Citrus Sinensis ID: 010355

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510--
Protein Sequence
MVEIAVAIAVKVAECLVHPIIHPFAYCYNYKSNLEKLKNEVQKLRGAKESVQQKIDDAKRSGEDIEQRVENWLITADEILDAAARIIEGTEDTTNRLCPNLNTRYQVSKKAAREVKAAAELLQQEGRFDKVSYRTVPEDVWLTSIKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNLDLENVGIPFGVRGCRVLMTARSQDVLSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARALRNKNTFEWKSALRELTRPSSGSFSGVAAEAYKTSELSYNHLEGALKTARLRAVPNWELDEEYCWAGDLNTTLQHLNEKMAKRRMTEVEYESEMSTSEEIEEEEEEENAERPMILLDTDEDEDEEYGEDDEDEEYSEYDEDEEYGEDDEDEEDDGEDDDIQSY
Secondary Structure (PSIPRED)
ccHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHcHHcccccccccccHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccHHHHHHHHHHHccccccEEEEEccccccHHHHHHHHHHHHHccccccEEEEEEEcccccHHHHHHHHHHHHcccccccccHHHHHHHHHHHHcccEEEEEEcccccccccccccccccccccEEEEEEccHHHHcccccccccEEcccccHHHHHHHHHHHHccccccccHHHHHHHHHHHcccccHHHHHHHHHHccccHHHHHHHHHHHccccccccccccccHHHHHHcccccccHHHHHHHHHHcccccccHHHHcccccHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHccccEEccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccEcccHHHHHHHHHHHHccccEEEEEEccccccHHHHHHHHHccccHcccccEEEEEEEcccccHHHHHHHHHHHHcccccccccHHHHHHHHHHHHccccEEEEEEccHcHccHHHccccccccccEEEEEEccHHHHHHHcccccccccccccHHHHHHHHHHHHccccccccHHHHHHHHHHHccccHHHHHHHHHHHHcccHHHHHHHHHHHccccHcccccccccccHHHHEcHHcccHHHHHHHHHHcccccccHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccEEHHHHHHHHHHHHccccHHHHHHHcccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
MVEIAVAIAVKVAEClvhpiihpfaycYNYKSNLEKLKNEVQKLRGAKESVQQKIDDAKRSGEDIEQRVENWLITADEILDAAARIIEgtedttnrlcpnlntryQVSKKAAREVKAAAELLQQegrfdkvsyrtvpedvwLTSIKGYEAFESRMSTLNDVINAlknpdvhmigaygmagvgKTMLVKEVARQAKADKLFDEVVYAEvsqrpdvkkIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIwtnldlenvgipfgvrGCRVLMTARSQDVLSSKMDCQNNFLIGVLNESEARDLFKKLVgdkienndlKSLAMNIVKACRGLPIAIVTIARALRNKNTFEWKSALReltrpssgsfsgvAAEAYKTSELSYNHLEGALKTARlravpnweldeeycwagdlNTTLQHLNEKMAKRRMTEVEyesemstseeieeeeeeenaerpmilldtdededeeygeddedeeyseydedeeygeddedeeddgedddiqsy
Flexible Loop (DISEMBL)
MVEIAVAIAVKVAECLVHPIIHPFAYCYNYKSNLEKLKNEVQKLrgakesvqqkiddakrsgedieQRVENWLITADEILDAAARIIEGtedttnrlcpnlNTRYQVSKKAAREVKAAAELLqqegrfdkvsyrtvpedvwLTSIKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYaevsqrpdvkkiqgQIADklglkfyeesesgraRKLCERLKKEKKILVILddiwtnldlenVGIPFGVRGCRVLMTARSQDVLSSKMDCQNNFLIGVLNESEARDLFKKLVgdkienndlKSLAMNIVKACRGLPIAIVTIARALRNKNTFEWKSALreltrpssgsfSGVAAEAYKTSELSYNHLEGALKTARLRAVPNWELDEEYCWAGDLNTTLQHLNEKMAKRRMTEVeyesemstseeieeeeeeenaerpmilldtdededeeygeddedeeyseydedeeygeddedeeddgedddiqsy
Low Complexity Region (SEG)
MveiavaiavkvaeCLVHPIIHPFAYCYNYKSNLEKLKNEVQKLRGAKESVQQKIDDAKRSGEDIEQRVENWLITADEILDAAARIIEGTEDTTNRLCPNLNTRYQVSkkaarevkaaaeLLQQEGRFDKVSYRTVPEDVWLTSIKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRArklcerlkkekkILVILDDIWTNLDLENVGIPFGVRGCRVLMTARSQDVLSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARALRNKNTFEWKSALRELTRPSSGSFSGVAAEAYKTSELSYNHLEGALKTARLRAVPNWELDEEYCWAGDLNTTLQHLNEKMAKRRMTeveyesemstseeieeeeeeenaeRPMILLdtdededeeygeddedeeyseydedeeygeddedeeddgedddIQSY
Disordered region (IsUnstruct)
**EIAVAIAVKVAECLVHPIIHPFAYCYNYKSNLE********************************RVENWLITADEILDAAARIIEGTEDTTNRLCPNLNTRYQVSKKAAREVKAAAELLQQEGRFDKVSYRTVPEDVWLTSIKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFY********************ILVILDDIWTNLDLENVGIPFGVRGCRVLMTARSQDVLSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARALRNKNTFEWKSALRE***********VAAEAYKTSELSYNHLEGALKTARLRAVPNWELDEEYCWAGDLNTTLQHL***************************************************************************************
Disordered Region (DISOPRED)
MVEIAVAIAVKVAECLVHPIIHPFAYCYNYKSNLEKLKNEVQKLRGAKESVQQKIDDAKRSGEDIEQRVENWLITADEILDAAARIIEGTEDTTNRLCPNLNTRYQVSKKAAREVKAAA**********************************RMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLG***************CERLKKEKKILVILDDIWTNLDLENVGIPFGVRGCRVLMTARSQDVLSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARALRNKNTFEWKSALRELTR**********AEAYKTSELSYNHLEGALKTARLRAVPNWELDEEYCWAGDLNTTLQHLNEKMAKRRMTEVEYESEMSTSEEIEEEEEEENAERPMILLDTDEDEDEEYGEDDEDEEYS********************DDDIQS*
Disordered Region (DISEMBL)
MVEIAVAIAVKVAECLVHPIIHPFAYCYNYKSNLEKLKNEVQKLRGAKESVQQKIDDAKRSGEDIEQRVENWLITADEILDAAARIIEGTEDTTNRLCPNLNTRYQVSKKAAREVKAAAELLQQEGRFDKVSYRTVPEDVWLTSIKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNLDLENVGIPFGVRGCRVLMTARSQDVLSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARALRNKNTFEWKSALRELTRPSSGSFSGVAAEAYKTSELSYNHLEGALKTARLRAVPNWELDEEYCWAGDLNTTLQHLNEKMAKRR**************************RPMILLDTDE*******************************************
Disordered Region (DISPRO)
MVEIAVAIAVKVAECLVHPIIHPFAYCYNYKSNLEKLKNEVQKLRGAKESVQQKIDDAKRSGEDIEQRVENWLITADEILDAAARIIEGTEDTTNRLCPNLNTRYQVSKKAAREVKAAAELLQQEGRFDKV***********TSIKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNLDLENVGIPFGVRGCRVLMTARSQDVLSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARALRNKNTFEWKSALRELTRPSSGSFSGVAAEAYKTSELSYNHLEGALKTARLRAVPNWELDEEYCWAGDLNTTLQHLNEKMAKRRMTEVEYESEMSTSEEIEEEEEEENAERPMILLDTDEDEDEEYGEDDEDEEYSEY*************************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MVEIAVAIAVKVAECLVHPIIHPFAYxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxVENWLITADEILDAAARIIEGTEDTTNRLCPNLNTRYQVSKKAAREVKAAAELLQQEGRFDKVSYRTVPEDVWLTSIKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNLDLENVGIPFGVRGCRVLMTARSQDVLSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARALRNKNTFEWKSALRELTRPSSGSFSGVAAEAYKTSELSYNHLEGALKTARLRAVPNWELDEEYCWAGDLNTTLQHLNEKMAKRRMTEVExxxxxxxxxxxxxxxxxxxxxRPMILLDTDEDEDEEYGEDDEDEEYSEYDEDEEYGEDDEDEEDDGEDDDIQSY
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	512	2.2.26 [Sep-21-2011]
O64973	889	Disease resistance protei	yes	no	0.703	0.404	0.308	1e-34
Q8L3R3	885	Disease resistance protei	no	no	0.701	0.405	0.304	5e-32
Q8RXS5	888	Probable disease resistan	no	no	0.705	0.406	0.276	6e-32
O64789	925	Probable disease resistan	no	no	0.716	0.396	0.304	1e-31
Q9T048	985	Disease resistance protei	no	no	0.697	0.362	0.282	4e-31
O81825	919	Probable disease resistan	no	no	0.695	0.387	0.301	5e-31
O22727	967	Probable disease resistan	no	no	0.701	0.371	0.309	3e-30
Q9LVT3	948	Probable disease resistan	no	no	0.675	0.364	0.282	5e-30
Q9C8K0	854	Probable disease resistan	no	no	0.710	0.426	0.270	3e-28
Q9FLB4	874	Putative disease resistan	no	no	0.679	0.398	0.271	6e-28

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

 Score =  147 bits (372), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 121/392 (30%), Positives = 194/392 (49%), Gaps = 32/392 (8%)

Query: 25  AYCYNYKSNLEKLKNEVQKLRGAKESVQQKIDDAKRSGEDIEQR---VENWLITADEILD 81
           +Y +N   NL  L+  ++ L+  +  V ++++  + +G   +QR   V+ WL +   I +
Sbjct: 27  SYIHNLSKNLASLQKAMRMLKARQYDVIRRLETEEFTGR--QQRLSQVQVWLTSVLIIQN 84

Query: 82  AAARIIEGTEDTTNRLC------PNLNTRYQVSKKAAREVKAAAELLQQEGRFDKVSYRT 135
               ++   E    RLC       +L   Y+  K+    +K   E L  +G FD VS  T
Sbjct: 85  QFNDLLRSNEVELQRLCLCGFCSKDLKLSYRYGKRVIMMLKEV-ESLSSQGFFDVVSEAT 143

Query: 136 VPEDV----WLTSIKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVA 191
              DV    +  +I G E        L    N L      ++G YGM GVGKT L+ ++ 
Sbjct: 144 PFADVDEIPFQPTIVGQEIM------LEKAWNRLMEDGSGILGLYGMGGVGKTTLLTKIN 197

Query: 192 RQ-AKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCE--RLKKE 248
            + +K D  FD V++  VS+   V+KIQ  IA+K+GL   E SE    +   +   + + 
Sbjct: 198 NKFSKIDDRFDVVIWVVVSRSSTVRKIQRDIAEKVGLGGMEWSEKNDNQIAVDIHNVLRR 257

Query: 249 KKILVILDDIWTNLDLENVGIPFGVR--GCRVLMTARSQDVLSSKMDCQNNFLIGVLNES 306
           +K +++LDDIW  ++L+ VG+P+  +  GC+V  T RS+DV   +M   +   +  L   
Sbjct: 258 RKFVLLLDDIWEKVNLKAVGVPYPSKDNGCKVAFTTRSRDV-CGRMGVDDPMEVSCLQPE 316

Query: 307 EARDLFKKLVGDKI--ENNDLKSLAMNIVKACRGLPIAIVTIARALRNKNTF-EWKSALR 363
           E+ DLF+  VG      + D+  LA  + + CRGLP+A+  I  A+  K T  EW  A+ 
Sbjct: 317 ESWDLFQMKVGKNTLGSHPDIPGLARKVARKCRGLPLALNVIGEAMACKRTVHEWCHAID 376

Query: 364 ELTRPSSGSFSGVAAEAYKTSELSYNHLEGAL 395
            LT  S+  FSG+  E     + SY++L G L
Sbjct: 377 VLT-SSAIDFSGMEDEILHVLKYSYDNLNGEL 407

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 =  139 bits (350), Expect = 5e-32,   Method: Compositional matrix adjust.
 Identities = 118/388 (30%), Positives = 187/388 (48%), Gaps = 29/388 (7%)

Query: 25  AYCYNYKSNLEKLKNEVQKLRGAKESVQQKIDDAKRSGEDIE-QRVENWLITADEILDAA 83
           +Y  N   NL  L+  +  L   ++ VQ +I+  + +G      +V+ WL     I +  
Sbjct: 27  SYIQNLSENLASLQKAMGVLNAKRDDVQGRINREEFTGHRRRLAQVQVWLTRIQTIENQF 86

Query: 84  ARIIEGTEDTTNRLC------PNLNTRYQVSKKAA---REVKAAAELLQQEGRFDKVSYR 134
             ++        RLC       N+   Y   K+     REV+     L  +G FD V+  
Sbjct: 87  NDLLSTCNAEIQRLCLCGFCSKNVKMSYLYGKRVIVLLREVEG----LSSQGVFDIVTEA 142

Query: 135 TVPEDVWLTSIKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQ- 193
               +V    I+       + S L+ V N L    V ++G YGM GVGKT L+ ++  + 
Sbjct: 143 APIAEVEELPIQ--STIVGQDSMLDKVWNCLMEDKVWIVGLYGMGGVGKTTLLTQINNKF 200

Query: 194 AKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGL---KFYEESESGRARKLCERLKKEKK 250
           +K    FD V++  VS+   V KIQ  I +KLGL    + E++++ RA  +   L++ KK
Sbjct: 201 SKLGGGFDVVIWVVVSKNATVHKIQKSIGEKLGLVGKNWDEKNKNQRALDIHNVLRR-KK 259

Query: 251 ILVILDDIWTNLDLENVGIPF--GVRGCRVLMTARSQDVLSSKMDCQNNFLIGVLNESEA 308
            +++LDDIW  ++L+ +G+P+  G  GC+V  T  S++V   +M   N   I  L+   A
Sbjct: 260 FVLLLDDIWEKVELKVIGVPYPSGENGCKVAFTTHSKEV-CGRMGVDNPMEISCLDTGNA 318

Query: 309 RDLFKKLVGDKI--ENNDLKSLAMNIVKACRGLPIAIVTIARALRNKNTF-EWKSALREL 365
            DL KK VG+     + D+  LA  + + C GLP+A+  I   +  K T  EW+ A   L
Sbjct: 319 WDLLKKKVGENTLGSHPDIPQLARKVSEKCCGLPLALNVIGETMSFKRTIQEWRHATEVL 378

Query: 366 TRPSSGSFSGVAAEAYKTSELSYNHLEG 393
           T  S+  FSG+  E     + SY+ L G
Sbjct: 379 T--SATDFSGMEDEILPILKYSYDSLNG 404

Disease resistance (R) protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  139 bits (349), Expect = 6e-32,   Method: Compositional matrix adjust.
 Identities = 106/383 (27%), Positives = 194/383 (50%), Gaps = 22/383 (5%)

Query: 26  YCYNYKSNLEKLKNEVQKLRGAKESVQQKIDDAKRSGEDIEQRVENWLITADEILDAAAR 85
           Y +  + NL  L+  ++++   +E + +KI   +R G      V+ W+   + I+     
Sbjct: 28  YIHGLEENLTALQRALEQIEQRREDLLRKILSEERRGLQRLSVVQGWVSKVEAIVPRVNE 87

Query: 86  IIEGTEDTTNRLC------PNLNTRYQVSKKAAREVKAAAELLQQEGRFDKVSYRTVPED 139
           ++        RLC       NL + Y+  K+  + ++   E+L+ +G F  V+ R     
Sbjct: 88  LVRMRSVQVQRLCLCGFCSKNLVSSYRYGKRVMKMIEEV-EVLRYQGDFAVVAERVDAAR 146

Query: 140 VWLTSIKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVA-RQAKADK 198
           V     +   A +     L    N L   ++ ++G +GM GVGKT L+  +  R ++   
Sbjct: 147 VEERPTRPMVAMDP---MLESAWNRLMEDEIGILGLHGMGGVGKTTLLSHINNRFSRVGG 203

Query: 199 LFDEVVYAEVSQRPDVKKIQGQIADKL---GLKFYEESESGRARKLCERLKKEKKILVIL 255
            FD V++  VS+   +++IQ +I +KL     K+ +++E  +A  +   LK  K+ +++L
Sbjct: 204 EFDIVIWIVVSKELQIQRIQDEIWEKLRSDNEKWKQKTEDIKASNIYNVLK-HKRFVLLL 262

Query: 256 DDIWTNLDLENVGIPFGVR--GCRVLMTARSQDVLSSKMDCQNNFLIGVLNESEARDLFK 313
           DDIW+ +DL  VG+PF  R  GC+++ T R +++   +M   ++  +  L   +A DLF 
Sbjct: 263 DDIWSKVDLTEVGVPFPSRENGCKIVFTTRLKEI-CGRMGVDSDMEVRCLAPDDAWDLFT 321

Query: 314 KLVGDKI--ENNDLKSLAMNIVKACRGLPIAIVTIARALRNKNTF-EWKSALRELTRPSS 370
           K VG+     + ++ ++A  + K CRGLP+A+  I   +  K T  EW+SA+  LT  S+
Sbjct: 322 KKVGEITLGSHPEIPTVARTVAKKCRGLPLALNVIGETMAYKRTVQEWRSAIDVLTS-SA 380

Query: 371 GSFSGVAAEAYKTSELSYNHLEG 393
             FSG+  E     + SY++L+ 
Sbjct: 381 AEFSGMEDEILPILKYSYDNLKS 403

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 =  137 bits (346), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 121/398 (30%), Positives = 197/398 (49%), Gaps = 31/398 (7%)

Query: 11  KVAECLVHPIIHPFAYCYNYKSNLEKLKNEVQKLRGAKESVQQKIDDAKRSGEDIEQRVE 70
           ++ +CL+       +Y    + NL  L+ E++ LR  +  VQ K+   +   +   + V+
Sbjct: 18  RIFDCLIGK-----SYIRTLEKNLRALQREMEDLRATQHEVQNKVAREESRHQQRLEAVQ 72

Query: 71  NWLITADEILDAAARIIEGTEDTTNRLC-PNLNTRYQVSK-KAAREVKAAAE---LLQQE 125
            WL   + I      ++  +     +LC   L T+Y  S  K  ++V    E   +L+ E
Sbjct: 73  VWLDRVNSIDIECKDLLSVSPVELQKLCLCGLCTKYVCSSYKYGKKVFLLLEEVKILKSE 132

Query: 126 GRFDKVSY---RTVPEDVWLTSIKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVG 182
           G FD+VS    R+  E+       G E        L    N L    V ++G +GM GVG
Sbjct: 133 GNFDEVSQPPPRSEVEERPTQPTIGQE------EMLEKAWNRLMEDGVGIMGLHGMGGVG 186

Query: 183 KTMLVKEVARQ-AKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGL---KFYEESESGRA 238
           KT L K++  + A+    FD V++  VSQ   + K+Q  IA+KL L    +  ++ES +A
Sbjct: 187 KTTLFKKIHNKFAEIGGTFDIVIWIVVSQGAKLSKLQEDIAEKLHLCDDLWKNKNESDKA 246

Query: 239 RKLCERLKKEKKILVILDDIWTNLDLENVGIPFG--VRGCRVLMTARSQDVLSSKMDCQN 296
             +  R+ K K+ +++LDDIW  +DLE +GIP+   V  C+V  T RS++V   +M    
Sbjct: 247 TDI-HRVLKGKRFVLMLDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRSREV-CGEMGDHK 304

Query: 297 NFLIGVLNESEARDLFKKLVGDKIENND--LKSLAMNIVKACRGLPIAIVTIARALRNKN 354
              +  L   +A +LFK  VGD   ++D  +  LA  + + CRGLP+A+  I   + +K 
Sbjct: 305 PMQVNCLEPEDAWELFKNKVGDNTLSSDPVIVGLAREVAQKCRGLPLALNVIGETMASKT 364

Query: 355 TF-EWKSALRELTRPSSGSFSGVAAEAYKTSELSYNHL 391
              EW+ A+  LTR S+  FSG+  +     + SY+ L
Sbjct: 365 MVQEWEYAIDVLTR-SAAEFSGMENKILPILKYSYDSL 401

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9T048|DRL27_ARATH Disease resistance protein At4g27190 OS=Arabidopsis thaliana GN=At4g27190 PE=2 SV=1

 Score =  136 bits (343), Expect = 4e-31,   Method: Compositional matrix adjust.
 Identities = 107/379 (28%), Positives = 199/379 (52%), Gaps = 22/379 (5%)

Query: 25  AYCYNYKSNLEKLKNEVQKLRGAKESVQQKIDDAKRSGEDIEQRVENWLITADEILDAAA 84
           A    +KSN++ L   +++L   K ++ +  +      + +  ++  W   A+E++  A 
Sbjct: 24  ANAIKFKSNVKALNESLERLTELKGNMSEDHETLLTKDKPLRLKLMRWQREAEEVISKAR 83

Query: 85  RIIEGTEDTTNRLCPNLNTRYQVSKKAAREVKAAAELLQQEG--RFDKVSYRTVPEDVWL 142
             +E       R+   ++ R ++S+K  + +    ++L+++G    D +S  + PE V  
Sbjct: 84  LKLE------ERVSCGMSLRPRMSRKLVK-ILDEVKMLEKDGIEFVDMLSVESTPERV-- 134

Query: 143 TSIKGYEAFESRMST--LNDVINALKNPDVHMIGAYGMAGVGKTMLVKEV---ARQAKAD 197
             + G       M++  L  + + L +     IG +GM GVGKT LV+ +    R+  A 
Sbjct: 135 EHVPGVSVVHQTMASNMLAKIRDGLTSEKAQKIGVWGMGGVGKTTLVRTLNNKLREEGAT 194

Query: 198 KLFDEVVYAEVSQRPDVKKIQGQIADKLGLKF-YEESESGRARKLCERLKKEKKILVILD 256
           + F  V++  VS+  D +++Q QIA++L +    EESE   AR++   L KE+K L+ILD
Sbjct: 195 QPFGLVIFVIVSKEFDPREVQKQIAERLDIDTQMEESEEKLARRIYVGLMKERKFLLILD 254

Query: 257 DIWTNLDLENVGIPFG--VRGCRVLMTARSQDVLSSKMDCQNNFLIGVLNESEARDLFKK 314
           D+W  +DL+ +GIP     +G +V++T+R  +V  S M    +  +  L E +A +LF K
Sbjct: 255 DVWKPIDLDLLGIPRTEENKGSKVILTSRFLEVCRS-MKTDLDVRVDCLLEEDAWELFCK 313

Query: 315 LVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARALRN-KNTFEWKSALRELTRPSSGSF 373
             GD + ++ ++ +A  + + C GLP+AI+T+  A+R  KN   W   L +L++ S    
Sbjct: 314 NAGDVVRSDHVRKIAKAVSQECGGLPLAIITVGTAMRGKKNVKLWNHVLSKLSK-SVPWI 372

Query: 374 SGVAAEAYKTSELSYNHLE 392
             +  + ++  +LSY+ LE
Sbjct: 373 KSIEEKIFQPLKLSYDFLE 391

Disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O81825|DRL28_ARATH Probable disease resistance protein At4g27220 OS=Arabidopsis thaliana GN=At4g27220 PE=2 SV=1

 Score =  135 bits (341), Expect = 5e-31,   Method: Compositional matrix adjust.
 Identities = 115/382 (30%), Positives = 199/382 (52%), Gaps = 26/382 (6%)

Query: 30  YKSNLEKLKNEVQKLRGAKESVQQKIDDA-KRSG---EDIEQRVENWLITADEILDAAAR 85
           ++SN   L   +++L+    +VQ K+++A KRSG   + +E+++  WL   +E +     
Sbjct: 2   FRSNARALNRALERLK----NVQTKVNEALKRSGIQEKSLERKLRIWLRKVEENVPLGEL 57

Query: 86  IIEGTEDTTNRLCPNLNTRYQVSKKAAREVKAAAELLQQEGRFDKVSYRTVPEDVWLTSI 145
           I+E        L    +   ++ +K  R  +   +L+++    +K S R + E V   S 
Sbjct: 58  ILEKRSSCAIWLS---DKDVEILEKVKRLEEQGQDLIKKIS-VNK-SSREIVERVLGPS- 111

Query: 146 KGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEV---ARQAKADKLFDE 202
             +   ++ +  L+ + + LK  +V  IG +GM GVGKT LV+ +     +  A + F  
Sbjct: 112 --FHPQKTALEMLDKLKDCLKKKNVQKIGVWGMGGVGKTTLVRTLNNDLLKYAATQQFAL 169

Query: 203 VVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL 262
           V++  VS+  D+K++Q  IA +LG +F  E  +     +CERL   K  L+ILDD+W  +
Sbjct: 170 VIWVTVSKDFDLKRVQMDIAKRLGKRFTREQMNQLGLTICERLIDLKNFLLILDDVWHPI 229

Query: 263 DLENVGIPFGV---RGCRVLMTARSQDVLSSKMDCQNNFLIGVLNESEARDLFKKLVGDK 319
           DL+ +GIP  +   +  +V++T+R  +V   +M    N  +  L E EA +LF   VG+ 
Sbjct: 230 DLDQLGIPLALERSKDSKVVLTSRRLEV-CQQMMTNENIKVACLQEKEAWELFCHNVGEV 288

Query: 320 IENNDLKSLAMNIVKACRGLPIAIVTIARALRNKNTFE-WKSALRELTRPSSGSFSGVAA 378
             ++++K +A ++   C GLP+AI+TI R LR K   E WK  L  L R  S        
Sbjct: 289 ANSDNVKPIAKDVSHECCGLPLAIITIGRTLRGKPQVEVWKHTLNLLKR--SAPSIDTEE 346

Query: 379 EAYKTSELSYNHLEGALKTARL 400
           + + T +LSY+ L+  +K+  L
Sbjct: 347 KIFGTLKLSYDFLQDNMKSCFL 368

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 =  133 bits (335), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 119/385 (30%), Positives = 186/385 (48%), Gaps = 26/385 (6%)

Query: 25  AYCYNYKSNLEKLKNEVQKLRGAKESVQQKIDDAKRSGEDIEQRVENWLITADEILDAAA 84
            Y  N + NL  L+ E++ LR  +  VQ K+   +   +   + V+ WL   + I     
Sbjct: 26  GYIRNLEKNLRALQREMEDLRATQHEVQNKVAREESRHQQRLEAVQVWLDRVNSIDIECK 85

Query: 85  RIIEGTEDTTNRLC-PNLNTRYQVS--KKAAREVKAAAEL--LQQEGRFDKVSY---RTV 136
            ++  +     +LC   L ++Y  S  K   R      E+  L+ EG FD+VS    R+ 
Sbjct: 86  DLLSVSPVELQKLCLCGLCSKYVCSSYKYGKRVFLLLEEVTKLKSEGNFDEVSQPPPRSE 145

Query: 137 PEDVWLTSIKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQ-AK 195
            E+       G E        L    N L    V ++G +GM GVGKT L K++  + A+
Sbjct: 146 VEERPTQPTIGQE------EMLKKAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNKFAE 199

Query: 196 ADKLFDEVVYAEVSQRPDVKKIQGQIADKLGL---KFYEESESGRARKLCERLKKEKKIL 252
               FD V++  VSQ   + K+Q  IA+KL L    +  ++ES +A  +  R+ K K+ +
Sbjct: 200 TGGTFDIVIWIVVSQGAKLSKLQEDIAEKLHLCDDLWKNKNESDKATDI-HRVLKGKRFV 258

Query: 253 VILDDIWTNLDLENVGIPFG--VRGCRVLMTARSQDVLSSKMDCQNNFLIGVLNESEARD 310
           ++LDDIW  +DLE +GIP+   V  C+V  T R Q V   +M       +  L   +A +
Sbjct: 259 LMLDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRDQKV-CGQMGDHKPMQVKCLEPEDAWE 317

Query: 311 LFKKLVGDKIENND--LKSLAMNIVKACRGLPIAIVTIARALRNKNTF-EWKSALRELTR 367
           LFK  VGD    +D  +  LA  + + CRGLP+A+  I   + +K    EW+ A+  LTR
Sbjct: 318 LFKNKVGDNTLRSDPVIVGLAREVAQKCRGLPLALSCIGETMASKTMVQEWEHAIDVLTR 377

Query: 368 PSSGSFSGVAAEAYKTSELSYNHLE 392
            S+  FS +  +     + SY+ LE
Sbjct: 378 -SAAEFSDMQNKILPILKYSYDSLE 401

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LVT3|DRL38_ARATH Probable disease resistance protein At5g47260 OS=Arabidopsis thaliana GN=At5g47260 PE=3 SV=2

 Score =  132 bits (333), Expect = 5e-30,   Method: Compositional matrix adjust.
 Identities = 104/368 (28%), Positives = 180/368 (48%), Gaps = 22/368 (5%)

Query: 19  PIIHPFA-----YCYNYKSNLEKLKNEVQKLRGAKESVQQKIDDAKRSGEDIEQRVENWL 73
           P + PF      Y YN + NLE L   +Q L   +  + +++   +  G    Q V+ W+
Sbjct: 10  PSLAPFLCGKRKYLYNLERNLEALHKVMQDLNAMRNDLLKRLSKEEEIGLQGLQEVKEWI 69

Query: 74  ITADEILDAAARIIEGTEDTTNRL-----CPNLN-TRYQVSKKAAREVKAAAELLQQEGR 127
              +EI   A R+++ +     RL     C  +  + Y+ S+K    ++   E L+ +G 
Sbjct: 70  SMVEEIEPKANRLLDESVSEIQRLSRYGYCSLIPASTYRYSEKVLTTME-GVETLRSKGV 128

Query: 128 FDKVSYRTVPEDVWLTSIKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLV 187
           F+ V +R +P  V    +   +   S+   L+     L + +V  +G YG  GVGKT L+
Sbjct: 129 FEAVVHRALPPLV--IKMPPIQLTVSQAKLLDTAWARLMDINVGTLGIYGRGGVGKTTLL 186

Query: 188 KEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKK 247
            ++  +   D  F  V++  V    +V+ IQ +I  +LGL++  E++  +A ++   L K
Sbjct: 187 TKLRNKLLVDA-FGLVIFVVVGFE-EVESIQDEIGKRLGLQWRRETKERKAAEILAVL-K 243

Query: 248 EKKILVILDDIWTNLDLENVGIPFGVR--GCRVLMTARSQDVLSSKMDCQNNFLIGVLNE 305
           EK+ +++LD I   LDLE +G+PF  R  GC+++ T +S +             I  L+ 
Sbjct: 244 EKRFVLLLDGIQRELDLEEIGVPFPSRDNGCKIVFTTQSLEACDESKWVDAKVEITCLSP 303

Query: 306 SEARDLFKKLVGDKI--ENNDLKSLAMNIVKACRGLPIAIVTIARALRNKNTF-EWKSAL 362
            EA DLF++ VG+     + D+  LA  +   CRGLP+A+  I  A+  K T  EW+  +
Sbjct: 304 EEAWDLFQETVGENTLRSHQDIPKLARVVASTCRGLPLALNLIGEAMSGKRTVREWRYTI 363

Query: 363 RELTRPSS 370
             L   ++
Sbjct: 364 HVLASSTA 371

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C8K0|DRL5_ARATH Probable disease resistance protein At1g51480 OS=Arabidopsis thaliana GN=At1g51480 PE=2 SV=2

 Score =  127 bits (318), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 107/395 (27%), Positives = 199/395 (50%), Gaps = 31/395 (7%)

Query: 26  YCYNYKSNLEKLKNEVQKLRGAKESVQQKIDDAKRSGEDIEQRVENWLITADEILDAAAR 85
           Y +  ++NL+ L   +++L+  ++ + +++   +  G     +V+ W I+  EI+++  +
Sbjct: 27  YIHKMEANLDDLHTTMEELKNGRDDLLRRVSIEEDKGLQQLAQVKGW-ISRVEIVESRFK 85

Query: 86  -IIEGTEDTTNRLC------PNLNTRYQVSKKAAREVKAAAELLQQEGRFDKVSYRT-VP 137
            ++E     T RLC       N  + Y   +K  + ++   ELL ++  F+ V+++  VP
Sbjct: 86  DLLEDKSTETGRLCLFGFCSENCISSYNYGEKVMKNLEEVKELLSKK-HFEVVAHKIPVP 144

Query: 138 ---EDVWLTSIKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQ- 193
              E    T++  Y   E           +L N ++  +  +GM GVGKT L+  +  + 
Sbjct: 145 KVEEKNIHTTVGLYAMVEMAW-------KSLMNDEIRTLCLHGMGGVGKTTLLACINNKF 197

Query: 194 AKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGL--KFYEESESGRARKLCERLKKEKKI 251
            + +  FD V++  VS+   ++ IQ QI  +L L  ++  E+E+ +A  +   LK+ KK 
Sbjct: 198 VELESEFDVVIWVVVSKDFQLEGIQDQILGRLRLDKEWERETENKKASLINNNLKR-KKF 256

Query: 252 LVILDDIWTNLDLENVGIPFGVR--GCRVLMTARSQDVLSSKMDCQNNFLIGVLNESEAR 309
           +++LDD+W+ +DL  +G+P   R  G +++ T RS++V S  M       +  L+  EA 
Sbjct: 257 VLLLDDLWSEVDLNKIGVPPPTRENGAKIVFTKRSKEV-SKYMKADMQIKVSCLSPDEAW 315

Query: 310 DLFKKLVGDKI--ENNDLKSLAMNIVKACRGLPIAIVTIARALRNKNTF-EWKSALRELT 366
           +LF+  V D I   + D+ +LA  +   C GLP+A++ I  A+  K T  EW  A+  L 
Sbjct: 316 ELFRITVDDVILSSHEDIPALARIVAAKCHGLPLALIVIGEAMACKETIQEWHHAINVLN 375

Query: 367 RPSSGSFSGVAAEAYKTSELSYNHLE-GALKTARL 400
            P+   F G+        + SY+ L+ G +K   L
Sbjct: 376 SPAGHKFPGMEERILLVLKFSYDSLKNGEIKLCFL 410

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FLB4|DRL31_ARATH Putative disease resistance protein At5g05400 OS=Arabidopsis thaliana GN=At5g05400 PE=2 SV=1

 Score =  125 bits (315), Expect = 6e-28,   Method: Compositional matrix adjust.
 Identities = 103/380 (27%), Positives = 184/380 (48%), Gaps = 32/380 (8%)

Query: 29  NYKSNLEKLKNEVQKLRGAKESVQQKIDDAKRSGEDIEQRVENWLITADEILDAAARIIE 88
           N   ++  LK  V++L   ++ + ++I   +  G ++   V+ WL   +  +  A  I+ 
Sbjct: 31  NLVDHVAALKKTVRQLEARRDDLLKRIKVQEDRGLNLLDEVQQWLSEVESRVCEAHDILS 90

Query: 89  GTEDTTNRLC------PNLNTRYQVSKKAAREVKAAAELLQQEGRFDKVSYR----TVPE 138
            +++  + LC            Y  SK    +++    LL + G FD+V+ +     V E
Sbjct: 91  QSDEEIDNLCCGQYCSKRCKYSYDYSKSVINKLQDVENLLSK-GVFDEVAQKGPIPKVEE 149

Query: 139 DVWLTSIKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAK-AD 197
            ++   I G EA       +    N++    V ++G YGM GVGKT L+ ++  + +   
Sbjct: 150 RLFHQEIVGQEAI------VESTWNSMMEVGVGLLGIYGMGGVGKTTLLSQINNKFRTVS 203

Query: 198 KLFDEVVYAEVSQRPDVKKIQGQIADKLGL--KFYEESESGRARKLCERLKKEKKILVIL 255
             FD  ++  VS+ P VK+IQ  I  +L L  + +E+          +R  + KK +++L
Sbjct: 204 NDFDIAIWVVVSKNPTVKRIQEDIGKRLDLYNEGWEQKTENEIASTIKRSLENKKYMLLL 263

Query: 256 DDIWTNLDLENVGIPFGVR-GCRVLMTARSQDVLSSKMDCQNNFLIGVLNESEARDLFKK 314
           DD+WT +DL N+GIP   R G ++  T+RS +V   KM       +  L   +A DLF +
Sbjct: 264 DDMWTKVDLANIGIPVPKRNGSKIAFTSRSNEV-CGKMGVDKEIEVTCLMWDDAWDLFTR 322

Query: 315 LVGDKIENND-LKSLAMNIVKACRGLPIAIVTIARAL-RNKNTFEWKSALRELTRPSSGS 372
            + + +E++  +  +A +I + C GLP+A+  I   + R K+  EW  A+        G 
Sbjct: 323 NMKETLESHPKIPEVAKSIARKCNGLPLALNVIGETMARKKSIEEWHDAV--------GV 374

Query: 373 FSGVAAEAYKTSELSYNHLE 392
           FSG+ A+     + SY+ L+
Sbjct: 375 FSGIEADILSILKFSYDDLK 394

Potential 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	512
147802546	1409	hypothetical protein VITISV_007222 [Viti	0.765	0.278	0.496	1e-106
359488027	1520	PREDICTED: disease resistance protein At	0.765	0.257	0.493	1e-105
224083434	1144	cc-nbs-lrr resistance protein [Populus t	0.746	0.333	0.506	2e-95
359488288	1340	PREDICTED: LOW QUALITY PROTEIN: probable	0.765	0.292	0.458	3e-95
224147195	554	cc-nbs resistance protein [Populus trich	0.753	0.696	0.469	2e-93
359487988	1297	PREDICTED: disease resistance protein RP	0.759	0.299	0.473	5e-93
147865073	1694	hypothetical protein VITISV_021876 [Viti	0.759	0.229	0.451	4e-92
359488103	1530	PREDICTED: disease resistance protein At	0.759	0.254	0.443	9e-92
147866716	454	hypothetical protein VITISV_025268 [Viti	0.759	0.856	0.448	2e-91
147833354	1494	hypothetical protein VITISV_041837 [Viti	0.759	0.260	0.438	6e-91

>gi|147802546|emb|CAN77665.1| hypothetical protein VITISV_007222 [Vitis vinifera]

 Score =  391 bits (1004), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 198/399 (49%), Positives = 281/399 (70%), Gaps = 7/399 (1%)

Query: 1   MVEIAVAIAVKVAECLVHPIIHPFAYCYNYKSNLEKLKNEVQKLRGAKESVQQKIDDAKR 60
           M EI V IA KVAE LV PI   F Y +NY+SN++ L+ +V+KL  A+  +++ +D+A R
Sbjct: 1   MEEIVVTIAAKVAEYLVAPIGRSFGYLFNYRSNIDDLRQQVEKLGDARARLERSVDEAIR 60

Query: 61  SGEDIEQRVENWLITADEILDAAARIIE----GTEDTTNRLCPNLNTRYQVSKKAAREVK 116
           +G++IE  V+ WL+     ++ A    E      +   N  CPNL ++YQ+S++A +  +
Sbjct: 61  NGDEIEADVDKWLLRVSGFMEEAGIFFEVEKKANQSCFNGSCPNLKSQYQLSREAKKRAR 120

Query: 117 AAAELLQQEGRFDKVSYRTVPEDVWLTSIKGYEAFESRMSTLNDVINALKNPDVHMIGAY 176
             AE+ Q +G+F++VSYR     +     KG+EA ESRM+TL++++ AL++  V++IG +
Sbjct: 121 VVAEI-QGDGKFERVSYRAPLPGIGSAPFKGHEALESRMTTLDEIMEALRDAHVNIIGVW 179

Query: 177 GMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESG 236
           GMAGVGKT L+K+VA+Q + +KLFD+VV A +S  P++KKIQG++AD LGLKF EESE G
Sbjct: 180 GMAGVGKTTLMKQVAKQVEEEKLFDKVVMAYISSTPELKKIQGELADMLGLKFEEESEMG 239

Query: 237 RARKLCERLKKEKKILVILDDIWTNLDLENVGIPFG--VRGCRVLMTARSQDVLSSKMDC 294
           RA +LCERLKK KKIL+ILDDIWT LDLE VGIPFG   +GC++++T+R++ VLS++M  
Sbjct: 240 RAARLCERLKKVKKILIILDDIWTELDLEKVGIPFGDDHKGCKMVLTSRNKHVLSNEMGT 299

Query: 295 QNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARALRNKN 354
           Q +F +  L E EA  LFKK+ GD IE  DL+S+A+++ K C GLPIAIVT+A+AL+NK 
Sbjct: 300 QKDFPVEHLQEEEALILFKKMAGDSIEEPDLQSIAIDVAKECAGLPIAIVTVAKALKNKG 359

Query: 355 TFEWKSALRELTRPSSGSFSGVAAEAYKTSELSYNHLEG 393
              W+ ALR+L R    +  G+ A  Y T ELSYNHLEG
Sbjct: 360 LSIWEDALRQLKRSIPTNIKGMDAMVYSTLELSYNHLEG 398

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359488027|ref|XP_002269288.2| PREDICTED: disease resistance protein At4g27190-like [Vitis vinifera]

 Score =  390 bits (1001), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 197/399 (49%), Positives = 281/399 (70%), Gaps = 7/399 (1%)

Query: 1   MVEIAVAIAVKVAECLVHPIIHPFAYCYNYKSNLEKLKNEVQKLRGAKESVQQKIDDAKR 60
           M EI V IA KVAE LV PI   F Y +NY+SN++ L+ +V+KL  A+  +++ +D+A R
Sbjct: 1   MEEIVVTIAAKVAEYLVAPIGRSFGYLFNYRSNIDDLRQQVEKLGDARARLERSVDEAIR 60

Query: 61  SGEDIEQRVENWLITADEILDAAARIIE----GTEDTTNRLCPNLNTRYQVSKKAAREVK 116
           +G++IE  V+ WL+     ++ A    E      +   N  CPNL ++YQ+S++A +  +
Sbjct: 61  NGDEIEADVDKWLLRVSGFMEEAGIFFEVEKKANQSCFNGSCPNLKSQYQLSREAKKRAR 120

Query: 117 AAAELLQQEGRFDKVSYRTVPEDVWLTSIKGYEAFESRMSTLNDVINALKNPDVHMIGAY 176
             AE+ Q +G+F++VSYR     +     KG+EA ESRM+TL++++ AL++  V++IG +
Sbjct: 121 VVAEI-QGDGKFERVSYRAPLPGIGSAPFKGHEALESRMTTLDEIMEALRDAHVNIIGVW 179

Query: 177 GMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESG 236
           GMAGVGKT L+K+VA+QA+ +KLFD+VV A +S  P++KKIQG++AD LGLKF EESE G
Sbjct: 180 GMAGVGKTTLMKQVAKQAEEEKLFDKVVMAYISSTPELKKIQGELADMLGLKFEEESEMG 239

Query: 237 RARKLCERLKKEKKILVILDDIWTNLDLENVGIPFG--VRGCRVLMTARSQDVLSSKMDC 294
           RA +LCERLKK KKIL+ILDDIWT LDLE VGIPFG   +GC++++T+R++ +LS++M  
Sbjct: 240 RAARLCERLKKVKKILIILDDIWTELDLEKVGIPFGDDHKGCKMVLTSRNKHILSNEMGT 299

Query: 295 QNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARALRNKN 354
           Q +F +  L E EA  LFKK+ GD IE  DL+S+A+++ K C GLPIAIVT+A+AL+NK 
Sbjct: 300 QKDFPVEHLQEEEALILFKKMAGDSIEEPDLQSIAIDVAKECAGLPIAIVTVAKALKNKG 359

Query: 355 TFEWKSALRELTRPSSGSFSGVAAEAYKTSELSYNHLEG 393
              W+ ALR+L R    +  G+ A  Y T ELSY HLEG
Sbjct: 360 LSIWEDALRQLKRSIPTNIKGMDAMVYSTLELSYKHLEG 398

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224083434|ref|XP_002307025.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222856474|gb|EEE94021.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  356 bits (914), Expect = 2e-95,   Method: Compositional matrix adjust.
 Identities = 197/389 (50%), Positives = 259/389 (66%), Gaps = 7/389 (1%)

Query: 12  VAECLVHPIIHPFAYCYNYKSNLEKLKNEVQKLRGAKESVQQKIDDAKRSGEDIEQRVEN 71
           V++  V PI     +C  Y  N E LK EV+KL+ A+  VQ  +DDA+ +GE I + V  
Sbjct: 13  VSQHTVVPIAREINHCLKYNHNFENLKREVKKLKSAQLRVQHLVDDARNNGEAILEDVIK 72

Query: 72  WLITADEILDAAARIIEGTEDTTNR-----LCPNLNTRYQVSKKAAREVKAAAELLQQEG 126
           WL   +E  +   R I   ED   +     LCP+L  RYQ SKKA  E +  A LL +  
Sbjct: 73  WLSLVEEASEKVEREILEDEDRARKKCFIGLCPDLKARYQCSKKAKAETRFVASLLDERD 132

Query: 127 RFDKVSYRTVPEDVWLTSIKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTML 186
            F  VS+R  P+ +   SI+ Y+A  SR   L +++NAL   DV+M+G YGM G+GKT L
Sbjct: 133 GFSTVSHRAAPKGMEAISIRSYDAMPSRTPVLKEIMNALTTADVNMVGVYGMGGMGKTTL 192

Query: 187 VKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLK 246
           VKE ARQA  +KLF++VV+A ++Q  D+KKIQGQIAD+L LKF EESE GRA +L +RLK
Sbjct: 193 VKEAARQAIQEKLFNQVVFATITQTQDIKKIQGQIADQLSLKFDEESECGRAGRLRQRLK 252

Query: 247 KEKKILVILDDIWTNLDLENVGIPFG--VRGCRVLMTARSQDVLSSKMDCQNNFLIGVLN 304
           +E+KIL+ILDD+W +LDLE VGIP      GC++L+T+R  DVLS  MD Q NF I  L+
Sbjct: 253 QEQKILIILDDLWKSLDLEAVGIPLKDEHEGCKMLVTSREFDVLSCGMDIQKNFPINALS 312

Query: 305 ESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARALRNKNTFEWKSALRE 364
           E E  +LFKK+ GD +E+ DL+SLA+ + K C GLP+AIVT+ARAL+NKN  +WK+ALRE
Sbjct: 313 EEETWELFKKMAGDHVEHPDLQSLAIEVAKMCAGLPVAIVTVARALKNKNLSQWKNALRE 372

Query: 365 LTRPSSGSFSGVAAEAYKTSELSYNHLEG 393
           L RPS  +F+GV  + Y   ELSYNHLE 
Sbjct: 373 LKRPSPRNFAGVQEDVYAAIELSYNHLES 401

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359488288|ref|XP_003633735.1| PREDICTED: LOW QUALITY PROTEIN: probable disease resistance protein At1g61310-like [Vitis vinifera]

 Score =  355 bits (911), Expect = 3e-95,   Method: Compositional matrix adjust.
 Identities = 183/399 (45%), Positives = 261/399 (65%), Gaps = 7/399 (1%)

Query: 1   MVEIAVAIAVKVAECLVHPIIHPFAYCYNYKSNLEKLKNEVQKLRGAKESVQQKIDDAKR 60
           MVEI V++A KV+E LV P+     + +NY++N+E L  +V KLR A+   Q  +D+A R
Sbjct: 1   MVEIVVSVAAKVSEYLVAPVGRQLGHLFNYRTNVEDLSQQVAKLRDARARQQHSVDEAIR 60

Query: 61  SGEDIEQRVENWLITADEILDAAARIIE----GTEDTTNRLCPNLNTRYQVSKKAAREVK 116
            G  IE  V  W   AD  +  A + +E      +   N LCPNL +RYQ+SK+A ++  
Sbjct: 61  KGHKIEDDVCKWFTRADGFIQVACKFLEEEKEAQKTCFNGLCPNLKSRYQLSKEARKKAG 120

Query: 117 AAAELLQQEGRFDKVSYRTVPEDVWLTSIKGYEAFESRMSTLNDVINALKNPDVHMIGAY 176
            A E+   +G+F++VSYR    ++     K  +  ESRM TLN+V+ AL++ D++ IG +
Sbjct: 121 VAVEI-HGDGQFERVSYRPPLLEIGSAPPKASKVLESRMLTLNEVMKALRDADINTIGIW 179

Query: 177 GMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESG 236
           GM GVGK  LVK+VA QA  +KLFD+VV   V Q PD ++IQG+IAD LG+KF EESE G
Sbjct: 180 GMGGVGKNTLVKQVAEQAAQEKLFDKVVMTSVFQTPDFRRIQGEIADMLGMKFEEESEQG 239

Query: 237 RARKLCERLKKEKKILVILDDIWTNLDLENVGIPF--GVRGCRVLMTARSQDVLSSKMDC 294
           RA +L  ++ +EK IL+ILDDIW  L+LE +GIP     +GC++++T+R++ VLS++M  
Sbjct: 240 RAARLHRKINEEKTILIILDDIWAELELEKIGIPSPDNHKGCKLVLTSRNKHVLSNEMST 299

Query: 295 QNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARALRNKN 354
           Q +F +  L   EA  LFK +VGD IEN DL  +A ++ K C GLPIAIVT+A+AL+NKN
Sbjct: 300 QKDFGVEHLQGDEAWILFKNMVGDSIENPDLLLIATDVAKECTGLPIAIVTVAKALKNKN 359

Query: 355 TFEWKSALRELTRPSSGSFSGVAAEAYKTSELSYNHLEG 393
              WK AL++L   +S + +G+  + Y T +LSY HLEG
Sbjct: 360 VSIWKDALKQLKTQTSTNITGMGTKVYSTLKLSYKHLEG 398

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224147195|ref|XP_002336426.1| cc-nbs resistance protein [Populus trichocarpa] gi|222834979|gb|EEE73428.1| cc-nbs resistance protein [Populus trichocarpa]

 Score =  349 bits (896), Expect = 2e-93,   Method: Compositional matrix adjust.
 Identities = 186/396 (46%), Positives = 257/396 (64%), Gaps = 10/396 (2%)

Query: 2   VEIAVAIAVKVAECLVHPIIHPFAYCYNYKSNLEKLKNEVQKLRGAKESVQQKIDDAKRS 61
           +EI ++I  KVAE LV PI     Y  +  SN++ LKNEV+KL  AK  V   I++A+ +
Sbjct: 1   MEIVISIVAKVAELLVVPIKRQIGYVLDCNSNIQNLKNEVEKLTDAKTRVIHSIEEAQWN 60

Query: 62  GEDIEQRVENWLITADEILDAAARII--EGTEDTTNRLCPNLNTRYQVSKKAAREVKAAA 119
           GE+IE  V NWL + D +++ A  ++  E ++     LCP+L  RY++ K A +E+    
Sbjct: 61  GEEIEVEVLNWLGSVDGVIEGAGGVVADESSKKCFMGLCPDLKIRYRLGKAAKKELTVVV 120

Query: 120 ELLQQEGRFDKVSYRTVPEDVWLTSIKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMA 179
           +L Q +G+FD+VSYR  P  +    +K YEAFESR S LND++ ALK+ D +M+G +GMA
Sbjct: 121 DL-QGKGKFDRVSYRAAPSGI--GPVKDYEAFESRNSVLNDIVGALKDGDENMVGVFGMA 177

Query: 180 GVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRAR 239
           GVGKT LVK+VA Q K  +LF+EVV A VSQ PD+++IQG+IAD LGLK   E++ GRA 
Sbjct: 178 GVGKTTLVKKVAEQVKEGRLFNEVVLAVVSQTPDIRRIQGEIADGLGLKLDAETDKGRAS 237

Query: 240 KLCERLKKEKKILVILDDIWTNLDLENVGIPFGV--RGCRVLMTARSQDVLSSKMDCQNN 297
           +LC+ LKK  ++LVILDDIW  L LE+VGIP G    GC++LMT+R ++VLS +M    N
Sbjct: 238 QLCKGLKKVTRVLVILDDIWKELKLEDVGIPSGSDHDGCKILMTSRDKNVLSCEMGANKN 297

Query: 298 FLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARALRNKNTFE 357
           F I VL ESEA DLF+K VG  ++N  ++ +A  + K C GLPI +  +ARALRN+  + 
Sbjct: 298 FQIQVLPESEAWDLFEKTVGVTVKNPSVQPVAAKVAKRCAGLPILLAAVARALRNEEVYA 357

Query: 358 WKSALRELTRPSSGSFSGVAAEAYKTSELSYNHLEG 393
           W  AL++L R           + Y   ELSY  L G
Sbjct: 358 WNDALKQLNRFDKDEIDN---QVYLGLELSYKALRG 390

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359487988|ref|XP_002262896.2| PREDICTED: disease resistance protein RPS2-like [Vitis vinifera]

 Score =  348 bits (892), Expect = 5e-93,   Method: Compositional matrix adjust.
 Identities = 188/397 (47%), Positives = 263/397 (66%), Gaps = 8/397 (2%)

Query: 1   MVEIAVAIAVKVAECLVHPIIHPFAYCYNYKSNLEKLKNEVQKLRGAKESVQQKIDDAKR 60
           M EI ++IA KVAE LV PI+ P  Y +NY+SNL+ L+ +V KL  A+E  Q+ +DDA R
Sbjct: 1   MAEILISIAAKVAEYLVAPIVRPLGYLFNYRSNLDNLEEQVDKLGDARERRQRDVDDANR 60

Query: 61  SGEDIEQRVENWLITADEILDAAARIIEGTEDTTNRLCPNLNTRYQVSKKAAREVKAAAE 120
            G++IE  V+ WL   + I+  A  +IE  E   +  C NL  RYQ S++A ++     +
Sbjct: 61  QGDEIEPDVQKWLTRTEGIIQTAKELIE-DEKAASTSCFNLKLRYQRSRQAKKQSGDIGK 119

Query: 121 LLQQEGRFDKVSYRTVPEDVWLTSIKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAG 180
           + Q+E +F++VSY   P+ +W   ++   A ESR S LN+++ AL+N D+ MIG +GM G
Sbjct: 120 I-QEENKFNRVSYGLPPQGIWSPRLRDCGALESRASILNEIMEALRNDDIRMIGVWGMGG 178

Query: 181 VGKTMLVKEVARQAKADKLFDEVVYA-EVSQRPDVKKIQGQIADKLGLKFYEESESGRAR 239
           VGKT L  +VA++A+ DKLF++VV A  +S+ P+V KIQG+IA  LGLKF EE ESGRA 
Sbjct: 179 VGKTTLANQVAKKAEEDKLFEKVVMALNISRVPNVTKIQGEIASMLGLKFEEEEESGRAA 238

Query: 240 KLCERLKKEKKILVILDDIWTNLDLENVGIPFG--VRGCRVLMTARSQDVLSSKMDCQNN 297
           +L + L+K K +LVILDDIW  L LEN+GIP G   RGC+VL+T+R Q VLS KM  Q N
Sbjct: 239 RLSKSLQKNKTVLVILDDIWEELSLENIGIPHGDAHRGCKVLLTSRKQGVLSRKMATQKN 298

Query: 298 FLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARALRNKNT-F 356
           F +  L E EA  LFKK  GD +E   LKS+A+ +++ C GLP+AIVT+A+AL+ ++   
Sbjct: 299 FRVQHLCEEEAWSLFKKTAGDSVEQ--LKSIAIKVLRECDGLPVAIVTVAKALKGESDEA 356

Query: 357 EWKSALRELTRPSSGSFSGVAAEAYKTSELSYNHLEG 393
            W +AL EL   ++ +   V  + Y   ELSYNHL+G
Sbjct: 357 VWNNALLELENSAAINIEDVHEKVYSCLELSYNHLKG 393

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147865073|emb|CAN83232.1| hypothetical protein VITISV_021876 [Vitis vinifera]

 Score =  345 bits (885), Expect = 4e-92,   Method: Compositional matrix adjust.
 Identities = 180/399 (45%), Positives = 264/399 (66%), Gaps = 10/399 (2%)

Query: 1   MVEIAVAIAVKVAECLVHPIIHPFAYCYNYKSNLEKLKNEVQKLRGAKESVQQKIDDAKR 60
           MVEI +++A KV+E LV P I    Y +NY++N+E L  +V+KLR A+  +Q  +D+A  
Sbjct: 1   MVEIVLSVAAKVSEYLVDPAIRQLGYLFNYRANIEDLSQQVEKLRDARARLQHSVDEAIG 60

Query: 61  SGEDIEQRVENWLITADEILDAAARIIE----GTEDTTNRLCPNLNTRYQVSKKAAREVK 116
           +G  IE  V  W+  AD  +  A + +E      +   N LCPNL +RYQ+S++A ++  
Sbjct: 61  NGHIIEDDVRKWMKRADGFIQNACKFLEDEKEARKSCFNGLCPNLKSRYQLSREARKKAG 120

Query: 117 AAAELLQQEGRFDKVSYRTVPEDVWLTSIKGYEAFESRMSTLNDVINALKNPDVHMIGAY 176
            A E+    G+F++VSYR   +++        EA ESRM TLN+V+ AL++ +++ IG +
Sbjct: 121 VAVEI-HGAGQFERVSYRAPLQEI---RTAPSEALESRMLTLNEVMEALRDANINRIGVW 176

Query: 177 GMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESG 236
           GM GVGK+ LVK+VA QA+ +KLF +VV   V Q PD K IQ QIADKLG+KF E SE G
Sbjct: 177 GMGGVGKSTLVKQVAEQAEQEKLFRKVVMVPVIQTPDFKGIQQQIADKLGMKFEEVSEQG 236

Query: 237 RARKLCERLKKEKKILVILDDIWTNLDLENVGIPFG--VRGCRVLMTARSQDVLSSKMDC 294
           RA +L +R+K+E  IL+ILDD+W  L+LE VGIP     +GC++++T+R++ VLS++M  
Sbjct: 237 RADRLHQRIKQENTILIILDDLWAELELEKVGIPSPDDHKGCKLVLTSRNKQVLSNEMST 296

Query: 295 QNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARALRNKN 354
           Q +F +  L E E   LFK   GD IEN +L+ +A+++ K C GLPIAIVT+A+AL+NKN
Sbjct: 297 QKDFRVQHLQEDETWILFKNTAGDSIENPELQPIAVDVAKECAGLPIAIVTVAKALKNKN 356

Query: 355 TFEWKSALRELTRPSSGSFSGVAAEAYKTSELSYNHLEG 393
              WK AL++L   +S + +G+  + Y + +LSY HLEG
Sbjct: 357 VSIWKDALQQLNSQTSTNITGMETKVYSSLKLSYEHLEG 395

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359488103|ref|XP_002263579.2| PREDICTED: disease resistance protein At4g27190-like [Vitis vinifera]

 Score =  343 bits (881), Expect = 9e-92,   Method: Compositional matrix adjust.
 Identities = 177/399 (44%), Positives = 270/399 (67%), Gaps = 10/399 (2%)

Query: 1   MVEIAVAIAVKVAECLVHPIIHPFAYCYNYKSNLEKLKNEVQKLRGAKESVQQKIDDAKR 60
           MVEI +++A KV+E LV P +    Y +NY++N+E+L  +VQKLR A+  +Q  +D+A  
Sbjct: 1   MVEIVLSVAAKVSEYLVDPAVRQLGYLFNYRANIEELSQQVQKLRDARARLQHSVDEAIG 60

Query: 61  SGEDIEQRVENWLITADEILDAAARIIE----GTEDTTNRLCPNLNTRYQVSKKAAREVK 116
           +G  IE  V  W+  AD  +  A + +E      +   N LCPNL +RYQ+S++A+++  
Sbjct: 61  NGLIIEDDVCKWMKRADGFIQNACKFLEDEKEARKSCFNGLCPNLKSRYQLSREASKKAG 120

Query: 117 AAAELLQQEGRFDKVSYRTVPEDVWLTSIKGYEAFESRMSTLNDVINALKNPDVHMIGAY 176
            + ++L  +G+F+KV+YR   + +     +  EA ESRM TLN+V+ AL++ +++ IG +
Sbjct: 121 VSVQILG-DGQFEKVAYRAPLQGI---RCRPSEALESRMLTLNEVMEALRDANINRIGVW 176

Query: 177 GMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESG 236
           GM GVGK+ LVK+VA QA  +KLF++VV   V Q PD+++IQ ++AD LG+KF EESE G
Sbjct: 177 GMGGVGKSTLVKQVAEQANQEKLFEKVVNVSVLQTPDLERIQRELADWLGMKFEEESEQG 236

Query: 237 RARKLCERLKKEKKILVILDDIWTNLDLENVGIPFG--VRGCRVLMTARSQDVLSSKMDC 294
           RA +L +R+K EK IL+ILDD+W  L+LE VGIP     +GC++++T+R++ VLS++M  
Sbjct: 237 RAARLHQRMKAEKTILIILDDLWAELELEKVGIPSPDDHKGCKLVLTSRNKQVLSNEMST 296

Query: 295 QNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARALRNKN 354
           Q +F +  L E E   LFK   GD IEN +L+ +A+++ K C GLPIAIVT+A+AL+NKN
Sbjct: 297 QKDFRVRHLQEDETWILFKNTAGDSIENPELQPIAVDVAKECAGLPIAIVTVAKALKNKN 356

Query: 355 TFEWKSALRELTRPSSGSFSGVAAEAYKTSELSYNHLEG 393
              WK AL++L   +S + +G+  + Y + +LSY HLEG
Sbjct: 357 VSIWKDALQQLKSQTSTNITGMETKVYSSLKLSYEHLEG 395

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147866716|emb|CAN80506.1| hypothetical protein VITISV_025268 [Vitis vinifera]

 Score =  342 bits (878), Expect = 2e-91,   Method: Compositional matrix adjust.
 Identities = 179/399 (44%), Positives = 266/399 (66%), Gaps = 10/399 (2%)

Query: 1   MVEIAVAIAVKVAECLVHPIIHPFAYCYNYKSNLEKLKNEVQKLRGAKESVQQKIDDAKR 60
           MVEI V++A KV+E LV P +    Y +NY++N+E L  +V+KLR A+  +Q  +D+A  
Sbjct: 1   MVEIVVSVAAKVSEYLVDPAVRQLGYLFNYRANIEHLSLQVEKLRDARARLQHSVDEAIG 60

Query: 61  SGEDIEQRVENWLITADEILDAAARIIE----GTEDTTNRLCPNLNTRYQVSKKAAREVK 116
           +G  I+  V  W+  ADE +  A + +E      +   N LCPNL +RYQ+S++A ++  
Sbjct: 61  NGHIIKDDVCKWMKRADEFIQNACKFLEDEKEARKSCFNGLCPNLKSRYQLSREARKKAG 120

Query: 117 AAAELLQQEGRFDKVSYRTVPEDVWLTSIKGYEAFESRMSTLNDVINALKNPDVHMIGAY 176
            A ++L  + +F+KVSYR   +++        EA +SRM TLN+V+ AL++ D++ IG +
Sbjct: 121 VAVQILG-DRQFEKVSYRAPLQEIRSAP---SEALQSRMLTLNEVMEALRDADINRIGVW 176

Query: 177 GMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESG 236
           G+ GVGK+ LVK+VA  A+ +KLF +VV   V Q PD K IQ QIADKLG+KF E SE G
Sbjct: 177 GLGGVGKSTLVKQVAELAEQEKLFRKVVMVPVFQTPDFKGIQQQIADKLGMKFEEVSEQG 236

Query: 237 RARKLCERLKKEKKILVILDDIWTNLDLENVGIPFG--VRGCRVLMTARSQDVLSSKMDC 294
           RA +L +R+K+E  IL+ILDD+W  L+LE VGIP     +GC++++T+R++ VLS++M  
Sbjct: 237 RADRLHQRIKQENTILIILDDLWAELELEKVGIPSPDDHKGCKLVLTSRNKQVLSNEMST 296

Query: 295 QNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARALRNKN 354
           Q +F +  L E E   LFK   GD I+N +L+ +A+++ K C GLPIAIVT+A AL+NK+
Sbjct: 297 QKDFRVQHLQEDETWILFKNTAGDSIKNPELQPIAVDVAKECAGLPIAIVTVATALKNKS 356

Query: 355 TFEWKSALRELTRPSSGSFSGVAAEAYKTSELSYNHLEG 393
              WK AL++L RP+S +  G+ A+ Y + +LSY HLEG
Sbjct: 357 LSIWKDALQQLKRPTSTNIRGMEAKVYSSLKLSYEHLEG 395

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147833354|emb|CAN66237.1| hypothetical protein VITISV_041837 [Vitis vinifera]

 Score =  341 bits (874), Expect = 6e-91,   Method: Compositional matrix adjust.
 Identities = 175/399 (43%), Positives = 267/399 (66%), Gaps = 10/399 (2%)

Query: 1   MVEIAVAIAVKVAECLVHPIIHPFAYCYNYKSNLEKLKNEVQKLRGAKESVQQKIDDAKR 60
           MV+I  ++A KV+E LV P++    Y +NY++N+E L  EV+KLR A++  Q  +++A  
Sbjct: 1   MVDIVFSVAAKVSEYLVVPVVRQLGYLFNYRTNIEDLSQEVEKLRDARDRHQHSVNEAIG 60

Query: 61  SGEDIEQRVENWLITADEILDAAARIIE----GTEDTTNRLCPNLNTRYQVSKKAAREVK 116
           +G  IE  V  WL  AD  +  A + +E      +   N LCPNL +R+Q+S++A ++  
Sbjct: 61  NGHKIEDYVCKWLTRADGFIQDACKFLEDEKEAQKSCFNGLCPNLKSRHQLSREARKKAG 120

Query: 117 AAAELLQQEGRFDKVSYRTVPEDVWLTSIKGYEAFESRMSTLNDVINALKNPDVHMIGAY 176
            + ++L+  G+F+KVSYRT  + +        EA ESRM TLN+V+ AL++ +++ IG +
Sbjct: 121 VSVQILEN-GQFEKVSYRTPLQGI---RTAPSEALESRMLTLNEVMEALRDANINRIGLW 176

Query: 177 GMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESG 236
           GM GVGK+ LVK +A QA  +KLFD+VV   V Q PD+++IQ ++AD LG+KF EESE G
Sbjct: 177 GMGGVGKSTLVKHLAEQANQEKLFDKVVKVSVLQTPDLERIQRELADGLGMKFEEESEQG 236

Query: 237 RARKLCERLKKEKKILVILDDIWTNLDLENVGIPFG--VRGCRVLMTARSQDVLSSKMDC 294
           RA +L +R++ EK IL+ILDD+W  L+LE VGIP     +GC++++T+R++ VLS++M  
Sbjct: 237 RAARLLQRMEAEKTILIILDDLWAELELEKVGIPSPDDHKGCKLVLTSRNKQVLSNEMST 296

Query: 295 QNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARALRNKN 354
           Q +F +  L E E   LFK   GD IEN +L+ +A+++ K C GLP+AIVT+A+AL+NKN
Sbjct: 297 QKDFRVRHLQEDETWILFKNTAGDSIENPELQPIAVDVAKECAGLPLAIVTVAKALKNKN 356

Query: 355 TFEWKSALRELTRPSSGSFSGVAAEAYKTSELSYNHLEG 393
              WK AL++L   +S + +G+  + Y + +LSY HLEG
Sbjct: 357 VSIWKDALQQLKSQTSTNITGIETKVYSSLKLSYEHLEG 395

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	512
TAIR|locus:2201996	889	RPS5 "AT1G12220" [Arabidopsis	0.714	0.411	0.295	5.3e-33
TAIR|locus:2131689	919	AT4G27220 [Arabidopsis thalian	0.537	0.299	0.303	6.8e-32
TAIR|locus:2201986	885	RFL1 "AT1G12210" [Arabidopsis	0.708	0.410	0.289	2.8e-31
TAIR|locus:2008510	967	AT1G61190 "AT1G61190" [Arabido	0.705	0.373	0.291	6.9e-31
TAIR|locus:2166320	888	AT5G63020 [Arabidopsis thalian	0.703	0.405	0.267	3.3e-30
TAIR|locus:2136447	985	AT4G27190 [Arabidopsis thalian	0.705	0.366	0.266	1.8e-29
TAIR|locus:2008440	899	AT1G61180 [Arabidopsis thalian	0.703	0.400	0.282	1.1e-28
TAIR|locus:2153474	874	AT5G05400 [Arabidopsis thalian	0.679	0.398	0.265	1.7e-28
TAIR|locus:2171589	948	AT5G47260 [Arabidopsis thalian	0.666	0.359	0.272	4.1e-28
TAIR|locus:2034765	884	AT1G12290 [Arabidopsis thalian	0.712	0.412	0.270	9.6e-28

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

 Score = 370 (135.3 bits), Expect = 5.3e-33, P = 5.3e-33
 Identities = 114/386 (29%), Positives = 179/386 (46%)

Query:    25 AYCYNYKSNLEKLKNEVQKLRGAKESVQQKIDDAKRSGEDIE-QRVENWLITADEILDAA 83
             +Y +N   NL  L+  ++ L+  +  V ++++  + +G      +V+ WL +   I +  
Sbjct:    27 SYIHNLSKNLASLQKAMRMLKARQYDVIRRLETEEFTGRQQRLSQVQVWLTSVLIIQNQF 86

Query:    84 ARIIEGTEDTTNRLC------PNLNTRYQVSXXXXXXXXXXXXLLQQEGRFDKVSYRTVP 137
               ++   E    RLC       +L   Y+              L  Q G FD VS  T  
Sbjct:    87 NDLLRSNEVELQRLCLCGFCSKDLKLSYRYGKRVIMMLKEVESLSSQ-GFFDVVSEATPF 145

Query:   138 EDVWLTSIKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQ-AKA 196
              DV    I        +   L    N L      ++G YGM GVGKT L+ ++  + +K 
Sbjct:   146 ADV--DEIPFQPTIVGQEIMLEKAWNRLMEDGSGILGLYGMGGVGKTTLLTKINNKFSKI 203

Query:   197 DKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESG--RAXXXXXXXXXXXXILVI 254
             D  FD V++  VS+   V+KIQ  IA+K+GL   E SE    +              +++
Sbjct:   204 DDRFDVVIWVVVSRSSTVRKIQRDIAEKVGLGGMEWSEKNDNQIAVDIHNVLRRRKFVLL 263

Query:   255 LDDIWTNLDLENVGIPFGVR--GCRVLMTARSQDVLSSKMDCQNNFLIGVLNESEARDLF 312
             LDDIW  ++L+ VG+P+  +  GC+V  T RS+DV   +M   +   +  L   E+ DLF
Sbjct:   264 LDDIWEKVNLKAVGVPYPSKDNGCKVAFTTRSRDVCG-RMGVDDPMEVSCLQPEESWDLF 322

Query:   313 KKLVGDKI--ENNDLKSLAMNIVKACRGLPIAIVTIARALRNKNTF-EWKSALRELTRPS 369
             +  VG      + D+  LA  + + CRGLP+A+  I  A+  K T  EW  A+  LT  S
Sbjct:   323 QMKVGKNTLGSHPDIPGLARKVARKCRGLPLALNVIGEAMACKRTVHEWCHAIDVLTS-S 381

Query:   370 SGSFSGVAAEAYKTSELSYNHLEGAL 395
             +  FSG+  E     + SY++L G L
Sbjct:   382 AIDFSGMEDEILHVLKYSYDNLNGEL 407

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:2131689 AT4G27220 [Arabidopsis thaliana (taxid:3702)]

 Score = 322 (118.4 bits), Expect = 6.8e-32, Sum P(2) = 6.8e-32
 Identities = 88/290 (30%), Positives = 150/290 (51%)

Query:   122 LQQEGR--FDKVSYRTVPEDVWLTSIKG--YEAFESRMSTLNDVINALKNPDVHMIGAYG 177
             L+++G+    K+S      ++ +  + G  +   ++ +  L+ + + LK  +V  IG +G
Sbjct:    83 LEEQGQDLIKKISVNKSSREI-VERVLGPSFHPQKTALEMLDKLKDCLKKKNVQKIGVWG 141

Query:   178 MAGVGKTMLVKEVARQA---KADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESE 234
             M GVGKT LV+ +        A + F  V++  VS+  D+K++Q  IA +LG +F  E  
Sbjct:   142 MGGVGKTTLVRTLNNDLLKYAATQQFALVIWVTVSKDFDLKRVQMDIAKRLGKRFTREQM 201

Query:   235 SGRAXXXXXXXXXXXXILVILDDIWTNLDLENVGIPFGV---RGCRVLMTARSQDVLSSK 291
             +                L+ILDD+W  +DL+ +GIP  +   +  +V++T+R  +V    
Sbjct:   202 NQLGLTICERLIDLKNFLLILDDVWHPIDLDQLGIPLALERSKDSKVVLTSRRLEVCQQM 261

Query:   292 MDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARALR 351
             M    N  +  L E EA +LF   VG+   ++++K +A ++   C GLP+AI+TI R LR
Sbjct:   262 MT-NENIKVACLQEKEAWELFCHNVGEVANSDNVKPIAKDVSHECCGLPLAIITIGRTLR 320

Query:   352 NKNTFE-WKSALRELTRPSSGSFSGVAAEAYKTSELSYNHLEGALKTARL 400
              K   E WK  L  L R S+ S      + + T +LSY+ L+  +K+  L
Sbjct:   321 GKPQVEVWKHTLNLLKR-SAPSID-TEEKIFGTLKLSYDFLQDNMKSCFL 368

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 354 (129.7 bits), Expect = 2.8e-31, P = 2.8e-31
 Identities = 111/384 (28%), Positives = 172/384 (44%)

Query:    25 AYCYNYKSNLEKLKNEVQKLRGAKESVQQKIDDAKRSGEDIE-QRVENWLITADEILDAA 83
             +Y  N   NL  L+  +  L   ++ VQ +I+  + +G      +V+ WL     I +  
Sbjct:    27 SYIQNLSENLASLQKAMGVLNAKRDDVQGRINREEFTGHRRRLAQVQVWLTRIQTIENQF 86

Query:    84 ARIIEGTEDTTNRLC------PNLNTRYQVSXXXXXXXXXXXXLLQQEGRFDKVSYRTVP 137
               ++        RLC       N+   Y               L  Q G FD V+     
Sbjct:    87 NDLLSTCNAEIQRLCLCGFCSKNVKMSYLYGKRVIVLLREVEGLSSQ-GVFDIVTEAAPI 145

