999999999999999976

>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=95.69  E-value=0.0061  Score=51.00  Aligned_cols=23  Identities=30%  Similarity=0.289  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .|+|.|++|+||||+|+.+++.+
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            47899999999999999999876

>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=95.68  E-value=0.0064  Score=51.60  Aligned_cols=25  Identities=16%  Similarity=0.297  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+|+|.|++|+||||+++.++..+
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            4589999999999999999999887

>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=95.68  E-value=0.0064  Score=49.93  Aligned_cols=26  Identities=19%  Similarity=0.017  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+.|.|.|++|+||||||.+++.+.
T Consensus        33 ~g~~ilI~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           33 YGLGVLITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             TTEEEEEECCCTTTTHHHHHHHHTTT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhC
Confidence            34678999999999999999998775

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=95.67  E-value=0.0072  Score=53.33  Aligned_cols=26  Identities=27%  Similarity=0.269  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..++++|.|+.|+|||+||..+++.+
T Consensus         9 ~~~~i~i~GptgsGKt~la~~La~~~   34 (316)
T 3foz_A            9 LPKAIFLMGPTASGKTALAIELRKIL   34 (316)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCccCHHHHHHHHHHhC
Confidence            35689999999999999999999886

>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=95.65  E-value=0.012  Score=55.55  Aligned_cols=40  Identities=25%  Similarity=0.379  Sum_probs=29.8

Q ss_pred             hhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhcc
Q 043737           68 QSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFL  108 (371)
Q Consensus        68 ~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  108 (371)
                      ...+..+...+.+.. +.+.|.|++|+|||+++..++..+.
T Consensus        31 ~~av~~~~~~i~~~~-~~~li~G~aGTGKT~ll~~~~~~l~   70 (459)
T 3upu_A           31 KNAFNIVMKAIKEKK-HHVTINGPAGTGATTLTKFIIEALI   70 (459)
T ss_dssp             HHHHHHHHHHHHSSS-CEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCC-CEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            344455555554433 4999999999999999999988873

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=95.65  E-value=0.0038  Score=60.85  Aligned_cols=47  Identities=15%  Similarity=0.140  Sum_probs=35.6

Q ss_pred             CCccccchhHHHHHHHHHhcCCce-----------EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           61 PPTVVGLQSTFDRVWRCLMEEQMG-----------IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~~~~~-----------~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+.++|.+.....+.-.+..+..+           .|.++|++|+|||+||+.+++..
T Consensus       294 ~~~I~G~e~vk~al~~~l~~g~~~~~~~~~~r~~~~vLL~GppGtGKT~LAr~la~~~  351 (595)
T 3f9v_A          294 APSIYGHWELKEALALALFGGVPKVLEDTRIRGDIHILIIGDPGTAKSQMLQFISRVA  351 (595)
T ss_dssp             SSTTSCCHHHHHHHTTTTTCCCCEETTTTEECCSCCEEEEESSCCTHHHHHHSSSTTC
T ss_pred             cchhcChHHHHHHHHHHHhCCCcccccCCCcCCCcceEEECCCchHHHHHHHHHHHhC
Confidence            466899988766665555443222           68999999999999999998776

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=95.65  E-value=0.009  Score=52.96  Aligned_cols=26  Identities=27%  Similarity=0.492  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|+|+.|+|||||+..++...
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagll  126 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRYY  126 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            35699999999999999999999887

>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=95.64  E-value=0.0074  Score=49.96  Aligned_cols=41  Identities=24%  Similarity=0.176  Sum_probs=22.0

Q ss_pred             chhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           67 LQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        67 R~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +....+.+.+...+...-.|+|.|.+|+|||||+..+....
T Consensus        14 ~~~~~~~m~~~~~~~~~~ki~vvG~~~~GKSsLi~~l~~~~   54 (204)
T 4gzl_A           14 LVPRGSHMENLYFQGQAIKCVVVGDGAVGKTCLLISYTTNA   54 (204)
T ss_dssp             ----------------CEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             cccchhHHHhHhhcCCeEEEEEECcCCCCHHHHHHHHHhCC
Confidence            33334444444434455678999999999999999998654

>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=95.62  E-value=0.0073  Score=48.80  Aligned_cols=25  Identities=24%  Similarity=0.405  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .++++|.|+.|+|||||+..+...+
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~~l   30 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIPAL   30 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhc
Confidence            5689999999999999999998876

>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=95.60  E-value=0.007  Score=50.16  Aligned_cols=23  Identities=22%  Similarity=0.416  Sum_probs=21.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +|+|.|+.|+||||+++.++..+
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~l   26 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAAL   26 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc
Confidence            89999999999999999998876

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=95.58  E-value=0.0048  Score=52.33  Aligned_cols=26  Identities=27%  Similarity=0.162  Sum_probs=16.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHH-hhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQIN-KKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~-~~~  107 (371)
                      ...+++|.|+.|+|||||++.++ ...
T Consensus        26 ~G~ii~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           26 VGVILVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             CCCEEEEECSCC----CHHHHHHC---
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            34689999999999999999998 554

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=95.56  E-value=0.0083  Score=52.61  Aligned_cols=23  Identities=22%  Similarity=0.546  Sum_probs=21.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQIN  104 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~  104 (371)
                      ...+|+|.|++|+||||+|+.+.
T Consensus        74 ~~~iI~I~G~~GSGKSTva~~La   96 (281)
T 2f6r_A           74 GLYVLGLTGISGSGKSSVAQRLK   96 (281)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            45689999999999999999998

>1w36_D RECD, exodeoxyribonuclease V alpha chain; recombination, helicase, hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19 PDB: 3k70_D*

Probab=95.55  E-value=0.016  Score=56.66  Aligned_cols=25  Identities=24%  Similarity=0.228  Sum_probs=22.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+.+.|+|++|+||||++..+...+
T Consensus       164 ~~~~vi~G~pGTGKTt~l~~ll~~l  188 (608)
T 1w36_D          164 RRISVISGGPGTGKTTTVAKLLAAL  188 (608)
T ss_dssp             BSEEEEECCTTSTHHHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCHHHHHHHHHHHH
Confidence            4699999999999999998877665

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=95.54  E-value=0.014  Score=49.05  Aligned_cols=38  Identities=26%  Similarity=0.055  Sum_probs=27.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCC
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASK  124 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~  124 (371)
                      -.|++.|.||+||||++..++..+.  ...+ .+.++.+..
T Consensus         7 l~I~~~~kgGvGKTt~a~~la~~l~--~~G~-~V~v~d~D~   44 (228)
T 2r8r_A            7 LKVFLGAAPGVGKTYAMLQAAHAQL--RQGV-RVMAGVVET   44 (228)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHH--HTTC-CEEEEECCC
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHH--HCCC-CEEEEEeCC
Confidence            3588999999999999999988873  2222 355555544

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=95.54  E-value=0.024  Score=47.34  Aligned_cols=26  Identities=23%  Similarity=0.162  Sum_probs=23.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhcc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFL  108 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~  108 (371)
                      ...|+|.|+.|+||||++..+.+.+.
T Consensus         6 g~~i~~eG~~gsGKsT~~~~l~~~l~   31 (213)
T 4edh_A            6 GLFVTLEGPEGAGKSTNRDYLAERLR   31 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            46899999999999999999999883

>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein, ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus radiodurans} PDB: 3gp8_A 3gpl_A*

Probab=95.53  E-value=0.019  Score=55.70  Aligned_cols=25  Identities=24%  Similarity=0.181  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+++.|+|++|+||||++..++..+
T Consensus       204 ~~~~~I~G~pGTGKTt~i~~l~~~l  228 (574)
T 3e1s_A          204 HRLVVLTGGPGTGKSTTTKAVADLA  228 (574)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999998876

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=95.50  E-value=0.011  Score=49.18  Aligned_cols=23  Identities=30%  Similarity=0.138  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      .+++|.|+.|+|||||++.++.-
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            48999999999999999988765

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=95.48  E-value=0.0069  Score=52.05  Aligned_cols=25  Identities=28%  Similarity=0.231  Sum_probs=23.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...|+|.|+.|+||||+++.++..+
T Consensus        48 g~~i~l~G~~GsGKSTl~~~La~~l   72 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIMARSL   72 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhc
Confidence            4589999999999999999999877

>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=95.45  E-value=0.022  Score=48.41  Aligned_cols=37  Identities=16%  Similarity=0.287  Sum_probs=27.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEE
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVV  121 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~  121 (371)
                      ...|+|.|+.|+||||++..+.+.+.  ...+..+....
T Consensus        27 ~~~i~~eG~~GsGKsT~~~~l~~~l~--~~~~~~~~~~r   63 (236)
T 3lv8_A           27 AKFIVIEGLEGAGKSTAIQVVVETLQ--QNGIDHITRTR   63 (236)
T ss_dssp             CCEEEEEESTTSCHHHHHHHHHHHHH--HTTCCCEEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH--hcCCCeeeeec
Confidence            46899999999999999999999873  23444344433

>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=95.44  E-value=0.009  Score=52.81  Aligned_cols=24  Identities=25%  Similarity=0.185  Sum_probs=21.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+|.|.|++|+||||+|+.+.+..
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~~~   26 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIAKN   26 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhC
Confidence            578999999999999999998753

>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=95.42  E-value=0.0085  Score=55.73  Aligned_cols=27  Identities=19%  Similarity=0.187  Sum_probs=23.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....+|+|+|++|+||||+|+.++.+.
T Consensus       256 ~~~~lIil~G~pGSGKSTla~~L~~~~  282 (416)
T 3zvl_A          256 PNPEVVVAVGFPGAGKSTFIQEHLVSA  282 (416)
T ss_dssp             SSCCEEEEESCTTSSHHHHHHHHTGGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHhc
Confidence            346799999999999999999998775

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=95.42  E-value=0.025  Score=47.30  Aligned_cols=26  Identities=19%  Similarity=0.212  Sum_probs=23.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhcc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFL  108 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~  108 (371)
                      ...|++.|+.|+||||+++.+.+.+.
T Consensus         3 g~~i~~eG~~gsGKsT~~~~l~~~l~   28 (213)
T 4tmk_A            3 SKYIVIEGLEGAGKTTARNVVVETLE   28 (213)
T ss_dssp             CCEEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            35899999999999999999999883

>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=95.41  E-value=0.022  Score=49.02  Aligned_cols=26  Identities=31%  Similarity=0.344  Sum_probs=23.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...++++.|.+|+||||++..++..+
T Consensus        13 ~~~i~~~~GkgGvGKTTl~~~La~~l   38 (262)
T 1yrb_A           13 ASMIVVFVGTAGSGKTTLTGEFGRYL   38 (262)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHH
Confidence            35688999999999999999999887

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=95.41  E-value=0.023  Score=46.83  Aligned_cols=49  Identities=14%  Similarity=0.118  Sum_probs=31.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHH
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIA  136 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~  136 (371)
                      .|+|-|.-|+||||.++.+++.+.   .....+++..-.......+....++
T Consensus         2 fI~~EG~DGsGKsTq~~~L~~~L~---~~g~~v~~treP~~t~~~~~ir~~l   50 (197)
T 3hjn_A            2 FITFEGIDGSGKSTQIQLLAQYLE---KRGKKVILKREPGGTETGEKIRKIL   50 (197)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHH---HTTCCEEEEESSCSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH---HCCCcEEEEECCCCCcHHHHHHHHh
Confidence            578899999999999999999883   2222344444333333444444444

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=95.40  E-value=0.0059  Score=49.20  Aligned_cols=24  Identities=33%  Similarity=0.512  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ++++|+|+.|+|||||+..++...
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~   26 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPIL   26 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            579999999999999999998876

>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=95.35  E-value=0.032  Score=51.72  Aligned_cols=28  Identities=25%  Similarity=0.266  Sum_probs=24.7

Q ss_pred             cCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           80 EEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        80 ~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .....+++|.|+.|+|||||++.++...
T Consensus       164 ~~~ggii~I~GpnGSGKTTlL~allg~l  191 (418)
T 1p9r_A          164 KRPHGIILVTGPTGSGKSTTLYAGLQEL  191 (418)
T ss_dssp             TSSSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             HhcCCeEEEECCCCCCHHHHHHHHHhhc
Confidence            3556799999999999999999998876

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=95.34  E-value=0.0043  Score=54.70  Aligned_cols=26  Identities=19%  Similarity=0.393  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +..+|+|.|++|+||||+|+.+.+.+
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~~~l   29 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFDQIF   29 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHH
Confidence            45689999999999999999998865

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=95.31  E-value=0.0087  Score=49.09  Aligned_cols=23  Identities=39%  Similarity=0.403  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +++|+|+.|+|||||++.++...
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g~~   25 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHhhc
Confidence            68999999999999999988776

>3mfy_A V-type ATP synthase alpha chain; A-type ATP synthase, P loop, phenylalanine mutant, hydrolase; 2.35A {Pyrococcus horikoshii} PDB: 3i4l_A* 3i72_A 3i73_A* 3p20_A 3ikj_A 3qg1_A 3nd8_A 3nd9_A 1vdz_A 3qia_A 3qjy_A 3m4y_A 3se0_A 3sdz_A

Probab=95.30  E-value=0.066  Score=50.83  Aligned_cols=57  Identities=19%  Similarity=0.245  Sum_probs=40.6

Q ss_pred             HHHHHhc-CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcC-CHHHHHHHH
Q 043737           74 VWRCLME-EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDL-QLEQIQGSI  135 (371)
Q Consensus        74 l~~~L~~-~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~l  135 (371)
                      .++.|.. .+...++|.|.+|+|||+|+.++++..     +-+.++++-++... ...++.+++
T Consensus       217 vID~l~PigkGqr~~I~g~~g~GKT~L~~~ia~~~-----~~~~~V~~~iGER~~Ev~e~~~~~  275 (588)
T 3mfy_A          217 VIDTFFPQAKGGTAAIPGPAGSGKTVTQHQLAKWS-----DAQVVIYIGCGERGNEMTDVLEEF  275 (588)
T ss_dssp             HHHHHSCEETTCEEEECSCCSHHHHHHHHHHHHHS-----SCSEEEEEECCSSSSHHHHHHHHT
T ss_pred             hhhccCCcccCCeEEeecCCCCCHHHHHHHHHhcc-----CCCEEEEEEecccHHHHHHHHHHH
Confidence            4555543 345689999999999999999988764     22477788777655 355666654

>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=95.30  E-value=0.01  Score=50.58  Aligned_cols=26  Identities=27%  Similarity=0.281  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||++.++.-.
T Consensus        30 ~Ge~~~iiG~nGsGKSTLl~~l~Gl~   55 (235)
T 3tif_A           30 EGEFVSIMGPSGSGKSTMLNIIGCLD   55 (235)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            45699999999999999999887654

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=95.23  E-value=0.013  Score=49.98  Aligned_cols=25  Identities=24%  Similarity=0.369  Sum_probs=23.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...|+|.|..|+||||+++.+++.+
T Consensus         2 ~~~i~~~G~~g~GKtt~~~~l~~~l   26 (241)
T 2ocp_A            2 PRRLSIEGNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHC
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHc
Confidence            4689999999999999999999887

>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=95.22  E-value=0.023  Score=48.45  Aligned_cols=41  Identities=32%  Similarity=0.391  Sum_probs=30.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHH
Q 043737           86 VGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLE  129 (371)
Q Consensus        86 v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~  129 (371)
                      |+|.|-||+||||+|..++..+.   ..-..++-++.....+..
T Consensus         3 I~vs~kGGvGKTt~a~~LA~~la---~~g~~VlliD~D~~~~l~   43 (254)
T 3kjh_A            3 LAVAGKGGVGKTTVAAGLIKIMA---SDYDKIYAVDGDPDSCLG   43 (254)
T ss_dssp             EEEECSSSHHHHHHHHHHHHHHT---TTCSCEEEEEECTTSCHH
T ss_pred             EEEecCCCCCHHHHHHHHHHHHH---HCCCeEEEEeCCCCcChH
Confidence            56699999999999999999983   222467778776655443

>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=95.21  E-value=0.022  Score=49.13  Aligned_cols=36  Identities=17%  Similarity=0.233  Sum_probs=27.3

Q ss_pred             HHHHHHHhcC-C-ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           72 DRVWRCLMEE-Q-MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        72 ~~l~~~L~~~-~-~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .-+..++... . ...+.++|++|+|||.+|..+++..
T Consensus        91 ~~l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~~~  128 (267)
T 1u0j_A           91 SVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             HHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             HHHHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHhhh
Confidence            3355555433 2 4579999999999999999999864

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=95.20  E-value=0.023  Score=47.84  Aligned_cols=27  Identities=19%  Similarity=0.201  Sum_probs=24.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .....|+|.|+.|+||||+++.+.+.+
T Consensus        19 ~~~~~i~~~G~~g~GKst~~~~l~~~l   45 (223)
T 3ld9_A           19 PGSMFITFEGIDGSGKTTQSHLLAEYL   45 (223)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            456799999999999999999999887

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=95.20  E-value=0.017  Score=55.54  Aligned_cols=44  Identities=20%  Similarity=0.215  Sum_probs=30.8

Q ss_pred             cccchhHHHHHHHHHh--cCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           64 VVGLQSTFDRVWRCLM--EEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        64 ~vGR~~~~~~l~~~L~--~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+.+.+..+.+.....  -....+++|.|+.|+|||||++.++..+
T Consensus       348 ~f~~peV~~vLR~~~~~~~~~G~iI~LiG~sGSGKSTLar~La~~L  393 (552)
T 3cr8_A          348 WYSFPEVLAELHRQTPPRERQGFTVFFTGLSGAGKSTLARALAARL  393 (552)
T ss_dssp             TTSCHHHHHHHHHHSCCGGGSCEEEEEEESSCHHHHHHHHHHHHHH
T ss_pred             cccccchhhhhhhhcccccccceEEEEECCCCChHHHHHHHHHHhh
Confidence            3444444444444331  1345789999999999999999999887

>2orv_A Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2'deoxythymidil))tetraphosphate, transferase; HET: 4TA; 2.30A {Homo sapiens} SCOP: c.37.1.24 g.39.1.14

Probab=95.20  E-value=0.022  Score=47.93  Aligned_cols=108  Identities=16%  Similarity=0.096  Sum_probs=54.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEe-CCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVA-SKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVK  160 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~-~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~  160 (371)
                      ...+.+++|+-|.||||-+...+.+..  .......++-.. +.... .    .+.+.++............+...    
T Consensus        18 ~g~l~v~~G~MgsGKTT~lL~~~~r~~--~~g~kvli~kp~~D~Ryg-~----~i~sr~G~~~~a~~i~~~~di~~----   86 (234)
T 2orv_A           18 RGQIQVILGPMFSGKSTELMRRVRRFQ--IAQYKCLVIKYAKDTRYS-S----SFCTHDRNTMEALPACLLRDVAQ----   86 (234)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHHH--TTTCCEEEEEETTCCCC----------------CEEEEESSGGGGHH----
T ss_pred             ceEEEEEECCCCCcHHHHHHHHHHHHH--HCCCeEEEEeecCCccch-H----HHHhhcCCeeEEEecCCHHHHHH----
Confidence            346889999999999988888777762  233334443332 22222 3    34444443322111112222222    


Q ss_pred             HhCCCceEEEEeCCCCcccccccccccCCCCCCCcEEEEecCch
Q 043737          161 NMSNKKFVLLLDHIWELVDLSQVGLPVPCRTSASNKTVFTAREL  204 (371)
Q Consensus       161 ~l~~~~~LlVlDdv~~~~~~~~~~~~l~~~~~~~~~iliTsR~~  204 (371)
                      .. +.--+|++|++.-...+.++...+.   ..|..||+|.++.
T Consensus        87 ~~-~~~dvViIDEaQF~~~v~el~~~l~---~~gi~VI~~GL~~  126 (234)
T 2orv_A           87 EA-LGVAVIGIDEGQFFPDIVEFCEAMA---NAGKTVIVAALDG  126 (234)
T ss_dssp             HH-TTCSEEEESSGGGCTTHHHHHHHHH---HTTCEEEEECCSB
T ss_pred             Hh-ccCCEEEEEchhhhhhHHHHHHHHH---hCCCEEEEEeccc
Confidence            22 2233999999864433433333332   2577899999883

>3vr4_D V-type sodium ATPase subunit D; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_D* 3vr2_D* 3vr5_D 3vr6_D*

Probab=95.19  E-value=0.023  Score=52.80  Aligned_cols=101  Identities=9%  Similarity=0.054  Sum_probs=55.5

Q ss_pred             HHHHhc-CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCC-eEEEEEeCCc-CCHHHHHHHHHHH--hccC--CCCCC
Q 043737           75 WRCLME-EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFD-FVIWVVASKD-LQLEQIQGSIAKK--INLF--NESWN  147 (371)
Q Consensus        75 ~~~L~~-~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~-~~~wv~~~~~-~~~~~~~~~l~~~--l~~~--~~~~~  147 (371)
                      ++.|.. .+...++|.|.+|+|||+|+.++++......++-+ .++++-++.. ....++.+.+...  +...  .-...
T Consensus       142 ID~l~pigrGQr~~Ifgg~G~GKt~L~~~Ia~~~~~~~d~~~~~~V~~~iGeR~~Ev~e~~~~~~~~g~~~rtvvV~ats  221 (465)
T 3vr4_D          142 IDHLNTLVRGQKLPVFSGSGLPHKELAAQIARQATVLDSSDDFAVVFAAIGITFEEAEFFMEDFRQTGAIDRSVMFMNLA  221 (465)
T ss_dssp             HHTTSCCBTTCBCCEEECTTSCHHHHHHHHHHHCBCSSCSSCEEEEEEEEEECHHHHHHHHHHHHHHTGGGGEEEEEEET
T ss_pred             EecccccccCCEEEEeCCCCcChHHHHHHHHHHHHhccCCCceEEEEEEecCCcHHHHHHHHHHhhcCCccceEEEEECC
Confidence            444433 23346788999999999999999888621112222 5666666543 3456666665542  1100  00001


Q ss_pred             cCCHHH------HHHHHHHHh---CCCceEEEEeCCC
Q 043737          148 SRSLQE------KSQDIVKNM---SNKKFVLLLDHIW  175 (371)
Q Consensus       148 ~~~~~~------~~~~l~~~l---~~~~~LlVlDdv~  175 (371)
                      ...+..      ..-.+.+++   .++.+|+++||+-
T Consensus       222 d~p~~~r~~a~~~a~tiAEyfrd~~G~~VLl~~DslT  258 (465)
T 3vr4_D          222 NDPAIERIATPRMALTAAEYLAYEKGMHVLVIMTDMT  258 (465)
T ss_dssp             TSCHHHHHHHHHHHHHHHHHHHHTTCCEEEEEEECHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEcChH
Confidence            222221      112233443   3789999999985

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=95.17  E-value=0.014  Score=51.78  Aligned_cols=25  Identities=24%  Similarity=0.426  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+++|+|+.|+||||+++.++...
T Consensus       100 g~vi~lvG~nGsGKTTll~~Lag~l  124 (302)
T 3b9q_A          100 PAVIMIVGVNGGGKTTSLGKLAHRL  124 (302)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4699999999999999999998887

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=95.17  E-value=0.011  Score=49.95  Aligned_cols=26  Identities=27%  Similarity=0.272  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||++.++.-.
T Consensus        29 ~Ge~~~iiG~nGsGKSTLl~~l~Gl~   54 (224)
T 2pcj_A           29 KGEFVSIIGASGSGKSTLLYILGLLD   54 (224)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            44689999999999999999887654

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=95.16  E-value=0.012  Score=50.20  Aligned_cols=26  Identities=23%  Similarity=0.250  Sum_probs=22.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .. .+++|.|+.|+|||||++.++.-.
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            45 799999999999999999987654

>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=95.16  E-value=0.0059  Score=56.93  Aligned_cols=25  Identities=24%  Similarity=0.387  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .++|+|+|++|+||||++..++..+
T Consensus        99 ~~vI~ivG~~GvGKTTla~~La~~l  123 (432)
T 2v3c_C           99 QNVILLVGIQGSGKTTTAAKLARYI  123 (432)
T ss_dssp             CCCEEEECCSSSSTTHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3589999999999999999998876

>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=95.14  E-value=0.013  Score=53.71  Aligned_cols=25  Identities=32%  Similarity=0.507  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .++|+|.|+.|+||||||..++..+
T Consensus         2 ~~~i~i~GptgsGKttla~~La~~~   26 (409)
T 3eph_A            2 KKVIVIAGTTGVGKSQLSIQLAQKF   26 (409)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             CcEEEEECcchhhHHHHHHHHHHHC
Confidence            3689999999999999999999887

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=95.14  E-value=0.015  Score=50.41  Aligned_cols=27  Identities=22%  Similarity=0.380  Sum_probs=23.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....+++|+|+.|+|||||++.++...
T Consensus        23 ~~g~~v~i~Gp~GsGKSTll~~l~g~~   49 (261)
T 2eyu_A           23 RKMGLILVTGPTGSGKSTTIASMIDYI   49 (261)
T ss_dssp             CSSEEEEEECSTTCSHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCccHHHHHHHHHHhC
Confidence            456799999999999999999988765

>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=95.11  E-value=0.012  Score=50.09  Aligned_cols=26  Identities=23%  Similarity=0.410  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||++.++.-.
T Consensus        30 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           30 EGALVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTCS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45699999999999999999987664

>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=95.11  E-value=0.012  Score=51.40  Aligned_cols=26  Identities=23%  Similarity=0.281  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...++.|.|++|+|||||+.+++...
T Consensus        29 ~G~i~~i~G~~GsGKTtl~~~l~~~~   54 (279)
T 1nlf_A           29 AGTVGALVSPGGAGKSMLALQLAAQI   54 (279)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            44699999999999999999998765

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=95.11  E-value=0.059  Score=60.93  Aligned_cols=79  Identities=23%  Similarity=0.193  Sum_probs=49.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCC-cCCHHHHHHHHHHH
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWN-SRSLQEKSQDIVKN  161 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~-~~~~~~~~~~l~~~  161 (371)
                      .+.|.++|++|+|||++|+.++...   . .+ ....++.+...+...+...+...+........ ...+         .
T Consensus      1267 ~~~vLL~GPpGtGKT~la~~~l~~~---~-~~-~~~~infsa~ts~~~~~~~i~~~~~~~~~~~g~~~~P---------~ 1332 (2695)
T 4akg_A         1267 KRGIILCGPPGSGKTMIMNNALRNS---S-LY-DVVGINFSKDTTTEHILSALHRHTNYVTTSKGLTLLP---------K 1332 (2695)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHSC---S-SC-EEEEEECCTTCCHHHHHHHHHHHBCCEEETTTEEEEE---------B
T ss_pred             CCeEEEECCCCCCHHHHHHHHHhcC---C-CC-ceEEEEeecCCCHHHHHHHHHHHhhhccccCCccccC---------C
Confidence            3588899999999999998887664   1 22 45667777777777766666655432110000 0000         0


Q ss_pred             hCCCceEEEEeCCC
Q 043737          162 MSNKKFVLLLDHIW  175 (371)
Q Consensus       162 l~~~~~LlVlDdv~  175 (371)
                      -.++++++.+||++
T Consensus      1333 ~~gk~~VlFiDEin 1346 (2695)
T 4akg_A         1333 SDIKNLVLFCDEIN 1346 (2695)
T ss_dssp             SSSSCEEEEEETTT
T ss_pred             CCCceEEEEecccc
Confidence            03577899999974

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=95.10  E-value=0.021  Score=49.41  Aligned_cols=39  Identities=21%  Similarity=0.286  Sum_probs=29.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKD  125 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~  125 (371)
                      ++|+|.|-||+||||+|..++..+.+   .-..++.++....
T Consensus         2 ~vI~vs~KGGvGKTT~a~nLA~~la~---~G~~VlliD~D~q   40 (269)
T 1cp2_A            2 RQVAIYGKGGIGKSTTTQNLTSGLHA---MGKTIMVVGCDPK   40 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHT---TTCCEEEEEECTT
T ss_pred             cEEEEecCCCCcHHHHHHHHHHHHHH---CCCcEEEEcCCCC
Confidence            57778999999999999999988842   2235677776543

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=95.09  E-value=0.015  Score=45.61  Aligned_cols=24  Identities=33%  Similarity=0.414  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +.|+|.|.+|+|||||+..+....
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~   25 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKKR   25 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            468899999999999999998764

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=95.07  E-value=0.016  Score=46.31  Aligned_cols=24  Identities=21%  Similarity=0.202  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      .+-|.|.|++|+||||||..+..+
T Consensus        16 G~gvli~G~SGaGKStlal~L~~r   39 (181)
T 3tqf_A           16 KMGVLITGEANIGKSELSLALIDR   39 (181)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHHT
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHc
Confidence            467899999999999999999875

>2woj_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; HET: ADP; 1.99A {Saccharomyces cerevisiae} PDB: 3h84_A 3zs8_A 3zs9_A* 3sja_A 3sjb_A 3sjc_A 3sjd_A* 3idq_A 3a36_A 3a37_A*

Probab=95.07  E-value=0.033  Score=50.48  Aligned_cols=49  Identities=18%  Similarity=0.154  Sum_probs=33.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHH
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQ  130 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~  130 (371)
                      ....+++..|-||+||||+|..++..+... ..-..++-++.....++..
T Consensus        16 ~~~~i~v~sgKGGvGKTTvaanLA~~lA~~-~~G~rVLLvD~D~~~~l~~   64 (354)
T 2woj_A           16 TTHKWIFVGGKGGVGKTTSSCSIAIQMALS-QPNKQFLLISTDPAHNLSD   64 (354)
T ss_dssp             SSCCEEEEEESTTSSHHHHHHHHHHHHHHH-CTTSCEEEEECCSSCCHHH
T ss_pred             CCcEEEEEeCCCCCcHHHHHHHHHHHHHHh-cCCCeEEEEECCCCCCHHH
Confidence            345678888999999999999998887300 2223566676654444433

>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=95.07  E-value=0.014  Score=47.80  Aligned_cols=25  Identities=32%  Similarity=0.393  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .-.|+|.|+.|+|||||++.+....
T Consensus        29 ~~kv~lvG~~g~GKSTLl~~l~~~~   53 (191)
T 1oix_A           29 LFKVVLIGDSGVGKSNLLSRFTRNE   53 (191)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcCC
Confidence            4578999999999999999998765

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=95.02  E-value=0.018  Score=46.81  Aligned_cols=26  Identities=27%  Similarity=0.258  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....|+|.|.+|+|||||+..+....
T Consensus        47 ~~~~i~vvG~~g~GKSsll~~l~~~~   72 (193)
T 2ged_A           47 YQPSIIIAGPQNSGKTSLLTLLTTDS   72 (193)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34589999999999999999998764

>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=95.01  E-value=0.015  Score=46.17  Aligned_cols=23  Identities=26%  Similarity=0.430  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      ..|+|.|.+|+|||||...+...
T Consensus         4 ~~v~lvG~~gvGKStL~~~l~~~   26 (165)
T 2wji_A            4 YEIALIGNPNVGKSTIFNALTGE   26 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            56899999999999999999864

>2woo_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; 3.01A {Schizosaccharomyces pombe}

Probab=95.00  E-value=0.032  Score=50.07  Aligned_cols=42  Identities=19%  Similarity=0.181  Sum_probs=30.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKD  125 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~  125 (371)
                      ...+++++.|-||+||||+|..++..+.+   .-..+.-++....
T Consensus        17 ~~~~i~v~sgkGGvGKTTva~~LA~~lA~---~G~rVllvD~D~~   58 (329)
T 2woo_A           17 TSLKWIFVGGKGGVGKTTTSCSLAIQMSK---VRSSVLLISTDPA   58 (329)
T ss_dssp             TTCCEEEEECSSSSSHHHHHHHHHHHHHT---SSSCEEEEECCTT
T ss_pred             CCCEEEEEeCCCCCcHHHHHHHHHHHHHH---CCCeEEEEECCCC
Confidence            44678888999999999999999988842   2234666665543

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=95.00  E-value=0.013  Score=50.66  Aligned_cols=26  Identities=27%  Similarity=0.317  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||++.++.-.
T Consensus        31 ~Ge~~~liG~nGsGKSTLlk~l~Gl~   56 (262)
T 1b0u_A           31 AGDVISIIGSSGSGKSTFLRCINFLE   56 (262)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45699999999999999999987654

>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=94.99  E-value=0.028  Score=45.51  Aligned_cols=34  Identities=38%  Similarity=0.644  Sum_probs=26.3

Q ss_pred             HHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhh
Q 043737           72 DRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        72 ~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      ..+.+ +.......|+|.|.+|+|||||...+...
T Consensus         6 ~~~~~-~~~~~~~~i~v~G~~~~GKssl~~~l~~~   39 (187)
T 1zj6_A            6 TRIWR-LFNHQEHKVIIVGLDNAGKTTILYQFSMN   39 (187)
T ss_dssp             HHHHH-HHTTSCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHH-hcCCCccEEEEECCCCCCHHHHHHHHhcC
Confidence            34555 33455678899999999999999999854

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=94.98  E-value=0.029  Score=53.95  Aligned_cols=46  Identities=17%  Similarity=0.125  Sum_probs=33.9

Q ss_pred             CccccchhHHHHHHHHHh--cCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           62 PTVVGLQSTFDRVWRCLM--EEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~--~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +..+-|.+..+.+.+...  .....+|.+.|++|+||||+|+.+...+
T Consensus       349 p~~~~r~eV~~~lr~~~~~~~~~~~~I~l~G~~GsGKSTia~~La~~L  396 (546)
T 2gks_A          349 PEWFTRPEVAEILAETYVPKHKQGFCVWLTGLPCAGKSTIAEILATML  396 (546)
T ss_dssp             CTTTSCHHHHHHHHHHSCCGGGCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CccccchhHHHHHHHhhccccccceEEEccCCCCCCHHHHHHHHHHHh
Confidence            445556655555565552  2345789999999999999999998876

>3oaa_A ATP synthase subunit alpha; rossmann fold, hydrolase, hydrolase-transport PROT complex; HET: ANP ADP; 3.26A {Escherichia coli DH1} PDB: 2a7u_A

Probab=94.98  E-value=0.2  Score=47.05  Aligned_cols=96  Identities=13%  Similarity=0.084  Sum_probs=53.8

Q ss_pred             HHHHhc-CCceEEEEEcCCCCcHHHHHH-HHHhhccCCCCCCCeEEEEEeCCcC-CHHHHHHHHHHHhccC----CCCCC
Q 043737           75 WRCLME-EQMGIVGLYGMGEVGKTTLLT-QINKKFLHTPNDFDFVIWVVASKDL-QLEQIQGSIAKKINLF----NESWN  147 (371)
Q Consensus        75 ~~~L~~-~~~~~v~I~G~~GiGKTtLa~-~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~l~~~l~~~----~~~~~  147 (371)
                      ++.|.. .+...++|.|.+|+|||+|+. .+++..    ..-..++++-++... .+.++.+.+...=...    .-...
T Consensus       153 ID~l~PigrGQR~~Ifg~~g~GKT~l~l~~I~n~~----~~dv~~V~~~IGeR~~ev~e~~~~l~~~g~m~~tvvV~ata  228 (513)
T 3oaa_A          153 VDSMIPIGRGQRELIIGDRQTGKTALAIDAIINQR----DSGIKCIYVAIGQKASTISNVVRKLEEHGALANTIVVVATA  228 (513)
T ss_dssp             HHHHSCCBTTCBCEEEESSSSSHHHHHHHHHHTTS----SSSCEEEEEEESCCHHHHHHHHHHHHHHSCSTTEEEEEECT
T ss_pred             eccccccccCCEEEeecCCCCCcchHHHHHHHhhc----cCCceEEEEEecCChHHHHHHHHHHhhcCcccceEEEEECC
Confidence            455543 345578899999999999974 555432    222245677777654 4566666655431110    00001


Q ss_pred             cCCHHH----------HHHHHHHHhCCCceEEEEeCCCC
Q 043737          148 SRSLQE----------KSQDIVKNMSNKKFVLLLDHIWE  176 (371)
Q Consensus       148 ~~~~~~----------~~~~l~~~l~~~~~LlVlDdv~~  176 (371)
                      ...+..          ..++++.  +++.+|+++||+..
T Consensus       229 d~p~~~r~~a~~~a~tiAEyfrd--~G~dVLli~Dsltr  265 (513)
T 3oaa_A          229 SESAALQYLAPYAGCAMGEYFRD--RGEDALIIYDDLSK  265 (513)
T ss_dssp             TSCHHHHHHHHHHHHHHHHHHHH--TTCEEEEEEETHHH
T ss_pred             CCChHHHHHHHHHHHHHHHHHHh--cCCCEEEEecChHH
Confidence            122221          1223332  58899999999853

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=94.97  E-value=0.016  Score=51.32  Aligned_cols=27  Identities=15%  Similarity=0.239  Sum_probs=23.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .....++|+|+.|+|||||++.++.-.
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            455799999999999999999987654

>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=94.96  E-value=0.011  Score=47.92  Aligned_cols=22  Identities=41%  Similarity=0.437  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 043737           85 IVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      -|+|.|.+|+|||||+..++..
T Consensus         4 kv~ivG~~gvGKStLl~~l~~~   25 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMKT   25 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5789999999999999999864

>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=94.95  E-value=0.015  Score=49.68  Aligned_cols=27  Identities=19%  Similarity=0.425  Sum_probs=23.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....+++|.|+.|+|||||++.++.-.
T Consensus        26 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           26 QPNSIIAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             CTTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            355699999999999999999987654

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=94.94  E-value=0.021  Score=49.52  Aligned_cols=26  Identities=27%  Similarity=0.391  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||++.++.-.
T Consensus        36 ~Ge~~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           36 SGEMVAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             TTCEEEEECCTTSCHHHHHHHHTSSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            45699999999999999999987654

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=94.94  E-value=0.031  Score=55.11  Aligned_cols=62  Identities=18%  Similarity=0.232  Sum_probs=39.5

Q ss_pred             hHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHH
Q 043737           69 STFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIA  136 (371)
Q Consensus        69 ~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~  136 (371)
                      ...+.+..+|..  ..+..|+||+|+|||+.+.++...+...    ...+.++...+..++.++..+.
T Consensus       193 ~Q~~AV~~al~~--~~~~lI~GPPGTGKT~ti~~~I~~l~~~----~~~ILv~a~TN~AvD~i~erL~  254 (646)
T 4b3f_X          193 SQKEAVLFALSQ--KELAIIHGPPGTGKTTTVVEIILQAVKQ----GLKVLCCAPSNIAVDNLVERLA  254 (646)
T ss_dssp             HHHHHHHHHHHC--SSEEEEECCTTSCHHHHHHHHHHHHHHT----TCCEEEEESSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC--CCceEEECCCCCCHHHHHHHHHHHHHhC----CCeEEEEcCchHHHHHHHHHHH
Confidence            344556666633  3488899999999998777766665221    1245666666555666666654

>2r9v_A ATP synthase subunit alpha; TM1612, structural genomics, JOI for structural genomics, JCSG, protein structure initiative ATP synthesis; HET: ATP PG4; 2.10A {Thermotoga maritima MSB8}

Probab=94.93  E-value=0.042  Score=51.63  Aligned_cols=97  Identities=11%  Similarity=0.112  Sum_probs=54.1

Q ss_pred             HHHHHhc-CCceEEEEEcCCCCcHHHHHH-HHHhhccCCCCCCC-eEEEEEeCCcC-CHHHHHHHHHHHhccC----CCC
Q 043737           74 VWRCLME-EQMGIVGLYGMGEVGKTTLLT-QINKKFLHTPNDFD-FVIWVVASKDL-QLEQIQGSIAKKINLF----NES  145 (371)
Q Consensus        74 l~~~L~~-~~~~~v~I~G~~GiGKTtLa~-~~~~~~~~~~~~f~-~~~wv~~~~~~-~~~~~~~~l~~~l~~~----~~~  145 (371)
                      .++.|.. .+...++|.|.+|+|||+||. .+++..     ..+ .++++-++... .+.++.+.+...=...    .-.
T Consensus       165 aID~l~PigrGQR~~I~g~~g~GKT~Lal~~I~~~~-----~~dv~~V~~~IGeR~~Ev~e~~~~~~~~g~m~rtvvV~a  239 (515)
T 2r9v_A          165 AIDSMIPIGRGQRELIIGDRQTGKTAIAIDTIINQK-----GQGVYCIYVAIGQKKSAIARIIDKLRQYGAMEYTTVVVA  239 (515)
T ss_dssp             HHHHHSCEETTCBEEEEEETTSSHHHHHHHHHHTTT-----TTTEEEEEEEESCCHHHHHHHHHHHHHTTGGGGEEEEEE
T ss_pred             ccccccccccCCEEEEEcCCCCCccHHHHHHHHHhh-----cCCcEEEEEEcCCCcHHHHHHHHHHHhCCCcceeEEEEE
Confidence            3455543 345588999999999999965 555543     234 34666666543 4566666665421110    000


Q ss_pred             CCcCCHHHH------HHHHHHHh--CCCceEEEEeCCC
Q 043737          146 WNSRSLQEK------SQDIVKNM--SNKKFVLLLDHIW  175 (371)
Q Consensus       146 ~~~~~~~~~------~~~l~~~l--~~~~~LlVlDdv~  175 (371)
                      .....+...      .-.+.+++  +++.+|+++||+.
T Consensus       240 tad~p~~~r~~a~~~a~tiAEyfrd~G~dVLli~DslT  277 (515)
T 2r9v_A          240 SASDPASLQYIAPYAGCAMGEYFAYSGRDALVVYDDLS  277 (515)
T ss_dssp             CTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEETHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEeccHH
Confidence            012221111      11223333  4789999999985

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=94.93  E-value=0.013  Score=51.15  Aligned_cols=26  Identities=27%  Similarity=0.434  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||++.++.-.
T Consensus        33 ~Ge~~~iiGpnGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           33 RGEVTAILGGNGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            44699999999999999999887654

>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=94.93  E-value=0.014  Score=47.92  Aligned_cols=24  Identities=33%  Similarity=0.371  Sum_probs=21.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..|+|.|+.|+|||||+..++...
T Consensus         6 ~kv~lvG~~g~GKSTLl~~l~~~~   29 (199)
T 2f9l_A            6 FKVVLIGDSGVGKSNLLSRFTRNE   29 (199)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECcCCCCHHHHHHHHhcCC
Confidence            468899999999999999998764