Query:   138 EDVWLTSIKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQ-AKA 196
              +V    I+       + S L+ V N L    V ++G YGM GVGKT L+ ++  + +K 
Sbjct:   146 AEVEELPIQS--TIVGQDSMLDKVWNCLMEDKVWIVGLYGMGGVGKTTLLTQINNKFSKL 203

Query:   197 DKLFDEVVYAEVSQRPDVKKIQGQIADKLGL--KFYEESESGRAXXXXXXXXXXXXILVI 254
                FD V++  VS+   V KIQ  I +KLGL  K ++E    +              +++
Sbjct:   204 GGGFDVVIWVVVSKNATVHKIQKSIGEKLGLVGKNWDEKNKNQRALDIHNVLRRKKFVLL 263

Query:   255 LDDIWTNLDLENVGIPF--GVRGCRVLMTARSQDVLSSKMDCQNNFLIGVLNESEARDLF 312
             LDDIW  ++L+ +G+P+  G  GC+V  T  S++V   +M   N   I  L+   A DL 
Sbjct:   264 LDDIWEKVELKVIGVPYPSGENGCKVAFTTHSKEVCG-RMGVDNPMEISCLDTGNAWDLL 322

Query:   313 KKLVGDKI--ENNDLKSLAMNIVKACRGLPIAIVTIARALRNKNTF-EWKSALRELTRPS 369
             KK VG+     + D+  LA  + + C GLP+A+  I   +  K T  EW+ A   LT  S
Sbjct:   323 KKKVGENTLGSHPDIPQLARKVSEKCCGLPLALNVIGETMSFKRTIQEWRHATEVLT--S 380

Query:   370 SGSFSGVAAEAYKTSELSYNHLEG 393
             +  FSG+  E     + SY+ L G
Sbjct:   381 ATDFSGMEDEILPILKYSYDSLNG 404

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 = 351 (128.6 bits), Expect = 6.9e-31, P = 6.9e-31
 Identities = 111/381 (29%), Positives = 174/381 (45%)

Query:    26 YCYNYKSNLEKLKNEVQKLRGAKESVQQKIDDAKRSGEDIEQRVENWLITADEILDAAAR 85
             Y  N + NL  L+ E++ LR  +  VQ K+   +   +   + V+ WL   + I      
Sbjct:    27 YIRNLEKNLRALQREMEDLRATQHEVQNKVAREESRHQQRLEAVQVWLDRVNSIDIECKD 86

Query:    86 IIEGTEDTTNRLCP-NLNTRYQVSXXXXXXXXXXX----XLLQQEGRFDKVSYRTVPEDV 140
             ++  +     +LC   L ++Y  S                 L+ EG FD+VS      +V
Sbjct:    87 LLSVSPVELQKLCLCGLCSKYVCSSYKYGKRVFLLLEEVTKLKSEGNFDEVSQPPPRSEV 146

Query:   141 WLTSIKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQ-AKADKL 199
                  +  +    +   L    N L    V ++G +GM GVGKT L K++  + A+    
Sbjct:   147 ---EERPTQPTIGQEEMLKKAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNKFAETGGT 203

Query:   200 FDEVVYAEVSQRPDVKKIQGQIADKLGL---KFYEESESGRAXXXXXXXXXXXXILVILD 256
             FD V++  VSQ   + K+Q  IA+KL L    +  ++ES +A            +L+ LD
Sbjct:   204 FDIVIWIVVSQGAKLSKLQEDIAEKLHLCDDLWKNKNESDKATDIHRVLKGKRFVLM-LD 262

Query:   257 DIWTNLDLENVGIPFG--VRGCRVLMTARSQDVLSSKMDCQNNFLIGVLNESEARDLFKK 314
             DIW  +DLE +GIP+   V  C+V  T R Q V     D      +  L   +A +LFK 
Sbjct:   263 DIWEKVDLEAIGIPYPSEVNKCKVAFTTRDQKVCGQMGD-HKPMQVKCLEPEDAWELFKN 321

Query:   315 LVGDKIENND--LKSLAMNIVKACRGLPIAIVTIARALRNKNTF-EWKSALRELTRPSSG 371
              VGD    +D  +  LA  + + CRGLP+A+  I   + +K    EW+ A+  LTR S+ 
Sbjct:   322 KVGDNTLRSDPVIVGLAREVAQKCRGLPLALSCIGETMASKTMVQEWEHAIDVLTR-SAA 380

Query:   372 SFSGVAAEAYKTSELSYNHLE 392
              FS +  +     + SY+ LE
Sbjct:   381 EFSDMQNKILPILKYSYDSLE 401

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 344 (126.2 bits), Expect = 3.3e-30, P = 3.3e-30
 Identities = 102/382 (26%), Positives = 183/382 (47%)

Query:    26 YCYNYKSNLEKLKNEVQKLRGAKESVQQKIDDAKRSGEDIEQRVENWLITADEILDAAAR 85
             Y +  + NL  L+  ++++   +E + +KI   +R G      V+ W+   + I+     
Sbjct:    28 YIHGLEENLTALQRALEQIEQRREDLLRKILSEERRGLQRLSVVQGWVSKVEAIVPRVNE 87

Query:    86 IIEGTEDTTNRLC------PNLNTRYQVSXXXXXXXXXXXXLLQQEGRFDKVSYRTVPED 139
             ++        RLC       NL + Y+              +L+ +G F  V+ R     
Sbjct:    88 LVRMRSVQVQRLCLCGFCSKNLVSSYRYGKRVMKMIEEVE-VLRYQGDFAVVAERVDAAR 146

Query:   140 VWLTSIKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVA-RQAKADK 198
             V     +   A +     L    N L   ++ ++G +GM GVGKT L+  +  R ++   
Sbjct:   147 VEERPTRPMVAMDPM---LESAWNRLMEDEIGILGLHGMGGVGKTTLLSHINNRFSRVGG 203

Query:   199 LFDEVVYAEVSQRPDVKKIQGQIADKL---GLKFYEESESGRAXXXXXXXXXXXXILVIL 255
              FD V++  VS+   +++IQ +I +KL     K+ +++E  +A            +L +L
Sbjct:   204 EFDIVIWIVVSKELQIQRIQDEIWEKLRSDNEKWKQKTEDIKASNIYNVLKHKRFVL-LL 262

Query:   256 DDIWTNLDLENVGIPFGVR--GCRVLMTARSQDVLSSKMDCQNNFLIGVLNESEARDLFK 313
             DDIW+ +DL  VG+PF  R  GC+++ T R +++   +M   ++  +  L   +A DLF 
Sbjct:   263 DDIWSKVDLTEVGVPFPSRENGCKIVFTTRLKEICG-RMGVDSDMEVRCLAPDDAWDLFT 321

Query:   314 KLVGDKI--ENNDLKSLAMNIVKACRGLPIAIVTIARALRNKNTF-EWKSALRELTRPSS 370
             K VG+     + ++ ++A  + K CRGLP+A+  I   +  K T  EW+SA+  LT  S+
Sbjct:   322 KKVGEITLGSHPEIPTVARTVAKKCRGLPLALNVIGETMAYKRTVQEWRSAIDVLTS-SA 380

Query:   371 GSFSGVAAEAYKTSELSYNHLE 392
               FSG+  E     + SY++L+
Sbjct:   381 AEFSGMEDEILPILKYSYDNLK 402

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2136447 AT4G27190 [Arabidopsis thaliana (taxid:3702)]

 Score = 338 (124.0 bits), Expect = 1.8e-29, P = 1.8e-29
 Identities = 102/383 (26%), Positives = 188/383 (49%)

Query:    25 AYCYNYKSNLEKLKNEVQKLRGAKESVQQKIDDAKRSGEDIEQRVENWLITADEILDAAA 84
             A    +KSN++ L   +++L   K ++ +  +      + +  ++  W   A+E++  A 
Sbjct:    24 ANAIKFKSNVKALNESLERLTELKGNMSEDHETLLTKDKPLRLKLMRWQREAEEVISKAR 83

Query:    85 RIIEGTEDTTNRLCPNLNTRYQVSXXXXXXXXXXXXLLQQEG-RF-DKVSYRTVPEDVWL 142
               +E       R+   ++ R ++S            +L+++G  F D +S  + PE V  
Sbjct:    84 LKLE------ERVSCGMSLRPRMSRKLVKILDEVK-MLEKDGIEFVDMLSVESTPERV-- 134

Query:   143 TSIKGYEAFESRMST--LNDVINALKNPDVHMIGAYGMAGVGKTMLVKEV---ARQAKAD 197
               + G       M++  L  + + L +     IG +GM GVGKT LV+ +    R+  A 
Sbjct:   135 EHVPGVSVVHQTMASNMLAKIRDGLTSEKAQKIGVWGMGGVGKTTLVRTLNNKLREEGAT 194

Query:   198 KLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFY-EESESGRAXXXXXXXXXXXXILVILD 256
             + F  V++  VS+  D +++Q QIA++L +    EESE   A             L+ILD
Sbjct:   195 QPFGLVIFVIVSKEFDPREVQKQIAERLDIDTQMEESEEKLARRIYVGLMKERKFLLILD 254

Query:   257 DIWTNLDLENVGIPFGV--RGCRVLMTARSQDVLSSKMDCQNNFLIGVLNESEARDLFKK 314
             D+W  +DL+ +GIP     +G +V++T+R  +V  S M    +  +  L E +A +LF K
Sbjct:   255 DVWKPIDLDLLGIPRTEENKGSKVILTSRFLEVCRS-MKTDLDVRVDCLLEEDAWELFCK 313

Query:   315 LVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARALRNKNTFE-WKSALRELTRPSSGSF 373
               GD + ++ ++ +A  + + C GLP+AI+T+  A+R K   + W   L +L++ S    
Sbjct:   314 NAGDVVRSDHVRKIAKAVSQECGGLPLAIITVGTAMRGKKNVKLWNHVLSKLSK-SVPWI 372

Query:   374 SGVAAEAYKTSELSYNHLEGALK 396
               +  + ++  +LSY+ LE   K
Sbjct:   373 KSIEEKIFQPLKLSYDFLEDKAK 395

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

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 = 330 (121.2 bits), Expect = 1.1e-28, P = 1.1e-28
 Identities = 108/382 (28%), Positives = 174/382 (45%)

Query:    25 AYCYNYKSNLEKLKNEVQKLRGAKESVQQKID-DAKRSGEDIEQRVENWLITADEILDAA 83
             +Y    + NL  L+ E++ LR  +  VQ K+  D  R    +E  V+ WL   + +    
Sbjct:    25 SYIRTLEKNLRALQREMEDLRAIQHEVQNKVARDEARHQRRLEA-VQVWLDRVNSVDIEC 83

Query:    84 ARIIEGTEDTTNRLCP-NLNTRYQVSXXXXXXXXXXXX----LLQQEGRFDKVSYRTVPE 138
               ++  T     +LC   L ++Y  S                 L  EG FD+VS      
Sbjct:    84 KDLLSVTPVELQKLCLCGLCSKYVCSSYKYGKKVFLLLEEVKKLNSEGNFDEVSQPPPRS 143

Query:   139 DVWLTSIKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQ-AKAD 197
             +V     +  +    +   L    N L    V ++G +GM GVGKT L K++  + A+  
Sbjct:   144 EV---EERPTQPTIGQEDMLEKAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNKFAEIG 200

Query:   198 KLFDEVVYAEVSQRPDVKKIQGQIADKLGL---KFYEESESGRAXXXXXXXXXXXXILVI 254
               FD V++  VS+   + K+Q  IA+KL L    +  ++ES +A            +L+ 
Sbjct:   201 GTFDIVIWIVVSKGVMISKLQEDIAEKLHLCDDLWKNKNESDKATDIHRVLKGKRFVLM- 259

Query:   255 LDDIWTNLDLENVGIPFG--VRGCRVLMTARSQDVLSSKMDCQNNFLIGVLNESEARDLF 312
             LDDIW  +DLE +GIP+   V  C+V  T RS++V     D      +  L   +A +LF
Sbjct:   260 LDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRSREVCGEMGD-HKPMQVNCLEPEDAWELF 318

Query:   313 KKLVGDKIENND--LKSLAMNIVKACRGLPIAIVTIARALRNKNTF-EWKSALRELTRPS 369
             K  VGD   ++D  +  LA  + + CRGLP+A+  I   + +K    EW+ A+  +   S
Sbjct:   319 KNKVGDNTLSSDPVIVELAREVAQKCRGLPLALNVIGETMSSKTMVQEWEHAIH-VFNTS 377

Query:   370 SGSFSGVAAEAYKTSELSYNHL 391
             +  FS +  +     + SY+ L
Sbjct:   378 AAEFSDMQNKILPILKYSYDSL 399

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

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2153474 AT5G05400 [Arabidopsis thaliana (taxid:3702)]

 Score = 328 (120.5 bits), Expect = 1.7e-28, P = 1.7e-28
 Identities = 101/380 (26%), Positives = 176/380 (46%)

Query:    29 NYKSNLEKLKNEVQKLRGAKESVQQKIDDAKRSGEDIEQRVENWLITADEILDAAARIIE 88
             N   ++  LK  V++L   ++ + ++I   +  G ++   V+ WL   +  +  A  I+ 
Sbjct:    31 NLVDHVAALKKTVRQLEARRDDLLKRIKVQEDRGLNLLDEVQQWLSEVESRVCEAHDILS 90

Query:    89 GTEDTTNRLC------PNLNTRYQVSXXXXXXXXXXXXLLQQEGRFDKVSYR----TVPE 138
              +++  + LC            Y  S            LL + G FD+V+ +     V E
Sbjct:    91 QSDEEIDNLCCGQYCSKRCKYSYDYSKSVINKLQDVENLLSK-GVFDEVAQKGPIPKVEE 149

Query:   139 DVWLTSIKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKA-D 197
              ++   I G EA     ST N ++       V ++G YGM GVGKT L+ ++  + +   
Sbjct:   150 RLFHQEIVGQEAIVE--STWNSMMEV----GVGLLGIYGMGGVGKTTLLSQINNKFRTVS 203

Query:   198 KLFDEVVYAEVSQRPDVKKIQGQIADKLGL--KFYEESESGRAXXXXXXXXXXXXILVIL 255
               FD  ++  VS+ P VK+IQ  I  +L L  + +E+                   +++L
Sbjct:   204 NDFDIAIWVVVSKNPTVKRIQEDIGKRLDLYNEGWEQKTENEIASTIKRSLENKKYMLLL 263

Query:   256 DDIWTNLDLENVGIPFGVR-GCRVLMTARSQDVLSSKMDCQNNFLIGVLNESEARDLFKK 314
             DD+WT +DL N+GIP   R G ++  T+RS +V   KM       +  L   +A DLF +
Sbjct:   264 DDMWTKVDLANIGIPVPKRNGSKIAFTSRSNEVCG-KMGVDKEIEVTCLMWDDAWDLFTR 322

Query:   315 LVGDKIENND-LKSLAMNIVKACRGLPIAIVTIARAL-RNKNTFEWKSALRELTRPSSGS 372
              + + +E++  +  +A +I + C GLP+A+  I   + R K+  EW  A+        G 
Sbjct:   323 NMKETLESHPKIPEVAKSIARKCNGLPLALNVIGETMARKKSIEEWHDAV--------GV 374

Query:   373 FSGVAAEAYKTSELSYNHLE 392
             FSG+ A+     + SY+ L+
Sbjct:   375 FSGIEADILSILKFSYDDLK 394

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

GO:0006826 "iron ion transport" evidence=RCA

GO:0010106 "cellular response to iron ion starvation" evidence=RCA

GO:0010167 "response to nitrate" evidence=RCA

GO:0015706 "nitrate transport" evidence=RCA

TAIR|locus:2171589 AT5G47260 [Arabidopsis thaliana (taxid:3702)]

 Score = 325 (119.5 bits), Expect = 4.1e-28, P = 4.1e-28
 Identities = 98/359 (27%), Positives = 165/359 (45%)

Query:    26 YCYNYKSNLEKLKNEVQKLRGAKESVQQKIDDAKRSGEDIEQRVENWLITADEILDAAAR 85
             Y YN + NLE L   +Q L   +  + +++   +  G    Q V+ W+   +EI   A R
Sbjct:    22 YLYNLERNLEALHKVMQDLNAMRNDLLKRLSKEEEIGLQGLQEVKEWISMVEEIEPKANR 81

Query:    86 IIEGTEDTTNRL-----CPNLN-TRYQVSXXXXXXXXXXXXLLQQEGRFDKVSYRTVPED 139
             +++ +     RL     C  +  + Y+ S            L + +G F+ V +R +P  
Sbjct:    82 LLDESVSEIQRLSRYGYCSLIPASTYRYSEKVLTTMEGVETL-RSKGVFEAVVHRALPPL 140

Query:   140 VWLTSIKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKL 199
             V    +   +   S+   L+     L + +V  +G YG  GVGKT L+ ++  +   D  
Sbjct:   141 V--IKMPPIQLTVSQAKLLDTAWARLMDINVGTLGIYGRGGVGKTTLLTKLRNKLLVDA- 197

Query:   200 FDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRAXXXXXXXXXXXXILVILDDIW 259
             F  V++  V    +V+ IQ +I  +LGL++  E++  +A            +L +LD I 
Sbjct:   198 FGLVIFVVVGFE-EVESIQDEIGKRLGLQWRRETKERKAAEILAVLKEKRFVL-LLDGIQ 255

Query:   260 TNLDLENVGIPFGVR--GCRVLMTARSQDVLSSKMDCQNNFLIGVLNESEARDLFKKLVG 317
               LDLE +G+PF  R  GC+++ T +S +             I  L+  EA DLF++ VG
Sbjct:   256 RELDLEEIGVPFPSRDNGCKIVFTTQSLEACDESKWVDAKVEITCLSPEEAWDLFQETVG 315

Query:   318 DKI--ENNDLKSLAMNIVKACRGLPIAIVTIARALRNKNTF-EWKSALRELTRPSSGSF 373
             +     + D+  LA  +   CRGLP+A+  I  A+  K T  EW+  +  L   S+  F
Sbjct:   316 ENTLRSHQDIPKLARVVASTCRGLPLALNLIGEAMSGKRTVREWRYTIHVLAS-STAEF 373

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

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

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

GO:0043531 "ADP binding" evidence=IEA

GO:0045036 "protein targeting to chloroplast" evidence=RCA

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

 Score = 321 (118.1 bits), Expect = 9.6e-28, P = 9.6e-28
 Identities = 107/395 (27%), Positives = 182/395 (46%)

Query:    26 YCYNYKSNLEKLKNEVQKLRGAKESVQQKIDDAKRSGEDIEQRVENWLITADEILDAAAR 85
             Y  N K NL  L+  ++ L+  ++ + +K+  A+  G     +++ WL     I      
Sbjct:    28 YIQNIKENLTSLEEAMEDLKALRDDLLRKVQTAEEGGLQRLHQIKVWLKRVKTIESQFND 87

Query:    86 IIEGTEDTTNRLC------PNLNTRYQVSXXXXXXXXXXXXLLQQEGRFDKVSY---RTV 136
             +         RLC       NL   Y               L + +G F++V++   R V
Sbjct:    88 LDSSRTVELQRLCCCGVGSRNLRLSYDYGRRVFLMLNIVEDL-KSKGIFEEVAHPATRAV 146

Query:   137 PEDVWLT-SIKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVA-RQA 194
              E+  L  +I G E        L    + L +    ++G YGM GVGKT L+ ++  R  
Sbjct:   147 GEERPLQPTIVGQETI------LEKAWDHLMDDGTKIMGLYGMGGVGKTTLLTQINNRFC 200

Query:   195 KADKLFDEVVYAEVSQRPDVKKIQGQIADKLG---LKFYEESESGRAXXXXXXXXXXXXI 251
               D   + V++  VS    + KIQ +I +K+G   +++ ++SE+ +A            +
Sbjct:   201 DTDDGVEIVIWVVVSGDLQIHKIQKEIGEKIGFIGVEWNQKSENQKAVDILNFLSKKRFV 260

Query:   252 LVILDDIWTNLDLENVGIP--FGVRGCRVLMTARSQDVLSSKMDCQNNFLIGVLNESEAR 309
             L +LDDIW  ++L  +GIP      GC++  T R Q V +S M   +   +  L   +A 
Sbjct:   261 L-LLDDIWKRVELTEIGIPNPTSENGCKIAFTTRCQSVCAS-MGVHDPMEVRCLGADDAW 318

Query:   310 DLFKKLVGD-KIENN-DLKSLAMNIVKACRGLPIAIVTIARALR-NKNTFEWKSALRELT 366
             DLFKK VGD  + ++ D+  +A  + +AC GLP+A+  I   +   K T EW  A+ +++
Sbjct:   319 DLFKKKVGDITLSSHPDIPEIARKVAQACCGLPLALNVIGETMACKKTTQEWDRAV-DVS 377

Query:   367 RPSSGSFSGVAAEAYKTSELSYNHLEG-ALKTARL 400
                + +F  V        + SY++LE  ++KT  L
Sbjct:   378 TTYAANFGAVKERILPILKYSYDNLESESVKTCFL 412

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

---

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

Your Input: eugene3.00050016 cc-nbs-lrr resistance protein (1144 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

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	512
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	8e-39
pfam13401	124	pfam13401, AAA_22, AAA domain	1e-08
pfam04147	809	pfam04147, Nop14, Nop14-like family	2e-06
smart00382	148	smart00382, AAA, ATPases associated with a variety	7e-06
PTZ00415	2849	PTZ00415, PTZ00415, transmission-blocking target a	7e-06
pfam04147	809	pfam04147, Nop14, Nop14-like family	1e-05
pfam04147	809	pfam04147, Nop14, Nop14-like family	1e-05
COG5406	1001	COG5406, COG5406, Nucleosome binding factor SPN, S	4e-05
pfam11705	221	pfam11705, RNA_pol_3_Rpc31, DNA-directed RNA polym	5e-05
COG5271	4600	COG5271, MDN1, AAA ATPase containing von Willebran	1e-04
pfam09538	104	pfam09538, FYDLN_acid, Protein of unknown function	1e-04
COG5406	1001	COG5406, COG5406, Nucleosome binding factor SPN, S	2e-04
pfam07093	557	pfam07093, SGT1, SGT1 protein	2e-04
pfam10446	449	pfam10446, DUF2457, Protein of unknown function (D	3e-04
pfam10446	449	pfam10446, DUF2457, Protein of unknown function (D	4e-04
PRK02363	129	PRK02363, PRK02363, DNA-directed RNA polymerase su	4e-04
COG3343	175	COG3343, RpoE, DNA-directed RNA polymerase, delta	5e-04
pfam08553	794	pfam08553, VID27, VID27 cytoplasmic protein	5e-04
COG1474	366	COG1474, CDC6, Cdc6-related protein, AAA superfami	6e-04
TIGR01651	600	TIGR01651, CobT, cobaltochelatase, CobT subunit	8e-04
COG5271	4600	COG5271, MDN1, AAA ATPase containing von Willebran	0.001
pfam03986	146	pfam03986, Autophagy_N, Autophagocytosis associate	0.001
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	0.001
pfam04281	136	pfam04281, Tom22, Mitochondrial import receptor su	0.001
pfam00004	131	pfam00004, AAA, ATPase family associated with vari	0.001
PTZ00248	319	PTZ00248, PTZ00248, eukaryotic translation initiat	0.001
pfam04147	809	pfam04147, Nop14, Nop14-like family	0.002
pfam02724	583	pfam02724, CDC45, CDC45-like protein	0.002
pfam04931	784	pfam04931, DNA_pol_phi, DNA polymerase phi	0.002
pfam13191	154	pfam13191, AAA_16, AAA ATPase domain	0.002
pfam12253	76	pfam12253, CAF1A, Chromatin assembly factor 1 subu	0.002
pfam05764	238	pfam05764, YL1, YL1 nuclear protein	0.002
pfam03153	332	pfam03153, TFIIA, Transcription factor IIA, alpha/	0.004
pfam04889	241	pfam04889, Cwf_Cwc_15, Cwf15/Cwc15 cell cycle cont	0.004
pfam09073	424	pfam09073, BUD22, BUD22	0.004

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

 Score =  142 bits (360), Expect = 8e-39
 Identities = 79/254 (31%), Positives = 126/254 (49%), Gaps = 15/254 (5%)

Query: 154 RMSTLNDVINAL--KNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQR 211
           R   +  +I  L   + ++ ++G  GM GVGKT L K++         FD V +  VS+ 
Sbjct: 1   REDMIEALIEKLLEMSDNLGVVGIVGMGGVGKTTLAKQIYNDDSVGGHFDSVAWVVVSKT 60

Query: 212 PDVKKIQGQIADKLGLK---FYEESESGRARKLCERLKKEKKILVILDDIWTNLDLENVG 268
               ++Q  I  +LGL    + E++ES  A K+ E L   K+ L++LDD+W   D + +G
Sbjct: 61  YTEFRLQKDILQELGLDDSDWVEKNESELAVKIKEAL-LRKRFLLVLDDVWEKNDWDKIG 119

Query: 269 IPF--GVRGCRVLMTARSQDVLSSKMDCQNNFL-IGVLNESEARDLFKKLVGDK--IENN 323
           +PF  G  G RV++T RS+ V    M   +    +  L   E+ +LF   V +K      
Sbjct: 120 VPFPDGENGSRVIVTTRSESVAGR-MGGTSKPHEVESLEPEESWELFSNKVFEKELPPCP 178

Query: 324 DLKSLAMNIVKACRGLPIAIVTIARALRNKNTF-EWKSALRELTRPSSGSFSGVAAEAYK 382
           +L+ +A  IV+ C+GLP+A+  +   L  K+T  EW+  L +L         G+  E   
Sbjct: 179 ELEEVAKEIVEKCKGLPLALKVLGGLLAFKSTVQEWEHVLEQLNN-ELAGRDGL-NEVLS 236

Query: 383 TSELSYNHLEGALK 396
              LSY++L   LK
Sbjct: 237 ILSLSYDNLPMHLK 250

Length = 285

>gnl|CDD|222104 pfam13401, AAA_22, AAA domain

 Score = 52.7 bits (127), Expect = 1e-08
 Identities = 23/83 (27%), Positives = 38/83 (45%), Gaps = 4/83 (4%)

Query: 176 YGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESES 235
            G +G GKT L++ +ARQ         VVY E       K +  +I   LGL     + +
Sbjct: 10  TGESGSGKTTLLRRLARQLPNR----RVVYVEAPSLGTPKDLLRKILRALGLPLSGGTTA 65

Query: 236 GRARKLCERLKKEKKILVILDDI 258
                + + LK+  + L+I+D+ 
Sbjct: 66  ELLEAILDALKRRGRPLLIIDEA 88

Length = 124

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 50.4 bits (121), Expect = 2e-06
 Identities = 26/82 (31%), Positives = 48/82 (58%), Gaps = 7/82 (8%)

Query: 432 RRMTEVEYESE-----MSTSEEIEEEEEEENAERPMILLDTDEDEDEEYGEDDEDEEYSE 486
           RRM   E + E       +++++++E E ++ +   +    +++E+EE G DDEDEE  +
Sbjct: 280 RRMRGEEEDDEEEEDSKESADDLDDEFEPDDDDNFGLGQGEEDEEEEEDGVDDEDEE--D 337

Query: 487 YDEDEEYGEDDEDEEDDGEDDD 508
            D+D E  E+D D  D+ ED++
Sbjct: 338 DDDDLEEEEEDVDLSDEEEDEE 359

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

>gnl|CDD|214640 smart00382, AAA, ATPases associated with a variety of cellular activities

 Score = 45.8 bits (108), Expect = 7e-06
 Identities = 26/96 (27%), Positives = 39/96 (40%), Gaps = 3/96 (3%)

Query: 171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFY 230
            +I   G  G GKT L + +AR+         V+Y +     +    Q  +    G K  
Sbjct: 3   EVILIVGPPGSGKTTLARALARELGPPGGG--VIYIDGEDILEEVLDQLLLIIVGGKKAS 60

Query: 231 EESESGRARKLCERLKKEKKILVILDDIWTNLDLEN 266
              E  R R      +K K  ++ILD+I + LD E 
Sbjct: 61  GSGEL-RLRLALALARKLKPDVLILDEITSLLDAEQ 95

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. Length = 148

>gnl|CDD|185603 PTZ00415, PTZ00415, transmission-blocking target antigen s230; Provisional

 Score = 48.5 bits (115), Expect = 7e-06
 Identities = 23/55 (41%), Positives = 39/55 (70%)

Query: 453 EEEENAERPMILLDTDEDEDEEYGEDDEDEEYSEYDEDEEYGEDDEDEEDDGEDD 507
            EE+ + R   ++D D+++++E  +D+ED+E  E +E+E  G DDEDEED+G +D
Sbjct: 141 AEEDMSPRDNFVIDDDDEDEDEDDDDEEDDEEEEEEEEEIKGFDDEDEEDEGGED 195

Length = 2849

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 48.1 bits (115), Expect = 1e-05
 Identities = 30/88 (34%), Positives = 48/88 (54%), Gaps = 7/88 (7%)

Query: 427 EKMAKRRMTEVEYESEMSTSEEIEEEEEEENAERPMILLDTDEDEDEEYG-----EDDED 481
           E+  + +  E E    M   EE +EEEE+       +  + + D+D+ +G     ED+E+
Sbjct: 266 EEAERLKKLEAERLRRMRGEEEDDEEEEDSKESADDLDDEFEPDDDDNFGLGQGEEDEEE 325

Query: 482 EEYSEYDEDEEYGEDDEDEEDDGEDDDI 509
           EE    DEDEE  +DD+D E++ ED D+
Sbjct: 326 EEDGVDDEDEE--DDDDDLEEEEEDVDL 351

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 47.7 bits (114), Expect = 1e-05
 Identities = 27/73 (36%), Positives = 39/73 (53%), Gaps = 11/73 (15%)

Query: 436 EVEYESEMSTSEEIEEEEEEENAERPMILLDTDEDEDEEYGEDDEDEEYSEYDEDEEYGE 495
           E + +      +  E+EEEEE         D  +DEDEE  +DD+D E  E D D    E
Sbjct: 307 EPDDDDNFGLGQGEEDEEEEE---------DGVDDEDEE--DDDDDLEEEEEDVDLSDEE 355

Query: 496 DDEDEEDDGEDDD 508
           +DE++ED  ++DD
Sbjct: 356 EDEEDEDSDDEDD 368

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

>gnl|CDD|227693 COG5406, COG5406, Nucleosome binding factor SPN, SPT16 subunit [Transcription / DNA replication, recombination, and repair / Chromatin structure and dynamics]

 Score = 46.2 bits (109), Expect = 4e-05
 Identities = 19/68 (27%), Positives = 30/68 (44%)

Query: 441 SEMSTSEEIEEEEEEENAERPMILLDTDEDEDEEYGEDDEDEEYSEYDEDEEYGEDDEDE 500
           S+  + E  EE  E E +         +++E +E  ED  ++E      DEE GED ++ 
Sbjct: 927 SDDESDESEEEVSEYEASSDDESDETDEDEESDESSEDLSEDESENDSSDEEDGEDWDEL 986

Query: 501 EDDGEDDD 508
           E     D 
Sbjct: 987 ESKAAYDS 994

Length = 1001

>gnl|CDD|221175 pfam11705, RNA_pol_3_Rpc31, DNA-directed RNA polymerase III subunit Rpc31

 Score = 44.4 bits (105), Expect = 5e-05
 Identities = 25/93 (26%), Positives = 48/93 (51%)

Query: 416 GDLNTTLQHLNEKMAKRRMTEVEYESEMSTSEEIEEEEEEENAERPMILLDTDEDEDEEY 475
           G      + L     KR++     E E    +    E++ +  E   +  + ++DE+EE 
Sbjct: 121 GINKKAGKKLALSKFKRKVGLFTEEEEDIDEKLSMLEKKLKELEAEDVDEEDEKDEEEEE 180

Query: 476 GEDDEDEEYSEYDEDEEYGEDDEDEEDDGEDDD 508
            E++EDE++ + D+D++   + E+  D+GEDDD
Sbjct: 181 EEEEEDEDFDDDDDDDDDDYNAENYFDNGEDDD 213

RNA polymerase III contains seventeen subunits in yeasts and in human cells. Twelve of these are akin to RNA polymerase I or II and the other five are RNA pol III-specific, and form the functionally distinct groups (i) Rpc31-Rpc34-Rpc82, and (ii) Rpc37-Rpc53. Rpc31, Rpc34 and Rpc82 form a cluster of enzyme-specific subunits that contribute to transcription initiation in S.cerevisiae and H.sapiens. There is evidence that these subunits are anchored at or near the N-terminal Zn-fold of Rpc1, itself prolonged by a highly conserved but RNA polymerase III-specific domain. Length = 221

>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

 Score = 45.0 bits (106), Expect = 1e-04
 Identities = 28/103 (27%), Positives = 48/103 (46%), Gaps = 12/103 (11%)

Query: 405  NWELDEEYCWAGDLNTTLQH-LNEKMAKRRMTEVEYESEMSTSEEIEEEEEEENAERPMI 463
            N +LDEE     D+   L + LNEK+      E   E+E  ++E+     E +       
Sbjct: 3885 NQDLDEE---VNDIPEDLSNSLNEKLWDEPNEEDLLETEQKSNEQSAANNESD------- 3934

Query: 464  LLDTDEDEDEEYGEDDEDEEYSEYDEDEEYGEDDEDEEDDGED 506
             L + ED+++   + D  E+  E +  ++ G DDE + D  E+
Sbjct: 3935 -LVSKEDDNKALEDKDRQEKEDEEEMSDDVGIDDEIQPDIQEN 3976

Length = 4600

>gnl|CDD|220284 pfam09538, FYDLN_acid, Protein of unknown function (FYDLN_acid)

 Score = 40.8 bits (96), Expect = 1e-04
 Identities = 18/55 (32%), Positives = 38/55 (69%)

Query: 446 SEEIEEEEEEENAERPMILLDTDEDEDEEYGEDDEDEEYSEYDEDEEYGEDDEDE 500
           +E+  +++E+E  E  ++L D D+D+D++   D +D++    D+D+++ EDD+DE
Sbjct: 50  AEDAAKKDEDEEDEDDVVLDDDDDDDDDDDLPDLDDDDVDLDDDDDDFLEDDDDE 104

Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown. Length = 104

>gnl|CDD|227693 COG5406, COG5406, Nucleosome binding factor SPN, SPT16 subunit [Transcription / DNA replication, recombination, and repair / Chromatin structure and dynamics]

 Score = 43.5 bits (102), Expect = 2e-04
 Identities = 26/73 (35%), Positives = 38/73 (52%), Gaps = 7/73 (9%)

Query: 443 MSTSEEIEEEEEEENAERPMILLDTDEDEDEEYGEDDEDEEYSE---YDEDEEYGEDDED 499
           M  S++  +E EEE +E       + +DE +E  ED+E +E SE    DE E    D+ED
Sbjct: 924 MVGSDDESDESEEEVSEY----EASSDDESDETDEDEESDESSEDLSEDESENDSSDEED 979

Query: 500 EEDDGEDDDIQSY 512
            ED  E +   +Y
Sbjct: 980 GEDWDELESKAAY 992

Length = 1001

>gnl|CDD|219293 pfam07093, SGT1, SGT1 protein

 Score = 43.9 bits (104), Expect = 2e-04
 Identities = 21/108 (19%), Positives = 45/108 (41%), Gaps = 24/108 (22%)

Query: 422 LQHLNEKMAKRRMTEVEYESEMSTSEEIEEEEEEENAERPM-------ILLDTDE----- 469
           L+ +   M        E+ +++S+ E  E  ++E+  +          +  D DE     
Sbjct: 414 LEEVVSSME-------EFLNKVSSFEGAEFADDEDEDDDEPDDSEDKDVSFDEDEFFEFL 466

Query: 470 -----DEDEEYGEDDEDEEYSEYDEDEEYGEDDEDEEDDGEDDDIQSY 512
                 +D+E   D  D+     ++D+E  ++DED   D   ++++ Y
Sbjct: 467 KNMLGLKDDEIDNDLPDDSDDADEDDDEDDDEDEDSSSDSTLEELEEY 514

This family consists of several eukaryotic SGT1 proteins. Human SGT1 or hSGT1 is known to suppress GCR2 and is highly expressed in the muscle and heart. The function of this family is unknown although it has been speculated that SGT1 may be functionally analogous to the Gcr2p protein of Saccharomyces cerevisiae which is known to be a regulatory factor of glycolytic gene expression. Length = 557

>gnl|CDD|220759 pfam10446, DUF2457, Protein of unknown function (DUF2457)

 Score = 42.7 bits (100), Expect = 3e-04
 Identities = 21/58 (36%), Positives = 35/58 (60%), Gaps = 7/58 (12%)

Query: 452 EEEEENAERPMILLDTDEDEDEEYGEDDEDEEYSEYDEDEEYGEDDEDEEDDGEDDDI 509
           +E EE A         +ED+DEE  +DD+DE+  + D+D++  ++DED++D    DD 
Sbjct: 43  KEAEEEAM-------EEEDDDEEDDDDDDDEDEDDDDDDDDEDDEDEDDDDSTLHDDS 93

This is a family of uncharacterized proteins. Length = 449

>gnl|CDD|220759 pfam10446, DUF2457, Protein of unknown function (DUF2457)

 Score = 42.7 bits (100), Expect = 4e-04
 Identities = 25/95 (26%), Positives = 48/95 (50%), Gaps = 3/95 (3%)

Query: 420 TTLQHLNEKMAKRRMTEVEYESEMSTSEEIEEEEEEENAERPMILLDTDEDEDEEYGEDD 479
           T    + ++ A R++ + E E E    E+ +EE+++++ +      D D+DED+E  +DD
Sbjct: 27  TLNDTMKKENAIRKLGK-EAEEEAMEEEDDDEEDDDDDDDEDEDDDDDDDDEDDEDEDDD 85

Query: 480 EDEEYSEYDEDEEYGEDDED--EEDDGEDDDIQSY 512
           +   + +   D+    D+E    + D E DD   Y
Sbjct: 86  DSTLHDDSSADDGNETDNEAGFADSDDESDDGSEY 120

This is a family of uncharacterized proteins. Length = 449

>gnl|CDD|235033 PRK02363, PRK02363, DNA-directed RNA polymerase subunit delta; Reviewed

 Score = 40.0 bits (94), Expect = 4e-04
 Identities = 20/58 (34%), Positives = 30/58 (51%), Gaps = 3/58 (5%)

Query: 444 STSEEIEEEEEEENAERPMILLDTDEDEDEEYGEDDEDEEYSEYDEDEEYGEDDEDEE 501
              EEI   EE+ + ++       D D+D    +   D+++ E D DEE  ED+EDEE
Sbjct: 75  EIDEEIIPLEEKFDKKKKK---FMDGDDDIIDDDILPDDDFDEEDLDEEDDEDEEDEE 129

Length = 129

>gnl|CDD|225880 COG3343, RpoE, DNA-directed RNA polymerase, delta subunit [Transcription]

 Score = 40.9 bits (96), Expect = 5e-04
 Identities = 30/68 (44%), Positives = 39/68 (57%), Gaps = 5/68 (7%)

Query: 436 EVEYESEMSTSEEIEEEEEEENAERPMILLDTDEDEDEEYGEDDEDE-EYSEYDEDEEYG 494
           E   E E+   E+ EEEE++E       L D ++DEDE+  E  E   E  E DEDE+  
Sbjct: 111 EEGDEDELDYDEDKEEEEDDEVDS----LDDENDDEDEDDDEIVEILIEDDEVDEDEDDD 166

Query: 495 EDDEDEED 502
           ED+EDEED
Sbjct: 167 EDEEDEED 174

Length = 175

>gnl|CDD|219900 pfam08553, VID27, VID27 cytoplasmic protein

 Score = 42.4 bits (100), Expect = 5e-04
 Identities = 25/80 (31%), Positives = 44/80 (55%), Gaps = 7/80 (8%)

Query: 427 EKMAKRRMTEVEYESEMSTSEEIEEEEEEENAERPMILLDTDEDEDEEYGEDDEDEEYSE 486
           +K  K + TE +Y  +  ++ EIE+   E + E        +EDE+EE  ED+++    E
Sbjct: 359 QKWTKAKETEQDYILDAFSALEIEDANTERDDE-------EEEDEEEEEEEDEDEGPSKE 411

Query: 487 YDEDEEYGEDDEDEEDDGED 506
           + +DEE+ EDD + + +  D
Sbjct: 412 HSDDEEFEEDDVESKYEDSD 431

This is a family of fungal and plant proteins and contains many hypothetical proteins. VID27 is a cytoplasmic protein that plays a potential role in vacuolar protein degradation. Length = 794

>gnl|CDD|224391 COG1474, CDC6, Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]

 Score = 42.0 bits (99), Expect = 6e-04
 Identities = 29/106 (27%), Positives = 49/106 (46%), Gaps = 10/106 (9%)

Query: 159 NDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQ 218
           + +  AL+      I  YG  G GKT  VK V  + +      EVVY    +     ++ 
Sbjct: 31  SFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVL 90

Query: 219 GQIADKLGLKFYEESESGRA-----RKLCERLKKEKKIL-VILDDI 258
            +I +KLG    +   +G +     ++L + L K+ K + VILD++
Sbjct: 91  SKILNKLG----KVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEV 132

Length = 366

>gnl|CDD|130712 TIGR01651, CobT, cobaltochelatase, CobT subunit

 Score = 41.9 bits (98), Expect = 8e-04
 Identities = 30/119 (25%), Positives = 52/119 (43%), Gaps = 13/119 (10%)

Query: 401 RAVPNWELDEEYCWAGDLNTTLQHLNEKMAKRR-----MTEVEYESEMSTSEEIEEEEEE 455
             V  W  D E     DL+     ++++ A  R     +  +E   EM    E E+EE+ 
Sbjct: 156 ALVDLWRNDIEAKAGKDLDRLSAAIDDQQAFARVVREMLRSMELAEEMGDDTESEDEEDG 215

Query: 456 ENAERPMILLDTDEDEDEEYGEDDEDEEYSE-YDEDEEYGE------DDEDEEDDGEDD 507
           ++ ++P      ++ E E  G++    + SE  D + E GE      D +D  D+ +DD
Sbjct: 216 DD-DQPTENEQEEQGEGEGEGQEGSAPQESEATDRESESGEEEMVQSDQDDLPDESDDD 273

This model describes Pseudomonas denitrificans CobT gene product, which is a cobalt chelatase subunit that functions in cobalamin biosynthesis. Cobalamin (vitamin B12) can be synthesized via several pathways, including an aerobic pathway (found in Pseudomonas denitrificans) and an anaerobic pathway (found in P. shermanii and Salmonella typhimurium). These pathways differ in the point of cobalt insertion during corrin ring formation. There are apparently a number of variations on these two pathways, where the major differences seem to be concerned with the process of ring contraction. Confusion regarding the functions of enzymes found in the aerobic vs. anaerobic pathways has arisen because nonhomologous genes in these different pathways were given the same gene symbols. Thus, cobT in the aerobic pathway (P. denitrificans) is not a homolog of cobT in the anaerobic pathway (S. typhimurium). It should be noted that E. coli synthesizes cobalamin only when it is supplied with the precursor cobinamide, which is a complex intermediate. Additionally, all E. coli cobalamin synthesis genes (cobU, cobS and cobT) were named after their Salmonella typhimurium homologs which function in the anaerobic cobalamin synthesis pathway. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobT gene product, which is a cobalt chelatase subunit, with a MW ~70 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 CobS (TIGR01650) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobT gene product, the P. denitrificans gene symbol is not used in the name of this model [Biosynthesis of cofactors, prosthetic groups, and carriers, Heme, porphyrin, and cobalamin]. Length = 600

>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

 Score = 41.5 bits (97), Expect = 0.001
 Identities = 21/79 (26%), Positives = 41/79 (51%), Gaps = 6/79 (7%)

Query: 436  EVEYESEMSTSEEIEEEEEEENAERPMILLDTDEDE----DEEYGEDDEDEEYSEYDEDE 491
            E E   ++   +EI+ + +E N++ P    D D  E    DE+ G+  +D +    D D 
Sbjct: 3956 EEEMSDDVGIDDEIQPDIQENNSQPPPENEDLDLPEDLKLDEKEGDVSKDSDLE--DMDM 4013

Query: 492  EYGEDDEDEEDDGEDDDIQ 510
            E  +++++E D  +D+ +Q
Sbjct: 4014 EAADENKEEADAEKDEPMQ 4032

Length = 4600

>gnl|CDD|217830 pfam03986, Autophagy_N, Autophagocytosis associated protein (Atg3), N-terminal domain

 Score = 39.2 bits (92), Expect = 0.001
 Identities = 22/78 (28%), Positives = 43/78 (55%), Gaps = 9/78 (11%)

Query: 432 RRMTEVEYESEMSTSEEIEEEEEEENAERPMILLDTDEDEDEEYGEDDEDEEYSEYDEDE 491
           RR  ++EY      +EEI E+E+E++       + T  + D++  +  ++E+  E  +D+
Sbjct: 77  RRAKQMEYGDG---AEEIVEDEDEDD-----GWVTTHGNRDKQKDDIADEEDIPEIGDDD 128

Query: 492 EYGEDDEDEEDDGEDDDI 509
           +   D  D ++D +DDDI
Sbjct: 129 DDVVDSSDADED-DDDDI 145

Autophagocytosis is a starvation-induced process responsible for transport of cytoplasmic proteins to the lysosome/vacuole. Atg3 is a ubiquitin like modifier that is topologically similar to the canonical E2 enzyme. It catalyzes the conjugation of Atg8 and phosphatidylethanolamine. Length = 146

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 41.5 bits (97), Expect = 0.001
 Identities = 25/91 (27%), Positives = 41/91 (45%), Gaps = 15/91 (16%)

Query: 427 EKMAKRRMTEVEYESEMSTSEEIEEEEEEENAERPMILLDTDEDEDEEYGEDD------- 479
           E   K             T  + E  E+E NAE      +  E + +E G D        
Sbjct: 808 EAGEKDEHEGQSETQADDTEVKDETGEQELNAE------NQGEAKQDEKGVDGGGGSDGG 861

Query: 480 --EDEEYSEYDEDEEYGEDDEDEEDDGEDDD 508
             E+EE  E +E+EE  E++E+EE++ E+++
Sbjct: 862 DSEEEEEEEEEEEEEEEEEEEEEEEEEENEE 892

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|218003 pfam04281, Tom22, Mitochondrial import receptor subunit Tom22

 Score = 39.2 bits (92), Expect = 0.001
 Identities = 15/58 (25%), Positives = 24/58 (41%), Gaps = 8/58 (13%)

Query: 443 MSTSEEIEEEEEEENAERPMILLDTDEDEDEEYGEDDEDEEYSEYDEDEEYGEDDEDE 500
           M    E+E+E  +E    P            +   DD+DE+ ++ D D     D E+E
Sbjct: 1   MVKLTEVEDETFQEKPAAP--------KNLAQEESDDDDEDDTDTDSDISDDSDFENE 50

The mitochondrial protein translocase family, which is responsible for movement of nuclear encoded pre-proteins into mitochondria, is very complex with at least 19 components. These proteins include several chaperone proteins, four proteins of the outer membrane translocase (Tom) import receptor, five proteins of the Tom channel complex, five proteins of the inner membrane translocase (Tim) and three "motor" proteins. This family represents the Tom22 proteins. The N terminal region of Tom22 has been shown to have chaperone-like activity, and the C terminal region faces the intermembrane face. Length = 136

>gnl|CDD|215649 pfam00004, AAA, ATPase family associated with various cellular activities (AAA)

 Score = 38.7 bits (91), Expect = 0.001
 Identities = 26/83 (31%), Positives = 37/83 (44%), Gaps = 20/83 (24%)

Query: 176 YGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESES 235
           YG  G GKT L K VA++  A        + E+S              +L  K+  ESE 
Sbjct: 4   YGPPGTGKTTLAKAVAKELGAP-------FIEIS------------GSELVSKYVGESEK 44

Query: 236 GRARKLCERLKKEKKILVILDDI 258
            R R+L E  KK    ++ +D+I
Sbjct: 45  -RLRELFEAAKKLAPCVIFIDEI 66

AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes. Length = 131

>gnl|CDD|240329 PTZ00248, PTZ00248, eukaryotic translation initiation factor 2 subunit 1; Provisional

 Score = 40.4 bits (95), Expect = 0.001
 Identities = 21/67 (31%), Positives = 40/67 (59%), Gaps = 5/67 (7%)

Query: 447 EEIEEEEEEENAE-----RPMILLDTDEDEDEEYGEDDEDEEYSEYDEDEEYGEDDEDEE 501
           E I+E  +++  +      P ++   +ED +E   + +E+EE  +Y E E+  E+DEDEE
Sbjct: 250 EAIKEVIKKKGGDFKVKGEPEVVGGDEEDLEELLEKAEEEEEEDDYSESEDEDEEDEDEE 309

Query: 502 DDGEDDD 508
           ++ +DD+
Sbjct: 310 EEEDDDE 316

Length = 319

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 40.4 bits (95), Expect = 0.002
 Identities = 22/98 (22%), Positives = 43/98 (43%), Gaps = 8/98 (8%)

Query: 407 ELDEEYCWAGDLNTTLQHLNEKMAKRRMTEVEYESEMSTSEEIEEEEEEENAERPMILLD 466
           +LD+E+    D N           +    E E   +    E+ +++ EEE  +   + L 
Sbjct: 301 DLDDEFEPDDDDN-----FGLGQGEEDEEEEEDGVDDEDEEDDDDDLEEEEED---VDLS 352

Query: 467 TDEDEDEEYGEDDEDEEYSEYDEDEEYGEDDEDEEDDG 504
            +E+++E+   DDED+E  E +E E+  +   +     
Sbjct: 353 DEEEDEEDEDSDDEDDEEEEEEEKEKKKKKSAESTRSE 390

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

>gnl|CDD|217203 pfam02724, CDC45, CDC45-like protein

 Score = 40.7 bits (96), Expect = 0.002
 Identities = 25/65 (38%), Positives = 36/65 (55%), Gaps = 8/65 (12%)

Query: 447 EEIEEEEEEENAERPMILLDTDEDEDEEYGEDDEDEEYSEYDEDEEYGEDDEDEEDDGED 506
            +IEEE ++E           D   D E  +DD++E   E DE+    EDDED++DD +D
Sbjct: 104 GDIEEELQDEPRYD-------DAYRDLEEDDDDDEESDEE-DEESSKSEDDEDDDDDDDD 155

Query: 507 DDIQS 511
           DDI +
Sbjct: 156 DDIAT 160

CDC45 is an essential gene required for initiation of DNA replication in S. cerevisiae, forming a complex with MCM5/CDC46. Homologues of CDC45 have been identified in human, mouse and smut fungus among others. Length = 583

>gnl|CDD|218333 pfam04931, DNA_pol_phi, DNA polymerase phi

 Score = 41.0 bits (96), Expect = 0.002
 Identities = 20/64 (31%), Positives = 34/64 (53%), Gaps = 9/64 (14%)

Query: 441 SEMSTSEEIEEEEEEENAERPMILLDTDEDEDEEYGEDDEDEEYSEYDEDEEYGEDDEDE 500
            ++   EE +E++ EE         D DED + E  ED E E  S+ ++ EE  ++D+ E
Sbjct: 642 QQLFEGEEEDEDDLEET--------DDDED-ECEAIEDSESESESDGEDGEEDEQEDDAE 692

Query: 501 EDDG 504
            ++G
Sbjct: 693 ANEG 696

This family includes the fifth essential DNA polymerase in yeast EC:2.7.7.7. Pol5p is localised exclusively to the nucleolus and binds near or at the enhancer region of rRNA-encoding DNA repeating units. Length = 784

>gnl|CDD|221970 pfam13191, AAA_16, AAA ATPase domain

 Score = 38.3 bits (89), Expect = 0.002
 Identities = 19/123 (15%), Positives = 44/123 (35%), Gaps = 16/123 (13%)

Query: 152 ESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQ- 210
           E  +  L D +   ++     +   G +G GKT L++E+           +         
Sbjct: 6   EEELERLLDALRRARSGGPPSVLLTGPSGTGKTSLLRELLEGLLVAAGKCDQAERNPPYA 65

Query: 211 -RPDVKKIQGQIADKLGLKFYEESESGRA--------------RKLCERLKKEKKILVIL 255
               ++++  Q+  +L  +     E+  A                L   L + + ++++L
Sbjct: 66  FSQALRELLRQLLRELAAELLLLREALLAALGAELIEGLQDLVELLERLLARARPLVLVL 125

Query: 256 DDI 258
           DD+
Sbjct: 126 DDL 128

This family of domains contain a P-loop motif that is characteristic of the AAA superfamily. Length = 154

>gnl|CDD|221490 pfam12253, CAF1A, Chromatin assembly factor 1 subunit A

 Score = 36.4 bits (85), Expect = 0.002
 Identities = 18/45 (40%), Positives = 27/45 (60%), Gaps = 6/45 (13%)

Query: 464 LLDTDEDEDEEYGEDDEDEEYSEYDEDEEYGEDDEDEEDDGEDDD 508
            LD D D D E+ E++E E+     E E+  E+DE+E+DD + D 
Sbjct: 37  GLDYDYDSDAEWEEEEEGEDL----ESED--EEDEEEDDDDDMDG 75

The CAF-1 or chromatin assembly factor-1 consists of three subunits, and this is the first, or A. The A domain is uniquely required for the progression of S phase in mouse cells, independent of its ability to promote histone deposition but dependent on its ability to interact with HP1 - heterochromatin protein 1-rich heterochromatin domains next to centromeres that are crucial for chromosome segregation during mitosis. This HP1-CAF-1 interaction module functions as a built-in replication control for heterochromatin, which, like a control barrier, has an impact on S-phase progression in addition to DNA-based checkpoints. Length = 76

>gnl|CDD|218737 pfam05764, YL1, YL1 nuclear protein

 Score = 39.3 bits (92), Expect = 0.002
 Identities = 17/56 (30%), Positives = 32/56 (57%), Gaps = 11/56 (19%)

Query: 464 LLDTDEDEDEEYG------EDDEDEEYSEYDEDEEYGED-----DEDEEDDGEDDD 508
           LL+ + +EDE +       E+++DEE+   +E+EE   D      ED+E + +D++
Sbjct: 17  LLEEELEEDEFFWTYLLFEEEEDDEEFEIEEEEEEEEVDSDFDDSEDDEPESDDEE 72

The proteins in this family are designated YL1. These proteins have been shown to be DNA-binding and may be a transcription factor. Length = 238

>gnl|CDD|217392 pfam03153, TFIIA, Transcription factor IIA, alpha/beta subunit

 Score = 39.3 bits (92), Expect = 0.004
 Identities = 15/44 (34%), Positives = 26/44 (59%), Gaps = 1/44 (2%)

Query: 466 DTDEDEDEEYGEDDEDEEYSEYDEDEEYGEDDEDEEDDGEDDDI 509
           D+D++ D    +DDED   S+ D+ ++    DED ED  + D++
Sbjct: 248 DSDDEGDGSDDDDDEDAIESDLDDSDD-DVSDEDGEDLFDTDNV 290

Transcription initiation factor IIA (TFIIA) is a heterotrimer, the three subunits being known as alpha, beta, and gamma, in order of molecular weight. The N and C-terminal domains of the gamma subunit are represented in pfam02268 and pfam02751, respectively. This family represents the precursor that yields both the alpha and beta subunits. The TFIIA heterotrimer is an essential general transcription initiation factor for the expression of genes transcribed by RNA polymerase II. Together with TFIID, TFIIA binds to the promoter region; this is the first step in the formation of a pre-initiation complex (PIC). Binding of the rest of the transcription machinery follows this step. After initiation, the PIC does not completely dissociate from the promoter. Some components, including TFIIA, remain attached and re-initiate a subsequent round of transcription. Length = 332

>gnl|CDD|218312 pfam04889, Cwf_Cwc_15, Cwf15/Cwc15 cell cycle control protein

 Score = 38.6 bits (90), Expect = 0.004
 Identities = 23/92 (25%), Positives = 40/92 (43%), Gaps = 7/92 (7%)

Query: 423 QHLNEKMAKRRM------TEVEYESEMSTSEEIEEEEEEENAERPMILLDTDEDEDEEYG 476
           Q   +++ KR +       E  ++S+      IE+ ++  N +      D D+DE++E  
Sbjct: 48  QGTEDELRKRDLRAELEEAERAHKSKKENKLAIEDADKSTNLDAS-NEGDEDDDEEDEIK 106

Query: 477 EDDEDEEYSEYDEDEEYGEDDEDEEDDGEDDD 508
               +E+    D D+     D D  DD  DDD
Sbjct: 107 RKRIEEDARNSDADDSDSSSDSDSSDDDSDDD 138

This family represents Cwf15/Cwc15 (from Schizosaccharomyces pombe and Saccharomyces cerevisiae respectively) and their homologues. The function of these proteins is unknown, but they form part of the spliceosome and are thus thought to be involved in mRNA splicing. Length = 241

>gnl|CDD|220102 pfam09073, BUD22, BUD22

 Score = 39.0 bits (91), Expect = 0.004
 Identities = 26/104 (25%), Positives = 42/104 (40%), Gaps = 15/104 (14%)

Query: 415 AGDLNTTLQHLNEKMAKRRMTEVEYESEMSTSEEIEEEEEEENAERPMILLDTDEDEDEE 474
            G      +   +K  K+   +   ES     EE  E E+E  +E        ++D D+E
Sbjct: 140 LGIETKAKKGKAKKKTKKSKKKEAKESSDKDDEEESESEDESKSEE-----SAEDDSDDE 194

Query: 475 YGEDDEDEEYSEYD----------EDEEYGEDDEDEEDDGEDDD 508
             ED + E+YS+YD          E EE    + +E+    + D
Sbjct: 195 EEEDSDSEDYSQYDGMLVDSSDEEEGEEAPSINYNEDTSESESD 238

BUD22 has been shown in yeast to be a nuclear protein involved in bud-site selection. It plays a role in positioning the proximal bud pole signal. More recently it has been shown to be involved in ribosome biogenesis. Length = 424

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	512
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
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.43
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.42
PRK04841	903	transcriptional regulator MalT; Provisional	99.4
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	99.39
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.36
PF05729	166	NACHT: NACHT domain	99.3
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.19
COG2256	436	MGS1 ATPase related to the helicase subunit of the	99.14
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.13
COG3899	849	Predicted ATPase [General function prediction only	99.08
PRK13342	413	recombination factor protein RarA; Reviewed	99.08
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	98.99
PRK06893	229	DNA replication initiation factor; Validated	98.95
PTZ00112	1164	origin recognition complex 1 protein; Provisional	98.93
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.91
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	98.88
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	98.87
PRK12402	337	replication factor C small subunit 2; Reviewed	98.86
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	98.85
PTZ00202	550	tuzin; Provisional	98.84
COG3903	414	Predicted ATPase [General function prediction only	98.82
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	98.81
PRK00440	319	rfc replication factor C small subunit; Reviewed	98.78
KOG2028	554	consensus ATPase related to the helicase subunit o	98.78
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	98.78
PRK04195	482	replication factor C large subunit; Provisional	98.78
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	98.77
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.76
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	98.76
PLN03025	319	replication factor C subunit; Provisional	98.73
PRK09112	351	DNA polymerase III subunit delta'; Validated	98.71
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.71
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	98.71
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	98.7
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	98.7
PRK13341	725	recombination factor protein RarA/unknown domain f	98.68
PF14516	331	AAA_35: AAA-like domain	98.68
PF13173	128	AAA_14: AAA domain	98.66
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	98.66
PRK07471	365	DNA polymerase III subunit delta'; Validated	98.66
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	98.66
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.65
PRK08727	233	hypothetical protein; Validated	98.65
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	98.63
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	98.62
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	98.61
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	98.61
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	98.61
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	98.6
PRK09087	226	hypothetical protein; Validated	98.59
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	98.59
PRK08084	235	DNA replication initiation factor; Provisional	98.59
PRK07940	394	DNA polymerase III subunit delta'; Validated	98.57
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	98.56
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	98.55
cd01128	249	rho_factor Transcription termination factor rho is	98.55
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	98.55
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	98.54
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	98.54
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	98.54
PRK08903	227	DnaA regulatory inactivator Hda; Validated	98.53
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	98.49
PRK14087	450	dnaA chromosomal replication initiation protein; P	98.48
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	98.48
PRK03992	389	proteasome-activating nucleotidase; Provisional	98.47
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	98.47
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	98.46
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	98.46
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	98.45
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	98.44
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	98.44
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	98.42
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	98.41
PRK05642	234	DNA replication initiation factor; Validated	98.4
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	98.38
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	98.37
PRK09376	416	rho transcription termination factor Rho; Provisio	98.37
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	98.36
CHL00095	821	clpC Clp protease ATP binding subunit	98.35
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	98.34
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	98.34
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	98.32
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	98.32
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	98.31
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	98.3
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	98.3
PHA02544	316	44 clamp loader, small subunit; Provisional	98.29
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	98.26
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	98.24
TIGR00767	415	rho transcription termination factor Rho. Members	98.24
PRK10865	857	protein disaggregation chaperone; Provisional	98.24
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	98.24
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	98.23
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	98.22
PRK00149	450	dnaA chromosomal replication initiation protein; R	98.22
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	98.22
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	98.22
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	98.21
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	98.2
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	98.16
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	98.16
PRK14088	440	dnaA chromosomal replication initiation protein; P	98.16
PRK14086	617	dnaA chromosomal replication initiation protein; P	98.16
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	98.16
PRK06620	214	hypothetical protein; Validated	98.13
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	98.13
PRK07399	314	DNA polymerase III subunit delta'; Validated	98.12
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	98.12
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	98.1
CHL00181	287	cbbX CbbX; Provisional	98.09
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	98.09
PRK05707	328	DNA polymerase III subunit delta'; Validated	98.07
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	98.06
CHL00176	638	ftsH cell division protein; Validated	98.02
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	98.0
smart00382	148	AAA ATPases associated with a variety of cellular	98.0
PRK12422	445	chromosomal replication initiation protein; Provis	97.95
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	97.95
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	97.91
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	97.88
PRK08769	319	DNA polymerase III subunit delta'; Validated	97.85
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	97.85
PRK08116	268	hypothetical protein; Validated	97.84
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	97.83
PF00004	132	AAA: ATPase family associated with various cellula	97.83
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	97.82
PRK06871	325	DNA polymerase III subunit delta'; Validated	97.8
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	97.76
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	97.76
PHA00729	226	NTP-binding motif containing protein	97.73
PRK10536	262	hypothetical protein; Provisional	97.71
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.7
PRK12608	380	transcription termination factor Rho; Provisional	97.7
PRK08939	306	primosomal protein DnaI; Reviewed	97.69
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	97.69
COG0593	408	DnaA ATPase involved in DNA replication initiation	97.68
PRK12377	248	putative replication protein; Provisional	97.67
PRK06090	319	DNA polymerase III subunit delta'; Validated	97.67
PRK08058	329	DNA polymerase III subunit delta'; Validated	97.67
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	97.65
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	97.65
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	97.65
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	97.64
CHL00195	489	ycf46 Ycf46; Provisional	97.62
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	97.59
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	97.57
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.57
PRK06921	266	hypothetical protein; Provisional	97.56
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	97.56
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	97.55
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.53
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	97.53
PRK08118	167	topology modulation protein; Reviewed	97.52
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	97.52
PRK07993	334	DNA polymerase III subunit delta'; Validated	97.51
PRK09354	349	recA recombinase A; Provisional	97.49
TIGR02237	209	recomb_radB DNA repair and recombination protein R	97.49
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	97.47
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	97.47
PRK07952	244	DNA replication protein DnaC; Validated	97.47
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	97.46
COG1484	254	DnaC DNA replication protein [DNA replication, rec	97.46
PRK06964	342	DNA polymerase III subunit delta'; Validated	97.46
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	97.45
PRK08181	269	transposase; Validated	97.43
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	97.42
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	97.4
PRK06835	329	DNA replication protein DnaC; Validated	97.4
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	97.4
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.4
PRK04296	190	thymidine kinase; Provisional	97.38
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	97.36
KOG1514	767	consensus Origin recognition complex, subunit 1, a	97.36
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	97.35
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	97.35
PRK10865	857	protein disaggregation chaperone; Provisional	97.33
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	97.32
PRK07261	171	topology modulation protein; Provisional	97.32
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.29
PRK06526	254	transposase; Provisional	97.29
cd00983	325	recA RecA is a bacterial enzyme which has roles in	97.28
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.25
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	97.25
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	97.25
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.25
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.23
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	97.23
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	97.21
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	97.2
PRK04132	846	replication factor C small subunit; Provisional	97.19
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	97.19
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	97.17
PRK04328	249	hypothetical protein; Provisional	97.17
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.16
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	97.15
PRK09183	259	transposase/IS protein; Provisional	97.15
KOG1969	877	consensus DNA replication checkpoint protein CHL12	97.15
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	97.14
PRK08533	230	flagellar accessory protein FlaH; Reviewed	97.14
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	97.13
PTZ00494	664	tuzin-like protein; Provisional	97.13
PRK08699	325	DNA polymerase III subunit delta'; Validated	97.12
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	97.11
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	97.11
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	97.1
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	97.09
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	97.08
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	97.08
CHL00095	821	clpC Clp protease ATP binding subunit	97.06
PHA02244	383	ATPase-like protein	97.06
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	97.04
PRK06696	223	uridine kinase; Validated	97.04
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	97.02
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	97.02
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.0
KOG0736	953	consensus Peroxisome assembly factor 2 containing	96.98
PRK05541	176	adenylylsulfate kinase; Provisional	96.98
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	96.95
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	96.91
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	96.91
TIGR02236	310	recomb_radA DNA repair and recombination protein R	96.9
PRK13531	498	regulatory ATPase RavA; Provisional	96.9
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	96.89
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	96.88
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	96.87
cd01394	218	radB RadB. The archaeal protein radB shares simila	96.86
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	96.86
COG0541	451	Ffh Signal recognition particle GTPase [Intracellu	96.85
PF10236	309	DAP3: Mitochondrial ribosomal death-associated pro	96.82
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	96.81
PRK04301	317	radA DNA repair and recombination protein RadA; Va	96.8
PTZ00035	337	Rad51 protein; Provisional	96.79
cd03115	173	SRP The signal recognition particle (SRP) mediates	96.78
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	96.78
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	96.77
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	96.77
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	96.77
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	96.77
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	96.76
PRK06547	172	hypothetical protein; Provisional	96.76
PRK14974	336	cell division protein FtsY; Provisional	96.75
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	96.75
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	96.75
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	96.75
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	96.74
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	96.74
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	96.74
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	96.74
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	96.74
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	96.73
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	96.72
COG1875	436	NYN ribonuclease and ATPase of PhoH family domains	96.71
PRK07132	299	DNA polymerase III subunit delta'; Validated	96.7
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	96.7
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	96.69
PF12061	402	DUF3542: Protein of unknown function (DUF3542); In	96.69
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	96.68
PRK05973	237	replicative DNA helicase; Provisional	96.68
PRK06067	234	flagellar accessory protein FlaH; Validated	96.68
COG2884	223	FtsE Predicted ATPase involved in cell division [C	96.67
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	96.66
PRK07667	193	uridine kinase; Provisional	96.65
PRK10867	433	signal recognition particle protein; Provisional	96.64
PRK11823	446	DNA repair protein RadA; Provisional	96.63
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	96.62
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	96.62
PRK15455	644	PrkA family serine protein kinase; Provisional	96.62
TIGR00959	428	ffh signal recognition particle protein. This mode	96.6
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	96.59
TIGR00064	272	ftsY signal recognition particle-docking protein F	96.58
PF00154	322	RecA: recA bacterial DNA recombination protein; In	96.57
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	96.56
CHL00206	2281	ycf2 Ycf2; Provisional	96.56
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	96.56
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	96.55
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	96.53
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	96.51
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	96.51
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	96.5
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	96.5
PRK05439	311	pantothenate kinase; Provisional	96.48
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	96.48
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	96.47
PRK08233	182	hypothetical protein; Provisional	96.46
TIGR01069	771	mutS2 MutS2 family protein. Function of MutS2 is u	96.46
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	96.46
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	96.45
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	96.45
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.44
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	96.43
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	96.41
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	96.41
PRK13765	637	ATP-dependent protease Lon; Provisional	96.4
PRK09519	790	recA DNA recombination protein RecA; Reviewed	96.4
KOG0651	388	consensus 26S proteasome regulatory complex, ATPas	96.39
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	96.38
PF13245	76	AAA_19: Part of AAA domain	96.37
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	96.37
PRK05480	209	uridine/cytidine kinase; Provisional	96.36
PRK06762	166	hypothetical protein; Provisional	96.36
PTZ00301	210	uridine kinase; Provisional	96.35
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	96.35
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	96.3
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	96.29
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	96.29
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	96.28
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	96.26
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	96.25
TIGR00235	207	udk uridine kinase. Model contains a number of lon	96.24
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	96.23
) 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	96.23
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	96.22
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	96.22
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	96.22
PRK03839	180	putative kinase; Provisional	96.22
PF05659	147	RPW8: Arabidopsis broad-spectrum mildew resistance	96.21
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	96.21
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	96.19
PRK01184	184	hypothetical protein; Provisional	96.16
cd03216	163	ABC_Carb_Monos_I This family represents the domain	96.15
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	96.15
COG0003	322	ArsA Predicted ATPase involved in chromosome parti	96.12
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	96.11
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	96.08
KOG0726	440	consensus 26S proteasome regulatory complex, ATPas	96.06
PRK04040	188	adenylate kinase; Provisional	96.06
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	96.06
KOG0736	953	consensus Peroxisome assembly factor 2 containing	96.06
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	96.06
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	96.06
PRK00409	782	recombination and DNA strand exchange inhibitor pr	96.06
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	96.05
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	96.05
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	96.04
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	96.04
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	96.04
PRK00131	175	aroK shikimate kinase; Reviewed	96.04
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	96.02
PF07726	131	AAA_3: ATPase family associated with various cellu	96.02
PRK09302	509	circadian clock protein KaiC; Reviewed	96.01
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	96.0
PRK00625	173	shikimate kinase; Provisional	96.0
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	96.0
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	95.98
PF02374	305	ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_	95.97
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	95.96
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	95.96
PRK13768	253	GTPase; Provisional	95.95
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	95.94
PLN02165	334	adenylate isopentenyltransferase	95.93
PF06524	314	NOA36: NOA36 protein; InterPro: IPR010531 This fam	95.93
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	95.92
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	95.92
COG0714	329	MoxR-like ATPases [General function prediction onl	95.92
KOG0737	386	consensus AAA+-type ATPase [Posttranslational modi	95.9
TIGR03305	449	alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit	95.9
KOG0740	428	consensus AAA+-type ATPase [Posttranslational modi	95.89
PRK09435	332	membrane ATPase/protein kinase; Provisional	95.88
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	95.88
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	95.87
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	95.87
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	95.87
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	95.87
PRK08927	442	fliI flagellum-specific ATP synthase; Validated	95.86
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	95.86
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	95.85
PRK08149	428	ATP synthase SpaL; Validated	95.85
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	95.85
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	95.85
PRK08972	444	fliI flagellum-specific ATP synthase; Validated	95.85
PRK14531	183	adenylate kinase; Provisional	95.82
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	95.82
PRK06217	183	hypothetical protein; Validated	95.81
cd03246	173	ABCC_Protease_Secretion This family represents the	95.81
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	95.81
cd01134	369	V_A-ATPase_A V/A-type ATP synthase catalytic subun	95.8
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	95.79
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	95.78
PRK00889	175	adenylylsulfate kinase; Provisional	95.78
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	95.77
PTZ00088	229	adenylate kinase 1; Provisional	95.76
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	95.73
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	95.73
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	95.72
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	95.72
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	95.72
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	95.71
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	95.71
TIGR03575	340	selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryoti	95.7
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	95.7
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	95.69
PRK05917	290	DNA polymerase III subunit delta'; Validated	95.68
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	95.67
PF11868	192	DUF3388: Protein of unknown function (DUF3388); In	95.66
PRK06002	450	fliI flagellum-specific ATP synthase; Validated	95.65
PRK00279	215	adk adenylate kinase; Reviewed	95.65
TIGR01041	458	ATP_syn_B_arch ATP synthase archaeal, B subunit. A	95.64
PRK14527	191	adenylate kinase; Provisional	95.62
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	95.61
PRK13947	171	shikimate kinase; Provisional	95.6
PRK14529	223	adenylate kinase; Provisional	95.6
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	95.59
PHA02774	613	E1; Provisional	95.59
COG3598	402	RepA RecA-family ATPase [DNA replication, recombin	95.58
PRK10416	318	signal recognition particle-docking protein FtsY;	95.57
PRK14530	215	adenylate kinase; Provisional	95.56
COG4240	300	Predicted kinase [General function prediction only	95.55
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	95.54
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	95.52
PF12780	268	AAA_8: P-loop containing dynein motor region D4; I	95.5
PRK09302	509	circadian clock protein KaiC; Reviewed	95.5
PF05970	364	PIF1: PIF1-like helicase; InterPro: IPR010285 This	95.49
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	95.49
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	95.49
PRK12678	672	transcription termination factor Rho; Provisional	95.49
PRK13949	169	shikimate kinase; Provisional	95.49
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	95.48
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	95.48
PRK15453	290	phosphoribulokinase; Provisional	95.48
cd02029	277	PRK_like Phosphoribulokinase-like (PRK-like) is a	95.48
TIGR01040	466	V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit. Th	95.47
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	95.46
PRK03846	198	adenylylsulfate kinase; Provisional	95.46
PRK07594	433	type III secretion system ATPase SsaN; Validated	95.44
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	95.44
PRK06936	439	type III secretion system ATPase; Provisional	95.44
PRK12339	197	2-phosphoglycerate kinase; Provisional	95.43
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	95.43
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	95.41
TIGR01039	461	atpD ATP synthase, F1 beta subunit. The sequences	95.4
COG0488	530	Uup ATPase components of ABC transporters with dup	95.39
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	95.39
PRK00300	205	gmk guanylate kinase; Provisional	95.37
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	95.37
PRK09099	441	type III secretion system ATPase; Provisional	95.37
PTZ00185	574	ATPase alpha subunit; Provisional	95.36
PRK06851	367	hypothetical protein; Provisional	95.35
PRK14737	186	gmk guanylate kinase; Provisional	95.35
PRK13975	196	thymidylate kinase; Provisional	95.31
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	95.31
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	95.3
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	95.3
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	95.29
COG1763	161	MobB Molybdopterin-guanine dinucleotide biosynthes	95.25
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	95.24
PRK04196	460	V-type ATP synthase subunit B; Provisional	95.24
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	95.24
PRK00698	205	tmk thymidylate kinase; Validated	95.23
TIGR01287	275	nifH nitrogenase iron protein. This model describe	95.22
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	95.21
PRK05057	172	aroK shikimate kinase I; Reviewed	95.21
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	95.21
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	95.2
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	95.19
cd03243	202	ABC_MutS_homologs The MutS protein initiates DNA m	95.19
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	95.18
PLN02200	234	adenylate kinase family protein	95.17
PRK05688	451	fliI flagellum-specific ATP synthase; Validated	95.15
cd03116	159	MobB Molybdenum is an essential trace element in t	95.13
PRK13946	184	shikimate kinase; Provisional	95.13
PLN02348	395	phosphoribulokinase	95.1
TIGR03600	421	phage_DnaB phage replicative helicase, DnaB family	95.08
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	95.08
CHL00060	494	atpB ATP synthase CF1 beta subunit	95.07
PRK14738	206	gmk guanylate kinase; Provisional	95.07
TIGR03496	411	FliI_clade1 flagellar protein export ATPase FliI.	95.06
cd01136	326	ATPase_flagellum-secretory_path_III Flagellum-spec	95.06
COG4555	245	NatA ABC-type Na+ transport system, ATPase compone	95.05
cd02040	270	NifH NifH gene encodes component II (iron protein)	95.04
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	95.03
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	95.03
PF02456	369	Adeno_IVa2: Adenovirus IVa2 protein; InterPro: IPR	95.03
PF02367	123	UPF0079: Uncharacterised P-loop hydrolase UPF0079;	95.02
PRK04182	180	cytidylate kinase; Provisional	95.02
PRK05922	434	type III secretion system ATPase; Validated	95.01
PRK14532	188	adenylate kinase; Provisional	95.0
cd02117	212	NifH_like This family contains the NifH (iron prot	95.0
cd01132	274	F1_ATPase_alpha F1 ATP synthase alpha, central dom	94.99
PRK13948	182	shikimate kinase; Provisional	94.99
TIGR03498	418	FliI_clade3 flagellar protein export ATPase FliI.	94.99
COG0237	201	CoaE Dephospho-CoA kinase [Coenzyme metabolism]	94.98
PRK07196	434	fliI flagellum-specific ATP synthase; Validated	94.96
PRK13230	279	nitrogenase reductase-like protein; Reviewed	94.96
COG2019	189	AdkA Archaeal adenylate kinase [Nucleotide transpo	94.96
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	94.96
PRK06761	282	hypothetical protein; Provisional	94.95
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	94.94
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	94.93
TIGR02173	171	cyt_kin_arch cytidylate kinase, putative. Proteins	94.91
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	94.9
cd03282	204	ABC_MSH4_euk MutS4 homolog in eukaryotes. The MutS	94.88
PRK14493	274	putative bifunctional molybdopterin-guanine dinucl	94.86
PRK09825	176	idnK D-gluconate kinase; Provisional	94.85
KOG0943	3015	consensus Predicted ubiquitin-protein ligase/hyper	94.84
PRK03731	171	aroL shikimate kinase II; Reviewed	94.84
PRK13695	174	putative NTPase; Provisional	94.84
PRK13236	296	nitrogenase reductase; Reviewed	94.82

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=1e-53  Score=461.83  Aligned_cols=414  Identities=28%  Similarity=0.423  Sum_probs=330.7

Q ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHHHHHHhccccccc----------------c
Q 010355           32 SNLEKLKNEVQKLRGAKESVQQKIDDAKRSGEDIEQRVENWLITADEILDAAARIIEGTEDTT----------------N   95 (512)
Q Consensus        32 ~~~~~l~~~~~~L~~~l~~i~~~l~~a~~~~~~~~~~~~~wl~~vr~~~~d~ed~ld~~~~~~----------------~   95 (512)
                      ..+.+..+.+..|+..|..++.++.+++.+++ ....+..|...+++++|++++.++.+....                .
T Consensus        21 ~~~~~~~~~i~~Lk~~L~~l~~~l~d~~a~~~-~~~~~~~~~e~~~~~~~~~e~~~~~~~v~~~~~~~~~~l~~~~~~~~   99 (889)
T KOG4658|consen   21 ECLDGKDNYILELKENLKALQSALEDLDAKRD-DLERRVNWEEDVGDLVYLAEDIIWLFLVEEIERKANDLLSTRSVERQ   99 (889)
T ss_pred             HHHhchHHHHHHHHHHHHHHHHHHHHHHhhcc-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhhhhHHHHH
Confidence            34556777899999999999999999999864 478899999999999999999998654322                0


Q ss_pred             cCCCChhHhhhHHHHHHHHHHHHHHHHHHcCCCc------ccccccCCCc-cccccccCccccccchHHHHHHHHHhcCC
Q 010355           96 RLCPNLNTRYQVSKKAAREVKAAAELLQQEGRFD------KVSYRTVPED-VWLTSIKGYEAFESRMSTLNDVINALKNP  168 (512)
Q Consensus        96 ~~~~~~~~~~~~~~~i~~~~~~l~~i~~~~~~~~------~~~~~~~~~~-~~~~~~~~~~~~~gR~~~l~~l~~~L~~~  168 (512)
                      +.| -...++..+..+..+.+++..+.+....+.      .+.....+.. ....+...... ||.+..++++.+.|...
T Consensus       100 ~~c-~~~~~~~~~~~~~~~~~rv~~~l~~ve~l~~~~~~~~~~~~~~~~~~~e~~~~~~~~~-VG~e~~~~kl~~~L~~d  177 (889)
T KOG4658|consen  100 RLC-LCGFCSKNVSDSYKYGKRVSKVLREVESLGSKGVFEVVGESLDPREKVETRPIQSESD-VGLETMLEKLWNRLMED  177 (889)
T ss_pred             HHh-hhhhHhHhhhhhHhHHHHHHHHHHHHHHhccccceecccccccchhhcccCCCCcccc-ccHHHHHHHHHHHhccC
Confidence            111 114455555666666666655555444443      2221111111 11111222223 99999999999999987


Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh-hcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCC---CchHHHHHHHHH
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK-ADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEE---SESGRARKLCER  244 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~-~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~---~~~~~~~~l~~~  244 (512)
                      +..+++|+||||+||||||++++++.. ++++|+.++||.||+.++...++.+|+..++......   ........+.+.
T Consensus       178 ~~~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~~~~iq~~Il~~l~~~~~~~~~~~~~~~~~~i~~~  257 (889)
T KOG4658|consen  178 DVGIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFTTRKIQQTILERLGLLDEEWEDKEEDELASKLLNL  257 (889)
T ss_pred             CCCEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEEcccccHHhHHHHHHHHhccCCcccchhhHHHHHHHHHHH
Confidence            779999999999999999999999988 8899999999999999999999999999998743332   224556677777


Q ss_pred             HhCCCeEEEEEeCCCChhhhhhhCCCCC--CCCeEEEEEeCCcchhccccCCccceecCCCCHHHHHHHHHHHhCCC--C
Q 010355          245 LKKEKKILVILDDIWTNLDLENVGIPFG--VRGCRVLMTARSQDVLSSKMDCQNNFLIGVLNESEARDLFKKLVGDK--I  320 (512)
Q Consensus       245 l~~~k~~LlVlDdv~~~~~~~~l~~~~~--~~gs~iivTtR~~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~--~  320 (512)
                      |. +|||||||||||+..+|+.++.|++  .+||+|++|||+..|+...++....+++..|++++||.||++.++..  .
T Consensus       258 L~-~krfllvLDDIW~~~dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m~~~~~~~v~~L~~~eaW~LF~~~v~~~~~~  336 (889)
T KOG4658|consen  258 LE-GKRFLLVLDDIWEEVDWDKIGVPFPSRENGSKVVLTTRSEEVCGRAMGVDYPIEVECLTPEEAWDLFQKKVGPNTLG  336 (889)
T ss_pred             hc-cCceEEEEecccccccHHhcCCCCCCccCCeEEEEEeccHhhhhccccCCccccccccCccccHHHHHHhhcccccc
Confidence            76 6999999999999999999988888  57899999999999987668888999999999999999999999743  3


Q ss_pred             CCchhHHHHHHHHHHcCCChhHHHHHHHHhccC-CHHHHHHHHHHhcCCCCCCCCcchHHHHhHHHHHHhccchhhhhcc
Q 010355          321 ENNDLKSLAMNIVKACRGLPIAIVTIARALRNK-NTFEWKSALRELTRPSSGSFSGVAAEAYKTSELSYNHLEGALKTAR  399 (512)
Q Consensus       321 ~~~~~~~~~~~I~~~~~GlPLai~~ia~~L~~~-~~~~w~~~l~~l~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~k~cf  399 (512)
                      ..+.++.+|++++++|+|+|||+.++|+.|+.| +..+|+++.+.+.+....+.++....++.+|.+||++||+++|.||
T Consensus       337 ~~~~i~~lak~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~~l~s~~~~~~~~~~~~i~~iLklSyd~L~~~lK~CF  416 (889)
T KOG4658|consen  337 SHPDIEELAKEVAEKCGGLPLALNVLGGLLACKKTVQEWRRALNVLKSSLAADFSGMEESILPILKLSYDNLPEELKSCF  416 (889)
T ss_pred             ccccHHHHHHHHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHccccccccCCCCchhhhhHHhhhccHhhhhHHHHHHH
Confidence            334588999999999999999999999999988 8889999999998886666677788999999999999999999999


Q ss_pred             c--cccc-ccchhh----hHhhccccccccchhHHHHHhhhhhhhhhhhhcCCCcccccchhhhccCCcCCCCCC
Q 010355          400 L--RAVP-NWELDE----EYCWAGDLNTTLQHLNEKMAKRRMTEVEYESEMSTSEEIEEEEEEENAERPMILLDT  467 (512)
Q Consensus       400 l--~~fp-~~~i~~----~~~~~~g~~~~~~~l~e~~~~~~~~~~~~~~~~~~~~e~~e~~~~e~~~~~~~~~~~  467 (512)
                      +  +.|| +|.|++    .+|+|+||+...                  ....+.++++.+|..+++.+++.....
T Consensus       417 LycalFPED~~I~~e~Li~yWiaEGfi~~~------------------~~~~~~~d~G~~~i~~LV~~~Ll~~~~  473 (889)
T KOG4658|consen  417 LYCALFPEDYEIKKEKLIEYWIAEGFIDPL------------------DGGETAEDVGYDYIEELVRASLLIEER  473 (889)
T ss_pred             HhhccCCcccccchHHHHHHHHhccCcCcc------------------ccccchhcchHHHHHHHHHHHHHhhcc
Confidence            9  5568 999998    999999997551                  223456677888888888887776543

>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=2.1e-42  Score=337.80  Aligned_cols=267  Identities=31%  Similarity=0.487  Sum_probs=209.4

Q ss_pred             chHHHHHHHHHhcC--CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC-
Q 010355          154 RMSTLNDVINALKN--PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFY-  230 (512)
Q Consensus       154 R~~~l~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~-  230 (512)
                      |+.++++|.++|..  .+.++|+|+|+||+||||||.+++++...+.+|+.++|+.++...+...++..|+.+++.... 
T Consensus         1 re~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~~   80 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDSS   80 (287)
T ss_dssp             -HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-ST
T ss_pred             CHHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeecccccccccccccccccccccccccccccccccccccccccc
Confidence            78899999999997  789999999999999999999999886677889999999999999999999999999988743 


Q ss_pred             ---CCCchHHHHHHHHHHhCCCeEEEEEeCCCChhhhhhhCCCCC--CCCeEEEEEeCCcchhccccCCccceecCCCCH
Q 010355          231 ---EESESGRARKLCERLKKEKKILVILDDIWTNLDLENVGIPFG--VRGCRVLMTARSQDVLSSKMDCQNNFLIGVLNE  305 (512)
Q Consensus       231 ---~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~~~~l~~~~~--~~gs~iivTtR~~~v~~~~~~~~~~~~l~~L~~  305 (512)
                         ..........+.+.|. ++++||||||||+...|..+..++.  ..|++||||||+..++.........++|++|+.
T Consensus        81 ~~~~~~~~~~~~~l~~~L~-~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~~l~~L~~  159 (287)
T PF00931_consen   81 ISDPKDIEELQDQLRELLK-DKRCLLVLDDVWDEEDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVIELEPLSE  159 (287)
T ss_dssp             SSCCSSHHHHHHHHHHHHC-CTSEEEEEEEE-SHHHH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEEECSS--H
T ss_pred             cccccccccccccchhhhc-cccceeeeeeeccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence               2344456677777776 4799999999999999987755544  568999999999987643333367899999999


Q ss_pred             HHHHHHHHHHhCCCC--CCchhHHHHHHHHHHcCCChhHHHHHHHHhccC-CHHHHHHHHHHhcCCCCCCCCcchHHHHh
Q 010355          306 SEARDLFKKLVGDKI--ENNDLKSLAMNIVKACRGLPIAIVTIARALRNK-NTFEWKSALRELTRPSSGSFSGVAAEAYK  382 (512)
Q Consensus       306 ~ea~~Lf~~~~~~~~--~~~~~~~~~~~I~~~~~GlPLai~~ia~~L~~~-~~~~w~~~l~~l~~~~~~~~~~~~~~~~~  382 (512)
                      ++|++||.+.++...  ..+.+.+.+++|+++|+|+||||.++|++|+.+ +..+|..+++++...... ..+....+..
T Consensus       160 ~ea~~L~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~~~~-~~~~~~~~~~  238 (287)
T PF00931_consen  160 EEALELFKKRAGRKESESPEDLEDLAKEIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELENSLRE-SRDYDRSVFS  238 (287)
T ss_dssp             HHHHHHHHHHHTSHS----TTSCTHHHHHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHCHTC-SSGSCHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-cccccccccc
Confidence            999999999997433  334456789999999999999999999999754 788999999887665432 2224688999


Q ss_pred             HHHHHHhccchhhhhccc--cccc-ccchhh----hHhhcccccccc
Q 010355          383 TSELSYNHLEGALKTARL--RAVP-NWELDE----EYCWAGDLNTTL  422 (512)
Q Consensus       383 ~l~~sy~~L~~~~k~cfl--~~fp-~~~i~~----~~~~~~g~~~~~  422 (512)
                      ++.+||+.||+++|.||+  ++|| ++.|++    .+|+++|++...
T Consensus       239 ~l~~s~~~L~~~~~~~f~~L~~f~~~~~i~~~~li~lW~~e~~i~~~  285 (287)
T PF00931_consen  239 ALELSYDSLPDELRRCFLYLSIFPEGVPIPRERLIRLWVAEGFISSK  285 (287)
T ss_dssp             HHHHHHHSSHTCCHHHHHHGGGSGTTS-EEHHHHHHHHTT-HHTC--
T ss_pred             cceechhcCCccHHHHHhhCcCCCCCceECHHHHHHHHHHCCCCccc
Confidence            999999999999999999  7777 888887    999999998764

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=5.8e-33  Score=315.73  Aligned_cols=278  Identities=18%  Similarity=0.259  Sum_probs=215.5

Q ss_pred             cCccccccchHHHHHHHHHhc--CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEe---CCCC--------
Q 010355          146 KGYEAFESRMSTLNDVINALK--NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEV---SQRP--------  212 (512)
Q Consensus       146 ~~~~~~~gR~~~l~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~---~~~~--------  212 (512)
                      .....++||+..+++|..+|.  ...+++|+|+||||+||||||+.+|+...  ..|++.+|+..   +...        
T Consensus       181 ~~~~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~~l~--~~F~g~vfv~~~~v~~~~~~~~~~~~  258 (1153)
T PLN03210        181 NDFEDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSRLS--RQFQSSVFIDRAFISKSMEIYSSANP  258 (1153)
T ss_pred             cccccccchHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHHHHh--hcCCeEEEeeccccccchhhcccccc
Confidence            345679999999999998886  45789999999999999999999999876  56888887742   1110        


Q ss_pred             ---C-HHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChhhhhhhCCCCC--CCCeEEEEEeCCcc
Q 010355          213 ---D-VKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNLDLENVGIPFG--VRGCRVLMTARSQD  286 (512)
Q Consensus       213 ---~-~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~~~~l~~~~~--~~gs~iivTtR~~~  286 (512)
                         . ...+...++..+.......  ......+.+++. ++|+||||||||+..+|+.+.....  ++||+||||||+..
T Consensus       259 ~~~~~~~~l~~~~l~~il~~~~~~--~~~~~~~~~~L~-~krvLLVLDdv~~~~~l~~L~~~~~~~~~GsrIIiTTrd~~  335 (1153)
T PLN03210        259 DDYNMKLHLQRAFLSEILDKKDIK--IYHLGAMEERLK-HRKVLIFIDDLDDQDVLDALAGQTQWFGSGSRIIVITKDKH  335 (1153)
T ss_pred             cccchhHHHHHHHHHHHhCCCCcc--cCCHHHHHHHHh-CCeEEEEEeCCCCHHHHHHHHhhCccCCCCcEEEEEeCcHH
Confidence               0 1223344444332111100  001234556665 6899999999999999888854333  68999999999998


Q ss_pred             hhccccCCccceecCCCCHHHHHHHHHHHhCCCC-CCchhHHHHHHHHHHcCCChhHHHHHHHHhccCCHHHHHHHHHHh
Q 010355          287 VLSSKMDCQNNFLIGVLNESEARDLFKKLVGDKI-ENNDLKSLAMNIVKACRGLPIAIVTIARALRNKNTFEWKSALREL  365 (512)
Q Consensus       287 v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~-~~~~~~~~~~~I~~~~~GlPLai~~ia~~L~~~~~~~w~~~l~~l  365 (512)
                      ++.. .+...+|++..|+.++||+||+++++... ++..+.+++++|+++|+|+||||+++|++|++++..+|..++.+|
T Consensus       336 vl~~-~~~~~~~~v~~l~~~ea~~LF~~~Af~~~~~~~~~~~l~~~iv~~c~GLPLAl~vlgs~L~~k~~~~W~~~l~~L  414 (1153)
T PLN03210        336 FLRA-HGIDHIYEVCLPSNELALEMFCRSAFKKNSPPDGFMELASEVALRAGNLPLGLNVLGSYLRGRDKEDWMDMLPRL  414 (1153)
T ss_pred             HHHh-cCCCeEEEecCCCHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHhCCCcHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            8642 34557899999999999999999998543 445678899999999999999999999999999999999999998


Q ss_pred             cCCCCCCCCcchHHHHhHHHHHHhccch-hhhhccc--ccc-cccchhh-hHhhccccccccchhHHHHHhhhhhh
Q 010355          366 TRPSSGSFSGVAAEAYKTSELSYNHLEG-ALKTARL--RAV-PNWELDE-EYCWAGDLNTTLQHLNEKMAKRRMTE  436 (512)
Q Consensus       366 ~~~~~~~~~~~~~~~~~~l~~sy~~L~~-~~k~cfl--~~f-p~~~i~~-~~~~~~g~~~~~~~l~e~~~~~~~~~  436 (512)
                      ....       ...+..+|++||+.|++ ..|.||+  |+| +++.++. ..|++.+.......+..++.+.++..
T Consensus       415 ~~~~-------~~~I~~~L~~SYd~L~~~~~k~~Fl~ia~ff~~~~~~~v~~~l~~~~~~~~~~l~~L~~ksLi~~  483 (1153)
T PLN03210        415 RNGL-------DGKIEKTLRVSYDGLNNKKDKAIFRHIACLFNGEKVNDIKLLLANSDLDVNIGLKNLVDKSLIHV  483 (1153)
T ss_pred             HhCc-------cHHHHHHHHHhhhccCccchhhhhheehhhcCCCCHHHHHHHHHhcCCCchhChHHHHhcCCEEE
Confidence            7532       35789999999999987 5899999  666 5888888 88888887777777888888876643

syringae 6; Provisional

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

Probab=99.43  E-value=3.5e-11  Score=116.19  Aligned_cols=181  Identities=17%  Similarity=0.226  Sum_probs=115.9

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHH---
Q 010355          167 NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCE---  243 (512)
Q Consensus       167 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~---  243 (512)
                      ..+.++++|+|++|+|||||++.+++...... + .++|+ +....+..+++..|+..++.+............+..   
T Consensus        40 ~~~~~~~~l~G~~G~GKTtl~~~l~~~l~~~~-~-~~~~~-~~~~~~~~~~l~~i~~~lG~~~~~~~~~~~~~~l~~~l~  116 (269)
T TIGR03015        40 SQREGFILITGEVGAGKTTLIRNLLKRLDQER-V-VAAKL-VNTRVDAEDLLRMVAADFGLETEGRDKAALLRELEDFLI  116 (269)
T ss_pred             hcCCCEEEEEcCCCCCHHHHHHHHHHhcCCCC-e-EEeee-eCCCCCHHHHHHHHHHHcCCCCCCCCHHHHHHHHHHHHH
Confidence            34457899999999999999999998865321 1 22233 333457788999999999886544333333333333   


Q ss_pred             -HHhCCCeEEEEEeCCCChh--hhhhhCCCC--C---CCCeEEEEEeCCcchh--c------cccCCccceecCCCCHHH
Q 010355          244 -RLKKEKKILVILDDIWTNL--DLENVGIPF--G---VRGCRVLMTARSQDVL--S------SKMDCQNNFLIGVLNESE  307 (512)
Q Consensus       244 -~l~~~k~~LlVlDdv~~~~--~~~~l~~~~--~---~~gs~iivTtR~~~v~--~------~~~~~~~~~~l~~L~~~e  307 (512)
                       ....+++++||+|+++...  .+..+....  .   .....|++|.......  .      ........+.+++|+.++
T Consensus       117 ~~~~~~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~~~~~~l~~~~~~~l~~r~~~~~~l~~l~~~e  196 (269)
T TIGR03015       117 EQFAAGKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPEFRETLQSPQLQQLRQRIIASCHLGPLDREE  196 (269)
T ss_pred             HHHhCCCCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCHHHHHHHcCchhHHHHhheeeeeeCCCCCHHH
Confidence             3345788999999998643  333332111  1   2233455665432110  0      001113467899999999


Q ss_pred             HHHHHHHHhCCC---CCCchhHHHHHHHHHHcCCChhHHHHHHHHh
Q 010355          308 ARDLFKKLVGDK---IENNDLKSLAMNIVKACRGLPIAIVTIARAL  350 (512)
Q Consensus       308 a~~Lf~~~~~~~---~~~~~~~~~~~~I~~~~~GlPLai~~ia~~L  350 (512)
                      ...++...+...   ....-..+..+.|++.|+|.|..|..++..+
T Consensus       197 ~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~  242 (269)
T TIGR03015       197 TREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRL  242 (269)
T ss_pred             HHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHH
Confidence            999998776421   1112234688999999999999999999887

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.

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.42  E-value=3.9e-11  Score=122.57  Aligned_cols=236  Identities=18%  Similarity=0.083  Sum_probs=147.8

Q ss_pred             ccccccchHHHHHHHHHhc----CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHH
Q 010355          148 YEAFESRMSTLNDVINALK----NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIAD  223 (512)
Q Consensus       148 ~~~~~gR~~~l~~l~~~L~----~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~  223 (512)
                      +..|+||+.++++|...+.    ....+.+.|+|++|+|||++++.+++........-.++++++....+...++..|+.
T Consensus        29 P~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~i~~  108 (394)
T PRK00411         29 PENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSEIAR  108 (394)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHHHHH
Confidence            4568999999999988874    344567899999999999999999998765432345677777777788899999999


Q ss_pred             HhCC-CCCC--CCchHHHHHHHHHHhC-CCeEEEEEeCCCChh------hhhhhC-CCCCCC--CeEEEEEeCCcchhcc
Q 010355          224 KLGL-KFYE--ESESGRARKLCERLKK-EKKILVILDDIWTNL------DLENVG-IPFGVR--GCRVLMTARSQDVLSS  290 (512)
Q Consensus       224 ~l~~-~~~~--~~~~~~~~~l~~~l~~-~k~~LlVlDdv~~~~------~~~~l~-~~~~~~--gs~iivTtR~~~v~~~  290 (512)
                      +++. ..+.  .+.......+.+.+.. +++++||||+++...      .+..+. .....+  +..+|.++....+...
T Consensus       109 ~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~~~~~~v~vI~i~~~~~~~~~  188 (394)
T PRK00411        109 QLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHEEYPGARIGVIGISSDLTFLYI  188 (394)
T ss_pred             HhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhhccCCCeEEEEEEECCcchhhh
Confidence            9865 2221  2234455666666653 467899999997643      222221 111112  3336666665432211


Q ss_pred             ------ccCCccceecCCCCHHHHHHHHHHHhCCC----CCCchhHHHHHHHHHH----cCCChhHHHHHHHHhc-----
Q 010355          291 ------KMDCQNNFLIGVLNESEARDLFKKLVGDK----IENNDLKSLAMNIVKA----CRGLPIAIVTIARALR-----  351 (512)
Q Consensus       291 ------~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~----~~~~~~~~~~~~I~~~----~~GlPLai~~ia~~L~-----  351 (512)
                            ..-....+.+.|++.++..+++..++...    ...   .+....|++.    .|..+.|+.++-....     
T Consensus       189 l~~~~~s~~~~~~i~f~py~~~e~~~il~~r~~~~~~~~~~~---~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~  265 (394)
T PRK00411        189 LDPRVKSVFRPEEIYFPPYTADEIFDILKDRVEEGFYPGVVD---DEVLDLIADLTAREHGDARVAIDLLRRAGLIAERE  265 (394)
T ss_pred             cCHHHHhcCCcceeecCCCCHHHHHHHHHHHHHhhcccCCCC---HhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHc
Confidence                  01112467999999999999998876311    112   2333444444    4557777777654321     


Q ss_pred             cC---CHHHHHHHHHHhcCCCCCCCCcchHHHHhHHHHHHhccchhhhhccc
Q 010355          352 NK---NTFEWKSALRELTRPSSGSFSGVAAEAYKTSELSYNHLEGALKTARL  400 (512)
Q Consensus       352 ~~---~~~~w~~~l~~l~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~k~cfl  400 (512)
                      +.   +...+..++..+.              ...+.-.+..||.+.|..+.
T Consensus       266 ~~~~I~~~~v~~a~~~~~--------------~~~~~~~~~~L~~~~k~~L~  303 (394)
T PRK00411        266 GSRKVTEEDVRKAYEKSE--------------IVHLSEVLRTLPLHEKLLLR  303 (394)
T ss_pred             CCCCcCHHHHHHHHHHHH--------------HHHHHHHHhcCCHHHHHHHH
Confidence            11   5556666665531              12234457788888775555

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.40  E-value=1.4e-11  Score=139.54  Aligned_cols=241  Identities=15%  Similarity=0.150  Sum_probs=149.7

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCC-CCCHHHHHHHHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQ-RPDVKKIQGQIAD  223 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~ll~~i~~  223 (512)
                      |+.+..++-|..-++.|-.   ....+++.|+|++|.||||++.+++..      +..++|+++.. ..++..++..++.
T Consensus        10 p~~~~~~~~R~rl~~~l~~---~~~~~~~~v~apaG~GKTtl~~~~~~~------~~~~~w~~l~~~d~~~~~f~~~l~~   80 (903)
T PRK04841         10 PVRLHNTVVRERLLAKLSG---ANNYRLVLVTSPAGYGKTTLISQWAAG------KNNLGWYSLDESDNQPERFASYLIA   80 (903)
T ss_pred             CCCccccCcchHHHHHHhc---ccCCCeEEEECCCCCCHHHHHHHHHHh------CCCeEEEecCcccCCHHHHHHHHHH
Confidence            3445567788776665542   235789999999999999999998853      22689999964 4566777777777


Q ss_pred             HhCCCCCC--------------CCchHHHHHHHHHHhC-CCeEEEEEeCCCChh------hhhhhCCCCCCCCeEEEEEe
Q 010355          224 KLGLKFYE--------------ESESGRARKLCERLKK-EKKILVILDDIWTNL------DLENVGIPFGVRGCRVLMTA  282 (512)
Q Consensus       224 ~l~~~~~~--------------~~~~~~~~~l~~~l~~-~k~~LlVlDdv~~~~------~~~~l~~~~~~~gs~iivTt  282 (512)
                      .++.....              .........+...+.. +.+++|||||+....      .+..+ .....++.++||||
T Consensus        81 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l-~~~~~~~~~lv~~s  159 (903)
T PRK04841         81 ALQQATNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFF-LRHQPENLTLVVLS  159 (903)
T ss_pred             HHHHhcCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHH-HHhCCCCeEEEEEe
Confidence            77421111              1111233445555543 679999999996532      12222 11124667888999


Q ss_pred             CCcchhcc--ccCCccceecC----CCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHHHHhccCCHH
Q 010355          283 RSQDVLSS--KMDCQNNFLIG----VLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARALRNKNTF  356 (512)
Q Consensus       283 R~~~v~~~--~~~~~~~~~l~----~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~~L~~~~~~  356 (512)
                      |.......  .........+.    +|+.+++..||....+....    ...+..|++.|+|+|+++..++..+......
T Consensus       160 R~~~~~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~~~~~~----~~~~~~l~~~t~Gwp~~l~l~~~~~~~~~~~  235 (903)
T PRK04841        160 RNLPPLGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRLSSPIE----AAESSRLCDDVEGWATALQLIALSARQNNSS  235 (903)
T ss_pred             CCCCCCchHhHHhcCcceecCHHhCCCCHHHHHHHHHhccCCCCC----HHHHHHHHHHhCChHHHHHHHHHHHhhCCCc
Confidence            98532110  00112234455    99999999999887764332    3457789999999999999998877543210


Q ss_pred             HHHHHHHHhcCCCCCCCCcchHHHHhHHHH-HHhccchhhhhccc--ccccccc
Q 010355          357 EWKSALRELTRPSSGSFSGVAAEAYKTSEL-SYNHLEGALKTARL--RAVPNWE  407 (512)
Q Consensus       357 ~w~~~l~~l~~~~~~~~~~~~~~~~~~l~~-sy~~L~~~~k~cfl--~~fp~~~  407 (512)
                       .......+...   .    ...+...|.- .|..||+..+..++  ++++.+.
T Consensus       236 -~~~~~~~~~~~---~----~~~~~~~l~~~v~~~l~~~~~~~l~~~a~~~~~~  281 (903)
T PRK04841        236 -LHDSARRLAGI---N----ASHLSDYLVEEVLDNVDLETRHFLLRCSVLRSMN  281 (903)
T ss_pred             -hhhhhHhhcCC---C----chhHHHHHHHHHHhcCCHHHHHHHHHhcccccCC
Confidence             01111111100   0    1234444433 47899999999888  6666554

>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=99.39  E-value=1.8e-12  Score=122.22  Aligned_cols=192  Identities=22%  Similarity=0.311  Sum_probs=104.9

Q ss_pred             cccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHH---------
Q 010355          151 FESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQI---------  221 (512)
Q Consensus       151 ~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i---------  221 (512)
                      |+||+++++.|.+++..+..+.+.|+|+.|+|||+|++.+.+..... .+ .++|+........ ..+..+         
T Consensus         1 F~gR~~el~~l~~~l~~~~~~~~~l~G~rg~GKTsLl~~~~~~~~~~-~~-~~~y~~~~~~~~~-~~~~~~~~~~~~~~~   77 (234)
T PF01637_consen    1 FFGREKELEKLKELLESGPSQHILLYGPRGSGKTSLLKEFINELKEK-GY-KVVYIDFLEESNE-SSLRSFIEETSLADE   77 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH--SSEEEEEESTTSSHHHHHHHHHHHCT---EE-CCCHHCCTTBSHH-HHHHHHHHHHHHHCH
T ss_pred             CCCHHHHHHHHHHHHHhhcCcEEEEEcCCcCCHHHHHHHHHHHhhhc-CC-cEEEEecccchhh-hHHHHHHHHHHHHHH
Confidence            78999999999999887667899999999999999999999987432 11 3444444333322 222222         


Q ss_pred             -HHHhCCCCC-----------CCCchHHHHHHHHHHhC-CCeEEEEEeCCCChh-h----------hhhh-CCCCCCCCe
Q 010355          222 -ADKLGLKFY-----------EESESGRARKLCERLKK-EKKILVILDDIWTNL-D----------LENV-GIPFGVRGC  276 (512)
Q Consensus       222 -~~~l~~~~~-----------~~~~~~~~~~l~~~l~~-~k~~LlVlDdv~~~~-~----------~~~l-~~~~~~~gs  276 (512)
                       ...++....           ..........+.+.+.. +++++||+|++.... .          +..+ .......+.
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             111211111           11223345566666653 346999999996554 1          1111 111113344


Q ss_pred             EEEEEeCCcchhcc-------ccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHH
Q 010355          277 RVLMTARSQDVLSS-------KMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVT  345 (512)
Q Consensus       277 ~iivTtR~~~v~~~-------~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~  345 (512)
                      .+|+++........       ..+....+.|++|+.+++++++...+.....-+.-.....+|+..+||+|..|..
T Consensus       158 ~~v~~~S~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~e~~~~~~~~~~~~~~~~~~~~~~~~i~~~~gG~P~~l~~  233 (234)
T PF01637_consen  158 SIVITGSSDSLMEEFLDDKSPLFGRFSHIELKPLSKEEAREFLKELFKELIKLPFSDEDIEEIYSLTGGNPRYLQE  233 (234)
T ss_dssp             EEEEEESSHHHHHHTT-TTSTTTT---EEEE----HHHHHHHHHHHHHCC------HHHHHHHHHHHTT-HHHHHH
T ss_pred             eEEEECCchHHHHHhhcccCccccccceEEEeeCCHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHhCCCHHHHhc
Confidence            45555544332211       2334456999999999999999997643311111245679999999999998865

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

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.36  E-value=1.9e-10  Score=116.21  Aligned_cols=238  Identities=16%  Similarity=0.160  Sum_probs=145.2

Q ss_pred             cccccchHHHHHHHHHhc----CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcC-CC---CeEEEEEeCCCCCHHHHHHH
Q 010355          149 EAFESRMSTLNDVINALK----NPDVHMIGAYGMAGVGKTMLVKEVARQAKADK-LF---DEVVYAEVSQRPDVKKIQGQ  220 (512)
Q Consensus       149 ~~~~gR~~~l~~l~~~L~----~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~-~f---~~~~wv~~~~~~~~~~ll~~  220 (512)
                      ..|+||+.+++.|..+|.    ....+.+.|+|++|+|||++++.+++...... ..   -.++|+++....+...++..
T Consensus        15 ~~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~~~~   94 (365)
T TIGR02928        15 DRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQVLVE   94 (365)
T ss_pred             CCCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHHHHH
Confidence            468999999999998876    34457899999999999999999998764311 11   24678888777788899999


Q ss_pred             HHHHh---CCCCCC--CCchHHHHHHHHHHh-CCCeEEEEEeCCCChh-----hhhhh-CC--CCC--CCCeEEEEEeCC
Q 010355          221 IADKL---GLKFYE--ESESGRARKLCERLK-KEKKILVILDDIWTNL-----DLENV-GI--PFG--VRGCRVLMTARS  284 (512)
Q Consensus       221 i~~~l---~~~~~~--~~~~~~~~~l~~~l~-~~k~~LlVlDdv~~~~-----~~~~l-~~--~~~--~~gs~iivTtR~  284 (512)
                      |+.++   +...+.  .+.......+.+.+. .+++++||||+++...     .+..+ ..  ...  +....+|++|..
T Consensus        95 i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~~~~~~~v~lI~i~n~  174 (365)
T TIGR02928        95 LANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVGDDDDLLYQLSRARSNGDLDNAKVGVIGISND  174 (365)
T ss_pred             HHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhccCCcHHHHhHhccccccCCCCCeEEEEEEECC
Confidence            99988   443222  223344556666664 3568999999997652     12222 11  111  234455556654


Q ss_pred             cchhc----cccC--CccceecCCCCHHHHHHHHHHHhC---C-CCCCchhHHHHHHHHHHcCCChhHHHHHH-HHh--c
Q 010355          285 QDVLS----SKMD--CQNNFLIGVLNESEARDLFKKLVG---D-KIENNDLKSLAMNIVKACRGLPIAIVTIA-RAL--R  351 (512)
Q Consensus       285 ~~v~~----~~~~--~~~~~~l~~L~~~ea~~Lf~~~~~---~-~~~~~~~~~~~~~I~~~~~GlPLai~~ia-~~L--~  351 (512)
                      .....    ....  ....+.++|++.++..+++..++.   . ....+...+.+..++..+.|.|..+..+. ...  .
T Consensus       175 ~~~~~~l~~~~~s~~~~~~i~f~p~~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~al~~l~~a~~~a  254 (365)
T TIGR02928       175 LKFRENLDPRVKSSLCEEEIIFPPYDAEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKAIDLLRVAGEIA  254 (365)
T ss_pred             cchHhhcCHHHhccCCcceeeeCCCCHHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHHHHHHHHHHHHHH
Confidence            43210    0001  124688999999999999998763   1 11223333445567777788885443322 211  1


Q ss_pred             ---c---CCHHHHHHHHHHhcCCCCCCCCcchHHHHhHHHHHHhccchhhhhccc
Q 010355          352 ---N---KNTFEWKSALRELTRPSSGSFSGVAAEAYKTSELSYNHLEGALKTARL  400 (512)
Q Consensus       352 ---~---~~~~~w~~~l~~l~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~k~cfl  400 (512)
                         +   -+......+.+.+.              .....-++..||.+.+.++.
T Consensus       255 ~~~~~~~it~~~v~~a~~~~~--------------~~~~~~~i~~l~~~~~~~l~  295 (365)
T TIGR02928       255 EREGAERVTEDHVEKAQEKIE--------------KDRLLELIRGLPTHSKLVLL  295 (365)
T ss_pred             HHcCCCCCCHHHHHHHHHHHH--------------HHHHHHHHHcCCHHHHHHHH
Confidence               1   14444444444431              12234466788887775544

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.

>PF05729 NACHT: NACHT domain

Probab=99.30  E-value=3e-11  Score=107.39  Aligned_cols=142  Identities=19%  Similarity=0.294  Sum_probs=91.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCC----CCeEEEEEeCCCCCHH---HHHHHHHHHhCCCCCCCCchHHHHHHHH
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKL----FDEVVYAEVSQRPDVK---KIQGQIADKLGLKFYEESESGRARKLCE  243 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~----f~~~~wv~~~~~~~~~---~ll~~i~~~l~~~~~~~~~~~~~~~l~~  243 (512)
                      +++.|+|.+|+||||+++.++........    +..++|+..+......   .+...|..++.......     ...+..
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~-----~~~~~~   75 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESIAPI-----EELLQE   75 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccchhhh-----HHHHHH
Confidence            57999999999999999999988776543    3456677765543322   33333433332211111     112333


Q ss_pred             HHhCCCeEEEEEeCCCChhh-------------hhhhCCCCCCCCeEEEEEeCCcch--hccccCCccceecCCCCHHHH
Q 010355          244 RLKKEKKILVILDDIWTNLD-------------LENVGIPFGVRGCRVLMTARSQDV--LSSKMDCQNNFLIGVLNESEA  308 (512)
Q Consensus       244 ~l~~~k~~LlVlDdv~~~~~-------------~~~l~~~~~~~gs~iivTtR~~~v--~~~~~~~~~~~~l~~L~~~ea  308 (512)
                      .+...++++||||+++....             +..+......+++++|||+|....  ..........+.+.+|+.++.
T Consensus        76 ~~~~~~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~~~~~  155 (166)
T PF05729_consen   76 LLEKNKRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFSEEDI  155 (166)
T ss_pred             HHHcCCceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCCHHHH
Confidence            34456899999999964321             112211111568999999998876  222334446899999999999


Q ss_pred             HHHHHHHhC
Q 010355          309 RDLFKKLVG  317 (512)
Q Consensus       309 ~~Lf~~~~~  317 (512)
                      .+++.+++.
T Consensus       156 ~~~~~~~f~  164 (166)
T PF05729_consen  156 KQYLRKYFS  164 (166)
T ss_pred             HHHHHHHhh
Confidence            999988763

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.19  E-value=9.1e-10  Score=108.37  Aligned_cols=265  Identities=12%  Similarity=0.046  Sum_probs=137.2

Q ss_pred             ccccccchHHHHHHHHHhc-----CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHH
Q 010355          148 YEAFESRMSTLNDVINALK-----NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIA  222 (512)
Q Consensus       148 ~~~~~gR~~~l~~l~~~L~-----~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~  222 (512)
                      ...|+|++..++.|..++.     ....+.+.|+|++|+|||+||+.+++.....  +   ..+..+....... +...+
T Consensus         3 ~~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~~~~--~---~~~~~~~~~~~~~-l~~~l   76 (305)
T TIGR00635         3 LAEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMGVN--L---KITSGPALEKPGD-LAAIL   76 (305)
T ss_pred             HHHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCC--E---EEeccchhcCchh-HHHHH
Confidence            3579999999999888876     3345678999999999999999999877532  1   1222221112222 22222


Q ss_pred             HHhCCCC----C--CCCchHHHHHHHHHHhCCCeEEEEEeCCCChhhhhhhCCCCCCCCeEEEEEeCCcchhccccC-Cc
Q 010355          223 DKLGLKF----Y--EESESGRARKLCERLKKEKKILVILDDIWTNLDLENVGIPFGVRGCRVLMTARSQDVLSSKMD-CQ  295 (512)
Q Consensus       223 ~~l~~~~----~--~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~~~~l~~~~~~~gs~iivTtR~~~v~~~~~~-~~  295 (512)
                      ..++...    +  ..-.......++..+. +.+..+|++...+...+...   . .+.+-|..||+...+...... ..
T Consensus        77 ~~~~~~~vl~iDEi~~l~~~~~e~l~~~~~-~~~~~~v~~~~~~~~~~~~~---~-~~~~li~~t~~~~~l~~~l~sR~~  151 (305)
T TIGR00635        77 TNLEEGDVLFIDEIHRLSPAVEELLYPAME-DFRLDIVIGKGPSARSVRLD---L-PPFTLVGATTRAGMLTSPLRDRFG  151 (305)
T ss_pred             HhcccCCEEEEehHhhhCHHHHHHhhHHHh-hhheeeeeccCccccceeec---C-CCeEEEEecCCccccCHHHHhhcc
Confidence            2232110    0  0000111122333332 23455556555443333221   1 234556667776443221111 23


Q ss_pred             cceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHHHHhccCCHHHHHHHHHHhcCCCCCCCCc
Q 010355          296 NNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARALRNKNTFEWKSALRELTRPSSGSFSG  375 (512)
Q Consensus       296 ~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~~L~~~~~~~w~~~l~~l~~~~~~~~~~  375 (512)
                      ..+.+.+++.++..+++.+.+..... .--.+....|++.|+|.|..+..+...+       |... ........ .. .
T Consensus       152 ~~~~l~~l~~~e~~~il~~~~~~~~~-~~~~~al~~ia~~~~G~pR~~~~ll~~~-------~~~a-~~~~~~~i-t~-~  220 (305)
T TIGR00635       152 IILRLEFYTVEELAEIVSRSAGLLNV-EIEPEAALEIARRSRGTPRIANRLLRRV-------RDFA-QVRGQKII-NR-D  220 (305)
T ss_pred             eEEEeCCCCHHHHHHHHHHHHHHhCC-CcCHHHHHHHHHHhCCCcchHHHHHHHH-------HHHH-HHcCCCCc-CH-H
Confidence            46789999999999999988753211 1123567899999999997765555432       1111 00011000 00 0


Q ss_pred             chHHHHhHHHHHHhccchhhhhccc---cccc--ccchhh-hHhhccccccccchhH-HHHHhhhh
Q 010355          376 VAAEAYKTSELSYNHLEGALKTARL---RAVP--NWELDE-EYCWAGDLNTTLQHLN-EKMAKRRM  434 (512)
Q Consensus       376 ~~~~~~~~l~~sy~~L~~~~k~cfl---~~fp--~~~i~~-~~~~~~g~~~~~~~l~-e~~~~~~~  434 (512)
                      ........+...|..|+++.+..|.   .+++  .+.+.. ...++..-......++ .++.++++
T Consensus       221 ~v~~~l~~l~~~~~~l~~~~~~~L~al~~~~~~~~~~~~~ia~~lg~~~~~~~~~~e~~Li~~~li  286 (305)
T TIGR00635       221 IALKALEMLMIDELGLDEIDRKLLSVLIEQFQGGPVGLKTLAAALGEDADTIEDVYEPYLLQIGFL  286 (305)
T ss_pred             HHHHHHHHhCCCCCCCCHHHHHHHHHHHHHhCCCcccHHHHHHHhCCCcchHHHhhhHHHHHcCCc
Confidence            0122222245566777777665443   4553  344444 4444444444444444 24444433

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.

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

Probab=99.14  E-value=8.9e-10  Score=106.42  Aligned_cols=174  Identities=17%  Similarity=0.188  Sum_probs=107.8

Q ss_pred             ccCccccccchHHH---HHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHH
Q 010355          145 IKGYEAFESRMSTL---NDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQI  221 (512)
Q Consensus       145 ~~~~~~~~gR~~~l---~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i  221 (512)
                      |.....++|.+..+   .-|..++..+++....+||++|+||||||+.++.....  .|     ..++...+-..-++.+
T Consensus        20 P~~lde~vGQ~HLlg~~~~lrr~v~~~~l~SmIl~GPPG~GKTTlA~liA~~~~~--~f-----~~~sAv~~gvkdlr~i   92 (436)
T COG2256          20 PKSLDEVVGQEHLLGEGKPLRRAVEAGHLHSMILWGPPGTGKTTLARLIAGTTNA--AF-----EALSAVTSGVKDLREI   92 (436)
T ss_pred             CCCHHHhcChHhhhCCCchHHHHHhcCCCceeEEECCCCCCHHHHHHHHHHhhCC--ce-----EEeccccccHHHHHHH
Confidence            44455666666544   23455666788899999999999999999999987653  23     3333332222222222


Q ss_pred             HHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChhh-hhhhCCCCCCCCeEEEE--EeCCcchh--ccccCCcc
Q 010355          222 ADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNLD-LENVGIPFGVRGCRVLM--TARSQDVL--SSKMDCQN  296 (512)
Q Consensus       222 ~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~-~~~l~~~~~~~gs~iiv--TtR~~~v~--~~~~~~~~  296 (512)
                      +                ..-.+.+..+++.+|++|.|..... -+...+|.-.+|..|+|  ||-++...  ....+...
T Consensus        93 ~----------------e~a~~~~~~gr~tiLflDEIHRfnK~QQD~lLp~vE~G~iilIGATTENPsF~ln~ALlSR~~  156 (436)
T COG2256          93 I----------------EEARKNRLLGRRTILFLDEIHRFNKAQQDALLPHVENGTIILIGATTENPSFELNPALLSRAR  156 (436)
T ss_pred             H----------------HHHHHHHhcCCceEEEEehhhhcChhhhhhhhhhhcCCeEEEEeccCCCCCeeecHHHhhhhh
Confidence            2                2222333347899999999975432 22233666678887777  44444321  22345668


Q ss_pred             ceecCCCCHHHHHHHHHHHhC-CCC--C--Cc-hhHHHHHHHHHHcCCChh
Q 010355          297 NFLIGVLNESEARDLFKKLVG-DKI--E--NN-DLKSLAMNIVKACRGLPI  341 (512)
Q Consensus       297 ~~~l~~L~~~ea~~Lf~~~~~-~~~--~--~~-~~~~~~~~I~~~~~GlPL  341 (512)
                      ++.+++|+.++...++.+.+- ...  .  .. --.+...-|+..++|--.
T Consensus       157 vf~lk~L~~~di~~~l~ra~~~~~rgl~~~~~~i~~~a~~~l~~~s~GD~R  207 (436)
T COG2256         157 VFELKPLSSEDIKKLLKRALLDEERGLGGQIIVLDEEALDYLVRLSNGDAR  207 (436)
T ss_pred             eeeeecCCHHHHHHHHHHHHhhhhcCCCcccccCCHHHHHHHHHhcCchHH
Confidence            999999999999999998442 111  0  01 113466678888887544

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.13  E-value=2.5e-09  Score=106.11  Aligned_cols=193  Identities=13%  Similarity=0.063  Sum_probs=106.2

Q ss_pred             ccCccccccchHHHHHHHHHhc-----CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALK-----NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQG  219 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~-----~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~  219 (512)
                      |.....|+||+..++.+..++.     ....+.+.|+|++|+|||+||+.+++.....  +   .++..+. ......+.
T Consensus        21 P~~~~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l~~~--~---~~~~~~~-~~~~~~l~   94 (328)
T PRK00080         21 PKSLDEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEMGVN--I---RITSGPA-LEKPGDLA   94 (328)
T ss_pred             cCCHHHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHhCCC--e---EEEeccc-ccChHHHH
Confidence            4566789999999988877665     3345688999999999999999999987532  1   1222221 11112222


Q ss_pred             HHHHHhCCCC----CC-CC-chHHHHHHHHHHhCCCeEEEEEeCCCChhhhhhhCCCCCCCCeEEEEEeCCcchhccccC
Q 010355          220 QIADKLGLKF----YE-ES-ESGRARKLCERLKKEKKILVILDDIWTNLDLENVGIPFGVRGCRVLMTARSQDVLSSKMD  293 (512)
Q Consensus       220 ~i~~~l~~~~----~~-~~-~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~~~~l~~~~~~~gs~iivTtR~~~v~~~~~~  293 (512)
                      .++..++...    +. .. .......+...+. ..+..+|+++..+...+... .   .+.+-|..|++...+......
T Consensus        95 ~~l~~l~~~~vl~IDEi~~l~~~~~e~l~~~~e-~~~~~~~l~~~~~~~~~~~~-l---~~~~li~at~~~~~l~~~L~s  169 (328)
T PRK00080         95 AILTNLEEGDVLFIDEIHRLSPVVEEILYPAME-DFRLDIMIGKGPAARSIRLD-L---PPFTLIGATTRAGLLTSPLRD  169 (328)
T ss_pred             HHHHhcccCCEEEEecHhhcchHHHHHHHHHHH-hcceeeeeccCccccceeec-C---CCceEEeecCCcccCCHHHHH
Confidence            3333322110    00 00 0001111222222 23344444443322221111 1   124556666665443221111


Q ss_pred             -CccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHHHH
Q 010355          294 -CQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARA  349 (512)
Q Consensus       294 -~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~~  349 (512)
                       ....+.+.+++.++..+++.+.+..... .--.+.+..|++.|+|.|-.+..+...
T Consensus       170 Rf~~~~~l~~~~~~e~~~il~~~~~~~~~-~~~~~~~~~ia~~~~G~pR~a~~~l~~  225 (328)
T PRK00080        170 RFGIVQRLEFYTVEELEKIVKRSARILGV-EIDEEGALEIARRSRGTPRIANRLLRR  225 (328)
T ss_pred             hcCeeeecCCCCHHHHHHHHHHHHHHcCC-CcCHHHHHHHHHHcCCCchHHHHHHHH
Confidence             1346899999999999999988753221 112357889999999999655555543

>COG3899 Predicted ATPase [General function prediction only]

Probab=99.08  E-value=1.5e-09  Score=119.44  Aligned_cols=253  Identities=16%  Similarity=0.247  Sum_probs=151.7

Q ss_pred             ccccchHHHHHHHHHhc---CCCceEEEEEcCCCCcHHHHHHHHHHhhhhc-CCCCeEEEEEeCCCCC---HHHHHHHHH
Q 010355          150 AFESRMSTLNDVINALK---NPDVHMIGAYGMAGVGKTMLVKEVARQAKAD-KLFDEVVYAEVSQRPD---VKKIQGQIA  222 (512)
Q Consensus       150 ~~~gR~~~l~~l~~~L~---~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~-~~f~~~~wv~~~~~~~---~~~ll~~i~  222 (512)
                      +++||+.+++.|...+.   .+...++.|.|.+|||||+|+++|......+ ..|-...+-....+..   ..+.+++++
T Consensus         1 ~l~GRe~ev~~Ll~~f~~v~~g~~~~~lv~G~sGIGKsalv~ev~~~i~~~~~~~i~~~f~q~~~~ipl~~lvq~~r~l~   80 (849)
T COG3899           1 PLYGRETELAQLLAAFDRVSKGRGEVVLVAGESGIGKSALVNEVHKPITQQRGYFIKGKFDQFERNIPLSPLVQAFRDLM   80 (849)
T ss_pred             CCCchHhHHHHHHHHHHHHhCCCeEEEEEeecCCCcHHHHHHHHHHHHhccceeeeHhhcccccCCCchHHHHHHHHHHH
Confidence            36899999999998886   5567899999999999999999999887643 2221111111222221   122223332


Q ss_pred             HHh-------------------CCCC------------------CC-----CCchHH-----HHHHHHHHhCCCeEEEEE
Q 010355          223 DKL-------------------GLKF------------------YE-----ESESGR-----ARKLCERLKKEKKILVIL  255 (512)
Q Consensus       223 ~~l-------------------~~~~------------------~~-----~~~~~~-----~~~l~~~l~~~k~~LlVl  255 (512)
                      .++                   |...                  +.     ......     ...+.......+|.++|+
T Consensus        81 ~~ll~~~~~~~~~~~~~il~~~g~~~~~~~~vip~L~~i~g~~~~~~el~~~~~~~r~n~~~~~~i~~~~~~~~plVi~l  160 (849)
T COG3899          81 GQLLSESDTRILSWRARLLAALGENGQVIIDVIPELELIIGKRPPALELSPTAAQNRFNLAFLRFIQVFTAEEHPLVIVL  160 (849)
T ss_pred             HHHhhccchHHHHHHHHHHHHhcccchhHHhhhHHHHhhcCCCcchhhcccchhHHHHHHHHHHHHHHHHhccCCeEEEE
Confidence            222                   2110                  00     000011     122333334567999999


Q ss_pred             eCC-CCh-hhhhhhCCCCC--------CCCeEEEEEeCCc-chhccccCCccceecCCCCHHHHHHHHHHHhCCCCCCch
Q 010355          256 DDI-WTN-LDLENVGIPFG--------VRGCRVLMTARSQ-DVLSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENND  324 (512)
Q Consensus       256 Ddv-~~~-~~~~~l~~~~~--------~~gs~iivTtR~~-~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~  324 (512)
                      ||+ |-. ..+..+.....        .+..-.+.|.+.. ............|.|.||+..+...|....++.....+ 
T Consensus       161 eDlhWaD~~SL~lL~~lm~~~~~~~~~~n~v~~~h~~~~~~~~~~~~~~~i~~I~L~PL~~~d~~~lV~~~l~~~~~~~-  239 (849)
T COG3899         161 EDLHWADSASLKLLQLLMDRIAIGAYRDNEVLLLHPLRPTLGEILKSATNITTITLAPLSRADTNQLVAATLGCTKLLP-  239 (849)
T ss_pred             ecccccChhHHHHHHHHHHhcchhhhhccccccCCCccchhhHHhhcCCceeEEecCcCchhhHHHHHHHHhCCccccc-
Confidence            999 532 22222211100        1112223333332 11122345567999999999999999999987533222 


Q ss_pred             hHHHHHHHHHHcCCChhHHHHHHHHhccC-------CHHHHHHHHHHhcCCCCCCCCcchHHHHhHHHHHHhccchhhhh
Q 010355          325 LKSLAMNIVKACRGLPIAIVTIARALRNK-------NTFEWKSALRELTRPSSGSFSGVAAEAYKTSELSYNHLEGALKT  397 (512)
Q Consensus       325 ~~~~~~~I~~~~~GlPLai~~ia~~L~~~-------~~~~w~~~l~~l~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~k~  397 (512)
                       .+....|+++..|+|+.+..+-..|...       ....|..-...+..      .+....+...|..-.+.||...|.
T Consensus       240 -~p~~~~i~~kt~GnPfFi~e~lk~l~~~~~i~f~~~~~~w~~~~~~i~~------~~~~~~vv~~l~~rl~kL~~~t~~  312 (849)
T COG3899         240 -APLLELIFEKTKGNPFFIEEFLKALYEEGLLVFNFDTGAWQCSIASLGI------LATTDAVVEFLAARLQKLPGTTRE  312 (849)
T ss_pred             -chHHHHHHHHhcCCCccHHHHHHHHHhCCeeEecCCCcceeccHHhcCC------chhhHHHHHHHHHHHhcCCHHHHH
Confidence             3578899999999999999999998742       33445433333322      112344667799999999999998


Q ss_pred             ccc--ccc-cccchhh
Q 010355          398 ARL--RAV-PNWELDE  410 (512)
Q Consensus       398 cfl--~~f-p~~~i~~  410 (512)
                      .+.  +++ +.|+.+.
T Consensus       313 Vl~~AA~iG~~F~l~~  328 (849)
T COG3899         313 VLKAAACIGNRFDLDT  328 (849)
T ss_pred             HHHHHHHhCccCCHHH
Confidence            777  666 5666655

>PRK13342 recombination factor protein RarA; Reviewed

Probab=99.08  E-value=2.5e-09  Score=109.30  Aligned_cols=182  Identities=14%  Similarity=0.172  Sum_probs=109.9

Q ss_pred             ccCccccccchHHHHH---HHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHH
Q 010355          145 IKGYEAFESRMSTLND---VINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQI  221 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~---l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i  221 (512)
                      |.....|+|+...+..   |..++.....+.+.|+|++|+||||||+.+++....  .     |+.++....-..-++.+
T Consensus         8 P~~l~d~vGq~~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKTtLA~~ia~~~~~--~-----~~~l~a~~~~~~~ir~i   80 (413)
T PRK13342          8 PKTLDEVVGQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLARIIAGATDA--P-----FEALSAVTSGVKDLREV   80 (413)
T ss_pred             CCCHHHhcCcHHHhCcchHHHHHHHcCCCceEEEECCCCCCHHHHHHHHHHHhCC--C-----EEEEecccccHHHHHHH
Confidence            3445678898887666   777777777788999999999999999999987642  2     22222221111112222


Q ss_pred             HHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh--hhhhhCCCCCCCCeEEEEE--eCCcch--hccccCCc
Q 010355          222 ADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL--DLENVGIPFGVRGCRVLMT--ARSQDV--LSSKMDCQ  295 (512)
Q Consensus       222 ~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~--~~~~l~~~~~~~gs~iivT--tR~~~v--~~~~~~~~  295 (512)
                      +..                .......+++.+|+||+++...  ....+. +.-..+..++|.  |.+...  ........
T Consensus        81 i~~----------------~~~~~~~g~~~vL~IDEi~~l~~~~q~~LL-~~le~~~iilI~att~n~~~~l~~aL~SR~  143 (413)
T PRK13342         81 IEE----------------ARQRRSAGRRTILFIDEIHRFNKAQQDALL-PHVEDGTITLIGATTENPSFEVNPALLSRA  143 (413)
T ss_pred             HHH----------------HHHhhhcCCceEEEEechhhhCHHHHHHHH-HHhhcCcEEEEEeCCCChhhhccHHHhccc
Confidence            211                1111223578999999998542  333331 212234444443  333221  11122334


Q ss_pred             cceecCCCCHHHHHHHHHHHhCCC-CCC-chhHHHHHHHHHHcCCChhHHHHHHHHh
Q 010355          296 NNFLIGVLNESEARDLFKKLVGDK-IEN-NDLKSLAMNIVKACRGLPIAIVTIARAL  350 (512)
Q Consensus       296 ~~~~l~~L~~~ea~~Lf~~~~~~~-~~~-~~~~~~~~~I~~~~~GlPLai~~ia~~L  350 (512)
                      ..+.+.+++.++...++.+.+... ... .-..+....|++.|+|.|..+..+...+
T Consensus       144 ~~~~~~~ls~e~i~~lL~~~l~~~~~~~i~i~~~al~~l~~~s~Gd~R~aln~Le~~  200 (413)
T PRK13342        144 QVFELKPLSEEDIEQLLKRALEDKERGLVELDDEALDALARLANGDARRALNLLELA  200 (413)
T ss_pred             eeeEeCCCCHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            689999999999999999876421 111 2224567889999999998775554443

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=98.99  E-value=1.2e-08  Score=107.29  Aligned_cols=234  Identities=18%  Similarity=0.145  Sum_probs=148.8

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCC-CCHHHHHHHHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQR-PDVKKIQGQIAD  223 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-~~~~~ll~~i~~  223 (512)
                      |..+...+-|..-++.|..   ..+.+.+.|.-|+|.|||||+.+++....   .-..+.|.++... .++..++..++.
T Consensus        15 P~~~~~~v~R~rL~~~L~~---~~~~RL~li~APAGfGKttl~aq~~~~~~---~~~~v~Wlslde~dndp~rF~~yLi~   88 (894)
T COG2909          15 PVRPDNYVVRPRLLDRLRR---ANDYRLILISAPAGFGKTTLLAQWRELAA---DGAAVAWLSLDESDNDPARFLSYLIA   88 (894)
T ss_pred             CCCcccccccHHHHHHHhc---CCCceEEEEeCCCCCcHHHHHHHHHHhcC---cccceeEeecCCccCCHHHHHHHHHH
Confidence            3445566777655544332   34789999999999999999999987433   2457899999754 578889999988


Q ss_pred             HhCCCCCCCC--------------chHHHHHHHHHHhC-CCeEEEEEeCCCChh------hhhhhCCCCCCCCeEEEEEe
Q 010355          224 KLGLKFYEES--------------ESGRARKLCERLKK-EKKILVILDDIWTNL------DLENVGIPFGVRGCRVLMTA  282 (512)
Q Consensus       224 ~l~~~~~~~~--------------~~~~~~~l~~~l~~-~k~~LlVlDdv~~~~------~~~~l~~~~~~~gs~iivTt  282 (512)
                      .++.-.+...              ....+..++..+.. .+++++||||..-..      .+..+ +....++..+||||
T Consensus        89 al~~~~p~~~~~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fL-l~~~P~~l~lvv~S  167 (894)
T COG2909          89 ALQQATPTLGDEAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFL-LKHAPENLTLVVTS  167 (894)
T ss_pred             HHHHhCccccHHHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHH-HHhCCCCeEEEEEe
Confidence            8863322211              11234455555542 478999999985331      22222 22225788999999


Q ss_pred             CCcchhcc--ccCCccceecC----CCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHHHHhccC-CH
Q 010355          283 RSQDVLSS--KMDCQNNFLIG----VLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARALRNK-NT  355 (512)
Q Consensus       283 R~~~v~~~--~~~~~~~~~l~----~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~~L~~~-~~  355 (512)
                      |+..-...  ..-....+++.    .|+.+|+.+||....+....    ..-++.|++...|-+-|+.+++=.+++. +.
T Consensus       168 R~rP~l~la~lRlr~~llEi~~~~Lrf~~eE~~~fl~~~~~l~Ld----~~~~~~L~~~teGW~~al~L~aLa~~~~~~~  243 (894)
T COG2909         168 RSRPQLGLARLRLRDELLEIGSEELRFDTEEAAAFLNDRGSLPLD----AADLKALYDRTEGWAAALQLIALALRNNTSA  243 (894)
T ss_pred             ccCCCCcccceeehhhHHhcChHhhcCChHHHHHHHHHcCCCCCC----hHHHHHHHhhcccHHHHHHHHHHHccCCCcH
Confidence            99864311  01112233343    58999999999988654333    2357789999999999999999888733 33


Q ss_pred             HHHHHHHHHhcCCCCCCCCcchHHHHhH-HHHHHhccchhhhhccc
Q 010355          356 FEWKSALRELTRPSSGSFSGVAAEAYKT-SELSYNHLEGALKTARL  400 (512)
Q Consensus       356 ~~w~~~l~~l~~~~~~~~~~~~~~~~~~-l~~sy~~L~~~~k~cfl  400 (512)
                      +.-...++.           ....+... ..--++.||+++|..++
T Consensus       244 ~q~~~~LsG-----------~~~~l~dYL~eeVld~Lp~~l~~FLl  278 (894)
T COG2909         244 EQSLRGLSG-----------AASHLSDYLVEEVLDRLPPELRDFLL  278 (894)
T ss_pred             HHHhhhccc-----------hHHHHHHHHHHHHHhcCCHHHHHHHH
Confidence            322221111           11222222 23346788888887777

>PRK06893 DNA replication initiation factor; Validated

Probab=98.95  E-value=1.3e-08  Score=95.38  Aligned_cols=154  Identities=16%  Similarity=0.162  Sum_probs=94.2

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhC
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKK  247 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~  247 (512)
                      ...+.+.|+|++|+|||+|++.+++....+  ...+.|+.+....   ...                    ..+.+.+. 
T Consensus        37 ~~~~~l~l~G~~G~GKThL~~ai~~~~~~~--~~~~~y~~~~~~~---~~~--------------------~~~~~~~~-   90 (229)
T PRK06893         37 LQQPFFYIWGGKSSGKSHLLKAVSNHYLLN--QRTAIYIPLSKSQ---YFS--------------------PAVLENLE-   90 (229)
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHHHHHHHc--CCCeEEeeHHHhh---hhh--------------------HHHHhhcc-
Confidence            344678999999999999999999987543  3455677653210   000                    11222232 


Q ss_pred             CCeEEEEEeCCCCh---hhhhh-hCCCCC---CCCeEEEEEeCCc----------chhccccCCccceecCCCCHHHHHH
Q 010355          248 EKKILVILDDIWTN---LDLEN-VGIPFG---VRGCRVLMTARSQ----------DVLSSKMDCQNNFLIGVLNESEARD  310 (512)
Q Consensus       248 ~k~~LlVlDdv~~~---~~~~~-l~~~~~---~~gs~iivTtR~~----------~v~~~~~~~~~~~~l~~L~~~ea~~  310 (512)
                       +.-+|||||++..   ..|.. +...+.   ..|..+||+|.+.          .+.. .+.....+++++++.++.++
T Consensus        91 -~~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~~l~~~~~~L~s-Rl~~g~~~~l~~pd~e~~~~  168 (229)
T PRK06893         91 -QQDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPHALSIKLPDLAS-RLTWGEIYQLNDLTDEQKII  168 (229)
T ss_pred             -cCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChHHccccchhHHH-HHhcCCeeeCCCCCHHHHHH
Confidence             3459999999863   23332 111111   3455565544433          1211 12334688999999999999


Q ss_pred             HHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHHHHh
Q 010355          311 LFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARAL  350 (512)
Q Consensus       311 Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~~L  350 (512)
                      ++.+.+..... .--.++..-|++.+.|..-.+..+-..|
T Consensus       169 iL~~~a~~~~l-~l~~~v~~~L~~~~~~d~r~l~~~l~~l  207 (229)
T PRK06893        169 VLQRNAYQRGI-ELSDEVANFLLKRLDRDMHTLFDALDLL  207 (229)
T ss_pred             HHHHHHHHcCC-CCCHHHHHHHHHhccCCHHHHHHHHHHH
Confidence            99988753221 1124677889999988877766555544

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=98.93  E-value=1.1e-07  Score=100.94  Aligned_cols=169  Identities=16%  Similarity=0.131  Sum_probs=105.8

Q ss_pred             ccccccchHHHHHHHHHhc----CC-CceEEEEEcCCCCcHHHHHHHHHHhhhhc---CCC--CeEEEEEeCCCCCHHHH
Q 010355          148 YEAFESRMSTLNDVINALK----NP-DVHMIGAYGMAGVGKTMLVKEVARQAKAD---KLF--DEVVYAEVSQRPDVKKI  217 (512)
Q Consensus       148 ~~~~~gR~~~l~~l~~~L~----~~-~~~vi~I~G~gGiGKTtLa~~v~~~~~~~---~~f--~~~~wv~~~~~~~~~~l  217 (512)
                      |..+.||+.++++|...|.    .. ...++.|+|++|+|||++++.|...+...   ...  -.+++|++....++..+
T Consensus       754 PD~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~sI  833 (1164)
T PTZ00112        754 PKYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPNAA  833 (1164)
T ss_pred             CCcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHHHH
Confidence            4568899999999988776    22 23567899999999999999998876431   111  23677887777788899


Q ss_pred             HHHHHHHhCCCCCC--CCchHHHHHHHHHHhC--CCeEEEEEeCCCChhh-----hhh-hCCCCCCCCeEEEE--EeCCc
Q 010355          218 QGQIADKLGLKFYE--ESESGRARKLCERLKK--EKKILVILDDIWTNLD-----LEN-VGIPFGVRGCRVLM--TARSQ  285 (512)
Q Consensus       218 l~~i~~~l~~~~~~--~~~~~~~~~l~~~l~~--~k~~LlVlDdv~~~~~-----~~~-l~~~~~~~gs~iiv--TtR~~  285 (512)
                      +..|..+|....+.  ......+..++..+..  ....+||||+|.....     +-. +..+. ..+++|+|  +|...
T Consensus       834 YqvI~qqL~g~~P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK~QDVLYnLFR~~~-~s~SKLiLIGISNdl  912 (1164)
T PTZ00112        834 YQVLYKQLFNKKPPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITKTQKVLFTLFDWPT-KINSKLVLIAISNTM  912 (1164)
T ss_pred             HHHHHHHHcCCCCCccccHHHHHHHHHhhhhcccccceEEEeehHhhhCccHHHHHHHHHHHhh-ccCCeEEEEEecCch
Confidence            99999888433322  2223445566655532  2346999999974421     111 11121 23444443  34322


Q ss_pred             chh----cccc--CCccceecCCCCHHHHHHHHHHHhC
Q 010355          286 DVL----SSKM--DCQNNFLIGVLNESEARDLFKKLVG  317 (512)
Q Consensus       286 ~v~----~~~~--~~~~~~~l~~L~~~ea~~Lf~~~~~  317 (512)
                      ...    ....  -....+...|++.++-..++..++.
T Consensus       913 DLperLdPRLRSRLg~eeIvF~PYTaEQL~dILk~RAe  950 (1164)
T PTZ00112        913 DLPERLIPRCRSRLAFGRLVFSPYKGDEIEKIIKERLE  950 (1164)
T ss_pred             hcchhhhhhhhhccccccccCCCCCHHHHHHHHHHHHH
Confidence            111    1100  1123467799999999999998875

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

Probab=98.91  E-value=4.6e-09  Score=89.47  Aligned_cols=116  Identities=22%  Similarity=0.335  Sum_probs=82.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhc---CCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCC-CCchHHHHHHHHH
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKAD---KLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYE-ESESGRARKLCER  244 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~---~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~-~~~~~~~~~l~~~  244 (512)
                      +.+++.|+|.+|+|||++++.+++.....   ..-..++|+.++...+...+...|+..++..... .+.......+.+.
T Consensus         3 ~~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~~   82 (131)
T PF13401_consen    3 SQRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQTSDELRSLLIDA   82 (131)
T ss_dssp             ----EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHHH
T ss_pred             CCcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCCHHHHHHHHHHH
Confidence            35789999999999999999999876421   0134577999988889999999999999987666 4556667788888


Q ss_pred             HhCCCeEEEEEeCCCCh---hhhhhhCCCCCCCCeEEEEEeCC
Q 010355          245 LKKEKKILVILDDIWTN---LDLENVGIPFGVRGCRVLMTARS  284 (512)
Q Consensus       245 l~~~k~~LlVlDdv~~~---~~~~~l~~~~~~~gs~iivTtR~  284 (512)
                      +.+.+..+||||++...   ..+..+.......+.+||++.+.
T Consensus        83 l~~~~~~~lviDe~~~l~~~~~l~~l~~l~~~~~~~vvl~G~~  125 (131)
T PF13401_consen   83 LDRRRVVLLVIDEADHLFSDEFLEFLRSLLNESNIKVVLVGTP  125 (131)
T ss_dssp             HHHCTEEEEEEETTHHHHTHHHHHHHHHHTCSCBEEEEEEESS
T ss_pred             HHhcCCeEEEEeChHhcCCHHHHHHHHHHHhCCCCeEEEEECh
Confidence            87766789999999654   22333322223667788888775

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=98.88  E-value=7.4e-08  Score=101.61  Aligned_cols=182  Identities=13%  Similarity=0.169  Sum_probs=113.8

Q ss_pred             ccCccccccchHHHHHHHHHhcCCC-ceEEEEEcCCCCcHHHHHHHHHHhhhhcC-------------------CCCeEE
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPD-VHMIGAYGMAGVGKTMLVKEVARQAKADK-------------------LFDEVV  204 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~-------------------~f~~~~  204 (512)
                      |.....++|.+..++.|.+++..++ .+.+.++|..|+||||+|+.+++.+.-..                   .|..++
T Consensus        12 PqtFdEVIGQe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~sCr~I~~G~h~Dvi   91 (830)
T PRK07003         12 PKDFASLVGQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRACREIDEGRFVDYV   91 (830)
T ss_pred             CCcHHHHcCcHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHHHHHHhcCCCceEE
Confidence            4456678999999999999998765 45668999999999999999988764211                   111223


Q ss_pred             EEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHh----CCCeEEEEEeCCCChh--hhhhhCCCCC--CCCe
Q 010355          205 YAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLK----KEKKILVILDDIWTNL--DLENVGIPFG--VRGC  276 (512)
Q Consensus       205 wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~~--~~~~l~~~~~--~~gs  276 (512)
                      +++.+......                     .+..+.+.+.    .++.-++|||++....  .++.+.-.+.  ..++
T Consensus        92 EIDAas~rgVD---------------------dIReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v  150 (830)
T PRK07003         92 EMDAASNRGVD---------------------EMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHV  150 (830)
T ss_pred             EecccccccHH---------------------HHHHHHHHHHhccccCCceEEEEeChhhCCHHHHHHHHHHHHhcCCCe
Confidence            33322222221                     1222222221    2455688999997553  3444421111  4577


Q ss_pred             EEEEEeCCcchh-ccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCCh-hHHHHHHH
Q 010355          277 RVLMTARSQDVL-SSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLP-IAIVTIAR  348 (512)
Q Consensus       277 ~iivTtR~~~v~-~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlP-Lai~~ia~  348 (512)
                      ++|+||++..-. .........+.+++|+.++....+.+.+...... --.+....|++.++|.. -||.++-.
T Consensus       151 ~FILaTtd~~KIp~TIrSRCq~f~Fk~Ls~eeIv~~L~~Il~~EgI~-id~eAL~lIA~~A~GsmRdALsLLdQ  223 (830)
T PRK07003        151 KFILATTDPQKIPVTVLSRCLQFNLKQMPAGHIVSHLERILGEERIA-FEPQALRLLARAAQGSMRDALSLTDQ  223 (830)
T ss_pred             EEEEEECChhhccchhhhheEEEecCCcCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            888877765432 2233445789999999999999999887532211 12356788999998865 45555433

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.87  E-value=1.5e-07  Score=101.19  Aligned_cols=182  Identities=15%  Similarity=0.196  Sum_probs=109.1

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCceE-EEEEcCCCCcHHHHHHHHHHhhhhcCC-------------------CCeEE
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDVHM-IGAYGMAGVGKTMLVKEVARQAKADKL-------------------FDEVV  204 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~~v-i~I~G~gGiGKTtLa~~v~~~~~~~~~-------------------f~~~~  204 (512)
                      |.....++|.+..+..|.+++..++.+- +.++|+.|+||||+|+.+++...-...                   |.-++
T Consensus        12 P~tFddIIGQe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~~Dvi   91 (944)
T PRK14949         12 PATFEQMVGQSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSCVEIAQGRFVDLI   91 (944)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHHHHHhcCCCceEE
Confidence            3456678999999999999988766654 589999999999999999987642111                   11112


Q ss_pred             EEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCCh--hhhhhhCCCCC--CCCeEEEE
Q 010355          205 YAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTN--LDLENVGIPFG--VRGCRVLM  280 (512)
Q Consensus       205 wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~l~~~~~--~~gs~iiv  280 (512)
                      ++.......+.. ++.|...+                ...-..+++-++|||++...  ..++.+.-.+-  ..++++|+
T Consensus        92 EidAas~~kVDd-IReLie~v----------------~~~P~~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFIL  154 (944)
T PRK14949         92 EVDAASRTKVDD-TRELLDNV----------------QYRPSRGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFLL  154 (944)
T ss_pred             EeccccccCHHH-HHHHHHHH----------------HhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEEEE
Confidence            222211111111 12222211                11111356789999999754  33444321111  34566666


Q ss_pred             EeCCc-chhccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHH
Q 010355          281 TARSQ-DVLSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIV  344 (512)
Q Consensus       281 TtR~~-~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~  344 (512)
                      +|... .+..........|++.+|+.++...++.+.+..... .--.+.+..|++.++|.|.-+.
T Consensus       155 aTTe~~kLl~TIlSRCq~f~fkpLs~eEI~~~L~~il~~EgI-~~edeAL~lIA~~S~Gd~R~AL  218 (944)
T PRK14949        155 ATTDPQKLPVTVLSRCLQFNLKSLTQDEIGTQLNHILTQEQL-PFEAEALTLLAKAANGSMRDAL  218 (944)
T ss_pred             ECCCchhchHHHHHhheEEeCCCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHH
Confidence            55543 333222344578999999999999999887643211 1123467788889999876433

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=98.86  E-value=8.7e-08  Score=95.73  Aligned_cols=203  Identities=15%  Similarity=0.115  Sum_probs=113.5

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCC-HHHHHH---H
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPD-VKKIQG---Q  220 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~-~~~ll~---~  220 (512)
                      |.....|+|+...++.|..++..+..+.+.|+|++|+||||+|+.+++.......-...+.++++.... ....+.   .
T Consensus        11 P~~~~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~   90 (337)
T PRK12402         11 PALLEDILGQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELYGDPWENNFTEFNVADFFDQGKKYLVEDPR   90 (337)
T ss_pred             CCcHHHhcCCHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhcCcccccceEEechhhhhhcchhhhhcCcc
Confidence            344567899999999999998877767889999999999999999998764321112234454432110 000000   0


Q ss_pred             HHHHhCCC-CCCCCchHHHHHHHHHHhC-----CCeEEEEEeCCCChh--hhhhhCCCC--CCCCeEEEEEeCCcc-hhc
Q 010355          221 IADKLGLK-FYEESESGRARKLCERLKK-----EKKILVILDDIWTNL--DLENVGIPF--GVRGCRVLMTARSQD-VLS  289 (512)
Q Consensus       221 i~~~l~~~-~~~~~~~~~~~~l~~~l~~-----~k~~LlVlDdv~~~~--~~~~l~~~~--~~~gs~iivTtR~~~-v~~  289 (512)
                      ....++.. ............+.+....     ..+-+||||++....  ....+...+  ....+++|+||.... +..
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~~~~  170 (337)
T PRK12402         91 FAHFLGTDKRIRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQPSKLIP  170 (337)
T ss_pred             hhhhhhhhhhhccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCHHHHHHHHHHHHhccCCCeEEEEeCChhhCch
Confidence            00000000 0001111222233222211     234589999996442  122221111  134567887775432 211


Q ss_pred             cccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHHH
Q 010355          290 SKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIAR  348 (512)
Q Consensus       290 ~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~  348 (512)
                      ........+.+.+++.++...++.+.+...... --.+.+..|++.++|.+-.+.....
T Consensus       171 ~L~sr~~~v~~~~~~~~~~~~~l~~~~~~~~~~-~~~~al~~l~~~~~gdlr~l~~~l~  228 (337)
T PRK12402        171 PIRSRCLPLFFRAPTDDELVDVLESIAEAEGVD-YDDDGLELIAYYAGGDLRKAILTLQ  228 (337)
T ss_pred             hhcCCceEEEecCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            122334678899999999999998876422211 1245778899999998776654443

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=98.85  E-value=2.7e-08  Score=93.34  Aligned_cols=169  Identities=15%  Similarity=0.171  Sum_probs=104.0

Q ss_pred             chHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCC
Q 010355          154 RMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEES  233 (512)
Q Consensus       154 R~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~  233 (512)
                      ....+..+..++.....+.+.|+|++|+|||+||+.+++.....  ....+++++..-..      ..            
T Consensus        22 ~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~~~~--~~~~~~i~~~~~~~------~~------------   81 (226)
T TIGR03420        22 NAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAAEER--GKSAIYLPLAELAQ------AD------------   81 (226)
T ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHHHhc--CCcEEEEeHHHHHH------hH------------
Confidence            45567777777666667889999999999999999999876532  34556665543211      00            


Q ss_pred             chHHHHHHHHHHhCCCeEEEEEeCCCChh---hhh-hhCCCC---CCCCeEEEEEeCCcchh--------ccccCCccce
Q 010355          234 ESGRARKLCERLKKEKKILVILDDIWTNL---DLE-NVGIPF---GVRGCRVLMTARSQDVL--------SSKMDCQNNF  298 (512)
Q Consensus       234 ~~~~~~~l~~~l~~~k~~LlVlDdv~~~~---~~~-~l~~~~---~~~gs~iivTtR~~~v~--------~~~~~~~~~~  298 (512)
                           ..+...+.  +.-+|||||+....   .|. .+...+   ...+.++|+||+.....        .........+
T Consensus        82 -----~~~~~~~~--~~~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~~L~~r~~~~~~i  154 (226)
T TIGR03420        82 -----PEVLEGLE--QADLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLPDLRTRLAWGLVF  154 (226)
T ss_pred             -----HHHHhhcc--cCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccHHHHHHHhcCeeE
Confidence                 01112222  23489999997542   222 221111   12345788888754311        0011123578


Q ss_pred             ecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHHHHh
Q 010355          299 LIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARAL  350 (512)
Q Consensus       299 ~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~~L  350 (512)
                      .+.+++.++...++...+..... .--.+....|.+.++|+|..+..+...+
T Consensus       155 ~l~~l~~~e~~~~l~~~~~~~~~-~~~~~~l~~L~~~~~gn~r~L~~~l~~~  205 (226)
T TIGR03420       155 QLPPLSDEEKIAALQSRAARRGL-QLPDEVADYLLRHGSRDMGSLMALLDAL  205 (226)
T ss_pred             ecCCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHhccCCHHHHHHHHHHH
Confidence            99999999999999876531111 1123567788889999998887775544

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.