>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=94.91  E-value=0.016  Score=52.87  Aligned_cols=27  Identities=22%  Similarity=0.105  Sum_probs=23.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .....++|+|++|+|||||++.++...
T Consensus       167 ~~~~~i~l~G~~GsGKSTl~~~l~~~~  193 (377)
T 1svm_A          167 PKKRYWLFKGPIDSGKTTLAAALLELC  193 (377)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            355799999999999999999998765

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=94.90  E-value=0.015  Score=50.36  Aligned_cols=27  Identities=26%  Similarity=0.256  Sum_probs=23.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....+++|.|+.|+|||||++.++.-.
T Consensus        48 ~~Gei~~liG~NGsGKSTLlk~l~Gl~   74 (263)
T 2olj_A           48 REGEVVVVIGPSGSGKSTFLRCLNLLE   74 (263)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEEcCCCCcHHHHHHHHHcCC
Confidence            345699999999999999999987654

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=94.87  E-value=0.018  Score=48.97  Aligned_cols=26  Identities=27%  Similarity=0.373  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+|+|.|+.|+||||+++.++..+
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            45689999999999999999998876

>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=94.87  E-value=0.016  Score=49.88  Aligned_cols=25  Identities=24%  Similarity=0.268  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      ...+++|.|+.|+|||||++.++.-
T Consensus        28 ~Ge~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           28 KGEVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4459999999999999999999874

>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=94.86  E-value=0.011  Score=51.23  Aligned_cols=26  Identities=15%  Similarity=0.294  Sum_probs=23.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +...|+|.|..|+||||+++.+++.+
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            45799999999999999999998876

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=94.85  E-value=0.014  Score=49.80  Aligned_cols=26  Identities=38%  Similarity=0.406  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||.+.++.-.
T Consensus        31 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   56 (240)
T 1ji0_A           31 RGQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            44699999999999999999887654

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=94.85  E-value=0.017  Score=50.09  Aligned_cols=25  Identities=20%  Similarity=0.307  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      ...+++|.|+.|+|||||++.++.-
T Consensus        45 ~Ge~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           45 PGEVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4569999999999999999998875

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=94.84  E-value=0.014  Score=50.36  Aligned_cols=26  Identities=23%  Similarity=0.301  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||.+.++.-.
T Consensus        32 ~Ge~~~liG~nGsGKSTLlk~l~Gl~   57 (257)
T 1g6h_A           32 KGDVTLIIGPNGSGKSTLINVITGFL   57 (257)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            44699999999999999999987654

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=94.83  E-value=0.015  Score=49.18  Aligned_cols=26  Identities=27%  Similarity=0.376  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||.+.++.-.
T Consensus        33 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           33 RGQLLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            44699999999999999999987765

>3gqb_B V-type ATP synthase beta chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_D* 3a5d_D 3j0j_D*

Probab=94.83  E-value=0.024  Score=52.58  Aligned_cols=101  Identities=8%  Similarity=0.168  Sum_probs=55.2

Q ss_pred             HHHHhc-CCceEEEEEcCCCCcHHHHHHHHHhhccCCC-------CCCC-eEEEEEeCCc-CCHHHHHHHHHHH--hc--
Q 043737           75 WRCLME-EQMGIVGLYGMGEVGKTTLLTQINKKFLHTP-------NDFD-FVIWVVASKD-LQLEQIQGSIAKK--IN--  140 (371)
Q Consensus        75 ~~~L~~-~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~-------~~f~-~~~wv~~~~~-~~~~~~~~~l~~~--l~--  140 (371)
                      ++.|.. .+...++|.|.+|+|||+|+.++++......       ++-+ .++++-++.. ....++.+.+...  +.  
T Consensus       138 ID~l~pigrGQr~~Ifgg~G~GKt~L~~~Ia~~~~a~~~~~~~~~d~~~~~~V~~~iGeR~~Ev~e~~~~l~~~g~~~rt  217 (464)
T 3gqb_B          138 IDVMNTLVRGQKLPIFSGSGLPANEIAAQIARQATVRPDLSGEGEKEEPFAVVFAAMGITQRELSYFIQEFERTGALSRS  217 (464)
T ss_dssp             HHTTSCCBTTCBCCEEEETTSCHHHHHHHHHHHCBCCHHHHCCCSTTCCEEEEEEEEEECHHHHHHHHHHHHHTSGGGGE
T ss_pred             eecccccccCCEEEEecCCCCCchHHHHHHHHHHHhcccccccccCCCceEEEEEEecCchHHHHHHHHHhhhcccccce
Confidence            444433 3345678899999999999999988862110       1222 5666666543 3455666665442  11  


Q ss_pred             -cCCCCCCcCCHHHH-----HHHHHHHh---CCCceEEEEeCCC
Q 043737          141 -LFNESWNSRSLQEK-----SQDIVKNM---SNKKFVLLLDHIW  175 (371)
Q Consensus       141 -~~~~~~~~~~~~~~-----~~~l~~~l---~~~~~LlVlDdv~  175 (371)
                       .-............     .-.+.+++   .++.+|+++||+.
T Consensus       218 vvv~~t~d~p~~~r~~~~~~a~tiAEyfrd~~G~~VLl~~DdlT  261 (464)
T 3gqb_B          218 VLFLNKADDPTIERILTPRMALTVAEYLAFEHDYHVLVILTDMT  261 (464)
T ss_dssp             EEEEEETTSCTHHHHHHHHHHHHHHHHHHHTTCCEEEEEEETHH
T ss_pred             EEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEcChH
Confidence             00000011122211     22233443   3789999999985

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=94.80  E-value=0.015  Score=49.91  Aligned_cols=26  Identities=31%  Similarity=0.521  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||++.++.-.
T Consensus        34 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   59 (247)
T 2ff7_A           34 QGEVIGIVGRSGSGKSTLTKLIQRFY   59 (247)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            44699999999999999999987664

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=94.80  E-value=0.019  Score=52.08  Aligned_cols=25  Identities=24%  Similarity=0.426  Sum_probs=23.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+++|+|+.|+||||++..++...
T Consensus       157 g~vi~lvG~nGsGKTTll~~Lag~l  181 (359)
T 2og2_A          157 PAVIMIVGVNGGGKTTSLGKLAHRL  181 (359)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCChHHHHHHHHHhhc
Confidence            4699999999999999999999887

>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=94.80  E-value=0.024  Score=49.69  Aligned_cols=40  Identities=23%  Similarity=0.282  Sum_probs=29.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKD  125 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~  125 (371)
                      .++|+|.|-||+||||+|..++..+.+   .-..++.+++...
T Consensus         2 MkvIavs~KGGvGKTT~a~nLA~~La~---~G~rVlliD~D~q   41 (289)
T 2afh_E            2 MRQCAIYGKGGIGKSTTTQNLVAALAE---MGKKVMIVGCDPK   41 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHHH---TTCCEEEEEECSS
T ss_pred             ceEEEEeCCCcCcHHHHHHHHHHHHHH---CCCeEEEEecCCC
Confidence            367888999999999999999988842   2235677776543

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=94.80  E-value=0.017  Score=50.02  Aligned_cols=26  Identities=19%  Similarity=0.266  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||++.++.-.
T Consensus        45 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   70 (260)
T 2ghi_A           45 SGTTCALVGHTGSGKSTIAKLLYRFY   70 (260)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccC
Confidence            45699999999999999999987654

>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=94.79  E-value=0.017  Score=45.40  Aligned_cols=23  Identities=30%  Similarity=0.452  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .|++.|.+|+|||||+..+....
T Consensus         5 ~i~v~G~~~~GKssl~~~l~~~~   27 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            58899999999999999998764

>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=94.78  E-value=0.025  Score=54.73  Aligned_cols=26  Identities=19%  Similarity=0.152  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+|.|.|++|+||||+|+.+.+.+
T Consensus       395 ~~~~I~l~GlsGSGKSTiA~~La~~L  420 (573)
T 1m8p_A          395 QGFTIFLTGYMNSGKDAIARALQVTL  420 (573)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cceEEEeecCCCCCHHHHHHHHHHHh
Confidence            34689999999999999999999887

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=94.78  E-value=0.017  Score=49.84  Aligned_cols=26  Identities=38%  Similarity=0.445  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||++.++.-.
T Consensus        40 ~Gei~~l~G~NGsGKSTLlk~l~Gl~   65 (256)
T 1vpl_A           40 EGEIFGLIGPNGAGKTTTLRIISTLI   65 (256)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            45699999999999999999987654

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=94.78  E-value=0.013  Score=49.01  Aligned_cols=26  Identities=35%  Similarity=0.511  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||++.++.-.
T Consensus        34 ~Ge~~~iiG~NGsGKSTLlk~l~Gl~   59 (214)
T 1sgw_A           34 KGNVVNFHGPNGIGKTTLLKTISTYL   59 (214)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            44589999999999999999987654

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=94.77  E-value=0.02  Score=46.30  Aligned_cols=24  Identities=25%  Similarity=0.393  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      ...|+|.|.+|+|||||+..+...
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            357899999999999999999874

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=94.76  E-value=0.086  Score=49.48  Aligned_cols=97  Identities=13%  Similarity=0.117  Sum_probs=54.1

Q ss_pred             HHHHHhc-CCceEEEEEcCCCCcHHHHHH-HHHhhccCCCCCCC-eEEEEEeCCcC-CHHHHHHHHHHHhccCC----CC
Q 043737           74 VWRCLME-EQMGIVGLYGMGEVGKTTLLT-QINKKFLHTPNDFD-FVIWVVASKDL-QLEQIQGSIAKKINLFN----ES  145 (371)
Q Consensus        74 l~~~L~~-~~~~~v~I~G~~GiGKTtLa~-~~~~~~~~~~~~f~-~~~wv~~~~~~-~~~~~~~~l~~~l~~~~----~~  145 (371)
                      .++.|.. .+...++|.|.+|+|||+||. .+++..     ..+ .++++-++... ...++.+.+...=....    -.
T Consensus       152 aID~l~PigrGQR~~Ifg~~g~GKT~Lal~~I~~~~-----~~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~m~~tvvV~a  226 (502)
T 2qe7_A          152 AIDSMIPIGRGQRELIIGDRQTGKTTIAIDTIINQK-----GQDVICIYVAIGQKQSTVAGVVETLRQHDALDYTIVVTA  226 (502)
T ss_dssp             HHHHSSCCBTTCBCEEEECSSSCHHHHHHHHHHGGG-----SCSEEEEEEEESCCHHHHHHHHHHHHHTTCSTTEEEEEE
T ss_pred             ecccccccccCCEEEEECCCCCCchHHHHHHHHHhh-----cCCcEEEEEECCCcchHHHHHHHHHhhCCCcceeEEEEE
Confidence            3455543 345578899999999999965 565554     234 34666666543 45566666654211100    00


Q ss_pred             CCcCCHHHH------HHHHHHHh--CCCceEEEEeCCC
Q 043737          146 WNSRSLQEK------SQDIVKNM--SNKKFVLLLDHIW  175 (371)
Q Consensus       146 ~~~~~~~~~------~~~l~~~l--~~~~~LlVlDdv~  175 (371)
                      .....+...      .-.+.+++  +++.+|+++||+.
T Consensus       227 tad~p~~~r~~a~~~a~tiAEyfrd~G~dVLl~~Dslt  264 (502)
T 2qe7_A          227 SASEPAPLLYLAPYAGCAMGEYFMYKGKHALVVYDDLS  264 (502)
T ss_dssp             CTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEECHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEecHH
Confidence            012222211      11223333  4789999999984

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=94.74  E-value=0.017  Score=50.23  Aligned_cols=27  Identities=19%  Similarity=0.279  Sum_probs=23.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....+++|.|+.|+|||||++.++.-.
T Consensus        43 ~~Ge~~~i~G~nGsGKSTLlk~l~Gl~   69 (271)
T 2ixe_A           43 YPGKVTALVGPNGSGKSTVAALLQNLY   69 (271)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            345699999999999999999987664

>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus fulgidus} SCOP: c.37.1.19

Probab=94.73  E-value=0.15  Score=43.21  Aligned_cols=40  Identities=13%  Similarity=-0.069  Sum_probs=27.6

Q ss_pred             ccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           65 VGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        65 vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      --|+...+-+..++ +..  .+.|+|+.|.|||.+|..++...
T Consensus        93 ~l~~~Q~~ai~~~~-~~~--~~ll~~~tG~GKT~~a~~~~~~~  132 (237)
T 2fz4_A           93 SLRDYQEKALERWL-VDK--RGCIVLPTGSGKTHVAMAAINEL  132 (237)
T ss_dssp             CCCHHHHHHHHHHT-TTS--EEEEEESSSTTHHHHHHHHHHHS
T ss_pred             CcCHHHHHHHHHHH-hCC--CEEEEeCCCCCHHHHHHHHHHHc
Confidence            33445544444444 332  38889999999999999888765

>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=94.71  E-value=0.027  Score=51.99  Aligned_cols=26  Identities=15%  Similarity=0.167  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||.+.++...
T Consensus        68 ~~~~valvG~nGaGKSTLln~L~Gl~   93 (413)
T 1tq4_A           68 SVLNVAVTGETGSGKSSFINTLRGIG   93 (413)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHTCC
T ss_pred             CCeEEEEECCCCCcHHHHHHHHhCCC
Confidence            45699999999999999999998743

>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=94.71  E-value=0.018  Score=45.46  Aligned_cols=25  Identities=24%  Similarity=0.356  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .-.|+|.|.+|+|||||+..+....
T Consensus         5 ~~~i~v~G~~~~GKssl~~~l~~~~   29 (168)
T 1z2a_A            5 AIKMVVVGNGAVGKSSMIQRYCKGI   29 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCC
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcCC
Confidence            3468899999999999999998764

>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=94.69  E-value=0.021  Score=49.02  Aligned_cols=26  Identities=31%  Similarity=0.361  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||++.++.-.
T Consensus        25 ~Ge~~~liG~NGsGKSTLlk~l~Gl~   50 (249)
T 2qi9_C           25 AGEILHLVGPNGAGKSTLLARMAGMT   50 (249)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            44589999999999999999987665

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=94.66  E-value=0.019  Score=49.88  Aligned_cols=26  Identities=23%  Similarity=0.198  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||++.++.-.
T Consensus        32 ~Ge~~~liG~nGsGKSTLl~~i~Gl~   57 (266)
T 2yz2_A           32 EGECLLVAGNTGSGKSTLLQIVAGLI   57 (266)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            45699999999999999999987654

>2c61_A A-type ATP synthase non-catalytic subunit B; hydrolase, H+ ATPase, A1AO, ATP synthesis, hydrogen ION transport, ION transport; 1.5A {Methanosarcina mazei GO1} PDB: 3dsr_A* 3b2q_A* 2rkw_A* 3eiu_A*

Probab=94.63  E-value=0.047  Score=50.95  Aligned_cols=101  Identities=8%  Similarity=0.014  Sum_probs=56.5

Q ss_pred             HHHHhc-CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCC-CCeEEEEEeCCcC-CHHHHHHHHHHHhccC----CCCCC
Q 043737           75 WRCLME-EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPND-FDFVIWVVASKDL-QLEQIQGSIAKKINLF----NESWN  147 (371)
Q Consensus        75 ~~~L~~-~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~-f~~~~wv~~~~~~-~~~~~~~~l~~~l~~~----~~~~~  147 (371)
                      ++.|.. .+...++|.|.+|+|||+|+.++++.....+.. -+.++++-++... ...++.+++...=...    .-...
T Consensus       143 ID~l~pigrGQr~~Ifgg~G~GKt~Ll~~Ia~~~~~n~~~~~~~~V~~~iGER~~Ev~e~~~~~~~~g~m~rtvvV~~ts  222 (469)
T 2c61_A          143 IDGTNTLVRGQKLPIFSASGLPHNEIALQIARQASVPGSESAFAVVFAAMGITNEEAQYFMSDFEKTGALERAVVFLNLA  222 (469)
T ss_dssp             HHTTSCCBTTCBCCEEECTTSCHHHHHHHHHHHCBCTTCSSCEEEEEEEEEECHHHHHHHHHHHHHHSGGGGEEEEEEET
T ss_pred             eeeeeccccCCEEEEECCCCCCHHHHHHHHHHHHhhccCCCCcEEEEEEccCCcHHHHHHHHHHHhccCccceEEEEECC
Confidence            444433 334567788999999999999999887321211 2356666665443 4566666665431110    00001


Q ss_pred             cCCHHH------HHHHHHHHh---CCCceEEEEeCCC
Q 043737          148 SRSLQE------KSQDIVKNM---SNKKFVLLLDHIW  175 (371)
Q Consensus       148 ~~~~~~------~~~~l~~~l---~~~~~LlVlDdv~  175 (371)
                      ...+..      ..-.+.+++   +++.+|+++||+.
T Consensus       223 d~p~~~r~~~~~~a~tiAEyfrdd~G~dVLl~~Dslt  259 (469)
T 2c61_A          223 DDPAVERIVTPRMALTAAEYLAYEHGMHVLVILTDIT  259 (469)
T ss_dssp             TSCHHHHHHHHHHHHHHHHHHHHHHCCEEEEEEECHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEeCHH
Confidence            222221      122223333   3789999999974

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=94.61  E-value=0.026  Score=47.65  Aligned_cols=26  Identities=23%  Similarity=0.339  Sum_probs=20.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....|+|.|+.|+||||+++.+++.+
T Consensus        24 ~g~~I~~eG~~GsGKsT~~~~l~~~l   49 (227)
T 3v9p_A           24 RGKFITFEGIDGAGKTTHLQWFCDRL   49 (227)
T ss_dssp             CCCEEEEECCC---CHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            34689999999999999999999887

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=94.60  E-value=0.022  Score=48.53  Aligned_cols=49  Identities=20%  Similarity=0.097  Sum_probs=31.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGS  134 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  134 (371)
                      ...++.|.|.+|+|||+||.+++....  ......+++++...  +...+...
T Consensus        29 ~G~l~~i~G~pG~GKT~l~l~~~~~~~--~~~~~~v~~~s~E~--~~~~~~~~   77 (251)
T 2zts_A           29 EGTTVLLTGGTGTGKTTFAAQFIYKGA--EEYGEPGVFVTLEE--RARDLRRE   77 (251)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHHHHH--HHHCCCEEEEESSS--CHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHH--HhcCCCceeecccC--CHHHHHHH
Confidence            346999999999999999999775531  11223466666543  34444443

>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=94.60  E-value=0.018  Score=48.81  Aligned_cols=25  Identities=36%  Similarity=0.204  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      ...+|+|.|+.|+|||||++.++..
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            4569999999999999999988765

>3zq6_A Putative arsenical pump-driving ATPase; tail-anchored, membrane protein; HET: ADP; 2.11A {Methanothermobacter thermautotrophicusorganism_taxid}

Probab=94.60  E-value=0.038  Score=49.38  Aligned_cols=46  Identities=20%  Similarity=0.130  Sum_probs=33.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHH
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQI  131 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~  131 (371)
                      ..+++..|-||+||||+|..++..+.+   .-..++-++.....+....
T Consensus        14 ~~i~v~sgKGGvGKTTvA~~LA~~lA~---~G~rVLlvD~D~~~~l~~~   59 (324)
T 3zq6_A           14 TTFVFIGGKGGVGKTTISAATALWMAR---SGKKTLVISTDPAHSLSDS   59 (324)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHHH---TTCCEEEEECCSSCCHHHH
T ss_pred             eEEEEEeCCCCchHHHHHHHHHHHHHH---CCCcEEEEeCCCCcCHHHH
Confidence            467788899999999999999888732   2335677776655444433

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=94.60  E-value=0.024  Score=45.27  Aligned_cols=26  Identities=35%  Similarity=0.418  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +...|+|.|.+|+|||||+..+....
T Consensus         7 ~~~~i~v~G~~~~GKssl~~~l~~~~   32 (178)
T 2lkc_A            7 RPPVVTIMGHVDHGKTTLLDAIRHSK   32 (178)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHTTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            45688999999999999999997653

>3vr4_A V-type sodium ATPase catalytic subunit A; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_A* 3vr2_A* 3vr5_A 3vr6_A*

Probab=94.58  E-value=0.11  Score=49.61  Aligned_cols=57  Identities=23%  Similarity=0.295  Sum_probs=39.4

Q ss_pred             HHHHHhc-CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCc-CCHHHHHHHH
Q 043737           74 VWRCLME-EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKD-LQLEQIQGSI  135 (371)
Q Consensus        74 l~~~L~~-~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~l  135 (371)
                      .++.|.. .+...++|.|.+|+|||+|+.++++..     +-+.++++-++.. ....++++++
T Consensus       222 vID~l~PigrGqr~~Ifgg~g~GKT~L~~~ia~~~-----~~~v~V~~~iGER~~Ev~e~~~~~  280 (600)
T 3vr4_A          222 VIDTFFPVTKGGAAAVPGPFGAGKTVVQHQIAKWS-----DVDLVVYVGCGERGNEMTDVVNEF  280 (600)
T ss_dssp             HHHHHSCCBTTCEEEEECCTTSCHHHHHHHHHHHS-----SCSEEEEEEEEECHHHHHHHHHHT
T ss_pred             hhhccCCccCCCEEeeecCCCccHHHHHHHHHhcc-----CCCEEEEEEecccHHHHHHHHHHH
Confidence            4555544 345689999999999999999998875     2256777777654 2344555443

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=94.57  E-value=0.018  Score=49.57  Aligned_cols=26  Identities=27%  Similarity=0.362  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||.+.++.-.
T Consensus        30 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           30 KGDILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             TTCEEEEECCSSSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            44589999999999999999987665

>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=94.56  E-value=0.018  Score=45.82  Aligned_cols=25  Identities=36%  Similarity=0.292  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .--|+|.|.+|+|||||+..+....
T Consensus         4 ~~ki~i~G~~~vGKSsl~~~l~~~~   28 (175)
T 2nzj_A            4 LYRVVLLGDPGVGKTSLASLFAGKQ   28 (175)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHCC-
T ss_pred             EEEEEEECCCCccHHHHHHHHhcCC
Confidence            3468999999999999999987654

>1fx0_A ATP synthase alpha chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_A*

Probab=94.53  E-value=0.06  Score=50.62  Aligned_cols=87  Identities=10%  Similarity=0.119  Sum_probs=48.5

Q ss_pred             CceEEEEEcCCCCcHHHHHH-HHHhhccCCCCCCC-eEEEEEeCCcC-CHHHHHHHHHHHhcc-------C--CC-CCCc
Q 043737           82 QMGIVGLYGMGEVGKTTLLT-QINKKFLHTPNDFD-FVIWVVASKDL-QLEQIQGSIAKKINL-------F--NE-SWNS  148 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~-~~~~~~~~~~~~f~-~~~wv~~~~~~-~~~~~~~~l~~~l~~-------~--~~-~~~~  148 (371)
                      +...++|.|.+|+|||+||. .+++..   .  .+ .++++-++... ...++.+.+...=..       .  .. ....
T Consensus       162 rGQR~~Ifg~~g~GKT~Lal~~I~~~~---~--~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~m~rtvvV~atad~p~~~r  236 (507)
T 1fx0_A          162 RGQRELIIGDRQTGKTAVATDTILNQQ---G--QNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQ  236 (507)
T ss_dssp             TTCBCBEEESSSSSHHHHHHHHHHTCC---T--TTCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGT
T ss_pred             cCCEEEEecCCCCCccHHHHHHHHHhh---c--CCcEEEEEEcCCCchHHHHHHHHHHhcCccccceEEEECCCCCHHHH
Confidence            34578899999999999965 555543   2  34 45666666543 345555555432100       0  00 0001


Q ss_pred             CCHH----HHHHHHHHHhCCCceEEEEeCCC
Q 043737          149 RSLQ----EKSQDIVKNMSNKKFVLLLDHIW  175 (371)
Q Consensus       149 ~~~~----~~~~~l~~~l~~~~~LlVlDdv~  175 (371)
                      ....    ...+.++.  +++.+|+++||+.
T Consensus       237 ~~a~~~a~tiAEyfrd--~G~dVLli~Dslt  265 (507)
T 1fx0_A          237 YLAPYTGAALAEYFMY--RERHTLIIYDDLS  265 (507)
T ss_dssp             THHHHHHHHHHHHHHH--TTCEEEEEEECHH
T ss_pred             HHHHHHHHHHHHHHHH--cCCcEEEEEecHH
Confidence            1111    12333333  5899999999974

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=94.52  E-value=0.019  Score=50.25  Aligned_cols=26  Identities=38%  Similarity=0.404  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||++.++.-.
T Consensus        46 ~Ge~~~liG~NGsGKSTLlk~l~Gl~   71 (279)
T 2ihy_A           46 KGDKWILYGLNGAGKTTLLNILNAYE   71 (279)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            45689999999999999999987664

>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=94.52  E-value=0.024  Score=45.80  Aligned_cols=25  Identities=40%  Similarity=0.502  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      ....|+|.|.+|+|||||...+...
T Consensus        15 ~~~ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A           15 QEVRILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcC
Confidence            4567899999999999999998755

>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=94.50  E-value=0.022  Score=45.92  Aligned_cols=24  Identities=33%  Similarity=0.408  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      .-.|+|.|.+|+|||||...+...
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            457889999999999999999865

>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=94.49  E-value=0.022  Score=44.85  Aligned_cols=24  Identities=33%  Similarity=0.290  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .-|+|.|.+|+|||||+..+....
T Consensus         5 ~~i~v~G~~~~GKssl~~~l~~~~   28 (168)
T 1u8z_A            5 HKVIMVGSGGVGKSALTLQFMYDE   28 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCc
Confidence            468899999999999999998764

>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=94.48  E-value=0.026  Score=46.97  Aligned_cols=27  Identities=26%  Similarity=0.251  Sum_probs=23.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .....|+|.|++|+|||||+..+....
T Consensus        10 ~~~~~i~~~G~~g~GKTsl~~~l~~~~   36 (218)
T 1nrj_B           10 SYQPSIIIAGPQNSGKTSLLTLLTTDS   36 (218)
T ss_dssp             CCCCEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            345688999999999999999998765

>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=94.47  E-value=0.022  Score=44.78  Aligned_cols=24  Identities=33%  Similarity=0.322  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      --|+|.|.+|+|||||+..+....
T Consensus         4 ~~i~v~G~~~~GKSsli~~l~~~~   27 (167)
T 1kao_A            4 YKVVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCC
Confidence            358899999999999999988664

>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=94.44  E-value=0.023  Score=45.71  Aligned_cols=26  Identities=23%  Similarity=0.327  Sum_probs=22.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhh
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      .....|+|.|.+|+|||||+..+...
T Consensus        16 ~~~~~i~v~G~~~~GKssli~~l~~~   41 (183)
T 1moz_A           16 NKELRILILGLDGAGKTTILYRLQIG   41 (183)
T ss_dssp             SSCEEEEEEEETTSSHHHHHHHTCCS
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcC
Confidence            45678899999999999999988743

>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=94.44  E-value=0.023  Score=45.03  Aligned_cols=25  Identities=36%  Similarity=0.308  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .--|+|.|.+|+|||||+..+....
T Consensus         6 ~~~i~v~G~~~~GKssli~~l~~~~   30 (170)
T 1z08_A            6 SFKVVLLGEGCVGKTSLVLRYCENK   30 (170)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHCC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcCC
Confidence            3468899999999999999998664

>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=94.44  E-value=0.023  Score=44.89  Aligned_cols=23  Identities=22%  Similarity=0.316  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -|+|.|.+|+|||||+..+....
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~~   27 (170)
T 1ek0_A            5 KLVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            57899999999999999998664

>2ck3_A ATP synthase subunit alpha\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1bmf_A* 1e1q_A* 1e1r_A* 1e79_A* 1h8h_A* 1nbm_A* 1ohh_A* 1qo1_A 1w0j_A* 1w0k_A* 1h8e_A* 2jdi_A* 2wss_A* 2w6j_A 2w6e_A 2w6g_A 2w6f_A 2w6h_A 2w6i_A 1cow_A* ...

Probab=94.43  E-value=0.054  Score=50.97  Aligned_cols=103  Identities=13%  Similarity=0.130  Sum_probs=55.7

Q ss_pred             HHHHHhc-CCceEEEEEcCCCCcHHHHHH-HHHhhccC---CCCCCC-eEEEEEeCCcC-CHHHHHHHHHHHhccC----
Q 043737           74 VWRCLME-EQMGIVGLYGMGEVGKTTLLT-QINKKFLH---TPNDFD-FVIWVVASKDL-QLEQIQGSIAKKINLF----  142 (371)
Q Consensus        74 l~~~L~~-~~~~~v~I~G~~GiGKTtLa~-~~~~~~~~---~~~~f~-~~~wv~~~~~~-~~~~~~~~l~~~l~~~----  142 (371)
                      .++.|.. .+...++|.|.+|+|||+||. .+++....   ...+.+ .++++-++... .+.++.+.+...=...    
T Consensus       152 aID~l~PigrGQR~~I~g~~g~GKT~Lal~~I~~q~~~~~~~~~~~d~~~V~~~IGeR~~Ev~~~~~~~~~~g~m~~tvv  231 (510)
T 2ck3_A          152 AVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIV  231 (510)
T ss_dssp             HHHHHSCCBTTCBCEEEESTTSSHHHHHHHHHHHTHHHHTSCCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTCGGGEEE
T ss_pred             eeccccccccCCEEEEecCCCCCchHHHHHHHHHHHhhccccccCCCeEEEEEECCCCcHHHHHHHHHHHhcCCcccceE
Confidence            3455543 345578899999999999954 55555410   012233 46677776543 4566666665421110    


Q ss_pred             CCCCCcCCHHHH------HHHHHHHh--CCCceEEEEeCCCC
Q 043737          143 NESWNSRSLQEK------SQDIVKNM--SNKKFVLLLDHIWE  176 (371)
Q Consensus       143 ~~~~~~~~~~~~------~~~l~~~l--~~~~~LlVlDdv~~  176 (371)
                      .-......+...      .-.+.+++  .++.+|+++||+..
T Consensus       232 V~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLli~Dsltr  273 (510)
T 2ck3_A          232 VSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSK  273 (510)
T ss_dssp             EEECTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEETHHH
T ss_pred             EEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEcCHHH
Confidence            000011221111      11222333  47899999999853

>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=94.43  E-value=0.035  Score=49.11  Aligned_cols=33  Identities=27%  Similarity=0.314  Sum_probs=25.8

Q ss_pred             HHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           71 FDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        71 ~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +++|.+.+   ...+++|.|+.|+|||||++.+. ..
T Consensus       156 i~~L~~~l---~G~i~~l~G~sG~GKSTLln~l~-~~  188 (302)
T 2yv5_A          156 IDELVDYL---EGFICILAGPSGVGKSSILSRLT-GE  188 (302)
T ss_dssp             HHHHHHHT---TTCEEEEECSTTSSHHHHHHHHH-SC
T ss_pred             HHHHHhhc---cCcEEEEECCCCCCHHHHHHHHH-Hh
Confidence            45555554   24589999999999999999998 54

>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=94.43  E-value=0.022  Score=46.15  Aligned_cols=24  Identities=29%  Similarity=0.378  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -.|+|.|.+|+|||||+..+....
T Consensus        22 ~ki~vvG~~~~GKSsli~~l~~~~   45 (190)
T 3con_A           22 YKLVVVGAGGVGKSALTIQLIQNH   45 (190)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            468899999999999999998764

>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=94.43  E-value=0.023  Score=46.54  Aligned_cols=26  Identities=19%  Similarity=0.298  Sum_probs=20.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...-|+|.|.+|+|||||+..+.+..
T Consensus        19 ~~~ki~~vG~~~vGKTsLi~~l~~~~   44 (196)
T 3llu_A           19 SKPRILLMGLRRSGKSSIQKVVFHKM   44 (196)
T ss_dssp             -CCEEEEEESTTSSHHHHHHHHHSCC
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhcC
Confidence            34578899999999999998776653

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=94.43  E-value=0.023  Score=49.36  Aligned_cols=23  Identities=26%  Similarity=0.364  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .++|.|+.|+|||||.+.++...
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            57899999999999999988765

>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=94.41  E-value=0.046  Score=45.35  Aligned_cols=24  Identities=21%  Similarity=0.459  Sum_probs=22.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..|+|-|..|+||||+++.+.+.+
T Consensus         3 kFI~~EG~dGsGKsTq~~~L~~~L   26 (205)
T 4hlc_A            3 AFITFEGPEGSGKTTVINEVYHRL   26 (205)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHH
Confidence            578999999999999999999998

>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=94.40  E-value=0.024  Score=44.57  Aligned_cols=23  Identities=26%  Similarity=0.368  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -|+|.|.+|+|||||+..+....
T Consensus         2 ki~~~G~~~~GKssl~~~l~~~~   24 (164)
T 1r8s_A            2 RILMVGLDAAGKTTILYKLKLGE   24 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            37899999999999999997654

>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=94.39  E-value=0.024  Score=44.87  Aligned_cols=24  Identities=25%  Similarity=0.253  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      --|+|.|.+|+|||||+..+....
T Consensus         7 ~~i~v~G~~~~GKSsli~~l~~~~   30 (170)
T 1z0j_A            7 LKVCLLGDTGVGKSSIMWRFVEDS   30 (170)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            368899999999999999998764

>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=94.39  E-value=0.023  Score=45.91  Aligned_cols=25  Identities=28%  Similarity=0.313  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .--|+|.|.+|+|||||+..+....
T Consensus         7 ~~ki~v~G~~~vGKSsli~~l~~~~   31 (184)
T 1m7b_A            7 KCKIVVVGDSQCGKTALLHVFAKDC   31 (184)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEEEECCCCCCHHHHHHHHhcCC
Confidence            3468899999999999999998764

>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=94.39  E-value=0.025  Score=51.14  Aligned_cols=26  Identities=31%  Similarity=0.234  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||.+.++.-.
T Consensus        29 ~Ge~~~llGpsGsGKSTLLr~iaGl~   54 (359)
T 3fvq_A           29 PGEILFIIGASGCGKTTLLRCLAGFE   54 (359)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCchHHHHHHHHhcCC
Confidence            45699999999999999999988654

>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=94.37  E-value=0.023  Score=45.53  Aligned_cols=24  Identities=25%  Similarity=0.289  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..|+|.|.+|+|||||...+....
T Consensus         5 ~ki~ivG~~g~GKStLl~~l~~~~   28 (172)
T 2gj8_A            5 MKVVIAGRPNAGKSSLLNALAGRE   28 (172)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            468899999999999999998753

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=94.36  E-value=0.052  Score=49.05  Aligned_cols=25  Identities=32%  Similarity=0.370  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+|+|.|++|+|||||...+....
T Consensus        74 ~~~v~lvG~pgaGKSTLln~L~~~~   98 (349)
T 2www_A           74 AFRVGLSGPPGAGKSTFIEYFGKML   98 (349)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHh
Confidence            6799999999999999999998764

>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=94.36  E-value=0.024  Score=45.41  Aligned_cols=26  Identities=27%  Similarity=0.282  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....|+|.|.+|+|||||+..+....
T Consensus         7 ~~~~i~v~G~~~~GKSsli~~l~~~~   32 (182)
T 1ky3_A            7 NILKVIILGDSGVGKTSLMHRYVNDK   32 (182)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhCc
Confidence            44578999999999999999988764

>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=94.36  E-value=0.019  Score=46.70  Aligned_cols=25  Identities=24%  Similarity=0.292  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .-.|+|.|.+|+|||||+..+....
T Consensus        21 ~~ki~v~G~~~~GKSsli~~l~~~~   45 (190)
T 2h57_A           21 EVHVLCLGLDNSGKTTIINKLKPSN   45 (190)
T ss_dssp             CEEEEEEECTTSSHHHHHHHTSCGG
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcCC
Confidence            4578899999999999999987664

>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=94.35  E-value=0.024  Score=45.97  Aligned_cols=25  Identities=24%  Similarity=0.194  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .--|+|.|.+|+|||||+..+....
T Consensus        20 ~~ki~ivG~~~vGKSsL~~~~~~~~   44 (184)
T 3ihw_A           20 ELKVGIVGNLSSGKSALVHRYLTGT   44 (184)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHSS
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcCC
Confidence            4578899999999999999887764

>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=94.35  E-value=0.021  Score=51.02  Aligned_cols=26  Identities=35%  Similarity=0.397  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..++++|+|+.|+|||||++.+....
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            45799999999999999999998653

>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=94.35  E-value=0.041  Score=49.79  Aligned_cols=40  Identities=23%  Similarity=0.143  Sum_probs=28.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCC
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASK  124 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~  124 (371)
                      ...+++..|-||+||||+|..++..+...   -..++-++...
T Consensus        25 ~~~i~v~sgKGGvGKTTvA~~LA~~lA~~---G~rVLlvD~D~   64 (349)
T 3ug7_A           25 GTKYIMFGGKGGVGKTTMSAATGVYLAEK---GLKVVIVSTDP   64 (349)
T ss_dssp             SCEEEEEECSSSTTHHHHHHHHHHHHHHS---SCCEEEEECCT
T ss_pred             CCEEEEEeCCCCccHHHHHHHHHHHHHHC---CCeEEEEeCCC
Confidence            45677788999999999999998887321   22455665443

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=94.35  E-value=0.028  Score=46.50  Aligned_cols=25  Identities=8%  Similarity=0.088  Sum_probs=23.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+|+|.|+.|+||||+++.+++++
T Consensus         6 ~~iI~i~g~~GsGk~ti~~~la~~l   30 (201)
T 3fdi_A            6 QIIIAIGREFGSGGHLVAKKLAEHY   30 (201)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHh
Confidence            4589999999999999999999987

>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=94.34  E-value=0.027  Score=45.85  Aligned_cols=25  Identities=20%  Similarity=0.458  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      ....|+|.|.+|+|||||+..+...
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            4568899999999999999999865

>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=94.34  E-value=0.025  Score=44.58  Aligned_cols=24  Identities=29%  Similarity=0.364  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      --|+|.|.+|+|||||+..+....
T Consensus         4 ~ki~v~G~~~~GKssli~~l~~~~   27 (167)
T 1c1y_A            4 YKLVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHCC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            357899999999999999998754

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=94.34  E-value=0.022  Score=47.62  Aligned_cols=24  Identities=21%  Similarity=0.354  Sum_probs=21.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+|+|.|+.|+||||+++.+...+
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            478999999999999999998876

>1ihu_A Arsenical pump-driving ATPase; aluminum fluoride, ADP, ARSA ATPase, ATP binding site, hydro; HET: ADP; 2.15A {Escherichia coli} SCOP: c.37.1.10 c.37.1.10 PDB: 1f48_A* 1ii0_A* 1ii9_A*

Probab=94.34  E-value=0.038  Score=53.85  Aligned_cols=41  Identities=20%  Similarity=0.169  Sum_probs=31.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCC
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASK  124 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~  124 (371)
                      ...+++++.|.||+||||+|..++..+.+.   -..++.++.+.
T Consensus         6 ~~~~i~~~sgkGGvGKTT~a~~lA~~lA~~---G~rVLlvd~D~   46 (589)
T 1ihu_A            6 NIPPYLFFTGKGGVGKTSISCATAIRLAEQ---GKRVLLVSTDP   46 (589)
T ss_dssp             SCCSEEEEECSTTSSHHHHHHHHHHHHHHT---TCCEEEEECCT
T ss_pred             CCCEEEEEeCCCcCHHHHHHHHHHHHHHHC---CCcEEEEECCC
Confidence            456789999999999999999998887422   23466666653

>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=94.34  E-value=0.036  Score=45.67  Aligned_cols=44  Identities=18%  Similarity=0.209  Sum_probs=31.4

Q ss_pred             eEEEEE-cCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHH
Q 043737           84 GIVGLY-GMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQ  130 (371)
Q Consensus        84 ~~v~I~-G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~  130 (371)
                      ++|+|+ +-||+||||+|..++..+..   .-..++.++.....+...
T Consensus         2 ~vi~v~s~kgG~GKTt~a~~la~~la~---~g~~vlliD~D~~~~~~~   46 (206)
T 4dzz_A            2 KVISFLNPKGGSGKTTAVINIATALSR---SGYNIAVVDTDPQMSLTN   46 (206)
T ss_dssp             EEEEECCSSTTSSHHHHHHHHHHHHHH---TTCCEEEEECCTTCHHHH
T ss_pred             eEEEEEeCCCCccHHHHHHHHHHHHHH---CCCeEEEEECCCCCCHHH
Confidence            467676 77999999999999988842   223577788775544433

>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=94.33  E-value=0.024  Score=44.76  Aligned_cols=24  Identities=29%  Similarity=0.286  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      --|+|.|.+|+|||||+..+....
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~~   27 (170)
T 1g16_A            4 MKILLIGDSGVGKSCLLVRFVEDK   27 (170)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhCC
Confidence            468899999999999999998654

>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=94.32  E-value=0.025  Score=45.18  Aligned_cols=25  Identities=32%  Similarity=0.368  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..-|+|.|.+|+|||||+..+....
T Consensus         7 ~~~i~v~G~~~~GKSsli~~l~~~~   31 (177)
T 1wms_A            7 LFKVILLGDGGVGKSSLMNRYVTNK   31 (177)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcCC
Confidence            3468999999999999999998654

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=94.32  E-value=0.024  Score=44.86  Aligned_cols=24  Identities=33%  Similarity=0.515  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      --|+|.|.+|+|||||+..+....
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~~   27 (172)
T 2erx_A            4 YRVAVFGAGGVGKSSLVLRFVKGT   27 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTCC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            458899999999999999998753

>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=94.30  E-value=0.028  Score=53.80  Aligned_cols=27  Identities=15%  Similarity=0.330  Sum_probs=23.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....+|+++|++|+||||+|+.+++.+
T Consensus        33 ~~~~lIvlvGlpGSGKSTia~~La~~L   59 (520)
T 2axn_A           33 NSPTVIVMVGLPARGKTYISKKLTRYL   59 (520)
T ss_dssp             CCCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            345689999999999999999998886

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=94.30  E-value=0.075  Score=44.40  Aligned_cols=25  Identities=28%  Similarity=0.361  Sum_probs=23.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...|++.|+.|+||||++..+.+.+
T Consensus         5 g~~i~~eG~~g~GKst~~~~l~~~l   29 (216)
T 3tmk_A            5 GKLILIEGLDRTGKTTQCNILYKKL   29 (216)
T ss_dssp             CCEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999999998