>PTZ00202 tuzin; Provisional

Probab=98.84  E-value=1.9e-07  Score=92.26  Aligned_cols=167  Identities=16%  Similarity=0.205  Sum_probs=107.5

Q ss_pred             ccccccCccccccchHHHHHHHHHhcC---CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHH
Q 010355          141 WLTSIKGYEAFESRMSTLNDVINALKN---PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKI  217 (512)
Q Consensus       141 ~~~~~~~~~~~~gR~~~l~~l~~~L~~---~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~l  217 (512)
                      ....|+....|+||+.++..|...|.+   ...++++|.|++|+|||||++.+.....    + ..++++..   +..++
T Consensus       254 ~~~lPa~~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l~----~-~qL~vNpr---g~eEl  325 (550)
T PTZ00202        254 LQSAPAVIRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKEG----M-PAVFVDVR---GTEDT  325 (550)
T ss_pred             ccCCCCCccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcCC----c-eEEEECCC---CHHHH
Confidence            345677888999999999999998863   2346899999999999999999986654    1 13333333   77999


Q ss_pred             HHHHHHHhCCCCCCCCchHHHHHHHHHHh----C-CCeEEEEEeCC--CChh-hhhhh-CCCCCCCCeEEEEEeCCcchh
Q 010355          218 QGQIADKLGLKFYEESESGRARKLCERLK----K-EKKILVILDDI--WTNL-DLENV-GIPFGVRGCRVLMTARSQDVL  288 (512)
Q Consensus       218 l~~i~~~l~~~~~~~~~~~~~~~l~~~l~----~-~k~~LlVlDdv--~~~~-~~~~l-~~~~~~~gs~iivTtR~~~v~  288 (512)
                      ++.|+.+||.+.. .........+.+.+.    . +++.+||+==-  .+.. ..+.. .+.....-|+|++---.+.+.
T Consensus       326 Lr~LL~ALGV~p~-~~k~dLLrqIqeaLl~~~~e~GrtPVLII~lreg~~l~rvyne~v~la~drr~ch~v~evpleslt  404 (550)
T PTZ00202        326 LRSVVKALGVPNV-EACGDLLDFISEACRRAKKMNGETPLLVLKLREGSSLQRVYNEVVALACDRRLCHVVIEVPLESLT  404 (550)
T ss_pred             HHHHHHHcCCCCc-ccHHHHHHHHHHHHHHHHHhCCCCEEEEEEecCCCcHHHHHHHHHHHHccchhheeeeeehHhhcc
Confidence            9999999998432 222344444444443    2 56666665422  1111 11111 122223457777654443321


Q ss_pred             --ccccCCccceecCCCCHHHHHHHHHHHh
Q 010355          289 --SSKMDCQNNFLIGVLNESEARDLFKKLV  316 (512)
Q Consensus       289 --~~~~~~~~~~~l~~L~~~ea~~Lf~~~~  316 (512)
                        ....+....|.+++++..+|..+..+.+
T Consensus       405 ~~~~~lprldf~~vp~fsr~qaf~y~~h~~  434 (550)
T PTZ00202        405 IANTLLPRLDFYLVPNFSRSQAFAYTQHAI  434 (550)
T ss_pred             hhcccCccceeEecCCCCHHHHHHHHhhcc
Confidence              2234555788999999999998877654

>COG3903 Predicted ATPase [General function prediction only]

Probab=98.82  E-value=1.1e-08  Score=99.72  Aligned_cols=239  Identities=21%  Similarity=0.228  Sum_probs=160.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCC-CeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhC
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLF-DEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKK  247 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f-~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~  247 (512)
                      ..+.+.++|.|||||||++-++.. ..  .-| +.+.++...+..+...+.-.+...++......  ......+..++. 
T Consensus        13 ~~RlvtL~g~ggvgkttl~~~~a~-~~--~~~~~~v~~vdl~pitD~~~v~~~~ag~~gl~~~~g--~~~~~~~~~~~~-   86 (414)
T COG3903          13 ALRLVTLTGAGGVGKTTLALQAAH-AA--SEYADGVAFVDLAPITDPALVFPTLAGALGLHVQPG--DSAVDTLVRRIG-   86 (414)
T ss_pred             hhheeeeeccCccceehhhhhhHh-Hh--hhcccceeeeeccccCchhHhHHHHHhhcccccccc--hHHHHHHHHHHh-
Confidence            358899999999999999999998 44  336 56667777776677777766677787754331  223335555555 


Q ss_pred             CCeEEEEEeCCCChhh-hhhh--CCCCCCCCeEEEEEeCCcchhccccCCccceecCCCCHH-HHHHHHHHHhC----CC
Q 010355          248 EKKILVILDDIWTNLD-LENV--GIPFGVRGCRVLMTARSQDVLSSKMDCQNNFLIGVLNES-EARDLFKKLVG----DK  319 (512)
Q Consensus       248 ~k~~LlVlDdv~~~~~-~~~l--~~~~~~~gs~iivTtR~~~v~~~~~~~~~~~~l~~L~~~-ea~~Lf~~~~~----~~  319 (512)
                      .+|.++|+||...... ...+  .+....+.-.|+.|+|....    ........+.+|+.. ++.++|...+.    .-
T Consensus        87 ~rr~llvldncehl~~~~a~~i~all~~~~~~~~~atsre~~l----~~ge~~~~~~~L~~~d~a~~lf~~ra~~~~~~f  162 (414)
T COG3903          87 DRRALLVLDNCEHLLDACAALIVALLGACPRLAILATSREAIL----VAGEVHRRVPSLSLFDEAIELFVCRAVLVALSF  162 (414)
T ss_pred             hhhHHHHhcCcHHHHHHHHHHHHHHHccchhhhhHHHhHhhhc----ccccccccCCccccCCchhHHHHHHHHHhccce
Confidence            5899999999865422 1111  11112445568888887643    334566777888776 68888876653    11


Q ss_pred             CCCchhHHHHHHHHHHcCCChhHHHHHHHHhccCCHHHHHHHHHH----hcCCCCCCCCcchHHHHhHHHHHHhccchhh
Q 010355          320 IENNDLKSLAMNIVKACRGLPIAIVTIARALRNKNTFEWKSALRE----LTRPSSGSFSGVAAEAYKTSELSYNHLEGAL  395 (512)
Q Consensus       320 ~~~~~~~~~~~~I~~~~~GlPLai~~ia~~L~~~~~~~w~~~l~~----l~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~  395 (512)
                      ............|+++..|.|++|..+++..+...+.+....|+.    +... ........+.....|.+||.-|....
T Consensus       163 ~l~~~~~a~v~~icr~ldg~~laielaaarv~sl~~~~i~~~L~drf~ll~~~-~r~a~~~~qtl~asl~ws~~lLtgwe  241 (414)
T COG3903         163 WLTDDNAAAVAEICRRLDGIPLAIELAAARVRSLSPDEIAAGLRDRFRLLTGG-ARLAVLRQQTLRASLDWSYALLTGWE  241 (414)
T ss_pred             eecCCchHHHHHHHHHhhcchHHHHHHHHHHHhcCHHHHHHHHhhHHHHHhcc-cccchhHHHhccchhhhhhHhhhhHH
Confidence            112223457889999999999999999999998766655544432    3322 22333346788999999999999988


Q ss_pred             hhccc--cccc-ccchhhhHhhcccc
Q 010355          396 KTARL--RAVP-NWELDEEYCWAGDL  418 (512)
Q Consensus       396 k~cfl--~~fp-~~~i~~~~~~~~g~  418 (512)
                      +-.|-  +.|. .|.-....|.+.|-
T Consensus       242 ~~~~~rLa~~~g~f~~~l~~~~a~g~  267 (414)
T COG3903         242 RALFGRLAVFVGGFDLGLALAVAAGA  267 (414)
T ss_pred             HHHhcchhhhhhhhcccHHHHHhcCC
Confidence            87777  7775 66665555555543

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

Probab=98.81  E-value=4e-07  Score=90.63  Aligned_cols=195  Identities=23%  Similarity=0.299  Sum_probs=127.1

Q ss_pred             ccccchHHHHHHHHHhc----CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHh
Q 010355          150 AFESRMSTLNDVINALK----NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKL  225 (512)
Q Consensus       150 ~~~gR~~~l~~l~~~L~----~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l  225 (512)
                      .+.+|+.+++++...|.    +..+..+.|+|.+|+|||++++.++........-..+++|++....++..++..|+.++
T Consensus        18 ~l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i~~~~   97 (366)
T COG1474          18 ELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKILNKL   97 (366)
T ss_pred             cccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHHHHHc
Confidence            38899999999987765    44445599999999999999999999887542222278999999999999999999999


Q ss_pred             C-CCCCCCCchHHHHHHHHHHhC-CCeEEEEEeCCCChhhh-----hhh-CCCCCCCCeEEEE--EeCCcchh-------
Q 010355          226 G-LKFYEESESGRARKLCERLKK-EKKILVILDDIWTNLDL-----ENV-GIPFGVRGCRVLM--TARSQDVL-------  288 (512)
Q Consensus       226 ~-~~~~~~~~~~~~~~l~~~l~~-~k~~LlVlDdv~~~~~~-----~~l-~~~~~~~gs~iiv--TtR~~~v~-------  288 (512)
                      + .+....+..+....+.+.+.. ++.++||||++.....-     -.+ +.+. ...++|++  .+-.....       
T Consensus        98 ~~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~-~~~~~v~vi~i~n~~~~~~~ld~rv  176 (366)
T COG1474          98 GKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGEVLYSLLRAPG-ENKVKVSIIAVSNDDKFLDYLDPRV  176 (366)
T ss_pred             CCCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccchHHHHHHhhcc-ccceeEEEEEEeccHHHHHHhhhhh
Confidence            6 333335556667777777764 67899999999754322     122 2221 22444333  33322211       


Q ss_pred             ccccCCccceecCCCCHHHHHHHHHHHhC----CCCCCchhHHHHHHHHHHcCC-ChhHHHHH
Q 010355          289 SSKMDCQNNFLIGVLNESEARDLFKKLVG----DKIENNDLKSLAMNIVKACRG-LPIAIVTI  346 (512)
Q Consensus       289 ~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~----~~~~~~~~~~~~~~I~~~~~G-lPLai~~i  346 (512)
                      ....+. ..+..+|-+.++-...+..++.    .....+..-+.+..++..-+| .-.||.++
T Consensus       177 ~s~l~~-~~I~F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidil  238 (366)
T COG1474         177 KSSLGP-SEIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDIL  238 (366)
T ss_pred             hhccCc-ceeeeCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHH
Confidence            111222 3478899999999999988773    223334444444455555554 33444443

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=98.78  E-value=3.7e-07  Score=90.45  Aligned_cols=186  Identities=9%  Similarity=0.093  Sum_probs=108.4

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCC-eEEEEEeCCCCCHHHHHHHHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFD-EVVYAEVSQRPDVKKIQGQIAD  223 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~-~~~wv~~~~~~~~~~ll~~i~~  223 (512)
                      |.....++|+...++.|..++.....+.+.|+|++|+||||+|+.+++...... +. ..+-++.+...... .....+.
T Consensus        13 P~~~~~~~g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l~~~~-~~~~~i~~~~~~~~~~~-~~~~~i~   90 (319)
T PRK00440         13 PRTLDEIVGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELYGED-WRENFLELNASDERGID-VIRNKIK   90 (319)
T ss_pred             CCcHHHhcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHcCCc-cccceEEeccccccchH-HHHHHHH
Confidence            344567899999999999999877777789999999999999999998764321 21 11222222222221 1111111


Q ss_pred             HhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh--hhhhhC--CCCCCCCeEEEEEeCCcc-hhccccCCccce
Q 010355          224 KLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL--DLENVG--IPFGVRGCRVLMTARSQD-VLSSKMDCQNNF  298 (512)
Q Consensus       224 ~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~--~~~~l~--~~~~~~gs~iivTtR~~~-v~~~~~~~~~~~  298 (512)
                      .+....+              .....+-+|++|++....  ....+.  .......+++|+++.... +..........+
T Consensus        91 ~~~~~~~--------------~~~~~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~~~  156 (319)
T PRK00440         91 EFARTAP--------------VGGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRCAVF  156 (319)
T ss_pred             HHHhcCC--------------CCCCCceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHHHHhhee
Confidence            1110000              001235689999986432  222221  111134466777764332 111112234578


Q ss_pred             ecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHH
Q 010355          299 LIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIA  347 (512)
Q Consensus       299 ~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia  347 (512)
                      .+.+++.++...++...+...... --.+.+..|++.++|.+.-+...-
T Consensus       157 ~~~~l~~~ei~~~l~~~~~~~~~~-i~~~al~~l~~~~~gd~r~~~~~l  204 (319)
T PRK00440        157 RFSPLKKEAVAERLRYIAENEGIE-ITDDALEAIYYVSEGDMRKAINAL  204 (319)
T ss_pred             eeCCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            999999999999998877432211 113567889999999887644433

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

Probab=98.78  E-value=5e-08  Score=92.83  Aligned_cols=150  Identities=14%  Similarity=0.221  Sum_probs=96.5

Q ss_pred             ccccccchHHHH---HHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHH
Q 010355          148 YEAFESRMSTLN---DVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADK  224 (512)
Q Consensus       148 ~~~~~gR~~~l~---~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~  224 (512)
                      ...+||....+.   -|..++..+..+.+.+||++|+||||||+.++...+...    ..||..+....-..-++.|+.+
T Consensus       137 L~dyvGQ~hlv~q~gllrs~ieq~~ipSmIlWGppG~GKTtlArlia~tsk~~S----yrfvelSAt~a~t~dvR~ife~  212 (554)
T KOG2028|consen  137 LDDYVGQSHLVGQDGLLRSLIEQNRIPSMILWGPPGTGKTTLARLIASTSKKHS----YRFVELSATNAKTNDVRDIFEQ  212 (554)
T ss_pred             HHHhcchhhhcCcchHHHHHHHcCCCCceEEecCCCCchHHHHHHHHhhcCCCc----eEEEEEeccccchHHHHHHHHH
Confidence            344555544332   244455577889999999999999999999998876432    5577777654444444444433


Q ss_pred             hCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChhhh-hhhCCCCCCCCeEEEE--EeCCcchh--ccccCCcccee
Q 010355          225 LGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNLDL-ENVGIPFGVRGCRVLM--TARSQDVL--SSKMDCQNNFL  299 (512)
Q Consensus       225 l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~~-~~l~~~~~~~gs~iiv--TtR~~~v~--~~~~~~~~~~~  299 (512)
                      -.             .  .....++|.+|++|.|...... +.+.+|.-.+|..++|  ||-++...  ........++.
T Consensus       213 aq-------------~--~~~l~krkTilFiDEiHRFNksQQD~fLP~VE~G~I~lIGATTENPSFqln~aLlSRC~Vfv  277 (554)
T KOG2028|consen  213 AQ-------------N--EKSLTKRKTILFIDEIHRFNKSQQDTFLPHVENGDITLIGATTENPSFQLNAALLSRCRVFV  277 (554)
T ss_pred             HH-------------H--HHhhhcceeEEEeHHhhhhhhhhhhcccceeccCceEEEecccCCCccchhHHHHhccceeE
Confidence            21             1  1112358899999999754322 2233666677877666  55554321  12235567899


Q ss_pred             cCCCCHHHHHHHHHHHh
Q 010355          300 IGVLNESEARDLFKKLV  316 (512)
Q Consensus       300 l~~L~~~ea~~Lf~~~~  316 (512)
                      |++|+.+....++.+..
T Consensus       278 LekL~~n~v~~iL~rai  294 (554)
T KOG2028|consen  278 LEKLPVNAVVTILMRAI  294 (554)
T ss_pred             eccCCHHHHHHHHHHHH
Confidence            99999999999988743

>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=98.78  E-value=3.4e-08  Score=89.40  Aligned_cols=179  Identities=18%  Similarity=0.176  Sum_probs=96.1

Q ss_pred             cccCccccccchHHHHHHHHHhc-----CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHH
Q 010355          144 SIKGYEAFESRMSTLNDVINALK-----NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQ  218 (512)
Q Consensus       144 ~~~~~~~~~gR~~~l~~l~~~L~-----~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll  218 (512)
                      .|.....|+|.+..+..+.-++.     +.....+.+||++|+||||||.-+++.....  |   .+++.+.-....++ 
T Consensus        19 RP~~L~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~--~---~~~sg~~i~k~~dl-   92 (233)
T PF05496_consen   19 RPKSLDEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANELGVN--F---KITSGPAIEKAGDL-   92 (233)
T ss_dssp             S-SSCCCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHCT----E---EEEECCC--SCHHH-
T ss_pred             CCCCHHHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhccCCC--e---EeccchhhhhHHHH-
Confidence            35567889999988877654433     3457889999999999999999999988743  3   23332211111111 


Q ss_pred             HHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChhh---------hhhhC--CCCC------------CCC
Q 010355          219 GQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNLD---------LENVG--IPFG------------VRG  275 (512)
Q Consensus       219 ~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~---------~~~l~--~~~~------------~~g  275 (512)
                                          ..+...+.  ++-+|++|.+.....         .+...  ...+            .+-
T Consensus        93 --------------------~~il~~l~--~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~F  150 (233)
T PF05496_consen   93 --------------------AAILTNLK--EGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPPF  150 (233)
T ss_dssp             --------------------HHHHHT----TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE----
T ss_pred             --------------------HHHHHhcC--CCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccCCCc
Confidence                                11222222  456788898875421         11110  0001            123


Q ss_pred             eEEEEEeCCcchhccccCCc-cceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHHHHhc
Q 010355          276 CRVLMTARSQDVLSSKMDCQ-NNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARALR  351 (512)
Q Consensus       276 s~iivTtR~~~v~~~~~~~~-~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~~L~  351 (512)
                      +.|=.|||...+........ .+.+|...+.++-..++.+.+..-.. +--.+.+..|++.|.|-|--..-+-..++
T Consensus       151 TligATTr~g~ls~pLrdRFgi~~~l~~Y~~~el~~Iv~r~a~~l~i-~i~~~~~~~Ia~rsrGtPRiAnrll~rvr  226 (233)
T PF05496_consen  151 TLIGATTRAGLLSSPLRDRFGIVLRLEFYSEEELAKIVKRSARILNI-EIDEDAAEEIARRSRGTPRIANRLLRRVR  226 (233)
T ss_dssp             EEEEEESSGCCTSHCCCTTSSEEEE----THHHHHHHHHHCCHCTT--EE-HHHHHHHHHCTTTSHHHHHHHHHHHC
T ss_pred             eEeeeeccccccchhHHhhcceecchhcCCHHHHHHHHHHHHHHhCC-CcCHHHHHHHHHhcCCChHHHHHHHHHHH
Confidence            44556888765542222333 34589999999999999877642221 22246789999999999987665555444

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.

>PRK04195 replication factor C large subunit; Provisional

Probab=98.78  E-value=1.1e-07  Score=99.31  Aligned_cols=180  Identities=13%  Similarity=0.091  Sum_probs=107.9

Q ss_pred             ccCccccccchHHHHHHHHHhcC----CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALKN----PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQ  220 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~  220 (512)
                      |.....++|++..+..|..|+..    ...+.+.|+|++|+||||+|+.+++...    |. ++-++++...+.. .+..
T Consensus        10 P~~l~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el~----~~-~ielnasd~r~~~-~i~~   83 (482)
T PRK04195         10 PKTLSDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDYG----WE-VIELNASDQRTAD-VIER   83 (482)
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHcC----CC-EEEEcccccccHH-HHHH
Confidence            45567789999999999988862    2268899999999999999999998864    32 3334444433322 2333


Q ss_pred             HHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChhh------hhhhCCCCCCCCeEEEEEeCCcchh-c-ccc
Q 010355          221 IADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNLD------LENVGIPFGVRGCRVLMTARSQDVL-S-SKM  292 (512)
Q Consensus       221 i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~------~~~l~~~~~~~gs~iivTtR~~~v~-~-~~~  292 (512)
                      ++.......              .+...++.+||||+++....      +..+.......++.||+|+....-. . ...
T Consensus        84 ~i~~~~~~~--------------sl~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~~~~~~iIli~n~~~~~~~k~Lr  149 (482)
T PRK04195         84 VAGEAATSG--------------SLFGARRKLILLDEVDGIHGNEDRGGARAILELIKKAKQPIILTANDPYDPSLRELR  149 (482)
T ss_pred             HHHHhhccC--------------cccCCCCeEEEEecCcccccccchhHHHHHHHHHHcCCCCEEEeccCccccchhhHh
Confidence            322221100              01112578999999975421      2333111123345566666543211 1 112


Q ss_pred             CCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHH
Q 010355          293 DCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVT  345 (512)
Q Consensus       293 ~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~  345 (512)
                      .....+.+.+++..+....+.+.+......- -..+...|++.++|....+..
T Consensus       150 sr~~~I~f~~~~~~~i~~~L~~i~~~egi~i-~~eaL~~Ia~~s~GDlR~ain  201 (482)
T PRK04195        150 NACLMIEFKRLSTRSIVPVLKRICRKEGIEC-DDEALKEIAERSGGDLRSAIN  201 (482)
T ss_pred             ccceEEEecCCCHHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHcCCCHHHHHH
Confidence            3446789999999999999888764221111 134667788888776555443

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.77  E-value=2.6e-07  Score=92.81  Aligned_cols=181  Identities=11%  Similarity=0.170  Sum_probs=108.7

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHHhhhhcCCC-------------------CeEE
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDV-HMIGAYGMAGVGKTMLVKEVARQAKADKLF-------------------DEVV  204 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f-------------------~~~~  204 (512)
                      |.....++|.+..++.|...+..++. +.+.++|+.|+||||+|+.+++...-...+                   ...+
T Consensus        12 P~~~~~iiGq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~~~pc~~c~~c~~~~~~~~~d~~   91 (363)
T PRK14961         12 PQYFRDIIGQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSLNCQNGITSNPCRKCIICKEIEKGLCLDLI   91 (363)
T ss_pred             CCchhhccChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCceE
Confidence            34456788999999999988886554 567899999999999999999876421101                   1112


Q ss_pred             EEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHh----CCCeEEEEEeCCCChh--hhhhhCCCC--CCCCe
Q 010355          205 YAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLK----KEKKILVILDDIWTNL--DLENVGIPF--GVRGC  276 (512)
Q Consensus       205 wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~~--~~~~l~~~~--~~~gs  276 (512)
                      ++..+.....                     ..+..+...+.    .+++-++|+|++....  .++.+.-.+  +...+
T Consensus        92 ~~~~~~~~~v---------------------~~ir~i~~~~~~~p~~~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~  150 (363)
T PRK14961         92 EIDAASRTKV---------------------EEMREILDNIYYSPSKSRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHI  150 (363)
T ss_pred             EecccccCCH---------------------HHHHHHHHHHhcCcccCCceEEEEEChhhcCHHHHHHHHHHHhcCCCCe
Confidence            2221111111                     12222322221    2355699999997553  233331111  13456


Q ss_pred             EEEEEeCCcc-hhccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHH
Q 010355          277 RVLMTARSQD-VLSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIA  347 (512)
Q Consensus       277 ~iivTtR~~~-v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia  347 (512)
                      ++|++|.+.. +.....+....+++.+++.++....+...+..... .--.+.+..|++.++|.|..+..+.
T Consensus       151 ~fIl~t~~~~~l~~tI~SRc~~~~~~~l~~~el~~~L~~~~~~~g~-~i~~~al~~ia~~s~G~~R~al~~l  221 (363)
T PRK14961        151 KFILATTDVEKIPKTILSRCLQFKLKIISEEKIFNFLKYILIKESI-DTDEYALKLIAYHAHGSMRDALNLL  221 (363)
T ss_pred             EEEEEcCChHhhhHHHHhhceEEeCCCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            6777665432 22222334468999999999999988876642211 1113467789999999886444333

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.76  E-value=2.7e-07  Score=90.96  Aligned_cols=175  Identities=15%  Similarity=0.201  Sum_probs=110.7

Q ss_pred             cccccchHHHHHHHHHhcCCC-ceEEEEEcCCCCcHHHHHHHHHHhhh----hcCCCCeEEEEEe-CCCCCHHHHHHHHH
Q 010355          149 EAFESRMSTLNDVINALKNPD-VHMIGAYGMAGVGKTMLVKEVARQAK----ADKLFDEVVYAEV-SQRPDVKKIQGQIA  222 (512)
Q Consensus       149 ~~~~gR~~~l~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~----~~~~f~~~~wv~~-~~~~~~~~ll~~i~  222 (512)
                      ..++|.+..++.|..++..+. .+.+.++|+.|+||||+|+.++...-    ...|++...|... +......+ .+.+.
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            356788888899999988655 46778999999999999999998642    2245565555442 33334434 23333


Q ss_pred             HHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCC--ChhhhhhhC--CCCCCCCeEEEEEeCCcchh-ccccCCccc
Q 010355          223 DKLGLKFYEESESGRARKLCERLKKEKKILVILDDIW--TNLDLENVG--IPFGVRGCRVLMTARSQDVL-SSKMDCQNN  297 (512)
Q Consensus       223 ~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~--~~~~~~~l~--~~~~~~gs~iivTtR~~~v~-~~~~~~~~~  297 (512)
                      ..+...+.                .+++-++|+|++.  +...++.+.  +.-+.+++.+|++|.+.... .........
T Consensus        83 ~~~~~~p~----------------~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~SRc~~  146 (313)
T PRK05564         83 EEVNKKPY----------------EGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSRCQI  146 (313)
T ss_pred             HHHhcCcc----------------cCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHHhhcee
Confidence            33322111                1345566677664  444455442  11225678888888665432 222344578


Q ss_pred             eecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHH
Q 010355          298 FLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVT  345 (512)
Q Consensus       298 ~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~  345 (512)
                      +.+.+++.++...++.+.+..  .+   ...+..++..++|.|.-+..
T Consensus       147 ~~~~~~~~~~~~~~l~~~~~~--~~---~~~~~~l~~~~~g~~~~a~~  189 (313)
T PRK05564        147 YKLNRLSKEEIEKFISYKYND--IK---EEEKKSAIAFSDGIPGKVEK  189 (313)
T ss_pred             eeCCCcCHHHHHHHHHHHhcC--CC---HHHHHHHHHHcCCCHHHHHH
Confidence            999999999998888776531  11   23467889999999875543

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.76  E-value=1.4e-07  Score=98.19  Aligned_cols=180  Identities=11%  Similarity=0.169  Sum_probs=111.5

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHHhhhhcC------------------------C
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDV-HMIGAYGMAGVGKTMLVKEVARQAKADK------------------------L  199 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~------------------------~  199 (512)
                      |.....++|.+..++.|.+++..++. +.+.++|..|+||||+|+.+++...-..                        .
T Consensus        12 PqtFddVIGQe~vv~~L~~al~~gRLpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~~PCG~C~sC~~I~aG~   91 (700)
T PRK12323         12 PRDFTTLVGQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQPCGQCRACTEIDAGR   91 (700)
T ss_pred             CCcHHHHcCcHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCCCCCcccHHHHHHHcCC
Confidence            34556789999999999999987665 4568999999999999999988764210                        0


Q ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHh----CCCeEEEEEeCCCCh--hhhhhhCCCCC-
Q 010355          200 FDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLK----KEKKILVILDDIWTN--LDLENVGIPFG-  272 (512)
Q Consensus       200 f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~-  272 (512)
                      |..+++++.....+                     .+.+..+.+.+.    .++.-++|||++...  ..++.+.-.+. 
T Consensus        92 hpDviEIdAas~~g---------------------VDdIReLie~~~~~P~~gr~KViIIDEah~Ls~~AaNALLKTLEE  150 (700)
T PRK12323         92 FVDYIEMDAASNRG---------------------VDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLEE  150 (700)
T ss_pred             CCcceEecccccCC---------------------HHHHHHHHHHHHhchhcCCceEEEEEChHhcCHHHHHHHHHhhcc
Confidence            11122222221111                     122223333321    356679999999754  33444322221 


Q ss_pred             -CCCeEEEEEeCC-cchhccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHH
Q 010355          273 -VRGCRVLMTARS-QDVLSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTI  346 (512)
Q Consensus       273 -~~gs~iivTtR~-~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~i  346 (512)
                       ..++++|++|.+ ..+.....+....+.+.+++.++..+.+.+.+....... -.+....|++.++|.|.-...+
T Consensus       151 PP~~v~FILaTtep~kLlpTIrSRCq~f~f~~ls~eei~~~L~~Il~~Egi~~-d~eAL~~IA~~A~Gs~RdALsL  225 (700)
T PRK12323        151 PPEHVKFILATTDPQKIPVTVLSRCLQFNLKQMPPGHIVSHLDAILGEEGIAH-EVNALRLLAQAAQGSMRDALSL  225 (700)
T ss_pred             CCCCceEEEEeCChHhhhhHHHHHHHhcccCCCChHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHcCCCHHHHHHH
Confidence             345565555544 444333344557899999999999999888764322111 1345678999999999755444

>PLN03025 replication factor C subunit; Provisional

Probab=98.73  E-value=4.4e-07  Score=89.65  Aligned_cols=184  Identities=11%  Similarity=0.093  Sum_probs=109.1

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCC-eEEEEEeCCCCCHHHHHHHHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFD-EVVYAEVSQRPDVKKIQGQIAD  223 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~-~~~wv~~~~~~~~~~ll~~i~~  223 (512)
                      |.....++|....+..|..++..++.+.+.++|++|+||||+|..+++..... .|. .++-++.+...+.. .++.++.
T Consensus         9 P~~l~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l~~~-~~~~~~~eln~sd~~~~~-~vr~~i~   86 (319)
T PLN03025          9 PTKLDDIVGNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELLGP-NYKEAVLELNASDDRGID-VVRNKIK   86 (319)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhcc-cCccceeeecccccccHH-HHHHHHH
Confidence            44566788999988888888887777778899999999999999999876321 222 22223333322222 2222222


Q ss_pred             HhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh--hhhhhC--CCCCCCCeEEEEEeCCcc-hhccccCCccce
Q 010355          224 KLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL--DLENVG--IPFGVRGCRVLMTARSQD-VLSSKMDCQNNF  298 (512)
Q Consensus       224 ~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~--~~~~l~--~~~~~~gs~iivTtR~~~-v~~~~~~~~~~~  298 (512)
                      .+.....             .+..++.-++|||++....  ....+.  .-.....+++|+++.... +..........+
T Consensus        87 ~~~~~~~-------------~~~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~SRc~~i  153 (319)
T PLN03025         87 MFAQKKV-------------TLPPGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRCAIV  153 (319)
T ss_pred             HHHhccc-------------cCCCCCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhHHHhhhcc
Confidence            2110000             0012356799999997542  222221  111134567777765432 211112234689


Q ss_pred             ecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHH
Q 010355          299 LIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIV  344 (512)
Q Consensus       299 ~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~  344 (512)
                      ++.+++.++....+...+......- -.+....|+..++|..-.+.
T Consensus       154 ~f~~l~~~~l~~~L~~i~~~egi~i-~~~~l~~i~~~~~gDlR~al  198 (319)
T PLN03025        154 RFSRLSDQEILGRLMKVVEAEKVPY-VPEGLEAIIFTADGDMRQAL  198 (319)
T ss_pred             cCCCCCHHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHcCCCHHHHH
Confidence            9999999999999988774322111 13567889999998765443

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=98.71  E-value=8e-07  Score=88.18  Aligned_cols=195  Identities=13%  Similarity=0.104  Sum_probs=114.1

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHHhhhhcCC--CCeEEEEEeCCCCCHHHHHHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDV-HMIGAYGMAGVGKTMLVKEVARQAKADKL--FDEVVYAEVSQRPDVKKIQGQI  221 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~--f~~~~wv~~~~~~~~~~ll~~i  221 (512)
                      |.....++|.......|...+..+.. +.+.|+|+.|+||||||..+++..--...  +...   .....+......+.+
T Consensus        19 P~~~~~l~Gh~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~---~~~~~~~~c~~c~~i   95 (351)
T PRK09112         19 PSENTRLFGHEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPE---TLADPDPASPVWRQI   95 (351)
T ss_pred             CCchhhccCcHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCcc---ccCCCCCCCHHHHHH
Confidence            45566789999999999999886654 56999999999999999999987642110  1111   001111111122333


Q ss_pred             HHH-------hCCCCCC-------CCchHHHHHHHHHHh----CCCeEEEEEeCCCCh--hhhhh----hCCCCCCCCeE
Q 010355          222 ADK-------LGLKFYE-------ESESGRARKLCERLK----KEKKILVILDDIWTN--LDLEN----VGIPFGVRGCR  277 (512)
Q Consensus       222 ~~~-------l~~~~~~-------~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~----l~~~~~~~gs~  277 (512)
                      ...       +..+...       .-..+.+..+.+++.    .+++-++|||++...  ...+.    +..|  ..++.
T Consensus        96 ~~~~hPdl~~l~~~~~~~~~~~~~~I~vd~iR~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LEEp--p~~~~  173 (351)
T PRK09112         96 AQGAHPNLLHITRPFDEKTGKFKTAITVDEIRRVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEP--PARAL  173 (351)
T ss_pred             HcCCCCCEEEeecccccccccccccCCHHHHHHHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHhcC--CCCce
Confidence            221       1001000       011233445555554    356779999999743  22222    2222  23444


Q ss_pred             E-EEEeCCcchhccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHH
Q 010355          278 V-LMTARSQDVLSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIA  347 (512)
Q Consensus       278 i-ivTtR~~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia  347 (512)
                      + ++|++...+.....+....+.+.|++.++...++.+......   -..+.+..|++.++|.|.....+.
T Consensus       174 fiLit~~~~~llptIrSRc~~i~l~pl~~~~~~~~L~~~~~~~~---~~~~~~~~i~~~s~G~pr~Al~ll  241 (351)
T PRK09112        174 FILISHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHLGSSQG---SDGEITEALLQRSKGSVRKALLLL  241 (351)
T ss_pred             EEEEECChhhccHHHHhhccEEEecCCCHHHHHHHHHHhhcccC---CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            4 444444333332334457999999999999999988532211   113456789999999998765444

>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=98.71  E-value=1.8e-07  Score=80.84  Aligned_cols=121  Identities=19%  Similarity=0.160  Sum_probs=73.2

Q ss_pred             ccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCC
Q 010355          152 ESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYE  231 (512)
Q Consensus       152 ~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~  231 (512)
                      .||+..+..+...+.....+.+.|+|++|+|||+|++.+++....  .-..++++..............+...       
T Consensus         1 ~~~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~~~--~~~~v~~~~~~~~~~~~~~~~~~~~~-------   71 (151)
T cd00009           1 VGQEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFR--PGAPFLYLNASDLLEGLVVAELFGHF-------   71 (151)
T ss_pred             CchHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHhhc--CCCCeEEEehhhhhhhhHHHHHhhhh-------
Confidence            378888999998888766788999999999999999999998752  12456667665443322211111000       


Q ss_pred             CCchHHHHHHHHHHhCCCeEEEEEeCCCCh-----hhhhh-hCCCCC----CCCeEEEEEeCCcc
Q 010355          232 ESESGRARKLCERLKKEKKILVILDDIWTN-----LDLEN-VGIPFG----VRGCRVLMTARSQD  286 (512)
Q Consensus       232 ~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~-----~~~~~-l~~~~~----~~gs~iivTtR~~~  286 (512)
                           ............++.+||+|+++..     ..+.. +.....    ..+..||+||....
T Consensus        72 -----~~~~~~~~~~~~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~  131 (151)
T cd00009          72 -----LVRLLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRPL  131 (151)
T ss_pred             -----hHhHHHHhhccCCCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCccc
Confidence                 0001111112246789999999853     11222 111111    35788888888653

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.

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.71  E-value=4.1e-07  Score=94.49  Aligned_cols=193  Identities=12%  Similarity=0.095  Sum_probs=109.0

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHH---H
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDV-HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQG---Q  220 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~---~  220 (512)
                      |.....++|.+..+..|..++..+.. +.+.++|++|+||||+|+.+++...-...+...+|.+.+.    ..+..   .
T Consensus        10 P~~~~dvvGq~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc----~~i~~~~h~   85 (504)
T PRK14963         10 PITFDEVVGQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESC----LAVRRGAHP   85 (504)
T ss_pred             CCCHHHhcChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhh----HHHhcCCCC
Confidence            34556789999999999888886655 4569999999999999999998764222121122221100    00000   0


Q ss_pred             HHHHhCCCCCCCCchHHHHHHHHHHh----CCCeEEEEEeCCCCh--hhhhhhCCCCC--CCCeEEEEEeCC-cchhccc
Q 010355          221 IADKLGLKFYEESESGRARKLCERLK----KEKKILVILDDIWTN--LDLENVGIPFG--VRGCRVLMTARS-QDVLSSK  291 (512)
Q Consensus       221 i~~~l~~~~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~--~~gs~iivTtR~-~~v~~~~  291 (512)
                      -+..+..  ........+..+.+.+.    .+++-+||||+++..  ..+..+...+.  ..++.+|++|.. ..+....
T Consensus        86 dv~el~~--~~~~~vd~iR~l~~~~~~~p~~~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~kl~~~I  163 (504)
T PRK14963         86 DVLEIDA--ASNNSVEDVRDLREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPTI  163 (504)
T ss_pred             ceEEecc--cccCCHHHHHHHHHHHhhccccCCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChhhCChHH
Confidence            0000000  00011112222322221    245679999999754  23443322111  345555555543 3332222


Q ss_pred             cCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHH
Q 010355          292 MDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIV  344 (512)
Q Consensus       292 ~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~  344 (512)
                      ......+.+.+++.++...++.+.+......- -.+.+..|++.++|.+--+.
T Consensus       164 ~SRc~~~~f~~ls~~el~~~L~~i~~~egi~i-~~~Al~~ia~~s~GdlR~al  215 (504)
T PRK14963        164 LSRTQHFRFRRLTEEEIAGKLRRLLEAEGREA-EPEALQLVARLADGAMRDAE  215 (504)
T ss_pred             hcceEEEEecCCCHHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHcCCCHHHHH
Confidence            34456899999999999999998774222111 23567889999999886553

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=98.70  E-value=4.7e-07  Score=93.66  Aligned_cols=179  Identities=12%  Similarity=0.150  Sum_probs=108.3

Q ss_pred             ccCccccccchHHHHHHHHHhcCCC-ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCC----------------------
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPD-VHMIGAYGMAGVGKTMLVKEVARQAKADKLFD----------------------  201 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~----------------------  201 (512)
                      |.....++|.+..+..|...+..++ .+.+.++|+.|+||||+|+.+++...-.....                      
T Consensus        17 P~~f~dliGq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~C~~C~~i~~~~h   96 (507)
T PRK06645         17 PSNFAELQGQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQCTNCISFNNHNH   96 (507)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCCChHHHHHhcCCC
Confidence            3445678899999998888777554 46889999999999999999998764211100                      


Q ss_pred             -eEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHh----CCCeEEEEEeCCCCh--hhhhhhCCCC--C
Q 010355          202 -EVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLK----KEKKILVILDDIWTN--LDLENVGIPF--G  272 (512)
Q Consensus       202 -~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~--~  272 (512)
                       .++.++.....+.                     ..+..+.+...    .+++-++|+|+++..  ..++.+...+  +
T Consensus        97 ~Dv~eidaas~~~v---------------------d~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~~a~naLLk~LEep  155 (507)
T PRK06645         97 PDIIEIDAASKTSV---------------------DDIRRIIESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEEP  155 (507)
T ss_pred             CcEEEeeccCCCCH---------------------HHHHHHHHHHHhccccCCcEEEEEEChhhcCHHHHHHHHHHHhhc
Confidence             1112222111111                     12222222221    246678999999864  3344442111  1


Q ss_pred             CCCeEEEEEe-CCcchhccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHH
Q 010355          273 VRGCRVLMTA-RSQDVLSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVT  345 (512)
Q Consensus       273 ~~gs~iivTt-R~~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~  345 (512)
                      .+.+.+|++| +...+..........+.+.+++.++....+.+.+......- -.+....|++.++|.+.-+..
T Consensus       156 p~~~vfI~aTte~~kI~~tI~SRc~~~ef~~ls~~el~~~L~~i~~~egi~i-e~eAL~~Ia~~s~GslR~al~  228 (507)
T PRK06645        156 PPHIIFIFATTEVQKIPATIISRCQRYDLRRLSFEEIFKLLEYITKQENLKT-DIEALRIIAYKSEGSARDAVS  228 (507)
T ss_pred             CCCEEEEEEeCChHHhhHHHHhcceEEEccCCCHHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHcCCCHHHHHH
Confidence            3456665544 44444322233446799999999999999998875322211 134667899999998754433

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.70  E-value=4.7e-07  Score=94.64  Aligned_cols=179  Identities=12%  Similarity=0.184  Sum_probs=109.7

Q ss_pred             ccCccccccchHHHHHHHHHhcCCC-ceEEEEEcCCCCcHHHHHHHHHHhhhhcC-------------------CCCeEE
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPD-VHMIGAYGMAGVGKTMLVKEVARQAKADK-------------------LFDEVV  204 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~-------------------~f~~~~  204 (512)
                      |.....++|.+.....|..++..++ .+.+.++|+.|+||||+|+.+++...-..                   .|..++
T Consensus        11 PktFddVIGQe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C~sC~~I~~g~hpDvi   90 (702)
T PRK14960         11 PRNFNELVGQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVCATCKAVNEGRFIDLI   90 (702)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccCHHHHHHhcCCCCceE
Confidence            4456678999999999999998665 46779999999999999999988753211                   011122


Q ss_pred             EEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHH----hCCCeEEEEEeCCCCh--hhhhhhCCCC--CCCCe
Q 010355          205 YAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERL----KKEKKILVILDDIWTN--LDLENVGIPF--GVRGC  276 (512)
Q Consensus       205 wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l----~~~k~~LlVlDdv~~~--~~~~~l~~~~--~~~gs  276 (512)
                      .++.+.....                     ..+..+....    ..+++-++|||++...  ...+.+.-.+  +..++
T Consensus        91 EIDAAs~~~V---------------------ddIReli~~~~y~P~~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v  149 (702)
T PRK14960         91 EIDAASRTKV---------------------EDTRELLDNVPYAPTQGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHV  149 (702)
T ss_pred             EecccccCCH---------------------HHHHHHHHHHhhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhcCCCCc
Confidence            2222211111                     1222222222    1246679999999754  2333331111  13456


Q ss_pred             EEEEEeCCcc-hhccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHH
Q 010355          277 RVLMTARSQD-VLSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVT  345 (512)
Q Consensus       277 ~iivTtR~~~-v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~  345 (512)
                      ++|++|.... +..........+.+.+|+.++....+.+.+...... --......|++.++|.+..+..
T Consensus       150 ~FILaTtd~~kIp~TIlSRCq~feFkpLs~eEI~k~L~~Il~kEgI~-id~eAL~~IA~~S~GdLRdALn  218 (702)
T PRK14960        150 KFLFATTDPQKLPITVISRCLQFTLRPLAVDEITKHLGAILEKEQIA-ADQDAIWQIAESAQGSLRDALS  218 (702)
T ss_pred             EEEEEECChHhhhHHHHHhhheeeccCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHH
Confidence            7777776533 222223455789999999999999998877532211 1134667888999997754443

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

Probab=98.68  E-value=3.5e-07  Score=98.64  Aligned_cols=174  Identities=20%  Similarity=0.271  Sum_probs=100.8

Q ss_pred             ccCccccccchHHHH---HHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHH
Q 010355          145 IKGYEAFESRMSTLN---DVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQI  221 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~---~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i  221 (512)
                      |.....|+|++..+.   .|...+.....+.+.|+|++|+||||||+.+++...  ..|.   .++... .....+ +.+
T Consensus        24 P~tldd~vGQe~ii~~~~~L~~~i~~~~~~slLL~GPpGtGKTTLA~aIA~~~~--~~f~---~lna~~-~~i~di-r~~   96 (725)
T PRK13341         24 PRTLEEFVGQDHILGEGRLLRRAIKADRVGSLILYGPPGVGKTTLARIIANHTR--AHFS---SLNAVL-AGVKDL-RAE   96 (725)
T ss_pred             CCcHHHhcCcHHHhhhhHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHhc--Ccce---eehhhh-hhhHHH-HHH
Confidence            445567899988774   466667777778889999999999999999998764  2331   111110 011111 111


Q ss_pred             HHHhCCCCCCCCchHHHHHHHHHHh-CCCeEEEEEeCCCCh--hhhhhhCCCCCCCCeEEEEEeC--Ccc--hhccccCC
Q 010355          222 ADKLGLKFYEESESGRARKLCERLK-KEKKILVILDDIWTN--LDLENVGIPFGVRGCRVLMTAR--SQD--VLSSKMDC  294 (512)
Q Consensus       222 ~~~l~~~~~~~~~~~~~~~l~~~l~-~~k~~LlVlDdv~~~--~~~~~l~~~~~~~gs~iivTtR--~~~--v~~~~~~~  294 (512)
                                      +......+. .+++.+||||+++..  .....+. +....++.++|+++  +..  +.......
T Consensus        97 ----------------i~~a~~~l~~~~~~~IL~IDEIh~Ln~~qQdaLL-~~lE~g~IiLI~aTTenp~~~l~~aL~SR  159 (725)
T PRK13341         97 ----------------VDRAKERLERHGKRTILFIDEVHRFNKAQQDALL-PWVENGTITLIGATTENPYFEVNKALVSR  159 (725)
T ss_pred             ----------------HHHHHHHhhhcCCceEEEEeChhhCCHHHHHHHH-HHhcCceEEEEEecCCChHhhhhhHhhcc
Confidence                            111111121 135689999999754  3333342 22234555555433  321  11111223


Q ss_pred             ccceecCCCCHHHHHHHHHHHhCC------CCCCchhHHHHHHHHHHcCCChhH
Q 010355          295 QNNFLIGVLNESEARDLFKKLVGD------KIENNDLKSLAMNIVKACRGLPIA  342 (512)
Q Consensus       295 ~~~~~l~~L~~~ea~~Lf~~~~~~------~~~~~~~~~~~~~I~~~~~GlPLa  342 (512)
                      ...+.+++|+.++...++.+.+..      .....--.+....|++.+.|..-.
T Consensus       160 ~~v~~l~pLs~edi~~IL~~~l~~~~~~~g~~~v~I~deaL~~La~~s~GD~R~  213 (725)
T PRK13341        160 SRLFRLKSLSDEDLHQLLKRALQDKERGYGDRKVDLEPEAEKHLVDVANGDARS  213 (725)
T ss_pred             ccceecCCCCHHHHHHHHHHHHHHHHhhcCCcccCCCHHHHHHHHHhCCCCHHH
Confidence            467999999999999999876631      111111245667888888886543

>PF14516 AAA_35: AAA-like domain

Probab=98.68  E-value=3.3e-06  Score=83.62  Aligned_cols=201  Identities=14%  Similarity=0.119  Sum_probs=122.0

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCC-----CCHHHHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQR-----PDVKKIQG  219 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-----~~~~~ll~  219 (512)
                      +...+-.++|...-+.+.+.+.+. ...+.|.|+-.+|||+|..++.+.....  -..++++++..-     .+...+++
T Consensus         7 ~~~~~~Yi~R~~~e~~~~~~i~~~-G~~~~I~apRq~GKTSll~~l~~~l~~~--~~~~v~id~~~~~~~~~~~~~~f~~   83 (331)
T PF14516_consen    7 PLDSPFYIERPPAEQECYQEIVQP-GSYIRIKAPRQMGKTSLLLRLLERLQQQ--GYRCVYIDLQQLGSAIFSDLEQFLR   83 (331)
T ss_pred             CCCCCcccCchHHHHHHHHHHhcC-CCEEEEECcccCCHHHHHHHHHHHHHHC--CCEEEEEEeecCCCcccCCHHHHHH
Confidence            345556778986777777777753 3688999999999999999999888753  234557776542     24555555


Q ss_pred             HHH----HHhCCCCCC--------CCchHHHHHHHHHHh--CCCeEEEEEeCCCChhh--------hhhhC------CCC
Q 010355          220 QIA----DKLGLKFYE--------ESESGRARKLCERLK--KEKKILVILDDIWTNLD--------LENVG------IPF  271 (512)
Q Consensus       220 ~i~----~~l~~~~~~--------~~~~~~~~~l~~~l~--~~k~~LlVlDdv~~~~~--------~~~l~------~~~  271 (512)
                      .++    ++|++...-        .+.......+.+.+.  .+++++|+||+++....        +..++      ...
T Consensus        84 ~~~~~i~~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~~~~~~~dF~~~LR~~~~~~~~~  163 (331)
T PF14516_consen   84 WFCEEISRQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDRLFEYPQIADDFFGLLRSWYEQRKNN  163 (331)
T ss_pred             HHHHHHHHHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhhhccCcchHHHHHHHHHHHHHhcccC
Confidence            554    445443210        011112222333332  25899999999964321        11111      111


Q ss_pred             CCCCeEEEEEeCCc--chh----ccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHH
Q 010355          272 GVRGCRVLMTARSQ--DVL----SSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVT  345 (512)
Q Consensus       272 ~~~gs~iivTtR~~--~v~----~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~  345 (512)
                      +....-.++.....  ...    .........+.|++|+.+++..|+.++-..  ..   ....+.|...+||+|.-+..
T Consensus       164 ~~~~~L~li~~~~t~~~~~~~~~~SPFNIg~~i~L~~Ft~~ev~~L~~~~~~~--~~---~~~~~~l~~~tgGhP~Lv~~  238 (331)
T PF14516_consen  164 PIWQKLRLILAGSTEDYIILDINQSPFNIGQPIELPDFTPEEVQELAQRYGLE--FS---QEQLEQLMDWTGGHPYLVQK  238 (331)
T ss_pred             cccceEEEEEecCcccccccCCCCCCcccccceeCCCCCHHHHHHHHHhhhcc--CC---HHHHHHHHHHHCCCHHHHHH
Confidence            11111122222211  111    122334468999999999999998876432  11   22388999999999999999


Q ss_pred             HHHHhccC
Q 010355          346 IARALRNK  353 (512)
Q Consensus       346 ia~~L~~~  353 (512)
                      ++..+...
T Consensus       239 ~~~~l~~~  246 (331)
T PF14516_consen  239 ACYLLVEE  246 (331)
T ss_pred             HHHHHHHc
Confidence            99999754

>PF13173 AAA_14: AAA domain

Probab=98.66  E-value=7.1e-08  Score=81.76  Aligned_cols=119  Identities=22%  Similarity=0.201  Sum_probs=75.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCC
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEK  249 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  249 (512)
                      .+++.|.|+.|+|||||+++++....   ....++|++.............                ....+.+... .+
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~~---~~~~~~yi~~~~~~~~~~~~~~----------------~~~~~~~~~~-~~   61 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDLL---PPENILYINFDDPRDRRLADPD----------------LLEYFLELIK-PG   61 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhc---ccccceeeccCCHHHHHHhhhh----------------hHHHHHHhhc-cC
Confidence            47899999999999999999998765   2345677766543221100000                1122222222 36


Q ss_pred             eEEEEEeCCCChhhhhhhCCCCC--CCCeEEEEEeCCcchhc-----cccCCccceecCCCCHHHH
Q 010355          250 KILVILDDIWTNLDLENVGIPFG--VRGCRVLMTARSQDVLS-----SKMDCQNNFLIGVLNESEA  308 (512)
Q Consensus       250 ~~LlVlDdv~~~~~~~~l~~~~~--~~gs~iivTtR~~~v~~-----~~~~~~~~~~l~~L~~~ea  308 (512)
                      +.+|+||++.....|......+.  .+..+|++|+.......     ...+....++|.||+..|.
T Consensus        62 ~~~i~iDEiq~~~~~~~~lk~l~d~~~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E~  127 (128)
T PF13173_consen   62 KKYIFIDEIQYLPDWEDALKFLVDNGPNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFREF  127 (128)
T ss_pred             CcEEEEehhhhhccHHHHHHHHHHhccCceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHHh
Confidence            78999999988777765422222  34689999998765541     2234456789999998763

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.66  E-value=8.2e-07  Score=91.52  Aligned_cols=188  Identities=15%  Similarity=0.184  Sum_probs=108.7

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHHhhhhcCC-------------------CCeEE
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDV-HMIGAYGMAGVGKTMLVKEVARQAKADKL-------------------FDEVV  204 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~-------------------f~~~~  204 (512)
                      |.....++|.+.....|...+..+.. +.+.++|++|+||||+|+.+++.......                   +..++
T Consensus        10 P~~~~divGq~~i~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~g~~~dv~   89 (472)
T PRK14962         10 PKTFSEVVGQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDEGTFMDVI   89 (472)
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhcCCCCccE
Confidence            44566789999888888888876665 55899999999999999999887542110                   01122


Q ss_pred             EEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCCh--hhhhhhCCCCC--CCCeEEEE
Q 010355          205 YAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTN--LDLENVGIPFG--VRGCRVLM  280 (512)
Q Consensus       205 wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~l~~~~~--~~gs~iiv  280 (512)
                      .++.+...+...+ +.|...+..                .-..+++-+||+|++...  .....+...+.  ...+.+|+
T Consensus        90 el~aa~~~gid~i-R~i~~~~~~----------------~p~~~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~vv~Il  152 (472)
T PRK14962         90 ELDAASNRGIDEI-RKIRDAVGY----------------RPMEGKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVFVL  152 (472)
T ss_pred             EEeCcccCCHHHH-HHHHHHHhh----------------ChhcCCeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEEEEE
Confidence            2333222222221 122221110                001245679999999754  22333311111  23455554


Q ss_pred             EeCC-cchhccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCC-ChhHHHHHHHHh
Q 010355          281 TARS-QDVLSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRG-LPIAIVTIARAL  350 (512)
Q Consensus       281 TtR~-~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~G-lPLai~~ia~~L  350 (512)
                      +|.+ ..+..........+.+.+++.++....+.+.+..... .--.+....|++.++| ++.++..+-.+.
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 ATTNLEKVPPTIISRCQVIEFRNISDELIIKRLQEVAEAEGI-EIDREALSFIAKRASGGLRDALTMLEQVW  223 (472)
T ss_pred             EeCChHhhhHHHhcCcEEEEECCccHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            5443 2332223344568999999999999998887742211 1113567788887755 467777766543

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=98.66  E-value=1.1e-06  Score=87.61  Aligned_cols=194  Identities=13%  Similarity=0.049  Sum_probs=112.3

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeE------EEEEeCCCCCHHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDV-HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEV------VYAEVSQRPDVKKI  217 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~------~wv~~~~~~~~~~l  217 (512)
                      |.....++|.+.....|.+.+..++. +.+.++|+.|+||+|+|..+++..--.......      .-+.+...+   ..
T Consensus        15 P~~~~~iiGq~~~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~~l~~~~~c---~~   91 (365)
T PRK07471         15 PRETTALFGHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPTSLAIDPDH---PV   91 (365)
T ss_pred             CCchhhccChHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccccccCCCCC---hH
Confidence            44566789999999999999887664 468999999999999999998876321110000      000000011   11


Q ss_pred             HHHHHHHhCCC------C--CC-------CCchHHHHHHHHHHh----CCCeEEEEEeCCCCh--hhhhhhCCCC--CCC
Q 010355          218 QGQIADKLGLK------F--YE-------ESESGRARKLCERLK----KEKKILVILDDIWTN--LDLENVGIPF--GVR  274 (512)
Q Consensus       218 l~~i~~~l~~~------~--~~-------~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~--~~~  274 (512)
                      .+.|.. ...+      .  ..       .-..+.+..+.+.+.    .+++.++|||++...  ...+.+...+  +..
T Consensus        92 c~~i~~-~~HPDl~~i~~~~~~~~~~~~~~I~VdqiR~l~~~~~~~~~~~~~kVviIDead~m~~~aanaLLK~LEepp~  170 (365)
T PRK07471         92 ARRIAA-GAHGGLLTLERSWNEKGKRLRTVITVDEVRELISFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLEEPPA  170 (365)
T ss_pred             HHHHHc-cCCCCeEEEecccccccccccccccHHHHHHHHHHhCcCcccCCCEEEEEechHhcCHHHHHHHHHHHhcCCC
Confidence            111110 0000      0  00       001223444444443    356779999999643  3333331111  134


Q ss_pred             CeEEEEEeCCcc-hhccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHH
Q 010355          275 GCRVLMTARSQD-VLSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIA  347 (512)
Q Consensus       275 gs~iivTtR~~~-v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia  347 (512)
                      ++.+|++|.+.. +..........+.+.+++.++..+++.+......     ......+++.++|.|+....+.
T Consensus       171 ~~~~IL~t~~~~~llpti~SRc~~i~l~~l~~~~i~~~L~~~~~~~~-----~~~~~~l~~~s~Gsp~~Al~ll  239 (365)
T PRK07471        171 RSLFLLVSHAPARLLPTIRSRCRKLRLRPLAPEDVIDALAAAGPDLP-----DDPRAALAALAEGSVGRALRLA  239 (365)
T ss_pred             CeEEEEEECCchhchHHhhccceEEECCCCCHHHHHHHHHHhcccCC-----HHHHHHHHHHcCCCHHHHHHHh
Confidence            566777776653 3233344557899999999999999988653211     1223678999999998665543

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.66  E-value=3.5e-07  Score=92.90  Aligned_cols=197  Identities=14%  Similarity=0.147  Sum_probs=111.3

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDV-HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIAD  223 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~  223 (512)
                      |.....++|.+..+..|..++..++. +.+.++|+.|+||||+|+.+++...-.....   ...+....+...+...+..
T Consensus        14 P~~f~dvVGQe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~---~~pCg~C~sC~~i~~g~~~   90 (484)
T PRK14956         14 PQFFRDVIHQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRLNCENPIG---NEPCNECTSCLEITKGISS   90 (484)
T ss_pred             CCCHHHHhChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhcCcccccC---ccccCCCcHHHHHHccCCc
Confidence            44566789999999999999887765 4689999999999999999998764211100   0011111111111111100


Q ss_pred             HhC-CCCCCCCchHHHHHHHHHHh----CCCeEEEEEeCCCCh--hhhhhhCCCCC--CCCeEEEEEeC-CcchhccccC
Q 010355          224 KLG-LKFYEESESGRARKLCERLK----KEKKILVILDDIWTN--LDLENVGIPFG--VRGCRVLMTAR-SQDVLSSKMD  293 (512)
Q Consensus       224 ~l~-~~~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~--~~gs~iivTtR-~~~v~~~~~~  293 (512)
                      .+. +..........+..+.+.+.    .++.-++|||++...  ..++.+...+.  ...+.+|++|. ...+......
T Consensus        91 dviEIdaas~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~kI~~TI~S  170 (484)
T PRK14956         91 DVLEIDAASNRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIPETILS  170 (484)
T ss_pred             cceeechhhcccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhhccHHHHh
Confidence            000 00000111122233333332    356679999999754  34444422212  24555554444 3434333334


Q ss_pred             CccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHH
Q 010355          294 CQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVT  345 (512)
Q Consensus       294 ~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~  345 (512)
                      ....|.+.+++.++....+.+.+...... --.+....|++.++|.|.-+..
T Consensus       171 RCq~~~f~~ls~~~i~~~L~~i~~~Egi~-~e~eAL~~Ia~~S~Gd~RdAL~  221 (484)
T PRK14956        171 RCQDFIFKKVPLSVLQDYSEKLCKIENVQ-YDQEGLFWIAKKGDGSVRDMLS  221 (484)
T ss_pred             hhheeeecCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCChHHHHHH
Confidence            45679999999999999888876432211 1235678899999999854433

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

Probab=98.65  E-value=8.7e-08  Score=86.75  Aligned_cols=48  Identities=19%  Similarity=0.270  Sum_probs=34.7

Q ss_pred             ccccchHHHHHHHHHhc---CCCceEEEEEcCCCCcHHHHHHHHHHhhhhc
Q 010355          150 AFESRMSTLNDVINALK---NPDVHMIGAYGMAGVGKTMLVKEVARQAKAD  197 (512)
Q Consensus       150 ~~~gR~~~l~~l~~~L~---~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~  197 (512)
                      .|+||+.++++|...|.   ....+++.|+|.+|+|||+|+++++......
T Consensus         1 ~fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~   51 (185)
T PF13191_consen    1 QFVGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRLAER   51 (185)
T ss_dssp             --TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            48999999999999993   4557999999999999999999999988765

>PRK08727 hypothetical protein; Validated

Probab=98.65  E-value=4.7e-07  Score=85.07  Aligned_cols=170  Identities=17%  Similarity=0.154  Sum_probs=100.1

Q ss_pred             ccccccch-HHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhC
Q 010355          148 YEAFESRM-STLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLG  226 (512)
Q Consensus       148 ~~~~~gR~-~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~  226 (512)
                      ...|++.. ..+..+...........+.|+|.+|+|||+|++.+++.....  ...++|+++..      ....+     
T Consensus        18 f~~f~~~~~n~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~a~~~~~~~~--~~~~~y~~~~~------~~~~~-----   84 (233)
T PRK08727         18 FDSYIAAPDGLLAQLQALAAGQSSDWLYLSGPAGTGKTHLALALCAAAEQA--GRSSAYLPLQA------AAGRL-----   84 (233)
T ss_pred             hhhccCCcHHHHHHHHHHHhccCCCeEEEECCCCCCHHHHHHHHHHHHHHc--CCcEEEEeHHH------hhhhH-----
Confidence            34455433 334443333333344679999999999999999999886643  34566765422      11111     


Q ss_pred             CCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh---hhhhhCCCC----CCCCeEEEEEeCCcchh--------ccc
Q 010355          227 LKFYEESESGRARKLCERLKKEKKILVILDDIWTNL---DLENVGIPF----GVRGCRVLMTARSQDVL--------SSK  291 (512)
Q Consensus       227 ~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~---~~~~l~~~~----~~~gs~iivTtR~~~v~--------~~~  291 (512)
                                  ....+.+.  +.-+|||||+....   .+....+.+    ...+..||+|++...-.        ...
T Consensus        85 ------------~~~~~~l~--~~dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~~~~dL~SR  150 (233)
T PRK08727         85 ------------RDALEALE--GRSLVALDGLESIAGQREDEVALFDFHNRARAAGITLLYTARQMPDGLALVLPDLRSR  150 (233)
T ss_pred             ------------HHHHHHHh--cCCEEEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECCCChhhhhhhhHHHHHH
Confidence                        11223333  34699999996432   222111111    13466799999864321        011


Q ss_pred             cCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHH
Q 010355          292 MDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVT  345 (512)
Q Consensus       292 ~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~  345 (512)
                      +.....+++++++.++-..++.+++..... .--.++..-|++.|.|-.-.+..
T Consensus       151 l~~~~~~~l~~~~~e~~~~iL~~~a~~~~l-~l~~e~~~~La~~~~rd~r~~l~  203 (233)
T PRK08727        151 LAQCIRIGLPVLDDVARAAVLRERAQRRGL-ALDEAAIDWLLTHGERELAGLVA  203 (233)
T ss_pred             HhcCceEEecCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHhCCCCHHHHHH
Confidence            223468899999999999999987642111 11235677888888876665533

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

Probab=98.63  E-value=1.6e-06  Score=82.38  Aligned_cols=192  Identities=18%  Similarity=0.167  Sum_probs=117.4

Q ss_pred             hHHHHHHHHHhc---CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCC----CeEEEEEeCCCCCHHHHHHHHHHHhCC
Q 010355          155 MSTLNDVINALK---NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLF----DEVVYAEVSQRPDVKKIQGQIADKLGL  227 (512)
Q Consensus       155 ~~~l~~l~~~L~---~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f----~~~~wv~~~~~~~~~~ll~~i~~~l~~  227 (512)
                      ...++.|...|.   ....+.+.|+|.+|+|||+++++++..+.....-    -.++.|.+...++...++..|+.+++.
T Consensus        43 ~~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~lga  122 (302)
T PF05621_consen   43 KEALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSAILEALGA  122 (302)
T ss_pred             HHHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHHHHHHhCc
Confidence            344556666555   4457889999999999999999999876543111    157888999999999999999999999


Q ss_pred             CCCCCCch-HHHHHHHHHHhCCCeEEEEEeCCCChh---------hhhhhCCCCC-CCCeEEEEEeCCcchhc----ccc
Q 010355          228 KFYEESES-GRARKLCERLKKEKKILVILDDIWTNL---------DLENVGIPFG-VRGCRVLMTARSQDVLS----SKM  292 (512)
Q Consensus       228 ~~~~~~~~-~~~~~l~~~l~~~k~~LlVlDdv~~~~---------~~~~l~~~~~-~~gs~iivTtR~~~v~~----~~~  292 (512)
                      +....... .....+...++.-+.-+||+|.+.+..         .++.++...+ ..-+-|.+-|+....+-    ...
T Consensus       123 P~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~~A~~al~~D~QLa  202 (302)
T PF05621_consen  123 PYRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTREAYRALRTDPQLA  202 (302)
T ss_pred             ccCCCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccHHHHHHhccCHHHH
Confidence            87554333 333444455555566799999997641         1222222211 22234555555432220    011


Q ss_pred             CCccceecCCCCHHH-HHHHHHHHh---C-CCCCCchhHHHHHHHHHHcCCChhHHHHH
Q 010355          293 DCQNNFLIGVLNESE-ARDLFKKLV---G-DKIENNDLKSLAMNIVKACRGLPIAIVTI  346 (512)
Q Consensus       293 ~~~~~~~l~~L~~~e-a~~Lf~~~~---~-~~~~~~~~~~~~~~I~~~~~GlPLai~~i  346 (512)
                      +....+.|++...++ ...|+...-   . .....-...+++..|+..++|+.=-+..+
T Consensus       203 ~RF~~~~Lp~W~~d~ef~~LL~s~e~~LPLr~~S~l~~~~la~~i~~~s~G~iG~l~~l  261 (302)
T PF05621_consen  203 SRFEPFELPRWELDEEFRRLLASFERALPLRKPSNLASPELARRIHERSEGLIGELSRL  261 (302)
T ss_pred             hccCCccCCCCCCCcHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHcCCchHHHHHH
Confidence            233556666655543 444443332   2 11111223578899999999986544433

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

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=98.62  E-value=7.2e-07  Score=94.39  Aligned_cols=194  Identities=12%  Similarity=0.134  Sum_probs=109.6

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDV-HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIAD  223 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~  223 (512)
                      |.....++|.+..+..|...+..++. +.+.++|+.|+||||+|+.+++..--...+.       ...+......+.|..
T Consensus        12 P~~f~divGQe~vv~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~-------~~pCg~C~~C~~i~~   84 (647)
T PRK07994         12 PQTFAEVVGQEHVLTALANALDLGRLHHAYLFSGTRGVGKTTIARLLAKGLNCETGIT-------ATPCGECDNCREIEQ   84 (647)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhhhccCCC-------CCCCCCCHHHHHHHc
Confidence            34566789999999999998887665 4468999999999999999988754211100       001111111111111


Q ss_pred             HhC-----CCCCCCCchHHHHHHHHHHh----CCCeEEEEEeCCCCh--hhhhhhCCCC--CCCCeEEEEEeCC-cchhc
Q 010355          224 KLG-----LKFYEESESGRARKLCERLK----KEKKILVILDDIWTN--LDLENVGIPF--GVRGCRVLMTARS-QDVLS  289 (512)
Q Consensus       224 ~l~-----~~~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~--~~~gs~iivTtR~-~~v~~  289 (512)
                      .-.     +........+.+..+.+.+.    .+++-++|||++...  ...+.+.-.+  +..++++|++|.+ ..+..
T Consensus        85 g~~~D~ieidaas~~~VddiR~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~kLl~  164 (647)
T PRK07994         85 GRFVDLIEIDAASRTKVEDTRELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPV  164 (647)
T ss_pred             CCCCCceeecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccccch
Confidence            000     00000011122223333321    356779999999754  2333331111  1345555555544 33332


Q ss_pred             cccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHH
Q 010355          290 SKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTI  346 (512)
Q Consensus       290 ~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~i  346 (512)
                      ........+.+.+|+.++....+.+.+...... .-......|++.++|.|.-+..+
T Consensus       165 TI~SRC~~~~f~~Ls~~ei~~~L~~il~~e~i~-~e~~aL~~Ia~~s~Gs~R~Al~l  220 (647)
T PRK07994        165 TILSRCLQFHLKALDVEQIRQQLEHILQAEQIP-FEPRALQLLARAADGSMRDALSL  220 (647)
T ss_pred             HHHhhheEeeCCCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHH
Confidence            233445789999999999999998876322111 11345678999999987744433

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.61  E-value=2e-06  Score=89.72  Aligned_cols=185  Identities=14%  Similarity=0.211  Sum_probs=108.1

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHHhhhhc-------------------CCCCeEE
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDV-HMIGAYGMAGVGKTMLVKEVARQAKAD-------------------KLFDEVV  204 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~-------------------~~f~~~~  204 (512)
                      |.....++|.+..+..|..++..++. +.+.++|+.|+||||+|+.+++...-.                   ..|..++
T Consensus        12 P~~f~diiGq~~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~~~~dli   91 (546)
T PRK14957         12 PQSFAEVAGQQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNNSFIDLI   91 (546)
T ss_pred             cCcHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcCCCCceE
Confidence            34456788999999999998886554 557899999999999999999865311                   0122233


Q ss_pred             EEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCCh--hhhhhhCCCCC--CCCeEEEE
Q 010355          205 YAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTN--LDLENVGIPFG--VRGCRVLM  280 (512)
Q Consensus       205 wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~l~~~~~--~~gs~iiv  280 (512)
                      ++.........++ +.|+..+                ...-..+++-++|+|++...  ..++.+.-.+.  ...+.+|+
T Consensus        92 eidaas~~gvd~i-r~ii~~~----------------~~~p~~g~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~fIL  154 (546)
T PRK14957         92 EIDAASRTGVEET-KEILDNI----------------QYMPSQGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFIL  154 (546)
T ss_pred             EeecccccCHHHH-HHHHHHH----------------HhhhhcCCcEEEEEechhhccHHHHHHHHHHHhcCCCCceEEE
Confidence            3333222222211 1221111                11111246679999999744  23333321111  34555555


Q ss_pred             Ee-CCcchhccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChh-HHHHHH
Q 010355          281 TA-RSQDVLSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPI-AIVTIA  347 (512)
Q Consensus       281 Tt-R~~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPL-ai~~ia  347 (512)
                      +| ....+..........+++.+++.++....+.+.+..... .--......|++.++|.+. |+..+-
T Consensus       155 ~Ttd~~kil~tI~SRc~~~~f~~Ls~~eI~~~L~~il~~egi-~~e~~Al~~Ia~~s~GdlR~alnlLe  222 (546)
T PRK14957        155 ATTDYHKIPVTILSRCIQLHLKHISQADIKDQLKIILAKENI-NSDEQSLEYIAYHAKGSLRDALSLLD  222 (546)
T ss_pred             EECChhhhhhhHHHheeeEEeCCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            44 433333223344578999999999998888876642221 1123456789999999664 444443

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=98.61  E-value=4.9e-06  Score=83.78  Aligned_cols=184  Identities=14%  Similarity=0.151  Sum_probs=108.3

Q ss_pred             cCccccccchHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHHhhhhcC--------------------CCCeEE
Q 010355          146 KGYEAFESRMSTLNDVINALKNPDV-HMIGAYGMAGVGKTMLVKEVARQAKADK--------------------LFDEVV  204 (512)
Q Consensus       146 ~~~~~~~gR~~~l~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~--------------------~f~~~~  204 (512)
                      .....++|.+..++.|..++..+.. +.+.++|++|+||||+|+.++....-..                    +++ ++
T Consensus        11 ~~~~~iig~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~~-~~   89 (355)
T TIGR02397        11 QTFEDVIGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEINSGSSLD-VI   89 (355)
T ss_pred             CcHhhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCC-EE
Confidence            4456788999999999998886554 5788999999999999999988753210                    111 22


Q ss_pred             EEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCCh--hhhhhhC--CCCCCCCeEEEE
Q 010355          205 YAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTN--LDLENVG--IPFGVRGCRVLM  280 (512)
Q Consensus       205 wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~l~--~~~~~~gs~iiv  280 (512)
                      ++......... -.+.++..+...+               . .+++-++|+|++...  .....+.  +..+...+.+|+
T Consensus        90 ~~~~~~~~~~~-~~~~l~~~~~~~p---------------~-~~~~~vviidea~~l~~~~~~~Ll~~le~~~~~~~lIl  152 (355)
T TIGR02397        90 EIDAASNNGVD-DIREILDNVKYAP---------------S-SGKYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVVFIL  152 (355)
T ss_pred             EeeccccCCHH-HHHHHHHHHhcCc---------------c-cCCceEEEEeChhhcCHHHHHHHHHHHhCCccceeEEE
Confidence            33222111111 1222222221100               0 134568899998643  2233321  111134566667


Q ss_pred             EeCCcc-hhccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHHH
Q 010355          281 TARSQD-VLSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIAR  348 (512)
Q Consensus       281 TtR~~~-v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~  348 (512)
                      +|.+.. +..........+.+.+++..+...++...+...... --.+.+..|++.++|.|..+.....
T Consensus       153 ~~~~~~~l~~~l~sr~~~~~~~~~~~~~l~~~l~~~~~~~g~~-i~~~a~~~l~~~~~g~~~~a~~~le  220 (355)
T TIGR02397       153 ATTEPHKIPATILSRCQRFDFKRIPLEDIVERLKKILDKEGIK-IEDEALELIARAADGSLRDALSLLD  220 (355)
T ss_pred             EeCCHHHHHHHHHhheeEEEcCCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCChHHHHHHHH
Confidence            765443 222122334578899999999999998876422211 1135678899999999876655443

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.