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=94.29  E-value=0.027  Score=45.00  Aligned_cols=25  Identities=28%  Similarity=0.283  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .--|+|.|.+|+|||||+..+....
T Consensus         6 ~~ki~v~G~~~~GKssl~~~l~~~~   30 (178)
T 2hxs_A            6 QLKIVVLGDGASGKTSLTTCFAQET   30 (178)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHGGG
T ss_pred             eEEEEEECcCCCCHHHHHHHHHhCc
Confidence            3468899999999999999988653

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=94.26  E-value=0.086  Score=56.31  Aligned_cols=27  Identities=22%  Similarity=0.396  Sum_probs=23.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .....++|+|+.|+|||||++.+....
T Consensus       442 ~~G~~vaivG~sGsGKSTll~ll~~~~  468 (1321)
T 4f4c_A          442 NAGQTVALVGSSGCGKSTIISLLLRYY  468 (1321)
T ss_dssp             CTTCEEEEEECSSSCHHHHHHHHTTSS
T ss_pred             cCCcEEEEEecCCCcHHHHHHHhcccc
Confidence            355699999999999999999887765

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=94.25  E-value=0.023  Score=49.13  Aligned_cols=24  Identities=38%  Similarity=0.310  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      ..+++|.|+.|+|||||.+.++.-
T Consensus        30 Ge~~~i~G~NGsGKSTLlk~l~Gl   53 (263)
T 2pjz_A           30 GEKVIILGPNGSGKTTLLRAISGL   53 (263)
T ss_dssp             SSEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEEECCCCCCHHHHHHHHhCC
Confidence            558999999999999999998754

>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=94.24  E-value=0.026  Score=44.64  Aligned_cols=22  Identities=36%  Similarity=0.335  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 043737           85 IVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      -|+|.|.+|+|||||+..+...
T Consensus         4 ki~ivG~~~~GKSsli~~l~~~   25 (169)
T 3q85_A            4 KVMLVGESGVGKSTLAGTFGGL   25 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHhc
Confidence            5789999999999999998643

>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=94.22  E-value=0.18  Score=48.30  Aligned_cols=87  Identities=16%  Similarity=0.112  Sum_probs=48.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhcc-------------CCCCCCc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINL-------------FNESWNS  148 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~-------------~~~~~~~  148 (371)
                      ...+++|.|++|+|||||+..++.....   .-..++++....  ....+.... ..++.             .......
T Consensus       280 ~G~i~~i~G~~GsGKSTLl~~l~g~~~~---~G~~vi~~~~ee--~~~~l~~~~-~~~g~~~~~~~~~g~~~~~~~~p~~  353 (525)
T 1tf7_A          280 KDSIILATGATGTGKTLLVSRFVENACA---NKERAILFAYEE--SRAQLLRNA-YSWGMDFEEMERQNLLKIVCAYPES  353 (525)
T ss_dssp             SSCEEEEEECTTSSHHHHHHHHHHHHHT---TTCCEEEEESSS--CHHHHHHHH-HTTSCCHHHHHHTTSEEECCCCGGG
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHh---CCCCEEEEEEeC--CHHHHHHHH-HHcCCCHHHHHhCCCEEEEEecccc
Confidence            4469999999999999999999877632   112345554433  223333222 11111             1111122


Q ss_pred             CCHHHHHHHHHHH-hCCCceEEEEeCC
Q 043737          149 RSLQEKSQDIVKN-MSNKKFVLLLDHI  174 (371)
Q Consensus       149 ~~~~~~~~~l~~~-l~~~~~LlVlDdv  174 (371)
                      .+.++....+... +..++-++|+|-+
T Consensus       354 LS~g~~q~~~~a~~l~~~p~llilDp~  380 (525)
T 1tf7_A          354 AGLEDHLQIIKSEINDFKPARIAIDSL  380 (525)
T ss_dssp             SCHHHHHHHHHHHHHTTCCSEEEEECH
T ss_pred             CCHHHHHHHHHHHHHhhCCCEEEEcCh
Confidence            3455555444443 4566779999954

>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=94.21  E-value=0.033  Score=45.74  Aligned_cols=25  Identities=32%  Similarity=0.567  Sum_probs=21.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      +...|+|.|.+|+|||||+..+...
T Consensus        24 ~~~ki~lvG~~~vGKSsLi~~l~~~   48 (198)
T 1f6b_A           24 KTGKLVFLGLDNAGKTTLLHMLKDD   48 (198)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHHSCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcC
Confidence            4456889999999999999998653

>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=94.20  E-value=0.027  Score=45.76  Aligned_cols=26  Identities=19%  Similarity=0.166  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..--|+|.|.+|+|||||+..+....
T Consensus        20 ~~~ki~vvG~~~vGKTsLi~~l~~~~   45 (187)
T 3c5c_A           20 LEVNLAILGRRGAGKSALTVKFLTKR   45 (187)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             ceEEEEEECCCCCcHHHHHHHHHhCC
Confidence            34578899999999999999988764

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=94.20  E-value=0.03  Score=45.39  Aligned_cols=26  Identities=31%  Similarity=0.466  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....|+|.|.+|+|||||+..+....
T Consensus        22 ~~~~i~v~G~~~~GKSsli~~l~~~~   47 (195)
T 3pqc_A           22 LKGEVAFVGRSNVGKSSLLNALFNRK   47 (195)
T ss_dssp             TTCEEEEEEBTTSSHHHHHHHHHTSC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHcCc
Confidence            34578899999999999999998764

>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=94.19  E-value=0.025  Score=44.57  Aligned_cols=22  Identities=32%  Similarity=0.289  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 043737           85 IVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      -|+|.|.+|+|||||+..+...
T Consensus         4 ki~~vG~~~~GKSsli~~l~~~   25 (166)
T 3q72_A            4 KVLLLGAPGVGKSALARIFGGV   25 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHCCC
T ss_pred             EEEEECCCCCCHHHHHHHHcCc
Confidence            5789999999999999988654

>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=94.18  E-value=0.027  Score=49.46  Aligned_cols=26  Identities=27%  Similarity=0.376  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||++.++.-.
T Consensus        63 ~Ge~~~i~G~NGsGKSTLlk~l~Gl~   88 (290)
T 2bbs_A           63 RGQLLAVAGSTGAGKTSLLMMIMGEL   88 (290)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            45699999999999999999987664

>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=94.16  E-value=0.028  Score=44.33  Aligned_cols=24  Identities=29%  Similarity=0.289  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      --|+|.|.+|+|||||+..+....
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~~   30 (170)
T 1r2q_A            7 FKLVLLGESAVGKSSLVLRFVKGQ   30 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCC
Confidence            468899999999999999998653

>2gk6_A Regulator of nonsense transcripts 1; UPF1, helicase, NMD, hydrolase; HET: ADP; 2.40A {Homo sapiens} PDB: 2gjk_A* 2gk7_A 2xzo_A* 2xzp_A

Probab=94.16  E-value=0.071  Score=52.29  Aligned_cols=51  Identities=18%  Similarity=0.166  Sum_probs=34.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHH
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIA  136 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~  136 (371)
                      .+.+.|+|++|+|||+++..++..+..   .....+.+........+.+...+.
T Consensus       195 ~~~~li~GppGTGKT~~~~~~i~~l~~---~~~~~ilv~a~tn~A~~~l~~~l~  245 (624)
T 2gk6_A          195 RPLSLIQGPPGTGKTVTSATIVYHLAR---QGNGPVLVCAPSNIAVDQLTEKIH  245 (624)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHHHHHT---SSSCCEEEEESSHHHHHHHHHHHH
T ss_pred             CCCeEEECCCCCCHHHHHHHHHHHHHH---cCCCeEEEEeCcHHHHHHHHHHHH
Confidence            357889999999999998888777621   123355566655555555555543

>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=94.15  E-value=0.033  Score=46.38  Aligned_cols=25  Identities=28%  Similarity=0.284  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .--|+|.|.+|+|||||+..+....
T Consensus        27 ~~ki~vvG~~~vGKSsL~~~l~~~~   51 (214)
T 3q3j_B           27 RCKLVLVGDVQCGKTAMLQVLAKDC   51 (214)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcCC
Confidence            4578899999999999999998764

>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=94.14  E-value=0.025  Score=45.79  Aligned_cols=23  Identities=30%  Similarity=0.432  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -|+|.|.+|+|||||+..+....
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~~   25 (190)
T 2cxx_A            3 TIIFAGRSNVGKSTLIYRLTGKK   25 (190)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCcC
Confidence            47899999999999999998764

>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=94.13  E-value=0.028  Score=45.79  Aligned_cols=25  Identities=32%  Similarity=0.485  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...|+|.|.+|+|||||+..+....
T Consensus        23 ~~ki~~vG~~~vGKSsli~~l~~~~   47 (190)
T 1m2o_B           23 HGKLLFLGLDNAGKTTLLHMLKNDR   47 (190)
T ss_dssp             -CEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcCC
Confidence            4478999999999999999998753

>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=94.13  E-value=0.022  Score=50.45  Aligned_cols=27  Identities=22%  Similarity=0.308  Sum_probs=23.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .....++|+|+.|+|||||++.++.-.
T Consensus        78 ~~Ge~vaivG~sGsGKSTLl~ll~gl~  104 (306)
T 3nh6_A           78 MPGQTLALVGPSGAGKSTILRLLFRFY  104 (306)
T ss_dssp             CTTCEEEEESSSCHHHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCchHHHHHHHHHcCC
Confidence            355699999999999999999887654

>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=94.12  E-value=0.036  Score=44.29  Aligned_cols=26  Identities=27%  Similarity=0.395  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....|+|.|.+|+|||||+..+....
T Consensus         8 ~~~~i~v~G~~~~GKssli~~l~~~~   33 (181)
T 2fn4_A            8 ETHKLVVVGGGGVGKSALTIQFIQSY   33 (181)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHHSS
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCc
Confidence            34578999999999999999998763

>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=94.10  E-value=0.029  Score=44.71  Aligned_cols=25  Identities=32%  Similarity=0.244  Sum_probs=21.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..-|+|.|.+|+|||||+..+....
T Consensus        15 ~~~i~v~G~~~~GKSsli~~l~~~~   39 (179)
T 1z0f_A           15 IFKYIIIGDMGVGKSCLLHQFTEKK   39 (179)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCC
Confidence            4578899999999999999998764

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=94.10  E-value=0.028  Score=47.38  Aligned_cols=25  Identities=32%  Similarity=0.271  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...++|.|++|+||||+|+.+++.+
T Consensus         8 ~~~~~~~G~pGsGKsT~a~~L~~~~   32 (230)
T 3gmt_A            8 HMRLILLGAPGAGKGTQANFIKEKF   32 (230)
T ss_dssp             -CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ccceeeECCCCCCHHHHHHHHHHHh
Confidence            3578999999999999999999887

>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=94.09  E-value=0.023  Score=45.55  Aligned_cols=24  Identities=21%  Similarity=0.306  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      --|+|.|.+|+|||||+..+....
T Consensus         8 ~ki~~vG~~~vGKTsli~~l~~~~   31 (178)
T 2iwr_A            8 LRLGVLGDARSGKSSLIHRFLTGS   31 (178)
T ss_dssp             EEEEEECCGGGCHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCC
Confidence            468899999999999999998764

>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=94.09  E-value=0.039  Score=43.63  Aligned_cols=25  Identities=24%  Similarity=0.274  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...|+|.|.+|+|||||+..+....
T Consensus         7 ~~~i~v~G~~~~GKssl~~~l~~~~   31 (171)
T 1upt_A            7 EMRILILGLDGAGKTTILYRLQVGE   31 (171)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcCC
Confidence            4578899999999999999997654

>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=94.08  E-value=0.03  Score=44.71  Aligned_cols=24  Identities=29%  Similarity=0.271  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -.|+|.|.+|+|||||+..+....
T Consensus        15 ~~i~v~G~~~~GKssli~~l~~~~   38 (179)
T 2y8e_A           15 FKLVFLGEQSVGKTSLITRFMYDS   38 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            468899999999999999998653

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=94.07  E-value=0.029  Score=50.72  Aligned_cols=26  Identities=38%  Similarity=0.425  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||.+.++.-.
T Consensus        40 ~Ge~~~llGpnGsGKSTLLr~iaGl~   65 (355)
T 1z47_A           40 EGEMVGLLGPSGSGKTTILRLIAGLE   65 (355)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            44699999999999999999987654

>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=94.07  E-value=0.033  Score=44.99  Aligned_cols=24  Identities=21%  Similarity=0.311  Sum_probs=21.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+.+|+|+.|+|||||+..++.-+
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            488999999999999999987655

>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=94.06  E-value=0.033  Score=50.49  Aligned_cols=26  Identities=31%  Similarity=0.372  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||.+.++.-.
T Consensus        28 ~Ge~~~llGpnGsGKSTLLr~iaGl~   53 (359)
T 2yyz_A           28 DGEFVALLGPSGCGKTTTLLMLAGIY   53 (359)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEEcCCCchHHHHHHHHHCCC
Confidence            45699999999999999999987654

>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=94.06  E-value=0.03  Score=45.14  Aligned_cols=25  Identities=28%  Similarity=0.227  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..-|+|.|.+|+|||||+..+....
T Consensus        10 ~~ki~v~G~~~~GKSsli~~l~~~~   34 (186)
T 2bme_A           10 LFKFLVIGNAGTGKSCLLHQFIEKK   34 (186)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCC
Confidence            3568899999999999999998764

>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=94.04  E-value=0.031  Score=44.98  Aligned_cols=25  Identities=32%  Similarity=0.343  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .-.|+|.|.+|+|||||+..+....
T Consensus        18 ~~ki~v~G~~~~GKSsl~~~l~~~~   42 (183)
T 3kkq_A           18 TYKLVVVGDGGVGKSALTIQFFQKI   42 (183)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCC
Confidence            4578899999999999999998764

>2oze_A ORF delta'; para, walker type atpases, DNA segregation, PSM19035, plasmid, DNA binding protein; HET: AGS EPE; 1.83A {Streptococcus pyogenes}

Probab=94.04  E-value=0.071  Score=46.85  Aligned_cols=54  Identities=17%  Similarity=0.091  Sum_probs=35.4

Q ss_pred             HHHHHHHHHhcCCceEEEEEc---CCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCC
Q 043737           70 TFDRVWRCLMEEQMGIVGLYG---MGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQ  127 (371)
Q Consensus        70 ~~~~l~~~L~~~~~~~v~I~G---~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~  127 (371)
                      .+.++.+.+... .++++|.+   -||+||||+|..++..+..   .-..++-++.....+
T Consensus        22 ~~~~~~r~~~~~-~~~i~v~~~s~KGGvGKTT~a~nLA~~la~---~G~rVlliD~D~q~~   78 (298)
T 2oze_A           22 ILEELRRILSNK-NEAIVILNNYFKGGVGKSKLSTMFAYLTDK---LNLKVLMIDKDLQAT   78 (298)
T ss_dssp             HHHHHHHHHHHH-CSCEEEEECCSSSSSSHHHHHHHHHHHHHH---TTCCEEEEEECTTCH
T ss_pred             HHHHHHHHhcCC-CcEEEEEeccCCCCchHHHHHHHHHHHHHh---CCCeEEEEeCCCCCC
Confidence            445555555433 34566665   9999999999999988732   223577777766543

>1c9k_A COBU, adenosylcobinamide kinase; alpha/beta structure rossmann fold P-loop, transferase; HET: 5GP; 2.20A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1cbu_A

Probab=94.04  E-value=0.025  Score=45.79  Aligned_cols=21  Identities=14%  Similarity=0.140  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 043737           86 VGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        86 v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      +.|+|.+|+|||++|.+++..
T Consensus         2 ilV~Gg~~SGKS~~A~~la~~   22 (180)
T 1c9k_A            2 ILVTGGARSGKSRHAEALIGD   22 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCCcHHHHHHHHHhc
Confidence            689999999999999999754

>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=94.03  E-value=0.03  Score=45.14  Aligned_cols=24  Identities=25%  Similarity=0.288  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      --|+|.|.+|+|||||+..+....
T Consensus         5 ~ki~v~G~~~~GKSsli~~l~~~~   28 (189)
T 4dsu_A            5 YKLVVVGADGVGKSALTIQLIQNH   28 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCC
Confidence            358899999999999999998764

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=94.03  E-value=0.033  Score=50.51  Aligned_cols=26  Identities=31%  Similarity=0.411  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||.+.++.-.
T Consensus        28 ~Ge~~~llGpnGsGKSTLLr~iaGl~   53 (362)
T 2it1_A           28 DGEFMALLGPSGSGKSTLLYTIAGIY   53 (362)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCchHHHHHHHHhcCC
Confidence            45699999999999999999987654

>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=94.02  E-value=0.033  Score=50.77  Aligned_cols=26  Identities=31%  Similarity=0.263  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||.+.++.-.
T Consensus        28 ~Ge~~~llGpsGsGKSTLLr~iaGl~   53 (381)
T 3rlf_A           28 EGEFVVFVGPSGCGKSTLLRMIAGLE   53 (381)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEEcCCCchHHHHHHHHHcCC
Confidence            45699999999999999999988664

>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=94.01  E-value=0.031  Score=45.65  Aligned_cols=24  Identities=33%  Similarity=0.225  Sum_probs=20.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      .--|+|.|.+|+|||||...+...
T Consensus         6 ~~kv~lvG~~~vGKSsL~~~~~~~   29 (192)
T 2cjw_A            6 YYRVVLIGEQGVGKSTLANIFAGV   29 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            346889999999999999999854

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=94.01  E-value=0.056  Score=45.86  Aligned_cols=42  Identities=14%  Similarity=0.090  Sum_probs=29.6

Q ss_pred             CceEEEEE-cCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCc
Q 043737           82 QMGIVGLY-GMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKD  125 (371)
Q Consensus        82 ~~~~v~I~-G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~  125 (371)
                      ..++|+|+ +-||+||||+|..++..+..  ..-..++.+++...
T Consensus         3 ~~~vI~v~s~kGGvGKTt~a~~LA~~la~--~~g~~VlliD~D~~   45 (245)
T 3ea0_A            3 AKRVFGFVSAKGGDGGSCIAANFAFALSQ--EPDIHVLAVDISLP   45 (245)
T ss_dssp             CCEEEEEEESSTTSSHHHHHHHHHHHHTT--STTCCEEEEECCTT
T ss_pred             CCeEEEEECCCCCcchHHHHHHHHHHHHh--CcCCCEEEEECCCC
Confidence            34667666 66899999999999999831  11346777776543

>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=93.98  E-value=0.031  Score=46.79  Aligned_cols=23  Identities=30%  Similarity=0.358  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -|+|.|.+|+|||+|+..+....
T Consensus        15 KivlvGd~~VGKTsLi~r~~~~~   37 (216)
T 4dkx_A           15 KLVFLGEQSVGKTSLITRFMYDS   37 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCcCHHHHHHHHHhCC
Confidence            47889999999999999998653

>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=93.97  E-value=0.032  Score=45.17  Aligned_cols=25  Identities=28%  Similarity=0.183  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..-|+|.|.+|+|||||+..+....
T Consensus        11 ~~ki~v~G~~~~GKSsli~~l~~~~   35 (195)
T 3bc1_A           11 LIKFLALGDSGVGKTSVLYQYTDGK   35 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCC
Confidence            3578899999999999999998754

>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=93.96  E-value=0.048  Score=49.77  Aligned_cols=111  Identities=11%  Similarity=0.111  Sum_probs=56.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCC-CCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHH
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPND-FDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIV  159 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~-f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~  159 (371)
                      ....+++|+|+.|+|||||++.++....   .. -..++++.-.....       +-...+.-....-..+.......+.
T Consensus       134 ~~g~~i~ivG~~GsGKTTll~~l~~~~~---~~~~g~I~~~e~~~e~~-------~~~~~~~v~Q~~~g~~~~~~~~~l~  203 (372)
T 2ewv_A          134 RKMGLILVTGPTGSGKSTTIASMIDYIN---QTKSYHIITIEDPIEYV-------FKHKKSIVNQREVGEDTKSFADALR  203 (372)
T ss_dssp             SSSEEEEEECSSSSSHHHHHHHHHHHHH---HHSCCEEEEEESSCCSC-------CCCSSSEEEEEEBTTTBSCSHHHHH
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhhcC---cCCCcEEEEecccHhhh-------hccCceEEEeeecCCCHHHHHHHHH
Confidence            4557999999999999999999987762   11 12333433211000       0000000000000001111234556


Q ss_pred             HHhCCCceEEEEeCCCCcccccccccccCCCCCCCcEEEEecCchH
Q 043737          160 KNMSNKKFVLLLDHIWELVDLSQVGLPVPCRTSASNKTVFTARELE  205 (371)
Q Consensus       160 ~~l~~~~~LlVlDdv~~~~~~~~~~~~l~~~~~~~~~iliTsR~~~  205 (371)
                      ..+...+-++++|++-+.+.......    ....|..++.|+-...
T Consensus       204 ~~L~~~pd~illdE~~d~e~~~~~l~----~~~~g~~vi~t~H~~~  245 (372)
T 2ewv_A          204 AALREDPDVIFVGEMRDLETVETALR----AAETGHLVFGTLHTNT  245 (372)
T ss_dssp             HHTTSCCSEEEESCCCSHHHHHHHHH----HHTTTCEEEECCCCCS
T ss_pred             HHhhhCcCEEEECCCCCHHHHHHHHH----HHhcCCEEEEEECcch
Confidence            66666777999999965544332211    1123556777776543

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=93.95  E-value=0.035  Score=50.27  Aligned_cols=27  Identities=30%  Similarity=0.345  Sum_probs=22.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....+++|.|+.|+|||||++.++.-.
T Consensus        52 ~~Gei~~IiGpnGaGKSTLlr~i~GL~   78 (366)
T 3tui_C           52 PAGQIYGVIGASGAGKSTLIRCVNLLE   78 (366)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             cCCCEEEEEcCCCchHHHHHHHHhcCC
Confidence            345699999999999999999887654

>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=93.94  E-value=0.035  Score=50.54  Aligned_cols=26  Identities=31%  Similarity=0.217  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||.+.++.-.
T Consensus        36 ~Ge~~~llGpnGsGKSTLLr~iaGl~   61 (372)
T 1v43_A           36 DGEFLVLLGPSGCGKTTTLRMIAGLE   61 (372)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcCC
Confidence            45699999999999999999987654

>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=93.91  E-value=0.033  Score=45.28  Aligned_cols=25  Identities=36%  Similarity=0.404  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .--|+|.|.+|+|||||+..+....
T Consensus        25 ~~ki~v~G~~~~GKSsLi~~l~~~~   49 (193)
T 2oil_A           25 VFKVVLIGESGVGKTNLLSRFTRNE   49 (193)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcCC
Confidence            4578999999999999999998764

>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=93.91  E-value=0.033  Score=44.57  Aligned_cols=24  Identities=25%  Similarity=0.268  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .-|+|.|.+|+|||||+..+....
T Consensus        13 ~ki~v~G~~~~GKSsli~~l~~~~   36 (181)
T 2efe_B           13 AKLVLLGDVGAGKSSLVLRFVKDQ   36 (181)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            468899999999999999998764

>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=93.90  E-value=0.034  Score=44.74  Aligned_cols=24  Identities=33%  Similarity=0.310  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      --|+|.|.+|+|||||+..+....
T Consensus         6 ~~i~~~G~~~~GKssl~~~l~~~~   29 (186)
T 1mh1_A            6 IKCVVVGDGAVGKTCLLISYTTNA   29 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCC
Confidence            368899999999999999988653

>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=93.90  E-value=0.034  Score=44.58  Aligned_cols=25  Identities=32%  Similarity=0.279  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .--|+|.|.+|+|||||+..+....
T Consensus         8 ~~ki~v~G~~~~GKssl~~~~~~~~   32 (182)
T 3bwd_D            8 FIKCVTVGDGAVGKTCLLISYTSNT   32 (182)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCC
Confidence            4468899999999999999988653

>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=93.90  E-value=0.034  Score=44.73  Aligned_cols=25  Identities=32%  Similarity=0.316  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..-|+|.|.+|+|||||+..+....
T Consensus        18 ~~ki~v~G~~~~GKSsli~~l~~~~   42 (187)
T 2a9k_A           18 LHKVIMVGSGGVGKSALTLQFMYDE   42 (187)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHhhCC
Confidence            4578899999999999999998764

>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=93.89  E-value=0.034  Score=44.63  Aligned_cols=25  Identities=24%  Similarity=0.332  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...|+|.|.+|+|||||+..+....
T Consensus         6 ~~ki~~~G~~~~GKSsli~~l~~~~   30 (181)
T 3t5g_A            6 SRKIAILGYRSVGKSSLTIQFVEGQ   30 (181)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcCC
Confidence            4578899999999999999998553

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=93.87  E-value=0.035  Score=50.57  Aligned_cols=25  Identities=24%  Similarity=0.432  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...++|+|+.|+|||||++.++...
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl~  194 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAVF  194 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998776

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=93.86  E-value=0.04  Score=49.54  Aligned_cols=27  Identities=26%  Similarity=0.390  Sum_probs=23.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....+++|.|++|+|||||...+....
T Consensus        53 ~~g~~v~i~G~~GaGKSTLl~~l~g~~   79 (337)
T 2qm8_A           53 GRAIRVGITGVPGVGKSTTIDALGSLL   79 (337)
T ss_dssp             CCSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHhh
Confidence            466799999999999999999998665

>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=93.86  E-value=0.033  Score=50.73  Aligned_cols=26  Identities=31%  Similarity=0.199  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||.+.++.-.
T Consensus        28 ~Ge~~~llGpnGsGKSTLLr~iaGl~   53 (372)
T 1g29_1           28 DGEFMILLGPSGCGKTTTLRMIAGLE   53 (372)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCcHHHHHHHHHHcCC
Confidence            44689999999999999999987654

>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=93.85  E-value=0.03  Score=50.54  Aligned_cols=26  Identities=23%  Similarity=0.152  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||.+.++.-.
T Consensus        25 ~Ge~~~llGpnGsGKSTLLr~iaGl~   50 (348)
T 3d31_A           25 SGEYFVILGPTGAGKTLFLELIAGFH   50 (348)
T ss_dssp             TTCEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCccHHHHHHHHHcCC
Confidence            45699999999999999999988654

>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=93.85  E-value=0.038  Score=44.61  Aligned_cols=27  Identities=30%  Similarity=0.379  Sum_probs=22.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .....|+|.|.+|+|||||+..+....
T Consensus        16 ~~~~~i~v~G~~~~GKssl~~~l~~~~   42 (186)
T 1ksh_A           16 ERELRLLMLGLDNAGKTTILKKFNGED   42 (186)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHTTCC
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHhcCC
Confidence            455678999999999999999998654

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=93.85  E-value=0.026  Score=45.14  Aligned_cols=26  Identities=23%  Similarity=0.304  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...-|+|.|.+|+|||||+..+....
T Consensus         8 ~~~~i~v~G~~~~GKssl~~~l~~~~   33 (181)
T 3tw8_B            8 HLFKLLIIGDSGVGKSSLLLRFADNT   33 (181)
T ss_dssp             EEEEEEEECCTTSCHHHHHHHHCSCC
T ss_pred             cceEEEEECCCCCCHHHHHHHHhcCC
Confidence            34578999999999999999987653

>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=93.85  E-value=0.044  Score=44.74  Aligned_cols=26  Identities=23%  Similarity=0.359  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..--|+|.|.+|+|||||+..+....
T Consensus        27 ~~~ki~v~G~~~vGKSsli~~l~~~~   52 (196)
T 2atv_A           27 AEVKLAIFGRAGVGKSALVVRFLTKR   52 (196)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCC
Confidence            44578899999999999999998764

>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=93.83  E-value=0.035  Score=45.58  Aligned_cols=26  Identities=31%  Similarity=0.302  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...-|+|.|.+|+|||||+..+....
T Consensus        13 ~~~ki~v~G~~~~GKSsli~~l~~~~   38 (206)
T 2bov_A           13 ALHKVIMVGSGGVGKSALTLQFMYDE   38 (206)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhCC
Confidence            34578999999999999999998664

>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=93.81  E-value=0.036  Score=44.33  Aligned_cols=25  Identities=36%  Similarity=0.290  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .--|+|.|.+|+|||||+..+....
T Consensus        10 ~~~i~v~G~~~~GKssli~~l~~~~   34 (180)
T 2g6b_A           10 AFKVMLVGDSGVGKTCLLVRFKDGA   34 (180)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhCC
Confidence            3468899999999999999998764

>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=93.81  E-value=0.036  Score=45.04  Aligned_cols=25  Identities=28%  Similarity=0.292  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .--|+|.|.+|+|||||+..+....
T Consensus        23 ~~ki~v~G~~~~GKSsli~~l~~~~   47 (191)
T 3dz8_A           23 MFKLLIIGNSSVGKTSFLFRYADDT   47 (191)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             eeEEEEECCCCcCHHHHHHHHhcCC
Confidence            3478899999999999999998764

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=93.79  E-value=0.035  Score=45.28  Aligned_cols=25  Identities=24%  Similarity=0.324  Sum_probs=21.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .--|+|.|.+|+|||||+..+....
T Consensus         7 ~~ki~v~G~~~~GKSsli~~l~~~~   31 (208)
T 3clv_A            7 SYKTVLLGESSVGKSSIVLRLTKDT   31 (208)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCc
Confidence            4568899999999999999998774

>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=93.78  E-value=0.035  Score=45.61  Aligned_cols=26  Identities=35%  Similarity=0.318  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....|+|.|.+|+|||||+..+....
T Consensus         7 ~~~ki~v~G~~~~GKSsli~~l~~~~   32 (207)
T 1vg8_A            7 VLLKVIILGDSGVGKTSLMNQYVNKK   32 (207)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcCC
Confidence            34578999999999999999998764

>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=93.78  E-value=0.036  Score=45.88  Aligned_cols=26  Identities=27%  Similarity=0.282  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..--|+|.|.+|+|||||+..+....
T Consensus        27 ~~~ki~vvG~~~vGKSsLi~~l~~~~   52 (205)
T 1gwn_A           27 VKCKIVVVGDSQCGKTALLHVFAKDC   52 (205)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCC
Confidence            34578899999999999999998764

>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=93.78  E-value=0.05  Score=48.06  Aligned_cols=34  Identities=29%  Similarity=0.465  Sum_probs=25.9

Q ss_pred             HHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           71 FDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        71 ~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ++++...+   ...+++|.|++|+|||||.+.+....
T Consensus       160 v~~lf~~l---~geiv~l~G~sG~GKSTll~~l~g~~  193 (301)
T 1u0l_A          160 IEELKEYL---KGKISTMAGLSGVGKSSLLNAINPGL  193 (301)
T ss_dssp             HHHHHHHH---SSSEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             HHHHHHHh---cCCeEEEECCCCCcHHHHHHHhcccc
Confidence            34455544   23589999999999999999997664

>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=93.77  E-value=0.038  Score=44.88  Aligned_cols=25  Identities=40%  Similarity=0.325  Sum_probs=20.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .--|+|.|.+|+|||||++.+....
T Consensus        14 ~~ki~vvG~~~~GKssL~~~l~~~~   38 (198)
T 3t1o_A           14 NFKIVYYGPGLSGKTTNLKWIYSKV   38 (198)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHTS
T ss_pred             ccEEEEECCCCCCHHHHHHHHHhhc
Confidence            3468899999999999997666544

>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=93.73  E-value=0.037  Score=45.65  Aligned_cols=25  Identities=28%  Similarity=0.387  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..-|+|.|.+|+|||||+..+....
T Consensus        26 ~~ki~lvG~~~vGKSsLi~~l~~~~   50 (201)
T 2ew1_A           26 LFKIVLIGNAGVGKTCLVRRFTQGL   50 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhCC
Confidence            4578899999999999999988764

>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=93.73  E-value=0.038  Score=44.82  Aligned_cols=25  Identities=32%  Similarity=0.300  Sum_probs=21.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..-|+|.|.+|+|||||+..+....
T Consensus        22 ~~ki~vvG~~~~GKSsli~~l~~~~   46 (189)
T 2gf9_A           22 MFKLLLIGNSSVGKTSFLFRYADDS   46 (189)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcCC
Confidence            4578999999999999999998764

>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=93.71  E-value=0.037  Score=45.04  Aligned_cols=25  Identities=24%  Similarity=0.283  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .--|+|.|.+|+|||||+..+....
T Consensus        23 ~~ki~vvG~~~~GKSsli~~l~~~~   47 (192)
T 2fg5_A           23 ELKVCLLGDTGVGKSSIVCRFVQDH   47 (192)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHCC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcCC
Confidence            4578999999999999999998764

>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=93.70  E-value=0.041  Score=53.57  Aligned_cols=26  Identities=27%  Similarity=0.316  Sum_probs=23.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+|.|.|++|+||||+|+.+.+.+
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            45789999999999999999998886

>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=93.70  E-value=0.038  Score=44.78  Aligned_cols=25  Identities=28%  Similarity=0.239  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .--|+|.|.+|+|||||+..+....
T Consensus        22 ~~ki~v~G~~~~GKSsli~~l~~~~   46 (188)
T 1zd9_A           22 EMELTLVGLQYSGKTTFVNVIASGQ   46 (188)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ccEEEEECCCCCCHHHHHHHHHcCC
Confidence            3468899999999999999998654

>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=93.70  E-value=0.038  Score=45.83  Aligned_cols=26  Identities=23%  Similarity=0.272  Sum_probs=21.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....|+|.|.+|+|||||+..+....
T Consensus         6 ~~~ki~vvG~~~~GKTsli~~l~~~~   31 (214)
T 2fh5_B            6 SQRAVLFVGLCDSGKTLLFVRLLTGQ   31 (214)
T ss_dssp             --CEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34578899999999999999998764

>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=93.68  E-value=0.026  Score=46.06  Aligned_cols=26  Identities=23%  Similarity=0.353  Sum_probs=21.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhh
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      ...--|+|.|.+|+|||||+..+...
T Consensus        27 ~~~~ki~v~G~~~vGKSsLi~~l~~~   52 (192)
T 2b6h_A           27 KKQMRILMVGLDAAGKTTILYKLKLG   52 (192)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHCSS
T ss_pred             CCccEEEEECCCCCCHHHHHHHHHhC
Confidence            34567999999999999999998643

>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=93.68  E-value=0.029  Score=45.96  Aligned_cols=24  Identities=33%  Similarity=0.285  Sum_probs=20.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHh
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINK  105 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~  105 (371)
                      ...-|+|.|.+|+|||||+..+..
T Consensus        22 ~~~ki~vvG~~~vGKSsLi~~l~~   45 (195)
T 3cbq_A           22 GIFKVMLVGESGVGKSTLAGTFGG   45 (195)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHTCC
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHh
Confidence            345789999999999999999853

>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=93.65  E-value=0.039  Score=44.90  Aligned_cols=25  Identities=36%  Similarity=0.339  Sum_probs=21.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .--|+|.|.+|+|||||+..+....
T Consensus        23 ~~ki~~vG~~~~GKSsl~~~l~~~~   47 (194)
T 3reg_A           23 ALKIVVVGDGAVGKTCLLLAFSKGE   47 (194)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eeEEEEECcCCCCHHHHHHHHhcCC
Confidence            3578899999999999999998764

>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=93.64  E-value=0.04  Score=44.79  Aligned_cols=24  Identities=33%  Similarity=0.231  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      --|+|.|.+|+|||||+..+....
T Consensus        22 ~ki~v~G~~~~GKSsli~~l~~~~   45 (191)
T 2a5j_A           22 FKYIIIGDTGVGKSCLLLQFTDKR   45 (191)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCC
Confidence            468899999999999999998664

>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=93.64  E-value=0.037  Score=45.37  Aligned_cols=24  Identities=25%  Similarity=0.254  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      --|+|.|.+|+|||||+..+....
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~~   32 (203)
T 1zbd_A            9 FKILIIGNSSVGKTSFLFRYADDS   32 (203)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTCC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Confidence            468999999999999999998764

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=93.63  E-value=0.039  Score=45.27  Aligned_cols=26  Identities=31%  Similarity=0.270  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...-|+|.|.+|+|||||+..+....
T Consensus        23 ~~~ki~vvG~~~~GKSsli~~l~~~~   48 (201)
T 3oes_A           23 RYRKVVILGYRCVGKTSLAHQFVEGE   48 (201)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             CcEEEEEECCCCcCHHHHHHHHHhCC
Confidence            45678999999999999999998764

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=93.62  E-value=0.043  Score=51.84  Aligned_cols=26  Identities=15%  Similarity=0.294  Sum_probs=23.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+|+++|.+|+||||+++.++..+
T Consensus        38 ~~~~IvlvGlpGsGKSTia~~La~~l   63 (469)
T 1bif_A           38 CPTLIVMVGLPARGKTYISKKLTRYL   63 (469)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHH
Confidence            45689999999999999999999886

>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=93.61  E-value=0.023  Score=46.95  Aligned_cols=26  Identities=19%  Similarity=0.305  Sum_probs=21.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhh
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      .....|+|.|+.|+|||||...++..
T Consensus        24 ~~~~~v~lvG~~g~GKSTLl~~l~g~   49 (210)
T 1pui_A           24 DTGIEVAFAGRSNAGKSSALNTLTNQ   49 (210)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTCCC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            44568999999999999999887654

>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=93.61  E-value=0.028  Score=50.81  Aligned_cols=26  Identities=27%  Similarity=0.270  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||.+.++.-.
T Consensus        30 ~Ge~~~llGpnGsGKSTLLr~iaGl~   55 (353)
T 1oxx_K           30 NGERFGILGPSGAGKTTFMRIIAGLD   55 (353)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            45699999999999999999987654

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=93.59  E-value=0.041  Score=44.73  Aligned_cols=25  Identities=28%  Similarity=0.286  Sum_probs=21.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..-|+|.|.+|+|||||+..+....
T Consensus        16 ~~ki~v~G~~~~GKSsli~~l~~~~   40 (196)
T 3tkl_A           16 LFKLLLIGDSGVGKSCLLLRFADDT   40 (196)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcCC
Confidence            3468999999999999999998764

>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=93.58  E-value=0.047  Score=45.89  Aligned_cols=26  Identities=19%  Similarity=0.345  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....|+|.|.+|+|||||+..+....
T Consensus        28 ~~~kI~vvG~~~vGKSsLin~l~~~~   53 (228)
T 2qu8_A           28 HKKTIILSGAPNVGKSSFMNIVSRAN   53 (228)
T ss_dssp             TSEEEEEECSTTSSHHHHHHHHTTTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45688999999999999999997653

>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=93.58  E-value=0.051  Score=49.62  Aligned_cols=44  Identities=14%  Similarity=0.048  Sum_probs=31.9

Q ss_pred             CceEEEEE-cCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCH
Q 043737           82 QMGIVGLY-GMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQL  128 (371)
Q Consensus        82 ~~~~v~I~-G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~  128 (371)
                      ..++|+|+ |-||+||||+|..++..+..   .-..++.+++....+.
T Consensus       142 ~~kvIav~s~KGGvGKTT~a~nLA~~La~---~g~rVlliD~D~~~~l  186 (373)
T 3fkq_A          142 KSSVVIFTSPCGGVGTSTVAAACAIAHAN---MGKKVFYLNIEQCGTT  186 (373)
T ss_dssp             SCEEEEEECSSTTSSHHHHHHHHHHHHHH---HTCCEEEEECCTTCCH
T ss_pred             CceEEEEECCCCCChHHHHHHHHHHHHHh---CCCCEEEEECCCCCCH
Confidence            45788887 59999999999999888732   2235788887744433

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=93.57  E-value=0.06  Score=48.92  Aligned_cols=36  Identities=19%  Similarity=0.144  Sum_probs=27.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEE
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVV  121 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~  121 (371)
                      ....++|+|+.|+|||||++.++....    ...+.+.+.
T Consensus       174 ~G~~i~ivG~sGsGKSTll~~l~~~~~----~~~g~I~ie  209 (361)
T 2gza_A          174 LERVIVVAGETGSGKTTLMKALMQEIP----FDQRLITIE  209 (361)
T ss_dssp             TTCCEEEEESSSSCHHHHHHHHHTTSC----TTSCEEEEE
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHhcCC----CCceEEEEC
Confidence            445899999999999999999988762    224555554

>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=93.57  E-value=0.067  Score=48.35  Aligned_cols=34  Identities=24%  Similarity=0.213  Sum_probs=25.6

Q ss_pred             HHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           71 FDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        71 ~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ++.|...+   ...+++|.|++|+|||||+..++...
T Consensus       206 l~~L~~~~---~G~~~~lvG~sG~GKSTLln~L~g~~  239 (358)
T 2rcn_A          206 LKPLEEAL---TGRISIFAGQSGVGKSSLLNALLGLQ  239 (358)
T ss_dssp             HHHHHHHH---TTSEEEEECCTTSSHHHHHHHHHCCS
T ss_pred             HHHHHHhc---CCCEEEEECCCCccHHHHHHHHhccc
Confidence            34444443   23589999999999999999998665

>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=93.56  E-value=0.045  Score=50.19  Aligned_cols=26  Identities=35%  Similarity=0.396  Sum_probs=22.4

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhh
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      ....+++|.|+.|+|||||.+.++.-
T Consensus        45 ~~Ge~~~llGpsGsGKSTLLr~iaGl   70 (390)
T 3gd7_A           45 SPGQRVGLLGRTGSGKSTLLSAFLRL   70 (390)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHHTC
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhCC
Confidence            34569999999999999999998764

>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=93.56  E-value=0.042  Score=44.54  Aligned_cols=26  Identities=23%  Similarity=0.172  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...-|+|.|.+|+|||||+..+....
T Consensus        19 ~~~ki~v~G~~~~GKSsli~~l~~~~   44 (189)
T 1z06_A           19 RIFKIIVIGDSNVGKTCLTYRFCAGR   44 (189)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHcCC
Confidence            34578999999999999999998653

>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=93.55  E-value=0.04  Score=45.92  Aligned_cols=23  Identities=35%  Similarity=0.260  Sum_probs=20.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHh
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINK  105 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~  105 (371)
                      ..-|+|.|.+|+|||||+..+..
T Consensus        37 ~~kVvlvG~~~vGKSSLl~r~~~   59 (211)
T 2g3y_A           37 YYRVVLIGEQGVGKSTLANIFAG   59 (211)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHh
Confidence            35689999999999999999874

>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=93.51  E-value=0.043  Score=44.51  Aligned_cols=24  Identities=25%  Similarity=0.324  Sum_probs=21.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -.|+|.|.+|+|||||+..+....
T Consensus        16 ~~i~v~G~~~~GKssli~~l~~~~   39 (195)
T 1x3s_A           16 LKILIIGESGVGKSSLLLRFTDDT   39 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            478899999999999999998764

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=93.51  E-value=0.091  Score=56.12  Aligned_cols=27  Identities=22%  Similarity=0.395  Sum_probs=22.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .....|+|+|+.|+|||||++.+.+-.
T Consensus      1103 ~~Ge~vaIVG~SGsGKSTL~~lL~rl~ 1129 (1321)
T 4f4c_A         1103 EPGQTLALVGPSGCGKSTVVALLERFY 1129 (1321)
T ss_dssp             CTTCEEEEECSTTSSTTSHHHHHTTSS
T ss_pred             CCCCEEEEECCCCChHHHHHHHHhcCc
Confidence            345689999999999999999887654

>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=93.50  E-value=0.043  Score=44.97  Aligned_cols=26  Identities=27%  Similarity=0.317  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...-|+|.|.+|+|||||+..+....
T Consensus        27 ~~~ki~v~G~~~~GKSsli~~l~~~~   52 (199)
T 2p5s_A           27 KAYKIVLAGDAAVGKSSFLMRLCKNE   52 (199)
T ss_dssp             -CEEEEEESSTTSSHHHHHHHHHHCC
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHhCC
Confidence            45688999999999999999998654

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=93.48  E-value=0.094  Score=47.28  Aligned_cols=27  Identities=30%  Similarity=0.338  Sum_probs=24.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .....++|.|+.|+|||||++.++...
T Consensus        69 ~~Gq~~gIiG~nGaGKTTLl~~I~g~~   95 (347)
T 2obl_A           69 GIGQRIGIFAGSGVGKSTLLGMICNGA   95 (347)
T ss_dssp             ETTCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            455699999999999999999999886

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=93.48  E-value=0.04  Score=44.92  Aligned_cols=26  Identities=27%  Similarity=0.360  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....|+|.|.+|+|||||+..+....
T Consensus        16 ~~~ki~v~G~~~~GKSsl~~~l~~~~   41 (199)
T 4bas_A           16 TKLQVVMCGLDNSGKTTIINQVKPAQ   41 (199)
T ss_dssp             CEEEEEEECCTTSCHHHHHHHHSCCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            45689999999999999999987654

>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=93.45  E-value=0.043  Score=45.14  Aligned_cols=25  Identities=28%  Similarity=0.312  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..-|+|.|.+|+|||||+..+....
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~~   32 (206)
T 2bcg_Y            8 LFKLLLIGNSGVGKSCLLLRFSDDT   32 (206)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHCC
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCC
Confidence            3578899999999999999998764

>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=93.45  E-value=0.04  Score=45.23  Aligned_cols=26  Identities=23%  Similarity=0.165  Sum_probs=20.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..--|+|.|.+|+|||||+..+....
T Consensus        24 ~~~ki~v~G~~~~GKSsLi~~l~~~~   49 (200)
T 2o52_A           24 FLFKFLVIGSAGTGKSCLLHQFIENK   49 (200)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHC--
T ss_pred             cceEEEEECcCCCCHHHHHHHHHhCC
Confidence            34578899999999999999987553

>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; 2.79A {Clostridium symbiosum atcc 14940}

Probab=93.40  E-value=0.056  Score=45.46  Aligned_cols=26  Identities=8%  Similarity=0.038  Sum_probs=23.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+|+|.|+.|+||||+++.+++.+
T Consensus        13 ~~~iI~i~g~~gsGk~~i~~~la~~l   38 (223)
T 3hdt_A           13 KNLIITIEREYGSGGRIVGKKLAEEL   38 (223)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCCHHHHHHHHHHHc
Confidence            45699999999999999999999987

>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=93.40  E-value=0.045  Score=44.58  Aligned_cols=26  Identities=31%  Similarity=0.397  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..--|+|.|.+|+|||||+..+....
T Consensus         7 ~~~ki~vvG~~~~GKSsli~~l~~~~   32 (199)
T 2gf0_A            7 NDYRVVVFGAGGVGKSSLVLRFVKGT   32 (199)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHSC
T ss_pred             CeeEEEEECCCCCcHHHHHHHHHcCC
Confidence            34578999999999999999998753

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=93.39  E-value=0.042  Score=44.99  Aligned_cols=26  Identities=31%  Similarity=0.272  Sum_probs=20.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..--|+|.|.+|+|||||+..+....
T Consensus        19 ~~~ki~~~G~~~~GKssl~~~l~~~~   44 (201)
T 2q3h_A           19 RGVKCVLVGDGAVGKTSLVVSYTTNG   44 (201)
T ss_dssp             -CEEEEEECSTTSSHHHHHHHHHC--
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhCC
Confidence            34578899999999999999987653

>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=93.33  E-value=0.049  Score=48.16  Aligned_cols=25  Identities=32%  Similarity=0.559  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      ....|+|.|.+|+|||||...+...
T Consensus         7 r~~~VaIvG~~nvGKSTLln~L~g~   31 (301)
T 1ega_A            7 YCGFIAIVGRPNVGKSTLLNKLLGQ   31 (301)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHCC
Confidence            3468999999999999999999876

>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=93.28  E-value=0.056  Score=48.68  Aligned_cols=27  Identities=22%  Similarity=0.297  Sum_probs=23.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....+|+|.|.+|+|||||+..++...
T Consensus        54 ~~~~~i~i~G~~g~GKSTl~~~l~~~~   80 (341)
T 2p67_A           54 GNTLRLGVTGTPGAGKSTFLEAFGMLL   80 (341)
T ss_dssp             SCSEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHH
Confidence            466899999999999999999998765

>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=93.27  E-value=0.057  Score=46.82  Aligned_cols=25  Identities=32%  Similarity=0.425  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...|+|.|.+|+|||||...+....
T Consensus         3 ~~~i~lvG~~g~GKTTL~n~l~g~~   27 (271)
T 3k53_A            3 LKTVALVGNPNVGKTTIFNALTGLR   27 (271)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHTTC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCC
Confidence            3578999999999999999998664

>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=93.27  E-value=0.06  Score=48.23  Aligned_cols=83  Identities=13%  Similarity=0.094  Sum_probs=45.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHh
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNM  162 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l  162 (371)
                      ...++|+|+.|+|||||++.++....    ...+.+.+.-........    .-..+....    . .-......+...+
T Consensus       171 g~~v~i~G~~GsGKTTll~~l~g~~~----~~~g~i~i~~~~e~~~~~----~~~~i~~~~----g-gg~~~r~~la~aL  237 (330)
T 2pt7_A          171 GKNVIVCGGTGSGKTTYIKSIMEFIP----KEERIISIEDTEEIVFKH----HKNYTQLFF----G-GNITSADCLKSCL  237 (330)
T ss_dssp             TCCEEEEESTTSCHHHHHHHGGGGSC----TTSCEEEEESSCCCCCSS----CSSEEEEEC----B-TTBCHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCc----CCCcEEEECCeecccccc----chhEEEEEe----C-CChhHHHHHHHHh
Confidence            34899999999999999999987762    224555554322111000    000000000    0 1112233445556


Q ss_pred             CCCceEEEEeCCCCcc
Q 043737          163 SNKKFVLLLDHIWELV  178 (371)
Q Consensus       163 ~~~~~LlVlDdv~~~~  178 (371)
                      ..++-++++|+.-..+
T Consensus       238 ~~~p~ilildE~~~~e  253 (330)
T 2pt7_A          238 RMRPDRIILGELRSSE  253 (330)
T ss_dssp             TSCCSEEEECCCCSTH
T ss_pred             hhCCCEEEEcCCChHH
Confidence            6777799999986643

>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=93.27  E-value=0.055  Score=45.87  Aligned_cols=27  Identities=19%  Similarity=0.071  Sum_probs=22.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .....|+|.|.+|+|||||+..+....
T Consensus        27 ~~~~~i~lvG~~g~GKStlin~l~g~~   53 (239)
T 3lxx_A           27 NSQLRIVLVGKTGAGKSATGNSILGRK   53 (239)
T ss_dssp             -CEEEEEEECCTTSSHHHHHHHHHTSC
T ss_pred             CCceEEEEECCCCCCHHHHHHHHcCCC
Confidence            345689999999999999999998764

>3igf_A ALL4481 protein; two-domained protein consisting of the N-terminal alpha-beta the C-terminal all beta domain., structural genomics; 2.00A {Nostoc SP}

Probab=93.25  E-value=0.046  Score=49.78  Aligned_cols=43  Identities=16%  Similarity=0.104  Sum_probs=30.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHH
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLE  129 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~  129 (371)
                      .+++.+.|-||+||||+|..++..+..   .-..++.++. ...+..
T Consensus         2 ~~i~~~~gkGG~GKTt~a~~la~~la~---~g~~vllvd~-~~~~l~   44 (374)
T 3igf_A            2 ALILTFLGKSGVARTKIAIAAAKLLAS---QGKRVLLAGL-AEPVLP   44 (374)
T ss_dssp             CEEEEEECSBHHHHHHHHHHHHHHHHH---TTCCEEEEEC-SCSHHH
T ss_pred             cEEEEEeCCCCCcHHHHHHHHHHHHHH---CCCCeEEEeC-CCCChH
Confidence            367889999999999999999888732   2234666666 444433

>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=93.25  E-value=0.049  Score=44.27  Aligned_cols=24  Identities=33%  Similarity=0.306  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .-|+|.|.+|+|||||+..+....
T Consensus        19 ~ki~v~G~~~~GKssli~~l~~~~   42 (194)
T 2atx_A           19 LKCVVVGDGAVGKTCLLMSYANDA   42 (194)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCC
Confidence            478899999999999999998763

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=93.25  E-value=0.1  Score=44.96  Aligned_cols=36  Identities=19%  Similarity=0.223  Sum_probs=26.5

Q ss_pred             HHHHHHHhcC--CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           72 DRVWRCLMEE--QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        72 ~~l~~~L~~~--~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .++.+.+...  ....|+|.|..|+|||||+..+....
T Consensus        23 ~~~~~~~~~~~~~~~~I~lvG~~g~GKSSLin~l~~~~   60 (262)
T 3def_A           23 IEFFGKLKQKDMNSMTVLVLGKGGVGKSSTVNSLIGEQ   60 (262)
T ss_dssp             HHHHHHHHHTTCCEEEEEEEECTTSSHHHHHHHHHTSC
T ss_pred             HHHHHHHhhccCCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            3444444332  45678999999999999999998764

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=93.21  E-value=0.05  Score=44.98  Aligned_cols=25  Identities=28%  Similarity=0.214  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .--|+|.|.+|+|||||+..+....
T Consensus         9 ~~ki~i~G~~~~GKTsli~~l~~~~   33 (212)
T 2j0v_A            9 FIKCVTVGDGAVGKTCMLICYTSNK   33 (212)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCC
Confidence            3468899999999999999998654

>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=93.21  E-value=0.045  Score=45.48  Aligned_cols=24  Identities=38%  Similarity=0.354  Sum_probs=20.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      .--|+|.|.+|+|||||+..+...
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            457889999999999999999765

>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=93.18  E-value=0.051  Score=44.86  Aligned_cols=25  Identities=32%  Similarity=0.320  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..-|+|.|.+|+|||||+..+....
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~~~~   49 (207)
T 2fv8_A           25 RKKLVVVGDGACGKTCLLIVFSKDE   49 (207)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSS
T ss_pred             CcEEEEECcCCCCHHHHHHHHhcCC
Confidence            4578999999999999999998754

>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=93.17  E-value=0.041  Score=48.63  Aligned_cols=23  Identities=22%  Similarity=0.265  Sum_probs=19.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      --|+|.|+.|+|||||...++..
T Consensus        19 ~~I~lvG~nG~GKSTLl~~L~g~   41 (301)
T 2qnr_A           19 FTLMVVGESGLGKSTLINSLFLT   41 (301)
T ss_dssp             EEEEEEEETTSSHHHHHHHHHC-
T ss_pred             EEEEEECCCCCCHHHHHHHHhCC
Confidence            34589999999999999997653

>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=93.16  E-value=0.052  Score=44.82  Aligned_cols=25  Identities=28%  Similarity=0.308  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..-|+|.|.+|+|||||+..+....
T Consensus        20 ~~~i~v~G~~~~GKSsli~~l~~~~   44 (213)
T 3cph_A           20 IMKILLIGDSGVGKSCLLVRFVEDK   44 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHCC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCC
Confidence            4578999999999999999998653

>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=93.15  E-value=0.11  Score=44.74  Aligned_cols=46  Identities=15%  Similarity=0.165  Sum_probs=33.0

Q ss_pred             CCceEEEE-EcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHH
Q 043737           81 EQMGIVGL-YGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQ  130 (371)
Q Consensus        81 ~~~~~v~I-~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~  130 (371)
                      ...++|+| .|-||+||||+|..++..+.    .-..++.+++....+...
T Consensus        25 ~~~~vI~v~s~kGGvGKTT~a~~LA~~la----~g~~VlliD~D~~~~~~~   71 (267)
T 3k9g_A           25 KKPKIITIASIKGGVGKSTSAIILATLLS----KNNKVLLIDMDTQASITS   71 (267)
T ss_dssp             -CCEEEEECCSSSSSCHHHHHHHHHHHHT----TTSCEEEEEECTTCHHHH
T ss_pred             CCCeEEEEEeCCCCchHHHHHHHHHHHHH----CCCCEEEEECCCCCCHHH
Confidence            34567766 57889999999999999983    235678888776544333

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=93.15  E-value=0.04  Score=44.89  Aligned_cols=25  Identities=28%  Similarity=0.300  Sum_probs=20.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..-|+|.|.+|+|||||+..+....
T Consensus        26 ~~ki~vvG~~~~GKSsLi~~l~~~~   50 (192)
T 2il1_A           26 KLQVIIIGSRGVGKTSLMERFTDDT   50 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHCC--
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCC
Confidence            3468899999999999999987553

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=93.15  E-value=0.12  Score=42.86  Aligned_cols=42  Identities=17%  Similarity=0.117  Sum_probs=30.5

Q ss_pred             EEEE-EcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHH
Q 043737           85 IVGL-YGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQ  130 (371)
Q Consensus        85 ~v~I-~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~  130 (371)
                      +|+| .+-||+||||++..++..+.+   .- .++.++.....+...
T Consensus         2 vI~v~s~KGGvGKTT~a~~LA~~la~---~g-~VlliD~D~q~~~~~   44 (209)
T 3cwq_A            2 IITVASFKGGVGKTTTAVHLSAYLAL---QG-ETLLIDGDPNRSATG   44 (209)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHT---TS-CEEEEEECTTCHHHH
T ss_pred             EEEEEcCCCCCcHHHHHHHHHHHHHh---cC-CEEEEECCCCCCHHH
Confidence            3444 688999999999999999842   22 688888876654443

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=93.14  E-value=0.1  Score=45.74  Aligned_cols=26  Identities=15%  Similarity=0.284  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....|+|+|.+|+|||||...+....
T Consensus        25 ~~~~i~vvG~~~~GKSSLln~l~g~~   50 (299)
T 2aka_B           25 DLPQIAVVGGQSAGKSSVLENFVGRD   50 (299)
T ss_dssp             CCCEEEEEEBTTSCHHHHHHHHHTSC
T ss_pred             CCCeEEEEeCCCCCHHHHHHHHHCCC
Confidence            34689999999999999999998664

---

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	371
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	2e-31

>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 =  118 bits (296), Expect = 2e-31
 Identities = 38/267 (14%), Positives = 80/267 (29%), Gaps = 29/267 (10%)

Query: 59  PLPPTVVGLQSTFDRVWRCLME---EQMGIVGLYGMGEVGKTTLLTQI-NKKFLHTPNDF 114
           P   T    +   DRV + L E        + L+G    GK+ + +Q  +K       ++
Sbjct: 17  PKQMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINY 76

Query: 115 DFVIWVVASKDLQLEQIQGSIAKKINLFNESW--------NSRSLQEKSQDIVKNMSNKK 166
           D ++W+  S               + L +E          +  S+  K       +    
Sbjct: 77  DSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPN 136

Query: 167 FVLLLDHIWELVDLSQVGLPVPCRTSASNKTVFTARELEVCGQM-EAHKSFKVERLGYED 225
            + + D + +          +        + + T R++E+     +  +  +V  L  ++
Sbjct: 137 TLFVFDDVVQEET-------IRWAQELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDE 189

Query: 226 AWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEV 285
            +   E       +       ++     +   G P  L+   ++    KT  +       
Sbjct: 190 CYDFLEAYGMPMPVGEKE--EDVLNKTIELSSGNPATLMMFFKSCEP-KTFEKMAQLNNK 246

Query: 286 LRSSAYKFSGMESRVFSRLKISYDFLP 312
           L S           V      SY  L 
Sbjct: 247 LESRGL------VGVECITPYSYKSLA 267

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	371
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	100.0
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	99.59
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	99.29
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	99.21
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	99.17
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	99.15
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	99.12
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	99.1
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.1
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	99.01
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.99
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	98.97
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	98.88
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.87
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	98.83
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	98.8
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	98.8
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.79
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	98.77
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.73
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	98.69
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.47
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	98.18
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	98.12
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	97.78
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	97.64
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	97.59
d1okkd2	207	GTPase domain of the signal recognition particle r	97.55
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.49
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.49
d2qy9a2	211	GTPase domain of the signal recognition particle r	97.47
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.46
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.44
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.43
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	97.43
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.42
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.39
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.39
d1ls1a2	207	GTPase domain of the signal sequence recognition p	97.39
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.36
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.35
d1vmaa2	213	GTPase domain of the signal recognition particle r	97.32
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.31
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.3
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.3
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.27
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.26
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.26
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	97.19
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	97.18
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.17
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.12
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.1
d1j8yf2	211	GTPase domain of the signal sequence recognition p	97.07
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.07
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	97.04
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	97.02
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.0
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.96
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.94
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	96.94
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.93
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.92
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	96.92
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	96.9
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.88
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.88
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	96.86
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	96.85
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.84
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.82
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.74
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.73
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.7
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.68
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	96.6
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	96.6
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.6
d1xpua3	289	Transcription termination factor Rho, ATPase domai	96.59
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	96.59
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	96.58
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.55
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.55
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	96.49
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	96.48
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	96.47
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.45
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	96.43
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	96.43
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	96.38
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	96.32
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	96.31
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	96.28
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.24
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	96.23
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	96.22
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	96.16
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	96.13
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	96.11
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	96.09
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	96.07
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	96.05
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	96.03
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	96.03
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	96.02
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	95.99
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	95.99
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	95.98
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	95.82
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	95.8
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	95.77
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	95.72
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	95.61
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	95.59
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	95.57
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	95.56
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	95.51
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	95.47
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	95.42
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.38
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	95.37
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	95.35
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	95.31
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	95.31
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	95.3
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	95.29
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	95.28
d2awna2	232	Maltose transport protein MalK, N-terminal domain	95.28
d1g2912	240	Maltose transport protein MalK, N-terminal domain	95.26
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.25
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	95.24
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	95.23
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	95.19
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	95.17
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	95.15
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	95.15
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	95.15
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	95.12
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	95.1
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	95.08
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	95.08
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	95.06
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	95.06
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	95.06
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	95.06
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	95.05
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	95.05
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	95.03
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	95.02
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	94.99
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	94.96
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	94.95
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	94.94
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	94.94
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	94.94
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	94.94
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	94.93
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	94.92
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	94.9
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	94.89
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	94.88
d1nrjb_	209	Signal recognition particle receptor beta-subunit	94.86
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	94.86
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	94.86
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	94.85
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	94.84
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	94.83
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	94.82
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	94.81
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	94.8
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	94.8
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	94.79
d2fh5b1	207	Signal recognition particle receptor beta-subunit	94.76
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	94.73
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	94.71
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	94.7
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	94.69
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	94.65
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	94.65
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	94.62
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	94.61
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	94.59
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	94.57
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	94.54
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	94.54
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	94.52
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	94.51
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	94.51
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	94.48
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	94.48
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	94.43
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	94.43
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	94.41
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.4
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	94.38
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	94.34
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	94.3
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	94.28
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	94.23
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	94.22
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	94.22
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	94.14
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	94.14
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	94.1
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	94.09
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	94.04
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	94.03
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	94.02
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	93.97
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	93.89
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	93.85
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	93.79
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	93.68
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	93.48
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	93.45
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	93.43
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	93.41
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	93.37
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	93.31
d1tuea_	205	Replication protein E1 helicase domain {Human papi	93.3
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	93.25
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	92.94
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	92.88
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	92.67
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	92.07
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	92.01
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	91.78
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	91.57
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	91.48
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	91.35
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	91.23
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	91.1
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	91.09
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	90.24
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	90.06
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	90.02
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	88.61
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	88.57
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	88.47
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	87.25
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	86.96
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	86.22
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	85.74
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	85.49
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	85.24
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	84.45
d1p3da1	96	UDP-N-acetylmuramate-alanine ligase MurC {Haemophi	83.57
d1g5ta_	157	ATP:corrinoid adenosyltransferase CobA {Salmonella	83.19
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	82.94
d2bmfa2	305	Dengue virus helicase {Dengue virus type 2 [TaxId:	82.92
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	82.28
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	81.1
d1d0xa2	712	Myosin S1, motor domain {Dictyostelium discoideum	80.5
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	80.23
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	80.14
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	80.09

>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=1.5e-39  Score=287.67  Aligned_cols=247  Identities=15%  Similarity=0.086  Sum_probs=193.9

Q ss_pred             CCCccccchhHHHHHHHHHhc---CCceEEEEEcCCCCcHHHHHHHHHhhccC-CCCCCCeEEEEEeCCcCCHHHHHHHH
Q 043737           60 LPPTVVGLQSTFDRVWRCLME---EQMGIVGLYGMGEVGKTTLLTQINKKFLH-TPNDFDFVIWVVASKDLQLEQIQGSI  135 (371)
Q Consensus        60 ~~~~~vGR~~~~~~l~~~L~~---~~~~~v~I~G~~GiGKTtLa~~~~~~~~~-~~~~f~~~~wv~~~~~~~~~~~~~~l  135 (371)
                      ..+.+|||+.++++|+++|.+   ...++|+|+||||+||||||++++++... ...+|++++|++++...+...+...+
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            346688999999999999864   45789999999999999999999987522 46789999999999888777666655


Q ss_pred             HHHhcc---CCC----CC-CcCCHHHHHHHHHHHhCCCceEEEEeCCCCcccccccccccCCCCCCCcEEEEecCchHHH
Q 043737          136 AKKINL---FNE----SW-NSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLSQVGLPVPCRTSASNKTVFTARELEVC  207 (371)
Q Consensus       136 ~~~l~~---~~~----~~-~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~~~~~~~~l~~~~~~~~~iliTsR~~~~~  207 (371)
                      ...+..   ...    .. ...........+.+.+.++++|+||||+|+..++..+.       ..+++||||||+..++
T Consensus        98 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~~~~~~~~-------~~~srilvTTR~~~v~  170 (277)
T d2a5yb3          98 DILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQ-------ELRLRCLVTTRDVEIS  170 (277)
T ss_dssp             HHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHHHHHH-------HTTCEEEEEESBGGGG
T ss_pred             HHHHHHhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEecchhhHHhhhhhhc-------ccCceEEEEeehHHHH
Confidence            444322   111    10 11222233445677889999999999999988776432       3478999999999988


Q ss_pred             hhccCC-CceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHHHHHcCCCChhHHHHHHHHH
Q 043737          208 GQMEAH-KSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVGRAMASKKTPREWEHAIEVL  286 (371)
Q Consensus       208 ~~~~~~-~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a~~l~~~~~~~~~~~~l~~l  286 (371)
                      ..+... ..|++++|+.+||++||.+.++...  ..+..++.+++|+++|+|+||||.++|+.|+. ++.+.|.+..+.+
T Consensus       171 ~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~--~~~~~~~~~~~iv~~c~GlPLAl~~ig~~l~~-k~~~~~~~~~~~L  247 (277)
T d2a5yb3         171 NAASQTCEFIEVTSLEIDECYDFLEAYGMPMP--VGEKEEDVLNKTIELSSGNPATLMMFFKSCEP-KTFEKMAQLNNKL  247 (277)
T ss_dssp             GGCCSCEEEEECCCCCHHHHHHHHHHTSCCCC----CHHHHHHHHHHHHHTTCHHHHHHHHTTCCS-SSHHHHHHHHHHH
T ss_pred             HhcCCCCceEECCCCCHHHHHHHHHHHhCCcc--CchhhHHHHHHHHHHhCCCHHHHHHHHHHhcc-CCHHHHHHHHHHH
Confidence            765443 5799999999999999998876543  34456788999999999999999999999986 6788999988888


Q ss_pred             hcccccCCCChhHHHHHHhhccCCCCCcchhHHhchh
Q 043737          287 RSSAYKFSGMESRVFSRLKISYDFLPGDETRFYLLYC  323 (371)
Q Consensus       287 ~~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~~l~~l  323 (371)
                      .+....      .+..++..||+.||+ +.|.||.++
T Consensus       248 ~~~~~~------~v~~il~~sY~~L~~-~lk~c~~~l  277 (277)
T d2a5yb3         248 ESRGLV------GVECITPYSYKSLAM-ALQRCVEVL  277 (277)
T ss_dssp             HHHCSS------TTCCCSSSSSSSHHH-HHHHHHHTS
T ss_pred             hcCcHH------HHHHHHHHHHhcccH-HHHHHHHhC
Confidence            765433      678899999999999 899998764

>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=99.59  E-value=1.1e-14  Score=127.08  Aligned_cols=197  Identities=16%  Similarity=0.207  Sum_probs=117.5

Q ss_pred             CCccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCC-----cCCHHHHHHHH
Q 043737           61 PPTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASK-----DLQLEQIQGSI  135 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~-----~~~~~~~~~~l  135 (371)
                      +..||||++++++|.+.    ..+.+.|+|++|+|||+|+++++++.   ...   ..|+.+..     ......+...+
T Consensus        11 ~~~f~GR~~el~~l~~~----~~~~i~i~G~~G~GKTsLl~~~~~~~---~~~---~~~i~~~~~~~~~~~~~~~~~~~~   80 (283)
T d2fnaa2          11 RKDFFDREKEIEKLKGL----RAPITLVLGLRRTGKSSIIKIGINEL---NLP---YIYLDLRKFEERNYISYKDFLLEL   80 (283)
T ss_dssp             GGGSCCCHHHHHHHHHT----CSSEEEEEESTTSSHHHHHHHHHHHH---TCC---EEEEEGGGGTTCSCCCHHHHHHHH
T ss_pred             hhhCCChHHHHHHHHhc----cCCEEEEEcCCCCcHHHHHHHHHHHC---CCC---eEEEEeccccccccccHHHHHHHH
Confidence            58899999999998763    45789999999999999999999887   332   34554321     12234444444


Q ss_pred             HHHhcc---------------------------CCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccccc--cc---
Q 043737          136 AKKINL---------------------------FNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDLS--QV---  183 (371)
Q Consensus       136 ~~~l~~---------------------------~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~~~--~~---  183 (371)
                      ......                           ...........+....+. ...++++++++|+++......  .+   
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~-~~~~~~~~i~id~~~~~~~~~~~~~~~~  159 (283)
T d2fnaa2          81 QKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFE-QASKDNVIIVLDEAQELVKLRGVNLLPA  159 (283)
T ss_dssp             HHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHH-HTCSSCEEEEEETGGGGGGCTTCCCHHH
T ss_pred             HHHhhhhhhhhHHHHHHHHhhhcccccccccccccchhhhhHHHHHHHHHH-hhcccccccccchhhhhcccchHHHHHH
Confidence            333210                           000112233334443333 345688999999986432211  11   


Q ss_pred             -ccccCCCCCCCcEEEEecCchHHHhhc------------cCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHH
Q 043737          184 -GLPVPCRTSASNKTVFTARELEVCGQM------------EAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAE  250 (371)
Q Consensus       184 -~~~l~~~~~~~~~iliTsR~~~~~~~~------------~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~  250 (371)
                       ....  ........+++++........            .....+.|.+++.+++.+++.+.+....... ++    ++
T Consensus       160 l~~~~--~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~~~l~~~~~~~~~~~-~~----~~  232 (283)
T d2fnaa2         160 LAYAY--DNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDF-KD----YE  232 (283)
T ss_dssp             HHHHH--HHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCC-CC----HH
T ss_pred             HHHHH--HhhhhhhhhhccccchHHHHHHHhhhhcchhcccceeEEeeCCCCHHHHHHHHHhhhhhcCCCH-HH----HH
Confidence             1111  122344455554443221111            1124578999999999999988764333222 22    67


Q ss_pred             HHHHHcCCCcHHHHHHHHHHcCCCC
Q 043737          251 TVAKECGGLPLALITVGRAMASKKT  275 (371)
Q Consensus       251 ~i~~~~~g~Plal~~~a~~l~~~~~  275 (371)
                      ++++.++|+|..|..++..+....+
T Consensus       233 ~i~~~~~G~P~~L~~~~~~~~~~~~  257 (283)
T d2fnaa2         233 VVYEKIGGIPGWLTYFGFIYLDNKN  257 (283)
T ss_dssp             HHHHHHCSCHHHHHHHHHHHHHHCC
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhccc
Confidence            9999999999999999877654333

>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=99.29  E-value=2.1e-10  Score=98.98  Aligned_cols=192  Identities=13%  Similarity=0.138  Sum_probs=120.0

Q ss_pred             CCCccccchhHHHHHHHHHhc------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHH
Q 043737           60 LPPTVVGLQSTFDRVWRCLME------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQG  133 (371)
Q Consensus        60 ~~~~~vGR~~~~~~l~~~L~~------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  133 (371)
                      .|..++||+.++++|.++|..      ...+.+.|+|++|+|||++|+.+++.+.  .......++++............
T Consensus        14 ~p~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~--~~~~~~~~~~~~~~~~~~~~~~~   91 (276)
T d1fnna2          14 VPKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYK--DKTTARFVYINGFIYRNFTAIIG   91 (276)
T ss_dssp             CCSCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHT--TSCCCEEEEEETTTCCSHHHHHH
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHHh--cccCCcEEEecchhhhhhhhhhh
Confidence            346789999999999998863      2457899999999999999999999982  12223567777777788888899


Q ss_pred             HHHHHhccCCCCCCcCCHHHHHHHHHHHhC--CCceEEEEeCCCCcccc-----cccccccCCCCCCCcEEEEecCchHH
Q 043737          134 SIAKKINLFNESWNSRSLQEKSQDIVKNMS--NKKFVLLLDHIWELVDL-----SQVGLPVPCRTSASNKTVFTARELEV  206 (371)
Q Consensus       134 ~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~--~~~~LlVlDdv~~~~~~-----~~~~~~l~~~~~~~~~iliTsR~~~~  206 (371)
                      .+....+..... ...........+.+.+.  ......++|++++....     ..+.............++.++.....
T Consensus        92 ~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~  170 (276)
T d1fnna2          92 EIARSLNIPFPR-RGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAV  170 (276)
T ss_dssp             HHHHHTTCCCCS-SCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHH
T ss_pred             hhHHhhhhhhhh-hccchhHHHHHHHHHHhhcccccccchhHHHHhhhhhhhhHHHHHhccccccccceEEeecCCchhh
Confidence            888887765433 44455555555555543  35677888888754221     11111111012223344444444332


Q ss_pred             Hhh-------ccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHH
Q 043737          207 CGQ-------MEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKE  255 (371)
Q Consensus       207 ~~~-------~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~  255 (371)
                      ...       ......+.+.+.+.++..+++..++.... ......++..+.|++.
T Consensus       171 ~~~~~~~~~~r~~~~~i~~~~~~~~e~~~il~~r~~~~~-~~~~~~~~~l~~ia~~  225 (276)
T d1fnna2         171 LNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGL-AEGSYSEDILQMIADI  225 (276)
T ss_dssp             HHTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHB-CTTSSCHHHHHHHHHH
T ss_pred             hhhcchhhhhhhcchhccccchhHHHHHHHHHHHHHHhc-ccccccHHHHHHHHHH
Confidence            111       11235688999999999999987653211 1111223445556554

>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=99.21  E-value=2e-11  Score=102.72  Aligned_cols=182  Identities=18%  Similarity=0.145  Sum_probs=115.2

Q ss_pred             CCccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhc
Q 043737           61 PPTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKIN  140 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~  140 (371)
                      -.++||.++.+++|..++.++..+.+.++|++|+||||+|+.+++.+. ....-..++-++.+...+...+...+.....
T Consensus        14 ~~d~ig~~~~~~~L~~~~~~~~~~~~ll~Gp~G~GKTt~a~~la~~l~-~~~~~~~~~~~n~~~~~~~~~i~~~~~~~~~   92 (224)
T d1sxjb2          14 LSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELL-GRSYADGVLELNASDDRGIDVVRNQIKHFAQ   92 (224)
T ss_dssp             GGGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHH-GGGHHHHEEEECTTSCCSHHHHHTHHHHHHH
T ss_pred             HHHhcCCHHHHHHHHHHHHcCCCCeEEEECCCCCCchhhHHHHHHHHh-ccccccccccccccccCCceehhhHHHHHHH
Confidence            367899999999999999887777788999999999999999988862 1111113444455554444444333333222


Q ss_pred             cCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCcccc--cccccccCCCCCCCcEEEEecCc-hHHH-hhccCCCce
Q 043737          141 LFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDL--SQVGLPVPCRTSASNKTVFTARE-LEVC-GQMEAHKSF  216 (371)
Q Consensus       141 ~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~~--~~~~~~l~~~~~~~~~iliTsR~-~~~~-~~~~~~~~~  216 (371)
                      .....                ..++..++|+|+++....-  ..+...+. .....+.+++++.. ..+. +..+....+
T Consensus        93 ~~~~~----------------~~~~~kviiiDe~d~~~~~~~~~ll~~~e-~~~~~~~~i~~~~~~~~i~~~l~sr~~~i  155 (224)
T d1sxjb2          93 KKLHL----------------PPGKHKIVILDEADSMTAGAQQALRRTME-LYSNSTRFAFACNQSNKIIEPLQSQCAIL  155 (224)
T ss_dssp             BCCCC----------------CTTCCEEEEEESGGGSCHHHHHTTHHHHH-HTTTTEEEEEEESCGGGSCHHHHTTSEEE
T ss_pred             hhccC----------------CCcceEEEEEecccccchhHHHHHhhhcc-ccccceeeeeccCchhhhhhHHHHHHHHh
Confidence            11100                0134569999999865332  22222222 33445566665554 3321 222455789


Q ss_pred             eecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHH
Q 043737          217 KVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLAL  263 (371)
Q Consensus       217 ~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal  263 (371)
                      .+.+++.++-..++...+.......+   .+.+..|++.++|.+...
T Consensus       156 ~~~~~~~~~i~~~l~~i~~~e~~~i~---~~~l~~I~~~s~Gd~R~a  199 (224)
T d1sxjb2         156 RYSKLSDEDVLKRLLQIIKLEDVKYT---NDGLEAIIFTAEGDMRQA  199 (224)
T ss_dssp             ECCCCCHHHHHHHHHHHHHHHTCCBC---HHHHHHHHHHHTTCHHHH
T ss_pred             hhcccchhhhHHHHHHHHHhcccCCC---HHHHHHHHHHcCCcHHHH
Confidence            99999999999999887754443332   345889999999987643

>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=99.17  E-value=5.8e-11  Score=100.00  Aligned_cols=178  Identities=15%  Similarity=0.173  Sum_probs=110.4

Q ss_pred             CCccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhc
Q 043737           61 PPTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKIN  140 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~  140 (371)
                      -..+||.++.++.|..++.++..+.+.++|++|+||||+|+.+++... .......+.-.+.+...+.............
T Consensus        13 ~~divg~~~~~~~L~~~i~~~~~~~lLl~Gp~G~GKttl~~~la~~l~-~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~   91 (227)
T d1sxjc2          13 LDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIY-GKNYSNMVLELNASDDRGIDVVRNQIKDFAS   91 (227)
T ss_dssp             GGGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHH-TTSHHHHEEEECTTSCCSHHHHHTHHHHHHH
T ss_pred             HHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChhHHHHHHHHHhh-cCCCcceeEEecccccCCeeeeecchhhccc
Confidence            367999999999999999887776788999999999999999999862 1111112222333333333322222221111


Q ss_pred             cCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc--ccccccccCCCCCCCcEEEEecCchH-HHh-hccCCCce
Q 043737          141 LFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD--LSQVGLPVPCRTSASNKTVFTARELE-VCG-QMEAHKSF  216 (371)
Q Consensus       141 ~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~~~iliTsR~~~-~~~-~~~~~~~~  216 (371)
                      ...                 ...++..++|+|+++....  ...+...+. .....+.++++|.... +.. .......+
T Consensus        92 ~~~-----------------~~~~~~kiiiiDe~d~~~~~~~~~Ll~~le-~~~~~~~~~~~~~~~~~i~~~i~sr~~~i  153 (227)
T d1sxjc2          92 TRQ-----------------IFSKGFKLIILDEADAMTNAAQNALRRVIE-RYTKNTRFCVLANYAHKLTPALLSQCTRF  153 (227)
T ss_dssp             BCC-----------------SSSCSCEEEEETTGGGSCHHHHHHHHHHHH-HTTTTEEEEEEESCGGGSCHHHHTTSEEE
T ss_pred             ccc-----------------ccCCCeEEEEEeccccchhhHHHHHHHHhh-hcccceeeccccCcHHHhHHHHHHHHhhh
Confidence            100                 0123445899999986532  222322233 3345667777666532 211 22445678


Q ss_pred             eecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCc
Q 043737          217 KVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLP  260 (371)
Q Consensus       217 ~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~P  260 (371)
                      .+.+++.++...++.+.+.......+   .+.++.|++.++|..
T Consensus       154 ~~~~~~~~~i~~~l~~I~~~e~i~i~---~~~l~~i~~~s~Gd~  194 (227)
T d1sxjc2         154 RFQPLPQEAIERRIANVLVHEKLKLS---PNAEKALIELSNGDM  194 (227)
T ss_dssp             ECCCCCHHHHHHHHHHHHHTTTCCBC---HHHHHHHHHHHTTCH
T ss_pred             ccccccccccccccccccccccccCC---HHHHHHHHHHcCCcH
Confidence            99999999999999988765543332   355788999998864

>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=99.15  E-value=4.7e-11  Score=101.20  Aligned_cols=190  Identities=12%  Similarity=0.103  Sum_probs=113.9

Q ss_pred             CCccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhc
Q 043737           61 PPTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKIN  140 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~  140 (371)
                      -..++|+++.++.|..++.+...+.+.++|++|+||||+|+.+++++............++.+...........+-....
T Consensus        11 ~~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (237)
T d1sxjd2          11 LDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKVKNFAR   90 (237)
T ss_dssp             TTTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTTHHHHHHH
T ss_pred             HHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheeccccccchHHHHHHHHHhh
Confidence            36689999999999999987777778999999999999999999885211111223444455544444443333322221


Q ss_pred             cCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc--ccccccccCCCCCCCcEEEEecCch-HH-HhhccCCCce
Q 043737          141 LFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD--LSQVGLPVPCRTSASNKTVFTAREL-EV-CGQMEAHKSF  216 (371)
Q Consensus       141 ~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~~~iliTsR~~-~~-~~~~~~~~~~  216 (371)
                      ..... ...      ..+.....++.-++|+|+++....  ...+...+. .....+.+++|+... .. ....+....+
T Consensus        91 ~~~~~-~~~------~~~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~-~~~~~~~~i~~~~~~~~~~~~l~sr~~~i  162 (237)
T d1sxjd2          91 LTVSK-PSK------HDLENYPCPPYKIIILDEADSMTADAQSALRRTME-TYSGVTRFCLICNYVTRIIDPLASQCSKF  162 (237)
T ss_dssp             SCCCC-CCT------THHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHH-HTTTTEEEEEEESCGGGSCHHHHHHSEEE
T ss_pred             hhhhh-hhH------HHHhhccccCceEEEEecccccCHHHHHHHhhccc-cccccccccccccccccccccccchhhhh
Confidence            11110 100      111122233444899999986532  222222222 234455666655442 22 1112234678


Q ss_pred             eecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcH
Q 043737          217 KVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPL  261 (371)
Q Consensus       217 ~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl  261 (371)
                      .+.+++.++...++.+.+.......+   .+..+.|++.++|.+.
T Consensus       163 ~f~~~~~~~~~~~L~~i~~~e~i~i~---~~~l~~ia~~s~gd~R  204 (237)
T d1sxjd2         163 RFKALDASNAIDRLRFISEQENVKCD---DGVLERILDISAGDLR  204 (237)
T ss_dssp             ECCCCCHHHHHHHHHHHHHTTTCCCC---HHHHHHHHHHTSSCHH
T ss_pred             ccccccccccchhhhhhhhhhcCcCC---HHHHHHHHHHcCCCHH
Confidence            99999999999999988765543332   4568999999988653

>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=99.12  E-value=5.6e-10  Score=94.60  Aligned_cols=181  Identities=15%  Similarity=0.168  Sum_probs=109.5

Q ss_pred             CccccchhHHHHHHHHHhcCC-ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCC-------------------eEEEEE
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQ-MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFD-------------------FVIWVV  121 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~-------------------~~~wv~  121 (371)
                      ..++|.++.++.|..++..++ ...+.|+|++|+|||++|+.+++.+.. .....                   .++.++
T Consensus        12 ~dlig~~~~~~~L~~~i~~~~~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~-~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~   90 (239)
T d1njfa_          12 ADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNC-ETGITATPCGVCDNCREIEQGRFVDLIEID   90 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHTTCCCSEEEEECSTTSSHHHHHHHHHHHHHC-TTCSCSSCCSCSHHHHHHHHTCCTTEEEEE
T ss_pred             HHccChHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcC-ccccccCccccchHHHHHHcCCCCeEEEec
Confidence            568999999999999997765 456889999999999999999887621 11110                   122222


Q ss_pred             eCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc--ccccccccCCCCCCCcEEEE
Q 043737          122 ASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD--LSQVGLPVPCRTSASNKTVF  199 (371)
Q Consensus       122 ~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~~~ili  199 (371)
                      .+....... .+.+...+....                  ..++..++|||+++....  ...+...+. ....++.+|+
T Consensus        91 ~~~~~~i~~-ir~~~~~~~~~~------------------~~~~~kviiIde~d~l~~~~q~~Llk~lE-~~~~~~~~il  150 (239)
T d1njfa_          91 AASRTKVED-TRDLLDNVQYAP------------------ARGRFKVYLIDEVHMLSRHSFNALLKTLE-EPPEHVKFLL  150 (239)
T ss_dssp             TTCSSSHHH-HHHHHHSCCCSC------------------SSSSSEEEEEETGGGSCHHHHHHHHHHHH-SCCTTEEEEE
T ss_pred             chhcCCHHH-HHHHHHHHHhcc------------------ccCCCEEEEEECcccCCHHHHHHHHHHHh-cCCCCeEEEE
Confidence            222211111 112222221100                  123456999999986532  222333333 3345666666