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.61  E-value=9.1e-07  Score=93.39  Aligned_cols=197  Identities=12%  Similarity=0.125  Sum_probs=110.0

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHHhhhhcCCC--CeEEEEEeCCCCCHHHHHHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDV-HMIGAYGMAGVGKTMLVKEVARQAKADKLF--DEVVYAEVSQRPDVKKIQGQI  221 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f--~~~~wv~~~~~~~~~~ll~~i  221 (512)
                      |.....++|.+..+..|.+++..++. +.+.++|+.|+||||+|+.+++..--....  .+...    ..++.....+.|
T Consensus        12 P~~f~dviGQe~vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~----~pCg~C~~C~~i   87 (618)
T PRK14951         12 PRSFSEMVGQEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITA----TPCGVCQACRDI   87 (618)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCC----CCCCccHHHHHH
Confidence            34566789999999999999887665 567899999999999999998765311100  00000    001111111111


Q ss_pred             HHHh-----CCCCCCCCchHHHHHHHHHHh----CCCeEEEEEeCCCCh--hhhhhhCCCCC--CCCeEEEEEeCC-cch
Q 010355          222 ADKL-----GLKFYEESESGRARKLCERLK----KEKKILVILDDIWTN--LDLENVGIPFG--VRGCRVLMTARS-QDV  287 (512)
Q Consensus       222 ~~~l-----~~~~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~--~~gs~iivTtR~-~~v  287 (512)
                      ...-     .+........+.+..+.+.+.    .++.-++|||+++..  ..++.+...+.  ...+++|++|.+ ..+
T Consensus        88 ~~g~h~D~~eldaas~~~Vd~iReli~~~~~~p~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd~~ki  167 (618)
T PRK14951         88 DSGRFVDYTELDAASNRGVDEVQQLLEQAVYKPVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDPQKV  167 (618)
T ss_pred             HcCCCCceeecCcccccCHHHHHHHHHHHHhCcccCCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECCchhh
Confidence            0000     000000011112223333221    245568999999754  33444322221  345666665543 333


Q ss_pred             hccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHH
Q 010355          288 LSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTI  346 (512)
Q Consensus       288 ~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~i  346 (512)
                      ..........+.+++|+.++....+.+.+......- -...+..|++.++|.+.-+..+
T Consensus       168 l~TIlSRc~~~~f~~Ls~eei~~~L~~i~~~egi~i-e~~AL~~La~~s~GslR~al~l  225 (618)
T PRK14951        168 PVTVLSRCLQFNLRPMAPETVLEHLTQVLAAENVPA-EPQALRLLARAARGSMRDALSL  225 (618)
T ss_pred             hHHHHHhceeeecCCCCHHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHcCCCHHHHHHH
Confidence            322344557899999999999999988764322211 1356778899999987655444

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=98.60  E-value=1.1e-06  Score=92.60  Aligned_cols=180  Identities=12%  Similarity=0.195  Sum_probs=108.4

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHHhhhhcCC-------------------CCeEE
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDV-HMIGAYGMAGVGKTMLVKEVARQAKADKL-------------------FDEVV  204 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~-------------------f~~~~  204 (512)
                      |.....++|.+..+..|..++..++. +.+.++|+.|+||||+|+.+++...-...                   |..++
T Consensus        12 P~tFddIIGQe~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~~~pCg~C~sCr~i~~g~~~Dvl   91 (709)
T PRK08691         12 PKTFADLVGQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVCQSCTQIDAGRYVDLL   91 (709)
T ss_pred             CCCHHHHcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcccCCCCCCCCcccHHHHHHhccCccceE
Confidence            44566789999999999999987664 56899999999999999999886532111                   11112


Q ss_pred             EEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHH----hCCCeEEEEEeCCCChhh--hhhhCCCC--CCCCe
Q 010355          205 YAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERL----KKEKKILVILDDIWTNLD--LENVGIPF--GVRGC  276 (512)
Q Consensus       205 wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l----~~~k~~LlVlDdv~~~~~--~~~l~~~~--~~~gs  276 (512)
                      .++.......                     ..+..+....    ..+++-++|||++.....  .+.+...+  ....+
T Consensus        92 EidaAs~~gV---------------------d~IRelle~a~~~P~~gk~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v  150 (709)
T PRK08691         92 EIDAASNTGI---------------------DNIREVLENAQYAPTAGKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHV  150 (709)
T ss_pred             EEeccccCCH---------------------HHHHHHHHHHHhhhhhCCcEEEEEECccccCHHHHHHHHHHHHhCCCCc
Confidence            2222221121                     1122222211    124567999999975422  22221111  13456


Q ss_pred             EEEEEeCCcc-hhccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHH
Q 010355          277 RVLMTARSQD-VLSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTI  346 (512)
Q Consensus       277 ~iivTtR~~~-v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~i  346 (512)
                      ++|++|.... +.....+....+.+.+++.++....+.+.+......- -...+..|++.++|.+.-+..+
T Consensus       151 ~fILaTtd~~kL~~TIrSRC~~f~f~~Ls~eeI~~~L~~Il~kEgi~i-d~eAL~~Ia~~A~GslRdAlnL  220 (709)
T PRK08691        151 KFILATTDPHKVPVTVLSRCLQFVLRNMTAQQVADHLAHVLDSEKIAY-EPPALQLLGRAAAGSMRDALSL  220 (709)
T ss_pred             EEEEEeCCccccchHHHHHHhhhhcCCCCHHHHHHHHHHHHHHcCCCc-CHHHHHHHHHHhCCCHHHHHHH
Confidence            6776665432 2222233446788999999999999988775322111 1346788999999988654443

>PRK09087 hypothetical protein; Validated

Probab=98.59  E-value=1.5e-06  Score=81.14  Aligned_cols=145  Identities=20%  Similarity=0.163  Sum_probs=89.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCC
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKE  248 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  248 (512)
                      ..+.+.|+|++|+|||+|++.++.....       .|++..      .+...++                    ..+.. 
T Consensus        43 ~~~~l~l~G~~GsGKThLl~~~~~~~~~-------~~i~~~------~~~~~~~--------------------~~~~~-   88 (226)
T PRK09087         43 PSPVVVLAGPVGSGKTHLASIWREKSDA-------LLIHPN------EIGSDAA--------------------NAAAE-   88 (226)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHhcCC-------EEecHH------HcchHHH--------------------Hhhhc-
Confidence            3467999999999999999998876431       244321      1111111                    11111 


Q ss_pred             CeEEEEEeCCCCh----hhhhhhCCCCCCCCeEEEEEeCCcchh--------ccccCCccceecCCCCHHHHHHHHHHHh
Q 010355          249 KKILVILDDIWTN----LDLENVGIPFGVRGCRVLMTARSQDVL--------SSKMDCQNNFLIGVLNESEARDLFKKLV  316 (512)
Q Consensus       249 k~~LlVlDdv~~~----~~~~~l~~~~~~~gs~iivTtR~~~v~--------~~~~~~~~~~~l~~L~~~ea~~Lf~~~~  316 (512)
                        -+|+|||+...    ..+-.+.......|..+|+|++.....        ...+....++++++++.++-.+++.+.+
T Consensus        89 --~~l~iDDi~~~~~~~~~lf~l~n~~~~~g~~ilits~~~p~~~~~~~~dL~SRl~~gl~~~l~~pd~e~~~~iL~~~~  166 (226)
T PRK09087         89 --GPVLIEDIDAGGFDETGLFHLINSVRQAGTSLLMTSRLWPSSWNVKLPDLKSRLKAATVVEIGEPDDALLSQVIFKLF  166 (226)
T ss_pred             --CeEEEECCCCCCCCHHHHHHHHHHHHhCCCeEEEECCCChHHhccccccHHHHHhCCceeecCCCCHHHHHHHHHHHH
Confidence              37888999532    122222111124577899998753321        1123445789999999999999999888


Q ss_pred             CCCCCCchhHHHHHHHHHHcCCChhHHHHHHHHh
Q 010355          317 GDKIENNDLKSLAMNIVKACRGLPIAIVTIARAL  350 (512)
Q Consensus       317 ~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~~L  350 (512)
                      ..... .--+++..-|++.+.|.+-++..+...|
T Consensus       167 ~~~~~-~l~~ev~~~La~~~~r~~~~l~~~l~~L  199 (226)
T PRK09087        167 ADRQL-YVDPHVVYYLVSRMERSLFAAQTIVDRL  199 (226)
T ss_pred             HHcCC-CCCHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence            53211 1124678889999998888777544444

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.59  E-value=1.3e-06  Score=90.99  Aligned_cols=184  Identities=13%  Similarity=0.186  Sum_probs=110.3

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCce-EEEEEcCCCCcHHHHHHHHHHhhhhcC-------------------CCCeEE
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDVH-MIGAYGMAGVGKTMLVKEVARQAKADK-------------------LFDEVV  204 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~-------------------~f~~~~  204 (512)
                      |.....++|.+..+..|.+++..+..+ .+.++|+.|+||||+|+.+++..--..                   .|.-++
T Consensus        12 P~~f~divGq~~v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~g~~~d~~   91 (509)
T PRK14958         12 PRCFQEVIGQAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCREIDEGRFPDLF   91 (509)
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHhCCCCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHHhcCCCceEE
Confidence            445667899999999999999866654 578999999999999999998763211                   111233


Q ss_pred             EEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCCh--hhhhhhCCCC--CCCCeEEEE
Q 010355          205 YAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTN--LDLENVGIPF--GVRGCRVLM  280 (512)
Q Consensus       205 wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~l~~~~--~~~gs~iiv  280 (512)
                      .++........++ +.++..+...+                ..++.-++|||++...  ...+.+.-.+  +...+++|+
T Consensus        92 eidaas~~~v~~i-R~l~~~~~~~p----------------~~~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~fIl  154 (509)
T PRK14958         92 EVDAASRTKVEDT-RELLDNIPYAP----------------TKGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFIL  154 (509)
T ss_pred             EEcccccCCHHHH-HHHHHHHhhcc----------------ccCCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEEEE
Confidence            3433333333332 22332221110                1246678999999754  2333331111  134566666


Q ss_pred             EeCCc-chhccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHH
Q 010355          281 TARSQ-DVLSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTI  346 (512)
Q Consensus       281 TtR~~-~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~i  346 (512)
                      +|.+. .+..........+.+.+++..+....+.+.+......- -......|++.++|.|.-+..+
T Consensus       155 attd~~kl~~tI~SRc~~~~f~~l~~~~i~~~l~~il~~egi~~-~~~al~~ia~~s~GslR~al~l  220 (509)
T PRK14958        155 ATTDHHKLPVTVLSRCLQFHLAQLPPLQIAAHCQHLLKEENVEF-ENAALDLLARAANGSVRDALSL  220 (509)
T ss_pred             EECChHhchHHHHHHhhhhhcCCCCHHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHcCCcHHHHHHH
Confidence            65443 33222233446789999999998888777764222111 1345678899999988654443

>PRK08084 DNA replication initiation factor; Provisional

Probab=98.59  E-value=9.9e-07  Score=83.03  Aligned_cols=166  Identities=16%  Similarity=0.122  Sum_probs=99.7

Q ss_pred             HHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchH
Q 010355          157 TLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESG  236 (512)
Q Consensus       157 ~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~  236 (512)
                      .+..+..+......+.+.|+|++|+|||+|++.+++.....  ...+.|+++.....                       
T Consensus        32 a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~--~~~v~y~~~~~~~~-----------------------   86 (235)
T PRK08084         32 LLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELSQR--GRAVGYVPLDKRAW-----------------------   86 (235)
T ss_pred             HHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHhC--CCeEEEEEHHHHhh-----------------------
Confidence            44455555445555789999999999999999999876632  34566766532100                       


Q ss_pred             HHHHHHHHHhCCCeEEEEEeCCCCh---hhhhhh----CCCCCCCC-eEEEEEeCCcchh--------ccccCCccceec
Q 010355          237 RARKLCERLKKEKKILVILDDIWTN---LDLENV----GIPFGVRG-CRVLMTARSQDVL--------SSKMDCQNNFLI  300 (512)
Q Consensus       237 ~~~~l~~~l~~~k~~LlVlDdv~~~---~~~~~l----~~~~~~~g-s~iivTtR~~~v~--------~~~~~~~~~~~l  300 (512)
                      ....+.+.+.  +--+|+|||+...   ..|...    .......| .++|+||+.....        ...+....++.+
T Consensus        87 ~~~~~~~~~~--~~dlliiDdi~~~~~~~~~~~~lf~l~n~~~e~g~~~li~ts~~~p~~l~~~~~~L~SRl~~g~~~~l  164 (235)
T PRK08084         87 FVPEVLEGME--QLSLVCIDNIECIAGDELWEMAIFDLYNRILESGRTRLLITGDRPPRQLNLGLPDLASRLDWGQIYKL  164 (235)
T ss_pred             hhHHHHHHhh--hCCEEEEeChhhhcCCHHHHHHHHHHHHHHHHcCCCeEEEeCCCChHHcCcccHHHHHHHhCCceeee
Confidence            0011222222  1248899999643   223221    11111233 4799999865322        111234478999


Q ss_pred             CCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHHHHh
Q 010355          301 GVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARAL  350 (512)
Q Consensus       301 ~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~~L  350 (512)
                      .+++.++-.+++.+.+..... .--+++..-|++.+.|..-.+..+-..|
T Consensus       165 ~~~~~~~~~~~l~~~a~~~~~-~l~~~v~~~L~~~~~~d~r~l~~~l~~l  213 (235)
T PRK08084        165 QPLSDEEKLQALQLRARLRGF-ELPEDVGRFLLKRLDREMRTLFMTLDQL  213 (235)
T ss_pred             cCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHhhcCCHHHHHHHHHHH
Confidence            999999999998876642211 1124677888898888766665554443

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=98.57  E-value=2.3e-06  Score=86.19  Aligned_cols=169  Identities=14%  Similarity=0.125  Sum_probs=102.6

Q ss_pred             ccccccchHHHHHHHHHhcCC----------CceEEEEEcCCCCcHHHHHHHHHHhhhhcC-------------------
Q 010355          148 YEAFESRMSTLNDVINALKNP----------DVHMIGAYGMAGVGKTMLVKEVARQAKADK-------------------  198 (512)
Q Consensus       148 ~~~~~gR~~~l~~l~~~L~~~----------~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~-------------------  198 (512)
                      ...++|.+..+..|..++..+          -.+.+.++|++|+|||++|..++...--..                   
T Consensus         4 f~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~~~~Cg~C~~C~~~~~~~   83 (394)
T PRK07940          4 WDDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPDEPGCGECRACRTVLAGT   83 (394)
T ss_pred             hhhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCC
Confidence            346789998889898888754          356789999999999999999987643111                   


Q ss_pred             CCCeEEEEEeC-CCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHh----CCCeEEEEEeCCCCh--hhhhhh----
Q 010355          199 LFDEVVYAEVS-QRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLK----KEKKILVILDDIWTN--LDLENV----  267 (512)
Q Consensus       199 ~f~~~~wv~~~-~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l----  267 (512)
                      |.+ +.++... .....                     ..+..+.+.+.    .+++-++|+|++...  ...+.+    
T Consensus        84 hpD-~~~i~~~~~~i~i---------------------~~iR~l~~~~~~~p~~~~~kViiIDead~m~~~aanaLLk~L  141 (394)
T PRK07940         84 HPD-VRVVAPEGLSIGV---------------------DEVRELVTIAARRPSTGRWRIVVIEDADRLTERAANALLKAV  141 (394)
T ss_pred             CCC-EEEeccccccCCH---------------------HHHHHHHHHHHhCcccCCcEEEEEechhhcCHHHHHHHHHHh
Confidence            111 1122111 11111                     12223333322    245568888999754  222222    


Q ss_pred             CCCCCCCCeEEEEEeCCc-chhccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHH
Q 010355          268 GIPFGVRGCRVLMTARSQ-DVLSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTI  346 (512)
Q Consensus       268 ~~~~~~~gs~iivTtR~~-~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~i  346 (512)
                      ..|  .+++.+|++|.+. .+..........+.+.+++.++....+.+..+.   +   .+.+..++..++|.|.....+
T Consensus       142 Eep--~~~~~fIL~a~~~~~llpTIrSRc~~i~f~~~~~~~i~~~L~~~~~~---~---~~~a~~la~~s~G~~~~A~~l  213 (394)
T PRK07940        142 EEP--PPRTVWLLCAPSPEDVLPTIRSRCRHVALRTPSVEAVAEVLVRRDGV---D---PETARRAARASQGHIGRARRL  213 (394)
T ss_pred             hcC--CCCCeEEEEECChHHChHHHHhhCeEEECCCCCHHHHHHHHHHhcCC---C---HHHHHHHHHHcCCCHHHHHHH
Confidence            222  3456666666554 333333344578999999999999888754321   1   245678899999999755433

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.56  E-value=2.6e-06  Score=87.60  Aligned_cols=183  Identities=10%  Similarity=0.092  Sum_probs=110.5

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCce-EEEEEcCCCCcHHHHHHHHHHhhhhc-------------------CCCCeEE
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDVH-MIGAYGMAGVGKTMLVKEVARQAKAD-------------------KLFDEVV  204 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~-------------------~~f~~~~  204 (512)
                      |.....++|.+..++.|.+.+..++.+ .+.++|+.|+||||+|+.++...--.                   ..+.-++
T Consensus         9 P~~f~dliGQe~vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~Dv~   88 (491)
T PRK14964          9 PSSFKDLVGQDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHPDVI   88 (491)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCCCEE
Confidence            345667899999999988888866654 89999999999999999998753210                   1122234


Q ss_pred             EEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCCh--hhhhhhCCCC--CCCCeEEEE
Q 010355          205 YAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTN--LDLENVGIPF--GVRGCRVLM  280 (512)
Q Consensus       205 wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~l~~~~--~~~gs~iiv  280 (512)
                      .++.+...+..++ +.++......+                ..+++-++|+|++...  ...+.+.-.+  +.+++++|+
T Consensus        89 eidaas~~~vddI-R~Iie~~~~~P----------------~~~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fIl  151 (491)
T PRK14964         89 EIDAASNTSVDDI-KVILENSCYLP----------------ISSKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFIL  151 (491)
T ss_pred             EEecccCCCHHHH-HHHHHHHHhcc----------------ccCCceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEEE
Confidence            4444433333332 22222211100                0145678999999644  2233331111  135666666


Q ss_pred             EeCC-cchhccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHH
Q 010355          281 TARS-QDVLSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVT  345 (512)
Q Consensus       281 TtR~-~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~  345 (512)
                      +|.. ..+..........+.+.+++..+....+.+.+......- -.+.+..|++.++|.+..+..
T Consensus       152 atte~~Kl~~tI~SRc~~~~f~~l~~~el~~~L~~ia~~Egi~i-~~eAL~lIa~~s~GslR~als  216 (491)
T PRK14964        152 ATTEVKKIPVTIISRCQRFDLQKIPTDKLVEHLVDIAKKENIEH-DEESLKLIAENSSGSMRNALF  216 (491)
T ss_pred             EeCChHHHHHHHHHhheeeecccccHHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHcCCCHHHHHH
Confidence            6643 333322334557899999999999999988775322211 134667889999988764433

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=98.55  E-value=2.3e-06  Score=86.19  Aligned_cols=172  Identities=19%  Similarity=0.249  Sum_probs=101.1

Q ss_pred             CccccccchHHHHHHHHHhc----C---------CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCC
Q 010355          147 GYEAFESRMSTLNDVINALK----N---------PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPD  213 (512)
Q Consensus       147 ~~~~~~gR~~~l~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  213 (512)
                      ....+.|++..+++|.+.+.    .         ...+.+.|+|++|+|||+||+.+++....  .|     +.+..   
T Consensus       120 ~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~~--~~-----~~v~~---  189 (364)
T TIGR01242       120 SYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNA--TF-----IRVVG---  189 (364)
T ss_pred             CHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCCC--CE-----Eecch---
Confidence            34567899999988887653    1         22456899999999999999999987652  22     22211   


Q ss_pred             HHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh----------------hhhhhCCC---C-CC
Q 010355          214 VKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL----------------DLENVGIP---F-GV  273 (512)
Q Consensus       214 ~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~----------------~~~~l~~~---~-~~  273 (512)
                       ..+....   ++      ........+.+......+.+|+||+++...                .+..+...   + ..
T Consensus       190 -~~l~~~~---~g------~~~~~i~~~f~~a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~~~  259 (364)
T TIGR01242       190 -SELVRKY---IG------EGARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFDPR  259 (364)
T ss_pred             -HHHHHHh---hh------HHHHHHHHHHHHHHhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCCCC
Confidence             1111111   11      011123334444444567899999986431                11111100   1 13


Q ss_pred             CCeEEEEEeCCcchhcc-c---cCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCCh
Q 010355          274 RGCRVLMTARSQDVLSS-K---MDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLP  340 (512)
Q Consensus       274 ~gs~iivTtR~~~v~~~-~---~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlP  340 (512)
                      .+.+||+||........ .   ......+.+++.+.++..++|..++.........  ....+++.+.|..
T Consensus       260 ~~v~vI~ttn~~~~ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~l~~~~--~~~~la~~t~g~s  328 (364)
T TIGR01242       260 GNVKVIAATNRPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLAEDV--DLEAIAKMTEGAS  328 (364)
T ss_pred             CCEEEEEecCChhhCChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcCCCCccC--CHHHHHHHcCCCC
Confidence            46778888875432211 1   1223578899999999999999887543322211  2456778887764

Many proteins may score above the trusted cutoff because an internal

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

Probab=98.55  E-value=2e-07  Score=87.72  Aligned_cols=92  Identities=14%  Similarity=0.100  Sum_probs=63.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCC--CCHHHHHHHH-----HHHhCCCCCCC-Cch-HHHH
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQR--PDVKKIQGQI-----ADKLGLKFYEE-SES-GRAR  239 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~--~~~~~ll~~i-----~~~l~~~~~~~-~~~-~~~~  239 (512)
                      ....++|.|++|+|||||++.+++..... +|+.++|+.+...  .++.++++.+     +..++.+.... ... ....
T Consensus        15 ~Gqr~~I~G~~G~GKTTLlr~I~n~l~~~-~fdv~~~v~vI~er~~ev~el~~~I~~~~v~~~~~~~~~~~~~~~~~~~~   93 (249)
T cd01128          15 KGQRGLIVAPPKAGKTTLLQSIANAITKN-HPEVYLIVLLIDERPEEVTDMQRSVKGEVIASTFDEPPERHVQVAEMVLE   93 (249)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhccccc-cCCeEEEEEEccCCCccHHHHHHHhccEEEEecCCCCHHHHHHHHHHHHH
Confidence            34678999999999999999999988764 8999999997666  7899999998     33333311100 000 1112


Q ss_pred             HHHHHHhCCCeEEEEEeCCCCh
Q 010355          240 KLCERLKKEKKILVILDDIWTN  261 (512)
Q Consensus       240 ~l~~~l~~~k~~LlVlDdv~~~  261 (512)
                      ........+++.+|++|++...
T Consensus        94 ~a~~~~~~G~~vll~iDei~r~  115 (249)
T cd01128          94 KAKRLVEHGKDVVILLDSITRL  115 (249)
T ss_pred             HHHHHHHCCCCEEEEEECHHHh
Confidence            2222224579999999999643

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.

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=98.55  E-value=9.6e-07  Score=97.60  Aligned_cols=182  Identities=15%  Similarity=0.127  Sum_probs=104.3

Q ss_pred             cCccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCC----CCeEE-EEEeCCCCCHHHHHHH
Q 010355          146 KGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKL----FDEVV-YAEVSQRPDVKKIQGQ  220 (512)
Q Consensus       146 ~~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~----f~~~~-wv~~~~~~~~~~ll~~  220 (512)
                      ....+++||+.++.+++..|.......+.++|++|+||||||+.+++.......    ....+ .+.++.-..       
T Consensus       184 ~~ld~~iGr~~ei~~~i~~l~r~~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~l~a-------  256 (852)
T TIGR03345       184 GKIDPVLGRDDEIRQMIDILLRRRQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGLLQA-------  256 (852)
T ss_pred             CCCCcccCCHHHHHHHHHHHhcCCcCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhhhhc-------
Confidence            446789999999999999998777777889999999999999999988643211    12223 233321000       


Q ss_pred             HHHHhCCCCCCCCchHHHHHHHHHHh-CCCeEEEEEeCCCChh---------hhhhhCCCCC-CCCeEEEEEeCCcch--
Q 010355          221 IADKLGLKFYEESESGRARKLCERLK-KEKKILVILDDIWTNL---------DLENVGIPFG-VRGCRVLMTARSQDV--  287 (512)
Q Consensus       221 i~~~l~~~~~~~~~~~~~~~l~~~l~-~~k~~LlVlDdv~~~~---------~~~~l~~~~~-~~gs~iivTtR~~~v--  287 (512)
                           + ..........+..+...+. .+++++|++|++....         +...+..|.- ....++|-||.....  
T Consensus       257 -----g-~~~~ge~e~~lk~ii~e~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~l~~G~l~~IgaTT~~e~~~  330 (852)
T TIGR03345       257 -----G-ASVKGEFENRLKSVIDEVKASPQPIILFIDEAHTLIGAGGQAGQGDAANLLKPALARGELRTIAATTWAEYKK  330 (852)
T ss_pred             -----c-cccchHHHHHHHHHHHHHHhcCCCeEEEEeChHHhccCCCccccccHHHHhhHHhhCCCeEEEEecCHHHHhh
Confidence                 0 0000011122333444443 2468999999986542         1111223322 333566666664321  


Q ss_pred             --h--ccccCCccceecCCCCHHHHHHHHHHHhC---CCCCCchhHHHHHHHHHHcCCCh
Q 010355          288 --L--SSKMDCQNNFLIGVLNESEARDLFKKLVG---DKIENNDLKSLAMNIVKACRGLP  340 (512)
Q Consensus       288 --~--~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~---~~~~~~~~~~~~~~I~~~~~GlP  340 (512)
                        .  .........+.+++++.+++..+|.....   ....-.-..+....+++.+.+.+
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              0  11123446899999999999999765442   11111111345556666665543

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.

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=98.54  E-value=2.1e-06  Score=89.67  Aligned_cols=195  Identities=13%  Similarity=0.122  Sum_probs=106.7

Q ss_pred             ccCccccccchHHHHHHHHHhcCCC-ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPD-VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIAD  223 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~  223 (512)
                      |.....++|++..+..|..++..+. .+.+.++|+.|+||||+|+.+++...-..      |.... .+......+.+..
T Consensus        12 P~~F~dIIGQe~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~------~~~~~-~Cg~C~sCr~i~~   84 (605)
T PRK05896         12 PHNFKQIIGQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAINCLN------PKDGD-CCNSCSVCESINT   84 (605)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcCCC------CCCCC-CCcccHHHHHHHc
Confidence            4456678999999999999887554 45788999999999999999998764211      11100 1111111111111


Q ss_pred             HhCCCC---C--CCCchHHHHHHHHHHh----CCCeEEEEEeCCCCh--hhhhhhCCCC--CCCCeEEEEEeCC-cchhc
Q 010355          224 KLGLKF---Y--EESESGRARKLCERLK----KEKKILVILDDIWTN--LDLENVGIPF--GVRGCRVLMTARS-QDVLS  289 (512)
Q Consensus       224 ~l~~~~---~--~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~--~~~gs~iivTtR~-~~v~~  289 (512)
                      ......   .  .......+..+...+.    .+++-++|+|++...  ..+..+.-.+  +..++.+|++|.. ..+..
T Consensus        85 ~~h~DiieIdaas~igVd~IReIi~~~~~~P~~~~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~Tt~~~KLl~  164 (605)
T PRK05896         85 NQSVDIVELDAASNNGVDEIRNIIDNINYLPTTFKYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQKIPL  164 (605)
T ss_pred             CCCCceEEeccccccCHHHHHHHHHHHHhchhhCCcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEECCChHhhhH
Confidence            100000   0  0011111222222221    123457999998653  3333332111  1335555555533 33322


Q ss_pred             cccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChh-HHHHHH
Q 010355          290 SKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPI-AIVTIA  347 (512)
Q Consensus       290 ~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPL-ai~~ia  347 (512)
                      ........+++.+++..+....+...+...... --...+..|++.++|.|. |+..+-
T Consensus       165 TI~SRcq~ieF~~Ls~~eL~~~L~~il~kegi~-Is~eal~~La~lS~GdlR~AlnlLe  222 (605)
T PRK05896        165 TIISRCQRYNFKKLNNSELQELLKSIAKKEKIK-IEDNAIDKIADLADGSLRDGLSILD  222 (605)
T ss_pred             HHHhhhhhcccCCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCcHHHHHHHHH
Confidence            223345689999999999999988876422111 113457789999999665 444433

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=98.54  E-value=2.1e-06  Score=93.83  Aligned_cols=178  Identities=13%  Similarity=0.131  Sum_probs=106.5

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHHhhhhcCCC---------------------Ce
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDV-HMIGAYGMAGVGKTMLVKEVARQAKADKLF---------------------DE  202 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f---------------------~~  202 (512)
                      |.....++|.+..++.|..++..+++ +.+.++|+.|+||||+|+.+++.+.-....                     ..
T Consensus        11 P~~f~eiiGqe~v~~~L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C~sC~~~~~g~~~~~d   90 (824)
T PRK07764         11 PATFAEVIGQEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGECDSCVALAPGGPGSLD   90 (824)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcccHHHHHHHcCCCCCCc
Confidence            34456789999999999999987665 457899999999999999998876421100                     01


Q ss_pred             EEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHH----hCCCeEEEEEeCCCCh--hhhhhhCCCCC--CC
Q 010355          203 VVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERL----KKEKKILVILDDIWTN--LDLENVGIPFG--VR  274 (512)
Q Consensus       203 ~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l----~~~k~~LlVlDdv~~~--~~~~~l~~~~~--~~  274 (512)
                      +++++......+                     ..+..+.+.+    ..++.-++|||++...  ...+.|...+.  ..
T Consensus        91 v~eidaas~~~V---------------------d~iR~l~~~~~~~p~~~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~  149 (824)
T PRK07764         91 VTEIDAASHGGV---------------------DDARELRERAFFAPAESRYKIFIIDEAHMVTPQGFNALLKIVEEPPE  149 (824)
T ss_pred             EEEecccccCCH---------------------HHHHHHHHHHHhchhcCCceEEEEechhhcCHHHHHHHHHHHhCCCC
Confidence            122222111111                     1222222221    1245668899999754  23333311111  34


Q ss_pred             CeEEEEEeCC-cchhccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHH
Q 010355          275 GCRVLMTARS-QDVLSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIV  344 (512)
Q Consensus       275 gs~iivTtR~-~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~  344 (512)
                      ++.+|++|.+ ..+..........|.+.+++.++...++.+.+......- -......|++.++|.+..+.
T Consensus       150 ~~~fIl~tt~~~kLl~TIrSRc~~v~F~~l~~~~l~~~L~~il~~EGv~i-d~eal~lLa~~sgGdlR~Al  219 (824)
T PRK07764        150 HLKFIFATTEPDKVIGTIRSRTHHYPFRLVPPEVMRGYLERICAQEGVPV-EPGVLPLVIRAGGGSVRDSL  219 (824)
T ss_pred             CeEEEEEeCChhhhhHHHHhheeEEEeeCCCHHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHcCCCHHHHH
Confidence            5666655543 333332334557899999999999988888764222111 13456788999999885443

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.54  E-value=2.3e-06  Score=89.82  Aligned_cols=180  Identities=12%  Similarity=0.161  Sum_probs=105.6

Q ss_pred             cCccccccchHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHHhhhhcC-------------------CCCeEEE
Q 010355          146 KGYEAFESRMSTLNDVINALKNPDV-HMIGAYGMAGVGKTMLVKEVARQAKADK-------------------LFDEVVY  205 (512)
Q Consensus       146 ~~~~~~~gR~~~l~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~-------------------~f~~~~w  205 (512)
                      .....++|.+..++.|..++..++. +.+.++|+.|+||||+|+.++....-..                   .|..+++
T Consensus        13 ~~f~divGq~~v~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~C~~i~~~~~~d~~e   92 (527)
T PRK14969         13 KSFSELVGQEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACLEIDSGRFVDLIE   92 (527)
T ss_pred             CcHHHhcCcHHHHHHHHHHHHcCCCCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCceeE
Confidence            4456788999999999999887655 4568999999999999999988763211                   1111223


Q ss_pred             EEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh--hhhhhCCCC--CCCCeEEEEE
Q 010355          206 AEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL--DLENVGIPF--GVRGCRVLMT  281 (512)
Q Consensus       206 v~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~--~~~~l~~~~--~~~gs~iivT  281 (512)
                      +..+....... ++.++..+...+                ..+++-++|+|++....  ..+.+.-.+  +...+.+|++
T Consensus        93 i~~~~~~~vd~-ir~l~~~~~~~p----------------~~~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fIL~  155 (527)
T PRK14969         93 VDAASNTQVDA-MRELLDNAQYAP----------------TRGRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILA  155 (527)
T ss_pred             eeccccCCHHH-HHHHHHHHhhCc----------------ccCCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEEEE
Confidence            32222222111 122222211100                12466799999997542  233321111  1345666665


Q ss_pred             eCCc-chhccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHH
Q 010355          282 ARSQ-DVLSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAI  343 (512)
Q Consensus       282 tR~~-~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai  343 (512)
                      |.+. .+..........+++.+++.++....+.+.+...... --...+..|++.++|.+.-+
T Consensus       156 t~d~~kil~tI~SRc~~~~f~~l~~~~i~~~L~~il~~egi~-~~~~al~~la~~s~Gslr~a  217 (527)
T PRK14969        156 TTDPQKIPVTVLSRCLQFNLKQMPPPLIVSHLQHILEQENIP-FDATALQLLARAAAGSMRDA  217 (527)
T ss_pred             eCChhhCchhHHHHHHHHhcCCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHH
Confidence            5443 3321122334689999999999998888776422211 11345678999999987633

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=98.53  E-value=1.4e-06  Score=81.85  Aligned_cols=172  Identities=12%  Similarity=0.116  Sum_probs=97.7

Q ss_pred             ccccc-cchH-HHHHHHHHhc-CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHH
Q 010355          148 YEAFE-SRMS-TLNDVINALK-NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADK  224 (512)
Q Consensus       148 ~~~~~-gR~~-~l~~l~~~L~-~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~  224 (512)
                      ...|+ |+.. .+..+..+.. ....+.+.|+|.+|+|||+||+.+++.....  -..+++++.....      ..+   
T Consensus        17 ~d~f~~~~~~~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~--~~~~~~i~~~~~~------~~~---   85 (227)
T PRK08903         17 FDNFVAGENAELVARLRELAAGPVADRFFYLWGEAGSGRSHLLQALVADASYG--GRNARYLDAASPL------LAF---   85 (227)
T ss_pred             hcccccCCcHHHHHHHHHHHhccCCCCeEEEECCCCCCHHHHHHHHHHHHHhC--CCcEEEEehHHhH------HHH---
Confidence            34444 4433 3344444433 2345688999999999999999999876432  2234555543311      000   


Q ss_pred             hCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChhh--hhhhCCCCC---CCCe-EEEEEeCCcchhcc-------c
Q 010355          225 LGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNLD--LENVGIPFG---VRGC-RVLMTARSQDVLSS-------K  291 (512)
Q Consensus       225 l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~--~~~l~~~~~---~~gs-~iivTtR~~~v~~~-------~  291 (512)
                                        ...  ...-+||+||+.....  ...+...+.   ..+. .+|+|++.......       .
T Consensus        86 ------------------~~~--~~~~~liiDdi~~l~~~~~~~L~~~~~~~~~~~~~~vl~~~~~~~~~~~l~~~L~sr  145 (227)
T PRK08903         86 ------------------DFD--PEAELYAVDDVERLDDAQQIALFNLFNRVRAHGQGALLVAGPAAPLALPLREDLRTR  145 (227)
T ss_pred             ------------------hhc--ccCCEEEEeChhhcCchHHHHHHHHHHHHHHcCCcEEEEeCCCCHHhCCCCHHHHHH
Confidence                              011  1335789999964321  111211111   2333 46666664332110       1


Q ss_pred             cCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHHHHhc
Q 010355          292 MDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARALR  351 (512)
Q Consensus       292 ~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~~L~  351 (512)
                      ......+.++|++..+-..++.+.+..... .--.+....|++.+.|+|..+..+...|.
T Consensus       146 ~~~~~~i~l~pl~~~~~~~~l~~~~~~~~v-~l~~~al~~L~~~~~gn~~~l~~~l~~l~  204 (227)
T PRK08903        146 LGWGLVYELKPLSDADKIAALKAAAAERGL-QLADEVPDYLLTHFRRDMPSLMALLDALD  204 (227)
T ss_pred             HhcCeEEEecCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHhccCCHHHHHHHHHHHH
Confidence            122368899999998877777765432111 11245778889999999999887777653

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.49  E-value=1.1e-05  Score=84.90  Aligned_cols=184  Identities=13%  Similarity=0.138  Sum_probs=109.3

Q ss_pred             ccCccccccchHHHHHHHHHhcCCC-ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCC-------------------eEE
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPD-VHMIGAYGMAGVGKTMLVKEVARQAKADKLFD-------------------EVV  204 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~-------------------~~~  204 (512)
                      |.....++|.+..+..|.+++..++ .+.+.++|+.|+||||+|+.+++..--.....                   -++
T Consensus        12 P~sf~dIiGQe~v~~~L~~ai~~~ri~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~~pCg~C~sC~~i~~g~hpDv~   91 (624)
T PRK14959         12 PQTFAEVAGQETVKAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKALNCETAPTGEPCNTCEQCRKVTQGMHVDVV   91 (624)
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhccccCCCCCCCCcccHHHHHHhcCCCCceE
Confidence            3445677898888888888887665 57888999999999999999998764211000                   022


Q ss_pred             EEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHh----CCCeEEEEEeCCCCh--hhhhhhCCCC--CCCCe
Q 010355          205 YAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLK----KEKKILVILDDIWTN--LDLENVGIPF--GVRGC  276 (512)
Q Consensus       205 wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~--~~~gs  276 (512)
                      ++.......+                     ..+..+.+.+.    .+++-+||||++...  ..++.|.-.+  .....
T Consensus        92 eId~a~~~~I---------------------d~iR~L~~~~~~~p~~g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~  150 (624)
T PRK14959         92 EIDGASNRGI---------------------DDAKRLKEAIGYAPMEGRYKVFIIDEAHMLTREAFNALLKTLEEPPARV  150 (624)
T ss_pred             EEecccccCH---------------------HHHHHHHHHHHhhhhcCCceEEEEEChHhCCHHHHHHHHHHhhccCCCE
Confidence            2221111111                     11222222221    245679999999654  2333331111  13455


Q ss_pred             EEEEEeCC-cchhccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCCh-hHHHHHHHHh
Q 010355          277 RVLMTARS-QDVLSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLP-IAIVTIARAL  350 (512)
Q Consensus       277 ~iivTtR~-~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlP-Lai~~ia~~L  350 (512)
                      .+|++|.. ..+..........+++.+++.++....+...+..... .--.+.+..|++.++|.+ .|+..+...+
T Consensus       151 ifILaTt~~~kll~TI~SRcq~i~F~pLs~~eL~~~L~~il~~egi-~id~eal~lIA~~s~GdlR~Al~lLeqll  225 (624)
T PRK14959        151 TFVLATTEPHKFPVTIVSRCQHFTFTRLSEAGLEAHLTKVLGREGV-DYDPAAVRLIARRAAGSVRDSMSLLGQVL  225 (624)
T ss_pred             EEEEecCChhhhhHHHHhhhhccccCCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            56665554 3332222333468899999999999988876642211 111356788999999965 5766665443

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=98.48  E-value=5.5e-06  Score=85.28  Aligned_cols=183  Identities=16%  Similarity=0.133  Sum_probs=113.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCC
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEK  249 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  249 (512)
                      ...+.|+|..|+|||+|++.+++.......-..+++++      ..+++..+...++...      .....+.+.+.  .
T Consensus       141 ~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~------~~~f~~~~~~~l~~~~------~~~~~~~~~~~--~  206 (450)
T PRK14087        141 YNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMS------GDEFARKAVDILQKTH------KEIEQFKNEIC--Q  206 (450)
T ss_pred             cCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEE------HHHHHHHHHHHHHHhh------hHHHHHHHHhc--c
Confidence            35689999999999999999998765432233455554      3456666666654210      12333444443  3


Q ss_pred             eEEEEEeCCCChh---hh-hhhCCCCC---CCCeEEEEEeCCcchh--------ccccCCccceecCCCCHHHHHHHHHH
Q 010355          250 KILVILDDIWTNL---DL-ENVGIPFG---VRGCRVLMTARSQDVL--------SSKMDCQNNFLIGVLNESEARDLFKK  314 (512)
Q Consensus       250 ~~LlVlDdv~~~~---~~-~~l~~~~~---~~gs~iivTtR~~~v~--------~~~~~~~~~~~l~~L~~~ea~~Lf~~  314 (512)
                      .-+|||||+....   .+ +.+...+.   ..|..||+|+......        ...+....++.+.+++.++..+++.+
T Consensus       207 ~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~~rL~SR~~~Gl~~~L~~pd~e~r~~iL~~  286 (450)
T PRK14087        207 NDVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFDNRLITRFNMGLSIAIQKLDNKTATAIIKK  286 (450)
T ss_pred             CCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhccHHHHHHHhCCceeccCCcCHHHHHHHHHH
Confidence            4589999996432   11 22211111   4455788887654311        11223446788999999999999998


Q ss_pred             HhCCCCC-CchhHHHHHHHHHHcCCChhHHHHHHHHhc-----c---C--CHHHHHHHHHHhc
Q 010355          315 LVGDKIE-NNDLKSLAMNIVKACRGLPIAIVTIARALR-----N---K--NTFEWKSALRELT  366 (512)
Q Consensus       315 ~~~~~~~-~~~~~~~~~~I~~~~~GlPLai~~ia~~L~-----~---~--~~~~w~~~l~~l~  366 (512)
                      .+..... ..--.++..-|+..++|.|-.+.-+...+.     .   +  +...-+.++..+.
T Consensus       287 ~~~~~gl~~~l~~evl~~Ia~~~~gd~R~L~gaL~~l~~~a~~~~~~~~it~~~v~~~l~~~~  349 (450)
T PRK14087        287 EIKNQNIKQEVTEEAINFISNYYSDDVRKIKGSVSRLNFWSQQNPEEKIITIEIVSDLFRDIP  349 (450)
T ss_pred             HHHhcCCCCCCCHHHHHHHHHccCCCHHHHHHHHHHHHHHHhcccCCCCCCHHHHHHHHhhcc
Confidence            8753221 122256888999999999998876664442     1   2  5566666776653

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=98.48  E-value=3.6e-06  Score=89.96  Aligned_cols=202  Identities=15%  Similarity=0.120  Sum_probs=111.2

Q ss_pred             cCccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCC---CeEEEEEeCCC---CCHHHHHH
Q 010355          146 KGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLF---DEVVYAEVSQR---PDVKKIQG  219 (512)
Q Consensus       146 ~~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f---~~~~wv~~~~~---~~~~~ll~  219 (512)
                      .....++|+...+..+...+.......+.|+|++|+||||||+.+++.......+   ...-|+.+...   .+...+..
T Consensus       151 ~~~~~iiGqs~~~~~l~~~ia~~~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~~~~l~~d~~~i~~  230 (615)
T TIGR02903       151 RAFSEIVGQERAIKALLAKVASPFPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVDGTTLRWDPREVTN  230 (615)
T ss_pred             CcHHhceeCcHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEechhccCCHHHHhH
Confidence            4455688999999988888776667789999999999999999998776432222   12234444321   12222211


Q ss_pred             HH---------------HHHhCCCCC------------------CCCchHHHHHHHHHHhCCCeEEEEEeCCCCh--hhh
Q 010355          220 QI---------------ADKLGLKFY------------------EESESGRARKLCERLKKEKKILVILDDIWTN--LDL  264 (512)
Q Consensus       220 ~i---------------~~~l~~~~~------------------~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~  264 (512)
                      .+               +...+....                  ..-.......+...+.. ++++++-+..|..  ..|
T Consensus       231 ~llg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~Ld~~~Q~~Ll~~Le~-~~v~~~~~~~~~~~~~~~  309 (615)
T TIGR02903       231 PLLGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGELDPLLQNKLLKVLED-KRVEFSSSYYDPDDPNVP  309 (615)
T ss_pred             HhcCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccCCHHHHHHHHHHHhh-CeEEeecceeccCCcccc
Confidence            11               111121100                  00112234455555553 5677776655432  234


Q ss_pred             hhhCCCCC--CCCeEEEE--EeCCcchh-ccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCC
Q 010355          265 ENVGIPFG--VRGCRVLM--TARSQDVL-SSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGL  339 (512)
Q Consensus       265 ~~l~~~~~--~~gs~iiv--TtR~~~v~-~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~Gl  339 (512)
                      ..+...+.  .+...+++  ||++.... .........+.+.+++.++.+.++.+.+...... --.++...|.+.+..-
T Consensus       310 ~~ik~~~~~~~~~~~VLI~aTt~~~~~l~~aLrSR~~~i~~~pls~edi~~Il~~~a~~~~v~-ls~eal~~L~~ys~~g  388 (615)
T TIGR02903       310 KYIKKLFEEGAPADFVLIGATTRDPEEINPALRSRCAEVFFEPLTPEDIALIVLNAAEKINVH-LAAGVEELIARYTIEG  388 (615)
T ss_pred             hhhhhhcccCccceEEEEEeccccccccCHHHHhceeEEEeCCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHCCCcH
Confidence            44432222  22333444  45544321 1112233567899999999999999887532111 1134555666666555


Q ss_pred             hhHHHHHHHH
Q 010355          340 PIAIVTIARA  349 (512)
Q Consensus       340 PLai~~ia~~  349 (512)
                      +.++..++..
T Consensus       389 Rraln~L~~~  398 (615)
T TIGR02903       389 RKAVNILADV  398 (615)
T ss_pred             HHHHHHHHHH
Confidence            6777766554

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.

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=98.47  E-value=3e-06  Score=85.87  Aligned_cols=170  Identities=18%  Similarity=0.267  Sum_probs=99.0

Q ss_pred             ccccccchHHHHHHHHHhc----C---------CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCH
Q 010355          148 YEAFESRMSTLNDVINALK----N---------PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDV  214 (512)
Q Consensus       148 ~~~~~gR~~~l~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  214 (512)
                      +..+.|++..++.|...+.    .         ...+.|.|+|++|+|||+||+.+++....  .     |+.+..    
T Consensus       130 ~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~~--~-----~i~v~~----  198 (389)
T PRK03992        130 YEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNA--T-----FIRVVG----  198 (389)
T ss_pred             HHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhCC--C-----EEEeeh----
Confidence            4567899998888877653    1         24567899999999999999999987652  2     222221    


Q ss_pred             HHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh------------h----hhhhC---CCC-CCC
Q 010355          215 KKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL------------D----LENVG---IPF-GVR  274 (512)
Q Consensus       215 ~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~------------~----~~~l~---~~~-~~~  274 (512)
                      ..+....   .+      ........++.......+.+|+||++....            .    +..+.   ..+ ...
T Consensus       199 ~~l~~~~---~g------~~~~~i~~~f~~a~~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~~~~  269 (389)
T PRK03992        199 SELVQKF---IG------EGARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDPRG  269 (389)
T ss_pred             HHHhHhh---cc------chHHHHHHHHHHHHhcCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccCCCC
Confidence            1111110   01      111223344444444568999999996431            0    11111   011 134


Q ss_pred             CeEEEEEeCCcchhcc-cc---CCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCC
Q 010355          275 GCRVLMTARSQDVLSS-KM---DCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGL  339 (512)
Q Consensus       275 gs~iivTtR~~~v~~~-~~---~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~Gl  339 (512)
                      +..||.||........ ..   .-...+.+++.+.++-.++|+.++.........  ....|++.+.|.
T Consensus       270 ~v~VI~aTn~~~~ld~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~~~~~~~~~--~~~~la~~t~g~  336 (389)
T PRK03992        270 NVKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLADDV--DLEELAELTEGA  336 (389)
T ss_pred             CEEEEEecCChhhCCHHHcCCccCceEEEECCCCHHHHHHHHHHHhccCCCCCcC--CHHHHHHHcCCC
Confidence            5677877765433211 11   123578999999999999999887533222211  135667777765

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.47  E-value=3.1e-06  Score=86.11  Aligned_cols=200  Identities=13%  Similarity=0.112  Sum_probs=108.7

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCce-EEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEE-eCCCCCHHHHHHHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDVH-MIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAE-VSQRPDVKKIQGQIA  222 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~-~~~~~~~~~ll~~i~  222 (512)
                      |.....++|.+..+..|..++.++..+ .+.++|+.|+||||+|..+++...-...+...-|.. ....+..-...+.+.
T Consensus        12 P~~~~eiiGq~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~c~~c~~c~~~~   91 (397)
T PRK14955         12 PKKFADITAQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEPCGECESCRDFD   91 (397)
T ss_pred             CCcHhhccChHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCCCCCCHHHHHHh
Confidence            344567889999999999988876654 588999999999999999998764211111000100 000111111111111


Q ss_pred             HHhCCC-----CCCCCchHHHHHHHHHHh----CCCeEEEEEeCCCCh--hhhhhhCCCC--CCCCeEEEEEe-CCcchh
Q 010355          223 DKLGLK-----FYEESESGRARKLCERLK----KEKKILVILDDIWTN--LDLENVGIPF--GVRGCRVLMTA-RSQDVL  288 (512)
Q Consensus       223 ~~l~~~-----~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~--~~~gs~iivTt-R~~~v~  288 (512)
                      ......     .........+..+.+.+.    .+++-++|+|++...  ..++.+.-.+  +.+.+.+|++| +...+.
T Consensus        92 ~~~~~n~~~~~~~~~~~id~Ir~l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t~~~~kl~  171 (397)
T PRK14955         92 AGTSLNISEFDAASNNSVDDIRLLRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTELHKIP  171 (397)
T ss_pred             cCCCCCeEeecccccCCHHHHHHHHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEeCChHHhH
Confidence            100000     000111222333333332    235668899998643  2333331111  13456666555 333332


Q ss_pred             ccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHH
Q 010355          289 SSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVT  345 (512)
Q Consensus       289 ~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~  345 (512)
                      .........+++.+++.++....+...+..... .--.+.+..|+..++|.+--+..
T Consensus       172 ~tl~sR~~~v~f~~l~~~ei~~~l~~~~~~~g~-~i~~~al~~l~~~s~g~lr~a~~  227 (397)
T PRK14955        172 ATIASRCQRFNFKRIPLEEIQQQLQGICEAEGI-SVDADALQLIGRKAQGSMRDAQS  227 (397)
T ss_pred             HHHHHHHHHhhcCCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHH
Confidence            212233467899999999999888887642211 11135678999999998764443

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=98.46  E-value=7.1e-06  Score=74.55  Aligned_cols=158  Identities=16%  Similarity=0.143  Sum_probs=91.0

Q ss_pred             HHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHHhhhhc--------------------CCCCeEEEEEeCC-CCCHHHH
Q 010355          160 DVINALKNPDV-HMIGAYGMAGVGKTMLVKEVARQAKAD--------------------KLFDEVVYAEVSQ-RPDVKKI  217 (512)
Q Consensus       160 ~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~--------------------~~f~~~~wv~~~~-~~~~~~l  217 (512)
                      .|.+.+..++. +.+.++|+.|+|||++|+.+....-..                    .+.+ ..++.... .... +.
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            34555555554 679999999999999999998876432                    1111 12222111 1111 11


Q ss_pred             HHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCCh--hhhhhhCCCC--CCCCeEEEEEeCCcc-hhcccc
Q 010355          218 QGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTN--LDLENVGIPF--GVRGCRVLMTARSQD-VLSSKM  292 (512)
Q Consensus       218 l~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~l~~~~--~~~gs~iivTtR~~~-v~~~~~  292 (512)
                      .+.++..+...+                ..+.+-++|+|++...  ...+.+...+  +.+.+.+|++|++.. +.....
T Consensus        81 i~~i~~~~~~~~----------------~~~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~i~  144 (188)
T TIGR00678        81 VRELVEFLSRTP----------------QESGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTIR  144 (188)
T ss_pred             HHHHHHHHccCc----------------ccCCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHHHH
Confidence            222222221100                0145678999998653  2233331111  234566777776542 222222


Q ss_pred             CCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhH
Q 010355          293 DCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIA  342 (512)
Q Consensus       293 ~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLa  342 (512)
                      .....+.+.+++..+....+.+. +   ..   .+.+..|+..++|.|..
T Consensus       145 sr~~~~~~~~~~~~~~~~~l~~~-g---i~---~~~~~~i~~~~~g~~r~  187 (188)
T TIGR00678       145 SRCQVLPFPPLSEEALLQWLIRQ-G---IS---EEAAELLLALAGGSPGA  187 (188)
T ss_pred             hhcEEeeCCCCCHHHHHHHHHHc-C---CC---HHHHHHHHHHcCCCccc
Confidence            34468999999999999988876 2   11   35688999999999864

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.

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

Probab=98.46  E-value=7.5e-06  Score=81.01  Aligned_cols=193  Identities=12%  Similarity=0.111  Sum_probs=118.7

Q ss_pred             cCccccccchHHHHHHHHHhc----CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHH
Q 010355          146 KGYEAFESRMSTLNDVINALK----NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQI  221 (512)
Q Consensus       146 ~~~~~~~gR~~~l~~l~~~L~----~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i  221 (512)
                      ..+..++||+.++..+..|+.    .+..+.+-|.|.+|.|||.+...++.+......--.++++++..-.....++..|
T Consensus       147 ~~p~~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~aiF~kI  226 (529)
T KOG2227|consen  147 APPGTLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEASAIFKKI  226 (529)
T ss_pred             CCCCCccchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccchHHHHHHH
Confidence            346678999999999988876    4567889999999999999999999887643222245777777656677777777


Q ss_pred             HHHh-CCCCCCCCchHHHHHHHHHHhCC-CeEEEEEeCCCChhh-----hhhhCCCCC-CCCeEEEEEe---------CC
Q 010355          222 ADKL-GLKFYEESESGRARKLCERLKKE-KKILVILDDIWTNLD-----LENVGIPFG-VRGCRVLMTA---------RS  284 (512)
Q Consensus       222 ~~~l-~~~~~~~~~~~~~~~l~~~l~~~-k~~LlVlDdv~~~~~-----~~~l~~~~~-~~gs~iivTt---------R~  284 (512)
                      +..+ ..........+....+.....+. +.+|+|+|.++....     +-.+ +.++ -+++++|+.-         |.
T Consensus       227 ~~~~~q~~~s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~vLy~l-Fewp~lp~sr~iLiGiANslDlTdR~  305 (529)
T KOG2227|consen  227 FSSLLQDLVSPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTVLYTL-FEWPKLPNSRIILIGIANSLDLTDRF  305 (529)
T ss_pred             HHHHHHHhcCCchhHHHHHHHHHHHhcccceEEEEechhhHHhhcccceeeee-hhcccCCcceeeeeeehhhhhHHHHH
Confidence            7766 11111222233344444445443 489999999865421     1111 2222 4556655433         21


Q ss_pred             cchhcc-ccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCC
Q 010355          285 QDVLSS-KMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGL  339 (512)
Q Consensus       285 ~~v~~~-~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~Gl  339 (512)
                      -..... ..-....+..+|-+.++..++|..++........+...+..++++|.|.
T Consensus       306 LprL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~~~t~~~~~~Aie~~ArKvaa~  361 (529)
T KOG2227|consen  306 LPRLNLDLTIKPKLLVFPPYTKDQIVEILQQRLSEESTSIFLNAAIELCARKVAAP  361 (529)
T ss_pred             hhhhhhccCCCCceeeecCCCHHHHHHHHHHHHhcccccccchHHHHHHHHHhccC
Confidence            111111 1123457888999999999999998864433333333444444555443

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

Probab=98.45  E-value=2.7e-06  Score=93.25  Aligned_cols=159  Identities=19%  Similarity=0.247  Sum_probs=94.6

Q ss_pred             cCccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCC---C-CeEEEEEeCCCCCHHHHHHHH
Q 010355          146 KGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKL---F-DEVVYAEVSQRPDVKKIQGQI  221 (512)
Q Consensus       146 ~~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~---f-~~~~wv~~~~~~~~~~ll~~i  221 (512)
                      ....+++||+.++.+++..|......-+.++|++|+|||+||+.+++.......   + ...+|. +    +...++.  
T Consensus       179 ~~l~~~igr~~ei~~~~~~L~~~~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~-~----~~~~l~a--  251 (731)
T TIGR02639       179 GKIDPLIGREDELERTIQVLCRRKKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYS-L----DMGSLLA--  251 (731)
T ss_pred             CCCCcccCcHHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEE-e----cHHHHhh--
Confidence            345679999999999999998776777889999999999999999998743211   1 233332 1    1111110  


Q ss_pred             HHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh----------hhhhhCCCCCCCC-eEEEEEeCCcch---
Q 010355          222 ADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL----------DLENVGIPFGVRG-CRVLMTARSQDV---  287 (512)
Q Consensus       222 ~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~----------~~~~l~~~~~~~g-s~iivTtR~~~v---  287 (512)
                        ..   .........+..+.+.+...++.+|+||++....          ....+..|.-..| .++|.+|.....   
T Consensus       252 --~~---~~~g~~e~~l~~i~~~~~~~~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l~~g~i~~IgaTt~~e~~~~  326 (731)
T TIGR02639       252 --GT---KYRGDFEERLKAVVSEIEKEPNAILFIDEIHTIVGAGATSGGSMDASNLLKPALSSGKLRCIGSTTYEEYKNH  326 (731)
T ss_pred             --hc---cccchHHHHHHHHHHHHhccCCeEEEEecHHHHhccCCCCCccHHHHHHHHHHHhCCCeEEEEecCHHHHHHH
Confidence              00   0001122334455555544568999999986331          1122222222233 455555543211   


Q ss_pred             -h--ccccCCccceecCCCCHHHHHHHHHHHh
Q 010355          288 -L--SSKMDCQNNFLIGVLNESEARDLFKKLV  316 (512)
Q Consensus       288 -~--~~~~~~~~~~~l~~L~~~ea~~Lf~~~~  316 (512)
                       .  .........+.+.+++.++..+++....
T Consensus       327 ~~~d~al~rRf~~i~v~~p~~~~~~~il~~~~  358 (731)
T TIGR02639       327 FEKDRALSRRFQKIDVGEPSIEETVKILKGLK  358 (731)
T ss_pred             hhhhHHHHHhCceEEeCCCCHHHHHHHHHHHH
Confidence             0  1112234578999999999999998654

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=98.44  E-value=6.6e-06  Score=87.11  Aligned_cols=198  Identities=11%  Similarity=0.110  Sum_probs=111.3

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCC--eEEEEEeCCCCCHHHHHHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDV-HMIGAYGMAGVGKTMLVKEVARQAKADKLFD--EVVYAEVSQRPDVKKIQGQI  221 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~--~~~wv~~~~~~~~~~ll~~i  221 (512)
                      |.....++|.+..++.|.+++..++. +.+.++|+.|+||||+|+.+++...-.....  +..+-    .+......+.|
T Consensus        20 P~~f~dliGq~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~----~cg~c~~C~~i   95 (598)
T PRK09111         20 PQTFDDLIGQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTID----LCGVGEHCQAI   95 (598)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccc----cCcccHHHHHH
Confidence            34566789999999999999986654 4789999999999999999998754211110  00000    00000111111


Q ss_pred             HHHhCCC-----CCCCCchHHHHHHHHHHh----CCCeEEEEEeCCCChh--hhhhhCCCC--CCCCeEEEEEe-CCcch
Q 010355          222 ADKLGLK-----FYEESESGRARKLCERLK----KEKKILVILDDIWTNL--DLENVGIPF--GVRGCRVLMTA-RSQDV  287 (512)
Q Consensus       222 ~~~l~~~-----~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~~--~~~~l~~~~--~~~gs~iivTt-R~~~v  287 (512)
                      .......     .......+.+..+.+.+.    .+++-++|+|++....  ..+.+.-.+  +..++.+|++| ....+
T Consensus        96 ~~g~h~Dv~e~~a~s~~gvd~IReIie~~~~~P~~a~~KVvIIDEad~Ls~~a~naLLKtLEePp~~~~fIl~tte~~kl  175 (598)
T PRK09111         96 MEGRHVDVLEMDAASHTGVDDIREIIESVRYRPVSARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIFATTEIRKV  175 (598)
T ss_pred             hcCCCCceEEecccccCCHHHHHHHHHHHHhchhcCCcEEEEEEChHhCCHHHHHHHHHHHHhCCCCeEEEEEeCChhhh
Confidence            1111000     000111222333333332    2355689999996542  233331111  13456666555 33333


Q ss_pred             hccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHH
Q 010355          288 LSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIA  347 (512)
Q Consensus       288 ~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia  347 (512)
                      ..........+.+.+++..+....+.+.+...... --.+.+..|++.++|.+.-+....
T Consensus       176 l~tI~SRcq~~~f~~l~~~el~~~L~~i~~kegi~-i~~eAl~lIa~~a~Gdlr~al~~L  234 (598)
T PRK09111        176 PVTVLSRCQRFDLRRIEADVLAAHLSRIAAKEGVE-VEDEALALIARAAEGSVRDGLSLL  234 (598)
T ss_pred             hHHHHhheeEEEecCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            32223345689999999999999998876422211 113567788999999987665444

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.44  E-value=7.3e-06  Score=86.31  Aligned_cols=189  Identities=13%  Similarity=0.090  Sum_probs=103.9

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCce-EEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDVH-MIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIAD  223 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~  223 (512)
                      |.....++|.+..++.|..++..++.. .+.++|+.|+||||+|+.+++...-.....   +    ..++.-...+.|..
T Consensus         9 P~~f~eivGq~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~---~----~pCg~C~~C~~i~~   81 (584)
T PRK14952          9 PATFAEVVGQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARSLNCAQGPT---A----TPCGVCESCVALAP   81 (584)
T ss_pred             CCcHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCC---C----CcccccHHHHHhhc
Confidence            345667899999999999999876654 578999999999999999998654211000   0    00000000111100


Q ss_pred             HhC-------CCCCCCCchHHHHHHHHHHh----CCCeEEEEEeCCCCh--hhhhhhCCCC--CCCCeEEEEEe-CCcch
Q 010355          224 KLG-------LKFYEESESGRARKLCERLK----KEKKILVILDDIWTN--LDLENVGIPF--GVRGCRVLMTA-RSQDV  287 (512)
Q Consensus       224 ~l~-------~~~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~--~~~gs~iivTt-R~~~v  287 (512)
                      .-+       +..........+..+.+.+.    .+++-++|||++...  ...+.+.-.+  ...++.+|++| ....+
T Consensus        82 ~~~~~~dvieidaas~~gvd~iRel~~~~~~~P~~~~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fIL~tte~~kl  161 (584)
T PRK14952         82 NGPGSIDVVELDAASHGGVDDTRELRDRAFYAPAQSRYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEPEKV  161 (584)
T ss_pred             ccCCCceEEEeccccccCHHHHHHHHHHHHhhhhcCCceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEEEEeCChHhh
Confidence            000       00000001122222222221    245668999999743  3333331111  13455555555 43333


Q ss_pred             hccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChh
Q 010355          288 LSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPI  341 (512)
Q Consensus       288 ~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPL  341 (512)
                      ..........+.+.+++..+....+.+.+......- -...+..|++.++|.+.
T Consensus       162 l~TI~SRc~~~~F~~l~~~~i~~~L~~i~~~egi~i-~~~al~~Ia~~s~GdlR  214 (584)
T PRK14952        162 LPTIRSRTHHYPFRLLPPRTMRALIARICEQEGVVV-DDAVYPLVIRAGGGSPR  214 (584)
T ss_pred             HHHHHHhceEEEeeCCCHHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHcCCCHH
Confidence            322234457899999999999988887664222111 13456778888888774

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=98.42  E-value=5.7e-06  Score=88.26  Aligned_cols=177  Identities=15%  Similarity=0.140  Sum_probs=104.0

Q ss_pred             ccCccccccchHHHHHHHHHhcCCC-ceEEEEEcCCCCcHHHHHHHHHHhhhhcCC-CC---------------eEEEEE
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPD-VHMIGAYGMAGVGKTMLVKEVARQAKADKL-FD---------------EVVYAE  207 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~-f~---------------~~~wv~  207 (512)
                      |.....++|.+..+..|..++..++ .+.+.++|+.|+||||+|+.++...--... ..               .++++.
T Consensus        14 P~~f~dIiGQe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~C~~~~~~~~Dvieid   93 (725)
T PRK07133         14 PKTFDDIVGQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQECIENVNNSLDIIEMD   93 (725)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhHHHHhhcCCCcEEEEe
Confidence            3456678899999999999998655 456789999999999999999876532110 00               011111


Q ss_pred             eCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHh----CCCeEEEEEeCCCCh--hhhhhhCCCC--CCCCeEEE
Q 010355          208 VSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLK----KEKKILVILDDIWTN--LDLENVGIPF--GVRGCRVL  279 (512)
Q Consensus       208 ~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~--~~~gs~ii  279 (512)
                      .....                     ....+..+.+.+.    .+++-++|+|++...  ..+..+.-.+  +...+.+|
T Consensus        94 aasn~---------------------~vd~IReLie~~~~~P~~g~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifI  152 (725)
T PRK07133         94 AASNN---------------------GVDEIRELIENVKNLPTQSKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFI  152 (725)
T ss_pred             ccccC---------------------CHHHHHHHHHHHHhchhcCCCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEE
Confidence            11111                     1122333333332    245679999998643  3343332111  12344544


Q ss_pred             -EEeCCcchhccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHH
Q 010355          280 -MTARSQDVLSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAI  343 (512)
Q Consensus       280 -vTtR~~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai  343 (512)
                       +|++...+..........+.+.+++.++....+...+......- -...+..|++.++|.+.-+
T Consensus       153 LaTte~~KLl~TI~SRcq~ieF~~L~~eeI~~~L~~il~kegI~i-d~eAl~~LA~lS~GslR~A  216 (725)
T PRK07133        153 LATTEVHKIPLTILSRVQRFNFRRISEDEIVSRLEFILEKENISY-EKNALKLIAKLSSGSLRDA  216 (725)
T ss_pred             EEcCChhhhhHHHHhhceeEEccCCCHHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHcCCCHHHH
Confidence             44444444322234456899999999999988887653221111 1345778899998876533

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.41  E-value=1.3e-05  Score=80.88  Aligned_cols=181  Identities=12%  Similarity=0.128  Sum_probs=103.8

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHHhhhhc------CCCCe-EEEEEeCCCCCHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDV-HMIGAYGMAGVGKTMLVKEVARQAKAD------KLFDE-VVYAEVSQRPDVKK  216 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~------~~f~~-~~wv~~~~~~~~~~  216 (512)
                      |.....++|.+..++.+.+++..+.. +.+.++|++|+||||+|+.+++.....      ..|.. ++.+..........
T Consensus        13 P~~~~~iig~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   92 (367)
T PRK14970         13 PQTFDDVVGQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFELDAASNNSVDD   92 (367)
T ss_pred             CCcHHhcCCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEeccccCCCHHH
Confidence            34556788999999999999986654 588899999999999999998875421      11211 11121111111211


Q ss_pred             HHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCCh--hhhhhhCC--CCCCCCeEEEEEeCC-cchhccc
Q 010355          217 IQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTN--LDLENVGI--PFGVRGCRVLMTARS-QDVLSSK  291 (512)
Q Consensus       217 ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~l~~--~~~~~gs~iivTtR~-~~v~~~~  291 (512)
                       .+.++..+...+               . .+++-++|+|++...  ..+..+..  ..+...+.+|++|.. ..+....
T Consensus        93 -i~~l~~~~~~~p---------------~-~~~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl~~~l  155 (367)
T PRK14970         93 -IRNLIDQVRIPP---------------Q-TGKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKIIPTI  155 (367)
T ss_pred             -HHHHHHHHhhcc---------------c-cCCcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccCCHHH
Confidence             222222221100               0 134568999998643  22333311  111334555555533 2222222


Q ss_pred             cCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHH
Q 010355          292 MDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAI  343 (512)
Q Consensus       292 ~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai  343 (512)
                      ......+++.+++..+....+...+...... --.+.+..|+..++|.+-.+
T Consensus       156 ~sr~~~v~~~~~~~~~l~~~l~~~~~~~g~~-i~~~al~~l~~~~~gdlr~~  206 (367)
T PRK14970        156 LSRCQIFDFKRITIKDIKEHLAGIAVKEGIK-FEDDALHIIAQKADGALRDA  206 (367)
T ss_pred             HhcceeEecCCccHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHhCCCCHHHH
Confidence            2334578999999999998888766422211 11356778888999876644

>PRK05642 DNA replication initiation factor; Validated

Probab=98.40  E-value=5.2e-06  Score=78.06  Aligned_cols=153  Identities=18%  Similarity=0.203  Sum_probs=92.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCC
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEK  249 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  249 (512)
                      ...+.|+|.+|+|||.|++.+++....+  -..++|++...      +...                 ...+.+.+.. -
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~~~~~--~~~v~y~~~~~------~~~~-----------------~~~~~~~~~~-~   98 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLRFEQR--GEPAVYLPLAE------LLDR-----------------GPELLDNLEQ-Y   98 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHhC--CCcEEEeeHHH------HHhh-----------------hHHHHHhhhh-C
Confidence            3678999999999999999999876532  34567776432      2111                 1123334432 1


Q ss_pred             eEEEEEeCCCCh---hhhhh-hCCCC---CCCCeEEEEEeCCcchhc--------cccCCccceecCCCCHHHHHHHHHH
Q 010355          250 KILVILDDIWTN---LDLEN-VGIPF---GVRGCRVLMTARSQDVLS--------SKMDCQNNFLIGVLNESEARDLFKK  314 (512)
Q Consensus       250 ~~LlVlDdv~~~---~~~~~-l~~~~---~~~gs~iivTtR~~~v~~--------~~~~~~~~~~l~~L~~~ea~~Lf~~  314 (512)
                       =+||+||+...   ..|.. +...+   ...|..+|+|++......        .......++.+.+++.++-..++.+
T Consensus        99 -d~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~~~~e~~~~il~~  177 (234)
T PRK05642         99 -ELVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRGLSDEDKLRALQL  177 (234)
T ss_pred             -CEEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCCCCHHHHHHHHHH
Confidence             26889999632   23332 21111   245778899887643211        1122336788999999999999986


Q ss_pred             HhCCCCCCchhHHHHHHHHHHcCCChhHHHHHHHHh
Q 010355          315 LVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARAL  350 (512)
Q Consensus       315 ~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~~L  350 (512)
                      ++..... .--.++..-|++.+.|..-.+..+-..|
T Consensus       178 ka~~~~~-~l~~ev~~~L~~~~~~d~r~l~~~l~~l  212 (234)
T PRK05642        178 RASRRGL-HLTDEVGHFILTRGTRSMSALFDLLERL  212 (234)
T ss_pred             HHHHcCC-CCCHHHHHHHHHhcCCCHHHHHHHHHHH
Confidence            6532211 1114677888888888766665555444

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.38  E-value=1.9e-05  Score=81.97  Aligned_cols=178  Identities=13%  Similarity=0.175  Sum_probs=104.5

Q ss_pred             cCccccccchHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHHhhhhc---C----------------CCCeEEE
Q 010355          146 KGYEAFESRMSTLNDVINALKNPDV-HMIGAYGMAGVGKTMLVKEVARQAKAD---K----------------LFDEVVY  205 (512)
Q Consensus       146 ~~~~~~~gR~~~l~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~---~----------------~f~~~~w  205 (512)
                      .....++|.+..+..|..++..+.. +.+.++|+.|+||||+|+.++....-.   .                .|..+++
T Consensus        13 ~~f~diiGq~~i~~~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~nc~~i~~g~~~d~~e   92 (486)
T PRK14953         13 KFFKEVIGQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENCVEIDKGSFPDLIE   92 (486)
T ss_pred             CcHHHccChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHHHHHhcCCCCcEEE
Confidence            4456788999999999999986554 556789999999999999998865310   0                0111222


Q ss_pred             EEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHh----CCCeEEEEEeCCCCh--hhhhhh----CCCCCCCC
Q 010355          206 AEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLK----KEKKILVILDDIWTN--LDLENV----GIPFGVRG  275 (512)
Q Consensus       206 v~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l----~~~~~~~g  275 (512)
                      +..+.....                     ..+..+...+.    .+++-++|+|++...  ...+.+    ..|  .+.
T Consensus        93 idaas~~gv---------------------d~ir~I~~~~~~~P~~~~~KVvIIDEad~Lt~~a~naLLk~LEep--p~~  149 (486)
T PRK14953         93 IDAASNRGI---------------------DDIRALRDAVSYTPIKGKYKVYIIDEAHMLTKEAFNALLKTLEEP--PPR  149 (486)
T ss_pred             EeCccCCCH---------------------HHHHHHHHHHHhCcccCCeeEEEEEChhhcCHHHHHHHHHHHhcC--CCC
Confidence            222211111                     11222222221    246679999998644  223332    222  334


Q ss_pred             eEEEEEe-CCcchhccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHH
Q 010355          276 CRVLMTA-RSQDVLSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIA  347 (512)
Q Consensus       276 s~iivTt-R~~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia  347 (512)
                      +.+|++| +...+..........+.+.+++.++....+.+.+...... --...+..|+..++|.+..+..+.
T Consensus       150 ~v~Il~tt~~~kl~~tI~SRc~~i~f~~ls~~el~~~L~~i~k~egi~-id~~al~~La~~s~G~lr~al~~L  221 (486)
T PRK14953        150 TIFILCTTEYDKIPPTILSRCQRFIFSKPTKEQIKEYLKRICNEEKIE-YEEKALDLLAQASEGGMRDAASLL  221 (486)
T ss_pred             eEEEEEECCHHHHHHHHHHhceEEEcCCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            5555544 3333322122334578999999999998888876422211 113466788899999776544443

>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=98.37  E-value=2.5e-06  Score=79.26  Aligned_cols=163  Identities=18%  Similarity=0.198  Sum_probs=96.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCC
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEK  249 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  249 (512)
                      ...+.|+|..|+|||.|.+++++.......-..++|++      ..++...+...+..        .....++..+.  .
T Consensus        34 ~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~------~~~f~~~~~~~~~~--------~~~~~~~~~~~--~   97 (219)
T PF00308_consen   34 YNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLS------AEEFIREFADALRD--------GEIEEFKDRLR--S   97 (219)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEE------HHHHHHHHHHHHHT--------TSHHHHHHHHC--T
T ss_pred             CCceEEECCCCCCHHHHHHHHHHHHHhccccccceeec------HHHHHHHHHHHHHc--------ccchhhhhhhh--c
Confidence            45689999999999999999999876432333566764      34555555554422        11334555554  3


Q ss_pred             eEEEEEeCCCChh---hhhhh-C---CCCCCCCeEEEEEeCCcchh--------ccccCCccceecCCCCHHHHHHHHHH
Q 010355          250 KILVILDDIWTNL---DLENV-G---IPFGVRGCRVLMTARSQDVL--------SSKMDCQNNFLIGVLNESEARDLFKK  314 (512)
Q Consensus       250 ~~LlVlDdv~~~~---~~~~l-~---~~~~~~gs~iivTtR~~~v~--------~~~~~~~~~~~l~~L~~~ea~~Lf~~  314 (512)
                      -=+|+|||+....   .|... .   ..+...|.+||+|++.....        ...+.....+++.+++.+....++.+
T Consensus        98 ~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~l~~~~~~L~SRl~~Gl~~~l~~pd~~~r~~il~~  177 (219)
T PF00308_consen   98 ADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDRPPSELSGLLPDLRSRLSWGLVVELQPPDDEDRRRILQK  177 (219)
T ss_dssp             SSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-TTTTTTS-HHHHHHHHCSEEEEE----HHHHHHHHHH
T ss_pred             CCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCCCccccccChhhhhhHhhcchhhcCCCCHHHHHHHHHH
Confidence            4689999996542   22221 1   11114577899999765321        11234456899999999999999998


Q ss_pred             HhCCCCCCchhHHHHHHHHHHcCCChhHHHHHHHH
Q 010355          315 LVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARA  349 (512)
Q Consensus       315 ~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~~  349 (512)
                      .+...... --++++.-|++.+.+..-.+..+-..
T Consensus       178 ~a~~~~~~-l~~~v~~~l~~~~~~~~r~L~~~l~~  211 (219)
T PF00308_consen  178 KAKERGIE-LPEEVIEYLARRFRRDVRELEGALNR  211 (219)
T ss_dssp             HHHHTT---S-HHHHHHHHHHTTSSHHHHHHHHHH
T ss_pred             HHHHhCCC-CcHHHHHHHHHhhcCCHHHHHHHHHH
Confidence            87522211 12457777888877766655544443

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.