Q ss_pred             ecCch-HHH-hhccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcH-HHHHH
Q 043737          200 TAREL-EVC-GQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPL-ALITV  266 (371)
Q Consensus       200 TsR~~-~~~-~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl-al~~~  266 (371)
                      +|.+. .+. +..+....+.+.+++.++..+.+...+.......   .++.+..|++.++|.+. |+.++
T Consensus       151 ~tn~~~~i~~~i~SRc~~i~~~~~~~~~i~~~l~~i~~~e~~~~---~~~~l~~i~~~s~Gd~R~ain~l  217 (239)
T d1njfa_         151 ATTDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAH---EPRALQLLARAAEGSLRDALSLT  217 (239)
T ss_dssp             EESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCCB---CHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             EcCCccccChhHhhhhcccccccCcHHHhhhHHHHHHhhhccCC---CHHHHHHHHHHcCCCHHHHHHHH
Confidence            66553 222 2224456789999999999999888775433222   24568899999999885 55444

>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=99.10  E-value=1e-10  Score=98.77  Aligned_cols=179  Identities=15%  Similarity=0.097  Sum_probs=107.9

Q ss_pred             CCccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCC-eEEEEEeCCcCCHHHHHHHHHHHh
Q 043737           61 PPTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFD-FVIWVVASKDLQLEQIQGSIAKKI  139 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~-~~~wv~~~~~~~~~~~~~~l~~~l  139 (371)
                      -..++|.++..+.|..++.++..+.+.|+|++|+||||+|+.+++.+.  ...+. ..+-++.+...+...+...+....
T Consensus        23 ~~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtla~~iak~l~--~~~~~~~~~e~n~s~~~~~~~~~~~~~~~~  100 (231)
T d1iqpa2          23 LDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELF--GENWRHNFLELNASDERGINVIREKVKEFA  100 (231)
T ss_dssp             TTTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHH--GGGHHHHEEEEETTCHHHHHTTHHHHHHHH
T ss_pred             HHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCcHHHHHHHHHHHHH--hcccCCCeeEEecCcccchhHHHHHHHHHH
Confidence            467999999999999999888888899999999999999999998762  11111 223333333222111111111111


Q ss_pred             ccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc--ccccccccCCCCCCCcEEEEecCc-hHHHh-hccCCCc
Q 043737          140 NLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD--LSQVGLPVPCRTSASNKTVFTARE-LEVCG-QMEAHKS  215 (371)
Q Consensus       140 ~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~~~iliTsR~-~~~~~-~~~~~~~  215 (371)
                      ....                 ....++.++++|+++....  ...+...+. .....+.+++||.. ..+.. .......
T Consensus       101 ~~~~-----------------~~~~~~~iilide~d~~~~~~~~~ll~~l~-~~~~~~~~i~~~n~~~~i~~~l~sR~~~  162 (231)
T d1iqpa2         101 RTKP-----------------IGGASFKIIFLDEADALTQDAQQALRRTME-MFSSNVRFILSCNYSSKIIEPIQSRCAI  162 (231)
T ss_dssp             HSCC-----------------GGGCSCEEEEEETGGGSCHHHHHHHHHHHH-HTTTTEEEEEEESCGGGSCHHHHHTEEE
T ss_pred             hhhh-----------------ccCCCceEEeehhhhhcchhHHHHHhhhcc-cCCcceEEEeccCChhhchHhHhCcccc
Confidence            1000                 0123567999999975422  222222222 22334455555443 32211 1233467


Q ss_pred             eeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHH
Q 043737          216 FKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLA  262 (371)
Q Consensus       216 ~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pla  262 (371)
                      +.+.+.+.++....+.+.+.......+   .+..+.|++.++|....
T Consensus       163 i~~~~~~~~~~~~~l~~~~~~e~i~i~---~~~l~~I~~~~~gdiR~  206 (231)
T d1iqpa2         163 FRFRPLRDEDIAKRLRYIAENEGLELT---EEGLQAILYIAEGDMRR  206 (231)
T ss_dssp             EECCCCCHHHHHHHHHHHHHTTTCEEC---HHHHHHHHHHHTTCHHH
T ss_pred             ccccccchhhHHHHHHHHHHHhCCCCC---HHHHHHHHHHcCCCHHH
Confidence            899999999999999988865543222   34578899999887543

>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=99.10  E-value=6.4e-10  Score=94.74  Aligned_cols=155  Identities=13%  Similarity=0.207  Sum_probs=101.2

Q ss_pred             CccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCC--C-CCCe-EEEEEeCCcCCHHHHHHHHHH
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTP--N-DFDF-VIWVVASKDLQLEQIQGSIAK  137 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~--~-~f~~-~~wv~~~~~~~~~~~~~~l~~  137 (371)
                      +..+||+++++++...|.......+.|+|++|+|||+++..++++.....  . .... ++.++.+.-            
T Consensus        18 d~~igRd~Ei~~l~~iL~r~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~l------------   85 (268)
T d1r6bx2          18 DPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSL------------   85 (268)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC--------------
T ss_pred             CcccChHHHHHHHHHHHhcCccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechH------------
Confidence            34799999999999999876677888999999999999999998863211  1 1223 333333321            


Q ss_pred             HhccCCCCCCcCCHHHHHHHHHHHhC-CCceEEEEeCCCCccc----------ccccccccCCCCCCCcEEEEecCchHH
Q 043737          138 KINLFNESWNSRSLQEKSQDIVKNMS-NKKFVLLLDHIWELVD----------LSQVGLPVPCRTSASNKTVFTARELEV  206 (371)
Q Consensus       138 ~l~~~~~~~~~~~~~~~~~~l~~~l~-~~~~LlVlDdv~~~~~----------~~~~~~~l~~~~~~~~~iliTsR~~~~  206 (371)
                         .... ......++....+...+. .++.++++|+++....          ...+..++  -.....++|.||....+
T Consensus        86 ---iag~-~~~g~~e~r~~~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~--L~rg~i~vIgatT~eey  159 (268)
T d1r6bx2          86 ---LAGT-KYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPL--LSSGKIRVIGSTTYQEF  159 (268)
T ss_dssp             ----CCC-CCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSC--SSSCCCEEEEEECHHHH
T ss_pred             ---hccC-ccchhHHHHHHHHHHHhhccCCceEEecchHHHhcCCCCCCccccHHHHhhHH--HhCCCCeEEEeCCHHHH
Confidence               0011 134445555555555553 4678999999975521          11222222  23556788888888776


Q ss_pred             Hhhcc-------CCCceeecCCChHHHHHHHHHHh
Q 043737          207 CGQME-------AHKSFKVERLGYEDAWKLFEEKV  234 (371)
Q Consensus       207 ~~~~~-------~~~~~~l~~L~~~ea~~ll~~~~  234 (371)
                      .....       ..+.+.+++.+.+++..++....
T Consensus       160 ~~~~e~d~al~rrF~~I~V~Eps~e~t~~IL~~~~  194 (268)
T d1r6bx2         160 SNIFEKDRALARRFQKIDITEPSIEETVQIINGLK  194 (268)
T ss_dssp             HCCCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHH
T ss_pred             HHHHhhcHHHHhhhcccccCCCCHHHHHHHHHHhh
Confidence            44332       24578999999999999997643

>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=99.01  E-value=9.1e-09  Score=88.90  Aligned_cols=196  Identities=13%  Similarity=0.117  Sum_probs=117.3

Q ss_pred             CCCCccccchhHHHHHHHHHhc----C----C-ceEEEEEcCCCCcHHHHHHHHHhhccCC---CCCCCeEEEEEeCCcC
Q 043737           59 PLPPTVVGLQSTFDRVWRCLME----E----Q-MGIVGLYGMGEVGKTTLLTQINKKFLHT---PNDFDFVIWVVASKDL  126 (371)
Q Consensus        59 ~~~~~~vGR~~~~~~l~~~L~~----~----~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~---~~~f~~~~wv~~~~~~  126 (371)
                      -.|+.++||+.++++|.+++..    +    . ..++.|+|++|+|||++++.+++.+...   ........+++.....
T Consensus        13 ~~P~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~   92 (287)
T d1w5sa2          13 YIPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAP   92 (287)
T ss_dssp             CCCSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCC
T ss_pred             cCCCCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeecccccc
Confidence            3467899999999999887642    1    1 1246678999999999999999886211   1222456777877777


Q ss_pred             CHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhC--CCceEEEEeCCCCcccc-----------ccccccc-CCCCC
Q 043737          127 QLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMS--NKKFVLLLDHIWELVDL-----------SQVGLPV-PCRTS  192 (371)
Q Consensus       127 ~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~--~~~~LlVlDdv~~~~~~-----------~~~~~~l-~~~~~  192 (371)
                      +...........++..... ...........+.....  +...++++|.++.....           ..+...+ .....
T Consensus        93 ~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~l~~~~~~~~~~~~~l~~l~~~l~~~~~~  171 (287)
T d1w5sa2          93 NLYTILSLIVRQTGYPIQV-RGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGV  171 (287)
T ss_dssp             SHHHHHHHHHHHHTCCCCC-TTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSC
T ss_pred             chhhHHHHHhhhccccccc-ccchHHHHHHHHHHHHHhccCccccceeEEEEeccccccchhHHHHHHHHHHhcchhhcc
Confidence            8888888888877654433 44555555555555443  46678888888633211           1111111 11112


Q ss_pred             CCcE-EEEecCchHHH-------h-hccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHc
Q 043737          193 ASNK-TVFTARELEVC-------G-QMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKEC  256 (371)
Q Consensus       193 ~~~~-iliTsR~~~~~-------~-~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~  256 (371)
                      .... |++++......       . .......+.+++++.++..+++..++.... ....-.++..+.|++.+
T Consensus       172 ~~~~~i~i~~~~~~~~~~~~~~~~~~~r~~~~i~f~~y~~~el~~Il~~r~~~~~-~~~~~~~~al~~ia~~~  243 (287)
T d1w5sa2         172 NRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGL-RDTVWEPRHLELISDVY  243 (287)
T ss_dssp             CBEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHB-CTTSCCHHHHHHHHHHH
T ss_pred             cceeEEeecccHHHHHHHHhhccchhcccceeeeccCCcHHHHHHHHhhhHHHhh-ccCCCCHHHHHHHHHHH
Confidence            2333 33444332211       1 112245788999999999999988763211 11112245566676665

>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=98.99  E-value=2.5e-10  Score=92.04  Aligned_cols=151  Identities=13%  Similarity=0.180  Sum_probs=91.3

Q ss_pred             CccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCC---CCCCeEEE-EEeCCcCCHHHHHHHHHH
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTP---NDFDFVIW-VVASKDLQLEQIQGSIAK  137 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~---~~f~~~~w-v~~~~~~~~~~~~~~l~~  137 (371)
                      +..+||+++++++...|.......+.++|++|+|||+++..++++.....   ...+..+| ++.+      .+.    .
T Consensus        22 d~~igRd~Ei~~l~~iL~r~~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~------~Li----A   91 (195)
T d1jbka_          22 DPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMG------ALV----A   91 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHH------HHH----T
T ss_pred             CCCcCcHHHHHHHHHHHhccCCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHH------HHh----c
Confidence            34699999999999999876677889999999999999999998873211   11223333 3321      111    0


Q ss_pred             HhccCCCCCCcCCHHHHHHHHHHHh--CCCceEEEEeCCCCccc---------ccccccccCCCCCCCcEEEEecCchHH
Q 043737          138 KINLFNESWNSRSLQEKSQDIVKNM--SNKKFVLLLDHIWELVD---------LSQVGLPVPCRTSASNKTVFTARELEV  206 (371)
Q Consensus       138 ~l~~~~~~~~~~~~~~~~~~l~~~l--~~~~~LlVlDdv~~~~~---------~~~~~~~l~~~~~~~~~iliTsR~~~~  206 (371)
                      ...      .....++....+...+  ...+++|++|+++....         ...+..+.  -.....++|.||..+.+
T Consensus        92 g~~------~rG~~E~rl~~il~e~~~~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~--L~rg~l~~IgatT~eey  163 (195)
T d1jbka_          92 GAK------YRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPA--LARGELHCVGATTLDEY  163 (195)
T ss_dssp             TTC------SHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHH--HHTTSCCEEEEECHHHH
T ss_pred             cCC------ccHHHHHHHHHHHHHHhcCCCcEEEEcchHHHHhcCCCCCCcccHHHHHHHH--HhCCCceEEecCCHHHH
Confidence            000      1112233333333333  24578999999975421         11111111  12345678888887665


Q ss_pred             Hhhc-------cCCCceeecCCChHHHHHHH
Q 043737          207 CGQM-------EAHKSFKVERLGYEDAWKLF  230 (371)
Q Consensus       207 ~~~~-------~~~~~~~l~~L~~~ea~~ll  230 (371)
                      ....       ...+.+.+.+.+.+++..++
T Consensus       164 ~~~~e~d~aL~rrF~~I~V~Ep~~e~t~~IL  194 (195)
T d1jbka_         164 RQYIEKDAALERRFQKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             HHHTTTCHHHHTTEEEEECCCCCHHHHHTTC
T ss_pred             HHHHHcCHHHHhcCCEeecCCCCHHHHHHHh
Confidence            4322       23467889999998887643

>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=98.97  E-value=5e-10  Score=95.61  Aligned_cols=191  Identities=10%  Similarity=0.103  Sum_probs=99.2

Q ss_pred             CCccccchhHHHHHHHHHhcC-CceEEEEEcCCCCcHHHHHHHHHhhccCCC---CCCCeEEEEEeCCc-----------
Q 043737           61 PPTVVGLQSTFDRVWRCLMEE-QMGIVGLYGMGEVGKTTLLTQINKKFLHTP---NDFDFVIWVVASKD-----------  125 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~~-~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~---~~f~~~~wv~~~~~-----------  125 (371)
                      -..++|+++..+.|..++.+. ..+.+.|+|++|+||||+|+.+++.+....   ...+...+......           
T Consensus        10 ~~diig~~~~~~~L~~~~~~~~~~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (252)
T d1sxje2          10 LNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVVSSPY   89 (252)
T ss_dssp             GGGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCEECSS
T ss_pred             HHHccCcHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHhhcCccccccccccccccccccchhhhhhccCCc
Confidence            356899999989888887653 345688999999999999999998862111   11111111110000           


Q ss_pred             ----------CCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc--ccccccccCCCCCC
Q 043737          126 ----------LQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD--LSQVGLPVPCRTSA  193 (371)
Q Consensus       126 ----------~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~  193 (371)
                                ....................      .  ...-.....++.-++|||+++....  ...+...+. ....
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~--~~~~~~~~~~~~~iiiide~d~l~~~~~~~l~~~~e-~~~~  160 (252)
T d1sxje2          90 HLEITPSDMGNNDRIVIQELLKEVAQMEQV------D--FQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTME-KYSK  160 (252)
T ss_dssp             EEEECCC----CCHHHHHHHHHHHTTTTC--------------------CCEEEEEECTTSSCHHHHHHHHHHHH-HSTT
T ss_pred             cceeeecccccCCcceeeehhhhhhhhhhh------h--hhhcccccCCCceEEEeccccccccccchhhhcccc-cccc
Confidence                      00011111111111000000      0  0000011123445899999986522  222222222 3345


Q ss_pred             CcEEEEecCchH-HH-hhccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHH
Q 043737          194 SNKTVFTARELE-VC-GQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLA  262 (371)
Q Consensus       194 ~~~iliTsR~~~-~~-~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pla  262 (371)
                      ++++|+||.+.. +. +..+....+++.+++.++..+++...+.........  ++..+.|++.+.|.+..
T Consensus       161 ~~~~Il~tn~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~i~~~e~~~~~~--~~~l~~i~~~s~Gd~R~  229 (252)
T d1sxje2         161 NIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLET--KDILKRIAQASNGNLRV  229 (252)
T ss_dssp             TEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCEECC--SHHHHHHHHHHTTCHHH
T ss_pred             cccceeeeccccchhhhhhcchheeeecccchhhHHHHHHHHHHHcCCCCCc--HHHHHHHHHHcCCcHHH
Confidence            666666665432 21 111234578999999999999998776433322222  24578899999888653

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.88  E-value=4.3e-09  Score=89.71  Aligned_cols=185  Identities=13%  Similarity=0.090  Sum_probs=105.4

Q ss_pred             CCccccchhHHHHHHHHHhc-----------------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeC
Q 043737           61 PPTVVGLQSTFDRVWRCLME-----------------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVAS  123 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~-----------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~  123 (371)
                      -..++|.++.+++|..++..                 ...+.+.++||+|+||||+|+.+++..   .   ..+.+++.+
T Consensus        13 ~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~---~---~~~~~~~~~   86 (253)
T d1sxja2          13 LQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQEL---G---YDILEQNAS   86 (253)
T ss_dssp             GGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHT---T---CEEEEECTT
T ss_pred             HHHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHH---H---hhhhccccc
Confidence            36789999999999998753                 234689999999999999999999987   2   134566655


Q ss_pred             CcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCcccc-----cccccccCCCCCCCcEEE
Q 043737          124 KDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVDL-----SQVGLPVPCRTSASNKTV  198 (371)
Q Consensus       124 ~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~~-----~~~~~~l~~~~~~~~~il  198 (371)
                      ...+...+... ................    ........++..++++|+++.....     ..+.....  ......++
T Consensus        87 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~----~~~~~~~~~~~~vi~ide~~~~~~~~~~~~~~~~~~~~--~~~~~ii~  159 (253)
T d1sxja2          87 DVRSKTLLNAG-VKNALDNMSVVGYFKH----NEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCR--KTSTPLIL  159 (253)
T ss_dssp             SCCCHHHHHHT-GGGGTTBCCSTTTTTC--------CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHH--HCSSCEEE
T ss_pred             cchhhHHHHHH-HHHHhhcchhhhhhhh----hhhcccccccceEEEeeeccccccchhhhhHHHhhhhc--cccccccc
Confidence            54444333222 2211111100000000    0011112346778999998744221     11111111  11122333


Q ss_pred             EecC-ch-HHHhhccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcH
Q 043737          199 FTAR-EL-EVCGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPL  261 (371)
Q Consensus       199 iTsR-~~-~~~~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl  261 (371)
                      +++. .. .+.........+.+.+.+.++-...+...........+++   ..+.|++.++|...
T Consensus       160 i~~~~~~~~~~~l~~~~~~i~f~~~~~~~i~~~l~~i~~~e~i~i~~~---~l~~i~~~s~GDiR  221 (253)
T d1sxja2         160 ICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLDPN---VIDRLIQTTRGDIR  221 (253)
T ss_dssp             EESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCCTT---HHHHHHHHTTTCHH
T ss_pred             ccccccccccccccceeeeeeccccchhHHHHHHHHHHHHhCCCCCHH---HHHHHHHhCCCcHH
Confidence            3332 22 2222223456799999999999999988765434334443   37889999999763

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=98.87  E-value=7.7e-09  Score=92.89  Aligned_cols=154  Identities=12%  Similarity=0.181  Sum_probs=91.0

Q ss_pred             CccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCC--C-CCCCe-EEEEEeCCcCCHHHHHHHHHH
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHT--P-NDFDF-VIWVVASKDLQLEQIQGSIAK  137 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~--~-~~f~~-~~wv~~~~~~~~~~~~~~l~~  137 (371)
                      +.++||+.+++++...|.......+.|+|++|+|||+++..+++++...  . .-.+. +++++++.-          +.
T Consensus        22 d~~~gr~~ei~~~~~~L~r~~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l----------~a   91 (387)
T d1qvra2          22 DPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSL----------LA   91 (387)
T ss_dssp             CCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC---------------
T ss_pred             CCCcCcHHHHHHHHHHHhcCCCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhh----------hc
Confidence            3479999999999999987666667888999999999998888775321  1 12233 444444321          00


Q ss_pred             HhccCCCCCCcCCHHHHHHHHHHHh-C-CCceEEEEeCCCCccc---------ccc-cccccCCCCCCCcEEEEecCchH
Q 043737          138 KINLFNESWNSRSLQEKSQDIVKNM-S-NKKFVLLLDHIWELVD---------LSQ-VGLPVPCRTSASNKTVFTARELE  205 (371)
Q Consensus       138 ~l~~~~~~~~~~~~~~~~~~l~~~l-~-~~~~LlVlDdv~~~~~---------~~~-~~~~l~~~~~~~~~iliTsR~~~  205 (371)
                      ...      .....++.+..+...+ . ..+++|++|+++....         ... +...+   .....++|.+|....
T Consensus        92 g~~------~~g~~e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L---~rg~~~~I~~tT~~e  162 (387)
T d1qvra2          92 GAK------YRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPAL---ARGELRLIGATTLDE  162 (387)
T ss_dssp             ------------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHH---HTTCCCEEEEECHHH
T ss_pred             ccC------cchhHHHHHHHHHHHhccCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHH---hCCCcceeeecCHHH
Confidence            000      1223344444444433 2 3478999999986521         111 11112   234567888777766


Q ss_pred             HHhh------ccCCCceeecCCChHHHHHHHHHHh
Q 043737          206 VCGQ------MEAHKSFKVERLGYEDAWKLFEEKV  234 (371)
Q Consensus       206 ~~~~------~~~~~~~~l~~L~~~ea~~ll~~~~  234 (371)
                      +...      ...++.+.+.+.+.+++..++....
T Consensus       163 y~~~e~d~al~rrF~~v~v~ep~~~~~~~il~~~~  197 (387)
T d1qvra2         163 YREIEKDPALERRFQPVYVDEPTVEETISILRGLK  197 (387)
T ss_dssp             HHHHTTCTTTCSCCCCEEECCCCHHHHHHHHHHHH
T ss_pred             HHHhcccHHHHHhcccccCCCCcHHHHHHHHHHHH
Confidence            5321      1245689999999999999987654

>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=98.83  E-value=8e-09  Score=85.41  Aligned_cols=148  Identities=16%  Similarity=0.171  Sum_probs=89.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhC
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMS  163 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~  163 (371)
                      ..+.|+|++|+|||.|++.+++...   .....+++++.      .++...+...+...       ...    .+.+.+.
T Consensus        37 n~l~l~G~~G~GKTHLl~A~~~~~~---~~~~~~~~~~~------~~~~~~~~~~~~~~-------~~~----~~~~~~~   96 (213)
T d1l8qa2          37 NPIFIYGSVGTGKTHLLQAAGNEAK---KRGYRVIYSSA------DDFAQAMVEHLKKG-------TIN----EFRNMYK   96 (213)
T ss_dssp             SSEEEECSSSSSHHHHHHHHHHHHH---HTTCCEEEEEH------HHHHHHHHHHHHHT-------CHH----HHHHHHH
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHhc---cCccceEEech------HHHHHHHHHHHHcc-------chh----hHHHHHh
Confidence            4588999999999999999999983   23335666643      34444444444211       111    2222222


Q ss_pred             CCceEEEEeCCCCcc---cccc-cccccCCCCCCCcEEEEecCchH---------HHhhccCCCceeecCCChHHHHHHH
Q 043737          164 NKKFVLLLDHIWELV---DLSQ-VGLPVPCRTSASNKTVFTARELE---------VCGQMEAHKSFKVERLGYEDAWKLF  230 (371)
Q Consensus       164 ~~~~LlVlDdv~~~~---~~~~-~~~~l~~~~~~~~~iliTsR~~~---------~~~~~~~~~~~~l~~L~~~ea~~ll  230 (371)
                      + --+|+|||++...   .++. +...+......+..+|+||+...         +.+.+.....+.++ .+.++-.+++
T Consensus        97 ~-~dll~iDDi~~i~~~~~~~~~lf~lin~~~~~~~~iiits~~~p~~l~~~~~dL~SRL~~g~~~~i~-p~d~~~~~iL  174 (213)
T d1l8qa2          97 S-VDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGGILVEIE-LDNKTRFKII  174 (213)
T ss_dssp             T-CSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEEEECC-CCHHHHHHHH
T ss_pred             h-ccchhhhhhhhhcCchHHHHHHHHHHHHHhhccceEEEecCCcchhccccchHHHHHhhCceEEEEC-CCcHHHHHHH
Confidence            2 2399999997542   2322 22223223456788999998643         33344566778886 5777788888


Q ss_pred             HHHhCCCCCCCCCCHHHHHHHHHHHc
Q 043737          231 EEKVGKEILDSHPDIPELAETVAKEC  256 (371)
Q Consensus       231 ~~~~~~~~~~~~~~~~~~~~~i~~~~  256 (371)
                      ++.+.......+   ++.++.|++.+
T Consensus       175 ~~~a~~rgl~l~---~~v~~yl~~~~  197 (213)
T d1l8qa2         175 KEKLKEFNLELR---KEVIDYLLENT  197 (213)
T ss_dssp             HHHHHHTTCCCC---HHHHHHHHHHC
T ss_pred             HHHHHHcCCCCC---HHHHHHHHHhc
Confidence            888754443333   34567777665

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=98.80  E-value=1.4e-07  Score=79.21  Aligned_cols=170  Identities=16%  Similarity=0.158  Sum_probs=99.5

Q ss_pred             CccccchhHHHHHHHHHhc-----CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHH
Q 043737           62 PTVVGLQSTFDRVWRCLME-----EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIA  136 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~-----~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~  136 (371)
                      ..+||-++.+++|..++..     ...+.+.++||+|+|||++|+.+++..   ...   ...++........++. .+ 
T Consensus         9 ~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~---~~~---~~~~~~~~~~~~~~~~-~~-   80 (238)
T d1in4a2           9 DEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASEL---QTN---IHVTSGPVLVKQGDMA-AI-   80 (238)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHH---TCC---EEEEETTTCCSHHHHH-HH-
T ss_pred             HHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHhcc---CCC---cccccCcccccHHHHH-HH-
Confidence            6689999999999888753     235678899999999999999999987   222   2233333322222211 11 


Q ss_pred             HHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc---------cccccc-----------ccCCCCCCCcE
Q 043737          137 KKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD---------LSQVGL-----------PVPCRTSASNK  196 (371)
Q Consensus       137 ~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~---------~~~~~~-----------~l~~~~~~~~~  196 (371)
                                           +.  ..+++..+++|+++....         .+....           ... ....++.
T Consensus        81 ---------------------~~--~~~~~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~  136 (238)
T d1in4a2          81 ---------------------LT--SLERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIR-IDIQPFT  136 (238)
T ss_dssp             ---------------------HH--HCCTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC----------------CCCE
T ss_pred             ---------------------HH--hhccCCchHHHHHHHhhhHHHhhcccceeeeeeeeeecCcccccccc-cCCCCeE
Confidence                                 11  123456778888765421         010000           000 1122444


Q ss_pred             EEEec-CchHHHh--hccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHH
Q 043737          197 TVFTA-RELEVCG--QMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITV  266 (371)
Q Consensus       197 iliTs-R~~~~~~--~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~  266 (371)
                      +|++| +......  .......+.++..+.++...++..........   ..++.+..+++.++|.+..+..+
T Consensus       137 ~I~at~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~---~~~~~l~~i~~~s~gd~R~ai~~  206 (238)
T d1in4a2         137 LVGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMDVE---IEDAAAEMIAKRSRGTPRIAIRL  206 (238)
T ss_dssp             EEEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTCC---BCHHHHHHHHHTSTTCHHHHHHH
T ss_pred             EEEecCCCccccccceeeeeEEEEecCCCHHHHHHHHHHhhhhccch---hhHHHHHHHHHhCCCCHHHHHHH
Confidence            55444 4433211  11233457899999999999998877544322   23456889999999987655433

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=98.80  E-value=1.2e-07  Score=79.68  Aligned_cols=174  Identities=13%  Similarity=0.036  Sum_probs=100.6

Q ss_pred             CCccccchhHHHHHHHHHhc-----CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHH
Q 043737           61 PPTVVGLQSTFDRVWRCLME-----EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSI  135 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~-----~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l  135 (371)
                      -+.+||-++..++|..++..     ...+.+.++||+|+||||+|+.+++..   ...   ..+++.+.........   
T Consensus         8 ~ddivGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~~~---~~~---~~~~~~~~~~~~~~~~---   78 (239)
T d1ixsb2           8 LDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHEL---GVN---LRVTSGPAIEKPGDLA---   78 (239)
T ss_dssp             GGGSCSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHHHH---TCC---EEEEETTTCCSHHHHH---
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHh---CCC---eEeccCCccccchhhH---
Confidence            36689999999988888753     245678899999999999999999887   222   2334433322221111   


Q ss_pred             HHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc---------cccc--ccccC--------CCCCCCcE
Q 043737          136 AKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD---------LSQV--GLPVP--------CRTSASNK  196 (371)
Q Consensus       136 ~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~---------~~~~--~~~l~--------~~~~~~~~  196 (371)
                                          ..+...+ +...++++|+++....         .+..  .....        ....+...
T Consensus        79 --------------------~~~~~~~-~~~~i~~iDe~~~~~~~~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~  137 (239)
T d1ixsb2          79 --------------------AILANSL-EEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFT  137 (239)
T ss_dssp             --------------------HHHHTTC-CTTCEEEEETGGGCCHHHHHHHHHHHHHSEEEEECSCTTCCCEEEEECCCCE
T ss_pred             --------------------HHHHhhc-cCCCeeeeecccccchhHHHhhhhhhhhhhhhhhhccchhhhhcccCCCCEE
Confidence                                1111111 2334677788864311         0000  00000        01122333


Q ss_pred             EEE-ecCchHH--HhhccCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHHHHHH
Q 043737          197 TVF-TARELEV--CGQMEAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLALITVG  267 (371)
Q Consensus       197 ili-TsR~~~~--~~~~~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal~~~a  267 (371)
                      ++. |++....  .........+.+.+.+.++....+...........   ..+..+.|++.++|.+.....+.
T Consensus       138 ~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~i~~---~~~~l~~ia~~s~gd~R~a~~~l  208 (239)
T d1ixsb2         138 LIGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGVRI---TEEAALEIGRRSRGTMRVAKRLF  208 (239)
T ss_dssp             EEEEESCCSSCSCGGGGGCSEEEECCCCCHHHHHHHHHHHHGGGCCCB---CHHHHHHHHHHTTSSHHHHHHHH
T ss_pred             EEeeccCcccccchhhcccceeeEeeccChhhhhHHHHHHHHHhCCcc---chHHHHHHHHHcCCCHHHHHHHH
Confidence            443 4443221  11223456678899999999999887775544222   25568999999999876554433

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=98.79  E-value=7.3e-08  Score=79.22  Aligned_cols=179  Identities=9%  Similarity=0.059  Sum_probs=102.2

Q ss_pred             chhHHHHHHHHHhcCC-ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhcc----
Q 043737           67 LQSTFDRVWRCLMEEQ-MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINL----  141 (371)
Q Consensus        67 R~~~~~~l~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~----  141 (371)
                      .+...+++.+.+..++ ...+.++|++|+||||+|..+++.+.........    .....    .-...+......    
T Consensus         7 ~~~~~~~l~~~~~~~~l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~----~~~~~----~~~~~i~~~~~~~~~~   78 (207)
T d1a5ta2           7 LRPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHK----SCGHC----RGCQLMQAGTHPDYYT   78 (207)
T ss_dssp             GHHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTB----CCSCS----HHHHHHHHTCCTTEEE
T ss_pred             cHHHHHHHHHHHHcCCcCeEEEEECCCCCcHHHHHHHHHHhcccccccccc----ccccc----chhhhhhhccccccch
Confidence            4556788888887765 4569999999999999999998876211000000    00000    111111111100    


Q ss_pred             -CC-CCCCcCCHHHHHHHHHHHh-----CCCceEEEEeCCCCccc--ccccccccCCCCCCCcEEEEecCch-HHHhh-c
Q 043737          142 -FN-ESWNSRSLQEKSQDIVKNM-----SNKKFVLLLDHIWELVD--LSQVGLPVPCRTSASNKTVFTAREL-EVCGQ-M  210 (371)
Q Consensus       142 -~~-~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~~~--~~~~~~~l~~~~~~~~~iliTsR~~-~~~~~-~  210 (371)
                       .. ........++ ++.+.+.+     .+++-++|+|+++....  ...+...+. ....++.+|+||++. .+... .
T Consensus        79 ~~~~~~~~~i~~~~-ir~l~~~~~~~~~~~~~kviIide~d~l~~~a~n~Llk~lE-ep~~~~~fIl~t~~~~~ll~tI~  156 (207)
T d1a5ta2          79 LAPEKGKNTLGVDA-VREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLE-EPPAETWFFLATREPERLLATLR  156 (207)
T ss_dssp             ECCCTTCSSBCHHH-HHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHT-SCCTTEEEEEEESCGGGSCHHHH
T ss_pred             hhhhhcccccccch-hhHHhhhhhhccccCccceEEechhhhhhhhhhHHHHHHHH-hhcccceeeeeecChhhhhhhhc
Confidence             00 0001112222 22333332     24566999999986533  334444444 445677777666653 33322 2


Q ss_pred             cCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHHH
Q 043737          211 EAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLAL  263 (371)
Q Consensus       211 ~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plal  263 (371)
                      +....+.+.+++.++....+.....     .   .++.+..+++.++|.|...
T Consensus       157 SRc~~i~~~~~~~~~~~~~L~~~~~-----~---~~~~~~~i~~~s~Gs~r~a  201 (207)
T d1a5ta2         157 SRCRLHYLAPPPEQYAVTWLSREVT-----M---SQDALLAALRLSAGSPGAA  201 (207)
T ss_dssp             TTSEEEECCCCCHHHHHHHHHHHCC-----C---CHHHHHHHHHHTTTCHHHH
T ss_pred             ceeEEEecCCCCHHHHHHHHHHcCC-----C---CHHHHHHHHHHcCCCHHHH
Confidence            4557899999999999999976542     1   1355888999999987643

>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=98.77  E-value=1.8e-07  Score=79.17  Aligned_cols=173  Identities=13%  Similarity=0.089  Sum_probs=99.2

Q ss_pred             CccccchhHHHHHHHHH---hc---------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHH
Q 043737           62 PTVVGLQSTFDRVWRCL---ME---------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLE  129 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L---~~---------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~  129 (371)
                      ..++|-+...++|.+.+   ..         ...+.+.++||+|+|||++|+.+++..   ..+   .+-++.+.-.+  
T Consensus        12 ~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~---~~~---~~~i~~~~l~~--   83 (256)
T d1lv7a_          12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA---KVP---FFTISGSDFVE--   83 (256)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHH---TCC---EEEECSCSSTT--
T ss_pred             HHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHc---CCC---EEEEEhHHhhh--
Confidence            56899988777775543   21         235678999999999999999999887   222   22333322110  


Q ss_pred             HHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc----------------ccccccccCC-CCC
Q 043737          130 QIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD----------------LSQVGLPVPC-RTS  192 (371)
Q Consensus       130 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~----------------~~~~~~~l~~-~~~  192 (371)
                                     .+.......+...+...-...+++|+|||++....                +..+...+.. ...
T Consensus        84 ---------------~~~g~~~~~l~~~f~~A~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~  148 (256)
T d1lv7a_          84 ---------------MFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGN  148 (256)
T ss_dssp             ---------------SCCCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSS
T ss_pred             ---------------cchhHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCC
Confidence                           01222223222333333356789999999963210                0111111110 123


Q ss_pred             CCcEEEEecCchHH-Hhhc----cCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcH
Q 043737          193 ASNKTVFTARELEV-CGQM----EAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPL  261 (371)
Q Consensus       193 ~~~~iliTsR~~~~-~~~~----~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl  261 (371)
                      .+..+|.||..... ...+    .-...+.+++.+.++-.++++....+.....+.+    ...+++.+.|+.-
T Consensus       149 ~~v~vIatTn~~~~ld~al~R~gRfd~~i~i~~P~~~~R~~il~~~l~~~~~~~~~~----~~~la~~t~G~s~  218 (256)
T d1lv7a_         149 EGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDID----AAIIARGTPGFSG  218 (256)
T ss_dssp             SCEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCC----HHHHHHTCTTCCH
T ss_pred             CCEEEEEeCCCcccCCHhHcCCCCCCEEEECCCcCHHHHHHHHHHhccCCCcCcccC----HHHHHHhCCCCCH
Confidence            34444446665322 1222    1246789999999999999998886655443333    4667788888643

>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=98.73  E-value=1.1e-07  Score=80.91  Aligned_cols=177  Identities=14%  Similarity=0.108  Sum_probs=101.6

Q ss_pred             ccccchhHHHHHHHHHh----c---------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHH
Q 043737           63 TVVGLQSTFDRVWRCLM----E---------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLE  129 (371)
Q Consensus        63 ~~vGR~~~~~~l~~~L~----~---------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~  129 (371)
                      .++|-+...++|.+.+.    .         ...+-+.++||+|+|||++|+.+++..   ..+   .+.++.+      
T Consensus         5 dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~---~~~---~~~i~~~------   72 (258)
T d1e32a2           5 DVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAF---FFLINGP------   72 (258)
T ss_dssp             GCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHT---TCE---EEEECHH------
T ss_pred             hhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHh---CCe---EEEEEch------
Confidence            47888888888877642    1         235679999999999999999999987   222   2222211      


Q ss_pred             HHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHhCCCceEEEEeCCCCccc-------------cccccccc-CCCCCCCc
Q 043737          130 QIQGSIAKKINLFNESWNSRSLQEKSQDIVKNMSNKKFVLLLDHIWELVD-------------LSQVGLPV-PCRTSASN  195 (371)
Q Consensus       130 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~-------------~~~~~~~l-~~~~~~~~  195 (371)
                      .+.        ..   ............+...-...+++|+|||++....             ...+.... ......+.
T Consensus        73 ~l~--------~~---~~g~~~~~l~~~f~~A~~~~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~v  141 (258)
T d1e32a2          73 EIM--------SK---LAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHV  141 (258)
T ss_dssp             HHT--------TS---CTTHHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCCCSSCE
T ss_pred             hhc--------cc---ccccHHHHHHHHHHHHHhcCCeEEEehhhhhhccCCCCCCCchHHHHHHHhccccccccccCCc
Confidence            110        00   0111111222222222346789999999975411             11111111 11333444


Q ss_pred             EEEEecCchHH-Hhhc----cCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcHH-HHHH
Q 043737          196 KTVFTARELEV-CGQM----EAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPLA-LITV  266 (371)
Q Consensus       196 ~iliTsR~~~~-~~~~----~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pla-l~~~  266 (371)
                      -|+.||..... ...+    .-...+.++..+.++-.++|...+.......+.+    ...|++.+.|+--+ |..+
T Consensus       142 lvi~tTn~~~~ld~al~r~gRfd~~i~~~~P~~~~R~~il~~~l~~~~~~~~~~----~~~la~~t~G~s~adl~~l  214 (258)
T d1e32a2         142 IVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVD----LEQVANETHGHVGADLAAL  214 (258)
T ss_dssp             EEEEEESCGGGSCGGGTSTTSSCEEEECCCCCHHHHHHHHHHTTTTSCBCTTCC----HHHHHHHCTTCCHHHHHHH
T ss_pred             cEEEeCCCccccchhhhhcccccceeECCCCCHHHHHHHhhhhccCcccccccc----hhhhhhcccCCCHHHHHHH
Confidence            55557766432 1111    1345789999999999999998876554333333    57788999886432 4433

>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=98.69  E-value=1.5e-07  Score=79.41  Aligned_cols=172  Identities=12%  Similarity=0.106  Sum_probs=96.6

Q ss_pred             CccccchhHHHHHHHHH---hc---------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHH
Q 043737           62 PTVVGLQSTFDRVWRCL---ME---------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLE  129 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L---~~---------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~  129 (371)
                      ..++|-++..++|.+.+   ..         ...+-|.++|++|+|||+||+.+++..   ..+   .+.++.      .
T Consensus         9 ~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~---~~~---~~~i~~------~   76 (247)
T d1ixza_           9 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA---RVP---FITASG------S   76 (247)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHT---TCC---EEEEEH------H
T ss_pred             HHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHc---CCC---EEEEEh------H
Confidence            45789887776665433   21         234579999999999999999999887   222   233322      1


Q ss_pred             HHHHHHHHHhccCCCCCCcCCHHHHHHHHHHHh-CCCceEEEEeCCCCccc----------------ccccccccC-CCC
Q 043737          130 QIQGSIAKKINLFNESWNSRSLQEKSQDIVKNM-SNKKFVLLLDHIWELVD----------------LSQVGLPVP-CRT  191 (371)
Q Consensus       130 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~~~----------------~~~~~~~l~-~~~  191 (371)
                      ++..    ..       .. ..+..+..+.+.. ...+++|+|||++....                +..+...+. ...
T Consensus        77 ~l~~----~~-------~g-~~~~~l~~~f~~a~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~  144 (247)
T d1ixza_          77 DFVE----MF-------VG-VGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEK  144 (247)
T ss_dssp             HHHH----SC-------TT-HHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCT
T ss_pred             Hhhh----cc-------cc-HHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCC
Confidence            2211    00       11 1122233333333 45789999999963210                111111111 012


Q ss_pred             CCCcEEEEecCchH-HHhhc----cCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCcH
Q 043737          192 SASNKTVFTARELE-VCGQM----EAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLPL  261 (371)
Q Consensus       192 ~~~~~iliTsR~~~-~~~~~----~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl  261 (371)
                      ..+.-||.||.... +...+    .-...+++++.+.++-.++++..+.......+.+    ...+++.+.|+.-
T Consensus       145 ~~~vivi~tTn~~~~ld~al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~~~~~~~~----~~~la~~t~g~s~  215 (247)
T d1ixza_         145 DTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVD----LALLAKRTPGFVG  215 (247)
T ss_dssp             TCCEEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCTTCC----HHHHHHTCTTCCH
T ss_pred             CCCEEEEEeCCCccccCHhHcCCCCCcEEEEECCcCHHHHHHHHHHHhcccCCccccC----HHHHHHHCCCCCH
Confidence            23333333555432 22222    1235789999999999999998886554333333    4667778887643

>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=98.47  E-value=5.5e-07  Score=76.73  Aligned_cols=171  Identities=13%  Similarity=0.142  Sum_probs=92.9

Q ss_pred             CccccchhHHHHHHHHHh----c---------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCH
Q 043737           62 PTVVGLQSTFDRVWRCLM----E---------EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQL  128 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~----~---------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~  128 (371)
                      .+++|-++..++|.+.+.    .         ...+-|.++|++|+|||+||+.++...   ..+     ++.++    .
T Consensus         7 ~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~---~~~-----~~~~~----~   74 (265)
T d1r7ra3           7 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC---QAN-----FISIK----G   74 (265)
T ss_dssp             SSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHT---TCE-----EEEEC----H
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHh---CCc-----EEEEE----H
Confidence            346777666555555432    1         134679999999999999999999998   222     12222    1


Q ss_pred             HHHHHHHHHHhccCCCCCCcCCHHHHHHHH-HHHhCCCceEEEEeCCCCccc----------------ccccccccCC-C
Q 043737          129 EQIQGSIAKKINLFNESWNSRSLQEKSQDI-VKNMSNKKFVLLLDHIWELVD----------------LSQVGLPVPC-R  190 (371)
Q Consensus       129 ~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l-~~~l~~~~~LlVlDdv~~~~~----------------~~~~~~~l~~-~  190 (371)
                      ..+.       +.     ........+..+ ...-...+++|+|||++....                ...+...+.. .
T Consensus        75 ~~l~-------~~-----~~~~~~~~l~~~f~~A~~~~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~  142 (265)
T d1r7ra3          75 PELL-------TM-----WFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMS  142 (265)
T ss_dssp             HHHH-------TS-----CTTTHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC---
T ss_pred             HHhh-------hc-----cccchHHHHHHHHHHHHhcCCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcC
Confidence            1111       00     111222223222 223346789999999974321                1112112210 1


Q ss_pred             CCCCcEEEEecCchH-HHhhc----cCCCceeecCCChHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCc
Q 043737          191 TSASNKTVFTARELE-VCGQM----EAHKSFKVERLGYEDAWKLFEEKVGKEILDSHPDIPELAETVAKECGGLP  260 (371)
Q Consensus       191 ~~~~~~iliTsR~~~-~~~~~----~~~~~~~l~~L~~~ea~~ll~~~~~~~~~~~~~~~~~~~~~i~~~~~g~P  260 (371)
                      ...+..+|.||.... +...+    .-...++++..+.++-.++|+..+.......+.+    ..+|++.+.|+.
T Consensus       143 ~~~~v~vi~ttn~~~~ld~al~r~gRf~~~i~~~~p~~~~R~~il~~~l~~~~~~~~~~----l~~la~~t~g~s  213 (265)
T d1r7ra3         143 TKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVD----LEFLAKMTNGFS  213 (265)
T ss_dssp             ---CCEEEECCBSCTTTSCGGGSSTTSEEEEECCCCCCHHHHHHHHHHTTCC----CCC----CHHHHHHHCSSC
T ss_pred             CCCCEEEEEeCCCchhCCHHHhCCCCccEEEEecchHHHHHHHHHHHHhccCCchhhhh----HHHHHhcCCCCC
Confidence            233445555665533 21211    1235789999999999999988776543222223    467778888764

>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=98.18  E-value=2.6e-06  Score=71.56  Aligned_cols=46  Identities=22%  Similarity=0.156  Sum_probs=35.3

Q ss_pred             CccccchhHHHHHHHHHh-------c---CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           62 PTVVGLQSTFDRVWRCLM-------E---EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~-------~---~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..++|..+.++.+++-..       +   ...+-|.++|++|+|||++|+.+++..
T Consensus         9 ~~~i~~~~~i~~i~~~~~~~~~~~~~~~~~p~~~vLL~GppGtGKT~la~alA~~~   64 (246)
T d1d2na_           9 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEES   64 (246)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cCCcCcCHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECcCCCCHHHHHHHHhhcc
Confidence            347888777776655543       1   234678999999999999999999987

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=98.12  E-value=7.3e-06  Score=66.24  Aligned_cols=141  Identities=11%  Similarity=0.073  Sum_probs=79.2

Q ss_pred             HHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCC-CCCCCeEEEEEeCC-cCCHHHHHHHHHHHhccCCCCCC
Q 043737           70 TFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHT-PNDFDFVIWVVASK-DLQLEQIQGSIAKKINLFNESWN  147 (371)
Q Consensus        70 ~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-~~~f~~~~wv~~~~-~~~~~~~~~~l~~~l~~~~~~~~  147 (371)
                      +++.+.+++..+....+.++|++|+|||++|..+.+..... ..|.| +.++.... .-.++++- .+...+.....   
T Consensus         2 ~~~~l~~~i~~~~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D-~~~i~~~~~~I~Id~IR-~i~~~~~~~~~---   76 (198)
T d2gnoa2           2 QLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASD-VLEIDPEGENIGIDDIR-TIKDFLNYSPE---   76 (198)
T ss_dssp             HHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTT-EEEECCSSSCBCHHHHH-HHHHHHTSCCS---
T ss_pred             HHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhccccCCCC-EEEEeCCcCCCCHHHHH-HHHHHHhhCcc---
Confidence            45666777777788999999999999999999998876322 23333 44444322 22333333 34444433221   


Q ss_pred             cCCHHHHHHHHHHHhCCCceEEEEeCCCCcc--cccccccccCCCCCCCcEEEEecCc-hHHHhh-ccCCCceeecCCCh
Q 043737          148 SRSLQEKSQDIVKNMSNKKFVLLLDHIWELV--DLSQVGLPVPCRTSASNKTVFTARE-LEVCGQ-MEAHKSFKVERLGY  223 (371)
Q Consensus       148 ~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~--~~~~~~~~l~~~~~~~~~iliTsR~-~~~~~~-~~~~~~~~l~~L~~  223 (371)
                                     .+++-++|+|+++...  ....+...+. ....++.++++|.+ ..+... .+....+.+.+.  
T Consensus        77 ---------------~~~~KviIId~ad~l~~~aqNaLLK~LE-EPp~~t~fiLit~~~~~ll~TI~SRC~~i~~~~p--  138 (198)
T d2gnoa2          77 ---------------LYTRKYVIVHDCERMTQQAANAFLKALE-EPPEYAVIVLNTRRWHYLLPTIKSRVFRVVVNVP--  138 (198)
T ss_dssp             ---------------SSSSEEEEETTGGGBCHHHHHHTHHHHH-SCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCC--
T ss_pred             ---------------cCCCEEEEEeCccccchhhhhHHHHHHh-CCCCCceeeeccCChhhCHHHHhcceEEEeCCCc--
Confidence                           2444599999998653  3344444444 34455665555544 433322 233455666533  


Q ss_pred             HHHHHHHHHH
Q 043737          224 EDAWKLFEEK  233 (371)
Q Consensus       224 ~ea~~ll~~~  233 (371)
                      .+...+....
T Consensus       139 ~~~~~~~~~~  148 (198)
T d2gnoa2         139 KEFRDLVKEK  148 (198)
T ss_dssp             HHHHHHHHHH
T ss_pred             hHHHHHHHHH
Confidence            3444444433

>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=97.78  E-value=2.5e-05  Score=67.74  Aligned_cols=46  Identities=20%  Similarity=0.170  Sum_probs=36.9

Q ss_pred             CccccchhHHHHHHHHHhc--------------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           62 PTVVGLQSTFDRVWRCLME--------------EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~--------------~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..++|-++..+.+..++.+              ...+.+.++||+|+|||.||+.+++..
T Consensus        14 ~~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~   73 (309)
T d1ofha_          14 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA   73 (309)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhcc
Confidence            4578999888888766521              135678899999999999999999887

>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=97.64  E-value=0.00011  Score=61.80  Aligned_cols=87  Identities=16%  Similarity=0.134  Sum_probs=63.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCC---CcCCHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESW---NSRSLQEKSQDI  158 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~---~~~~~~~~~~~l  158 (371)
                      ..+++-|+|++|+|||+||.+++....   ..-..++|++.....+..     +++.++......   ...+.++....+
T Consensus        56 ~g~itei~G~~~sGKT~l~l~~~~~aq---k~g~~v~yiDtE~~~~~~-----~a~~~Gvd~d~i~~~~~~~~E~~~~~~  127 (268)
T d1xp8a1          56 RGRITEIYGPESGGKTTLALAIVAQAQ---KAGGTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIM  127 (268)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHH---HTTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CceEEEEecCCccchHHHHHHHHHHHH---hCCCEEEEEECCccCCHH-----HHHHhCCCchhEEEEcCCCHHHHHHHH
Confidence            457999999999999999999988872   222468999988777764     566777654331   345667766666


Q ss_pred             HHHhCC-CceEEEEeCCCC
Q 043737          159 VKNMSN-KKFVLLLDHIWE  176 (371)
Q Consensus       159 ~~~l~~-~~~LlVlDdv~~  176 (371)
                      ...++. ..-|+|+|.+..
T Consensus       128 ~~l~~~~~~~liIiDSi~a  146 (268)
T d1xp8a1         128 ELLVRSGAIDVVVVDSVAA  146 (268)
T ss_dssp             HHHHTTTCCSEEEEECTTT
T ss_pred             HHHHhcCCCcEEEEecccc
Confidence            666654 456999999854

>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=97.59  E-value=0.00013  Score=61.26  Aligned_cols=88  Identities=16%  Similarity=0.177  Sum_probs=61.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCC---CcCCHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESW---NSRSLQEKSQDI  158 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~---~~~~~~~~~~~l  158 (371)
                      ..+++-|+|++|+|||+||.+++...   +..-..++|++.....+.+.     +++++......   .....++....+
T Consensus        59 ~g~i~e~~G~~~~GKT~l~l~~~~~~---q~~g~~~vyIDtE~~~~~e~-----a~~~GvD~d~il~~~~~~~E~~~~~~  130 (269)
T d1mo6a1          59 RGRVIEIYGPESSGKTTVALHAVANA---QAAGGVAAFIDAEHALDPDY-----AKKLGVDTDSLLVSQPDTGEQALEIA  130 (269)
T ss_dssp             SSSEEEEECSSSSSHHHHHHHHHHHH---HHTTCEEEEEESSCCCCHHH-----HHHHTCCGGGCEEECCSSHHHHHHHH
T ss_pred             cceeEEEecCCCcHHHHHHHHHHHHH---hcCCCEEEEEECCccCCHHH-----HHHhCCCHHHeEEecCCCHHHHHHHH
Confidence            45799999999999999999988776   23334789999888777553     45556543331   345566666655


Q ss_pred             HHHhCC-CceEEEEeCCCCc
Q 043737          159 VKNMSN-KKFVLLLDHIWEL  177 (371)
Q Consensus       159 ~~~l~~-~~~LlVlDdv~~~  177 (371)
                      ...++. ..-|+|+|.+...
T Consensus       131 ~~l~~~~~~~liIiDSi~al  150 (269)
T d1mo6a1         131 DMLIRSGALDIVVIDSVAAL  150 (269)
T ss_dssp             HHHHHTTCEEEEEEECSTTC
T ss_pred             HHHHhcCCCCEEEEeccccc
Confidence            555544 4679999998543

>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=97.55  E-value=0.00014  Score=58.60  Aligned_cols=92  Identities=15%  Similarity=0.132  Sum_probs=56.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCC-cCCHHHHHHHHHHHhccCCCC-CCcCCHHHHHHHH
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASK-DLQLEQIQGSIAKKINLFNES-WNSRSLQEKSQDI  158 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~l~~~l~~~~~~-~~~~~~~~~~~~l  158 (371)
                      .+.+++.++|+.|+||||.+.+++..+. ..  -..+..++... .....+-++.+++.++.+... ....++.......
T Consensus         4 ~~~~vi~lvGptGvGKTTTiaKLA~~~~-~~--g~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~~~~~~~~d~~~~~~~~   80 (207)
T d1okkd2           4 PKGRVVLVVGVNGVGKTTTIAKLGRYYQ-NL--GKKVMFCAGDTFRAAGGTQLSEWGKRLSIPVIQGPEGTDPAALAYDA   80 (207)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHHHHH-TT--TCCEEEECCCCSSTTHHHHHHHHHHHHTCCEECCCTTCCHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH-HC--CCcEEEEEeccccccchhhHhhcccccCceEEeccCCccHHHHHHHH
Confidence            4567999999999999999888888873 22  23577777654 445667778888888765322 1233444444333


Q ss_pred             HHHhC-CCceEEEEeCCC
Q 043737          159 VKNMS-NKKFVLLLDHIW  175 (371)
Q Consensus       159 ~~~l~-~~~~LlVlDdv~  175 (371)
                      ....+ ...=++++|=.-
T Consensus        81 ~~~~~~~~~d~ilIDTaG   98 (207)
T d1okkd2          81 VQAMKARGYDLLFVDTAG   98 (207)
T ss_dssp             HHHHHHHTCSEEEECCCC
T ss_pred             HHHHHHCCCCEEEcCccc
Confidence            22221 122366667653

>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=97.49  E-value=2.3e-05  Score=60.71  Aligned_cols=24  Identities=25%  Similarity=0.268  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +.|+|.|++|+||||+|+.++.++
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~L   26 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQL   26 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            468889999999999999999987

>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=97.49  E-value=2.8e-05  Score=61.63  Aligned_cols=25  Identities=24%  Similarity=0.432  Sum_probs=23.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+.|+|.|++|+||||||+.+++.+
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~~   31 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAVF   31 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh
Confidence            5789999999999999999999987

>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=97.47  E-value=0.00016  Score=58.35  Aligned_cols=92  Identities=14%  Similarity=0.111  Sum_probs=55.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCc-CCHHHHHHHHHHHhccCCCC-CCcCCHHHHHHHH
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKD-LQLEQIQGSIAKKINLFNES-WNSRSLQEKSQDI  158 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~l~~~l~~~~~~-~~~~~~~~~~~~l  158 (371)
                      ..+.+|.++|+.|+||||.+.+++.++. .. . ..+..+..... ....+-++.+++.++.+... ....++...+...
T Consensus         7 ~~p~vi~lvGptGvGKTTTiAKLA~~~~-~~-g-~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~d~~~~l~~~   83 (211)
T d2qy9a2           7 KAPFVILMVGVNGVGKTTTIGKLARQFE-QQ-G-KSVMLAAGDTFRAAAVEQLQVWGQRNNIPVIAQHTGADSASVIFDA   83 (211)
T ss_dssp             CTTEEEEEECCTTSCHHHHHHHHHHHHH-TT-T-CCEEEECCCTTCHHHHHHHHHHHHHTTCCEECCSTTCCHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH-HC-C-CcEEEEecccccccchhhhhhhhhhcCCcccccccCCCHHHHHHHH
Confidence            3467999999999999999888888873 22 2 34555554432 23456677777787765322 1334445555444


Q ss_pred             HHHhCCC-ceEEEEeCCC
Q 043737          159 VKNMSNK-KFVLLLDHIW  175 (371)
Q Consensus       159 ~~~l~~~-~~LlVlDdv~  175 (371)
                      ....+.+ .=++++|=.-
T Consensus        84 ~~~a~~~~~d~ilIDTaG  101 (211)
T d2qy9a2          84 IQAAKARNIDVLIADTAG  101 (211)
T ss_dssp             HHHHHHTTCSEEEECCCC
T ss_pred             HHHHHHcCCCEEEeccCC
Confidence            4333222 2377777764

>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=97.46  E-value=3.6e-05  Score=60.62  Aligned_cols=38  Identities=16%  Similarity=0.051  Sum_probs=28.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEE
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVV  121 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~  121 (371)
                      +..+|.|+|++|+||||+|+.+++.+.  ..+++...++.
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La~~L~--~~~~~~~~~~~   42 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQVTLN--QQGGRSVSLLL   42 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHH--HHCSSCEEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHh--hcCCCchhhhh
Confidence            456899999999999999999999873  22344455543

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.44  E-value=6.6e-05  Score=59.01  Aligned_cols=27  Identities=19%  Similarity=0.187  Sum_probs=23.2

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+.+|.++|++|+||||+|++++...
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~~~   38 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLVSA   38 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTGGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHhc
Confidence            345799999999999999999987664

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=97.43  E-value=3.7e-05  Score=60.08  Aligned_cols=24  Identities=21%  Similarity=0.314  Sum_probs=22.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ++|+|.|++|+||||+|+.++..+
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            689999999999999999999886

>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=97.43  E-value=0.00023  Score=59.69  Aligned_cols=86  Identities=19%  Similarity=0.137  Sum_probs=58.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCC---CcCCHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESW---NSRSLQEKSQDI  158 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~---~~~~~~~~~~~l  158 (371)
                      ..+++-|+|++|+|||||+.+++....   ..-..++|++.....+..     .++.++......   ...+.++....+
T Consensus        53 ~g~itei~G~~gsGKTtl~l~~~~~~q---~~g~~~vyidtE~~~~~~-----~a~~~Gvd~d~v~~~~~~~~E~~~~~i  124 (263)
T d1u94a1          53 MGRIVEIYGPESSGKTTLTLQVIAAAQ---REGKTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDTGEQALEIC  124 (263)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHH---HTTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CceEEEEecCCCcHHHHHHHHHHHHHH---cCCCEEEEEccccccCHH-----HHHHhCCCHHHEEEecCCCHHHHHHHH
Confidence            346999999999999999999998872   233468899887776653     355666543221   234555565555


Q ss_pred             HHHhC-CCceEEEEeCCC
Q 043737          159 VKNMS-NKKFVLLLDHIW  175 (371)
Q Consensus       159 ~~~l~-~~~~LlVlDdv~  175 (371)
                      ....+ +..-|+|+|.+.
T Consensus       125 ~~l~~~~~~~liViDSi~  142 (263)
T d1u94a1         125 DALARSGAVDVIVVDSVA  142 (263)
T ss_dssp             HHHHHHTCCSEEEEECGG
T ss_pred             HHHHhcCCCCEEEEECcc
Confidence            55554 344599999984

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=97.42  E-value=4.1e-05  Score=58.65  Aligned_cols=24  Identities=25%  Similarity=0.185  Sum_probs=21.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ++|.|+|++|+||||||+++....
T Consensus         3 klIii~G~pGsGKTTla~~L~~~~   26 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAKN   26 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            588999999999999999987664

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.39  E-value=3.1e-05  Score=61.22  Aligned_cols=25  Identities=36%  Similarity=0.329  Sum_probs=22.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhcc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKFL  108 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~~  108 (371)
                      +.|+|+|++|+|||||+++++..+.
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l~   26 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVLK   26 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHH
Confidence            5799999999999999999998873

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.39  E-value=8.7e-05  Score=59.28  Aligned_cols=27  Identities=30%  Similarity=0.516  Sum_probs=24.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+.-+|+|.|++|+||||||+.+...+
T Consensus        20 ~~~~iIgI~G~~GSGKSTla~~L~~~l   46 (198)
T d1rz3a_          20 AGRLVLGIDGLSRSGKTTLANQLSQTL   46 (198)
T ss_dssp             SSSEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            455689999999999999999999887

>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=97.39  E-value=0.00042  Score=55.79  Aligned_cols=58  Identities=16%  Similarity=0.121  Sum_probs=40.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCc-CCHHHHHHHHHHHhccC
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKD-LQLEQIQGSIAKKINLF  142 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~l~~~l~~~  142 (371)
                      +.+++.++|+.|+||||.+.+++.++.   .....+..+++... ....+-++...+.++.+
T Consensus         9 ~~~vi~lvGp~GvGKTTTiaKLA~~~~---~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~   67 (207)
T d1ls1a2           9 DRNLWFLVGLQGSGKTTTAAKLALYYK---GKGRRPLLVAADTQRPAAREQLRLLGEKVGVP   67 (207)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHH---HTTCCEEEEECCSSCHHHHHHHHHHHHHHTCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHH---HCCCcEEEEecccccchHHHHHHHHHHhcCCc
Confidence            457899999999999999988888873   22234666666432 23456666777777654

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=97.36  E-value=0.00011  Score=62.09  Aligned_cols=26  Identities=27%  Similarity=0.153  Sum_probs=23.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .++.|.++|++|+|||+||+.++...
T Consensus        31 ~P~~ilL~GpPGtGKT~la~~la~~~   56 (273)
T d1gvnb_          31 SPTAFLLGGQPGSGKTSLRSAIFEET   56 (273)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            45679999999999999999999987

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=97.35  E-value=4.6e-05  Score=59.41  Aligned_cols=25  Identities=24%  Similarity=0.405  Sum_probs=23.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .++++|+|++|+|||||+.++++.+
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~~l   26 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIPAL   26 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999999887

>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=97.32  E-value=0.00036  Score=56.32  Aligned_cols=91  Identities=19%  Similarity=0.138  Sum_probs=55.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCc-CCHHHHHHHHHHHhccCCCCC-CcCCHHHHHHHH
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKD-LQLEQIQGSIAKKINLFNESW-NSRSLQEKSQDI  158 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~l~~~l~~~~~~~-~~~~~~~~~~~l  158 (371)
                      ..+.+|.++|+.|+||||.+.+++.++. .  .-..+..+..... ....+-++..++.++...... ...++.......
T Consensus         9 ~~p~vi~lvGptGvGKTTTiAKLAa~~~-~--~~~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~~~~~~~~d~~~~~~~~   85 (213)
T d1vmaa2           9 EPPFVIMVVGVNGTGKTTSCGKLAKMFV-D--EGKSVVLAAADTFRAAAIEQLKIWGERVGATVISHSEGADPAAVAFDA   85 (213)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHHH-H--TTCCEEEEEECTTCHHHHHHHHHHHHHHTCEEECCSTTCCHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH-H--CCCceEEEeecccccchhHHHHHHhhhcCccccccCCCCcHHHHHHHH
Confidence            3567899999999999998888888873 2  2245777776643 344566777777776543221 223444433332


Q ss_pred             HH--HhCCCceEEEEeCCC
Q 043737          159 VK--NMSNKKFVLLLDHIW  175 (371)
Q Consensus       159 ~~--~l~~~~~LlVlDdv~  175 (371)
                      ..  ..++.. ++++|=.-
T Consensus        86 ~~~~~~~~~d-~ilIDTaG  103 (213)
T d1vmaa2          86 VAHALARNKD-VVIIDTAG  103 (213)
T ss_dssp             HHHHHHTTCS-EEEEEECC
T ss_pred             HHHHHHcCCC-EEEEeccc
Confidence            22  223333 77777664

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=97.31  E-value=6.2e-05  Score=58.98  Aligned_cols=25  Identities=16%  Similarity=0.295  Sum_probs=23.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .++|.|.|++|+||||+|+.+++.+
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l   27 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVL   27 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHc
Confidence            5799999999999999999999987

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.30  E-value=7.3e-05  Score=58.35  Aligned_cols=27  Identities=19%  Similarity=0.389  Sum_probs=24.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...++++|.|++|+||||+|+.++.++
T Consensus         4 ~~~~iivl~G~~GsGKsT~a~~La~~l   30 (171)
T d1knqa_           4 HDHHIYVLMGVSGSGKSAVASEVAHQL   30 (171)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            356899999999999999999999887

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=97.30  E-value=4.7e-05  Score=59.51  Aligned_cols=24  Identities=38%  Similarity=0.315  Sum_probs=22.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +.|+|.|++|+||||+|+.+++++
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~~l   28 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELASKS   28 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            467899999999999999999887

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.27  E-value=4.9e-05  Score=60.77  Aligned_cols=25  Identities=28%  Similarity=0.308  Sum_probs=23.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+|+|+|++|+||||+|+.++..+
T Consensus        19 g~vI~L~G~pGSGKTTiAk~La~~l   43 (195)
T d1x6va3          19 GCTVWLTGLSGAGKTTVSMALEEYL   43 (195)
T ss_dssp             CEEEEEESSCHHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4688899999999999999999887

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=97.26  E-value=7.3e-05  Score=59.88  Aligned_cols=27  Identities=26%  Similarity=0.296  Sum_probs=24.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+.+|+|.|++|+||||+|+.++++.
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            466799999999999999999999887

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=97.26  E-value=0.00018  Score=62.13  Aligned_cols=46  Identities=24%  Similarity=0.340  Sum_probs=36.2

Q ss_pred             CccccchhHHHHHHHHHhc--------CC-ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           62 PTVVGLQSTFDRVWRCLME--------EQ-MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~--------~~-~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..++|.++.++.+...+..        +. ..++.++|+.|+|||.||+.+++.+
T Consensus        23 ~~v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l   77 (315)
T d1qvra3          23 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATL   77 (315)
T ss_dssp             HHSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHH
T ss_pred             CeEeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHHh
Confidence            4578998888888776642        12 2377889999999999999999887

>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=97.19  E-value=0.00018  Score=60.99  Aligned_cols=53  Identities=21%  Similarity=0.248  Sum_probs=39.8

Q ss_pred             HHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCc
Q 043737           70 TFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKD  125 (371)
Q Consensus        70 ~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~  125 (371)
                      ++..+.+.+.....++|+++|-||+||||++..++..+...   -..++-+++...
T Consensus         7 ~~~~~~~~~~~~~~~iii~sGKGGVGKTT~a~nLA~~lA~~---G~rVllvD~Dp~   59 (279)
T d1ihua2           7 SLSALVDDIARNEHGLIMLMGKGGVGKTTMAAAIAVRLADM---GFDVHLTTSDPA   59 (279)
T ss_dssp             CHHHHHHHHHTTSCEEEEEECSTTSSHHHHHHHHHHHHHHT---TCCEEEEESCCC
T ss_pred             cHHHHHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHHHHC---CCcEEEEeCCCC
Confidence            45667777777889999999999999999998888877422   124666665543

>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=97.18  E-value=0.00065  Score=56.04  Aligned_cols=88  Identities=16%  Similarity=0.115  Sum_probs=54.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhcc-------------CCCCCCc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINL-------------FNESWNS  148 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~-------------~~~~~~~  148 (371)
                      ...++.|+|++|+|||+|+.+++...   ......++|++....  ...+.+.. ..++.             .......
T Consensus        25 ~gsl~li~G~pGsGKT~l~~qia~~~---~~~~~~~~~is~e~~--~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~   98 (242)
T d1tf7a2          25 KDSIILATGATGTGKTLLVSRFVENA---CANKERAILFAYEES--RAQLLRNA-YSWGMDFEEMERQNLLKIVCAYPES   98 (242)
T ss_dssp             SSCEEEEEECTTSSHHHHHHHHHHHH---HTTTCCEEEEESSSC--HHHHHHHH-HTTSCCHHHHHHTTSEEECCCCGGG
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH---HHhccccceeeccCC--HHHHHHHH-HHcCCChHHHhhcCceEEEEeecch
Confidence            45799999999999999999999997   345556788876543  33333222 22211             1111123


Q ss_pred             CCHHHHHHHHHHHhC-CCceEEEEeCCC
Q 043737          149 RSLQEKSQDIVKNMS-NKKFVLLLDHIW  175 (371)
Q Consensus       149 ~~~~~~~~~l~~~l~-~~~~LlVlDdv~  175 (371)
                      ....+....+...+. .+.-++|+|++.
T Consensus        99 ~~~~~~~~~i~~~i~~~~~~~vviDs~~  126 (242)
T d1tf7a2          99 AGLEDHLQIIKSEINDFKPARIAIDSLS  126 (242)
T ss_dssp             SCHHHHHHHHHHHHHTTCCSEEEEECHH
T ss_pred             hhHHHHHHHHHHHHHhcCCceeeeecch
Confidence            455555666665544 355688889874

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=97.17  E-value=0.00011  Score=57.50  Aligned_cols=26  Identities=23%  Similarity=0.179  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..++|+|.|++|+||||+|+.+++.+
T Consensus         3 ~g~iI~l~G~~GsGKSTia~~La~~l   28 (176)
T d1zp6a1           3 GGNILLLSGHPGSGKSTIAEALANLP   28 (176)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTCS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            45799999999999999999998775

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=97.12  E-value=0.00013  Score=56.87  Aligned_cols=26  Identities=19%  Similarity=0.190  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....|+|.|++|+||||+|+.+++++
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            34579999999999999999999886

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=97.10  E-value=0.00012  Score=57.73  Aligned_cols=24  Identities=25%  Similarity=0.243  Sum_probs=22.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ++|+|.|++|+||||+++.+++.+
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l   25 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNL   25 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            689999999999999999999987

>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=97.07  E-value=0.00056  Score=55.10  Aligned_cols=59  Identities=15%  Similarity=0.024  Sum_probs=36.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCc-CCHHHHHHHHHHHhccC
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKD-LQLEQIQGSIAKKINLF  142 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~l~~~l~~~  142 (371)
                      ..+.+|.++|+.|+||||.+.+++.++. .. . ..+..+..... ..-.+-++..+..++..
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKLA~~~~-~~-g-~kV~lit~Dt~R~ga~eQL~~~a~~l~v~   69 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKLAYFYK-KK-G-FKVGLVGADVYRPAALEQLQQLGQQIGVP   69 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHHHHHHH-HT-T-CCEEEEECCCSSHHHHHHHHHHHHHHTCC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH-HC-C-CceEEEEeeccccchhHHHHHhccccCcc
Confidence            3567999999999999998888888773 22 2 34677776543 23445566677777654

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.07  E-value=0.00018  Score=57.66  Aligned_cols=27  Identities=22%  Similarity=0.370  Sum_probs=24.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +..++|+|.|++|+||||+|+.+++++
T Consensus         6 ~~~~iI~i~GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_           6 DQVSVIFVLGGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            457899999999999999999999887

>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=97.04  E-value=0.00043  Score=59.46  Aligned_cols=24  Identities=33%  Similarity=0.602  Sum_probs=21.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .++.++|++|+|||.||+.++...
T Consensus       124 g~~l~~G~pG~GKT~la~ala~~~  147 (321)
T d1w44a_         124 GMVIVTGKGNSGKTPLVHALGEAL  147 (321)
T ss_dssp             EEEEEECSSSSCHHHHHHHHHHHH
T ss_pred             ceEEEECCCCccHHHHHHHHHHHh
Confidence            456679999999999999999987

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.02  E-value=0.0019  Score=53.88  Aligned_cols=101  Identities=14%  Similarity=0.258  Sum_probs=61.0

Q ss_pred             HHHHHhc-CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcC-CHHHHHHHHHHHhccC-CC------
Q 043737           74 VWRCLME-EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDL-QLEQIQGSIAKKINLF-NE------  144 (371)
Q Consensus        74 l~~~L~~-~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~l~~~l~~~-~~------  144 (371)
                      .++.+.. .....++|.|.+|+|||+|+.++++...  +.+-+.++++-++... ...++.+++.+.--.. ..      
T Consensus        58 aID~l~pigkGQr~~If~~~g~GKt~l~~~i~~~~~--~~~~~v~V~~~iGer~~ev~~~~~~~~~~~~~~~~~~~~~tv  135 (276)
T d2jdid3          58 VVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVA--KAHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKVA  135 (276)
T ss_dssp             HHHHHSCEETTCEEEEEECTTSSHHHHHHHHHHHHT--TTCSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSSCCCEE
T ss_pred             eeeeeccccCCCEEEeeCCCCCCHHHHHHHHHHHHH--hhCCCeEEEEEeccChHHHHHHHHHHHhcCccccccccceEE
Confidence            4555543 3445799999999999999999988852  3445677788777653 4566666666531110 00      


Q ss_pred             ---CCCcCCHHHH------HHHHHHHh---CCCceEEEEeCCCC
Q 043737          145 ---SWNSRSLQEK------SQDIVKNM---SNKKFVLLLDHIWE  176 (371)
Q Consensus       145 ---~~~~~~~~~~------~~~l~~~l---~~~~~LlVlDdv~~  176 (371)
                         .....++...      .-.+.+++   +++.+|+++||+..
T Consensus       136 vv~~~s~~~~~~r~~~~~~a~~iAEyf~~~~G~~VLv~~Dsltr  179 (276)
T d2jdid3         136 LVYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNIFR  179 (276)
T ss_dssp             EEEECTTSCHHHHHHHHHHHHHHHHHHHHTTCSCEEEEEECTHH
T ss_pred             EEEECCCCCHHHHHHHHHHHHHHHHHHHhcCCCeEEEEEcchhH
Confidence               0012222221      22233443   37899999999854

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.00  E-value=0.00013  Score=56.67  Aligned_cols=22  Identities=27%  Similarity=0.403  Sum_probs=19.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043737           86 VGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        86 v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      |++.|++|+||||+++.+++++
T Consensus         4 IvliG~~G~GKSTig~~La~~l   25 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKAL   25 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            4456999999999999999998

>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=96.96  E-value=0.00021  Score=57.66  Aligned_cols=25  Identities=16%  Similarity=0.337  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +.+|.++|.+|+||||+|+++++.+
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~l   26 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRYL   26 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHH
Confidence            3578999999999999999999877

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=96.94  E-value=0.0004  Score=56.15  Aligned_cols=30  Identities=23%  Similarity=0.379  Sum_probs=25.8

Q ss_pred             HhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           78 LMEEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        78 L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +...+..+|.++|.+|+||||||+.+...+
T Consensus        19 ~~~~kg~vIwltGlsGsGKTTia~~L~~~l   48 (208)
T d1m7ga_          19 LRNQRGLTIWLTGLSASGKSTLAVELEHQL   48 (208)
T ss_dssp             HHTSSCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HhCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            334677899999999999999999998776

>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=96.94  E-value=0.00019  Score=56.22  Aligned_cols=23  Identities=35%  Similarity=0.478  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -|+|+|++|+|||||++.++..+
T Consensus         2 ki~I~G~~G~GKSTLl~~i~~~l   24 (178)
T d1ye8a1           2 KIIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCcHHHHHHHHHHhcC
Confidence            38899999999999999999877

>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=96.93  E-value=0.00018  Score=56.23  Aligned_cols=24  Identities=17%  Similarity=0.227  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +.|+|.|++|+||||+|+.+++++
T Consensus         3 ~~Iil~G~~GsGKSTia~~LA~~L   26 (170)
T d1e6ca_           3 EPIFMVGARGCGMTTVGRELARAL   26 (170)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHh
Confidence            346788999999999999999998

>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=96.92  E-value=0.00021  Score=55.32  Aligned_cols=22  Identities=27%  Similarity=0.431  Sum_probs=20.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043737           86 VGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        86 v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      |+|.|++|+||||+++.+++++
T Consensus         3 I~liG~~GsGKsTi~k~La~~l   24 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKDL   24 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7788999999999999999998

>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=96.92  E-value=0.00024  Score=55.13  Aligned_cols=24  Identities=25%  Similarity=0.296  Sum_probs=22.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ++++|+|..|+|||||+.+++..+
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~L   25 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAAA   25 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHH
Confidence            589999999999999999999987

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=96.90  E-value=0.00039  Score=59.28  Aligned_cols=45  Identities=18%  Similarity=0.161  Sum_probs=33.6

Q ss_pred             cCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCC
Q 043737           80 EEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQ  127 (371)
Q Consensus        80 ~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~  127 (371)
                      ++..++++++|-||+||||+|..++..+.+   .-..++.++.....+
T Consensus         5 ~~~p~~i~~sGKGGVGKTTvaa~lA~~lA~---~G~rVLlvD~Dp~~~   49 (296)
T d1ihua1           5 QNIPPYLFFTGKGGVGKTSISCATAIRLAE---QGKRVLLVSTDPASN   49 (296)
T ss_dssp             SSCCSEEEEECSTTSSHHHHHHHHHHHHHH---TTCCEEEEECCTTCC
T ss_pred             CCCCeEEEEECCCcChHHHHHHHHHHHHHH---CCCCEEEEeCCCCCC
Confidence            456789999999999999999998888742   223467777664433

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=96.88  E-value=0.0055  Score=52.11  Aligned_cols=82  Identities=13%  Similarity=0.010  Sum_probs=47.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhccCCCCCCcCCHHHHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINLFNESWNSRSLQEKSQDIVKN  161 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~  161 (371)
                      .+-+|+|.|.+|+||||+|+.+...+. ....-..+.-++...-.-....+..  ..+..........+.+...+.+...
T Consensus        79 ~P~iIGIaG~sgSGKSTla~~L~~lL~-~~~~~~~v~~Is~D~F~~~~~~l~~--~~~~~~~g~Pes~D~~~L~~~L~~l  155 (308)
T d1sq5a_          79 IPYIISIAGSVAVGKSTTARVLQALLS-RWPEHRRVELITTDGFLHPNQVLKE--RGLMKKKGFPESYDMHRLVKFVSDL  155 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHHT-TSTTCCCEEEEEGGGGBCCHHHHHH--HTCTTCTTSGGGBCHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCCCcHHHHHHHHHHh-hhcCCCceEEEeeeeeECCchHHHH--hcCCccCCchHhhhHHHHHHHHHHH
Confidence            356999999999999999999988872 1122234556665544333332221  1111111112456777777777766


Q ss_pred             hCCCc
Q 043737          162 MSNKK  166 (371)
Q Consensus       162 l~~~~  166 (371)
                      ..+++
T Consensus       156 k~g~~  160 (308)
T d1sq5a_         156 KSGVP  160 (308)
T ss_dssp             TTTCS
T ss_pred             HcCCC
Confidence            65543

>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=96.88  E-value=0.00039  Score=54.91  Aligned_cols=24  Identities=29%  Similarity=0.443  Sum_probs=22.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ++|+|.|++|+||||+++.+++.+
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~L   25 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEIL   25 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            688999999999999999999988

>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=96.86  E-value=0.00029  Score=56.16  Aligned_cols=25  Identities=28%  Similarity=0.250  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +.+|+|.|++|+||||.|+.+++.+
T Consensus         1 p~iI~i~GppGSGKsT~a~~La~~~   25 (194)
T d1teva_           1 PLVVFVLGGPGAGKGTQCARIVEKY   25 (194)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            3689999999999999999999887

>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=96.85  E-value=0.0012  Score=57.94  Aligned_cols=64  Identities=16%  Similarity=0.092  Sum_probs=37.0

Q ss_pred             hHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHH
Q 043737           69 STFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSI  135 (371)
Q Consensus        69 ~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l  135 (371)
                      .....+...+   ..++++|+|++|+||||++..+...+......-...+.+..........+...+
T Consensus       152 ~Q~~A~~~al---~~~~~vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~~I~l~ApTgkAA~~L~e~~  215 (359)
T d1w36d1         152 WQKVAAAVAL---TRRISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAAPTGKAAARLTESL  215 (359)
T ss_dssp             HHHHHHHHHH---TBSEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEBSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHH---cCCeEEEEcCCCCCceehHHHHHHHHHHHHhccCCeEEEecCcHHHHHHHHHHH
Confidence            3444444444   346999999999999999876554442222222345666655544444444433

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=96.84  E-value=0.00028  Score=57.49  Aligned_cols=25  Identities=20%  Similarity=0.339  Sum_probs=23.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .++|+|.||+|+||||+|+.+++++
T Consensus         3 ~piI~I~GppGSGKgT~ak~La~~~   27 (225)
T d1ckea_           3 APVITIDGPSGAGKGTLCKAMAEAL   27 (225)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            4699999999999999999999998

>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=96.82  E-value=0.00022  Score=56.66  Aligned_cols=24  Identities=25%  Similarity=0.416  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      |.|+|+||+|+|||||++.++++.
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~~~   25 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhC
Confidence            568899999999999999999887

>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=96.74  E-value=0.00035  Score=55.50  Aligned_cols=25  Identities=28%  Similarity=0.199  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +..|+|.|++|+||||+|+.+++.+
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~~~   27 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKTKY   27 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4568899999999999999999887

>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=96.73  E-value=0.00031  Score=55.94  Aligned_cols=23  Identities=35%  Similarity=0.424  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .|+|.||+|+|||||++++++..
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~   24 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEH   24 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHhC
Confidence            47899999999999999998887

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.70  E-value=0.0005  Score=55.65  Aligned_cols=25  Identities=20%  Similarity=0.324  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +-+|+|.|+.|+||||||+.+.+.+
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~~l   26 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQLL   26 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999999999999998887

>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=96.68  E-value=0.00049  Score=54.84  Aligned_cols=26  Identities=27%  Similarity=0.289  Sum_probs=23.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..++|+|.|++|+||||+|+.+++..
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            45799999999999999999999886

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=96.60  E-value=0.0014  Score=56.59  Aligned_cols=53  Identities=19%  Similarity=0.209  Sum_probs=35.2

Q ss_pred             HHHHHHHHhc--CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCC
Q 043737           71 FDRVWRCLME--EQMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASK  124 (371)
Q Consensus        71 ~~~l~~~L~~--~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~  124 (371)
                      ..++.+.+..  .+..+|+|+|++|+|||||..++...+. ..++--.++-++.+.
T Consensus        37 ~~~~~~~~~~~~~~~~~igitG~pGaGKSTli~~l~~~~~-~~g~~vaViavDpss   91 (323)
T d2qm8a1          37 VRDLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGSLLT-AAGHKVAVLAVDPSS   91 (323)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHHHHH-HTTCCEEEEEECGGG
T ss_pred             HHHHHHHhhhccCCceEEeeeCCCCCCHHHHHHHHHHHHh-hcCCceeeeeccccc
Confidence            3445555432  4678999999999999999999998762 122223455554443

>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=96.60  E-value=0.00058  Score=53.83  Aligned_cols=24  Identities=29%  Similarity=0.488  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ++|+|.||+|+|||||++.+.++.
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~~~   26 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRERI   26 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhC
Confidence            588999999999999999998886

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=96.60  E-value=0.00052  Score=55.87  Aligned_cols=24  Identities=29%  Similarity=0.391  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -+|+|-||+|+||||+|+.++.++
T Consensus         4 i~IaIdGp~GsGKgT~ak~La~~l   27 (223)
T d1q3ta_           4 IQIAIDGPASSGKSTVAKIIAKDF   27 (223)
T ss_dssp             CEEEEECSSCSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            368899999999999999999998

>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=96.59  E-value=0.0036  Score=52.54  Aligned_cols=35  Identities=23%  Similarity=0.143  Sum_probs=28.8

Q ss_pred             HHHHHHhc-CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           73 RVWRCLME-EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        73 ~l~~~L~~-~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ++++.+.. .....++|.|.+|+|||+|+.++++..
T Consensus        32 r~ID~l~PigrGQr~~I~g~~g~GKT~l~~~i~~~~   67 (289)
T d1xpua3          32 RVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSI   67 (289)
T ss_dssp             HHHHHHSCCBTTCEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             eeeeecccccCCCeeeEeCCCCCCHHHHHHHHHHHH
Confidence            56777754 455689999999999999999998876