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=98.37  E-value=1.4e-06  Score=85.79  Aligned_cols=100  Identities=15%  Similarity=0.203  Sum_probs=65.5

Q ss_pred             HHHHhc-CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCC--CHHHHHHHHHHHhCCCCCCCCchH-
Q 010355          161 VINALK-NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRP--DVKKIQGQIADKLGLKFYEESESG-  236 (512)
Q Consensus       161 l~~~L~-~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~--~~~~ll~~i~~~l~~~~~~~~~~~-  236 (512)
                      +++++. -+.-...+|+|++|+|||||++.+++....+ +|+.++||.+....  ...++++.|...+-......+... 
T Consensus       159 vID~l~PIGkGQR~lIvgppGvGKTTLaK~Ian~I~~n-hFDv~~~VvLIgER~~EVtdiqrsIlg~vv~st~d~~~~~~  237 (416)
T PRK09376        159 IIDLIAPIGKGQRGLIVAPPKAGKTVLLQNIANSITTN-HPEVHLIVLLIDERPEEVTDMQRSVKGEVVASTFDEPAERH  237 (416)
T ss_pred             eeeeecccccCceEEEeCCCCCChhHHHHHHHHHHHhh-cCCeEEEEEEeCCchhHHHHHHHHhcCcEEEECCCCCHHHH
Confidence            344444 1234567899999999999999999998764 89999999998876  677777777532211111111111 


Q ss_pred             -----HHHHHHHHH-hCCCeEEEEEeCCCCh
Q 010355          237 -----RARKLCERL-KKEKKILVILDDIWTN  261 (512)
Q Consensus       237 -----~~~~l~~~l-~~~k~~LlVlDdv~~~  261 (512)
                           .+....+++ ..++++||++|++...
T Consensus       238 ~~~a~~~ie~Ae~~~e~G~dVlL~iDsItR~  268 (416)
T PRK09376        238 VQVAEMVIEKAKRLVEHGKDVVILLDSITRL  268 (416)
T ss_pred             HHHHHHHHHHHHHHHHcCCCEEEEEEChHHH
Confidence                 111222232 3579999999999643

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.36  E-value=1.3e-05  Score=84.94  Aligned_cols=197  Identities=13%  Similarity=0.142  Sum_probs=106.5

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEE-eCCCCCHHHHHHHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDV-HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAE-VSQRPDVKKIQGQIA  222 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~-~~~~~~~~~ll~~i~  222 (512)
                      |.....++|.+..+..|.+++..++. +.+.++|+.|+||||+|+.+++..--...+....|.. ....+..-...+.+.
T Consensus        12 P~~f~eivGQe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~~~Cg~C~sC~~~~   91 (620)
T PRK14954         12 PSKFADITAQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVTEPCGECESCRDFD   91 (620)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccCCCCccCHHHHHHh
Confidence            34456789999999999998886655 5588999999999999999998764211111001110 001111111111111


Q ss_pred             HHhCCC-----CCCCCchHHHHHHHHHHh----CCCeEEEEEeCCCChh--hhhhhCCCCC--CCCeEEEEEe-CCcchh
Q 010355          223 DKLGLK-----FYEESESGRARKLCERLK----KEKKILVILDDIWTNL--DLENVGIPFG--VRGCRVLMTA-RSQDVL  288 (512)
Q Consensus       223 ~~l~~~-----~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~~--~~~~l~~~~~--~~gs~iivTt-R~~~v~  288 (512)
                      ..-...     .......+.+..+.+.+.    .+++-++|+|++....  ..+.+.-.+.  ...+.+|++| +...+.
T Consensus        92 ~g~~~n~~~~d~~s~~~vd~Ir~l~e~~~~~P~~~~~KVvIIdEad~Lt~~a~naLLK~LEePp~~tv~IL~t~~~~kLl  171 (620)
T PRK14954         92 AGTSLNISEFDAASNNSVDDIRQLRENVRYGPQKGRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFATTELHKIP  171 (620)
T ss_pred             ccCCCCeEEecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEeChhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhhh
Confidence            100000     000111222333333331    2345688999986542  2333311111  2345555544 333332


Q ss_pred             ccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhH
Q 010355          289 SSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIA  342 (512)
Q Consensus       289 ~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLa  342 (512)
                      .........+++.+++..+....+.+.+...... --.+.+..|+..++|.+--
T Consensus       172 ~TI~SRc~~vef~~l~~~ei~~~L~~i~~~egi~-I~~eal~~La~~s~Gdlr~  224 (620)
T PRK14954        172 ATIASRCQRFNFKRIPLDEIQSQLQMICRAEGIQ-IDADALQLIARKAQGSMRD  224 (620)
T ss_pred             HHHHhhceEEecCCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHhCCCHHH
Confidence            2223445789999999999988888766422110 1135678899999996553

>CHL00095 clpC Clp protease ATP binding subunit

Probab=98.35  E-value=4.4e-06  Score=92.78  Aligned_cols=156  Identities=17%  Similarity=0.272  Sum_probs=93.3

Q ss_pred             ccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCC---C-CeEEEEEeCCCCCHHHHHHHHHH
Q 010355          148 YEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKL---F-DEVVYAEVSQRPDVKKIQGQIAD  223 (512)
Q Consensus       148 ~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~---f-~~~~wv~~~~~~~~~~ll~~i~~  223 (512)
                      ..+++||++++++++..|......-+.++|++|+|||++|..++........   . ...+|. +    +...++    .
T Consensus       178 ~~~~igr~~ei~~~~~~L~r~~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~-l----~~~~l~----a  248 (821)
T CHL00095        178 LDPVIGREKEIERVIQILGRRTKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVIT-L----DIGLLL----A  248 (821)
T ss_pred             CCCCCCcHHHHHHHHHHHcccccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEE-e----eHHHHh----c
Confidence            4678999999999999998766667789999999999999999988653211   1 233442 1    111111    1


Q ss_pred             HhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh---------hhhhhCCCCC-CCCeEEEEEeCCcchh-----
Q 010355          224 KLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL---------DLENVGIPFG-VRGCRVLMTARSQDVL-----  288 (512)
Q Consensus       224 ~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~---------~~~~l~~~~~-~~gs~iivTtR~~~v~-----  288 (512)
                        |.. ........+..+.+.+...++++|++|++....         ....+..|.- ....++|.+|......     
T Consensus       249 --g~~-~~ge~e~rl~~i~~~~~~~~~~ILfiDEih~l~~~g~~~g~~~~a~lLkp~l~rg~l~~IgaTt~~ey~~~ie~  325 (821)
T CHL00095        249 --GTK-YRGEFEERLKRIFDEIQENNNIILVIDEVHTLIGAGAAEGAIDAANILKPALARGELQCIGATTLDEYRKHIEK  325 (821)
T ss_pred             --cCC-CccHHHHHHHHHHHHHHhcCCeEEEEecHHHHhcCCCCCCcccHHHHhHHHHhCCCcEEEEeCCHHHHHHHHhc
Confidence              111 111122344555555555578999999995331         1122222222 2235566665544321     


Q ss_pred             -ccccCCccceecCCCCHHHHHHHHHHH
Q 010355          289 -SSKMDCQNNFLIGVLNESEARDLFKKL  315 (512)
Q Consensus       289 -~~~~~~~~~~~l~~L~~~ea~~Lf~~~  315 (512)
                       .........+.+...+.++...++...
T Consensus       326 D~aL~rRf~~I~v~ep~~~e~~aILr~l  353 (821)
T CHL00095        326 DPALERRFQPVYVGEPSVEETIEILFGL  353 (821)
T ss_pred             CHHHHhcceEEecCCCCHHHHHHHHHHH
Confidence             112233456788889999988887643

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.34  E-value=1.6e-05  Score=84.90  Aligned_cols=196  Identities=13%  Similarity=0.122  Sum_probs=110.5

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDV-HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIAD  223 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~  223 (512)
                      |.....++|.+..+..|..++..+.. +.+.++|+.|+||||+|+.+++...-...+.      -...++.....+.|..
T Consensus        12 P~~~~eiiGq~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~------~~~~c~~c~~c~~i~~   85 (585)
T PRK14950         12 SQTFAELVGQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAVNCTTNDP------KGRPCGTCEMCRAIAE   85 (585)
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCCCC------CCCCCccCHHHHHHhc
Confidence            34456789999999999888886554 5678999999999999999998764211100      0011111222333322


Q ss_pred             HhCCCC---C--CCCchHHHHHHHHHHh----CCCeEEEEEeCCCCh--hhhhhhCCCCC--CCCeEEEEEeCCc-chhc
Q 010355          224 KLGLKF---Y--EESESGRARKLCERLK----KEKKILVILDDIWTN--LDLENVGIPFG--VRGCRVLMTARSQ-DVLS  289 (512)
Q Consensus       224 ~l~~~~---~--~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~--~~gs~iivTtR~~-~v~~  289 (512)
                      ......   .  .......+..+.+.+.    .+++-++|||++...  ...+.+...+.  ...+.+|++|... .+..
T Consensus        86 ~~~~d~~~i~~~~~~~vd~ir~ii~~~~~~p~~~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t~~~~kll~  165 (585)
T PRK14950         86 GSAVDVIEMDAASHTSVDDAREIIERVQFRPALARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTEVHKVPA  165 (585)
T ss_pred             CCCCeEEEEeccccCCHHHHHHHHHHHhhCcccCCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEeCChhhhhH
Confidence            221110   0  0111122233333222    145678999998643  33333311111  3456666665432 2322


Q ss_pred             cccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHH
Q 010355          290 SKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIA  347 (512)
Q Consensus       290 ~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia  347 (512)
                      ........+.+.+++..+....+.+.+...... --.+.+..|++.++|.+..+....
T Consensus       166 tI~SR~~~i~f~~l~~~el~~~L~~~a~~egl~-i~~eal~~La~~s~Gdlr~al~~L  222 (585)
T PRK14950        166 TILSRCQRFDFHRHSVADMAAHLRKIAAAEGIN-LEPGALEAIARAATGSMRDAENLL  222 (585)
T ss_pred             HHHhccceeeCCCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            222334678899999999998888876432211 113567889999999887554443

>TIGR03689 pup_AAA proteasome ATPase

Probab=98.34  E-value=1.8e-05  Score=81.75  Aligned_cols=159  Identities=17%  Similarity=0.285  Sum_probs=89.7

Q ss_pred             CccccccchHHHHHHHHHhc-------------CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcC---CCCeEEEEEeCC
Q 010355          147 GYEAFESRMSTLNDVINALK-------------NPDVHMIGAYGMAGVGKTMLVKEVARQAKADK---LFDEVVYAEVSQ  210 (512)
Q Consensus       147 ~~~~~~gR~~~l~~l~~~L~-------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~---~f~~~~wv~~~~  210 (512)
                      ....+.|.+..+++|...+.             -...+-+.|+|++|+|||++|+.+++.....-   .+....|+++..
T Consensus       180 ~~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl~v~~  259 (512)
T TIGR03689       180 TYADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFLNIKG  259 (512)
T ss_pred             CHHHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeEEeccc
Confidence            34556788888888777643             12346789999999999999999999875321   112344554433


Q ss_pred             CCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHH----HhCCCeEEEEEeCCCChh---------h-----hhhhCCCC-
Q 010355          211 RPDVKKIQGQIADKLGLKFYEESESGRARKLCER----LKKEKKILVILDDIWTNL---------D-----LENVGIPF-  271 (512)
Q Consensus       211 ~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~----l~~~k~~LlVlDdv~~~~---------~-----~~~l~~~~-  271 (512)
                      .    .++...   ++      .....+..+++.    ...+++++|+||+++...         .     +..+...+ 
T Consensus       260 ~----eLl~ky---vG------ete~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~LD  326 (512)
T TIGR03689       260 P----ELLNKY---VG------ETERQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSELD  326 (512)
T ss_pred             h----hhcccc---cc------hHHHHHHHHHHHHHHHhhcCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHHhc
Confidence            1    111100   00      011112222222    223578999999996431         0     11221111 


Q ss_pred             --C-CCCeEEEEEeCCcchhc-ccc---CCccceecCCCCHHHHHHHHHHHhCC
Q 010355          272 --G-VRGCRVLMTARSQDVLS-SKM---DCQNNFLIGVLNESEARDLFKKLVGD  318 (512)
Q Consensus       272 --~-~~gs~iivTtR~~~v~~-~~~---~~~~~~~l~~L~~~ea~~Lf~~~~~~  318 (512)
                        . ..+..||.||....... ...   .-...|.+++.+.++..++|..++..
T Consensus       327 gl~~~~~ViVI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l~~  380 (512)
T TIGR03689       327 GVESLDNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFSKYLTD  380 (512)
T ss_pred             ccccCCceEEEeccCChhhCCHhhcCccccceEEEeCCCCHHHHHHHHHHHhhc
Confidence              1 23455666665443321 111   22346899999999999999998753

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.

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=98.32  E-value=2.3e-05  Score=80.78  Aligned_cols=178  Identities=13%  Similarity=0.175  Sum_probs=102.5

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHHhhhhcC---------------------CCCe
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDV-HMIGAYGMAGVGKTMLVKEVARQAKADK---------------------LFDE  202 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~---------------------~f~~  202 (512)
                      |.....++|.+..+..|..++..+.. +.+.++|+.|+||||+|+.+++..--..                     +++ 
T Consensus        13 P~~~~diiGq~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~~i~~~~~~d-   91 (451)
T PRK06305         13 PQTFSEILGQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCKEISSGTSLD-   91 (451)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHHHHhcCCCCc-
Confidence            34456788999999999999886654 6688999999999999999988753210                     111 


Q ss_pred             EEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCCh--hhhhhhCCCC--CCCCeEE
Q 010355          203 VVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTN--LDLENVGIPF--GVRGCRV  278 (512)
Q Consensus       203 ~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~l~~~~--~~~gs~i  278 (512)
                      .+++.......... .+.+...+..                .-..+++-++|+|++...  ...+.+.-.+  +..++.+
T Consensus        92 ~~~i~g~~~~gid~-ir~i~~~l~~----------------~~~~~~~kvvIIdead~lt~~~~n~LLk~lEep~~~~~~  154 (451)
T PRK06305         92 VLEIDGASHRGIED-IRQINETVLF----------------TPSKSRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHVKF  154 (451)
T ss_pred             eEEeeccccCCHHH-HHHHHHHHHh----------------hhhcCCCEEEEEecHHhhCHHHHHHHHHHhhcCCCCceE
Confidence            11221111111111 1112111110                001245678899998643  2222221111  1345666


Q ss_pred             EEEeCC-cchhccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChh
Q 010355          279 LMTARS-QDVLSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPI  341 (512)
Q Consensus       279 ivTtR~-~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPL  341 (512)
                      |++|.. ..+..........+++.+++.++....+.+.+...... --.+.+..|++.++|.+.
T Consensus       155 Il~t~~~~kl~~tI~sRc~~v~f~~l~~~el~~~L~~~~~~eg~~-i~~~al~~L~~~s~gdlr  217 (451)
T PRK06305        155 FLATTEIHKIPGTILSRCQKMHLKRIPEETIIDKLALIAKQEGIE-TSREALLPIARAAQGSLR  217 (451)
T ss_pred             EEEeCChHhcchHHHHhceEEeCCCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHH
Confidence            666643 22222223345689999999999998888776422111 113567789999999764

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

Probab=98.32  E-value=2.7e-05  Score=75.23  Aligned_cols=196  Identities=16%  Similarity=0.163  Sum_probs=119.3

Q ss_pred             ccccccchHHHHHHHHHhcCCC--c-eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHH
Q 010355          148 YEAFESRMSTLNDVINALKNPD--V-HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADK  224 (512)
Q Consensus       148 ~~~~~gR~~~l~~l~~~L~~~~--~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~  224 (512)
                      .+.|.+|+.++..+...+.+..  . ..|.|+|-+|.|||.+++++.+....     ..+|+++-..++.+-++..|+.+
T Consensus         5 ~~~v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~n~-----~~vw~n~~ecft~~~lle~IL~~   79 (438)
T KOG2543|consen    5 EPNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKLNL-----ENVWLNCVECFTYAILLEKILNK   79 (438)
T ss_pred             ccCccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhcCC-----cceeeehHHhccHHHHHHHHHHH
Confidence            3467799999999999888443  3 44589999999999999999987732     24799999999999999999999


Q ss_pred             hCC-CCCCCCc---hHHHHHHHHHHh-------CCCeEEEEEeCCCChhhhhhhCC--------CCCCCCeEEEEEeCCc
Q 010355          225 LGL-KFYEESE---SGRARKLCERLK-------KEKKILVILDDIWTNLDLENVGI--------PFGVRGCRVLMTARSQ  285 (512)
Q Consensus       225 l~~-~~~~~~~---~~~~~~l~~~l~-------~~k~~LlVlDdv~~~~~~~~l~~--------~~~~~gs~iivTtR~~  285 (512)
                      ++. +.+....   .+........+.       .++.++|||||+....+.....+        ..+.+ ..+|+++-..
T Consensus        80 ~~~~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~lrD~~a~ll~~l~~L~el~~~~-~i~iils~~~  158 (438)
T KOG2543|consen   80 SQLADKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADALRDMDAILLQCLFRLYELLNEP-TIVIILSAPS  158 (438)
T ss_pred             hccCCCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHhhhccchHHHHHHHHHHHHhCCC-ceEEEEeccc
Confidence            862 2221111   122222222221       24689999999976544333211        11123 3344444332


Q ss_pred             chh--ccccC--CccceecCCCCHHHHHHHHHHHhCCCCC----CchhHHHHHHHHHHcCCChhHHHHHHHHh
Q 010355          286 DVL--SSKMD--CQNNFLIGVLNESEARDLFKKLVGDKIE----NNDLKSLAMNIVKACRGLPIAIVTIARAL  350 (512)
Q Consensus       286 ~v~--~~~~~--~~~~~~l~~L~~~ea~~Lf~~~~~~~~~----~~~~~~~~~~I~~~~~GlPLai~~ia~~L  350 (512)
                      ...  ...++  ...++..+.-+.++...+|.+...+...    ..-+.-+..-....|+ -|-++..++...
T Consensus       159 ~e~~y~~n~g~~~i~~l~fP~Ys~~e~~~Il~~~~p~~r~~~~ya~fl~v~l~vF~~~cr-d~~eL~~~~~~~  230 (438)
T KOG2543|consen  159 CEKQYLINTGTLEIVVLHFPQYSVEETQVILSRDNPGKRKLDVYAQFLHVLLQVFYMACR-DVNELRSLISLA  230 (438)
T ss_pred             cHHHhhcccCCCCceEEecCCCCHHHHHHHHhcCCccccchHHHHHHHHHHHHHHHHHhC-CHHHHHHHHHHH
Confidence            211  11122  2346677788889998888765432111    1111223445567777 666666666554

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

Probab=98.31  E-value=3.3e-05  Score=71.22  Aligned_cols=53  Identities=17%  Similarity=0.211  Sum_probs=41.9

Q ss_pred             ccCccccccchHHHHHHHHH----hcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhc
Q 010355          145 IKGYEAFESRMSTLNDVINA----LKNPDVHMIGAYGMAGVGKTMLVKEVARQAKAD  197 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~----L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~  197 (512)
                      +.....++|-+.+.+.|++.    +......-+.+||..|+|||+|++.+.+....+
T Consensus        23 ~~~l~~L~Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~~~   79 (249)
T PF05673_consen   23 PIRLDDLIGIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYADQ   79 (249)
T ss_pred             CCCHHHhcCHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHhhc
Confidence            45566788988888877753    335566778899999999999999999887754

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=98.30  E-value=3.6e-05  Score=80.00  Aligned_cols=182  Identities=12%  Similarity=0.140  Sum_probs=107.7

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCce-EEEEEcCCCCcHHHHHHHHHHhhhhcCC------------------C-CeEE
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDVH-MIGAYGMAGVGKTMLVKEVARQAKADKL------------------F-DEVV  204 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~------------------f-~~~~  204 (512)
                      |.....++|.+.....|..++..+..+ ++.++|+.|+||||+|+.+++..--...                  + ..++
T Consensus        10 P~~fdeiiGqe~v~~~L~~~I~~grl~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C~~~~~~~h~dv~   89 (535)
T PRK08451         10 PKHFDELIGQESVSKTLSLALDNNRLAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQCQSALENRHIDII   89 (535)
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhhcCCCeEE
Confidence            345667899999999999988866654 6689999999999999999887531110                  0 0122


Q ss_pred             EEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCCh--hhhhhh----CCCCCCCCeEE
Q 010355          205 YAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTN--LDLENV----GIPFGVRGCRV  278 (512)
Q Consensus       205 wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~l----~~~~~~~gs~i  278 (512)
                      .+..........+. .++..+...+                ..+++-++|+|++...  ...+.+    -.|  .+.+++
T Consensus        90 eldaas~~gId~IR-elie~~~~~P----------------~~~~~KVvIIDEad~Lt~~A~NALLK~LEEp--p~~t~F  150 (535)
T PRK08451         90 EMDAASNRGIDDIR-ELIEQTKYKP----------------SMARFKIFIIDEVHMLTKEAFNALLKTLEEP--PSYVKF  150 (535)
T ss_pred             EeccccccCHHHHH-HHHHHHhhCc----------------ccCCeEEEEEECcccCCHHHHHHHHHHHhhc--CCceEE
Confidence            22222111222211 1211111000                0135668999999654  223332    222  355777


Q ss_pred             EEEeCCcc-hhccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHH
Q 010355          279 LMTARSQD-VLSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTI  346 (512)
Q Consensus       279 ivTtR~~~-v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~i  346 (512)
                      |++|.... +..........+++.+++.++....+.+.+...... --.+.+..|++.++|.+.-+..+
T Consensus       151 IL~ttd~~kL~~tI~SRc~~~~F~~Ls~~ei~~~L~~Il~~EGi~-i~~~Al~~Ia~~s~GdlR~alnl  218 (535)
T PRK08451        151 ILATTDPLKLPATILSRTQHFRFKQIPQNSIISHLKTILEKEGVS-YEPEALEILARSGNGSLRDTLTL  218 (535)
T ss_pred             EEEECChhhCchHHHhhceeEEcCCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCcHHHHHHH
Confidence            77665532 222223345789999999999999988776432211 11356778999999988554444

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.30  E-value=3.1e-05  Score=82.60  Aligned_cols=180  Identities=11%  Similarity=0.143  Sum_probs=106.9

Q ss_pred             cCccccccchHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHHhhhhc---------------------CCCCeE
Q 010355          146 KGYEAFESRMSTLNDVINALKNPDV-HMIGAYGMAGVGKTMLVKEVARQAKAD---------------------KLFDEV  203 (512)
Q Consensus       146 ~~~~~~~gR~~~l~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~---------------------~~f~~~  203 (512)
                      .....++|....+..|..++..+.. +.+.++|+.|+||||+|+.++....-.                     .+|+ +
T Consensus        14 ~~f~~viGq~~~~~~L~~~i~~~~l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~~~~~~~n-~   92 (614)
T PRK14971         14 STFESVVGQEALTTTLKNAIATNKLAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAFNEQRSYN-I   92 (614)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHHhcCCCCc-e
Confidence            4456788999999999999987665 558899999999999999988865311                     1222 2


Q ss_pred             EEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCCh--hhhhhhCCCC--CCCCeEEE
Q 010355          204 VYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTN--LDLENVGIPF--GVRGCRVL  279 (512)
Q Consensus       204 ~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~l~~~~--~~~gs~ii  279 (512)
                      ..+..........+ +.++.++...+                ..+++-++|+|++...  ..++.+.-.+  +..++.+|
T Consensus        93 ~~ld~~~~~~vd~I-r~li~~~~~~P----------------~~~~~KVvIIdea~~Ls~~a~naLLK~LEepp~~tifI  155 (614)
T PRK14971         93 HELDAASNNSVDDI-RNLIEQVRIPP----------------QIGKYKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAIFI  155 (614)
T ss_pred             EEecccccCCHHHH-HHHHHHHhhCc----------------ccCCcEEEEEECcccCCHHHHHHHHHHHhCCCCCeEEE
Confidence            22232222222221 22222221110                0134568899998654  2333332111  13456665


Q ss_pred             EEe-CCcchhccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHH
Q 010355          280 MTA-RSQDVLSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIV  344 (512)
Q Consensus       280 vTt-R~~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~  344 (512)
                      ++| ....+..........+.+.+++.++....+.+.+...... --...+..|+..++|.+--+.
T Consensus       156 L~tt~~~kIl~tI~SRc~iv~f~~ls~~ei~~~L~~ia~~egi~-i~~~al~~La~~s~gdlr~al  220 (614)
T PRK14971        156 LATTEKHKILPTILSRCQIFDFNRIQVADIVNHLQYVASKEGIT-AEPEALNVIAQKADGGMRDAL  220 (614)
T ss_pred             EEeCCchhchHHHHhhhheeecCCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHH
Confidence            555 4444433334455789999999999999998776432211 113467789999999765443

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=98.29  E-value=7.3e-06  Score=81.05  Aligned_cols=147  Identities=14%  Similarity=0.168  Sum_probs=85.1

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDV-HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIAD  223 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~  223 (512)
                      |.....++|.+.....+..++..+.. .++.++|++|+|||++|+.+++....     .++.++.+. .... .++..+.
T Consensus        17 P~~~~~~~~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~~~-----~~~~i~~~~-~~~~-~i~~~l~   89 (316)
T PHA02544         17 PSTIDECILPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEVGA-----EVLFVNGSD-CRID-FVRNRLT   89 (316)
T ss_pred             CCcHHHhcCcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHhCc-----cceEeccCc-ccHH-HHHHHHH
Confidence            44566789999999999999886654 56666999999999999999887531     123444443 2221 1111111


Q ss_pred             HhCCCCCCCCchHHHHHHHHHH-hCCCeEEEEEeCCCCh---hhhhhhCC--CCCCCCeEEEEEeCCcchh-ccccCCcc
Q 010355          224 KLGLKFYEESESGRARKLCERL-KKEKKILVILDDIWTN---LDLENVGI--PFGVRGCRVLMTARSQDVL-SSKMDCQN  296 (512)
Q Consensus       224 ~l~~~~~~~~~~~~~~~l~~~l-~~~k~~LlVlDdv~~~---~~~~~l~~--~~~~~gs~iivTtR~~~v~-~~~~~~~~  296 (512)
                      .+                .... ..+.+-+||||++...   .....+..  -....++++|+||...... ........
T Consensus        90 ~~----------------~~~~~~~~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~~l~~~l~sR~~  153 (316)
T PHA02544         90 RF----------------ASTVSLTGGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKNGIIEPLRSRCR  153 (316)
T ss_pred             HH----------------HHhhcccCCCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCChhhchHHHHhhce
Confidence            11                0000 0124568899999644   11112211  1114567888888654321 11122334


Q ss_pred             ceecCCCCHHHHHHHHHH
Q 010355          297 NFLIGVLNESEARDLFKK  314 (512)
Q Consensus       297 ~~~l~~L~~~ea~~Lf~~  314 (512)
                      .+.++..+.++...++..
T Consensus       154 ~i~~~~p~~~~~~~il~~  171 (316)
T PHA02544        154 VIDFGVPTKEEQIEMMKQ  171 (316)
T ss_pred             EEEeCCCCHHHHHHHHHH
Confidence            677777788777766554

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=98.26  E-value=1.4e-05  Score=89.01  Aligned_cols=157  Identities=15%  Similarity=0.201  Sum_probs=92.8

Q ss_pred             CccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCC----Ce-EEEEEeCCCCCHHHHHHHH
Q 010355          147 GYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLF----DE-VVYAEVSQRPDVKKIQGQI  221 (512)
Q Consensus       147 ~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f----~~-~~wv~~~~~~~~~~ll~~i  221 (512)
                      ...+++||+.++.+++..|.......+.++|++|+|||+||..++........+    .. ++.+.++      .++   
T Consensus       171 ~~~~~igr~~ei~~~~~~l~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~~~------~l~---  241 (852)
T TIGR03346       171 KLDPVIGRDEEIRRTIQVLSRRTKNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALDMG------ALI---  241 (852)
T ss_pred             CCCcCCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEeeHH------HHh---
Confidence            456799999999999999987666777899999999999999999886432111    12 2223221      111   


Q ss_pred             HHHhCCCCCCCCchHHHHHHHHHHh-CCCeEEEEEeCCCChh---------hhhhhCCCCC-CCCeEEEEEeCCcchh--
Q 010355          222 ADKLGLKFYEESESGRARKLCERLK-KEKKILVILDDIWTNL---------DLENVGIPFG-VRGCRVLMTARSQDVL--  288 (512)
Q Consensus       222 ~~~l~~~~~~~~~~~~~~~l~~~l~-~~k~~LlVlDdv~~~~---------~~~~l~~~~~-~~gs~iivTtR~~~v~--  288 (512)
                       .  +.. ........+..+...+. .+++.+|++|++....         +...+..|.. ....++|.+|.....-  
T Consensus       242 -a--~~~-~~g~~e~~l~~~l~~~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~~~Lk~~l~~g~i~~IgaTt~~e~r~~  317 (852)
T TIGR03346       242 -A--GAK-YRGEFEERLKAVLNEVTKSEGQIILFIDELHTLVGAGKAEGAMDAGNMLKPALARGELHCIGATTLDEYRKY  317 (852)
T ss_pred             -h--cch-hhhhHHHHHHHHHHHHHhcCCCeEEEeccHHHhhcCCCCcchhHHHHHhchhhhcCceEEEEeCcHHHHHHH
Confidence             0  000 00111223444555553 2468999999997442         1112222322 2234555555543220  


Q ss_pred             ----ccccCCccceecCCCCHHHHHHHHHHHh
Q 010355          289 ----SSKMDCQNNFLIGVLNESEARDLFKKLV  316 (512)
Q Consensus       289 ----~~~~~~~~~~~l~~L~~~ea~~Lf~~~~  316 (512)
                          .........+.+...+.++...++....
T Consensus       318 ~~~d~al~rRf~~i~v~~p~~~~~~~iL~~~~  349 (852)
T TIGR03346       318 IEKDAALERRFQPVFVDEPTVEDTISILRGLK  349 (852)
T ss_pred             hhcCHHHHhcCCEEEeCCCCHHHHHHHHHHHH
Confidence                1112234568899899999999987654

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.

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=98.24  E-value=5e-05  Score=77.79  Aligned_cols=179  Identities=18%  Similarity=0.164  Sum_probs=106.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCC
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEK  249 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  249 (512)
                      ...+.|+|++|+|||+|++.+++.......-..++|++.      ..+...+...+...        ....+.+.+..  
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~------~~~~~~~~~~~~~~--------~~~~~~~~~~~--  199 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSS------EKFTNDFVNALRNN--------KMEEFKEKYRS--  199 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEH------HHHHHHHHHHHHcC--------CHHHHHHHHHh--
Confidence            356899999999999999999998764321234566643      34444555444321        12234444442  


Q ss_pred             eEEEEEeCCCChhh---h-hhhCC---CCCCCCeEEEEEeCCcchh--------ccccCCccceecCCCCHHHHHHHHHH
Q 010355          250 KILVILDDIWTNLD---L-ENVGI---PFGVRGCRVLMTARSQDVL--------SSKMDCQNNFLIGVLNESEARDLFKK  314 (512)
Q Consensus       250 ~~LlVlDdv~~~~~---~-~~l~~---~~~~~gs~iivTtR~~~v~--------~~~~~~~~~~~l~~L~~~ea~~Lf~~  314 (512)
                      .-+|||||+.....   + ..+..   .....+..+|+|+......        ...+.....+.+.+.+.+.-..++.+
T Consensus       200 ~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~~p~~l~~l~~~l~SRl~~g~~v~i~~pd~~~r~~il~~  279 (405)
T TIGR00362       200 VDLLLIDDIQFLAGKERTQEEFFHTFNALHENGKQIVLTSDRPPKELPGLEERLRSRFEWGLVVDIEPPDLETRLAILQK  279 (405)
T ss_pred             CCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCCCHHHHhhhhhhhhhhccCCeEEEeCCCCHHHHHHHHHH
Confidence            35899999964311   1 11111   1113456688887653211        11122335789999999999999998


Q ss_pred             HhCCCCCCchhHHHHHHHHHHcCCChhHHHHHHHHhc------cC--CHHHHHHHHHHh
Q 010355          315 LVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARALR------NK--NTFEWKSALREL  365 (512)
Q Consensus       315 ~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~~L~------~~--~~~~w~~~l~~l  365 (512)
                      .+..... .--.++...|++.+.|.+-.+.-+-..|.      ++  +......++..+
T Consensus       280 ~~~~~~~-~l~~e~l~~ia~~~~~~~r~l~~~l~~l~~~a~~~~~~it~~~~~~~L~~~  337 (405)
T TIGR00362       280 KAEEEGL-ELPDEVLEFIAKNIRSNVRELEGALNRLLAYASLTGKPITLELAKEALKDL  337 (405)
T ss_pred             HHHHcCC-CCCHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHh
Confidence            8753221 11246788899999988775443332221      22  667777777765

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).

>TIGR00767 rho transcription termination factor Rho

Probab=98.24  E-value=5.7e-06  Score=81.90  Aligned_cols=92  Identities=14%  Similarity=0.172  Sum_probs=63.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCC--CCHHHHHHHHHHHhCCCCCCCCc---hH---H-HH
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQR--PDVKKIQGQIADKLGLKFYEESE---SG---R-AR  239 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~--~~~~~ll~~i~~~l~~~~~~~~~---~~---~-~~  239 (512)
                      .-..++|+|++|+|||||++.+++....+ +|+..+|+.+...  ..+.++++.++..+-......+.   ..   . ..
T Consensus       167 ~Gq~~~IvG~~g~GKTtL~~~i~~~I~~n-hfdv~v~VlLIgER~~EVtDLqrsIlg~Vvast~d~p~~~~~~va~~v~e  245 (415)
T TIGR00767       167 KGQRGLIVAPPKAGKTVLLQKIAQAITRN-HPEVELIVLLIDERPEEVTDMQRSVKGEVVASTFDEPASRHVQVAEMVIE  245 (415)
T ss_pred             CCCEEEEECCCCCChhHHHHHHHHhhccc-CCceEEEEEEcCCCCccHHHHHHHhhceEEEecCCCChHHHHHHHHHHHH
Confidence            34678999999999999999999988754 7999999999865  68899999984433211111111   11   1 12


Q ss_pred             HHHHHHhCCCeEEEEEeCCCCh
Q 010355          240 KLCERLKKEKKILVILDDIWTN  261 (512)
Q Consensus       240 ~l~~~l~~~k~~LlVlDdv~~~  261 (512)
                      ........+++.+|++|.+...
T Consensus       246 ~Ae~~~~~GkdVVLlIDEitR~  267 (415)
T TIGR00767       246 KAKRLVEHKKDVVILLDSITRL  267 (415)
T ss_pred             HHHHHHHcCCCeEEEEEChhHH
Confidence            2222234689999999999644

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

>PRK10865 protein disaggregation chaperone; Provisional

Probab=98.24  E-value=1.1e-05  Score=89.55  Aligned_cols=158  Identities=15%  Similarity=0.191  Sum_probs=91.9

Q ss_pred             cCccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCC-----CCeEEEEEeCCCCCHHHHHHH
Q 010355          146 KGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKL-----FDEVVYAEVSQRPDVKKIQGQ  220 (512)
Q Consensus       146 ~~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~-----f~~~~wv~~~~~~~~~~ll~~  220 (512)
                      ....+++||+.++.+++..|.......+.++|++|+|||+||..++........     -..++++.++.-      +. 
T Consensus       175 ~~l~~vigr~~ei~~~i~iL~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l~~l------~a-  247 (857)
T PRK10865        175 GKLDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGAL------VA-  247 (857)
T ss_pred             CCCCcCCCCHHHHHHHHHHHhcCCcCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEehhhh------hh-
Confidence            345679999999999999998777777889999999999999999988643211     112333333221      00 


Q ss_pred             HHHHhCCCCCCCCchHHHHHHHHHHh-CCCeEEEEEeCCCChh---------hhhhhCCCCC-CCCeEEEEEeCCcchh-
Q 010355          221 IADKLGLKFYEESESGRARKLCERLK-KEKKILVILDDIWTNL---------DLENVGIPFG-VRGCRVLMTARSQDVL-  288 (512)
Q Consensus       221 i~~~l~~~~~~~~~~~~~~~l~~~l~-~~k~~LlVlDdv~~~~---------~~~~l~~~~~-~~gs~iivTtR~~~v~-  288 (512)
                           +.. ........+..+...+. .+++.+|++|++....         +...+..|.- ....++|.||...... 
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 00111222334444432 3468999999996542         1222323333 3334566555544320 


Q ss_pred             -----ccccCCccceecCCCCHHHHHHHHHHHh
Q 010355          289 -----SSKMDCQNNFLIGVLNESEARDLFKKLV  316 (512)
Q Consensus       289 -----~~~~~~~~~~~l~~L~~~ea~~Lf~~~~  316 (512)
                           .........+.+...+.++...+++...
T Consensus       322 ~~~~d~al~rRf~~i~v~eP~~~~~~~iL~~l~  354 (857)
T PRK10865        322 YIEKDAALERRFQKVFVAEPSVEDTIAILRGLK  354 (857)
T ss_pred             HhhhcHHHHhhCCEEEeCCCCHHHHHHHHHHHh
Confidence                 1111233356666668888888887654

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

Probab=98.24  E-value=7.6e-06  Score=76.78  Aligned_cols=184  Identities=16%  Similarity=0.147  Sum_probs=111.2

Q ss_pred             cccCccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeE-EEEEeCCCCCHHHHHHHH-
Q 010355          144 SIKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEV-VYAEVSQRPDVKKIQGQI-  221 (512)
Q Consensus       144 ~~~~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~-~wv~~~~~~~~~~ll~~i-  221 (512)
                      .|.....++|.+..+..|.+.+.....+...++|++|.|||+.|..+++..--.+.|.+. .-.++|......-+-..+ 
T Consensus        31 rPkt~de~~gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSderGisvvr~Kik  110 (346)
T KOG0989|consen   31 RPKTFDELAGQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERGISVVREKIK  110 (346)
T ss_pred             CCCcHHhhcchHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhcccccccccchhhhhc
Confidence            455677889999999999999988788999999999999999999999886544455443 334444333222111111 


Q ss_pred             -HHHhCCCCCCCCchHHHHHHHHHHh-CCCe-EEEEEeCCCCh--hhhhhhCCCCC--CCCeEEEEEeCCcchh-ccccC
Q 010355          222 -ADKLGLKFYEESESGRARKLCERLK-KEKK-ILVILDDIWTN--LDLENVGIPFG--VRGCRVLMTARSQDVL-SSKMD  293 (512)
Q Consensus       222 -~~~l~~~~~~~~~~~~~~~l~~~l~-~~k~-~LlVlDdv~~~--~~~~~l~~~~~--~~gs~iivTtR~~~v~-~~~~~  293 (512)
                       ..++.....            .... .-++ -+||||++...  ..|..++....  ...+++|+.+..-... .....
T Consensus       111 ~fakl~~~~~------------~~~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii~pi~S  178 (346)
T KOG0989|consen  111 NFAKLTVLLK------------RSDGYPCPPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILICNYLSRIIRPLVS  178 (346)
T ss_pred             CHHHHhhccc------------cccCCCCCcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEcCChhhCChHHHh
Confidence             000000000            0000 0133 58889999754  55766632221  4456665555443322 11223


Q ss_pred             CccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCCh
Q 010355          294 CQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLP  340 (512)
Q Consensus       294 ~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlP  340 (512)
                      ....+..++|..+....-+...+......- -.+..+.|++.++|--
T Consensus       179 RC~KfrFk~L~d~~iv~rL~~Ia~~E~v~~-d~~al~~I~~~S~GdL  224 (346)
T KOG0989|consen  179 RCQKFRFKKLKDEDIVDRLEKIASKEGVDI-DDDALKLIAKISDGDL  224 (346)
T ss_pred             hHHHhcCCCcchHHHHHHHHHHHHHhCCCC-CHHHHHHHHHHcCCcH
Confidence            345788999999998888887774322211 1356788999998853

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

Probab=98.23  E-value=2.6e-05  Score=72.56  Aligned_cols=221  Identities=14%  Similarity=0.118  Sum_probs=122.9

Q ss_pred             ccCccccccchHHHHHHHHHhc-----CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALK-----NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQG  219 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~-----~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~  219 (512)
                      |.....|+|..+..++|.=.+.     +...--+.++|++|.||||||.-+++...+.  +    -+..++...-     
T Consensus        22 P~~l~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn--~----k~tsGp~leK-----   90 (332)
T COG2255          22 PKTLDEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANELGVN--L----KITSGPALEK-----   90 (332)
T ss_pred             cccHHHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHhcCC--e----EecccccccC-----
Confidence            5567789999888877765554     4567789999999999999999999988754  1    1111111110     


Q ss_pred             HHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh---------hhhhhC--CCCC-C-----------CCe
Q 010355          220 QIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL---------DLENVG--IPFG-V-----------RGC  276 (512)
Q Consensus       220 ~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~---------~~~~l~--~~~~-~-----------~gs  276 (512)
                                     ...+..++..|.  ..=+|++|.+....         ..+.+.  ...+ +           +-+
T Consensus        91 ---------------~gDlaaiLt~Le--~~DVLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLppFT  153 (332)
T COG2255          91 ---------------PGDLAAILTNLE--EGDVLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLPPFT  153 (332)
T ss_pred             ---------------hhhHHHHHhcCC--cCCeEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCccceEeccCCCee
Confidence                           111222222232  34566777775331         111110  0000 2           233


Q ss_pred             EEEEEeCCcchhccc-cCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHHHHhccC--
Q 010355          277 RVLMTARSQDVLSSK-MDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARALRNK--  353 (512)
Q Consensus       277 ~iivTtR~~~v~~~~-~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~~L~~~--  353 (512)
                      -|=.|||...+.... -.-..+.++.--+.++-.++..+.+..-.. .--.+.+.+|++...|-|.-..-+-+.++..  
T Consensus       154 LIGATTr~G~lt~PLrdRFGi~~rlefY~~~eL~~Iv~r~a~~l~i-~i~~~~a~eIA~rSRGTPRIAnRLLrRVRDfa~  232 (332)
T COG2255         154 LIGATTRAGMLTNPLRDRFGIIQRLEFYTVEELEEIVKRSAKILGI-EIDEEAALEIARRSRGTPRIANRLLRRVRDFAQ  232 (332)
T ss_pred             EeeeccccccccchhHHhcCCeeeeecCCHHHHHHHHHHHHHHhCC-CCChHHHHHHHHhccCCcHHHHHHHHHHHHHHH
Confidence            455688876553211 122357788889999999999887741111 1113568899999999998766665555411  


Q ss_pred             -------CHHHHHHHHHHhcCCCCCCCCcchHHHHhHHHHHHhccchhh
Q 010355          354 -------NTFEWKSALRELTRPSSGSFSGVAAEAYKTSELSYNHLEGAL  395 (512)
Q Consensus       354 -------~~~~w~~~l~~l~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~  395 (512)
                             +...-...++.|.-... .++.....+..++.-.|+.=|--+
T Consensus       233 V~~~~~I~~~ia~~aL~~L~Vd~~-GLd~~D~k~L~~li~~f~GgPVGl  280 (332)
T COG2255         233 VKGDGDIDRDIADKALKMLDVDEL-GLDEIDRKYLRALIEQFGGGPVGL  280 (332)
T ss_pred             HhcCCcccHHHHHHHHHHhCcccc-cccHHHHHHHHHHHHHhCCCCccH
Confidence                   33333445555443211 122224445555555554434333

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.22  E-value=3.4e-05  Score=81.98  Aligned_cols=180  Identities=13%  Similarity=0.166  Sum_probs=104.7

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCC-------------------eEE
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDV-HMIGAYGMAGVGKTMLVKEVARQAKADKLFD-------------------EVV  204 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~-------------------~~~  204 (512)
                      |.....++|.+..+..|.+++..++. +.+.++|+.|+||||+|+.+++..--.....                   .++
T Consensus        12 P~~f~~iiGq~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~~~c~~c~~c~~i~~g~~~d~~   91 (576)
T PRK14965         12 PQTFSDLTGQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALNCEQGLTAEPCNVCPPCVEITEGRSVDVF   91 (576)
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCCCCCCccHHHHHHhcCCCCCee
Confidence            34566789999999999999887665 5678999999999999999988753211100                   011


Q ss_pred             EEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHh----CCCeEEEEEeCCCCh--hhhhhhCCCC--CCCCe
Q 010355          205 YAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLK----KEKKILVILDDIWTN--LDLENVGIPF--GVRGC  276 (512)
Q Consensus       205 wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~--~~~gs  276 (512)
                      .+........                     ..+..+...+.    .+++-++|+|++...  ...+.+.-.+  +..++
T Consensus        92 eid~~s~~~v---------------------~~ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~  150 (576)
T PRK14965         92 EIDGASNTGV---------------------DDIRELRENVKYLPSRSRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHV  150 (576)
T ss_pred             eeeccCccCH---------------------HHHHHHHHHHHhccccCCceEEEEEChhhCCHHHHHHHHHHHHcCCCCe
Confidence            1111111111                     12222333222    235568899999654  2233331111  13455


Q ss_pred             EEEEEe-CCcchhccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCCh-hHHHHH
Q 010355          277 RVLMTA-RSQDVLSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLP-IAIVTI  346 (512)
Q Consensus       277 ~iivTt-R~~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlP-Lai~~i  346 (512)
                      .+|++| ....+..........+.+.+++..+....+...+......- -...+..|++.++|.. .|+..+
T Consensus       151 ~fIl~t~~~~kl~~tI~SRc~~~~f~~l~~~~i~~~L~~i~~~egi~i-~~~al~~la~~a~G~lr~al~~L  221 (576)
T PRK14965        151 KFIFATTEPHKVPITILSRCQRFDFRRIPLQKIVDRLRYIADQEGISI-SDAALALVARKGDGSMRDSLSTL  221 (576)
T ss_pred             EEEEEeCChhhhhHHHHHhhhhhhcCCCCHHHHHHHHHHHHHHhCCCC-CHHHHHHHHHHcCCCHHHHHHHH
Confidence            565555 44434322334456888999999999888887664222111 1345677888888865 344444

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=98.22  E-value=5.1e-05  Score=78.70  Aligned_cols=179  Identities=17%  Similarity=0.146  Sum_probs=107.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCC
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEK  249 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  249 (512)
                      ...+.|+|++|+|||+|++.+++.......-..++|++..      .+...+...+...        ....+.+.+.  +
T Consensus       148 ~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~~------~~~~~~~~~~~~~--------~~~~~~~~~~--~  211 (450)
T PRK00149        148 YNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTSE------KFTNDFVNALRNN--------TMEEFKEKYR--S  211 (450)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEHH------HHHHHHHHHHHcC--------cHHHHHHHHh--c
Confidence            3578999999999999999999987643222345666443      3344444444211        1233444554  3


Q ss_pred             eEEEEEeCCCChhh----hhhhCC---CCCCCCeEEEEEeCCcchh--------ccccCCccceecCCCCHHHHHHHHHH
Q 010355          250 KILVILDDIWTNLD----LENVGI---PFGVRGCRVLMTARSQDVL--------SSKMDCQNNFLIGVLNESEARDLFKK  314 (512)
Q Consensus       250 ~~LlVlDdv~~~~~----~~~l~~---~~~~~gs~iivTtR~~~v~--------~~~~~~~~~~~l~~L~~~ea~~Lf~~  314 (512)
                      .-+|||||+.....    ...+..   .+...|..||+||....-.        ...+.....+.+.+.+.+.-..++.+
T Consensus       212 ~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~~~~iiits~~~p~~l~~l~~~l~SRl~~gl~v~i~~pd~~~r~~il~~  291 (450)
T PRK00149        212 VDVLLIDDIQFLAGKERTQEEFFHTFNALHEAGKQIVLTSDRPPKELPGLEERLRSRFEWGLTVDIEPPDLETRIAILKK  291 (450)
T ss_pred             CCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHHhHhcCCeeEEecCCCHHHHHHHHHH
Confidence            45899999964311    111111   1113455688887654211        11223345789999999999999998


Q ss_pred             HhCCCCCCchhHHHHHHHHHHcCCChhHHHHHHHHh------ccC--CHHHHHHHHHHh
Q 010355          315 LVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARAL------RNK--NTFEWKSALREL  365 (512)
Q Consensus       315 ~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~~L------~~~--~~~~w~~~l~~l  365 (512)
                      .+..... .--.++..-|++.+.|..-.+.-+-..|      .++  +....+.++..+
T Consensus       292 ~~~~~~~-~l~~e~l~~ia~~~~~~~R~l~~~l~~l~~~~~~~~~~it~~~~~~~l~~~  349 (450)
T PRK00149        292 KAEEEGI-DLPDEVLEFIAKNITSNVRELEGALNRLIAYASLTGKPITLELAKEALKDL  349 (450)
T ss_pred             HHHHcCC-CCCHHHHHHHHcCcCCCHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHh
Confidence            8753211 1124678889999998877544332222      122  777788888875

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=98.22  E-value=4.1e-05  Score=80.79  Aligned_cols=193  Identities=11%  Similarity=0.100  Sum_probs=106.2

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDV-HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIAD  223 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~  223 (512)
                      |.....++|.+..+..|..++.++.. +.+.++|+.|+||||+|+.+++..--......   ..+....+.    +.|..
T Consensus        12 P~~f~diiGqe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~---~pC~~C~~C----~~i~~   84 (563)
T PRK06647         12 PRDFNSLEGQDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAFARCLNCVNGPTP---MPCGECSSC----KSIDN   84 (563)
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhccccCCCC---CCCccchHH----HHHHc
Confidence            44566789999999999999986554 56889999999999999999987642111100   000000011    11110


Q ss_pred             HhCCC---CCC--CCchHHHHHHHHHHh----CCCeEEEEEeCCCCh--hhhhhhCCCCC--CCCeEEEEEeCC-cchhc
Q 010355          224 KLGLK---FYE--ESESGRARKLCERLK----KEKKILVILDDIWTN--LDLENVGIPFG--VRGCRVLMTARS-QDVLS  289 (512)
Q Consensus       224 ~l~~~---~~~--~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~--~~gs~iivTtR~-~~v~~  289 (512)
                      .-...   ...  ......+..+.+.+.    .+++-++|+|++...  ..++.+...+.  ...+.+|++|.. ..+..
T Consensus        85 ~~~~dv~~idgas~~~vddIr~l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~tte~~kL~~  164 (563)
T PRK06647         85 DNSLDVIEIDGASNTSVQDVRQIKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEVHKLPA  164 (563)
T ss_pred             CCCCCeEEecCcccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEecCChHHhHH
Confidence            00000   000  011112222222211    245668999998654  33444422222  345666665543 22322


Q ss_pred             cccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHH
Q 010355          290 SKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVT  345 (512)
Q Consensus       290 ~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~  345 (512)
                      ........+.+.+++.++....+.+.+...... --.+.+..|++.++|.+..+..
T Consensus       165 tI~SRc~~~~f~~l~~~el~~~L~~i~~~egi~-id~eAl~lLa~~s~GdlR~als  219 (563)
T PRK06647        165 TIKSRCQHFNFRLLSLEKIYNMLKKVCLEDQIK-YEDEALKWIAYKSTGSVRDAYT  219 (563)
T ss_pred             HHHHhceEEEecCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHH
Confidence            223344578999999999988888776322211 1135677788999998754433

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=98.22  E-value=7.4e-05  Score=79.10  Aligned_cols=192  Identities=13%  Similarity=0.110  Sum_probs=105.8

Q ss_pred             ccCccccccchHHHHHHHHHhcCCC-ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPD-VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIAD  223 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~  223 (512)
                      |.....++|.+..+..|.+++..++ .+.+.++|+.|+||||+|+.++...--.....       ..+++.....+.|..
T Consensus        12 P~~f~~viGq~~v~~~L~~~i~~~~~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~-------~~pC~~C~~C~~i~~   84 (559)
T PRK05563         12 PQTFEDVVGQEHITKTLKNAIKQGKISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPD-------GEPCNECEICKAITN   84 (559)
T ss_pred             CCcHHhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCC-------CCCCCccHHHHHHhc
Confidence            4456678999999999999988654 46678899999999999999987653211000       001111111111111


Q ss_pred             HhCCCC-----CCCCchHHHHHHHHHHh----CCCeEEEEEeCCCCh--hhhhhhCCCCC--CCCeEEEEEe-CCcchhc
Q 010355          224 KLGLKF-----YEESESGRARKLCERLK----KEKKILVILDDIWTN--LDLENVGIPFG--VRGCRVLMTA-RSQDVLS  289 (512)
Q Consensus       224 ~l~~~~-----~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~--~~gs~iivTt-R~~~v~~  289 (512)
                      ......     ........+..+.....    .+++-++|+|++...  ..+..+.-.+.  ..++.+|++| ....+..
T Consensus        85 g~~~dv~eidaas~~~vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt~~~ki~~  164 (559)
T PRK05563         85 GSLMDVIEIDAASNNGVDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPHKIPA  164 (559)
T ss_pred             CCCCCeEEeeccccCCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeCChhhCcH
Confidence            100000     00011122333333322    246678899999754  33443321111  3345555544 4333322


Q ss_pred             cccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHH
Q 010355          290 SKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIV  344 (512)
Q Consensus       290 ~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~  344 (512)
                      ........+.+.+++..+....+...+......- -...+..|++.++|.+.-+.
T Consensus       165 tI~SRc~~~~f~~~~~~ei~~~L~~i~~~egi~i-~~~al~~ia~~s~G~~R~al  218 (559)
T PRK05563        165 TILSRCQRFDFKRISVEDIVERLKYILDKEGIEY-EDEALRLIARAAEGGMRDAL  218 (559)
T ss_pred             HHHhHheEEecCCCCHHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHcCCCHHHHH
Confidence            2233446788999999999988887764222111 13456778888888776433

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

Probab=98.21  E-value=4.2e-05  Score=77.30  Aligned_cols=172  Identities=16%  Similarity=0.242  Sum_probs=96.1

Q ss_pred             CccccccchHHHHHHHHHhc----C---------CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCC
Q 010355          147 GYEAFESRMSTLNDVINALK----N---------PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPD  213 (512)
Q Consensus       147 ~~~~~~gR~~~l~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  213 (512)
                      ....+.|-+...+.|.+.+.    .         ...+.+.|+|++|+|||+||+.+++....  .|   +.+..     
T Consensus       143 ~~~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~~--~f---i~i~~-----  212 (398)
T PTZ00454        143 TYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTA--TF---IRVVG-----  212 (398)
T ss_pred             CHHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCC--CE---EEEeh-----
Confidence            34556787777766665442    1         23577999999999999999999987642  22   22211     


Q ss_pred             HHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh------------h----hhhhCCC---C-CC
Q 010355          214 VKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL------------D----LENVGIP---F-GV  273 (512)
Q Consensus       214 ~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~------------~----~~~l~~~---~-~~  273 (512)
                       ..+....   ++      .....+..++.......+.+|+||++....            .    +..+...   + ..
T Consensus       213 -s~l~~k~---~g------e~~~~lr~lf~~A~~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~~~  282 (398)
T PTZ00454        213 -SEFVQKY---LG------EGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQT  282 (398)
T ss_pred             -HHHHHHh---cc------hhHHHHHHHHHHHHhcCCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccCCC
Confidence             1111111   11      111233445555555678999999975321            0    1111111   1 13


Q ss_pred             CCeEEEEEeCCcchhcc-cc---CCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCCh
Q 010355          274 RGCRVLMTARSQDVLSS-KM---DCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLP  340 (512)
Q Consensus       274 ~gs~iivTtR~~~v~~~-~~---~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlP  340 (512)
                      .+..||+||........ ..   .-...+.++..+.++...+|..+.......+..  ....+++.+.|+.
T Consensus       283 ~~v~VI~aTN~~d~LDpAllR~GRfd~~I~~~~P~~~~R~~Il~~~~~~~~l~~dv--d~~~la~~t~g~s  351 (398)
T PTZ00454        283 TNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKMNLSEEV--DLEDFVSRPEKIS  351 (398)
T ss_pred             CCEEEEEecCCchhCCHHHcCCCcccEEEEeCCcCHHHHHHHHHHHHhcCCCCccc--CHHHHHHHcCCCC
Confidence            46678888876543311 11   223568888888888888888766432222211  1345667776653

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.20  E-value=4.5e-05  Score=81.42  Aligned_cols=195  Identities=11%  Similarity=0.068  Sum_probs=108.1

Q ss_pred             cCccccccchHHHHHHHHHhcCCC-ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHH
Q 010355          146 KGYEAFESRMSTLNDVINALKNPD-VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADK  224 (512)
Q Consensus       146 ~~~~~~~gR~~~l~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~  224 (512)
                      .....++|.+..+..|..++..++ .+.+.++|+.|+||||+|+.+++..--..... ..    ...+......+.+...
T Consensus        13 ~~f~~liGq~~i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~-~~----~~~Cg~C~~C~~i~~g   87 (620)
T PRK14948         13 QRFDELVGQEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARILAKSLNCLNSDK-PT----PEPCGKCELCRAIAAG   87 (620)
T ss_pred             CcHhhccChHHHHHHHHHHHHcCCCCceEEEECCCCCChHHHHHHHHHHhcCCCcCC-CC----CCCCcccHHHHHHhcC
Confidence            345568899999999999888654 36889999999999999999998764211110 00    0111112222222221


Q ss_pred             hCCC-----CCCCCchHHHHHHHHHHh----CCCeEEEEEeCCCCh--hhhhhhCCCCC--CCCeEEEEEeCCc-chhcc
Q 010355          225 LGLK-----FYEESESGRARKLCERLK----KEKKILVILDDIWTN--LDLENVGIPFG--VRGCRVLMTARSQ-DVLSS  290 (512)
Q Consensus       225 l~~~-----~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~--~~gs~iivTtR~~-~v~~~  290 (512)
                      ....     .........+..+...+.    .+++-++|||++...  ..++.+.-.+.  ...+.+|++|.+. .+...
T Consensus        88 ~h~D~~ei~~~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t~~~~~llpT  167 (620)
T PRK14948         88 NALDVIEIDAASNTGVDNIRELIERAQFAPVQARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATTDPQRVLPT  167 (620)
T ss_pred             CCccEEEEeccccCCHHHHHHHHHHHhhChhcCCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEeCChhhhhHH
Confidence            1110     001111223333333332    145568999999754  23333311111  2345555555433 23222


Q ss_pred             ccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHH
Q 010355          291 KMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTI  346 (512)
Q Consensus       291 ~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~i  346 (512)
                      .......+.+.+++.++....+...+......- -...+..|++.++|.+..+..+
T Consensus       168 IrSRc~~~~f~~l~~~ei~~~L~~ia~kegi~i-s~~al~~La~~s~G~lr~A~~l  222 (620)
T PRK14948        168 IISRCQRFDFRRIPLEAMVQHLSEIAEKESIEI-EPEALTLVAQRSQGGLRDAESL  222 (620)
T ss_pred             HHhheeEEEecCCCHHHHHHHHHHHHHHhCCCC-CHHHHHHHHHHcCCCHHHHHHH
Confidence            233446788889999998888877664321111 1245778999999987655443

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

Probab=98.16  E-value=0.00011  Score=70.56  Aligned_cols=182  Identities=19%  Similarity=0.228  Sum_probs=106.8

Q ss_pred             ccccccchHHHHHHHHHhc-------------CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCH
Q 010355          148 YEAFESRMSTLNDVINALK-------------NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDV  214 (512)
Q Consensus       148 ~~~~~gR~~~l~~l~~~L~-------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  214 (512)
                      +..+-|-++.+++|.+.+.             -..++-|.+||++|.|||-||++|+++....       |+.+..+   
T Consensus       150 Y~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T~At-------FIrvvgS---  219 (406)
T COG1222         150 YEDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTDAT-------FIRVVGS---  219 (406)
T ss_pred             hhhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhccCce-------EEEeccH---
Confidence            4455577888888777654             1356788999999999999999999986632       3444332   


Q ss_pred             HHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh--------------------hhhhhCCCCCCC
Q 010355          215 KKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL--------------------DLENVGIPFGVR  274 (512)
Q Consensus       215 ~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~--------------------~~~~l~~~~~~~  274 (512)
                       ++.+..   +|      .....+..+++.-+.+.+++|++|.++...                    -+.++-..-+..
T Consensus       220 -ElVqKY---iG------EGaRlVRelF~lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~~~  289 (406)
T COG1222         220 -ELVQKY---IG------EGARLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDPRG  289 (406)
T ss_pred             -HHHHHH---hc------cchHHHHHHHHHHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCCCC
Confidence             222211   11      223456667777777889999999985321                    122221111155


Q ss_pred             CeEEEEEeCCcchh-c---cccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCCh----hHHHHH
Q 010355          275 GCRVLMTARSQDVL-S---SKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLP----IAIVTI  346 (512)
Q Consensus       275 gs~iivTtR~~~v~-~---~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlP----Lai~~i  346 (512)
                      +.|||..|....++ +   +...-...|+++.-+...-.++|+-+...-....+.  -...|++.|.|.-    .||.+=
T Consensus       290 nvKVI~ATNR~D~LDPALLRPGR~DRkIEfplPd~~gR~~Il~IHtrkM~l~~dv--d~e~la~~~~g~sGAdlkaictE  367 (406)
T COG1222         290 NVKVIMATNRPDILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKMNLADDV--DLELLARLTEGFSGADLKAICTE  367 (406)
T ss_pred             CeEEEEecCCccccChhhcCCCcccceeecCCCCHHHHHHHHHHHhhhccCccCc--CHHHHHHhcCCCchHHHHHHHHH
Confidence            68899888766554 1   111223567777555555556666555422221111  1345667777763    456666


Q ss_pred             HHHhc
Q 010355          347 ARALR  351 (512)
Q Consensus       347 a~~L~  351 (512)
                      |++++
T Consensus       368 AGm~A  372 (406)
T COG1222         368 AGMFA  372 (406)
T ss_pred             HhHHH
Confidence            66665

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

Probab=98.16  E-value=1.7e-05  Score=79.90  Aligned_cols=108  Identities=22%  Similarity=0.288  Sum_probs=72.0

Q ss_pred             cccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCC
Q 010355          149 EAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLK  228 (512)
Q Consensus       149 ~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~  228 (512)
                      ..+++.+..++.+...|...  +.+.++|++|+|||++|+.+++.......|..+.||.+++..+..+++..+.- .+..
T Consensus       175 ~d~~i~e~~le~l~~~L~~~--~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI~G~rP-~~vg  251 (459)
T PRK11331        175 NDLFIPETTIETILKRLTIK--KNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFIQGYRP-NGVG  251 (459)
T ss_pred             hcccCCHHHHHHHHHHHhcC--CCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHhcccCC-CCCC
Confidence            34667888899999888754  56888999999999999999998765566888999999988887776542210 0000


Q ss_pred             CCCCCchHHHHHHHHHHh--CCCeEEEEEeCCCCh
Q 010355          229 FYEESESGRARKLCERLK--KEKKILVILDDIWTN  261 (512)
Q Consensus       229 ~~~~~~~~~~~~l~~~l~--~~k~~LlVlDdv~~~  261 (512)
                      ..  -.......+.....  ..++++||||++...
T Consensus       252 y~--~~~G~f~~~~~~A~~~p~~~~vliIDEINRa  284 (459)
T PRK11331        252 FR--RKDGIFYNFCQQAKEQPEKKYVFIIDEINRA  284 (459)
T ss_pred             eE--ecCchHHHHHHHHHhcccCCcEEEEehhhcc
Confidence            00  00111112222222  246899999998643

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=98.16  E-value=0.00011  Score=75.54  Aligned_cols=180  Identities=13%  Similarity=0.164  Sum_probs=107.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCC
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEK  249 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  249 (512)
                      ...+.|+|.+|+|||+|++.+++.......-..++|++.      .+++..+...+...        ......+.+. .+
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~------~~f~~~~~~~~~~~--------~~~~f~~~~~-~~  194 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITS------EKFLNDLVDSMKEG--------KLNEFREKYR-KK  194 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH------HHHHHHHHHHHhcc--------cHHHHHHHHH-hc
Confidence            356999999999999999999998764321235667653      35566665555321        1223333333 23


Q ss_pred             eEEEEEeCCCChh---hh-hhhCCCC---CCCCeEEEEEeCCcc-hh-------ccccCCccceecCCCCHHHHHHHHHH
Q 010355          250 KILVILDDIWTNL---DL-ENVGIPF---GVRGCRVLMTARSQD-VL-------SSKMDCQNNFLIGVLNESEARDLFKK  314 (512)
Q Consensus       250 ~~LlVlDdv~~~~---~~-~~l~~~~---~~~gs~iivTtR~~~-v~-------~~~~~~~~~~~l~~L~~~ea~~Lf~~  314 (512)
                      .-+|+|||+....   .. ..+...+   ...|..||+||.... -.       .........+.+.+.+.+.-..++.+
T Consensus       195 ~dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~~k~iIitsd~~p~~l~~l~~rL~SR~~~gl~v~i~~pd~e~r~~IL~~  274 (440)
T PRK14088        195 VDVLLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEETRKKIARK  274 (440)
T ss_pred             CCEEEEechhhhcCcHHHHHHHHHHHHHHHHcCCeEEEECCCCHHHHHHHHHHHhhHHhcCceEeeCCCCHHHHHHHHHH
Confidence            5689999997431   11 1111111   134557888875332 11       11123345788999999999999998


Q ss_pred             HhCCCCCCchhHHHHHHHHHHcCCChhHHHHHHHHh------ccC--CHHHHHHHHHHh
Q 010355          315 LVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARAL------RNK--NTFEWKSALREL  365 (512)
Q Consensus       315 ~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~~L------~~~--~~~~w~~~l~~l  365 (512)
                      .+..... .--.++..-|++.+.|..-.+.-+-..|      .++  +....+.++..+
T Consensus       275 ~~~~~~~-~l~~ev~~~Ia~~~~~~~R~L~g~l~~l~~~~~~~~~~it~~~a~~~L~~~  332 (440)
T PRK14088        275 MLEIEHG-ELPEEVLNFVAENVDDNLRRLRGAIIKLLVYKETTGEEVDLKEAILLLKDF  332 (440)
T ss_pred             HHHhcCC-CCCHHHHHHHHhccccCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence            8752211 1124678889999888755444433322      122  677777777765

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=98.16  E-value=6e-05  Score=79.03  Aligned_cols=178  Identities=12%  Similarity=0.085  Sum_probs=105.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCe
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKK  250 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~  250 (512)
                      ..+.|+|..|+|||.|++.+++.......-..++|++.      .+++..+...+...        ....+.+++.  +.
T Consensus       315 NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yita------eef~~el~~al~~~--------~~~~f~~~y~--~~  378 (617)
T PRK14086        315 NPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSS------EEFTNEFINSIRDG--------KGDSFRRRYR--EM  378 (617)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeH------HHHHHHHHHHHHhc--------cHHHHHHHhh--cC
Confidence            45899999999999999999998753222234566643      34444544433211        1223334443  24


Q ss_pred             EEEEEeCCCCh---hhhhh-h---CCCCCCCCeEEEEEeCCcch--------hccccCCccceecCCCCHHHHHHHHHHH
Q 010355          251 ILVILDDIWTN---LDLEN-V---GIPFGVRGCRVLMTARSQDV--------LSSKMDCQNNFLIGVLNESEARDLFKKL  315 (512)
Q Consensus       251 ~LlVlDdv~~~---~~~~~-l---~~~~~~~gs~iivTtR~~~v--------~~~~~~~~~~~~l~~L~~~ea~~Lf~~~  315 (512)
                      =||||||+...   ..+.. +   ...+...+..|||||+...-        +...+....++.|.+.+.+.-..++.++
T Consensus       379 DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~~P~eL~~l~~rL~SRf~~GLvv~I~~PD~EtR~aIL~kk  458 (617)
T PRK14086        379 DILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSDRPPKQLVTLEDRLRNRFEWGLITDVQPPELETRIAILRKK  458 (617)
T ss_pred             CEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecCCChHhhhhccHHHHhhhhcCceEEcCCCCHHHHHHHHHHH
Confidence            58999999643   11211 1   11111446678888876421        1122345568899999999999999988


Q ss_pred             hCCCCCCchhHHHHHHHHHHcCCChhHHHHHHHHhc------cC--CHHHHHHHHHHh
Q 010355          316 VGDKIENNDLKSLAMNIVKACRGLPIAIVTIARALR------NK--NTFEWKSALREL  365 (512)
Q Consensus       316 ~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~~L~------~~--~~~~w~~~l~~l  365 (512)
                      +..... .--.+++.-|++.+.+..-.|.-+-..|.      ++  +...-+.+++.+
T Consensus       459 a~~r~l-~l~~eVi~yLa~r~~rnvR~LegaL~rL~a~a~~~~~~itl~la~~vL~~~  515 (617)
T PRK14086        459 AVQEQL-NAPPEVLEFIASRISRNIRELEGALIRVTAFASLNRQPVDLGLTEIVLRDL  515 (617)
T ss_pred             HHhcCC-CCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHh
Confidence            753221 11246777888888777554444333331      22  566666777765

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=98.16  E-value=2.4e-05  Score=74.95  Aligned_cols=133  Identities=12%  Similarity=0.193  Sum_probs=68.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCC
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKE  248 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  248 (512)
                      ....+.++|++|+||||+|+.+++............++.++.    ..+....   ++     .. ......+...   .
T Consensus        41 ~~~~vll~GppGtGKTtlA~~ia~~l~~~~~~~~~~~v~~~~----~~l~~~~---~g-----~~-~~~~~~~~~~---a  104 (261)
T TIGR02881        41 QVLHMIFKGNPGTGKTTVARILGKLFKEMNVLSKGHLIEVER----ADLVGEY---IG-----HT-AQKTREVIKK---A  104 (261)
T ss_pred             CcceEEEEcCCCCCHHHHHHHHHHHHHhcCcccCCceEEecH----HHhhhhh---cc-----ch-HHHHHHHHHh---c
Confidence            456788999999999999999988753211111112333322    1111110   00     00 1112222222   2


Q ss_pred             CeEEEEEeCCCChh----------hhhhhCCCCC--CCCeEEEEEeCCcchh------ccccCC-ccceecCCCCHHHHH
Q 010355          249 KKILVILDDIWTNL----------DLENVGIPFG--VRGCRVLMTARSQDVL------SSKMDC-QNNFLIGVLNESEAR  309 (512)
Q Consensus       249 k~~LlVlDdv~~~~----------~~~~l~~~~~--~~gs~iivTtR~~~v~------~~~~~~-~~~~~l~~L~~~ea~  309 (512)
                      ...+|+||++....          ....+.....  .....+|+++......      ...... ...+.+++++.++..
T Consensus       105 ~~~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~~~~~~~vila~~~~~~~~~~~~~p~L~sRf~~~i~f~~~~~~el~  184 (261)
T TIGR02881       105 LGGVLFIDEAYSLARGGEKDFGKEAIDTLVKGMEDNRNEFVLILAGYSDEMDYFLSLNPGLRSRFPISIDFPDYTVEELM  184 (261)
T ss_pred             cCCEEEEechhhhccCCccchHHHHHHHHHHHHhccCCCEEEEecCCcchhHHHHhcChHHHhccceEEEECCCCHHHHH
Confidence            24589999997521          2222211111  2233455555433210      001112 246889999999999


Q ss_pred             HHHHHHhC
Q 010355          310 DLFKKLVG  317 (512)
Q Consensus       310 ~Lf~~~~~  317 (512)
                      +++.+.+.
T Consensus       185 ~Il~~~~~  192 (261)
T TIGR02881       185 EIAERMVK  192 (261)
T ss_pred             HHHHHHHH
Confidence            99987764

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.

>PRK06620 hypothetical protein; Validated

Probab=98.13  E-value=1.9e-05  Score=72.99  Aligned_cols=138  Identities=17%  Similarity=0.056  Sum_probs=81.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCe
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKK  250 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~  250 (512)
                      +.+.|+|++|+|||+|++.+++....       .++.  .....                        .   ..+.  ..
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~~~-------~~~~--~~~~~------------------------~---~~~~--~~   86 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLSNA-------YIIK--DIFFN------------------------E---EILE--KY   86 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhccCC-------EEcc--hhhhc------------------------h---hHHh--cC
Confidence            67899999999999999987765431       1221  00000                        0   0111  23


Q ss_pred             EEEEEeCCCChhh--hhhhCCCCCCCCeEEEEEeCCcchh------ccccCCccceecCCCCHHHHHHHHHHHhCCCCCC
Q 010355          251 ILVILDDIWTNLD--LENVGIPFGVRGCRVLMTARSQDVL------SSKMDCQNNFLIGVLNESEARDLFKKLVGDKIEN  322 (512)
Q Consensus       251 ~LlVlDdv~~~~~--~~~l~~~~~~~gs~iivTtR~~~v~------~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~  322 (512)
                      -+|++||+.....  +-.+...+...|..||+|++.....      ...+....++.+++++.++-..++.+.+..... 
T Consensus        87 d~lliDdi~~~~~~~lf~l~N~~~e~g~~ilits~~~p~~l~l~~L~SRl~~gl~~~l~~pd~~~~~~~l~k~~~~~~l-  165 (214)
T PRK06620         87 NAFIIEDIENWQEPALLHIFNIINEKQKYLLLTSSDKSRNFTLPDLSSRIKSVLSILLNSPDDELIKILIFKHFSISSV-  165 (214)
T ss_pred             CEEEEeccccchHHHHHHHHHHHHhcCCEEEEEcCCCccccchHHHHHHHhCCceEeeCCCCHHHHHHHHHHHHHHcCC-
Confidence            5788999964321  1112111125577899998865431      111233458999999999988888877642211 


Q ss_pred             chhHHHHHHHHHHcCCChhHHHHHH
Q 010355          323 NDLKSLAMNIVKACRGLPIAIVTIA  347 (512)
Q Consensus       323 ~~~~~~~~~I~~~~~GlPLai~~ia  347 (512)
                      .--+++..-|++.+.|.--.+.-+-
T Consensus       166 ~l~~ev~~~L~~~~~~d~r~l~~~l  190 (214)
T PRK06620        166 TISRQIIDFLLVNLPREYSKIIEIL  190 (214)
T ss_pred             CCCHHHHHHHHHHccCCHHHHHHHH
Confidence            1114677788888877655544433

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

Probab=98.13  E-value=1.1e-05  Score=87.69  Aligned_cols=157  Identities=20%  Similarity=0.239  Sum_probs=93.5

Q ss_pred             ccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcC-C---CCeEEEEEeCCCCCHHHHHHHHHH
Q 010355          148 YEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADK-L---FDEVVYAEVSQRPDVKKIQGQIAD  223 (512)
Q Consensus       148 ~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~-~---f~~~~wv~~~~~~~~~~ll~~i~~  223 (512)
                      ..+++||+.++.+++..|.......+.|+|++|+|||+||+.++....... .   ..+.+|..     ++..    ++.
T Consensus       185 ~~~liGR~~ei~~~i~iL~r~~~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l-----~~~~----lla  255 (758)
T PRK11034        185 IDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSL-----DIGS----LLA  255 (758)
T ss_pred             CCcCcCCCHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEec-----cHHH----Hhc
Confidence            457899999999999999876556778999999999999999998753321 1   13444421     1111    110


Q ss_pred             HhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCCh----------hhhhhhCCCCC-CCCeEEEEEeCCcchh----
Q 010355          224 KLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTN----------LDLENVGIPFG-VRGCRVLMTARSQDVL----  288 (512)
Q Consensus       224 ~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~----------~~~~~l~~~~~-~~gs~iivTtR~~~v~----  288 (512)
                        |.. ........+..+...+...++.+|+||++...          .+...+..|.. ....+||.+|......    
T Consensus       256 --G~~-~~Ge~e~rl~~l~~~l~~~~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L~~g~i~vIgATt~~E~~~~~~  332 (758)
T PRK11034        256 --GTK-YRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSGKIRVIGSTTYQEFSNIFE  332 (758)
T ss_pred             --ccc-hhhhHHHHHHHHHHHHHhcCCCEEEeccHHHHhccCCCCCcHHHHHHHHHHHHhCCCeEEEecCChHHHHHHhh
Confidence              110 11122233445555555456789999999643          11211222222 3334555555543310    


Q ss_pred             --ccccCCccceecCCCCHHHHHHHHHHHh
Q 010355          289 --SSKMDCQNNFLIGVLNESEARDLFKKLV  316 (512)
Q Consensus       289 --~~~~~~~~~~~l~~L~~~ea~~Lf~~~~  316 (512)
                        .........+.+++++.+++..++....
T Consensus       333 ~D~AL~rRFq~I~v~ePs~~~~~~IL~~~~  362 (758)
T PRK11034        333 KDRALARRFQKIDITEPSIEETVQIINGLK  362 (758)
T ss_pred             ccHHHHhhCcEEEeCCCCHHHHHHHHHHHH
Confidence              1112234579999999999999998653

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=98.12  E-value=0.00019  Score=70.37  Aligned_cols=193  Identities=15%  Similarity=0.159  Sum_probs=110.8

Q ss_pred             cccccchHHHHHHHHHhcCCC-ceEEEEEcCCCCcHHHHHHHHHHhhhhcC-------------CCCeEEEEEeCCCCCH
Q 010355          149 EAFESRMSTLNDVINALKNPD-VHMIGAYGMAGVGKTMLVKEVARQAKADK-------------LFDEVVYAEVSQRPDV  214 (512)
Q Consensus       149 ~~~~gR~~~l~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~-------------~f~~~~wv~~~~~~~~  214 (512)
                      ..++|.+..+..+...+..++ .+...++|+.|+||+++|..+++..--..             .+.-..|+.-.....-
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            457899999999999988776 48999999999999999999988753211             1112344432100000


Q ss_pred             HHHHHHHHHHhCCC--CCCCCchHHHHHHHHHHh----CCCeEEEEEeCCCCh--hhh----hhhCCCCCCCCeEEEEEe
Q 010355          215 KKIQGQIADKLGLK--FYEESESGRARKLCERLK----KEKKILVILDDIWTN--LDL----ENVGIPFGVRGCRVLMTA  282 (512)
Q Consensus       215 ~~ll~~i~~~l~~~--~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~----~~l~~~~~~~gs~iivTt  282 (512)
                      ..+-..-+...+..  ....-..+.+..+.+.+.    .+++-++|+|++...  ...    ..+--|  . .+.+|++|
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~I~id~ir~i~~~l~~~p~~~~~kVvII~~ae~m~~~aaNaLLK~LEEP--p-~~~fILi~  160 (314)
T PRK07399         84 KLITASEAEEAGLKRKAPPQIRLEQIREIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEP--G-NGTLILIA  160 (314)
T ss_pred             cccchhhhhhccccccccccCcHHHHHHHHHHHccCcccCCceEEEEEchhhcCHHHHHHHHHHHhCC--C-CCeEEEEE
Confidence            00000011111110  001111223445555543    246678999998643  222    233333  2 34455555


Q ss_pred             C-CcchhccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHHH
Q 010355          283 R-SQDVLSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIAR  348 (512)
Q Consensus       283 R-~~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~  348 (512)
                      . ...+.....+....+++.+++.++..+.+.+.......    ......++..++|.|..+..+..
T Consensus       161 ~~~~~Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~~~~~~~----~~~~~~l~~~a~Gs~~~al~~l~  223 (314)
T PRK07399        161 PSPESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLGDEEIL----NINFPELLALAQGSPGAAIANIE  223 (314)
T ss_pred             CChHhCcHHHHhhceEEecCCCCHHHHHHHHHHhhccccc----hhHHHHHHHHcCCCHHHHHHHHH
Confidence            4 43443334455679999999999999999987532111    11135789999999976655443

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=98.12  E-value=7.4e-05  Score=78.48  Aligned_cols=199  Identities=19%  Similarity=0.252  Sum_probs=106.5

Q ss_pred             cCccccccchHHHHHHH---HHhcC---------CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCC
Q 010355          146 KGYEAFESRMSTLNDVI---NALKN---------PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPD  213 (512)
Q Consensus       146 ~~~~~~~gR~~~l~~l~---~~L~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  213 (512)
                      .....+.|-+....++.   .++..         ...+-+.++|++|+|||+||+.++......       ++.++.   
T Consensus        52 ~~~~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~~~-------~~~i~~---  121 (495)
T TIGR01241        52 VTFKDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVP-------FFSISG---  121 (495)
T ss_pred             CCHHHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCC-------eeeccH---
Confidence            34456677665544443   33321         234568899999999999999999875421       222221   


Q ss_pred             HHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh----------------hhhhhCCC----CCC
Q 010355          214 VKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL----------------DLENVGIP----FGV  273 (512)
Q Consensus       214 ~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~----------------~~~~l~~~----~~~  273 (512)
                       ..+....   .+.      ....+..++.......+++|+||+++...                .+..+...    ...
T Consensus       122 -~~~~~~~---~g~------~~~~l~~~f~~a~~~~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~~  191 (495)
T TIGR01241       122 -SDFVEMF---VGV------GASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTN  191 (495)
T ss_pred             -HHHHHHH---hcc------cHHHHHHHHHHHHhcCCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccCC
Confidence             1111110   010      11233444555444578999999995421                01111111    113


Q ss_pred             CCeEEEEEeCCcchh----ccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCC-hhHHHHHHH
Q 010355          274 RGCRVLMTARSQDVL----SSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGL-PIAIVTIAR  348 (512)
Q Consensus       274 ~gs~iivTtR~~~v~----~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~Gl-PLai~~ia~  348 (512)
                      .+..||.||......    .+...-...+.++..+.++-.++|..++......+.  .....|++.+.|. |--|..+..
T Consensus       192 ~~v~vI~aTn~~~~ld~al~r~gRfd~~i~i~~Pd~~~R~~il~~~l~~~~~~~~--~~l~~la~~t~G~sgadl~~l~~  269 (495)
T TIGR01241       192 TGVIVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKKLAPD--VDLKAVARRTPGFSGADLANLLN  269 (495)
T ss_pred             CCeEEEEecCChhhcCHHHhcCCcceEEEEcCCCCHHHHHHHHHHHHhcCCCCcc--hhHHHHHHhCCCCCHHHHHHHHH
Confidence            455566666554321    111122357888888998889999887754322221  1245788888774 344444332


Q ss_pred             H---h--c-cC---CHHHHHHHHHHhc
Q 010355          349 A---L--R-NK---NTFEWKSALRELT  366 (512)
Q Consensus       349 ~---L--~-~~---~~~~w~~~l~~l~  366 (512)
                      .   .  + ++   +...+..++....
T Consensus       270 eA~~~a~~~~~~~i~~~~l~~a~~~~~  296 (495)
T TIGR01241       270 EAALLAARKNKTEITMNDIEEAIDRVI  296 (495)
T ss_pred             HHHHHHHHcCCCCCCHHHHHHHHHHHh
Confidence            1   1  1 22   5666777666643

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.

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

Probab=98.10  E-value=4.3e-05  Score=77.81  Aligned_cols=171  Identities=18%  Similarity=0.230  Sum_probs=95.8

Q ss_pred             CccccccchHHHHHHHHHhc----C---------CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCC
Q 010355          147 GYEAFESRMSTLNDVINALK----N---------PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPD  213 (512)
Q Consensus       147 ~~~~~~gR~~~l~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  213 (512)
                      ....+.|.+..+++|.+.+.    .         ...+.+.|+|++|+|||+||+.+++....  .|     +.+...  
T Consensus       181 ~~~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~~--~f-----i~V~~s--  251 (438)
T PTZ00361        181 SYADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSA--TF-----LRVVGS--  251 (438)
T ss_pred             CHHHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhCC--CE-----EEEecc--
Confidence            34456788888877776553    1         23467889999999999999999997652  23     222111  


Q ss_pred             HHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh----------------hhhhhCCC----CCC
Q 010355          214 VKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL----------------DLENVGIP----FGV  273 (512)
Q Consensus       214 ~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~----------------~~~~l~~~----~~~  273 (512)
                        .+....   ++      .....+..++.....+.+++|+||++....                .+..+...    ...
T Consensus       252 --eL~~k~---~G------e~~~~vr~lF~~A~~~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~~~  320 (438)
T PTZ00361        252 --ELIQKY---LG------DGPKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDSR  320 (438)
T ss_pred             --hhhhhh---cc------hHHHHHHHHHHHHHhCCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhccc
Confidence              111110   11      111223444444444678999999974321                01111000    113


Q ss_pred             CCeEEEEEeCCcchhccc-c---CCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCC
Q 010355          274 RGCRVLMTARSQDVLSSK-M---DCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGL  339 (512)
Q Consensus       274 ~gs~iivTtR~~~v~~~~-~---~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~Gl  339 (512)
                      .+.+||+||......... .   .....+.+.+.+..+..++|..++.........  ....++..+.|+
T Consensus       321 ~~V~VI~ATNr~d~LDpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~~k~~l~~dv--dl~~la~~t~g~  388 (438)
T PTZ00361        321 GDVKVIMATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSKMTLAEDV--DLEEFIMAKDEL  388 (438)
T ss_pred             CCeEEEEecCChHHhhHHhccCCeeEEEEEeCCCCHHHHHHHHHHHHhcCCCCcCc--CHHHHHHhcCCC
Confidence            456788888755433111 1   223578999999999999999876433222211  134556666554

>CHL00181 cbbX CbbX; Provisional

Probab=98.09  E-value=9.6e-05  Score=71.53  Aligned_cols=131  Identities=12%  Similarity=0.118  Sum_probs=69.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCe
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKK  250 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~  250 (512)
                      ..+.++|++|+||||+|+.++........-...-|+.++.    ..+....   .|.     .. .....+.+.   ...
T Consensus        60 ~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~----~~l~~~~---~g~-----~~-~~~~~~l~~---a~g  123 (287)
T CHL00181         60 LHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTR----DDLVGQY---IGH-----TA-PKTKEVLKK---AMG  123 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecH----HHHHHHH---hcc-----ch-HHHHHHHHH---ccC
Confidence            4588999999999999999988754322111112444431    1222221   111     11 111222222   233


Q ss_pred             EEEEEeCCCCh-----------hhhhhhCCCC--CCCCeEEEEEeCCcchhc-------cccCCccceecCCCCHHHHHH
Q 010355          251 ILVILDDIWTN-----------LDLENVGIPF--GVRGCRVLMTARSQDVLS-------SKMDCQNNFLIGVLNESEARD  310 (512)
Q Consensus       251 ~LlVlDdv~~~-----------~~~~~l~~~~--~~~gs~iivTtR~~~v~~-------~~~~~~~~~~l~~L~~~ea~~  310 (512)
                      -+|+||++...           .....+....  ...+.+||+++.......       ........+.+++++.++..+
T Consensus       124 gVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~~~~~~vI~ag~~~~~~~~~~~np~L~sR~~~~i~F~~~t~~el~~  203 (287)
T CHL00181        124 GVLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQRDDLVVIFAGYKDRMDKFYESNPGLSSRIANHVDFPDYTPEELLQ  203 (287)
T ss_pred             CEEEEEccchhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhcCHHHHHhCCceEEcCCcCHHHHHH
Confidence            59999999642           1112221111  134566777765332210       011223578999999999999


Q ss_pred             HHHHHhC
Q 010355          311 LFKKLVG  317 (512)
Q Consensus       311 Lf~~~~~  317 (512)
                      ++.+.+.
T Consensus       204 I~~~~l~  210 (287)
T CHL00181        204 IAKIMLE  210 (287)
T ss_pred             HHHHHHH
Confidence            9988774

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

Probab=98.09  E-value=6.9e-05  Score=67.58  Aligned_cols=103  Identities=17%  Similarity=0.150  Sum_probs=71.7

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADK  224 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~  224 (512)
                      |.....+||-++.++.+.-....++.+-+.|.||+|+||||-+..+++..-...+-+++.-+++|....+.-+...|-.-
T Consensus        23 P~~l~dIVGNe~tv~rl~via~~gnmP~liisGpPG~GKTTsi~~LAr~LLG~~~ke~vLELNASdeRGIDvVRn~IK~F  102 (333)
T KOG0991|consen   23 PSVLQDIVGNEDTVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLARELLGDSYKEAVLELNASDERGIDVVRNKIKMF  102 (333)
T ss_pred             chHHHHhhCCHHHHHHHHHHHHcCCCCceEeeCCCCCchhhHHHHHHHHHhChhhhhHhhhccCccccccHHHHHHHHHH
Confidence            44456789999999988877778899999999999999999999998876543344566667777666655544443110


Q ss_pred             hCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCCh
Q 010355          225 LGLKFYEESESGRARKLCERLKKEKKILVILDDIWTN  261 (512)
Q Consensus       225 l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~  261 (512)
                      .              +-+-.+-.++.-+||||..++.
T Consensus       103 A--------------Q~kv~lp~grhKIiILDEADSM  125 (333)
T KOG0991|consen  103 A--------------QKKVTLPPGRHKIIILDEADSM  125 (333)
T ss_pred             H--------------HhhccCCCCceeEEEeeccchh
Confidence            0              0001112367778999998764

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=98.07  E-value=0.00015  Score=71.45  Aligned_cols=152  Identities=12%  Similarity=0.157  Sum_probs=88.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCC-------------------CeEEEEEeCCCCCHHHHHHHHHHHhCCCCC
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLF-------------------DEVVYAEVSQRPDVKKIQGQIADKLGLKFY  230 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f-------------------~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~  230 (512)
                      .+.+.++|+.|+|||++|..++...--....                   .-..|+.-...                  .
T Consensus        22 ~ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~~~~~------------------~   83 (328)
T PRK05707         22 PHAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPDNFVLEPEEA------------------D   83 (328)
T ss_pred             ceeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccCC------------------C
Confidence            5678899999999999999998876321100                   01222211100                  0


Q ss_pred             CCCchHHHHHHHHHHh----CCCeEEEEEeCCCCh--hhhhh----hCCCCCCCCeEEEEEeCCcc-hhccccCCcccee
Q 010355          231 EESESGRARKLCERLK----KEKKILVILDDIWTN--LDLEN----VGIPFGVRGCRVLMTARSQD-VLSSKMDCQNNFL  299 (512)
Q Consensus       231 ~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~----l~~~~~~~gs~iivTtR~~~-v~~~~~~~~~~~~  299 (512)
                      ..-..+.+..+.+.+.    .+++-++|||++...  ...+.    +.-|  ..++.+|+||.+.. +.....+....+.
T Consensus        84 ~~i~id~iR~l~~~~~~~~~~~~~kv~iI~~a~~m~~~aaNaLLK~LEEP--p~~~~fiL~t~~~~~ll~TI~SRc~~~~  161 (328)
T PRK05707         84 KTIKVDQVRELVSFVVQTAQLGGRKVVLIEPAEAMNRNAANALLKSLEEP--SGDTVLLLISHQPSRLLPTIKSRCQQQA  161 (328)
T ss_pred             CCCCHHHHHHHHHHHhhccccCCCeEEEECChhhCCHHHHHHHHHHHhCC--CCCeEEEEEECChhhCcHHHHhhceeee
Confidence            0011122333333332    134455678999743  23333    3233  35677777777654 3333344557899


Q ss_pred             cCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHH
Q 010355          300 IGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTI  346 (512)
Q Consensus       300 l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~i  346 (512)
                      +.+++.+++...+.......  .   ...+..++..++|.|+.+..+
T Consensus       162 ~~~~~~~~~~~~L~~~~~~~--~---~~~~~~~l~la~Gsp~~A~~l  203 (328)
T PRK05707        162 CPLPSNEESLQWLQQALPES--D---ERERIELLTLAGGSPLRALQL  203 (328)
T ss_pred             CCCcCHHHHHHHHHHhcccC--C---hHHHHHHHHHcCCCHHHHHHH
Confidence            99999999999998764211  1   234567889999999865544

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=98.06  E-value=8e-05  Score=72.12  Aligned_cols=130  Identities=13%  Similarity=0.130  Sum_probs=69.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeE
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKI  251 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~  251 (512)
                      .+.|+|++|+|||++|+.++............-|+.++.    .++...+   .|.     +. .....+.+..   ..-
T Consensus        60 ~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~----~~l~~~~---~g~-----~~-~~~~~~~~~a---~~g  123 (284)
T TIGR02880        60 HMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVTR----DDLVGQY---IGH-----TA-PKTKEILKRA---MGG  123 (284)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEecH----HHHhHhh---ccc-----ch-HHHHHHHHHc---cCc
Confidence            688999999999999998887765322222112444332    1222111   111     11 1122233222   346


Q ss_pred             EEEEeCCCCh-----------hhhhhhCCCC--CCCCeEEEEEeCCcchhcc-------ccCCccceecCCCCHHHHHHH
Q 010355          252 LVILDDIWTN-----------LDLENVGIPF--GVRGCRVLMTARSQDVLSS-------KMDCQNNFLIGVLNESEARDL  311 (512)
Q Consensus       252 LlVlDdv~~~-----------~~~~~l~~~~--~~~gs~iivTtR~~~v~~~-------~~~~~~~~~l~~L~~~ea~~L  311 (512)
                      +|+||++...           ..+..+....  ...+.+||+++.....-..       .......+.+++++.++...+
T Consensus       124 vL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le~~~~~~~vI~a~~~~~~~~~~~~np~L~sR~~~~i~fp~l~~edl~~I  203 (284)
T TIGR02880       124 VLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQRDDLVVILAGYKDRMDSFFESNPGFSSRVAHHVDFPDYSEAELLVI  203 (284)
T ss_pred             EEEEechhhhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhhCHHHHhhCCcEEEeCCcCHHHHHHH
Confidence            8999999632           1112221111  1345666666654321100       001135789999999999999


Q ss_pred             HHHHhC
Q 010355          312 FKKLVG  317 (512)
Q Consensus       312 f~~~~~  317 (512)
                      +.+.+.
T Consensus       204 ~~~~l~  209 (284)
T TIGR02880       204 AGLMLK  209 (284)
T ss_pred             HHHHHH
Confidence            988774

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.

>CHL00176 ftsH cell division protein; Validated

Probab=98.02  E-value=0.00014  Score=77.70  Aligned_cols=195  Identities=20%  Similarity=0.304  Sum_probs=105.8

Q ss_pred             cccccchHH---HHHHHHHhcCC---------CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHH
Q 010355          149 EAFESRMST---LNDVINALKNP---------DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKK  216 (512)
Q Consensus       149 ~~~~gR~~~---l~~l~~~L~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~  216 (512)
                      ..+.|.++.   +..++.++...         ..+-+.|+|++|+|||+||+.++......       |+.++..    .
T Consensus       183 ~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~~~p-------~i~is~s----~  251 (638)
T CHL00176        183 RDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVP-------FFSISGS----E  251 (638)
T ss_pred             HhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCC-------eeeccHH----H
Confidence            445565544   44454444421         24578999999999999999998865421       2332211    1


Q ss_pred             HHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh----------------hhhhhCCC---C-CCCCe
Q 010355          217 IQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL----------------DLENVGIP---F-GVRGC  276 (512)
Q Consensus       217 ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~----------------~~~~l~~~---~-~~~gs  276 (512)
                      +....   .+.      ....+..++.......+++|+||+++...                .+..+...   + ...+.
T Consensus       252 f~~~~---~g~------~~~~vr~lF~~A~~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~~~~V  322 (638)
T CHL00176        252 FVEMF---VGV------GAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGNKGV  322 (638)
T ss_pred             HHHHh---hhh------hHHHHHHHHHHHhcCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccCCCCe
Confidence            11100   010      11223444555555688999999995331                12222111   1 14456


Q ss_pred             EEEEEeCCcchhc-ccc---CCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCC-ChhHHHHHHHH--
Q 010355          277 RVLMTARSQDVLS-SKM---DCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRG-LPIAIVTIARA--  349 (512)
Q Consensus       277 ~iivTtR~~~v~~-~~~---~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~G-lPLai~~ia~~--  349 (512)
                      .||.||....... ...   .-...+.+.+.+.++-.++|+.++......+  ......|++.+.| .+--|..+...  
T Consensus       323 iVIaaTN~~~~LD~ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~~~~~~--d~~l~~lA~~t~G~sgaDL~~lvneAa  400 (638)
T CHL00176        323 IVIAATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARNKKLSP--DVSLELIARRTPGFSGADLANLLNEAA  400 (638)
T ss_pred             eEEEecCchHhhhhhhhccccCceEEEECCCCHHHHHHHHHHHHhhcccch--hHHHHHHHhcCCCCCHHHHHHHHHHHH
Confidence            6777776543221 111   1235788888899999999988875432222  2345678888887 33333333221  


Q ss_pred             -h--c-cC---CHHHHHHHHHHh
Q 010355          350 -L--R-NK---NTFEWKSALREL  365 (512)
Q Consensus       350 -L--~-~~---~~~~w~~~l~~l  365 (512)
                       +  + ++   +......++.+.
T Consensus       401 l~a~r~~~~~It~~dl~~Ai~rv  423 (638)
T CHL00176        401 ILTARRKKATITMKEIDTAIDRV  423 (638)
T ss_pred             HHHHHhCCCCcCHHHHHHHHHHH
Confidence             1  1 21   556666666654

>TIGR00602 rad24 checkpoint protein rad24

Probab=98.00  E-value=2.7e-05  Score=82.58  Aligned_cols=52  Identities=15%  Similarity=0.218  Sum_probs=42.8

Q ss_pred             cccCccccccchHHHHHHHHHhcCC-----CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          144 SIKGYEAFESRMSTLNDVINALKNP-----DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       144 ~~~~~~~~~gR~~~l~~l~~~L~~~-----~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .|.....++|..+.+..+..|+...     ..++++|+|++|+||||+++.++....
T Consensus        79 rP~~ldel~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l~  135 (637)
T TIGR00602        79 KPETQHELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKELG  135 (637)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHhh
Confidence            4566778899999999999888732     345799999999999999999998654

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

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=98.00  E-value=3.4e-05  Score=65.82  Aligned_cols=89  Identities=26%  Similarity=0.142  Sum_probs=51.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCC
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEK  249 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  249 (512)
                      .+.+.|+|++|+||||+++.++......  ...++++..+........... ...................+.......+
T Consensus         2 ~~~~~l~G~~G~GKTtl~~~l~~~~~~~--~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (148)
T smart00382        2 GEVILIVGPPGSGKTTLARALARELGPP--GGGVIYIDGEDILEEVLDQLL-LIIVGGKKASGSGELRLRLALALARKLK   78 (148)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhccCCC--CCCEEEECCEEccccCHHHHH-hhhhhccCCCCCHHHHHHHHHHHHHhcC
Confidence            3678999999999999999999887643  234566655443322111111 1111111111222333445555555434


Q ss_pred             eEEEEEeCCCCh
Q 010355          250 KILVILDDIWTN  261 (512)
Q Consensus       250 ~~LlVlDdv~~~  261 (512)
                      ..+|++|++...
T Consensus        79 ~~viiiDei~~~   90 (148)
T smart00382       79 PDVLILDEITSL   90 (148)
T ss_pred             CCEEEEECCccc
Confidence            599999999765

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.

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=97.95  E-value=0.00024  Score=73.07  Aligned_cols=177  Identities=11%  Similarity=0.133  Sum_probs=100.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCC
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEK  249 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  249 (512)
                      ...+.|+|+.|+|||+|++.+++.....  ...+++++      ...+...+...+...        ....+...+.  .
T Consensus       141 ~npl~L~G~~G~GKTHLl~Ai~~~l~~~--~~~v~yi~------~~~f~~~~~~~l~~~--------~~~~f~~~~~--~  202 (445)
T PRK12422        141 FNPIYLFGPEGSGKTHLMQAAVHALRES--GGKILYVR------SELFTEHLVSAIRSG--------EMQRFRQFYR--N  202 (445)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHHHHHc--CCCEEEee------HHHHHHHHHHHHhcc--------hHHHHHHHcc--c
Confidence            3568899999999999999999987632  23455654      234444555444321        1122333332  3


Q ss_pred             eEEEEEeCCCChhh----hhhhCCCC---CCCCeEEEEEeCCcch-----h---ccccCCccceecCCCCHHHHHHHHHH
Q 010355          250 KILVILDDIWTNLD----LENVGIPF---GVRGCRVLMTARSQDV-----L---SSKMDCQNNFLIGVLNESEARDLFKK  314 (512)
Q Consensus       250 ~~LlVlDdv~~~~~----~~~l~~~~---~~~gs~iivTtR~~~v-----~---~~~~~~~~~~~l~~L~~~ea~~Lf~~  314 (512)
                      .-+|+|||+.....    ...+...+   ...|..||+||.....     .   ...+.....+.+.+++.++...++.+
T Consensus       203 ~dvLiIDDiq~l~~k~~~qeelf~l~N~l~~~~k~IIlts~~~p~~l~~l~~rL~SR~~~Gl~~~l~~pd~e~r~~iL~~  282 (445)
T PRK12422        203 VDALFIEDIEVFSGKGATQEEFFHTFNSLHTEGKLIVISSTCAPQDLKAMEERLISRFEWGIAIPLHPLTKEGLRSFLER  282 (445)
T ss_pred             CCEEEEcchhhhcCChhhHHHHHHHHHHHHHCCCcEEEecCCCHHHHhhhHHHHHhhhcCCeEEecCCCCHHHHHHHHHH
Confidence            45889999854321    11111111   1345678888865321     0   11123346889999999999999988


Q ss_pred             HhCCCCCCchhHHHHHHHHHHcCCCh-hHHHHHHHH--------hccC--CHHHHHHHHHHh
Q 010355          315 LVGDKIENNDLKSLAMNIVKACRGLP-IAIVTIARA--------LRNK--NTFEWKSALREL  365 (512)
Q Consensus       315 ~~~~~~~~~~~~~~~~~I~~~~~GlP-Lai~~ia~~--------L~~~--~~~~w~~~l~~l  365 (512)
                      .+..... .--.++..-|+..+.|.- -.+..+-.+        +.+.  +...-+.++..+
T Consensus       283 k~~~~~~-~l~~evl~~la~~~~~dir~L~g~l~~l~~~~a~~~~~~~~i~~~~~~~~l~~~  343 (445)
T PRK12422        283 KAEALSI-RIEETALDFLIEALSSNVKSLLHALTLLAKRVAYKKLSHQLLYVDDIKALLHDV  343 (445)
T ss_pred             HHHHcCC-CCCHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHh
Confidence            7743211 111356666777777554 222222222        1122  566667777654

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

Probab=97.95  E-value=0.00028  Score=72.21  Aligned_cols=170  Identities=15%  Similarity=0.214  Sum_probs=94.5

Q ss_pred             ccccccchHHHHHHHHHhc---C---------CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHH
Q 010355          148 YEAFESRMSTLNDVINALK---N---------PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVK  215 (512)
Q Consensus       148 ~~~~~gR~~~l~~l~~~L~---~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  215 (512)
                      ...+-|-+..+.+|...+.   .         ...+-|.+||++|+|||.||+.++....+-       ++.++.+    
T Consensus       189 f~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~vP-------f~~isAp----  257 (802)
T KOG0733|consen  189 FSDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGVP-------FLSISAP----  257 (802)
T ss_pred             hhhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCCc-------eEeecch----
Confidence            3456677887777776554   1         235778899999999999999999988753       3343332    


Q ss_pred             HHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh----------------h----hhhhCCCCC-CC
Q 010355          216 KIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL----------------D----LENVGIPFG-VR  274 (512)
Q Consensus       216 ~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~----------------~----~~~l~~~~~-~~  274 (512)
                          .|+..+.     ......+..++..-.+.-+|+++||+++-..                +    ++.+...-. +.
T Consensus       258 ----eivSGvS-----GESEkkiRelF~~A~~~aPcivFiDeIDAI~pkRe~aqreMErRiVaQLlt~mD~l~~~~~~g~  328 (802)
T KOG0733|consen  258 ----EIVSGVS-----GESEKKIRELFDQAKSNAPCIVFIDEIDAITPKREEAQREMERRIVAQLLTSMDELSNEKTKGD  328 (802)
T ss_pred             ----hhhcccC-----cccHHHHHHHHHHHhccCCeEEEeecccccccchhhHHHHHHHHHHHHHHHhhhcccccccCCC
Confidence                1222211     1233456677777777789999999985320                0    111111111 33


Q ss_pred             CeEEEEEeCCcchh----ccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCC
Q 010355          275 GCRVLMTARSQDVL----SSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGL  339 (512)
Q Consensus       275 gs~iivTtR~~~v~----~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~Gl  339 (512)
                      +..||-+|..+...    .+...-.+.|.|.--+...-.++++..+.+-.....+  -..+|++.+-|.
T Consensus       329 ~VlVIgATnRPDslDpaLRRaGRFdrEI~l~vP~e~aR~~IL~~~~~~lrl~g~~--d~~qlA~lTPGf  395 (802)
T KOG0733|consen  329 PVLVIGATNRPDSLDPALRRAGRFDREICLGVPSETAREEILRIICRGLRLSGDF--DFKQLAKLTPGF  395 (802)
T ss_pred             CeEEEecCCCCcccCHHHhccccccceeeecCCchHHHHHHHHHHHhhCCCCCCc--CHHHHHhcCCCc
Confidence            44444444333322    1112223567777666666666666655322221111  134566666654

>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=97.91  E-value=0.00079  Score=67.12  Aligned_cols=192  Identities=15%  Similarity=0.169  Sum_probs=121.7

Q ss_pred             chHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHH-HHHHHhhhhcCCCCeEEEEEeCCC---CCHHHHHHHHHHHhCCCC
Q 010355          154 RMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLV-KEVARQAKADKLFDEVVYAEVSQR---PDVKKIQGQIADKLGLKF  229 (512)
Q Consensus       154 R~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa-~~v~~~~~~~~~f~~~~wv~~~~~---~~~~~ll~~i~~~l~~~~  229 (512)
                      |.+.+++|..||....-..|.|.||-|+||+.|+ .++....+      .++.+++.+-   .+-..++..++.++|.-+
T Consensus         1 R~e~~~~L~~wL~e~~~TFIvV~GPrGSGK~elV~d~~L~~r~------~vL~IDC~~i~~ar~D~~~I~~lA~qvGY~P   74 (431)
T PF10443_consen    1 RKEAIEQLKSWLNENPNTFIVVQGPRGSGKRELVMDHVLKDRK------NVLVIDCDQIVKARGDAAFIKNLASQVGYFP   74 (431)
T ss_pred             CchHHHHHHHHHhcCCCeEEEEECCCCCCccHHHHHHHHhCCC------CEEEEEChHhhhccChHHHHHHHHHhcCCCc
Confidence            5677899999999877889999999999999999 66665432      2666766432   344556666666665321


Q ss_pred             -----------------------CC--CCchHHHH--------HHHH-----H--------------Hh--CCCeEEEEE
Q 010355          230 -----------------------YE--ESESGRAR--------KLCE-----R--------------LK--KEKKILVIL  255 (512)
Q Consensus       230 -----------------------~~--~~~~~~~~--------~l~~-----~--------------l~--~~k~~LlVl  255 (512)
                                             ..  .+....+.        .|+.     +              |.  ..++=+|||
T Consensus        75 vFsw~nSiss~IDLa~qGltGqKaGfSes~e~Ql~~IL~~t~~ALr~ial~~~~~~~~~~~l~e~~yl~~hPe~~PVVVI  154 (431)
T PF10443_consen   75 VFSWMNSISSFIDLAVQGLTGQKAGFSESLETQLKKILQTTATALRDIALSNRKKDDKDANLKEEDYLEAHPERRPVVVI  154 (431)
T ss_pred             chHHHHHHHHHHHHHHhhccccccCCCCChHHHHHHHHHHHHHHHHHHHHHhhhccccccccCchhhhhhCCccCCEEEE
Confidence                                   00  11111111        1111     0              00  012568999


Q ss_pred             eCCCCh-----------hhhhhhCCCCCCCCeEEEEEeCCcchhc-----cccCCccceecCCCCHHHHHHHHHHHhCCC
Q 010355          256 DDIWTN-----------LDLENVGIPFGVRGCRVLMTARSQDVLS-----SKMDCQNNFLIGVLNESEARDLFKKLVGDK  319 (512)
Q Consensus       256 Ddv~~~-----------~~~~~l~~~~~~~gs~iivTtR~~~v~~-----~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~  319 (512)
                      ||+...           .+|.....  .++--+||++|-+.....     ......+.+.|.-.+++.|..+..+++...
T Consensus       155 dnF~~k~~~~~~iy~~laeWAa~Lv--~~nIAHVIFlT~dv~~~k~LskaLPn~vf~tI~L~Das~~~Ak~yV~~~L~~~  232 (431)
T PF10443_consen  155 DNFLHKAEENDFIYDKLAEWAASLV--QNNIAHVIFLTDDVSYSKPLSKALPNRVFKTISLSDASPESAKQYVLSQLDED  232 (431)
T ss_pred             cchhccCcccchHHHHHHHHHHHHH--hcCccEEEEECCCCchhhhHHHhCCCCceeEEeecCCCHHHHHHHHHHHhccc
Confidence            998432           22333211  145567888887654431     112345788999999999999999988533


Q ss_pred             CCC-------------------chhHHHHHHHHHHcCCChhHHHHHHHHhccC
Q 010355          320 IEN-------------------NDLKSLAMNIVKACRGLPIAIVTIARALRNK  353 (512)
Q Consensus       320 ~~~-------------------~~~~~~~~~I~~~~~GlPLai~~ia~~L~~~  353 (512)
                      ...                   .....-....+..+||--.=+..+++.++.-
T Consensus       233 ~~~~~~~~~~~~~~~~~~~~~~~~~~~eld~~i~~LGGRltDLe~lvrRiksG  285 (431)
T PF10443_consen  233 TEDSSDSKESNEQNKNDKSAENEKDLAELDECIEPLGGRLTDLEFLVRRIKSG  285 (431)
T ss_pred             ccccccccccccccccccccccccchHHHHHHHHHcCCcHHHHHHHHHHHHcC
Confidence            110                   1233456678899999999999999998843

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 [].

>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.88  E-value=0.00024  Score=72.14  Aligned_cols=134  Identities=22%  Similarity=0.171  Sum_probs=81.1

Q ss_pred             chHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCC
Q 010355          154 RMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEES  233 (512)
Q Consensus       154 R~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~  233 (512)
                      |..-+.++...+..... ++.|.|+-++|||||++.+.......     .++++.........-+.+..           
T Consensus        22 ~~~~~~~l~~~~~~~~~-i~~i~GpR~~GKTtll~~l~~~~~~~-----~iy~~~~d~~~~~~~l~d~~-----------   84 (398)
T COG1373          22 RRKLLPRLIKKLDLRPF-IILILGPRQVGKTTLLKLLIKGLLEE-----IIYINFDDLRLDRIELLDLL-----------   84 (398)
T ss_pred             HHhhhHHHHhhcccCCc-EEEEECCccccHHHHHHHHHhhCCcc-----eEEEEecchhcchhhHHHHH-----------
Confidence            44555666666654433 99999999999999997766655422     45554332211111111111           


Q ss_pred             chHHHHHHHHHHhCCCeEEEEEeCCCChhhhhhhCCCCC--CCCeEEEEEeCCcchh-----ccccCCccceecCCCCHH
Q 010355          234 ESGRARKLCERLKKEKKILVILDDIWTNLDLENVGIPFG--VRGCRVLMTARSQDVL-----SSKMDCQNNFLIGVLNES  306 (512)
Q Consensus       234 ~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~~~~l~~~~~--~~gs~iivTtR~~~v~-----~~~~~~~~~~~l~~L~~~  306 (512)
                           ..+...-. .++.+|+||.|.....|....-.+.  ++. +|++|+-+....     ....+....+.+-||+..
T Consensus        85 -----~~~~~~~~-~~~~yifLDEIq~v~~W~~~lk~l~d~~~~-~v~itgsss~ll~~~~~~~L~GR~~~~~l~PlSF~  157 (398)
T COG1373          85 -----RAYIELKE-REKSYIFLDEIQNVPDWERALKYLYDRGNL-DVLITGSSSSLLSKEISESLAGRGKDLELYPLSFR  157 (398)
T ss_pred             -----HHHHHhhc-cCCceEEEecccCchhHHHHHHHHHccccc-eEEEECCchhhhccchhhhcCCCceeEEECCCCHH
Confidence                 11111111 2668999999999988877532222  333 788888776543     223455678999999999


Q ss_pred             HHHHH
Q 010355          307 EARDL  311 (512)
Q Consensus       307 ea~~L  311 (512)
                      |...+
T Consensus       158 Efl~~  162 (398)
T COG1373         158 EFLKL  162 (398)
T ss_pred             HHHhh
Confidence            98764

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=97.85  E-value=0.00085  Score=65.64  Aligned_cols=170  Identities=16%  Similarity=0.161  Sum_probs=96.4

Q ss_pred             HHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCC----------------eEEEEEeCCCCCHHHHHH
Q 010355          157 TLNDVINALKNPDV-HMIGAYGMAGVGKTMLVKEVARQAKADKLFD----------------EVVYAEVSQRPDVKKIQG  219 (512)
Q Consensus       157 ~l~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~----------------~~~wv~~~~~~~~~~ll~  219 (512)
                      ..+.|...+..++. +.+.++|+.|+||+++|..++...--.....                -..|+.......      
T Consensus        12 ~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~~~~c~~c~~~~~g~HPD~~~i~~~p~~~------   85 (319)
T PRK08769         12 AYDQTVAALDAGRLGHGLLICGPEGLGKRAVALALAEHVLASGPDPAAAQRTRQLIAAGTHPDLQLVSFIPNRT------   85 (319)
T ss_pred             HHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHhCCCCCCCCcchHHHHHhcCCCCCEEEEecCCCcc------
Confidence            35566666665554 5689999999999999999987653211110                012221000000      


Q ss_pred             HHHHHhCCCCCCCCchHHHHHHHHHHh----CCCeEEEEEeCCCCh--hh----hhhhCCCCCCCCeEEEEEeCCcc-hh
Q 010355          220 QIADKLGLKFYEESESGRARKLCERLK----KEKKILVILDDIWTN--LD----LENVGIPFGVRGCRVLMTARSQD-VL  288 (512)
Q Consensus       220 ~i~~~l~~~~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~----~~~l~~~~~~~gs~iivTtR~~~-v~  288 (512)
                            +......-..+.+..+.+.+.    .+++-++|||++...  ..    +..+--|  ..++.+|++|.+.. +.
T Consensus        86 ------~~k~~~~I~idqIR~l~~~~~~~p~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEP--p~~~~fiL~~~~~~~lL  157 (319)
T PRK08769         86 ------GDKLRTEIVIEQVREISQKLALTPQYGIAQVVIVDPADAINRAACNALLKTLEEP--SPGRYLWLISAQPARLP  157 (319)
T ss_pred             ------cccccccccHHHHHHHHHHHhhCcccCCcEEEEeccHhhhCHHHHHHHHHHhhCC--CCCCeEEEEECChhhCc
Confidence                  000000001223333444332    245679999998744  22    2333233  45676777776543 33


Q ss_pred             ccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHH
Q 010355          289 SSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIA  347 (512)
Q Consensus       289 ~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia  347 (512)
                      ....+....+.+.+++.+++...+... +   ..   ...+..++..++|.|+.+..+.
T Consensus       158 pTIrSRCq~i~~~~~~~~~~~~~L~~~-~---~~---~~~a~~~~~l~~G~p~~A~~~~  209 (319)
T PRK08769        158 ATIRSRCQRLEFKLPPAHEALAWLLAQ-G---VS---ERAAQEALDAARGHPGLAAQWL  209 (319)
T ss_pred             hHHHhhheEeeCCCcCHHHHHHHHHHc-C---CC---hHHHHHHHHHcCCCHHHHHHHh
Confidence            333455578899999999999888754 1   11   1235678999999998765443

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

Probab=97.85  E-value=0.0012  Score=61.01  Aligned_cols=187  Identities=17%  Similarity=0.180  Sum_probs=109.0

Q ss_pred             HHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEe-CCCCCHHHHHHHHHHHhCCCCCCCCch
Q 010355          157 TLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEV-SQRPDVKKIQGQIADKLGLKFYEESES  235 (512)
Q Consensus       157 ~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~-~~~~~~~~ll~~i~~~l~~~~~~~~~~  235 (512)
                      .+..+...+ ..+.+++.|+|.-|+|||.+.+.+.......    .++-+.+ .+..+...+...++..+..++. ....
T Consensus        39 ~l~~l~~~i-~d~qg~~~vtGevGsGKTv~~Ral~~s~~~d----~~~~v~i~~~~~s~~~~~~ai~~~l~~~p~-~~~~  112 (269)
T COG3267          39 ALLMLHAAI-ADGQGILAVTGEVGSGKTVLRRALLASLNED----QVAVVVIDKPTLSDATLLEAIVADLESQPK-VNVN  112 (269)
T ss_pred             HHHHHHHHH-hcCCceEEEEecCCCchhHHHHHHHHhcCCC----ceEEEEecCcchhHHHHHHHHHHHhccCcc-chhH
Confidence            344444333 3455799999999999999999555544321    1121333 3456778888888888876322 2211


Q ss_pred             ----HHHHHHHHHHhCCCe-EEEEEeCCCCh--hhhhhhCCCCC--CCC---eEEEEEeCCcc-------hhccccCCcc
Q 010355          236 ----GRARKLCERLKKEKK-ILVILDDIWTN--LDLENVGIPFG--VRG---CRVLMTARSQD-------VLSSKMDCQN  296 (512)
Q Consensus       236 ----~~~~~l~~~l~~~k~-~LlVlDdv~~~--~~~~~l~~~~~--~~g---s~iivTtR~~~-------v~~~~~~~~~  296 (512)
                          .....+....+++++ ..+++|+....  ..++.++...+  ..+   -+|+.....+-       +.........
T Consensus       113 ~~~e~~~~~L~al~~~g~r~v~l~vdEah~L~~~~le~Lrll~nl~~~~~~~l~ivL~Gqp~L~~~lr~~~l~e~~~R~~  192 (269)
T COG3267         113 AVLEQIDRELAALVKKGKRPVVLMVDEAHDLNDSALEALRLLTNLEEDSSKLLSIVLIGQPKLRPRLRLPVLRELEQRID  192 (269)
T ss_pred             HHHHHHHHHHHHHHHhCCCCeEEeehhHhhhChhHHHHHHHHHhhcccccCceeeeecCCcccchhhchHHHHhhhheEE
Confidence                122334444455666 99999998643  33433322111  111   22333322211       0010111223


Q ss_pred             c-eecCCCCHHHHHHHHHHHhCCCCCCch--hHHHHHHHHHHcCCChhHHHHHHHH
Q 010355          297 N-FLIGVLNESEARDLFKKLVGDKIENND--LKSLAMNIVKACRGLPIAIVTIARA  349 (512)
Q Consensus       297 ~-~~l~~L~~~ea~~Lf~~~~~~~~~~~~--~~~~~~~I~~~~~GlPLai~~ia~~  349 (512)
                      + |.+.|++.++...++..++.....+..  ..+....|.....|.|.+|..++..
T Consensus       193 ir~~l~P~~~~~t~~yl~~~Le~a~~~~~l~~~~a~~~i~~~sqg~P~lin~~~~~  248 (269)
T COG3267         193 IRIELPPLTEAETGLYLRHRLEGAGLPEPLFSDDALLLIHEASQGIPRLINNLATL  248 (269)
T ss_pred             EEEecCCcChHHHHHHHHHHHhccCCCcccCChhHHHHHHHHhccchHHHHHHHHH
Confidence            3 999999999999999888753322211  2356778999999999999888754

>PRK08116 hypothetical protein; Validated

Probab=97.84  E-value=7.8e-05  Score=71.45  Aligned_cols=100  Identities=18%  Similarity=0.207  Sum_probs=59.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCe
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKK  250 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~  250 (512)
                      ..+.|+|.+|+|||.||..+++....+  ...+++++      ..+++..+........     ......+.+.+..  -
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~l~~~--~~~v~~~~------~~~ll~~i~~~~~~~~-----~~~~~~~~~~l~~--~  179 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANELIEK--GVPVIFVN------FPQLLNRIKSTYKSSG-----KEDENEIIRSLVN--A  179 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHc--CCeEEEEE------HHHHHHHHHHHHhccc-----cccHHHHHHHhcC--C
Confidence            458899999999999999999988643  34566665      3445555554432211     1112334455543  2


Q ss_pred             EEEEEeCCC--Chhhhhh--hCCCCC---CCCeEEEEEeCCc
Q 010355          251 ILVILDDIW--TNLDLEN--VGIPFG---VRGCRVLMTARSQ  285 (512)
Q Consensus       251 ~LlVlDdv~--~~~~~~~--l~~~~~---~~gs~iivTtR~~  285 (512)
                      =||||||+.  ....|..  +...+.   ..+..+||||...
T Consensus       180 dlLviDDlg~e~~t~~~~~~l~~iin~r~~~~~~~IiTsN~~  221 (268)
T PRK08116        180 DLLILDDLGAERDTEWAREKVYNIIDSRYRKGLPTIVTTNLS  221 (268)
T ss_pred             CEEEEecccCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence            389999994  2223322  111111   4566788988754

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

Probab=97.83  E-value=0.00067  Score=69.53  Aligned_cols=129  Identities=19%  Similarity=0.320  Sum_probs=82.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCC
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKE  248 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  248 (512)
                      ...-|.+||++|+|||-||++|++.....       |+++..+    +++..-   +|      .....+..++++-+..
T Consensus       544 ~PsGvLL~GPPGCGKTLlAKAVANEag~N-------FisVKGP----ELlNkY---VG------ESErAVR~vFqRAR~s  603 (802)
T KOG0733|consen  544 APSGVLLCGPPGCGKTLLAKAVANEAGAN-------FISVKGP----ELLNKY---VG------ESERAVRQVFQRARAS  603 (802)
T ss_pred             CCCceEEeCCCCccHHHHHHHHhhhccCc-------eEeecCH----HHHHHH---hh------hHHHHHHHHHHHhhcC
Confidence            35668899999999999999999988743       4665543    222211   11      2234566777777778


Q ss_pred             CeEEEEEeCCCChh-------------hhhhhCCCC----CCCCeEEEEEeCCcchh-c---cccCCccceecCCCCHHH
Q 010355          249 KKILVILDDIWTNL-------------DLENVGIPF----GVRGCRVLMTARSQDVL-S---SKMDCQNNFLIGVLNESE  307 (512)
Q Consensus       249 k~~LlVlDdv~~~~-------------~~~~l~~~~----~~~gs~iivTtR~~~v~-~---~~~~~~~~~~l~~L~~~e  307 (512)
                      -+|+|+||.++...             ..+++..-+    ...|.-||-.|..+.+. .   +...-...+.+..-+.++
T Consensus       604 aPCVIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPDiIDpAiLRPGRlDk~LyV~lPn~~e  683 (802)
T KOG0733|consen  604 APCVIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGLEERRGVYVIAATNRPDIIDPAILRPGRLDKLLYVGLPNAEE  683 (802)
T ss_pred             CCeEEEecchhhcCcccCCCCchhHHHHHHHHHHHhcccccccceEEEeecCCCcccchhhcCCCccCceeeecCCCHHH
Confidence            89999999986331             122321111    14566677766655543 1   111223567777778888


Q ss_pred             HHHHHHHHhC
Q 010355          308 ARDLFKKLVG  317 (512)
Q Consensus       308 a~~Lf~~~~~  317 (512)
                      -..+++....
T Consensus       684 R~~ILK~~tk  693 (802)
T KOG0733|consen  684 RVAILKTITK  693 (802)
T ss_pred             HHHHHHHHhc
Confidence            8899988876

>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=97.83  E-value=3.5e-05  Score=65.32  Aligned_cols=68  Identities=22%  Similarity=0.288  Sum_probs=40.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCC-eE
Q 010355          173 IGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEK-KI  251 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k-~~  251 (512)
                      |.|+|++|+|||++|+.+++....     .++.++.+...+.               ........+..+........ +.
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~~-----~~~~i~~~~~~~~---------------~~~~~~~~i~~~~~~~~~~~~~~   60 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLGF-----PFIEIDGSELISS---------------YAGDSEQKIRDFFKKAKKSAKPC   60 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTTS-----EEEEEETTHHHTS---------------STTHHHHHHHHHHHHHHHTSTSE
T ss_pred             CEEECcCCCCeeHHHHHHHhhccc-----ccccccccccccc---------------cccccccccccccccccccccce
Confidence            579999999999999999998752     2344443321100               11111222333334433333 89


Q ss_pred             EEEEeCCCC
Q 010355          252 LVILDDIWT  260 (512)
Q Consensus       252 LlVlDdv~~  260 (512)
                      +|+|||++.
T Consensus        61 vl~iDe~d~   69 (132)
T PF00004_consen   61 VLFIDEIDK   69 (132)
T ss_dssp             EEEEETGGG
T ss_pred             eeeeccchh
Confidence            999999953

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 ....

>TIGR00763 lon ATP-dependent protease La

Probab=97.82  E-value=0.002  Score=71.45  Aligned_cols=155  Identities=22%  Similarity=0.216  Sum_probs=81.3

Q ss_pred             ccccchHHHHHHHHHhc------CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHH
Q 010355          150 AFESRMSTLNDVINALK------NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIAD  223 (512)
Q Consensus       150 ~~~gR~~~l~~l~~~L~------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~  223 (512)
                      .++|.+...+.|..++.      ..+.+++.++|++|+|||++|+.+++....  .|.   -++++...+...+...   
T Consensus       321 ~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~l~~--~~~---~i~~~~~~~~~~i~g~---  392 (775)
T TIGR00763       321 DHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKALNR--KFV---RFSLGGVRDEAEIRGH---  392 (775)
T ss_pred             hcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHHhcC--CeE---EEeCCCcccHHHHcCC---
Confidence            46688888888777654      223468999999999999999999988752  232   2233332222222110   


Q ss_pred             HhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChhh---------hhhhCC--------------CCCCCCeEEEE
Q 010355          224 KLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNLD---------LENVGI--------------PFGVRGCRVLM  280 (512)
Q Consensus       224 ~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~---------~~~l~~--------------~~~~~gs~iiv  280 (512)
                        ...............+. .... ++-+|+||.++....         +-.+.-              +....+..+|.
T Consensus       393 --~~~~~g~~~g~i~~~l~-~~~~-~~~villDEidk~~~~~~~~~~~aLl~~ld~~~~~~f~d~~~~~~~d~s~v~~I~  468 (775)
T TIGR00763       393 --RRTYVGAMPGRIIQGLK-KAKT-KNPLFLLDEIDKIGSSFRGDPASALLEVLDPEQNNAFSDHYLDVPFDLSKVIFIA  468 (775)
T ss_pred             --CCceeCCCCchHHHHHH-HhCc-CCCEEEEechhhcCCccCCCHHHHHHHhcCHHhcCccccccCCceeccCCEEEEE
Confidence              00000011111122222 2222 334789999864311         111100              00112344555


Q ss_pred             EeCCcchh-ccccCCccceecCCCCHHHHHHHHHHHh
Q 010355          281 TARSQDVL-SSKMDCQNNFLIGVLNESEARDLFKKLV  316 (512)
Q Consensus       281 TtR~~~v~-~~~~~~~~~~~l~~L~~~ea~~Lf~~~~  316 (512)
                      ||...... ........++.+.+++.++-.+++.+++
T Consensus       469 TtN~~~~i~~~L~~R~~vi~~~~~~~~e~~~I~~~~l  505 (775)
T TIGR00763       469 TANSIDTIPRPLLDRMEVIELSGYTEEEKLEIAKKYL  505 (775)
T ss_pred             ecCCchhCCHHHhCCeeEEecCCCCHHHHHHHHHHHH
Confidence            55443221 2223444688999999998888887654

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.

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=97.80  E-value=0.0017  Score=63.70  Aligned_cols=171  Identities=13%  Similarity=0.124  Sum_probs=94.6

Q ss_pred             HHHHHHHhcCCC-ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhC-----CCC--
Q 010355          158 LNDVINALKNPD-VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLG-----LKF--  229 (512)
Q Consensus       158 l~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~-----~~~--  229 (512)
                      -+.|...+..++ .+.+.++|+.|+||+++|..++...--......       ..++.-..-+.+...-.     +.+  
T Consensus        11 ~~~l~~~~~~~rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~-------~~Cg~C~sC~~~~~g~HPD~~~i~p~~   83 (325)
T PRK06871         11 YQQITQAFQQGLGHHALLFKADSGLGTEQLIRALAQWLMCQTPQGD-------QPCGQCHSCHLFQAGNHPDFHILEPID   83 (325)
T ss_pred             HHHHHHHHHcCCcceeEEeECCCCCCHHHHHHHHHHHHcCCCCCCC-------CCCCCCHHHHHHhcCCCCCEEEEcccc
Confidence            345666666554 477889999999999999999887532111100       00000000011100000     000  


Q ss_pred             CCCCchHHHHHHHHHHh----CCCeEEEEEeCCCCh--hhhhh----hCCCCCCCCeEEEEEeCCcc-hhccccCCccce
Q 010355          230 YEESESGRARKLCERLK----KEKKILVILDDIWTN--LDLEN----VGIPFGVRGCRVLMTARSQD-VLSSKMDCQNNF  298 (512)
Q Consensus       230 ~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~----l~~~~~~~gs~iivTtR~~~-v~~~~~~~~~~~  298 (512)
                      ...-..+.+..+.+.+.    .+++-++|+|++...  ...+.    +--|  .+++.+|++|.+.. +.....+....+
T Consensus        84 ~~~I~id~iR~l~~~~~~~~~~g~~KV~iI~~a~~m~~~AaNaLLKtLEEP--p~~~~fiL~t~~~~~llpTI~SRC~~~  161 (325)
T PRK06871         84 NKDIGVDQVREINEKVSQHAQQGGNKVVYIQGAERLTEAAANALLKTLEEP--RPNTYFLLQADLSAALLPTIYSRCQTW  161 (325)
T ss_pred             CCCCCHHHHHHHHHHHhhccccCCceEEEEechhhhCHHHHHHHHHHhcCC--CCCeEEEEEECChHhCchHHHhhceEE
Confidence            00011223334444432    256678889999754  22333    3233  45677777776653 333334455789


Q ss_pred             ecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHH
Q 010355          299 LIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAI  343 (512)
Q Consensus       299 ~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai  343 (512)
                      .+.+++.+++.+.+.......      ...+...+..++|.|+.+
T Consensus       162 ~~~~~~~~~~~~~L~~~~~~~------~~~~~~~~~l~~g~p~~A  200 (325)
T PRK06871        162 LIHPPEEQQALDWLQAQSSAE------ISEILTALRINYGRPLLA  200 (325)
T ss_pred             eCCCCCHHHHHHHHHHHhccC------hHHHHHHHHHcCCCHHHH
Confidence            999999999999888764211      113556788999999644

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

Probab=97.76  E-value=0.00046  Score=73.49  Aligned_cols=168  Identities=20%  Similarity=0.256  Sum_probs=104.5

Q ss_pred             hHHHHHHHHHhcCC---------CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHh
Q 010355          155 MSTLNDVINALKNP---------DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKL  225 (512)
Q Consensus       155 ~~~l~~l~~~L~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l  225 (512)
                      ..++.+++..|.++         -++-+.|+|++|+|||-||++++-...+-       |++++..    +    +...+
T Consensus       320 K~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEAgVP-------F~svSGS----E----FvE~~  384 (774)
T KOG0731|consen  320 KEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEAGVP-------FFSVSGS----E----FVEMF  384 (774)
T ss_pred             HHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhcccCCc-------eeeechH----H----HHHHh
Confidence            45677777777743         25778899999999999999999877643       4455432    1    11111


Q ss_pred             CCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCCh-----------------hhhhhhCCCCC----CCCeEEEEEeCC
Q 010355          226 GLKFYEESESGRARKLCERLKKEKKILVILDDIWTN-----------------LDLENVGIPFG----VRGCRVLMTARS  284 (512)
Q Consensus       226 ~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~-----------------~~~~~l~~~~~----~~gs~iivTtR~  284 (512)
                      ..     .....+..++...+...+++|.+|.+...                 ..++++..-..    ..+..+|-+|..
T Consensus       385 ~g-----~~asrvr~lf~~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~~~~vi~~a~tnr  459 (774)
T KOG0731|consen  385 VG-----VGASRVRDLFPLARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFETSKGVIVLAATNR  459 (774)
T ss_pred             cc-----cchHHHHHHHHHhhccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCcCCCcEEEEeccCC
Confidence            11     11334566777777778999999987532                 12333321111    334455556666


Q ss_pred             cchhcc----ccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHH
Q 010355          285 QDVLSS----KMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAI  343 (512)
Q Consensus       285 ~~v~~~----~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai  343 (512)
                      ..+.+.    ...-...+.+..-+.....++|.-++.......+...+.+ |+..+.|++=|.
T Consensus       460 ~d~ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~~~~~e~~dl~~-~a~~t~gf~gad  521 (774)
T KOG0731|consen  460 PDILDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKKKLDDEDVDLSK-LASLTPGFSGAD  521 (774)
T ss_pred             ccccCHHhcCCCccccceeccCCchhhhHHHHHHHhhccCCCcchhhHHH-HHhcCCCCcHHH
Confidence            655421    1122357788888888889999988865444344455665 888888887553

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

Probab=97.76  E-value=0.0019  Score=71.02  Aligned_cols=156  Identities=18%  Similarity=0.232  Sum_probs=88.5

Q ss_pred             cccccchHHHHHHHHHhc------CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHH
Q 010355          149 EAFESRMSTLNDVINALK------NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIA  222 (512)
Q Consensus       149 ~~~~gR~~~l~~l~~~L~------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~  222 (512)
                      ..++|.+...+.|+.+|.      .....+++++|++|+||||+++.++.....  .|   +-++++...+...+...-.
T Consensus       322 ~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~l~~--~~---~~i~~~~~~d~~~i~g~~~  396 (784)
T PRK10787        322 TDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKATGR--KY---VRMALGGVRDEAEIRGHRR  396 (784)
T ss_pred             hhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHHhCC--CE---EEEEcCCCCCHHHhccchh
Confidence            447788888888988776      234578999999999999999999987652  23   2233444333332221110


Q ss_pred             HHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChhh---------hhhh--------------CCCCCCCCeEEE
Q 010355          223 DKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNLD---------LENV--------------GIPFGVRGCRVL  279 (512)
Q Consensus       223 ~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~---------~~~l--------------~~~~~~~gs~ii  279 (512)
                      ...|.     ......+.+. .... .+-+|+||.+.....         +-.+              ..++...+..+|
T Consensus       397 ~~~g~-----~~G~~~~~l~-~~~~-~~~villDEidk~~~~~~g~~~~aLlevld~~~~~~~~d~~~~~~~dls~v~~i  469 (784)
T PRK10787        397 TYIGS-----MPGKLIQKMA-KVGV-KNPLFLLDEIDKMSSDMRGDPASALLEVLDPEQNVAFSDHYLEVDYDLSDVMFV  469 (784)
T ss_pred             ccCCC-----CCcHHHHHHH-hcCC-CCCEEEEEChhhcccccCCCHHHHHHHHhccccEEEEecccccccccCCceEEE
Confidence            01110     1111122222 1111 334788999853211         1111              112223455566


Q ss_pred             EEeCCcchhccccCCccceecCCCCHHHHHHHHHHHh
Q 010355          280 MTARSQDVLSSKMDCQNNFLIGVLNESEARDLFKKLV  316 (512)
Q Consensus       280 vTtR~~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~  316 (512)
                      .|+....+.........++.+.+++.++-.++.++++
T Consensus       470 ~TaN~~~i~~aLl~R~~ii~~~~~t~eek~~Ia~~~L  506 (784)
T PRK10787        470 ATSNSMNIPAPLLDRMEVIRLSGYTEDEKLNIAKRHL  506 (784)
T ss_pred             EcCCCCCCCHHHhcceeeeecCCCCHHHHHHHHHHhh
Confidence            6765554433334555789999999999988887765

>PHA00729 NTP-binding motif containing protein

Probab=97.73  E-value=0.00025  Score=65.24  Aligned_cols=36  Identities=28%  Similarity=0.375  Sum_probs=29.2

Q ss_pred             HHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          160 DVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       160 ~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .++..+...+...|.|+|.+|+||||||..+++...
T Consensus         7 ~~~~~l~~~~f~nIlItG~pGvGKT~LA~aLa~~l~   42 (226)
T PHA00729          7 KIVSAYNNNGFVSAVIFGKQGSGKTTYALKVARDVF   42 (226)
T ss_pred             HHHHHHhcCCeEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            345555666677899999999999999999998753

>PRK10536 hypothetical protein; Provisional

Probab=97.71  E-value=0.00053  Score=64.16  Aligned_cols=55  Identities=25%  Similarity=0.309  Sum_probs=41.1

Q ss_pred             ccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEE
Q 010355          148 YEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVV  204 (512)
Q Consensus       148 ~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~  204 (512)
                      ..++.+|......++.++.+.  ..+.+.|++|+|||+||..++...-....|..++
T Consensus        54 ~~~i~p~n~~Q~~~l~al~~~--~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIi  108 (262)
T PRK10536         54 TSPILARNEAQAHYLKAIESK--QLIFATGEAGCGKTWISAAKAAEALIHKDVDRII  108 (262)
T ss_pred             CccccCCCHHHHHHHHHHhcC--CeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEE
Confidence            445678888888888888764  5999999999999999999888532223354443

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.70  E-value=0.00092  Score=73.77  Aligned_cols=171  Identities=16%  Similarity=0.225  Sum_probs=94.1

Q ss_pred             ccccccchHHHHHHHHHhc-------------CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCH
Q 010355          148 YEAFESRMSTLNDVINALK-------------NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDV  214 (512)
Q Consensus       148 ~~~~~gR~~~l~~l~~~L~-------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  214 (512)
                      ...+.|.+...+.|.+.+.             -...+-+.++|++|+|||+||+.+++....  .|     +.+...   
T Consensus       452 ~~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~~~--~f-----i~v~~~---  521 (733)
T TIGR01243       452 WSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGA--NF-----IAVRGP---  521 (733)
T ss_pred             hhhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCC--CE-----EEEehH---
Confidence            3445566665555544432             123456889999999999999999987652  22     222211   


Q ss_pred             HHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh--------------hhhhhCC---CC-CCCCe
Q 010355          215 KKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL--------------DLENVGI---PF-GVRGC  276 (512)
Q Consensus       215 ~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~--------------~~~~l~~---~~-~~~gs  276 (512)
                       ++    +...    . ......+..++.......+++|+||++....              ....+..   .. ...+.
T Consensus       522 -~l----~~~~----v-Gese~~i~~~f~~A~~~~p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~~~~~~v  591 (733)
T TIGR01243       522 -EI----LSKW----V-GESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQELSNV  591 (733)
T ss_pred             -HH----hhcc----c-CcHHHHHHHHHHHHHhcCCEEEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhcccCCCCE
Confidence             11    1110    0 1112234555555555678999999985321              0111111   01 13455


Q ss_pred             EEEEEeCCcchhc-ccc---CCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCCh
Q 010355          277 RVLMTARSQDVLS-SKM---DCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLP  340 (512)
Q Consensus       277 ~iivTtR~~~v~~-~~~---~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlP  340 (512)
                      .||.||....... ...   .-...+.+++.+.++-.++|+.+.......+..  -...|++.|.|.-
T Consensus       592 ~vI~aTn~~~~ld~allRpgRfd~~i~v~~Pd~~~R~~i~~~~~~~~~~~~~~--~l~~la~~t~g~s  657 (733)
T TIGR01243       592 VVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSMPLAEDV--DLEELAEMTEGYT  657 (733)
T ss_pred             EEEEeCCChhhCCHhhcCCCccceEEEeCCcCHHHHHHHHHHHhcCCCCCccC--CHHHHHHHcCCCC
Confidence            5666775544321 111   234678888889998899998766433222211  1356777787754

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.