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.59  E-value=0.00061  Score=53.52  Aligned_cols=25  Identities=20%  Similarity=0.260  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+.|+|+||+|+|||||+++++++.
T Consensus         3 ~k~ivl~Gpsg~GK~tl~~~L~~~~   27 (178)
T d1kgda_           3 RKTLVLLGAHGVGRRHIKNTLITKH   27 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHhC
Confidence            3689999999999999999999876

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=96.58  E-value=0.0019  Score=53.45  Aligned_cols=45  Identities=18%  Similarity=0.074  Sum_probs=36.8

Q ss_pred             ccccchhHHHHHHHHHhc--CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           63 TVVGLQSTFDRVWRCLME--EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        63 ~~vGR~~~~~~l~~~L~~--~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .|||....++++.+.+..  .....|.|.|+.|+|||++|+.+.+..
T Consensus         1 ~~v~~S~~~~~~~~~~~~~a~~~~pvlI~Ge~GtGK~~~A~~ih~~s   47 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIKKISCAECPVLITGESGVGKEVVARLIHKLS   47 (247)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CeEecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhc
Confidence            389999999998888765  334568899999999999999987654

>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=96.55  E-value=0.00056  Score=53.69  Aligned_cols=23  Identities=26%  Similarity=0.328  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .|+|.|++|+||||+|+.+++.+
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1zina1           2 NLVLMGLPGAGKGTQAEKIVAAY   24 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            37799999999999999999887

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=96.55  E-value=0.0015  Score=56.19  Aligned_cols=47  Identities=21%  Similarity=0.280  Sum_probs=38.0

Q ss_pred             CCccccchhHHHHHHHHHhc--------C-CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           61 PPTVVGLQSTFDRVWRCLME--------E-QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~~--------~-~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...++|-++.++.+...+..        + ...++.++||+|+|||.||+.+++.+
T Consensus        21 ~~~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l   76 (315)
T d1r6bx3          21 KMLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL   76 (315)
T ss_dssp             TTTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhc
Confidence            35679999999998877642        1 23478899999999999999999887

>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=96.49  E-value=0.012  Score=48.92  Aligned_cols=24  Identities=25%  Similarity=0.355  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+..|+|++|+|||+|+.+++...
T Consensus        30 ~~~~i~G~~G~GKS~l~l~la~~i   53 (274)
T d1nlfa_          30 TVGALVSPGGAGKSMLALQLAAQI   53 (274)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHH
Confidence            588899999999999999988765

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=96.48  E-value=0.0013  Score=55.12  Aligned_cols=38  Identities=21%  Similarity=0.343  Sum_probs=29.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCC
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASK  124 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~  124 (371)
                      +.|+|+|-||+||||+|..++..+.+  .. ..++-+++..
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~~LA~--~G-~rVllID~D~   39 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTSGLHA--MG-KTIMVVGCDP   39 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHT--TT-CCEEEEEECT
T ss_pred             CEEEEECCCcCCHHHHHHHHHHHHHh--CC-CcEEEEecCC
Confidence            67899999999999999999999842  22 3566666653

>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=96.47  E-value=0.00067  Score=53.30  Aligned_cols=23  Identities=30%  Similarity=0.310  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .|+|.|++|+||||+|+.+++.+
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~~   24 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEKL   24 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            47888999999999999999887

>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=96.45  E-value=0.0009  Score=53.09  Aligned_cols=25  Identities=28%  Similarity=0.413  Sum_probs=21.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...|.|.|++|+||||+|+.+++++
T Consensus         6 ~mrIiliG~PGSGKtT~a~~La~~~   30 (189)
T d2ak3a1           6 LLRAAIMGAPGSGKGTVSSRITKHF   30 (189)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHB
T ss_pred             ceeEEEECCCCCCHHHHHHHHHHHH
Confidence            3456678999999999999999887

>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=96.43  E-value=0.0008  Score=52.91  Aligned_cols=23  Identities=30%  Similarity=0.423  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .|+|.|++|+||||+|+.+++++
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKY   24 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            47789999999999999999987

>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=96.43  E-value=0.002  Score=55.60  Aligned_cols=36  Identities=19%  Similarity=0.310  Sum_probs=28.5

Q ss_pred             HHHHHHHhc--CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           72 DRVWRCLME--EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        72 ~~l~~~L~~--~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+++..+..  ++..+|+|+|++|+|||||...+....
T Consensus        41 ~~ll~~~~~~~~~~~~IgitG~pGaGKSTLi~~l~~~~   78 (327)
T d2p67a1          41 TQLLDAIMPYCGNTLRLGVTGTPGAGKSTFLEAFGMLL   78 (327)
T ss_dssp             HHHHHHHGGGCSCSEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHhhhccCCceEEEeeCCCCCCHHHHHHHHHHHH
Confidence            344444432  467899999999999999999998877

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=96.38  E-value=0.00064  Score=59.19  Aligned_cols=45  Identities=18%  Similarity=0.242  Sum_probs=32.9

Q ss_pred             CccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhh
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      +.++|.+.....|.-++...+..-|.|.|++|+|||+||+.+..-
T Consensus         7 ~~I~Gq~~~kral~laa~~~~~h~vLl~G~pG~GKT~lar~~~~i   51 (333)
T d1g8pa_           7 SAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAAL   51 (333)
T ss_dssp             GGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHHH
T ss_pred             hhccCcHHHHHHHHHHHhccCCCeEEEECCCCccHHHHHHHHHHh
Confidence            356999877665544433333356899999999999999998753

>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=96.32  E-value=0.0011  Score=52.00  Aligned_cols=23  Identities=26%  Similarity=0.359  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .|+|.|++|+||||+|+.+++.+
T Consensus         4 rIvl~G~pGSGKtT~a~~La~~~   26 (180)
T d1akya1           4 RMVLIGPPGAGKGTQAPNLQERF   26 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            35577999999999999999887

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.31  E-value=0.0038  Score=52.48  Aligned_cols=82  Identities=9%  Similarity=-0.032  Sum_probs=46.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhc-----cCCCCCCcCCHHHHHHH
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKIN-----LFNESWNSRSLQEKSQD  157 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~-----~~~~~~~~~~~~~~~~~  157 (371)
                      +-+|+|.|..|+|||||+..+...+.........+..++...-+-..+-...+.....     .....+...+.....+.
T Consensus        27 P~iIGi~G~qGSGKSTl~~~l~~~L~~~~~~~~~v~~iS~DdfY~t~~~r~~L~~~~~~~pl~~~RG~PgThD~~ll~~~  106 (286)
T d1odfa_          27 PLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDFYLTHEDQLKLNEQFKNNKLLQGRGLPGTHDMKLLQEV  106 (286)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGGBCCHHHHHHHHHHTTTCGGGSSSCSTTSBCHHHHHHH
T ss_pred             CEEEEeECCCCCCHHHHHHHHHHHHHHHhCCCcceEeeccCCCCCCHHHHHHHhhhccccccceecCCCcchhHHHHHHH
Confidence            3488999999999999999887765211111224666676554433333344444431     11122245566666666


Q ss_pred             HHHHhCC
Q 043737          158 IVKNMSN  164 (371)
Q Consensus       158 l~~~l~~  164 (371)
                      +....++
T Consensus       107 l~~l~~~  113 (286)
T d1odfa_         107 LNTIFNN  113 (286)
T ss_dssp             HHHHTC-
T ss_pred             HHHHHhh
Confidence            6655543

>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=96.28  E-value=0.0013  Score=52.94  Aligned_cols=25  Identities=16%  Similarity=0.138  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+++|+||+|+|||||.+.+....
T Consensus         2 G~livi~GPSG~GK~tl~~~L~~~~   26 (205)
T d1s96a_           2 GTLYIVSAPSGAGKSSLIQALLKTQ   26 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhhC
Confidence            3588999999999999999998886

>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=96.24  E-value=0.0013  Score=52.08  Aligned_cols=24  Identities=33%  Similarity=0.454  Sum_probs=20.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .++| |.|++|+||||+|+.+++++
T Consensus         4 ~rii-l~G~pGSGKsT~a~~La~~~   27 (190)
T d1ak2a1           4 VRAV-LLGPPGAGKGTQAPKLAKNF   27 (190)
T ss_dssp             CEEE-EECCTTSSHHHHHHHHHHHH
T ss_pred             cEEE-EECCCCCCHHHHHHHHHHHh
Confidence            3455 68999999999999999887

>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=96.23  E-value=0.0063  Score=49.97  Aligned_cols=49  Identities=20%  Similarity=0.252  Sum_probs=35.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCC---CCCCCeEEEEEeCCcCCHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHT---PNDFDFVIWVVASKDLQLEQ  130 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~---~~~f~~~~wv~~~~~~~~~~  130 (371)
                      ..+++.|.|++|+|||+|+.+++......   .......+|+..........
T Consensus        35 ~G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (254)
T d1pzna2          35 TQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPER   86 (254)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHH
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHhhchHHhcCCCceEEEEeccchhHHHH
Confidence            45799999999999999999998876211   12345778887766655433

>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=96.22  E-value=0.0011  Score=51.81  Aligned_cols=23  Identities=30%  Similarity=0.289  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .|+|.|++|+||||+|+.++++.
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~~   24 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEKY   24 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            46789999999999999999887

>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=96.16  E-value=0.0029  Score=50.87  Aligned_cols=25  Identities=20%  Similarity=0.328  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...|+|.|+.|+||||+++.+.+.+
T Consensus         3 G~lI~ieG~dGsGKsT~~~~L~~~L   27 (209)
T d1nn5a_           3 GALIVLEGVDRAGKSTQSRKLVEAL   27 (209)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             eeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3588999999999999999999987

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=96.13  E-value=0.0031  Score=55.25  Aligned_cols=47  Identities=19%  Similarity=0.172  Sum_probs=36.5

Q ss_pred             CCccccchhHHHHHHHHHh------------------------------cCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           61 PPTVVGLQSTFDRVWRCLM------------------------------EEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        61 ~~~~vGR~~~~~~l~~~L~------------------------------~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+.||-++..+.+..++.                              +-....+.+.||.|+|||.||+.++...
T Consensus        16 ~~~ViGQd~Akkava~Avrn~~rR~~~~~~~r~~~~~~~~~~~~~~~~~~~p~~niLfiGPTGvGKTElAk~LA~~~   92 (364)
T d1um8a_          16 DNYVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHL   92 (364)
T ss_dssp             HTTCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCeecChHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccccccccCCCcceeeeCCCCccHHHHHHHHHhhc
Confidence            3568999998887766552                              1134568888999999999999998775

>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=96.11  E-value=0.0023  Score=52.52  Aligned_cols=23  Identities=35%  Similarity=0.462  Sum_probs=21.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +|+|.|+.|+|||||...+.+..
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~   24 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYL   24 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHH
Confidence            78999999999999999998876

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=96.09  E-value=0.0014  Score=52.06  Aligned_cols=26  Identities=35%  Similarity=0.155  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ++.+|+|-|..|+||||+++.+.+.+
T Consensus         8 kp~~I~ieG~~GsGKTTl~~~L~~~l   33 (197)
T d2vp4a1           8 QPFTVLIEGNIGSGKTTYLNHFEKYK   33 (197)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGGGT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHh
Confidence            45689999999999999999998776

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=96.07  E-value=0.0089  Score=49.85  Aligned_cols=91  Identities=9%  Similarity=0.085  Sum_probs=50.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcC-CHHHHHHHHHHHhccC---------CCCC-CcCCH
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDL-QLEQIQGSIAKKINLF---------NESW-NSRSL  151 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~l~~~l~~~---------~~~~-~~~~~  151 (371)
                      ...+.|.|.+|+|||+|+.+.....   ..+...++++-+.... ...++..++...=...         ..+. .....
T Consensus        67 GQr~~Ifg~~g~GKt~l~~~~~~~~---~~~~~v~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~tsd~p~~~r~~a  143 (276)
T d1fx0a3          67 GQRELIIGDRQTGKTAVATDTILNQ---QGQNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYLA  143 (276)
T ss_dssp             TCBCBEEESSSSSHHHHHHHHHHTC---CTTTCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGTTHH
T ss_pred             CceEeeccCCCCChHHHHHHHHhhh---cccCceeeeeeecchhHHHHHHHHhhccCCcceeeeecccccCccHHHHHHH
Confidence            3468889999999999999876554   4444577777766543 2334444433321000         0000 01111


Q ss_pred             HHHHHHHHHHh--CCCceEEEEeCCCC
Q 043737          152 QEKSQDIVKNM--SNKKFVLLLDHIWE  176 (371)
Q Consensus       152 ~~~~~~l~~~l--~~~~~LlVlDdv~~  176 (371)
                      ....-.+.+++  +++++|+++||+.+
T Consensus       144 ~~~a~tiAEyfrd~G~~Vlll~Dsltr  170 (276)
T d1fx0a3         144 PYTGAALAEYFMYRERHTLIIYDDLSK  170 (276)
T ss_dssp             HHHHHHHHHHHHHTTCEEEEEEECHHH
T ss_pred             HHHHHHHHHHHHHcCCceeEEeeccHH
Confidence            12222333333  47899999999853

>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=96.05  E-value=0.013  Score=48.98  Aligned_cols=51  Identities=12%  Similarity=0.061  Sum_probs=33.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHH
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAK  137 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~  137 (371)
                      ..++.|.|.+|+|||+++.+++.+..  ...-..+++++...  +...+...++.
T Consensus        35 G~l~vi~G~~G~GKT~~~~~la~~~a--~~~g~~v~~~s~E~--~~~~~~~r~~~   85 (277)
T d1cr2a_          35 GEVIMVTSGSGMGKSTFVRQQALQWG--TAMGKKVGLAMLEE--SVEETAEDLIG   85 (277)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHHHH--HTSCCCEEEEESSS--CHHHHHHHHHH
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHhhh--hhcccceeEeeecc--chhhHHhHHHH
Confidence            45899999999999999999987642  12222466665543  34444444443

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=96.03  E-value=0.0048  Score=46.79  Aligned_cols=26  Identities=31%  Similarity=0.213  Sum_probs=23.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..-+|.+.|.=|+||||+++.+++.+
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            34589999999999999999999987

>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=96.03  E-value=0.0047  Score=50.49  Aligned_cols=46  Identities=13%  Similarity=0.154  Sum_probs=33.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCC---CCCCCeEEEEEeCCcCC
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHT---PNDFDFVIWVVASKDLQ  127 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~---~~~f~~~~wv~~~~~~~  127 (371)
                      ..+++.|+|++|+|||+|+.+++......   ...-..++|++......
T Consensus        33 ~G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~~~   81 (251)
T d1szpa2          33 TGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFR   81 (251)
T ss_dssp             SSSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSCCC
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeecchHH
Confidence            45699999999999999999998765211   11234678887765544

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

Probab=96.02  E-value=0.0023  Score=54.31  Aligned_cols=40  Identities=23%  Similarity=0.282  Sum_probs=30.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKD  125 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~  125 (371)
                      .+.|+|+|-||+||||+|..++..+.+   .-..++-+++...
T Consensus         2 Mr~IaisgKGGVGKTT~a~NLA~~LA~---~G~rVLlID~DpQ   41 (289)
T d2afhe1           2 MRQCAIYGKGGIGKSTTTQNLVAALAE---MGKKVMIVGCDPK   41 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHHH---TTCCEEEEEECSS
T ss_pred             ccEEEEECCCCCCHHHHHHHHHHHHHH---CCCCEEEEecCCC
Confidence            367888999999999999999888742   2234777777643

>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=95.99  E-value=0.0029  Score=55.40  Aligned_cols=26  Identities=23%  Similarity=0.115  Sum_probs=24.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+.+.++||+|+|||++|..+++.+
T Consensus       153 ~~~~~~~~g~~~~gk~~~~~~~~~~~  178 (362)
T d1svma_         153 KKRYWLFKGPIDSGKTTLAAALLELC  178 (362)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CcCeEEEECCCCCCHHHHHHHHHHHc
Confidence            45799999999999999999999998

>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=95.99  E-value=0.0023  Score=50.59  Aligned_cols=23  Identities=26%  Similarity=0.342  Sum_probs=19.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQIN  104 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~  104 (371)
                      .+-+|+|+|..|+||||+|..+.
T Consensus         2 ~p~IIgitG~~gSGKstva~~l~   24 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALLR   24 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            35688999999999999998773

>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=95.98  E-value=0.0062  Score=49.41  Aligned_cols=41  Identities=15%  Similarity=-0.044  Sum_probs=28.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCC
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASK  124 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~  124 (371)
                      ...++.|+|++|+|||+||.+++....  ...-..++|++...
T Consensus        25 ~G~~~~I~G~~G~GKT~la~~~~~~~~--~~~~~~~~~~s~e~   65 (242)
T d1tf7a1          25 IGRSTLVSGTSGTGKTLFSIQFLYNGI--IEFDEPGVFVTFEE   65 (242)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHH--HHHCCCEEEEESSS
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHH--HhcCCCcccccccC
Confidence            456999999999999999988765431  11222466666543

>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=95.82  E-value=0.0066  Score=48.59  Aligned_cols=25  Identities=20%  Similarity=0.258  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+.|+|-|+.|+||||++..+.+.+
T Consensus         2 gkfIviEG~dGsGKsT~~~~L~~~L   26 (210)
T d4tmka_           2 SKYIVIEGLEGAGKTTARNVVVETL   26 (210)
T ss_dssp             CCEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH
Confidence            3578999999999999999999887

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=95.80  E-value=0.0027  Score=53.34  Aligned_cols=26  Identities=19%  Similarity=0.393  Sum_probs=20.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +.++|+|.|.+|+||||+++.+.+.+
T Consensus         3 k~pIIgIaG~SGSGKTTva~~l~~i~   28 (288)
T d1a7ja_           3 KHPIISVTGSSGAGTSTVKHTFDQIF   28 (288)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHH
Confidence            46799999999999999999988876

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.77  E-value=0.0031  Score=51.77  Aligned_cols=26  Identities=23%  Similarity=0.342  Sum_probs=23.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +++.|+|-|.-|+||||+++.+.+.+
T Consensus         1 ~pk~IviEG~~GsGKST~~~~L~~~l   26 (241)
T d2ocpa1           1 GPRRLSIEGNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHC
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            36789999999999999999999887

>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=95.72  E-value=0.0028  Score=48.04  Aligned_cols=22  Identities=27%  Similarity=0.421  Sum_probs=19.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043737           86 VGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        86 v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      |.|.|++|+|||||...+....
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            6799999999999999987664

>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=95.61  E-value=0.0042  Score=49.60  Aligned_cols=23  Identities=26%  Similarity=0.618  Sum_probs=21.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .|+|.|..|+||||+++.+.+.+
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l   24 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAF   24 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68899999999999999999887

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.59  E-value=0.0032  Score=50.46  Aligned_cols=26  Identities=19%  Similarity=0.273  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...++.|.|++|+|||+||.+++...
T Consensus        22 ~G~v~~i~G~~GsGKT~l~l~la~~~   47 (242)
T d1n0wa_          22 TGSITEMFGEFRTGKTQICHTLAVTC   47 (242)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHHH
Confidence            35699999999999999999998775

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.57  E-value=0.0023  Score=52.45  Aligned_cols=25  Identities=16%  Similarity=0.286  Sum_probs=23.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+.|+|-|+.|+||||+++.+.+.+
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            4789999999999999999998876

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.56  E-value=0.018  Score=47.02  Aligned_cols=47  Identities=17%  Similarity=0.143  Sum_probs=34.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccC---CCCCCCeEEEEEeCCcCCH
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLH---TPNDFDFVIWVVASKDLQL  128 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~---~~~~f~~~~wv~~~~~~~~  128 (371)
                      ..+++.|+|++|+|||++|.+++.....   .......+.|+........
T Consensus        36 ~G~~~~i~G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (258)
T d1v5wa_          36 SMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRP   85 (258)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHhhhhcccccceEEEechHHHHHH
Confidence            4579999999999999999999876521   1234457788877665543

>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=95.51  E-value=0.0038  Score=49.75  Aligned_cols=26  Identities=35%  Similarity=0.511  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||.+.++.-.
T Consensus        26 ~Gei~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          26 KGNVVNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhccc
Confidence            45689999999999999999998765

>d1tmka_ c.37.1.1 (A:) Thymidylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.47  E-value=0.012  Score=47.18  Aligned_cols=26  Identities=27%  Similarity=0.367  Sum_probs=23.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +.+.|+|-|+-|+||||+++.+.+.+
T Consensus         2 kGk~I~iEG~DGsGKST~~~~L~~~L   27 (214)
T d1tmka_           2 RGKLILIEGLDRTGKTTQCNILYKKL   27 (214)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CeEEEEEECCCCCcHHHHHHHHHHHH
Confidence            45789999999999999999999888

>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=95.42  E-value=0.0069  Score=49.10  Aligned_cols=38  Identities=24%  Similarity=0.179  Sum_probs=29.4

Q ss_pred             eEEEEE-cCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCC
Q 043737           84 GIVGLY-GMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASK  124 (371)
Q Consensus        84 ~~v~I~-G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~  124 (371)
                      |+|+|+ |-||+||||+|..++..+.   ..-..+..+++..
T Consensus         2 kvIav~s~KGGvGKTtia~nlA~~la---~~g~~VlliD~D~   40 (232)
T d1hyqa_           2 RTITVASGKGGTGKTTITANLGVALA---QLGHDVTIVDADI   40 (232)
T ss_dssp             EEEEEEESSSCSCHHHHHHHHHHHHH---HTTCCEEEEECCC
T ss_pred             EEEEEECCCCCChHHHHHHHHHHHHH---hCCCCEEEEeCCC
Confidence            567776 8999999999999998884   2334688888753

>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=95.38  E-value=0.0042  Score=47.37  Aligned_cols=23  Identities=26%  Similarity=0.377  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -|+|+|.+|+|||||...+....
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~~~   29 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQVGE   29 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999998774

>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=95.37  E-value=0.0044  Score=50.32  Aligned_cols=26  Identities=27%  Similarity=0.281  Sum_probs=21.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||.+.++.-.
T Consensus        30 ~Ge~~~iiG~sGsGKSTLl~~i~gl~   55 (230)
T d1l2ta_          30 EGEFVSIMGPSGSGKSTMLNIIGCLD   55 (230)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCcchhhHhccCCC
Confidence            45699999999999999998775543

>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=95.35  E-value=0.0044  Score=47.59  Aligned_cols=23  Identities=35%  Similarity=0.304  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -|+|.|.+|+|||+|+.++....
T Consensus         6 KivlvG~~~vGKTsli~~~~~~~   28 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTEKK   28 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            37788999999999999988653

>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=95.31  E-value=0.0046  Score=47.87  Aligned_cols=22  Identities=36%  Similarity=0.362  Sum_probs=19.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043737           86 VGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        86 v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      |+|+|.+|+|||+|+.++.+..
T Consensus         6 ivvvG~~~vGKTsli~r~~~~~   27 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDKR   27 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHhcCC
Confidence            6789999999999999988663

>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=95.31  E-value=0.0064  Score=49.25  Aligned_cols=26  Identities=35%  Similarity=0.397  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..++..|+|.-|+|||||.+++++..
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~~   27 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNEQ   27 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHSC
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhcC
Confidence            46899999999999999999998763

>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=95.30  E-value=0.0046  Score=47.33  Aligned_cols=21  Identities=29%  Similarity=0.523  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 043737           86 VGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        86 v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      |++.|.+|+|||||+..+.+.
T Consensus         5 v~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999998865

>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: HCV helicase domain
species: Human hepatitis C virus (HCV), different isolates [TaxId: 11103]

Probab=95.29  E-value=0.015  Score=42.77  Aligned_cols=51  Identities=12%  Similarity=0.081  Sum_probs=31.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHh
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKI  139 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l  139 (371)
                      +.++..|+++-|+|||+++..++...       ...+.+.+....-..+....+...+
T Consensus         7 ~~~~~ll~apTGsGKT~~~~~~~~~~-------~~~vli~~P~~~l~~q~~~~~~~~~   57 (136)
T d1a1va1           7 SFQVAHLHAPTGSGKSTKVPAAYAAQ-------GYKVLVLNPSVAATLGFGAYMSKAH   57 (136)
T ss_dssp             SCEEEEEECCTTSCTTTHHHHHHHTT-------TCCEEEEESCHHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHc-------CCcEEEEcChHHHHHHHHHHHHHHh
Confidence            45788999999999999987766543       1234444444333444444444444

>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=95.28  E-value=0.0048  Score=50.43  Aligned_cols=26  Identities=31%  Similarity=0.364  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||++.++--.
T Consensus        30 ~Ge~~~iiG~sGsGKSTLl~~i~Gl~   55 (240)
T d3dhwc1          30 AGQIYGVIGASGAGKSTLIRCVNLLE   55 (240)
T ss_dssp             SSCEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcCCc
Confidence            45699999999999999999886654

>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=95.28  E-value=0.0055  Score=49.77  Aligned_cols=26  Identities=31%  Similarity=0.263  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||.+.++.-.
T Consensus        25 ~Gei~~liGpsGsGKSTLl~~i~Gl~   50 (232)
T d2awna2          25 EGEFVVFVGPSGCGKSTLLRMIAGLE   50 (232)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcCC
Confidence            45699999999999999999886554

>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=95.26  E-value=0.005  Score=50.32  Aligned_cols=26  Identities=31%  Similarity=0.199  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||++.++.-.
T Consensus        28 ~Ge~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          28 DGEFMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcCC
Confidence            34599999999999999999887654

>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=95.25  E-value=0.011  Score=45.61  Aligned_cols=34  Identities=35%  Similarity=0.563  Sum_probs=25.3

Q ss_pred             HHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhh
Q 043737           72 DRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        72 ~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      ..+..++. .+..-|.|+|.+|+|||||+.++...
T Consensus         5 ~~~~~~~~-~k~~kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1           5 TRIWRLFN-HQEHKVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             HHHHHHHT-TSCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHHHhC-CCeEEEEEECCCCCCHHHHHHHHhcC
Confidence            45555553 33355779999999999999998765

>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=95.24  E-value=0.0049  Score=47.31  Aligned_cols=23  Identities=35%  Similarity=0.394  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -|+|+|.+|+|||+|+.++....
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~~   27 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47889999999999999998763

>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=95.23  E-value=0.0087  Score=48.74  Aligned_cols=24  Identities=25%  Similarity=0.261  Sum_probs=21.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+++|.|+.|+|||||++.++.-.
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl~   48 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEECCCCChHHHHHHHHHcCC
Confidence            478899999999999999998765

>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=95.19  E-value=0.0052  Score=47.00  Aligned_cols=21  Identities=29%  Similarity=0.316  Sum_probs=19.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 043737           86 VGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        86 v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      |+|.|.+|+|||||+.++...
T Consensus         5 v~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            779999999999999999875

>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=95.17  E-value=0.0049  Score=50.54  Aligned_cols=26  Identities=31%  Similarity=0.521  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....++|+|+.|+|||||++.+..-.
T Consensus        28 ~Ge~vaIvG~sGsGKSTLl~ll~gl~   53 (241)
T d2pmka1          28 QGEVIGIVGRSGSGKSTLTKLIQRFY   53 (241)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcC
Confidence            44689999999999999999987765

>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=95.15  E-value=0.011  Score=52.98  Aligned_cols=46  Identities=22%  Similarity=0.210  Sum_probs=36.1

Q ss_pred             CccccchhHHHHHHHHHhc--------C------CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           62 PTVVGLQSTFDRVWRCLME--------E------QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~--------~------~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .++||-++..+.|.-++.+        .      ..+.|.+.||.|+|||-||+.++..+
T Consensus        14 ~yVvGQ~~AKk~lsvav~nhyrR~~~~~~~~~ei~ksNILliGPTGvGKTlLAr~LAk~l   73 (443)
T d1g41a_          14 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA   73 (443)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CcccCcHHHHHHHHHHHHHHHHHhhcccccccccccccEEEECCCCCCHHHHHHHHHHHh
Confidence            5678888887776655532        1      24589999999999999999999877

>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=95.15  E-value=0.0055  Score=47.07  Aligned_cols=23  Identities=39%  Similarity=0.430  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -|+|.|.+|+|||+|+.++....
T Consensus         5 KivlvG~~~vGKTsLi~r~~~~~   27 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCENK   27 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36899999999999999988653

>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=95.15  E-value=0.0064  Score=49.60  Aligned_cols=26  Identities=31%  Similarity=0.217  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||.+.+..-.
T Consensus        31 ~Ge~~~liGpsGaGKSTLl~~i~Gl~   56 (239)
T d1v43a3          31 DGEFLVLLGPSGCGKTTTLRMIAGLE   56 (239)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcCC
Confidence            45699999999999999999887654

>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=95.12  E-value=0.0053  Score=47.28  Aligned_cols=22  Identities=36%  Similarity=0.658  Sum_probs=19.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043737           86 VGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        86 v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      |+|.|.+|+|||||+..+....
T Consensus         5 i~viG~~~vGKTsLi~r~~~~~   26 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKGT   26 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTCC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            6788999999999999988653

>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=95.10  E-value=0.0058  Score=50.52  Aligned_cols=26  Identities=27%  Similarity=0.376  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....++|+|+.|+|||||++.++.-.
T Consensus        40 ~Ge~iaivG~sGsGKSTLl~ll~gl~   65 (253)
T d3b60a1          40 AGKTVALVGRSGSGKSTIASLITRFY   65 (253)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHTTTT
T ss_pred             CCCEEEEECCCCChHHHHHHHHhccc
Confidence            45699999999999999999887654

>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=95.08  E-value=0.0064  Score=49.87  Aligned_cols=27  Identities=19%  Similarity=0.425  Sum_probs=23.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .....++|+|+.|+|||||++.+..-.
T Consensus        26 ~~Ge~vaivG~sGsGKSTLl~ll~gl~   52 (242)
T d1mv5a_          26 QPNSIIAFAGPSGGGKSTIFSLLERFY   52 (242)
T ss_dssp             CTTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            355799999999999999999887654

>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=95.08  E-value=0.0059  Score=46.96  Aligned_cols=22  Identities=27%  Similarity=0.539  Sum_probs=19.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043737           86 VGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        86 v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      |+|.|.+|+|||+|+..++...
T Consensus         5 i~lvG~~~vGKTsli~r~~~~~   26 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTKR   26 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            6788999999999999998764

>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=95.06  E-value=0.006  Score=47.05  Aligned_cols=23  Identities=30%  Similarity=0.455  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -|+|.|.+|+|||||+..+....
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~~   29 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQGL   29 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47899999999999999998753

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=95.06  E-value=0.0082  Score=46.41  Aligned_cols=24  Identities=21%  Similarity=0.113  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      .+-|.|.|++|+||||||..+..+
T Consensus        14 g~gvl~~G~sG~GKStlal~l~~~   37 (176)
T d1kkma_          14 GLGVLITGDSGVGKSETALELVQR   37 (176)
T ss_dssp             TEEEEEECCTTSCHHHHHHHHHHT
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHc
Confidence            457889999999999999998765

>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=95.06  E-value=0.0061  Score=46.92  Aligned_cols=22  Identities=27%  Similarity=0.398  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 043737           85 IVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      -|++.|.+|+|||||+..+...
T Consensus         7 Ki~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           7 KILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            3789999999999999998765

>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=95.06  E-value=0.0061  Score=46.95  Aligned_cols=23  Identities=30%  Similarity=0.377  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -|+|+|.+|+|||+|+.++....
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~~   30 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVKGQ   30 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36789999999999999998654

>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=95.05  E-value=0.0061  Score=46.57  Aligned_cols=22  Identities=32%  Similarity=0.406  Sum_probs=19.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043737           86 VGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        86 v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      |+|.|.+|+|||+|+.++....
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~~   24 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYDS   24 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6788999999999999988653

>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=95.05  E-value=0.0093  Score=48.03  Aligned_cols=34  Identities=29%  Similarity=0.436  Sum_probs=26.6

Q ss_pred             HHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           71 FDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        71 ~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ++.|..+|.   .+..++.|.+|+|||||...+..+.
T Consensus        86 ~~~L~~~l~---~kt~~~~G~SGVGKSTLiN~L~~~~  119 (225)
T d1u0la2          86 IEELKEYLK---GKISTMAGLSGVGKSSLLNAINPGL  119 (225)
T ss_dssp             HHHHHHHHS---SSEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             HhhHHHHhc---CCeEEEECCCCCCHHHHHHhhcchh
Confidence            466677662   3477889999999999999987654

>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=95.03  E-value=0.01  Score=48.08  Aligned_cols=38  Identities=24%  Similarity=0.253  Sum_probs=29.1

Q ss_pred             ceEEEEE-cCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeC
Q 043737           83 MGIVGLY-GMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVAS  123 (371)
Q Consensus        83 ~~~v~I~-G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~  123 (371)
                      .++|+|+ +-||+||||+|..++..+.   .....++.++..
T Consensus         2 ~~vIav~~~kGGvGKTtia~nLA~~la---~~g~~VlliD~D   40 (237)
T d1g3qa_           2 GRIISIVSGKGGTGKTTVTANLSVALG---DRGRKVLAVDGD   40 (237)
T ss_dssp             CEEEEEECSSTTSSHHHHHHHHHHHHH---HTTCCEEEEECC
T ss_pred             CeEEEEECCCCCCcHHHHHHHHHHHHH---hCCCCEEEEeCC
Confidence            3678888 7799999999999999884   222357777765

>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=95.02  E-value=0.0062  Score=47.11  Aligned_cols=23  Identities=30%  Similarity=0.450  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -|+|.|.+|+|||+|+..+....
T Consensus         8 Kv~lvG~~~vGKTsLi~r~~~~~   30 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALTIQFIQSY   30 (173)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            57899999999999999988653

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.99  E-value=0.0065  Score=50.12  Aligned_cols=27  Identities=19%  Similarity=0.321  Sum_probs=22.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .....++|+|+.|+|||||++.+..-.
T Consensus        38 ~~Ge~vaivG~sGsGKSTLl~li~gl~   64 (251)
T d1jj7a_          38 RPGEVTALVGPNGSGKSTVAALLQNLY   64 (251)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhccc
Confidence            345699999999999999999887654

>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=94.96  E-value=0.0072  Score=46.32  Aligned_cols=25  Identities=24%  Similarity=0.332  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..-|+|.|.+|+|||+|+..+....
T Consensus         4 ~~Kv~liG~~~vGKTsLl~~~~~~~   28 (167)
T d1xtqa1           4 SRKIAILGYRSVGKSSLTIQFVEGQ   28 (167)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCC
Confidence            3467889999999999999987653

>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=94.95  E-value=0.0075  Score=49.25  Aligned_cols=26  Identities=19%  Similarity=0.267  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...++.|.|++|+|||+++.+++...
T Consensus        33 ~G~l~~i~G~~G~GKT~~~l~~a~~~   58 (258)
T d2i1qa2          33 SQSVTEFAGVFGSGKTQIMHQSCVNL   58 (258)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            35799999999999999999998765

>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=94.94  E-value=0.0067  Score=46.75  Aligned_cols=23  Identities=30%  Similarity=0.446  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -|+|.|.+|+|||+|+..+....
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~~   29 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQSY   29 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47889999999999999988753

>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=94.94  E-value=0.0055  Score=49.65  Aligned_cols=26  Identities=23%  Similarity=0.152  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..-+++|.|+.|+|||||.+.++.-.
T Consensus        25 ~Ge~~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          25 SGEYFVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             TTCEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCc
Confidence            45599999999999999999987664

>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=94.94  E-value=0.0088  Score=46.23  Aligned_cols=24  Identities=25%  Similarity=0.134  Sum_probs=20.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      ..-|.|.|++|+||||||..+..+
T Consensus        15 g~gvli~G~sG~GKS~lal~l~~~   38 (177)
T d1knxa2          15 GVGVLLTGRSGIGKSECALDLINK   38 (177)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHTT
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHc
Confidence            457889999999999999998754

>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=94.94  E-value=0.0061  Score=50.49  Aligned_cols=26  Identities=27%  Similarity=0.317  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||++.++.-.
T Consensus        27 ~GEi~~iiG~sGsGKSTLl~~i~Gl~   52 (258)
T d1b0ua_          27 AGDVISIIGSSGSGKSTFLRCINFLE   52 (258)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHcCc
Confidence            45699999999999999999987543

>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=94.93  E-value=0.0068  Score=46.48  Aligned_cols=23  Identities=26%  Similarity=0.328  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -|+|.|.+|+|||||+.++....
T Consensus         6 Ki~lvG~~~vGKTsli~rl~~~~   28 (167)
T d1z0ja1           6 KVCLLGDTGVGKSSIMWRFVEDS   28 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36788999999999999998754

>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=94.92  E-value=0.007  Score=46.43  Aligned_cols=23  Identities=30%  Similarity=0.437  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -|+|+|.+|+|||+|+.++....
T Consensus         5 KivvvG~~~vGKTsli~r~~~~~   27 (167)
T d1c1ya_           5 KLVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            36789999999999999988764

>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=94.90  E-value=0.006  Score=46.62  Aligned_cols=23  Identities=30%  Similarity=0.463  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -|+|.|.+|+|||||...+....
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~~~   26 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNGED   26 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTCC
T ss_pred             EEEEECCCCCCHHHHHHHHcCCC
Confidence            47799999999999999987653

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.89  E-value=0.0079  Score=50.51  Aligned_cols=26  Identities=27%  Similarity=0.359  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....++|+|+.|+|||||++.++...
T Consensus        61 ~Ge~vaivG~nGsGKSTLl~~i~Gl~   86 (281)
T d1r0wa_          61 KGEMLAITGSTGSGKTSLLMLILGEL   86 (281)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhCCC
Confidence            45699999999999999999998765

>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=94.88  E-value=0.0072  Score=46.27  Aligned_cols=22  Identities=32%  Similarity=0.397  Sum_probs=19.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043737           86 VGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        86 v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      |++.|.+|+|||||+.+++...
T Consensus         5 i~vvG~~~vGKTSli~~l~~~~   26 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVEDK   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7799999999999999988753

>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=94.86  E-value=0.0077  Score=47.89  Aligned_cols=24  Identities=29%  Similarity=0.317  Sum_probs=21.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +.|+|.|.+|+|||||...+...-
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~~~   27 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTTDS   27 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            578999999999999999998663

>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=94.86  E-value=0.0073  Score=46.82  Aligned_cols=23  Identities=35%  Similarity=0.367  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -|+|.|.+|+|||+|+..+....
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~~   26 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKDQ   26 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            46788999999999999988764

>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=94.86  E-value=0.0082  Score=47.31  Aligned_cols=25  Identities=20%  Similarity=0.458  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      ..+.|+|.|.+|+|||||...+...
T Consensus        22 ~~~~I~lvG~~n~GKSTLin~L~g~   46 (195)
T d1svia_          22 GLPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             CCCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHhcCC
Confidence            4567999999999999999999753

>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=94.85  E-value=0.0073  Score=47.11  Aligned_cols=23  Identities=35%  Similarity=0.388  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -|+|.|.+|+|||+|+.++....
T Consensus         7 KivviG~~~vGKTsli~~~~~~~   29 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTNA   29 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47899999999999999988764

>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=94.84  E-value=0.0072  Score=46.45  Aligned_cols=22  Identities=32%  Similarity=0.262  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043737           86 VGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        86 v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      |+|.|.+|+|||+|+..+....
T Consensus         4 i~lvG~~~vGKTsLi~~~~~~~   25 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGGVE   25 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC-
T ss_pred             EEEECCCCcCHHHHHHHHhCCc
Confidence            6789999999999999987654

>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=94.83  E-value=0.0075  Score=46.57  Aligned_cols=23  Identities=30%  Similarity=0.336  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -|+|.|.+|+|||||+..+....
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~~~   26 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVNDK   26 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHcCC
Confidence            37899999999999999987643

>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=94.82  E-value=0.0077  Score=46.30  Aligned_cols=23  Identities=22%  Similarity=0.316  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -|+|.|.+|+|||+|+.++....
T Consensus         5 Ki~vvG~~~vGKTsLi~~~~~~~   27 (170)
T d1ek0a_           5 KLVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36788999999999999988764

>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=94.81  E-value=0.0077  Score=46.13  Aligned_cols=22  Identities=32%  Similarity=0.504  Sum_probs=19.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043737           86 VGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        86 v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      |+|.|.+|+|||||+.++....
T Consensus         6 i~viG~~~vGKTsli~~l~~~~   27 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7788999999999999988763

>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=94.80  E-value=0.0076  Score=48.08  Aligned_cols=20  Identities=45%  Similarity=0.421  Sum_probs=18.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHH
Q 043737           84 GIVGLYGMGEVGKTTLLTQI  103 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~  103 (371)
                      -+|+|+|..|+||||+|..+
T Consensus         3 ~iIgITG~igSGKStv~~~l   22 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLF   22 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH
Confidence            47899999999999999866

>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=94.80  E-value=0.0085  Score=47.93  Aligned_cols=20  Identities=35%  Similarity=0.371  Sum_probs=18.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q 043737           85 IVGLYGMGEVGKTTLLTQIN  104 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~  104 (371)
                      +|+|+|..|+||||++..+.
T Consensus         5 iIgitG~igSGKStv~~~l~   24 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAFA   24 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHHH
Confidence            89999999999999998653

>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=94.79  E-value=0.0069  Score=47.36  Aligned_cols=22  Identities=32%  Similarity=0.338  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 043737           85 IVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      -|+|.|.+|+|||||+..+.+.
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~~   28 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTDN   28 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            3778999999999999998754

>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=94.76  E-value=0.0085  Score=47.72  Aligned_cols=24  Identities=25%  Similarity=0.306  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +.|+|.|++|+|||||..++....
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~~   24 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTGQ   24 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCC
Confidence            468999999999999999998754

>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=94.73  E-value=0.0084  Score=45.28  Aligned_cols=23  Identities=30%  Similarity=0.450  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -|+|.|.+|+|||||+..+....
T Consensus         2 KI~liG~~nvGKSSLln~l~~~~   24 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKNDR   24 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999987653

>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=94.71  E-value=0.011  Score=45.27  Aligned_cols=24  Identities=21%  Similarity=0.140  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      ..-|.|.|++|+||||||..+..+
T Consensus        15 g~gvli~G~sg~GKS~la~~l~~~   38 (169)
T d1ko7a2          15 GVGVLITGDSGIGKSETALELIKR   38 (169)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHT
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHc
Confidence            457899999999999999988766

>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=94.70  E-value=0.0084  Score=46.25  Aligned_cols=22  Identities=32%  Similarity=0.344  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 043737           85 IVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      -|+|.|.+|+|||||+.++...
T Consensus         7 KI~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999998765

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=94.69  E-value=0.0097  Score=48.63  Aligned_cols=24  Identities=25%  Similarity=0.324  Sum_probs=21.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+|+|+|..|+||||+|..+.+..
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e~~   25 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMSNY   25 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            589999999999999999987765

>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=94.65  E-value=0.0089  Score=46.21  Aligned_cols=22  Identities=36%  Similarity=0.542  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 043737           85 IVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      -|+|.|..|+|||||+..+...
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999998775

>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=94.65  E-value=0.009  Score=45.91  Aligned_cols=22  Identities=41%  Similarity=0.453  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 043737           85 IVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      -|+|+|.+|+|||+|+.++...
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999998775

>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=94.62  E-value=0.0092  Score=45.81  Aligned_cols=23  Identities=35%  Similarity=0.323  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -|+|.|.+|+|||||+.++....
T Consensus         6 KivlvG~~~vGKTsli~~~~~~~   28 (168)
T d1u8za_           6 KVIMVGSGGVGKSALTLQFMYDE   28 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47799999999999999987653

>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=94.61  E-value=0.009  Score=46.71  Aligned_cols=23  Identities=35%  Similarity=0.382  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -|+|.|.+|+|||+|+.++.+..
T Consensus        11 Ki~lvG~~~vGKTsLi~r~~~~~   33 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLLMSYANDA   33 (185)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhhCC
Confidence            37899999999999999988753

>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=94.59  E-value=0.013  Score=46.84  Aligned_cols=25  Identities=24%  Similarity=0.109  Sum_probs=22.5

Q ss_pred             eEEEEEcCC-CCcHHHHHHHHHhhcc
Q 043737           84 GIVGLYGMG-EVGKTTLLTQINKKFL  108 (371)
Q Consensus        84 ~~v~I~G~~-GiGKTtLa~~~~~~~~  108 (371)
                      +.++|+|.+ |+||||++..++..+.
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aLa   27 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAAK   27 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHHH
Confidence            578999998 9999999999999884

>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=94.57  E-value=0.007  Score=49.41  Aligned_cols=26  Identities=27%  Similarity=0.270  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||++.+..-.
T Consensus        30 ~Ge~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          30 NGERFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHcCc
Confidence            45699999999999999999887654

>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=94.54  E-value=0.0097  Score=45.73  Aligned_cols=22  Identities=41%  Similarity=0.554  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 043737           85 IVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      .|+|.|.+|+|||||+.++...
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~   23 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKK   23 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC-
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999998754

>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=94.54  E-value=0.01  Score=45.90  Aligned_cols=25  Identities=32%  Similarity=0.567  Sum_probs=20.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      +..-|+|+|.+|+|||||..++...
T Consensus        12 k~~kI~lvG~~~vGKTsLl~~l~~~   36 (186)
T d1f6ba_          12 KTGKLVFLGLDNAGKTTLLHMLKDD   36 (186)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHHSCC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4456889999999999999988654

>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=94.52  E-value=0.011  Score=45.48  Aligned_cols=26  Identities=23%  Similarity=0.350  Sum_probs=20.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhh
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      .+.--|.|.|.+|+|||||..++...
T Consensus        10 ~k~~kIvlvG~~~vGKTSli~rl~~~   35 (173)
T d1e0sa_          10 NKEMRILMLGLDAAGKTTILYKLKLG   35 (173)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHTTCC
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHhcC
Confidence            33344778999999999999998654

>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=94.51  E-value=0.0099  Score=46.35  Aligned_cols=22  Identities=41%  Similarity=0.454  Sum_probs=19.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043737           86 VGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        86 v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      |+|.|.+|+|||||+..+.+.-
T Consensus         5 v~vvG~~~vGKSSLi~~l~~~~   26 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVNKK   26 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7799999999999999988653

>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=94.51  E-value=0.01  Score=45.83  Aligned_cols=22  Identities=36%  Similarity=0.486  Sum_probs=19.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043737           86 VGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        86 v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      |+|.|.+|+|||||+.++.+..
T Consensus         9 I~vvG~~~vGKSSli~~~~~~~   30 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYVTNK   30 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7899999999999999987753

>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=94.48  E-value=0.01  Score=46.66  Aligned_cols=23  Identities=35%  Similarity=0.374  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -|+|.|.+|+|||+|+.++....
T Consensus         5 KvvllG~~~vGKTSli~r~~~~~   27 (191)
T d2ngra_           5 KCVVVGDGAVGKTCLLISYTTNK   27 (191)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36788999999999999988664

>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=94.48  E-value=0.012  Score=45.63  Aligned_cols=24  Identities=38%  Similarity=0.552  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      .+.|+|.|.+|+|||||+..++..
T Consensus         5 ~~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           5 SGFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            457999999999999999999865

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=94.43  E-value=0.082  Score=43.96  Aligned_cols=103  Identities=12%  Similarity=0.097  Sum_probs=53.5

Q ss_pred             HHHHHhc-CCceEEEEEcCCCCcHHHHHHHHHhhccC----CCC-CCCeEEEEEeCCcC-CHHHHHHHHHHHhccC----
Q 043737           74 VWRCLME-EQMGIVGLYGMGEVGKTTLLTQINKKFLH----TPN-DFDFVIWVVASKDL-QLEQIQGSIAKKINLF----  142 (371)
Q Consensus        74 l~~~L~~-~~~~~v~I~G~~GiGKTtLa~~~~~~~~~----~~~-~f~~~~wv~~~~~~-~~~~~~~~l~~~l~~~----  142 (371)
                      .++.|.. .....++|.|.+|+|||+|+.++......    ... .-..+++.-++... ...++...+...-...    
T Consensus        58 aID~l~pig~GQr~~If~~~g~GKt~ll~~~~~~~~~~~~~~~~~~~~~~v~~~IGer~~E~~e~~~~~~~~~~~~~tvv  137 (285)
T d2jdia3          58 AVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIV  137 (285)
T ss_dssp             HHHHHSCCBTTCBCEEEESTTSSHHHHHHHHHHHTHHHHTSSCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTCGGGEEE
T ss_pred             EEecccCccCCCEEEeecCCCCChHHHHHHHHHhHHhhccccccccceEEEEeeeCccHHHHHHHHHHhcccccccceEE
Confidence            3555543 34457889999999999999887755311    111 11245566555543 3445555544331110    


Q ss_pred             CCCCCcCCHHHH------HHHHHHHh--CCCceEEEEeCCCC
Q 043737          143 NESWNSRSLQEK------SQDIVKNM--SNKKFVLLLDHIWE  176 (371)
Q Consensus       143 ~~~~~~~~~~~~------~~~l~~~l--~~~~~LlVlDdv~~  176 (371)
                      .-......+...      .-.+.+++  +++.+|+++||+.+
T Consensus       138 v~~ts~~~~~~r~~~~~~a~tiAEyfrd~G~~VLll~Dsltr  179 (285)
T d2jdia3         138 VSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSK  179 (285)
T ss_dssp             EEECTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEEEETHHH
T ss_pred             EEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEcChHH
Confidence            000012222211      11122222  58999999999854

>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=94.43  E-value=0.01  Score=46.71  Aligned_cols=23  Identities=30%  Similarity=0.374  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -|+|.|.+|+|||||+.++....
T Consensus         8 KivvvG~~~vGKTsli~~l~~~~   30 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLLLRFSDDT   30 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHhhCC
Confidence            37789999999999999988653

>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=94.41  E-value=0.011  Score=45.98  Aligned_cols=22  Identities=32%  Similarity=0.439  Sum_probs=19.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043737           86 VGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        86 v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      |++.|..|+|||+|+..+.+..
T Consensus         5 ivliG~~~vGKTsli~r~~~~~   26 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKDC   26 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6789999999999999998764

>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=94.40  E-value=0.011  Score=45.04  Aligned_cols=23  Identities=30%  Similarity=0.339  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -|++.|++|+|||||..++....
T Consensus         4 ki~i~G~~~~GKTsLl~~l~~~~   26 (164)
T d1zd9a1           4 ELTLVGLQYSGKTTFVNVIASGQ   26 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            36688999999999999987654

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=94.38  E-value=0.011  Score=46.16  Aligned_cols=23  Identities=35%  Similarity=0.502  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -|++.|.+|+|||+|+.++....
T Consensus         4 KivllG~~~vGKTsl~~r~~~~~   26 (195)
T d1svsa1           4 KLLLLGAGESGKSTIVKQMKIIH   26 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhhCC
Confidence            46789999999999999987654

>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=94.34  E-value=0.012  Score=45.28  Aligned_cols=23  Identities=35%  Similarity=0.439  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -|.+.|.+|+|||+|+..+++..
T Consensus         6 Ki~lvG~~~vGKTsll~~~~~~~   28 (169)
T d1x1ra1           6 KLVVVGDGGVGKSALTIQFFQKI   28 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36678999999999999998754

>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=94.30  E-value=0.013  Score=45.21  Aligned_cols=24  Identities=33%  Similarity=0.606  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      ...|+|.|.+|+|||||..++...
T Consensus         5 ~~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           5 CGFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCC
Confidence            467999999999999999999864

>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=94.28  E-value=0.012  Score=45.50  Aligned_cols=22  Identities=27%  Similarity=0.451  Sum_probs=19.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043737           86 VGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        86 v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      |+|+|.+|+|||+|+..+....
T Consensus        10 i~vvG~~~vGKTsli~~l~~~~   31 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDDT   31 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7899999999999999987653

>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=94.23  E-value=0.011  Score=48.23  Aligned_cols=26  Identities=38%  Similarity=0.406  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||.+.+.--.
T Consensus        31 ~Gei~~liGpnGaGKSTl~~~i~Gl~   56 (240)
T d1ji0a_          31 RGQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            44599999999999999999987665

>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=94.22  E-value=0.011  Score=45.46  Aligned_cols=24  Identities=38%  Similarity=0.486  Sum_probs=20.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      .--|+|.|.+|+|||||+.++...
T Consensus        16 ~~kI~vvG~~~vGKSsLi~~l~~~   39 (176)
T d1fzqa_          16 EVRILLLGLDNAGKTTLLKQLASE   39 (176)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             EEEEEEECCCCCCHHHHHHHHhcC
Confidence            346889999999999999988554

>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=94.22  E-value=0.012  Score=45.27  Aligned_cols=23  Identities=35%  Similarity=0.294  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -|++.|.+|+|||+|+..+....
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~~~   27 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAGVH   27 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCc
Confidence            37789999999999999987543

>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=94.14  E-value=0.013  Score=44.35  Aligned_cols=23  Identities=26%  Similarity=0.352  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -|+|.|.+|+|||||..++....
T Consensus         3 kI~lvG~~nvGKSsLin~l~~~~   25 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAGRE   25 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47799999999999999998553

>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=94.14  E-value=0.012  Score=46.31  Aligned_cols=19  Identities=47%  Similarity=0.716  Sum_probs=17.4

Q ss_pred             EEEEEcCCCCcHHHHHHHH
Q 043737           85 IVGLYGMGEVGKTTLLTQI  103 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~  103 (371)
                      -|.|.|.+|+|||||+.++
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            3678999999999999998

>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=94.10  E-value=0.0073  Score=46.51  Aligned_cols=21  Identities=33%  Similarity=0.395  Sum_probs=17.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 043737           86 VGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        86 v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      |+|.|.+|+|||+|+.++.+.
T Consensus         6 i~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC--
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678899999999999887654

>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=94.09  E-value=0.014  Score=45.82  Aligned_cols=23  Identities=35%  Similarity=0.499  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -|.|.|.+|+|||+|..++....
T Consensus         4 Kiv~lG~~~vGKTsll~r~~~~~   26 (200)
T d2bcjq2           4 KLLLLGTGESGKSTFIKQMRIIH   26 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            46789999999999999987664

>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=94.04  E-value=0.015  Score=47.46  Aligned_cols=26  Identities=38%  Similarity=0.445  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||.+.++.-.
T Consensus        27 ~Gei~glvG~nGaGKSTLl~~l~G~~   52 (238)
T d1vpla_          27 EGEIFGLIGPNGAGKTTTLRIISTLI   52 (238)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45699999999999999999887665

>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=94.03  E-value=0.015  Score=45.07  Aligned_cols=23  Identities=22%  Similarity=0.382  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -|+|.|.+|+|||+|+.++....
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~~   29 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTGS   29 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            57899999999999999988764

>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=94.02  E-value=0.018  Score=47.53  Aligned_cols=26  Identities=23%  Similarity=0.301  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ...+++|.|+.|+|||||++.+.--.
T Consensus        29 ~Gei~~liG~nGaGKSTLl~~i~Gl~   54 (254)
T d1g6ha_          29 KGDVTLIIGPNGSGKSTLINVITGFL   54 (254)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHCCC
Confidence            34599999999999999999987765

>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=93.97  E-value=0.013  Score=45.41  Aligned_cols=23  Identities=30%  Similarity=0.432  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -|+|+|.+|+|||||...+....
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~~   24 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGKK   24 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999998653

>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=93.89  E-value=0.04  Score=47.03  Aligned_cols=24  Identities=29%  Similarity=0.212  Sum_probs=21.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +.|.|+|+.|+||||++..++...
T Consensus       167 ~nili~G~tgSGKTT~l~al~~~i  190 (323)
T d1g6oa_         167 KNVIVCGGTGSGKTTYIKSIMEFI  190 (323)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGGS
T ss_pred             CCEEEEeeccccchHHHHHHhhhc
Confidence            357899999999999999998876

>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=93.85  E-value=0.013  Score=48.30  Aligned_cols=27  Identities=33%  Similarity=0.486  Sum_probs=22.2

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .....++|+|+.|+|||||++.+..-.
T Consensus        42 ~~Ge~vaivG~sGsGKSTLl~ll~gl~   68 (255)
T d2hyda1          42 EKGETVAFVGMSGGGKSTLINLIPRFY   68 (255)
T ss_dssp             CTTCEEEEECSTTSSHHHHHTTTTTSS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHHhcC
Confidence            345699999999999999998776543

>d1pjra1 c.37.1.19 (A:1-318) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Bacillus stearothermophilus, PcrA [TaxId: 1422]

Probab=93.79  E-value=0.042  Score=46.54  Aligned_cols=54  Identities=11%  Similarity=0.081  Sum_probs=29.6

Q ss_pred             EEEEEcCCCCcHHHHHHH-HHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHh
Q 043737           85 IVGLYGMGEVGKTTLLTQ-INKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKI  139 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~-~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l  139 (371)
                      .+.|.|.+|+||||.+.+ +++-+.........++++..+.. ....+...+....
T Consensus        26 ~~lV~g~aGSGKTt~l~~ri~~ll~~~~~~p~~il~lt~t~~-aa~~~~~~~~~~~   80 (318)
T d1pjra1          26 PLLIMAGAGSGKTRVLTHRIAYLMAEKHVAPWNILAITFTNK-AAREMRERVQSLL   80 (318)
T ss_dssp             CEEEEECTTSCHHHHHHHHHHHHHHTTCCCGGGEEEEESSHH-HHHHHHHHHHHHH
T ss_pred             CEEEEecCCccHHHHHHHHHHHHHHcCCCCHHHeEeEeccHH-HHHHHHHHHHhhc
Confidence            477889999999977654 33333111223346667665542 2334444444443

>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=93.68  E-value=0.013  Score=47.53  Aligned_cols=25  Identities=32%  Similarity=0.405  Sum_probs=21.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      ...+++|.|+.|+|||||.+.++.-
T Consensus        24 ~Gei~~iiG~nGaGKSTLl~~l~Gl   48 (231)
T d1l7vc_          24 AGEILHLVGPNGAGKSTLLARMAGM   48 (231)
T ss_dssp             TTCEEECBCCTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCC
Confidence            3459999999999999999988763

>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=93.48  E-value=0.015  Score=45.31  Aligned_cols=22  Identities=45%  Similarity=0.679  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 043737           85 IVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      -|+|.|.+++|||||...+...
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~~   24 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSSA   24 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEE
T ss_pred             eEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999988654

>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=93.45  E-value=0.015  Score=45.06  Aligned_cols=21  Identities=38%  Similarity=0.718  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 043737           86 VGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        86 v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      |+|.|.+|+|||||+..+...
T Consensus         4 VaivG~~nvGKSTLin~L~~~   24 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTRA   24 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCSS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            889999999999999998754

>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=93.43  E-value=0.014  Score=45.35  Aligned_cols=26  Identities=23%  Similarity=0.327  Sum_probs=20.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhh
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      ...--|++.|.+|+|||||..++...
T Consensus        15 ~k~~KI~lvG~~~vGKTsLi~~l~~~   40 (182)
T d1moza_          15 NKELRILILGLDGAGKTTILYRLQIG   40 (182)
T ss_dssp             SSCEEEEEEEETTSSHHHHHHHTCCS
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcC
Confidence            34456779999999999999987544

>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=93.41  E-value=0.012  Score=45.40  Aligned_cols=21  Identities=33%  Similarity=0.442  Sum_probs=8.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 043737           86 VGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        86 v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      |+|.|.+|+|||||+..+...
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEECCCCC------------
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678899999999999988754

>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=93.37  E-value=0.021  Score=44.29  Aligned_cols=22  Identities=41%  Similarity=0.549  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 043737           85 IVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      -|+|.|..|+|||||...+...
T Consensus        10 kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            5789999999999999998764

>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=93.31  E-value=0.079  Score=46.64  Aligned_cols=43  Identities=23%  Similarity=0.324  Sum_probs=31.4

Q ss_pred             ccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           65 VGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        65 vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .|-.....+....+......+|.|.|+.|+||||....+.+..
T Consensus       140 LG~~~~~~~~l~~l~~~~~GliLvtGpTGSGKSTTl~~~l~~~  182 (401)
T d1p9ra_         140 LGMTAHNHDNFRRLIKRPHGIILVTGPTGSGKSTTLYAGLQEL  182 (401)
T ss_dssp             SCCCHHHHHHHHHHHTSSSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             hcccHHHHHHHHHHHhhhhceEEEEcCCCCCccHHHHHHhhhh
Confidence            4544433333344445667899999999999999999988886

>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=93.30  E-value=0.038  Score=43.25  Aligned_cols=39  Identities=10%  Similarity=0.066  Sum_probs=30.3

Q ss_pred             hHHHHHHHHHhc-CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           69 STFDRVWRCLME-EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        69 ~~~~~l~~~L~~-~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .-+..+..+|.. .+...+.++|+++.|||.+|..+++-+
T Consensus        38 ~Fl~~l~~~l~~~PKkn~i~~~GP~~TGKS~f~~sl~~~l   77 (205)
T d1tuea_          38 TFLGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFI   77 (205)
T ss_dssp             HHHHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCCceEEEEECCCCccHHHHHHHHHHHh
Confidence            445556666643 355799999999999999999888776

>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=93.25  E-value=0.021  Score=45.94  Aligned_cols=23  Identities=35%  Similarity=0.472  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      .-|.|.|.+|+|||||+.++...
T Consensus         7 ~KilllG~~~vGKTsll~~~~~~   29 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRIL   29 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            45789999999999999988544

>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=92.94  E-value=0.044  Score=46.90  Aligned_cols=24  Identities=21%  Similarity=0.101  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -.|.|-|+-|+||||+++.+.+..
T Consensus         7 ~rI~iEG~iGsGKSTl~~~L~~~l   30 (333)
T d1p6xa_           7 VRIYLDGVYGIGKSTTGRVMASAA   30 (333)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHSGG
T ss_pred             EEEEEECCccCCHHHHHHHHHHHh
Confidence            467889999999999999999987

>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=92.88  E-value=0.06  Score=44.25  Aligned_cols=39  Identities=21%  Similarity=0.235  Sum_probs=28.5

Q ss_pred             hHHHHHHHHHhcC--CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           69 STFDRVWRCLMEE--QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        69 ~~~~~l~~~L~~~--~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+.++...+.+.  ..-.|+|.|.+|+|||||...++.+.
T Consensus        16 ~~l~e~~~~l~~~~~~~l~I~LvG~tg~GKSSliN~ilg~~   56 (257)
T d1h65a_          16 TKLLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGER   56 (257)
T ss_dssp             HHHHHHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHhhcCCCCcEEEEECCCCCcHHHHHHHHhCCC
Confidence            4445555555542  34578899999999999999998653

>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=92.67  E-value=0.022  Score=44.02  Aligned_cols=26  Identities=19%  Similarity=0.305  Sum_probs=21.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhh
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      +...-|+|.|.+++|||||..++...
T Consensus        14 ~~~~~I~lvG~~NvGKSSL~n~L~~~   39 (188)
T d1puia_          14 DTGIEVAFAGRSNAGKSSALNTLTNQ   39 (188)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTCCC
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHhCC
Confidence            45678999999999999999887543

>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=92.07  E-value=0.041  Score=45.70  Aligned_cols=26  Identities=23%  Similarity=0.213  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +.|.|+|.|..|.|||||+-+++...
T Consensus         5 ~iRni~i~gh~~~GKTtL~e~ll~~~   30 (276)
T d2bv3a2           5 RLRNIGIAAHIDAGKTTTTERILYYT   30 (276)
T ss_dssp             GEEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             hceEEEEEeCCCCCHHHHHHHHHHhc
Confidence            56889999999999999999987654

>d2eyqa3 c.37.1.19 (A:546-778) Transcription-repair coupling factor, TRCF {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Transcription-repair coupling factor, TRCF
species: Escherichia coli [TaxId: 562]

Probab=92.01  E-value=0.71  Score=36.80  Aligned_cols=42  Identities=12%  Similarity=-0.046  Sum_probs=34.7

Q ss_pred             cchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           66 GLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        66 GR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ......+++.+.+..+......|+|.-|+|||.++...+...
T Consensus        59 ~Q~~~~~~i~~~~~~~~~~~~LL~GdvGsGKT~V~~~a~~~~  100 (233)
T d2eyqa3          59 DQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLA  100 (233)
T ss_dssp             HHHHHHHHHHHHHHSSSCCEEEEECCCCTTTHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhccCccCeEEEcCCCCCcHHHHHHHHHHH
Confidence            355667778888877777889999999999999998887775

>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=91.78  E-value=0.014  Score=44.07  Aligned_cols=23  Identities=30%  Similarity=0.387  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -|+|.|.+|+|||||+..+....
T Consensus         2 kI~liG~~n~GKSSLin~l~g~~   24 (160)
T d1xzpa2           2 RMVIVGKPNVGKSTLLNRLLNED   24 (160)
T ss_dssp             EEEEECCHHHHTCHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            37899999999999999997653

>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=91.57  E-value=0.051  Score=46.42  Aligned_cols=23  Identities=30%  Similarity=0.325  Sum_probs=21.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .|+|-|.-|+||||+++.+.+.+
T Consensus         7 rI~IEG~iGsGKSTl~~~L~~~l   29 (331)
T d1osna_           7 RIYLDGAYGIGKTTAAEEFLHHF   29 (331)
T ss_dssp             EEEEEESSSSCTTHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            57899999999999999999887

>d2fz4a1 c.37.1.19 (A:24-229) DNA repair protein RAD25 {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DNA repair protein RAD25
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=91.48  E-value=0.72  Score=35.91  Aligned_cols=43  Identities=12%  Similarity=-0.028  Sum_probs=29.8

Q ss_pred             CccccchhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           62 PTVVGLQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        62 ~~~vGR~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+--|+...+.+..++ +.+ + ..|.++.|.|||.+|..++.+.
T Consensus        67 ~~~~Lr~yQ~eav~~~~-~~~-~-~ll~~~tG~GKT~~a~~~~~~~  109 (206)
T d2fz4a1          67 AEISLRDYQEKALERWL-VDK-R-GCIVLPTGSGKTHVAMAAINEL  109 (206)
T ss_dssp             CCCCCCHHHHHHHHHHT-TTS-E-EEEEESSSTTHHHHHHHHHHHS
T ss_pred             CCCCcCHHHHHHHHHHH-hCC-C-cEEEeCCCCCceehHHhHHHHh
Confidence            34455776666665555 322 3 4477899999999999888776

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=91.35  E-value=0.028  Score=45.33  Aligned_cols=24  Identities=29%  Similarity=0.445  Sum_probs=18.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +..++.|.+|+|||||...+..+.
T Consensus        98 ~~~vl~G~SGVGKSSLiN~L~~~~  121 (231)
T d1t9ha2          98 KTTVFAGQSGVGKSSLLNAISPEL  121 (231)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC--
T ss_pred             ceEEEECCCCccHHHHHHhhccHh
Confidence            455688999999999999886554

>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=91.23  E-value=0.067  Score=44.16  Aligned_cols=24  Identities=38%  Similarity=0.415  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      .|.|+|.|..|.|||||+.++...
T Consensus         2 iRNv~iiGh~~~GKTtL~e~ll~~   25 (267)
T d2dy1a2           2 IRTVALVGHAGSGKTTLTEALLYK   25 (267)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eeEEEEEcCCCCcHHHHHHHHHHH
Confidence            378999999999999999988644

>d1uaaa1 c.37.1.19 (A:2-307) DEXX box DNA helicase {Escherichia coli, RepD [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Escherichia coli, RepD [TaxId: 562]

Probab=91.09  E-value=0.055  Score=45.36  Aligned_cols=41  Identities=17%  Similarity=0.111  Sum_probs=24.2

Q ss_pred             eEEEEEcCCCCcHHHHHHH-HHhhccCCCCCCCeEEEEEeCC
Q 043737           84 GIVGLYGMGEVGKTTLLTQ-INKKFLHTPNDFDFVIWVVASK  124 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~-~~~~~~~~~~~f~~~~wv~~~~  124 (371)
                      ..+.|.|.+|+||||.+.+ +.+-..........+..++.+.
T Consensus        15 ~~~lI~g~aGTGKTt~l~~rv~~ll~~~~~~~~~ILvlt~tn   56 (306)
T d1uaaa1          15 GPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTN   56 (306)
T ss_dssp             SEEEECCCTTSCHHHHHHHHHHHHHHHHCCCGGGEEEEESSH
T ss_pred             CCEEEEeeCCccHHHHHHHHHHHHHHhcCCChhHEEEEeCcH
Confidence            4577889999999976544 3222211122334677776654

>d1e2ka_ c.37.1.1 (A:) Thymidine kinase {Herpes simplex virus type 1, different strains [TaxId: 10298]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Herpes simplex virus type 1, different strains [TaxId: 10298]

Probab=90.24  E-value=0.058  Score=45.93  Aligned_cols=24  Identities=25%  Similarity=-0.002  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..|.|-|.-|+||||+++.+.+..
T Consensus         5 lrI~IEG~iGsGKTTl~~~La~~l   28 (329)
T d1e2ka_           5 LRVYIDGPHGMGKTTTTQLLVALG   28 (329)
T ss_dssp             EEEEECSCTTSSHHHHHHHHTC--
T ss_pred             eEEEEECCcCCCHHHHHHHHHHHh
Confidence            358899999999999999997765

>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=90.06  E-value=0.19  Score=41.28  Aligned_cols=36  Identities=17%  Similarity=0.238  Sum_probs=27.2

Q ss_pred             HHHHHHHhc--CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           72 DRVWRCLME--EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        72 ~~l~~~L~~--~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ..+..+|..  .....+.++|+|+.|||+++..+.+-+
T Consensus        91 ~~l~~~L~~~~~k~n~~~l~G~~~tGKS~f~~~i~~~l  128 (267)
T d1u0ja_          91 SVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             HHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             HHHHHHHcCCCCccEEEEEEcCCCCCHHHHHHHHHHHh
Confidence            344445532  346789999999999999999888765

>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=90.02  E-value=0.1  Score=41.85  Aligned_cols=25  Identities=40%  Similarity=0.458  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .++|+|.|..++|||||+..+....
T Consensus         5 ~p~IaIiGh~d~GKSTL~~~L~~~~   29 (227)
T d1g7sa4           5 SPIVSVLGHVDHGKTTLLDHIRGSA   29 (227)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCccHHHHHHHHHhhc
Confidence            4579999999999999999887653

>d1wb1a4 c.37.1.8 (A:1-179) Elongation factor SelB, N-terminal domain {Methanococcus maripaludis [TaxId: 39152]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor SelB, N-terminal domain
species: Methanococcus maripaludis [TaxId: 39152]

Probab=88.61  E-value=0.12  Score=39.55  Aligned_cols=22  Identities=32%  Similarity=0.496  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 043737           85 IVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      .|+|.|.+++|||||..++...
T Consensus         7 nIaiiG~~naGKSTL~n~L~~~   28 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTEI   28 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHTT
T ss_pred             EEEEEeCCCCcHHHHHHHHHHh
Confidence            5899999999999999998753

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=88.57  E-value=0.2  Score=43.90  Aligned_cols=23  Identities=17%  Similarity=0.291  Sum_probs=20.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHh
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINK  105 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~  105 (371)
                      .--|+|.|.+|+|||||...+..
T Consensus        56 ~l~Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          56 VLNVAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHT
T ss_pred             CcEEEEECCCCCCHHHHHHHHhC
Confidence            44689999999999999999874

>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=88.47  E-value=0.16  Score=43.32  Aligned_cols=35  Identities=11%  Similarity=0.174  Sum_probs=26.3

Q ss_pred             HHHHHHhc-CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           73 RVWRCLME-EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        73 ~l~~~L~~-~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+.+.+.+ +..|.|+|.|..|.|||||+-.+....
T Consensus         6 ~~~~lm~~~~~IRNI~iiGhvd~GKTTL~d~Ll~~~   41 (341)
T d1n0ua2           6 QMRSLMDKVTNVRNMSVIAHVDHGKSTLTDSLVQRA   41 (341)
T ss_dssp             HHHHHHHCGGGEEEEEEECCGGGTHHHHHHHHHHHH
T ss_pred             HHHHHhcCcccCcEEEEEeCCCCcHHHHHHHHHHHC
Confidence            33444433 567889999999999999999887543

>d1g8fa3 c.37.1.15 (A:390-511) ATP sulfurylase C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=86.96  E-value=0.39  Score=33.89  Aligned_cols=26  Identities=19%  Similarity=0.032  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhcc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKFL  108 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~~  108 (371)
                      .-.|++.|..|+||+|||..+...+.
T Consensus         6 gf~i~~tg~~~~gk~~ia~al~~~l~   31 (122)
T d1g8fa3           6 GFSIVLGNSLTVSREQLSIALLSTFL   31 (122)
T ss_dssp             CEEEEECTTCCSCHHHHHHHHHHHHT
T ss_pred             ceEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            34789999999999999999988873

>d1gm5a3 c.37.1.19 (A:286-549) RecG helicase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: RecG helicase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=86.22  E-value=0.3  Score=39.92  Aligned_cols=41  Identities=15%  Similarity=-0.002  Sum_probs=32.2

Q ss_pred             chhHHHHHHHHHhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           67 LQSTFDRVWRCLMEEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        67 R~~~~~~l~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ....+++|...+..+....-.|.|.-|+|||-+|..++...
T Consensus        88 Q~~ai~ei~~d~~~~~~m~rLL~GdvGSGKT~Va~~a~~~~  128 (264)
T d1gm5a3          88 QKRAHQEIRNDMISEKPMNRLLQGDVGSGKTVVAQLAILDN  128 (264)
T ss_dssp             HHHHHHHHHHHHHSSSCCCCEEECCSSSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhccCcceeeeeccccccccHHHHHHHHHH
Confidence            34566777777776777778899999999999988777664

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.74  E-value=0.26  Score=40.74  Aligned_cols=27  Identities=26%  Similarity=0.452  Sum_probs=23.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           81 EQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        81 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +...+|+|.|+-++|||+|+..++...
T Consensus        30 ~~v~vvsi~G~~~sGKS~llN~l~~~~   56 (277)
T d1f5na2          30 QPMVVVAIVGLYRTGKSYLMNKLAGKK   56 (277)
T ss_dssp             SBEEEEEEEEBTTSSHHHHHHHHTTCS
T ss_pred             CCEEEEEEECCCCCCHHHHHHHHcCCC
Confidence            457799999999999999999998764

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=85.49  E-value=0.25  Score=38.75  Aligned_cols=22  Identities=36%  Similarity=0.385  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 043737           85 IVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      .|+|.|-.+.|||||+.++...
T Consensus         5 ni~iiGhvd~GKSTL~~~Ll~~   26 (204)
T d2c78a3           5 NVGTIGHVDHGKTTLTAALTYV   26 (204)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEEeCCCCcHHHHHHHHHHH
Confidence            4889999999999999998654

>d1qhla_ c.37.1.12 (A:) Cell division protein MukB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cell division protein MukB
species: Escherichia coli [TaxId: 562]

Probab=84.45  E-value=0.095  Score=40.68  Aligned_cols=24  Identities=21%  Similarity=0.261  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           84 GIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        84 ~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      ++.+|+|+.|+||||+..++.--+
T Consensus        25 ~~tvi~G~NGsGKStil~Ai~~~L   48 (222)
T d1qhla_          25 LVTTLSGGNGAGKSTTMAAFVTAL   48 (222)
T ss_dssp             HHHHHHSCCSHHHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            356688999999999999887554

>d1p3da1 c.5.1.1 (A:11-106) UDP-N-acetylmuramate-alanine ligase MurC {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: MurCD N-terminal domain
superfamily: MurCD N-terminal domain
family: MurCD N-terminal domain
domain: UDP-N-acetylmuramate-alanine ligase MurC
species: Haemophilus influenzae [TaxId: 727]

Probab=83.57  E-value=0.52  Score=31.83  Aligned_cols=25  Identities=12%  Similarity=0.337  Sum_probs=21.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      ..+-+.+.|.+|+|.+.||+.+.+.
T Consensus         7 ~~~~ihfiGigG~GMs~LA~~L~~~   31 (96)
T d1p3da1           7 RVQQIHFIGIGGAGMSGIAEILLNE   31 (96)
T ss_dssp             TCCEEEEETTTSTTHHHHHHHHHHH
T ss_pred             hCCEEEEEEECHHHHHHHHHHHHhC
Confidence            4567899999999999999877655

>d1g5ta_ c.37.1.11 (A:) ATP:corrinoid adenosyltransferase CobA {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: ATP:corrinoid adenosyltransferase CobA
species: Salmonella typhimurium [TaxId: 90371]

Probab=83.19  E-value=0.71  Score=34.28  Aligned_cols=114  Identities=13%  Similarity=0.089  Sum_probs=55.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhcc------CCCCCCcCCHH-------
Q 043737           86 VGLYGMGEVGKTTLLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKINL------FNESWNSRSLQ-------  152 (371)
Q Consensus        86 v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~~------~~~~~~~~~~~-------  152 (371)
                      |-|+==.|=||||-|.-.+-+.   -.+--.++.+.+-+....... ..++.....      ....+...+.+       
T Consensus         5 i~vytG~GKGKTTAAlG~alRA---~G~G~rV~ivQFlKg~~~~ge-~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~   80 (157)
T d1g5ta_           5 IIVFTGNGKGKTTAAFGTAARA---VGHGKNVGVVQFIKGTWPNGE-RNLLEPHGVEFQVMATGFTWETQNREADTAACM   80 (157)
T ss_dssp             EEEEESSSSCHHHHHHHHHHHH---HHTTCCEEEEESSCCSSCCHH-HHHHGGGTCEEEECCTTCCCCGGGHHHHHHHHH
T ss_pred             EEEEeCCCCCcHHHHHHHHHHH---hcCCCEEEEEEEecCCcccch-hhhhcccCcEEEEecCCCcccCCChHHHHHHHH
Confidence            4444445789999987666555   233335666655332211111 112222211      01111111211       


Q ss_pred             HHHHHHHHHhCCCce-EEEEeCCCCc-----ccccccccccCCCCCCCcEEEEecCch
Q 043737          153 EKSQDIVKNMSNKKF-VLLLDHIWEL-----VDLSQVGLPVPCRTSASNKTVFTAREL  204 (371)
Q Consensus       153 ~~~~~l~~~l~~~~~-LlVlDdv~~~-----~~~~~~~~~l~~~~~~~~~iliTsR~~  204 (371)
                      ......++.+.+..| +||||++-..     -+.+.+...+. ....+.-+|+|-|+.
T Consensus        81 ~~~~~a~~~~~~~~~dllILDEi~~Ai~~gli~~~~v~~ll~-~rp~~~evVlTGr~~  137 (157)
T d1g5ta_          81 AVWQHGKRMLADPLLDMVVLDELTYMVAYDYLPLEEVISALN-ARPGHQTVIITGRGC  137 (157)
T ss_dssp             HHHHHHHHHTTCTTCSEEEEETHHHHHHTTSSCHHHHHHHHH-TSCTTCEEEEECSSC
T ss_pred             HHHHHHHHHhhcCccCEEeHHHHHHHHHcCCCCHHHHHHHHH-hCCCCCEEEEECCCC
Confidence            122333344555544 9999998422     23333334444 445677899999974

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

Probab=82.94  E-value=0.44  Score=41.86  Aligned_cols=25  Identities=20%  Similarity=0.166  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .+-+.|.|..|+|||+++..++...
T Consensus        50 ~~H~~I~G~tGsGKT~~l~~li~~~   74 (433)
T d1e9ra_          50 PRHLLVNGATGTGKSVLLRELAYTG   74 (433)
T ss_dssp             GGCEEEEECTTSSHHHHHHHHHHHH
T ss_pred             cceEEEEeCCCCcHHHHHHHHHHHH
Confidence            4568999999999999988777665

>d2bmfa2 c.37.1.14 (A:178-482) Dengue virus helicase {Dengue virus type 2 [TaxId: 11060]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: Dengue virus helicase
species: Dengue virus type 2 [TaxId: 11060]

Probab=82.92  E-value=0.44  Score=39.43  Aligned_cols=51  Identities=10%  Similarity=0.103  Sum_probs=29.3

Q ss_pred             CceEEEEEcCCCCcHHH-HHHHHHhhccCCCCCCCeEEEEEeCCcCCHHHHHHHHHHHhc
Q 043737           82 QMGIVGLYGMGEVGKTT-LLTQINKKFLHTPNDFDFVIWVVASKDLQLEQIQGSIAKKIN  140 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTt-La~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~l~~~l~  140 (371)
                      +.+.+.|.++.|+|||+ .+..+.....  ... ..++++. .    ...+..++.+.+.
T Consensus         8 ~~~~~lv~~~TGsGKT~~~l~~~~~~~~--~~~-~~~lvi~-P----tr~La~q~~~~l~   59 (305)
T d2bmfa2           8 KKRLTIMDLHPGAGKTKRYLPAIVREAI--KRG-LRTLILA-P----TRVVAAEMEEALR   59 (305)
T ss_dssp             TTCEEEECCCTTSSTTTTHHHHHHHHHH--HHT-CCEEEEE-S----SHHHHHHHHHHTT
T ss_pred             cCCcEEEEECCCCCHHHHHHHHHHHHHH--hcC-CEEEEEc-c----HHHHHHHHHHHHh
Confidence            45688999999999995 3334433321  111 2344442 2    3456667777664

>d1jala1 c.37.1.8 (A:1-278) YchF GTP-binding protein N-terminal domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Haemophilus influenzae [TaxId: 727]

Probab=81.10  E-value=0.44  Score=39.21  Aligned_cols=23  Identities=35%  Similarity=0.570  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043737           85 IVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      -|+|+|.+.+|||||-..+...-
T Consensus         4 ~~GivG~Pn~GKSTlf~~lt~~~   26 (278)
T d1jala1           4 KCGIVGLPNVGKSTLFNALTKAG   26 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHTC
T ss_pred             eEEEECCCCCCHHHHHHHHHCCC
Confidence            58999999999999999887654

>d1d0xa2 c.37.1.9 (A:2-33,A:80-759) Myosin S1, motor domain {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=80.50  E-value=0.78  Score=43.12  Aligned_cols=30  Identities=20%  Similarity=0.175  Sum_probs=25.6

Q ss_pred             HhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           78 LMEEQMGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        78 L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      +.......|.|.|.+|+|||.-++.+.+.+
T Consensus       120 ~~~~~nQsIiisGeSGaGKTe~~k~il~yL  149 (712)
T d1d0xa2         120 LDDRQNQSLLITGESGAGKTENTKKVIQYL  149 (712)
T ss_dssp             HHHTCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHhCCCceEEEeCCCCCCHHHHHHHHHHHH
Confidence            334667799999999999999999988876

>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=80.23  E-value=0.6  Score=37.32  Aligned_cols=25  Identities=24%  Similarity=0.189  Sum_probs=21.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043737           82 QMGIVGLYGMGEVGKTTLLTQINKK  106 (371)
Q Consensus        82 ~~~~v~I~G~~GiGKTtLa~~~~~~  106 (371)
                      ..+++.|+|+-..||||+.+.++--
T Consensus        40 ~~~~~iiTGpN~~GKSt~lk~i~l~   64 (234)
T d1wb9a2          40 QRRMLIITGPNMGGKSTYMRQTALI   64 (234)
T ss_dssp             SSCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CceEEEEeccCchhhHHHHHHHHHH
Confidence            4578999999999999999887544

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=80.14  E-value=0.48  Score=38.90  Aligned_cols=25  Identities=32%  Similarity=0.406  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043737           83 MGIVGLYGMGEVGKTTLLTQINKKF  107 (371)
Q Consensus        83 ~~~v~I~G~~GiGKTtLa~~~~~~~  107 (371)
                      .-.|+|+|++.+|||||+..+..+-
T Consensus       112 ~~~v~vvG~PNvGKSsliN~L~~~~  136 (273)
T d1puja_         112 AIRALIIGIPNVGKSTLINRLAKKN  136 (273)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             ceEEEEEecCccchhhhhhhhhccc
Confidence            3468999999999999999997654

>d2p6ra3 c.37.1.19 (A:1-202) Hel308 helicase {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Hel308 helicase
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=80.09  E-value=0.55  Score=36.37  Aligned_cols=18  Identities=28%  Similarity=0.043  Sum_probs=15.0

Q ss_pred             EEEEEcCCCCcHHHHHHH
Q 043737           85 IVGLYGMGEVGKTTLLTQ  102 (371)
Q Consensus        85 ~v~I~G~~GiGKTtLa~~  102 (371)
                      .+.|.++.|+|||+.|..
T Consensus        42 ~~il~apTGsGKT~~a~l   59 (202)
T d2p6ra3          42 NLLLAMPTAAGKTLLAEM   59 (202)
T ss_dssp             CEEEECSSHHHHHHHHHH
T ss_pred             CEEEEcCCCCchhHHHHH
Confidence            467999999999988743