>PRK12608 transcription termination factor Rho; Provisional

Probab=97.70  E-value=0.00041  Score=68.48  Aligned_cols=101  Identities=14%  Similarity=0.227  Sum_probs=66.7

Q ss_pred             HHHHHHhcC-CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCe-EEEEEeCCC-CCHHHHHHHHHHHhCCCCCCCCch
Q 010355          159 NDVINALKN-PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDE-VVYAEVSQR-PDVKKIQGQIADKLGLKFYEESES  235 (512)
Q Consensus       159 ~~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~-~~wv~~~~~-~~~~~ll~~i~~~l~~~~~~~~~~  235 (512)
                      .++++.+.. +.-.-+.|+|.+|+|||||++.+++..... +-+. ++|+.+.+. ..+.++++.+...+..........
T Consensus       121 ~RvID~l~PiGkGQR~LIvG~pGtGKTTLl~~la~~i~~~-~~dv~~vv~lIgER~~EV~df~~~i~~~Vvast~de~~~  199 (380)
T PRK12608        121 MRVVDLVAPIGKGQRGLIVAPPRAGKTVLLQQIAAAVAAN-HPEVHLMVLLIDERPEEVTDMRRSVKGEVYASTFDRPPD  199 (380)
T ss_pred             HhhhhheeecCCCceEEEECCCCCCHHHHHHHHHHHHHhc-CCCceEEEEEecCCCCCHHHHHHHHhhhEEeecCCCCHH
Confidence            446666662 233567999999999999999999877543 2333 467777654 477888888888776543222211


Q ss_pred             H------HHHHHHHHH-hCCCeEEEEEeCCCC
Q 010355          236 G------RARKLCERL-KKEKKILVILDDIWT  260 (512)
Q Consensus       236 ~------~~~~l~~~l-~~~k~~LlVlDdv~~  260 (512)
                      .      ....+.+++ ..+++.+||+|++..
T Consensus       200 ~~~~v~~~~~~~Ae~f~~~GkdVVLvlDsltr  231 (380)
T PRK12608        200 EHIRVAELVLERAKRLVEQGKDVVILLDSLTR  231 (380)
T ss_pred             HHHHHHHHHHHHHHHHHHcCCCEEEEEeCcHH
Confidence            1      222333333 358999999999953

>PRK08939 primosomal protein DnaI; Reviewed

Probab=97.69  E-value=0.0028  Score=61.92  Aligned_cols=114  Identities=17%  Similarity=0.194  Sum_probs=67.1

Q ss_pred             cchHHHHHHHHHhcC----CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCC
Q 010355          153 SRMSTLNDVINALKN----PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLK  228 (512)
Q Consensus       153 gR~~~l~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~  228 (512)
                      +|...+.....++..    ...+-+.|+|..|+|||.||..+++....+  -..+.+++++      .++..+....+..
T Consensus       135 ~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~Aia~~l~~~--g~~v~~~~~~------~l~~~lk~~~~~~  206 (306)
T PRK08939        135 DRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAAIANELAKK--GVSSTLLHFP------EFIRELKNSISDG  206 (306)
T ss_pred             HHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHHHHHHHHHHHHHc--CCCEEEEEHH------HHHHHHHHHHhcC
Confidence            455555555555542    234679999999999999999999988632  2345566543      4555555444211


Q ss_pred             CCCCCchHHHHHHHHHHhCCCeEEEEEeCCCC--hhhhhh--hCCCC-C---CCCeEEEEEeCC
Q 010355          229 FYEESESGRARKLCERLKKEKKILVILDDIWT--NLDLEN--VGIPF-G---VRGCRVLMTARS  284 (512)
Q Consensus       229 ~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~--~~~~~~--l~~~~-~---~~gs~iivTtR~  284 (512)
                              ......+.+.  +.=||||||+..  ...|..  +..+. .   ..+..+|+||..
T Consensus       207 --------~~~~~l~~l~--~~dlLiIDDiG~e~~s~~~~~~ll~~Il~~R~~~~~~ti~TSNl  260 (306)
T PRK08939        207 --------SVKEKIDAVK--EAPVLMLDDIGAEQMSSWVRDEVLGVILQYRMQEELPTFFTSNF  260 (306)
T ss_pred             --------cHHHHHHHhc--CCCEEEEecCCCccccHHHHHHHHHHHHHHHHHCCCeEEEECCC
Confidence                    1233444554  467999999953  233432  21111 1   244567777764

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

Probab=97.69  E-value=0.00065  Score=62.51  Aligned_cols=170  Identities=17%  Similarity=0.275  Sum_probs=98.6

Q ss_pred             ccccccchHHHHH---HHHHhcCC------CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHH
Q 010355          148 YEAFESRMSTLND---VINALKNP------DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQ  218 (512)
Q Consensus       148 ~~~~~gR~~~l~~---l~~~L~~~------~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll  218 (512)
                      ...++|.+....+   |+..|.++      .++-|..+|++|.|||.+|+++++...+-  |     +.+..    .++ 
T Consensus       120 ~ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~kvp--~-----l~vka----t~l-  187 (368)
T COG1223         120 LDDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAKVP--L-----LLVKA----TEL-  187 (368)
T ss_pred             HhhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcccCCc--e-----EEech----HHH-
Confidence            3456777665443   56666643      46889999999999999999999887642  2     22211    111 


Q ss_pred             HHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCCh--------------hhhhhhCCCC----CCCCeEEEE
Q 010355          219 GQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTN--------------LDLENVGIPF----GVRGCRVLM  280 (512)
Q Consensus       219 ~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--------------~~~~~l~~~~----~~~gs~iiv  280 (512)
                        |-..+|      .....+..+.++...--+|+++||.++..              +..+.+..-+    .+.|...|.
T Consensus       188 --iGehVG------dgar~Ihely~rA~~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~eneGVvtIa  259 (368)
T COG1223         188 --IGEHVG------DGARRIHELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEGVVTIA  259 (368)
T ss_pred             --HHHHhh------hHHHHHHHHHHHHHhcCCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccCCceEEEe
Confidence              111121      23345667777776668999999988532              1122221111    156666666


Q ss_pred             EeCCcchhccccC--CccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCC
Q 010355          281 TARSQDVLSSKMD--CQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGL  339 (512)
Q Consensus       281 TtR~~~v~~~~~~--~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~Gl  339 (512)
                      .|.+...+.....  -...|+...-+.++-..++..++..-..+-  ..-.+.++++.+|+
T Consensus       260 aTN~p~~LD~aiRsRFEeEIEF~LP~~eEr~~ile~y~k~~Plpv--~~~~~~~~~~t~g~  318 (368)
T COG1223         260 ATNRPELLDPAIRSRFEEEIEFKLPNDEERLEILEYYAKKFPLPV--DADLRYLAAKTKGM  318 (368)
T ss_pred             ecCChhhcCHHHHhhhhheeeeeCCChHHHHHHHHHHHHhCCCcc--ccCHHHHHHHhCCC
Confidence            6666554421111  123566666678888888888774221111  11245666777775

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

Probab=97.68  E-value=0.0012  Score=65.97  Aligned_cols=180  Identities=17%  Similarity=0.163  Sum_probs=102.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCC
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKE  248 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  248 (512)
                      ....+.|||..|.|||.|++++++.......-..+++++      .......++..+..        ......++.. + 
T Consensus       112 ~~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~------se~f~~~~v~a~~~--------~~~~~Fk~~y-~-  175 (408)
T COG0593         112 AYNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLT------SEDFTNDFVKALRD--------NEMEKFKEKY-S-  175 (408)
T ss_pred             cCCcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEecc------HHHHHHHHHHHHHh--------hhHHHHHHhh-c-
Confidence            367899999999999999999999887432222455542      33444444433321        1233334333 2 


Q ss_pred             CeEEEEEeCCCChh---hhhh-hC---CCCCCCCeEEEEEeCCcchh--------ccccCCccceecCCCCHHHHHHHHH
Q 010355          249 KKILVILDDIWTNL---DLEN-VG---IPFGVRGCRVLMTARSQDVL--------SSKMDCQNNFLIGVLNESEARDLFK  313 (512)
Q Consensus       249 k~~LlVlDdv~~~~---~~~~-l~---~~~~~~gs~iivTtR~~~v~--------~~~~~~~~~~~l~~L~~~ea~~Lf~  313 (512)
                       -=++++||++-..   .++. +.   ..+...|-.||+|++..+-.        ...+....++.+.|.+.+....++.
T Consensus       176 -~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~~~~rL~SR~~~Gl~~~I~~Pd~e~r~aiL~  254 (408)
T COG0593         176 -LDLLLIDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSDRPPKELNGLEDRLRSRLEWGLVVEIEPPDDETRLAILR  254 (408)
T ss_pred             -cCeeeechHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcCCCchhhccccHHHHHHHhceeEEeeCCCCHHHHHHHHH
Confidence             2388999996431   1111 11   11224455899998754321        1123445789999999999999999


Q ss_pred             HHhCCC--CCCchhHHHHHHHHHHcCCC----hhHHHHHHHHhc--cC--CHHHHHHHHHHhcCC
Q 010355          314 KLVGDK--IENNDLKSLAMNIVKACRGL----PIAIVTIARALR--NK--NTFEWKSALRELTRP  368 (512)
Q Consensus       314 ~~~~~~--~~~~~~~~~~~~I~~~~~Gl----PLai~~ia~~L~--~~--~~~~w~~~l~~l~~~  368 (512)
                      +.+...  ..++   ++..-|++.....    .=|+..+..+-.  ++  +...-+.+|+.+...
T Consensus       255 kka~~~~~~i~~---ev~~~la~~~~~nvReLegaL~~l~~~a~~~~~~iTi~~v~e~L~~~~~~  316 (408)
T COG0593         255 KKAEDRGIEIPD---EVLEFLAKRLDRNVRELEGALNRLDAFALFTKRAITIDLVKEILKDLLRA  316 (408)
T ss_pred             HHHHhcCCCCCH---HHHHHHHHHhhccHHHHHHHHHHHHHHHHhcCccCcHHHHHHHHHHhhcc
Confidence            876422  2222   3444444444333    334433333322  22  677777777775543

>PRK12377 putative replication protein; Provisional

Probab=97.67  E-value=0.00016  Score=68.18  Aligned_cols=74  Identities=20%  Similarity=0.249  Sum_probs=48.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCC
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKE  248 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  248 (512)
                      +...+.|+|.+|+|||+||..+++.....  ...++++++.      +++..|-......       .....+.+.+.  
T Consensus       100 ~~~~l~l~G~~GtGKThLa~AIa~~l~~~--g~~v~~i~~~------~l~~~l~~~~~~~-------~~~~~~l~~l~--  162 (248)
T PRK12377        100 GCTNFVFSGKPGTGKNHLAAAIGNRLLAK--GRSVIVVTVP------DVMSRLHESYDNG-------QSGEKFLQELC--  162 (248)
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHHHHHHc--CCCeEEEEHH------HHHHHHHHHHhcc-------chHHHHHHHhc--
Confidence            34678999999999999999999988643  3445666543      4555554333110       11223455553  


Q ss_pred             CeEEEEEeCCC
Q 010355          249 KKILVILDDIW  259 (512)
Q Consensus       249 k~~LlVlDdv~  259 (512)
                      +.-||||||+.
T Consensus       163 ~~dLLiIDDlg  173 (248)
T PRK12377        163 KVDLLVLDEIG  173 (248)
T ss_pred             CCCEEEEcCCC
Confidence            46799999993

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=97.67  E-value=0.0055  Score=59.95  Aligned_cols=159  Identities=12%  Similarity=0.109  Sum_probs=93.8

Q ss_pred             HHHHHHHhcCCC-ceEEEEEcCCCCcHHHHHHHHHHhhhhcC-------------------CCCeEEEEEeCCCCCHHHH
Q 010355          158 LNDVINALKNPD-VHMIGAYGMAGVGKTMLVKEVARQAKADK-------------------LFDEVVYAEVSQRPDVKKI  217 (512)
Q Consensus       158 l~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~-------------------~f~~~~wv~~~~~~~~~~l  217 (512)
                      .++|...+..++ .+.+.++|+.|+||+++|..++...--.+                   |.| ..|+.-...      
T Consensus        12 ~~~l~~~~~~~rl~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~~~Cg~C~sC~~~~~g~HPD-~~~i~p~~~------   84 (319)
T PRK06090         12 WQNWKAGLDAGRIPGALLLQSDEGLGVESLVELFSRALLCQNYQSEACGFCHSCELMQSGNHPD-LHVIKPEKE------   84 (319)
T ss_pred             HHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHcCCCCC-EEEEecCcC------
Confidence            455666665444 46889999999999999999987653111                   111 122211100      


Q ss_pred             HHHHHHHhCCCCCCCCchHHHHHHHHHHh----CCCeEEEEEeCCCCh--hhhhh----hCCCCCCCCeEEEEEeCCc-c
Q 010355          218 QGQIADKLGLKFYEESESGRARKLCERLK----KEKKILVILDDIWTN--LDLEN----VGIPFGVRGCRVLMTARSQ-D  286 (512)
Q Consensus       218 l~~i~~~l~~~~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~----l~~~~~~~gs~iivTtR~~-~  286 (512)
                                  ...-..+.+..+.+.+.    .+++-++|++++...  ...+.    +--|  .+++.+|++|.+. .
T Consensus        85 ------------~~~I~vdqiR~l~~~~~~~~~~~~~kV~iI~~ae~m~~~AaNaLLKtLEEP--p~~t~fiL~t~~~~~  150 (319)
T PRK06090         85 ------------GKSITVEQIRQCNRLAQESSQLNGYRLFVIEPADAMNESASNALLKTLEEP--APNCLFLLVTHNQKR  150 (319)
T ss_pred             ------------CCcCCHHHHHHHHHHHhhCcccCCceEEEecchhhhCHHHHHHHHHHhcCC--CCCeEEEEEECChhh
Confidence                        00011122333333332    245668899998744  23333    3233  4566666666654 4


Q ss_pred             hhccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHH
Q 010355          287 VLSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTI  346 (512)
Q Consensus       287 v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~i  346 (512)
                      +.....+....+.+.+++.+++.+.+.....     .    ....+++.++|.|+.+..+
T Consensus       151 lLpTI~SRCq~~~~~~~~~~~~~~~L~~~~~-----~----~~~~~l~l~~G~p~~A~~~  201 (319)
T PRK06090        151 LLPTIVSRCQQWVVTPPSTAQAMQWLKGQGI-----T----VPAYALKLNMGSPLKTLAM  201 (319)
T ss_pred             ChHHHHhcceeEeCCCCCHHHHHHHHHHcCC-----c----hHHHHHHHcCCCHHHHHHH
Confidence            4444455567899999999999998876421     1    1346789999999977554

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=97.67  E-value=0.0016  Score=64.55  Aligned_cols=142  Identities=13%  Similarity=0.108  Sum_probs=83.9

Q ss_pred             cccc-chHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHHhhhhcC--------------------CCCeEEEEE
Q 010355          150 AFES-RMSTLNDVINALKNPDV-HMIGAYGMAGVGKTMLVKEVARQAKADK--------------------LFDEVVYAE  207 (512)
Q Consensus       150 ~~~g-R~~~l~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~--------------------~f~~~~wv~  207 (512)
                      .++| .+..++.|...+..++. +...++|+.|+|||++|..+++..--..                    |.+. .++.
T Consensus         6 ~i~~~q~~~~~~L~~~~~~~~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~~cg~C~~c~~~~~~~hpD~-~~i~   84 (329)
T PRK08058          6 QLTALQPVVVKMLQNSIAKNRLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTNCKRIDSGNHPDV-HLVA   84 (329)
T ss_pred             HHHhhHHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCcCHHHHHHhcCCCCCE-EEec
Confidence            3455 66677777777776554 5669999999999999999988753211                    1111 1111


Q ss_pred             e-CCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHh----CCCeEEEEEeCCCCh--hhhhh----hCCCCCCCCe
Q 010355          208 V-SQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLK----KEKKILVILDDIWTN--LDLEN----VGIPFGVRGC  276 (512)
Q Consensus       208 ~-~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~----l~~~~~~~gs  276 (512)
                      . +....                     .+.+..+.+.+.    .+++-++|+|++...  ...+.    +--|  ..++
T Consensus        85 ~~~~~i~---------------------id~ir~l~~~~~~~~~~~~~kvviI~~a~~~~~~a~NaLLK~LEEP--p~~~  141 (329)
T PRK08058         85 PDGQSIK---------------------KDQIRYLKEEFSKSGVESNKKVYIIEHADKMTASAANSLLKFLEEP--SGGT  141 (329)
T ss_pred             cccccCC---------------------HHHHHHHHHHHhhCCcccCceEEEeehHhhhCHHHHHHHHHHhcCC--CCCc
Confidence            1 11111                     122333333332    235567899998643  22222    2222  4567


Q ss_pred             EEEEEeCCcc-hhccccCCccceecCCCCHHHHHHHHHHH
Q 010355          277 RVLMTARSQD-VLSSKMDCQNNFLIGVLNESEARDLFKKL  315 (512)
Q Consensus       277 ~iivTtR~~~-v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~  315 (512)
                      .+|++|.+.. +..........+++.+++.++....+.+.
T Consensus       142 ~~Il~t~~~~~ll~TIrSRc~~i~~~~~~~~~~~~~L~~~  181 (329)
T PRK08058        142 TAILLTENKHQILPTILSRCQVVEFRPLPPESLIQRLQEE  181 (329)
T ss_pred             eEEEEeCChHhCcHHHHhhceeeeCCCCCHHHHHHHHHHc
Confidence            7777776543 32333455678999999999998888754

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

Probab=97.65  E-value=0.0021  Score=67.28  Aligned_cols=153  Identities=19%  Similarity=0.266  Sum_probs=86.6

Q ss_pred             ccccccchHHHHHHHHHhc------CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHH
Q 010355          148 YEAFESRMSTLNDVINALK------NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQI  221 (512)
Q Consensus       148 ~~~~~gR~~~l~~l~~~L~------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i  221 (512)
                      ....+|-.+..++|++++.      +.+-++++++|++|+|||++|+.++.....+  |   +-++++.-.+..++-..=
T Consensus       410 deDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~ALnRk--F---fRfSvGG~tDvAeIkGHR  484 (906)
T KOG2004|consen  410 DEDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARALNRK--F---FRFSVGGMTDVAEIKGHR  484 (906)
T ss_pred             cccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHhCCc--e---EEEeccccccHHhhcccc
Confidence            3456788888899988875      3456899999999999999999999987632  3   234555555444332100


Q ss_pred             HHHhCCCCCCCCchHHHHHHHHHHhC--CCeEEEEEeCCCCh---------hhhhhh--------------CCCCCCCCe
Q 010355          222 ADKLGLKFYEESESGRARKLCERLKK--EKKILVILDDIWTN---------LDLENV--------------GIPFGVRGC  276 (512)
Q Consensus       222 ~~~l~~~~~~~~~~~~~~~l~~~l~~--~k~~LlVlDdv~~~---------~~~~~l--------------~~~~~~~gs  276 (512)
                      -..+      .....   ++.+.|+.  -.+-|+.||.|+..         ..+-.+              -.|+.  =|
T Consensus       485 RTYV------GAMPG---kiIq~LK~v~t~NPliLiDEvDKlG~g~qGDPasALLElLDPEQNanFlDHYLdVp~D--LS  553 (906)
T KOG2004|consen  485 RTYV------GAMPG---KIIQCLKKVKTENPLILIDEVDKLGSGHQGDPASALLELLDPEQNANFLDHYLDVPVD--LS  553 (906)
T ss_pred             eeee------ccCCh---HHHHHHHhhCCCCceEEeehhhhhCCCCCCChHHHHHHhcChhhccchhhhccccccc--hh
Confidence            0000      11111   23333321  23568888888532         111111              11211  24


Q ss_pred             EEEEEeCCcch---hccccCCccceecCCCCHHHHHHHHHHHh
Q 010355          277 RVLMTARSQDV---LSSKMDCQNNFLIGVLNESEARDLFKKLV  316 (512)
Q Consensus       277 ~iivTtR~~~v---~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~  316 (512)
                      +|++.+.-..+   .......-.+|.|.+-..+|-..+-.+++
T Consensus       554 kVLFicTAN~idtIP~pLlDRMEvIelsGYv~eEKv~IA~~yL  596 (906)
T KOG2004|consen  554 KVLFICTANVIDTIPPPLLDRMEVIELSGYVAEEKVKIAERYL  596 (906)
T ss_pred             heEEEEeccccccCChhhhhhhheeeccCccHHHHHHHHHHhh
Confidence            55543322211   12223455688898888888777776655

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=97.65  E-value=0.00053  Score=76.20  Aligned_cols=105  Identities=16%  Similarity=0.190  Sum_probs=59.2

Q ss_pred             cccccchHHHHHHHHHhc-------C--CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHH
Q 010355          149 EAFESRMSTLNDVINALK-------N--PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQG  219 (512)
Q Consensus       149 ~~~~gR~~~l~~l~~~L~-------~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~  219 (512)
                      ..++|.+..+..+...+.       .  ....++.++|++|+|||.||+.++...-..  ....+-++++.....    .
T Consensus       566 ~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~~~--~~~~~~~dmse~~~~----~  639 (852)
T TIGR03345       566 ERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELLYGG--EQNLITINMSEFQEA----H  639 (852)
T ss_pred             CeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHHhCC--CcceEEEeHHHhhhh----h
Confidence            456788888888887764       1  123578999999999999999998876321  222333333321111    1


Q ss_pred             HHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCC
Q 010355          220 QIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWT  260 (512)
Q Consensus       220 ~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~  260 (512)
                      .+.+-+|.++.-... .....+.+.+++....+|+||++..
T Consensus       640 ~~~~l~g~~~gyvg~-~~~g~L~~~v~~~p~svvllDEiek  679 (852)
T TIGR03345       640 TVSRLKGSPPGYVGY-GEGGVLTEAVRRKPYSVVLLDEVEK  679 (852)
T ss_pred             hhccccCCCCCcccc-cccchHHHHHHhCCCcEEEEechhh
Confidence            111112222111110 1112344555555678999999963

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.

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=97.65  E-value=0.0016  Score=62.31  Aligned_cols=55  Identities=24%  Similarity=0.257  Sum_probs=35.9

Q ss_pred             HHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHH
Q 010355          157 TLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQ  218 (512)
Q Consensus       157 ~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll  218 (512)
                      .++++..++..+  +.|.|.|++|+|||+||+.++....     ...+++++.......+++
T Consensus        10 l~~~~l~~l~~g--~~vLL~G~~GtGKT~lA~~la~~lg-----~~~~~i~~~~~~~~~dll   64 (262)
T TIGR02640        10 VTSRALRYLKSG--YPVHLRGPAGTGKTTLAMHVARKRD-----RPVMLINGDAELTTSDLV   64 (262)
T ss_pred             HHHHHHHHHhcC--CeEEEEcCCCCCHHHHHHHHHHHhC-----CCEEEEeCCccCCHHHHh
Confidence            345555555543  4567999999999999999987442     123455555555544443

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).

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

Probab=97.64  E-value=0.00021  Score=74.64  Aligned_cols=155  Identities=19%  Similarity=0.240  Sum_probs=89.6

Q ss_pred             cccccchHHHHHHHHHhc------CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHH
Q 010355          149 EAFESRMSTLNDVINALK------NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIA  222 (512)
Q Consensus       149 ~~~~gR~~~l~~l~~~L~------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~  222 (512)
                      ...+|-++..++|++.|.      .-.-++++++|++|+|||+|++.++.....+  |   +-++++.-.+..++-..=-
T Consensus       323 ~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al~Rk--f---vR~sLGGvrDEAEIRGHRR  397 (782)
T COG0466         323 KDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKALGRK--F---VRISLGGVRDEAEIRGHRR  397 (782)
T ss_pred             ccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHhCCC--E---EEEecCccccHHHhccccc
Confidence            456788899999998886      2345899999999999999999999988733  4   2344554444333211000


Q ss_pred             HHhCCCCCCCCchH-HHHHHHHHHhCCCeEEEEEeCCCCh---------hhhhh--------------hCCCCCCCCeEE
Q 010355          223 DKLGLKFYEESESG-RARKLCERLKKEKKILVILDDIWTN---------LDLEN--------------VGIPFGVRGCRV  278 (512)
Q Consensus       223 ~~l~~~~~~~~~~~-~~~~l~~~l~~~k~~LlVlDdv~~~---------~~~~~--------------l~~~~~~~gs~i  278 (512)
                      ..+      .+... .++.+.+ .. .++=|++||.++..         ..+-.              +-.++.-....+
T Consensus       398 TYI------GamPGrIiQ~mkk-a~-~~NPv~LLDEIDKm~ss~rGDPaSALLEVLDPEQN~~F~DhYLev~yDLS~VmF  469 (782)
T COG0466         398 TYI------GAMPGKIIQGMKK-AG-VKNPVFLLDEIDKMGSSFRGDPASALLEVLDPEQNNTFSDHYLEVPYDLSKVMF  469 (782)
T ss_pred             ccc------ccCChHHHHHHHH-hC-CcCCeEEeechhhccCCCCCChHHHHHhhcCHhhcCchhhccccCccchhheEE
Confidence            000      01111 1222222 22 36678999988532         11111              112222223334


Q ss_pred             EEEeCCcc-hhccccCCccceecCCCCHHHHHHHHHHHh
Q 010355          279 LMTARSQD-VLSSKMDCQNNFLIGVLNESEARDLFKKLV  316 (512)
Q Consensus       279 ivTtR~~~-v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~  316 (512)
                      |.|+.+-. +....+..-.+|++.+-+.+|-.++-++++
T Consensus       470 iaTANsl~tIP~PLlDRMEiI~lsgYt~~EKl~IAk~~L  508 (782)
T COG0466         470 IATANSLDTIPAPLLDRMEVIRLSGYTEDEKLEIAKRHL  508 (782)
T ss_pred             EeecCccccCChHHhcceeeeeecCCChHHHHHHHHHhc
Confidence            44444433 323335566799999999999888877765

>CHL00195 ycf46 Ycf46; Provisional

Probab=97.62  E-value=0.00078  Score=69.83  Aligned_cols=151  Identities=17%  Similarity=0.191  Sum_probs=80.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCC
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKE  248 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  248 (512)
                      ..+-|.++|++|+|||.+|+.+++.....  |   +-++.+.      ++..   .+|      .....+..++......
T Consensus       258 ~pkGILL~GPpGTGKTllAkaiA~e~~~~--~---~~l~~~~------l~~~---~vG------ese~~l~~~f~~A~~~  317 (489)
T CHL00195        258 TPRGLLLVGIQGTGKSLTAKAIANDWQLP--L---LRLDVGK------LFGG---IVG------ESESRMRQMIRIAEAL  317 (489)
T ss_pred             CCceEEEECCCCCcHHHHHHHHHHHhCCC--E---EEEEhHH------hccc---ccC------hHHHHHHHHHHHHHhc
Confidence            35678999999999999999999876531  2   2222211      1100   001      1112333444444445


Q ss_pred             CeEEEEEeCCCChhh--------------hhhhCCCC--CCCCeEEEEEeCCcchhc----cccCCccceecCCCCHHHH
Q 010355          249 KKILVILDDIWTNLD--------------LENVGIPF--GVRGCRVLMTARSQDVLS----SKMDCQNNFLIGVLNESEA  308 (512)
Q Consensus       249 k~~LlVlDdv~~~~~--------------~~~l~~~~--~~~gs~iivTtR~~~v~~----~~~~~~~~~~l~~L~~~ea  308 (512)
                      .+++|+||+++....              +..+...+  ...+..||.||.......    +...-...+.++.-+.++-
T Consensus       318 ~P~IL~IDEID~~~~~~~~~~d~~~~~rvl~~lL~~l~~~~~~V~vIaTTN~~~~Ld~allR~GRFD~~i~v~lP~~~eR  397 (489)
T CHL00195        318 SPCILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLSEKKSPVFVVATANNIDLLPLEILRKGRFDEIFFLDLPSLEER  397 (489)
T ss_pred             CCcEEEehhhhhhhccccCCCCchHHHHHHHHHHHHHhcCCCceEEEEecCChhhCCHHHhCCCcCCeEEEeCCcCHHHH
Confidence            789999999863210              00110000  123445666776543221    1112235678888888999


Q ss_pred             HHHHHHHhCCCCCCchhHHHHHHHHHHcCCC
Q 010355          309 RDLFKKLVGDKIENNDLKSLAMNIVKACRGL  339 (512)
Q Consensus       309 ~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~Gl  339 (512)
                      .++|..++...............+++.+.|.
T Consensus       398 ~~Il~~~l~~~~~~~~~~~dl~~La~~T~Gf  428 (489)
T CHL00195        398 EKIFKIHLQKFRPKSWKKYDIKKLSKLSNKF  428 (489)
T ss_pred             HHHHHHHHhhcCCCcccccCHHHHHhhcCCC
Confidence            9999887753221110011245666776665

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=97.59  E-value=0.00046  Score=60.60  Aligned_cols=39  Identities=28%  Similarity=0.426  Sum_probs=30.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCC
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRP  212 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~  212 (512)
                      ++.|+|.+|+||||++..++.....  .-..++|++.....
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~~~--~~~~v~~~~~e~~~   39 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNIAT--KGGKVVYVDIEEEI   39 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHHHh--cCCEEEEEECCcch
Confidence            3689999999999999999988753  34567788776554

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.

>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.57  E-value=0.012  Score=58.79  Aligned_cols=151  Identities=17%  Similarity=0.205  Sum_probs=84.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCe
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKK  250 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~  250 (512)
                      |--.++||+|.|||+++.++++...    |+..- +.++....-.+ ++.++..                      ...+
T Consensus       236 RGYLLYGPPGTGKSS~IaAmAn~L~----ydIyd-LeLt~v~~n~d-Lr~LL~~----------------------t~~k  287 (457)
T KOG0743|consen  236 RGYLLYGPPGTGKSSFIAAMANYLN----YDIYD-LELTEVKLDSD-LRHLLLA----------------------TPNK  287 (457)
T ss_pred             ccceeeCCCCCCHHHHHHHHHhhcC----CceEE-eeeccccCcHH-HHHHHHh----------------------CCCC
Confidence            5678999999999999999998875    54321 22222221112 2222211                      1346


Q ss_pred             EEEEEeCCCChhhhh--------------------hhCC----CCCCC-CeE-EEEEeCCcchh----ccccCCccceec
Q 010355          251 ILVILDDIWTNLDLE--------------------NVGI----PFGVR-GCR-VLMTARSQDVL----SSKMDCQNNFLI  300 (512)
Q Consensus       251 ~LlVlDdv~~~~~~~--------------------~l~~----~~~~~-gs~-iivTtR~~~v~----~~~~~~~~~~~l  300 (512)
                      -+|||.|++...++.                    -|..    ....+ +=| ||+||....-+    .+...-...+.|
T Consensus       288 SIivIEDIDcs~~l~~~~~~~~~~~~~~~~~VTlSGLLNfiDGlwSscg~ERIivFTTNh~EkLDPALlRpGRmDmhI~m  367 (457)
T KOG0743|consen  288 SILLIEDIDCSFDLRERRKKKKENFEGDLSRVTLSGLLNFLDGLWSSCGDERIIVFTTNHKEKLDPALLRPGRMDMHIYM  367 (457)
T ss_pred             cEEEEeecccccccccccccccccccCCcceeehHHhhhhhccccccCCCceEEEEecCChhhcCHhhcCCCcceeEEEc
Confidence            777888875431110                    0100    00122 224 55566654432    111122357889


Q ss_pred             CCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHHHHh-ccC
Q 010355          301 GVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARAL-RNK  353 (512)
Q Consensus       301 ~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~~L-~~~  353 (512)
                      .--+......||.++++....+    .++.+|.+...|.-+.=..++..| .++
T Consensus       368 gyCtf~~fK~La~nYL~~~~~h----~L~~eie~l~~~~~~tPA~V~e~lm~~~  417 (457)
T KOG0743|consen  368 GYCTFEAFKTLASNYLGIEEDH----RLFDEIERLIEETEVTPAQVAEELMKNK  417 (457)
T ss_pred             CCCCHHHHHHHHHHhcCCCCCc----chhHHHHHHhhcCccCHHHHHHHHhhcc
Confidence            9999999999999999754322    345566666666655555555554 344

>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=97.57  E-value=0.00068  Score=63.07  Aligned_cols=36  Identities=25%  Similarity=0.369  Sum_probs=29.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEe
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEV  208 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~  208 (512)
                      -.++|.|.+|+|||||+..+.....  ..|..+++++-
T Consensus        14 fr~viIG~sGSGKT~li~~lL~~~~--~~f~~I~l~t~   49 (241)
T PF04665_consen   14 FRMVIIGKSGSGKTTLIKSLLYYLR--HKFDHIFLITP   49 (241)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHhhc--ccCCEEEEEec
Confidence            3578999999999999999998776  56887777654

This is thought to be an ATPase involved in viral DNA packaging [].

>PRK06921 hypothetical protein; Provisional

Probab=97.56  E-value=0.00031  Score=67.26  Aligned_cols=71  Identities=24%  Similarity=0.300  Sum_probs=45.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCC
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKE  248 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  248 (512)
                      ....+.++|.+|+|||+||..+++....+ ....++|++.      .+++..+...+          .......+.+.  
T Consensus       116 ~~~~l~l~G~~G~GKThLa~aia~~l~~~-~g~~v~y~~~------~~l~~~l~~~~----------~~~~~~~~~~~--  176 (266)
T PRK06921        116 RKNSIALLGQPGSGKTHLLTAAANELMRK-KGVPVLYFPF------VEGFGDLKDDF----------DLLEAKLNRMK--  176 (266)
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHhhh-cCceEEEEEH------HHHHHHHHHHH----------HHHHHHHHHhc--
Confidence            45789999999999999999999987532 1345666654      23333332221          11222334443  


Q ss_pred             CeEEEEEeCC
Q 010355          249 KKILVILDDI  258 (512)
Q Consensus       249 k~~LlVlDdv  258 (512)
                      +-=||||||+
T Consensus       177 ~~dlLiIDDl  186 (266)
T PRK06921        177 KVEVLFIDDL  186 (266)
T ss_pred             CCCEEEEecc
Confidence            3569999999

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

Probab=97.56  E-value=0.0039  Score=61.20  Aligned_cols=29  Identities=21%  Similarity=0.326  Sum_probs=25.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      ..+..++|||++|+|||.+|+.++.....
T Consensus       146 k~PlgllL~GPPGcGKTllAraiA~elg~  174 (413)
T PLN00020        146 KVPLILGIWGGKGQGKSFQCELVFKKMGI  174 (413)
T ss_pred             CCCeEEEeeCCCCCCHHHHHHHHHHHcCC
Confidence            45688999999999999999999998764

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

Probab=97.55  E-value=0.00071  Score=69.74  Aligned_cols=189  Identities=13%  Similarity=0.142  Sum_probs=111.3

Q ss_pred             ccCccccccchHHHHHHHHHhcCCC-ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPD-VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIAD  223 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~  223 (512)
                      |.....++|.+.....|...+..++ .+...+.|+-|+||||+|+-++...--.+      | ....++..-..-+.|..
T Consensus        12 P~~F~evvGQe~v~~~L~nal~~~ri~hAYlfsG~RGvGKTt~Ari~AkalNC~~------~-~~~ePC~~C~~Ck~I~~   84 (515)
T COG2812          12 PKTFDDVVGQEHVVKTLSNALENGRIAHAYLFSGPRGVGKTTIARILAKALNCEN------G-PTAEPCGKCISCKEINE   84 (515)
T ss_pred             cccHHHhcccHHHHHHHHHHHHhCcchhhhhhcCCCCcCchhHHHHHHHHhcCCC------C-CCCCcchhhhhhHhhhc
Confidence            3445677999999999999888554 46778899999999999999988653211      0 11112222222222221


Q ss_pred             HhCCC-----CCCCCchHHHHHHHHHHh----CCCeEEEEEeCCCCh--hhhhhhCCCCC--CCCeEEEEEeCCc-chhc
Q 010355          224 KLGLK-----FYEESESGRARKLCERLK----KEKKILVILDDIWTN--LDLENVGIPFG--VRGCRVLMTARSQ-DVLS  289 (512)
Q Consensus       224 ~l~~~-----~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~--~~gs~iivTtR~~-~v~~  289 (512)
                      .-...     .-.....+.+..+.+...    .+|.-+.|+|.|...  ..|+.+.-.+-  ..+..+|+.|+.. .+..
T Consensus        85 g~~~DviEiDaASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATTe~~Kip~  164 (515)
T COG2812          85 GSLIDVIEIDAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEPQKIPN  164 (515)
T ss_pred             CCcccchhhhhhhccChHHHHHHHHHhccCCccccceEEEEecHHhhhHHHHHHHhcccccCccCeEEEEecCCcCcCch
Confidence            10000     001122334455555543    356669999999754  45665532222  4456666655544 4444


Q ss_pred             cccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChh
Q 010355          290 SKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPI  341 (512)
Q Consensus       290 ~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPL  341 (512)
                      ...+....|.++.|+.++-...+...+......- .......|.+...|...
T Consensus       165 TIlSRcq~f~fkri~~~~I~~~L~~i~~~E~I~~-e~~aL~~ia~~a~Gs~R  215 (515)
T COG2812         165 TILSRCQRFDFKRLDLEEIAKHLAAILDKEGINI-EEDALSLIARAAEGSLR  215 (515)
T ss_pred             hhhhccccccccCCCHHHHHHHHHHHHHhcCCcc-CHHHHHHHHHHcCCChh
Confidence            4456678999999999999888888775332211 13445566666666443

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.53  E-value=0.0012  Score=72.82  Aligned_cols=171  Identities=18%  Similarity=0.236  Sum_probs=91.6

Q ss_pred             ccccccchHHHHHHHHHhc-------------CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCH
Q 010355          148 YEAFESRMSTLNDVINALK-------------NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDV  214 (512)
Q Consensus       148 ~~~~~gR~~~l~~l~~~L~-------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  214 (512)
                      ...+.|.+..++.|.+++.             -...+.+.|+|++|+|||+||+.+++....  .|   +.++.+     
T Consensus       177 ~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~~~--~~---i~i~~~-----  246 (733)
T TIGR01243       177 YEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGA--YF---ISINGP-----  246 (733)
T ss_pred             HHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHhCC--eE---EEEecH-----
Confidence            4457788888888776653             123467889999999999999999987642  12   223221     


Q ss_pred             HHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh-------------hhhhhC---CCCCCCCeEE
Q 010355          215 KKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL-------------DLENVG---IPFGVRGCRV  278 (512)
Q Consensus       215 ~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~-------------~~~~l~---~~~~~~gs~i  278 (512)
                       .+..    ..     .......+..+++......+.+|+||++....             ....+.   -.+...+..+
T Consensus       247 -~i~~----~~-----~g~~~~~l~~lf~~a~~~~p~il~iDEid~l~~~r~~~~~~~~~~~~~~Ll~~ld~l~~~~~vi  316 (733)
T TIGR01243       247 -EIMS----KY-----YGESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRGRVI  316 (733)
T ss_pred             -HHhc----cc-----ccHHHHHHHHHHHHHHhcCCcEEEeehhhhhcccccCCcchHHHHHHHHHHHHhhccccCCCEE
Confidence             1110    00     00112233444444444567899999985321             011111   1111233334


Q ss_pred             EE-EeCCcchh-c---cccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCCh
Q 010355          279 LM-TARSQDVL-S---SKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLP  340 (512)
Q Consensus       279 iv-TtR~~~v~-~---~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlP  340 (512)
                      +| ||...... .   ....-...+.+...+.++-.+++............  .....+++.+.|..
T Consensus       317 vI~atn~~~~ld~al~r~gRfd~~i~i~~P~~~~R~~Il~~~~~~~~l~~d--~~l~~la~~t~G~~  381 (733)
T TIGR01243       317 VIGATNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTRNMPLAED--VDLDKLAEVTHGFV  381 (733)
T ss_pred             EEeecCChhhcCHHHhCchhccEEEEeCCcCHHHHHHHHHHHhcCCCCccc--cCHHHHHHhCCCCC
Confidence            44 44433211 1   00011246778888888888888866543222111  12456777777764

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.

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

Probab=97.53  E-value=0.0051  Score=64.00  Aligned_cols=132  Identities=14%  Similarity=0.248  Sum_probs=74.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhC
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKK  247 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~  247 (512)
                      ...+-|.++|++|+|||++|+.+++.....  |     ++++..    +++...   .      ......+..++..-++
T Consensus       466 ~ppkGVLlyGPPGC~KT~lAkalAne~~~n--F-----lsvkgp----EL~sk~---v------GeSEr~ir~iF~kAR~  525 (693)
T KOG0730|consen  466 SPPKGVLLYGPPGCGKTLLAKALANEAGMN--F-----LSVKGP----ELFSKY---V------GESERAIREVFRKARQ  525 (693)
T ss_pred             CCCceEEEECCCCcchHHHHHHHhhhhcCC--e-----eeccCH----HHHHHh---c------CchHHHHHHHHHHHhh
Confidence            457889999999999999999999987643  3     443322    111111   1      1122234455555555


Q ss_pred             CCeEEEEEeCCCChh-------------hhhhhCCCCC----CCCeEEEEEeCCcchh-ccccC---CccceecCCCCHH
Q 010355          248 EKKILVILDDIWTNL-------------DLENVGIPFG----VRGCRVLMTARSQDVL-SSKMD---CQNNFLIGVLNES  306 (512)
Q Consensus       248 ~k~~LlVlDdv~~~~-------------~~~~l~~~~~----~~gs~iivTtR~~~v~-~~~~~---~~~~~~l~~L~~~  306 (512)
                      --+++|.||.++...             .+..+..-..    ..+.-||-.|..+... ...+.   -...+.+++-+.+
T Consensus       526 ~aP~IiFfDEiDsi~~~R~g~~~~v~~RVlsqLLtEmDG~e~~k~V~ViAATNRpd~ID~ALlRPGRlD~iiyVplPD~~  605 (693)
T KOG0730|consen  526 VAPCIIFFDEIDALAGSRGGSSSGVTDRVLSQLLTEMDGLEALKNVLVIAATNRPDMIDPALLRPGRLDRIIYVPLPDLE  605 (693)
T ss_pred             cCCeEEehhhHHhHhhccCCCccchHHHHHHHHHHHcccccccCcEEEEeccCChhhcCHHHcCCcccceeEeecCccHH
Confidence            567999999886431             1222211111    2233344333333222 11222   3467778777778


Q ss_pred             HHHHHHHHHhCCC
Q 010355          307 EARDLFKKLVGDK  319 (512)
Q Consensus       307 ea~~Lf~~~~~~~  319 (512)
                      .-.++|+.++..-
T Consensus       606 aR~~Ilk~~~kkm  618 (693)
T KOG0730|consen  606 ARLEILKQCAKKM  618 (693)
T ss_pred             HHHHHHHHHHhcC
Confidence            8889999888543

>PRK08118 topology modulation protein; Reviewed

Probab=97.52  E-value=5.7e-05  Score=67.01  Aligned_cols=35  Identities=20%  Similarity=0.392  Sum_probs=28.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhc-CCCCeEEE
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKAD-KLFDEVVY  205 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~-~~f~~~~w  205 (512)
                      +-|.|+|++|+||||||+.+++..... -+|+..+|
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~   37 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFW   37 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCCceecchhhc
Confidence            358999999999999999999987643 34676776

>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=97.52  E-value=0.0016  Score=57.35  Aligned_cols=133  Identities=15%  Similarity=0.173  Sum_probs=73.1

Q ss_pred             cchHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHHhhhhcCC------------------CCeEEEEEeCCC--
Q 010355          153 SRMSTLNDVINALKNPDV-HMIGAYGMAGVGKTMLVKEVARQAKADKL------------------FDEVVYAEVSQR--  211 (512)
Q Consensus       153 gR~~~l~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~------------------f~~~~wv~~~~~--  211 (512)
                      |.+..++.|...+..+.. +.+.++|+.|+||+++|..+++..--...                  ..-+.|+.-...  
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            455667777777776664 56899999999999999999887532211                  122344433322  


Q ss_pred             -CCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCCh--hhhhhh----CCCCCCCCeEEEEEeCC
Q 010355          212 -PDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTN--LDLENV----GIPFGVRGCRVLMTARS  284 (512)
Q Consensus       212 -~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~l----~~~~~~~gs~iivTtR~  284 (512)
                       ....++. .+...+.....                .+++-++|||++...  ...+.+    --|  ..++++|++|++
T Consensus        81 ~i~i~~ir-~i~~~~~~~~~----------------~~~~KviiI~~ad~l~~~a~NaLLK~LEep--p~~~~fiL~t~~  141 (162)
T PF13177_consen   81 SIKIDQIR-EIIEFLSLSPS----------------EGKYKVIIIDEADKLTEEAQNALLKTLEEP--PENTYFILITNN  141 (162)
T ss_dssp             SBSHHHHH-HHHHHCTSS-T----------------TSSSEEEEEETGGGS-HHHHHHHHHHHHST--TTTEEEEEEES-
T ss_pred             hhhHHHHH-HHHHHHHHHHh----------------cCCceEEEeehHhhhhHHHHHHHHHHhcCC--CCCEEEEEEECC
Confidence             2333322 44333332211                235678999999753  333333    223  468888888887


Q ss_pred             cch-hccccCCccceecCCCC
Q 010355          285 QDV-LSSKMDCQNNFLIGVLN  304 (512)
Q Consensus       285 ~~v-~~~~~~~~~~~~l~~L~  304 (512)
                      ... ..........+.+.+|+
T Consensus       142 ~~~il~TI~SRc~~i~~~~ls  162 (162)
T PF13177_consen  142 PSKILPTIRSRCQVIRFRPLS  162 (162)
T ss_dssp             GGGS-HHHHTTSEEEEE----
T ss_pred             hHHChHHHHhhceEEecCCCC
Confidence            653 23233444567776664

...

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=97.51  E-value=0.0045  Score=61.28  Aligned_cols=160  Identities=14%  Similarity=0.140  Sum_probs=94.7

Q ss_pred             HHHHHHHhcCCC-ceEEEEEcCCCCcHHHHHHHHHHhhhhcC--------------------CCCeEEEEEeCCCCCHHH
Q 010355          158 LNDVINALKNPD-VHMIGAYGMAGVGKTMLVKEVARQAKADK--------------------LFDEVVYAEVSQRPDVKK  216 (512)
Q Consensus       158 l~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~--------------------~f~~~~wv~~~~~~~~~~  216 (512)
                      -++|...+..++ .+.+.++|+.|+||+++|..++...--..                    |.| +.++.-...     
T Consensus        11 ~~~l~~~~~~~rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~~Cg~C~sC~~~~~g~HPD-~~~i~p~~~-----   84 (334)
T PRK07993         11 YEQLVGSYQAGRGHHALLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGHCRGCQLMQAGTHPD-YYTLTPEKG-----   84 (334)
T ss_pred             HHHHHHHHHcCCcceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCC-EEEEecccc-----
Confidence            456666666544 57888999999999999999888753111                    111 111111000     


Q ss_pred             HHHHHHHHhCCCCCCCCchHHHHHHHHHHh----CCCeEEEEEeCCCCh--hh----hhhhCCCCCCCCeEEEEEeCCcc
Q 010355          217 IQGQIADKLGLKFYEESESGRARKLCERLK----KEKKILVILDDIWTN--LD----LENVGIPFGVRGCRVLMTARSQD  286 (512)
Q Consensus       217 ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~----~~~l~~~~~~~gs~iivTtR~~~  286 (512)
                                   ...-..+.+..+.+.+.    .+++-++|+|+++..  ..    +..+--|  ..++.+|++|.+..
T Consensus        85 -------------~~~I~idqiR~l~~~~~~~~~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEP--p~~t~fiL~t~~~~  149 (334)
T PRK07993         85 -------------KSSLGVDAVREVTEKLYEHARLGGAKVVWLPDAALLTDAAANALLKTLEEP--PENTWFFLACREPA  149 (334)
T ss_pred             -------------cccCCHHHHHHHHHHHhhccccCCceEEEEcchHhhCHHHHHHHHHHhcCC--CCCeEEEEEECChh
Confidence                         00011223334444432    356779999998643  22    2333333  45677777766543


Q ss_pred             -hhccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHH
Q 010355          287 -VLSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIV  344 (512)
Q Consensus       287 -v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~  344 (512)
                       +.....+....+.+.+++.+++...+....+   .+   ...+..++..++|.|....
T Consensus       150 ~lLpTIrSRCq~~~~~~~~~~~~~~~L~~~~~---~~---~~~a~~~~~la~G~~~~Al  202 (334)
T PRK07993        150 RLLATLRSRCRLHYLAPPPEQYALTWLSREVT---MS---QDALLAALRLSAGAPGAAL  202 (334)
T ss_pred             hChHHHHhccccccCCCCCHHHHHHHHHHccC---CC---HHHHHHHHHHcCCCHHHHH
Confidence             4333344556889999999999988865432   11   2236678999999997443

>PRK09354 recA recombinase A; Provisional

Probab=97.49  E-value=0.00041  Score=68.19  Aligned_cols=83  Identities=17%  Similarity=0.220  Sum_probs=55.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC------CCCchHHHHHHHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFY------EESESGRARKLCE  243 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~------~~~~~~~~~~l~~  243 (512)
                      -+++-|+|++|+|||||+.+++.....  .-..++|++....+++.     .++++|....      ..+.......+..
T Consensus        60 G~IteI~G~~GsGKTtLal~~~~~~~~--~G~~~~yId~E~s~~~~-----~a~~lGvdld~lli~qp~~~Eq~l~i~~~  132 (349)
T PRK09354         60 GRIVEIYGPESSGKTTLALHAIAEAQK--AGGTAAFIDAEHALDPV-----YAKKLGVDIDNLLVSQPDTGEQALEIADT  132 (349)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHH--cCCcEEEECCccchHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHHHH
Confidence            478999999999999999998877653  24678899887776652     4555554321      1122223333333


Q ss_pred             HHhCCCeEEEEEeCCC
Q 010355          244 RLKKEKKILVILDDIW  259 (512)
Q Consensus       244 ~l~~~k~~LlVlDdv~  259 (512)
                      .++.+..-|||+|.|-
T Consensus       133 li~s~~~~lIVIDSva  148 (349)
T PRK09354        133 LVRSGAVDLIVVDSVA  148 (349)
T ss_pred             HhhcCCCCEEEEeChh
Confidence            3445667899999985

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=97.49  E-value=0.00052  Score=63.40  Aligned_cols=86  Identities=20%  Similarity=0.208  Sum_probs=53.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHh-C---CC---CCCCCc---hHHHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKL-G---LK---FYEESE---SGRAR  239 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l-~---~~---~~~~~~---~~~~~  239 (512)
                      -.++.|+|++|+|||+|+.+++.....  ....++|++... +++..+.+. +... .   ..   ....+.   ...+.
T Consensus        12 g~i~~i~G~~GsGKT~l~~~~~~~~~~--~g~~v~yi~~e~-~~~~rl~~~-~~~~~~~~~~~i~~~~~~~~~~~~~~~~   87 (209)
T TIGR02237        12 GTITQIYGPPGSGKTNICMILAVNAAR--QGKKVVYIDTEG-LSPERFKQI-AEDRPERALSNFIVFEVFDFDEQGVAIQ   87 (209)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHh--CCCeEEEEECCC-CCHHHHHHH-HHhChHHHhcCEEEEECCCHHHHHHHHH
Confidence            478999999999999999999877653  256789999876 555554443 2221 0   00   000111   11234


Q ss_pred             HHHHHHhCCCeEEEEEeCCC
Q 010355          240 KLCERLKKEKKILVILDDIW  259 (512)
Q Consensus       240 ~l~~~l~~~k~~LlVlDdv~  259 (512)
                      .+...+...+.-+||+|.+.
T Consensus        88 ~l~~~~~~~~~~lvVIDSis  107 (209)
T TIGR02237        88 KTSKFIDRDSASLVVVDSFT  107 (209)
T ss_pred             HHHHHHhhcCccEEEEeCcH
Confidence            44444444456789999884

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

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

Probab=97.47  E-value=0.0012  Score=72.60  Aligned_cols=102  Identities=20%  Similarity=0.239  Sum_probs=58.7

Q ss_pred             ccccchHHHHHHHHHhcC-------C--CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHH
Q 010355          150 AFESRMSTLNDVINALKN-------P--DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQ  220 (512)
Q Consensus       150 ~~~gR~~~l~~l~~~L~~-------~--~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~  220 (512)
                      .++|.+..++.|...+..       .  ...++.++|++|+|||+||+.++....     ...+.++.+.......    
T Consensus       455 ~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l~-----~~~~~~d~se~~~~~~----  525 (731)
T TIGR02639       455 KIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEALG-----VHLERFDMSEYMEKHT----  525 (731)
T ss_pred             ceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHhc-----CCeEEEeCchhhhccc----
Confidence            456777777777766651       1  234688999999999999999998763     2345555544222111    


Q ss_pred             HHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCCh
Q 010355          221 IADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTN  261 (512)
Q Consensus       221 i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~  261 (512)
                      +...+|.+..-. .......+.+.++.....+|+||+++..
T Consensus       526 ~~~lig~~~gyv-g~~~~~~l~~~~~~~p~~VvllDEieka  565 (731)
T TIGR02639       526 VSRLIGAPPGYV-GFEQGGLLTEAVRKHPHCVLLLDEIEKA  565 (731)
T ss_pred             HHHHhcCCCCCc-ccchhhHHHHHHHhCCCeEEEEechhhc
Confidence            111222221111 1111223445555445679999999743

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=97.47  E-value=0.0017  Score=62.07  Aligned_cols=168  Identities=20%  Similarity=0.200  Sum_probs=102.2

Q ss_pred             ccccccchHHHHHHHHHhc----CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCC-HHHHHHHHH
Q 010355          148 YEAFESRMSTLNDVINALK----NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPD-VKKIQGQIA  222 (512)
Q Consensus       148 ~~~~~gR~~~l~~l~~~L~----~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~-~~~ll~~i~  222 (512)
                      ...++|-.++-..|-.|+.    .+....+.|+|+.|+|||+|......+.+  ..-...+-|.+.+..- -+-.++.|.
T Consensus        23 ~~~l~g~~~~~~~l~~~lkqt~~~gEsnsviiigprgsgkT~li~~~Ls~~q--~~~E~~l~v~Lng~~~~dk~al~~I~  100 (408)
T KOG2228|consen   23 HINLFGVQDEQKHLSELLKQTILHGESNSVIIIGPRGSGKTILIDTRLSDIQ--ENGENFLLVRLNGELQTDKIALKGIT  100 (408)
T ss_pred             CcceeehHHHHHHHHHHHHHHHHhcCCCceEEEccCCCCceEeeHHHHhhHH--hcCCeEEEEEECccchhhHHHHHHHH
Confidence            3457788888777777776    34556788999999999999888777632  2223444555544432 233455555


Q ss_pred             HHhCCCCC-----CCCchHHHHHHHHHHhC-----CCeEEEEEeCCCChhh-------hhh--hCCCCCCCCeEEEEEeC
Q 010355          223 DKLGLKFY-----EESESGRARKLCERLKK-----EKKILVILDDIWTNLD-------LEN--VGIPFGVRGCRVLMTAR  283 (512)
Q Consensus       223 ~~l~~~~~-----~~~~~~~~~~l~~~l~~-----~k~~LlVlDdv~~~~~-------~~~--l~~~~~~~gs~iivTtR  283 (512)
                      .++.....     ..+-.+....+...|..     +.++++|+|.++-...       .+.  +......|-|.|-+|||
T Consensus       101 rql~~e~~~~~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Piciig~Ttr  180 (408)
T KOG2228|consen  101 RQLALELNRIVKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSARAPICIIGVTTR  180 (408)
T ss_pred             HHHHHHHhhhheeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhcCCCeEEEEeecc
Confidence            55533221     12334556777777763     3468888888753211       111  11111255678889999


Q ss_pred             Ccchh------ccccCCccceecCCCCHHHHHHHHHHHhC
Q 010355          284 SQDVL------SSKMDCQNNFLIGVLNESEARDLFKKLVG  317 (512)
Q Consensus       284 ~~~v~------~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~  317 (512)
                      -.-.-      ........++-+++++-.+...++++.+.
T Consensus       181 ld~lE~LEKRVKSRFshr~I~m~~~~~l~~yv~l~r~ll~  220 (408)
T KOG2228|consen  181 LDILELLEKRVKSRFSHRVIFMLPSLPLGDYVDLYRKLLS  220 (408)
T ss_pred             ccHHHHHHHHHHhhcccceeeccCCCChHHHHHHHHHHhc
Confidence            65321      11223334666778899999999998873

>PRK07952 DNA replication protein DnaC; Validated

Probab=97.47  E-value=0.00056  Score=64.32  Aligned_cols=88  Identities=18%  Similarity=0.235  Sum_probs=52.8

Q ss_pred             HHHHHHHHhcC--CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCc
Q 010355          157 TLNDVINALKN--PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESE  234 (512)
Q Consensus       157 ~l~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~  234 (512)
                      .+..+..+..+  .+...+.++|.+|+|||+||..+++.....  -..+++++      ..+++..+-.....  ..   
T Consensus        84 al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~~--g~~v~~it------~~~l~~~l~~~~~~--~~---  150 (244)
T PRK07952         84 ALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLLR--GKSVLIIT------VADIMSAMKDTFSN--SE---  150 (244)
T ss_pred             HHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHhc--CCeEEEEE------HHHHHHHHHHHHhh--cc---
Confidence            34444444432  234578999999999999999999987643  34556664      34555554433320  00   


Q ss_pred             hHHHHHHHHHHhCCCeEEEEEeCCCC
Q 010355          235 SGRARKLCERLKKEKKILVILDDIWT  260 (512)
Q Consensus       235 ~~~~~~l~~~l~~~k~~LlVlDdv~~  260 (512)
                       .....+.+.+.  +.=||||||+..
T Consensus       151 -~~~~~~l~~l~--~~dlLvIDDig~  173 (244)
T PRK07952        151 -TSEEQLLNDLS--NVDLLVIDEIGV  173 (244)
T ss_pred             -ccHHHHHHHhc--cCCEEEEeCCCC
Confidence             11234455554  345889999953

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

Probab=97.46  E-value=0.0023  Score=60.16  Aligned_cols=169  Identities=22%  Similarity=0.270  Sum_probs=91.4

Q ss_pred             cccccchHHHHHHHHHhc----------C--CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHH
Q 010355          149 EAFESRMSTLNDVINALK----------N--PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKK  216 (512)
Q Consensus       149 ~~~~gR~~~l~~l~~~L~----------~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~  216 (512)
                      ..+-|-+...+.|.+...          .  ...+-|.++|++|.||+.||++|+.....       .|++++..    +
T Consensus       133 sDVAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATEAnS-------TFFSvSSS----D  201 (439)
T KOG0739|consen  133 SDVAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEANS-------TFFSVSSS----D  201 (439)
T ss_pred             hhhccchhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHHHHHHhhcCC-------ceEEeehH----H
Confidence            344455555555555432          2  23688999999999999999999976642       23445442    1


Q ss_pred             HHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCCh---------hhhh--------hh-CCCCCCCCeEE
Q 010355          217 IQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTN---------LDLE--------NV-GIPFGVRGCRV  278 (512)
Q Consensus       217 ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~---------~~~~--------~l-~~~~~~~gs~i  278 (512)
                      +...   .+|      ....++..|++..+..|+-+|++|.|...         +.-.        ++ +......|..|
T Consensus       202 LvSK---WmG------ESEkLVknLFemARe~kPSIIFiDEiDslcg~r~enEseasRRIKTEfLVQMqGVG~d~~gvLV  272 (439)
T KOG0739|consen  202 LVSK---WMG------ESEKLVKNLFEMARENKPSIIFIDEIDSLCGSRSENESEASRRIKTEFLVQMQGVGNDNDGVLV  272 (439)
T ss_pred             HHHH---Hhc------cHHHHHHHHHHHHHhcCCcEEEeehhhhhccCCCCCchHHHHHHHHHHHHhhhccccCCCceEE
Confidence            2111   122      12334566666667789999999998632         1111        11 11111455666


Q ss_pred             EEEeCCcchhcccc--CCccceecCCCCHHHHH-HHHHHHhCCCCCCchhHHHHHHHHHHcCCC
Q 010355          279 LMTARSQDVLSSKM--DCQNNFLIGVLNESEAR-DLFKKLVGDKIENNDLKSLAMNIVKACRGL  339 (512)
Q Consensus       279 ivTtR~~~v~~~~~--~~~~~~~l~~L~~~ea~-~Lf~~~~~~~~~~~~~~~~~~~I~~~~~Gl  339 (512)
                      |-.|..+-++....  .-...|.+ ||+...|. .+|.-+++.... .....-.+.+.+++.|.
T Consensus       273 LgATNiPw~LDsAIRRRFekRIYI-PLPe~~AR~~MF~lhlG~tp~-~LT~~d~~eL~~kTeGy  334 (439)
T KOG0739|consen  273 LGATNIPWVLDSAIRRRFEKRIYI-PLPEAHARARMFKLHLGDTPH-VLTEQDFKELARKTEGY  334 (439)
T ss_pred             EecCCCchhHHHHHHHHhhcceec-cCCcHHHhhhhheeccCCCcc-ccchhhHHHHHhhcCCC
Confidence            66676655442111  11123333 35555444 455555553322 22233456777777765

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=97.46  E-value=0.0004  Score=65.94  Aligned_cols=81  Identities=22%  Similarity=0.259  Sum_probs=52.4

Q ss_pred             HHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHH
Q 010355          161 VINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARK  240 (512)
Q Consensus       161 l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~  240 (512)
                      +..++.  +..-+.++|.+|+|||.||.++.+... + .--.+.+++      ..+++..|......       ......
T Consensus        98 ~~~~~~--~~~nl~l~G~~G~GKThLa~Ai~~~l~-~-~g~sv~f~~------~~el~~~Lk~~~~~-------~~~~~~  160 (254)
T COG1484          98 LVEFFE--RGENLVLLGPPGVGKTHLAIAIGNELL-K-AGISVLFIT------APDLLSKLKAAFDE-------GRLEEK  160 (254)
T ss_pred             HHHHhc--cCCcEEEECCCCCcHHHHHHHHHHHHH-H-cCCeEEEEE------HHHHHHHHHHHHhc-------CchHHH
Confidence            334444  567899999999999999999999987 2 233455554      44566666554432       112233


Q ss_pred             HHHHHhCCCeEEEEEeCCCC
Q 010355          241 LCERLKKEKKILVILDDIWT  260 (512)
Q Consensus       241 l~~~l~~~k~~LlVlDdv~~  260 (512)
                      +.+.+.  +-=||||||+-.
T Consensus       161 l~~~l~--~~dlLIiDDlG~  178 (254)
T COG1484         161 LLRELK--KVDLLIIDDIGY  178 (254)
T ss_pred             HHHHhh--cCCEEEEecccC
Confidence            444443  346999999953

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=97.46  E-value=0.006  Score=60.30  Aligned_cols=99  Identities=16%  Similarity=0.227  Sum_probs=59.9

Q ss_pred             HHHHHHHHHh----CCCeEEEEEeCCCCh--hhhhhh----CCCCCCCCeEEEEEeCC-cchhccccCCccceecCCCCH
Q 010355          237 RARKLCERLK----KEKKILVILDDIWTN--LDLENV----GIPFGVRGCRVLMTARS-QDVLSSKMDCQNNFLIGVLNE  305 (512)
Q Consensus       237 ~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l----~~~~~~~gs~iivTtR~-~~v~~~~~~~~~~~~l~~L~~  305 (512)
                      .+..+.+.+.    .+++-++|+|++...  ...+.+    --|  .+++.+|++|.+ ..+.....+....+.+.+++.
T Consensus       116 qiR~l~~~~~~~~~~~~~kV~iI~~ae~m~~~AaNaLLKtLEEP--p~~t~fiL~t~~~~~LLpTI~SRcq~i~~~~~~~  193 (342)
T PRK06964        116 QVRALLDFCGVGTHRGGARVVVLYPAEALNVAAANALLKTLEEP--PPGTVFLLVSARIDRLLPTILSRCRQFPMTVPAP  193 (342)
T ss_pred             HHHHHHHHhccCCccCCceEEEEechhhcCHHHHHHHHHHhcCC--CcCcEEEEEECChhhCcHHHHhcCEEEEecCCCH
Confidence            3444444443    245668889998743  333333    222  456666666555 444433344557899999999


Q ss_pred             HHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHH
Q 010355          306 SEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTI  346 (512)
Q Consensus       306 ~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~i  346 (512)
                      ++..+.+... +  . .+     ...++..++|.|+.+..+
T Consensus       194 ~~~~~~L~~~-~--~-~~-----~~~~l~~~~Gsp~~Al~~  225 (342)
T PRK06964        194 EAAAAWLAAQ-G--V-AD-----ADALLAEAGGAPLAALAL  225 (342)
T ss_pred             HHHHHHHHHc-C--C-Ch-----HHHHHHHcCCCHHHHHHH
Confidence            9999988775 2  1 11     123578899999755443

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

Probab=97.45  E-value=0.0011  Score=66.83  Aligned_cols=88  Identities=23%  Similarity=0.329  Sum_probs=58.1

Q ss_pred             cchHHHHHHHHHhcCC---------CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHH
Q 010355          153 SRMSTLNDVINALKNP---------DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIAD  223 (512)
Q Consensus       153 gR~~~l~~l~~~L~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~  223 (512)
                      .-..++++|+++|.++         =++-|.++|++|.|||-||++++-...+-  |    |...+..|  .+++-    
T Consensus       311 EAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~VP--F----F~~sGSEF--dEm~V----  378 (752)
T KOG0734|consen  311 EAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAGVP--F----FYASGSEF--DEMFV----  378 (752)
T ss_pred             HHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccCCC--e----Eeccccch--hhhhh----
Confidence            3456888999998843         25678999999999999999999877653  2    22222222  11111    


Q ss_pred             HhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCC
Q 010355          224 KLGLKFYEESESGRARKLCERLKKEKKILVILDDIWT  260 (512)
Q Consensus       224 ~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~  260 (512)
                              ......+..|+..-+..-+|+|++|.++.
T Consensus       379 --------GvGArRVRdLF~aAk~~APcIIFIDEiDa  407 (752)
T KOG0734|consen  379 --------GVGARRVRDLFAAAKARAPCIIFIDEIDA  407 (752)
T ss_pred             --------cccHHHHHHHHHHHHhcCCeEEEEechhh
Confidence                    01123455666666666899999999853

>PRK08181 transposase; Validated

Probab=97.43  E-value=0.00081  Score=64.19  Aligned_cols=77  Identities=19%  Similarity=0.186  Sum_probs=48.5

Q ss_pred             HHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHH
Q 010355          163 NALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLC  242 (512)
Q Consensus       163 ~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~  242 (512)
                      .|+..  ...+.|+|++|+|||.||..+++.....  ...++|++      ..+++..+.....    .    .....+.
T Consensus       101 ~~~~~--~~nlll~Gp~GtGKTHLa~Aia~~a~~~--g~~v~f~~------~~~L~~~l~~a~~----~----~~~~~~l  162 (269)
T PRK08181        101 SWLAK--GANLLLFGPPGGGKSHLAAAIGLALIEN--GWRVLFTR------TTDLVQKLQVARR----E----LQLESAI  162 (269)
T ss_pred             HHHhc--CceEEEEecCCCcHHHHHHHHHHHHHHc--CCceeeee------HHHHHHHHHHHHh----C----CcHHHHH
Confidence            46553  3568999999999999999999876532  34456664      3455555533211    0    1122344


Q ss_pred             HHHhCCCeEEEEEeCCC
Q 010355          243 ERLKKEKKILVILDDIW  259 (512)
Q Consensus       243 ~~l~~~k~~LlVlDdv~  259 (512)
                      +.+.  +.=||||||+.
T Consensus       163 ~~l~--~~dLLIIDDlg  177 (269)
T PRK08181        163 AKLD--KFDLLILDDLA  177 (269)
T ss_pred             HHHh--cCCEEEEeccc
Confidence            4554  45699999995

>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=97.42  E-value=0.00063  Score=61.91  Aligned_cols=87  Identities=26%  Similarity=0.350  Sum_probs=56.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCC-CCCHHHHHHHHHHHhCCCCCCC----CchHHHHHHHHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQ-RPDVKKIQGQIADKLGLKFYEE----SESGRARKLCER  244 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~ll~~i~~~l~~~~~~~----~~~~~~~~l~~~  244 (512)
                      ++++.++|+.|+||||.+.+++.....+  -..+..++... .....+-++..++.++.+....    +.........+.
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~~~~--~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~~~~~~~~~~~~~~l~~   78 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARLKLK--GKKVALISADTYRIGAVEQLKTYAEILGVPFYVARTESDPAEIAREALEK   78 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHHHHT--T--EEEEEESTSSTHHHHHHHHHHHHHTEEEEESSTTSCHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHHhhc--cccceeecCCCCCccHHHHHHHHHHHhccccchhhcchhhHHHHHHHHHH
Confidence            3789999999999999999888887754  44566676643 3466677888888888764321    223333334444


Q ss_pred             HhCCCeEEEEEeCC
Q 010355          245 LKKEKKILVILDDI  258 (512)
Q Consensus       245 l~~~k~~LlVlDdv  258 (512)
                      +...+.=+|++|-.
T Consensus        79 ~~~~~~D~vlIDT~   92 (196)
T PF00448_consen   79 FRKKGYDLVLIDTA   92 (196)
T ss_dssp             HHHTTSSEEEEEE-
T ss_pred             HhhcCCCEEEEecC
Confidence            43323347778866

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 ....

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=97.40  E-value=0.00089  Score=63.08  Aligned_cols=89  Identities=24%  Similarity=0.263  Sum_probs=55.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCC----CCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCC----------CCc-
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKL----FDEVVYAEVSQRPDVKKIQGQIADKLGLKFYE----------ESE-  234 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~----f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~----------~~~-  234 (512)
                      -.++.|+|.+|+|||+|+.+++........    ...++|++....++...+. ++++..+.....          .+. 
T Consensus        19 g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl~-~~~~~~~~~~~~~~~~i~~~~~~~~~   97 (235)
T cd01123          19 GSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERLV-QIAERFGLDPEEVLDNIYVARAYNSD   97 (235)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHHH-HHHHHhccChHhHhcCEEEEecCCHH
Confidence            478999999999999999999865432221    3578999988776655443 344443322110          011 


Q ss_pred             --hHHHHHHHHHHhCC-CeEEEEEeCCC
Q 010355          235 --SGRARKLCERLKKE-KKILVILDDIW  259 (512)
Q Consensus       235 --~~~~~~l~~~l~~~-k~~LlVlDdv~  259 (512)
                        ...+..+...+.+. +.-|||+|.+.
T Consensus        98 ~l~~~l~~l~~~l~~~~~~~liVIDSis  125 (235)
T cd01123          98 HQLQLLEELEAILIESSRIKLVIVDSVT  125 (235)
T ss_pred             HHHHHHHHHHHHHhhcCCeeEEEEeCcH
Confidence              12233444455555 77899999985

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 .

>PRK06835 DNA replication protein DnaC; Validated

Probab=97.40  E-value=0.0097  Score=58.63  Aligned_cols=99  Identities=17%  Similarity=0.279  Sum_probs=55.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCe
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKK  250 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~  250 (512)
                      ..+.|+|.+|+|||.||..+++....+  -..++|+++.      .++..+...- ..  ..  .. .....+.+.  .-
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~l~~~--g~~V~y~t~~------~l~~~l~~~~-~~--~~--~~-~~~~~~~l~--~~  247 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKELLDR--GKSVIYRTAD------ELIEILREIR-FN--ND--KE-LEEVYDLLI--NC  247 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHHHHC--CCeEEEEEHH------HHHHHHHHHH-hc--cc--hh-HHHHHHHhc--cC
Confidence            779999999999999999999987643  3356676543      3444443211 00  00  01 111234443  23


Q ss_pred             EEEEEeCCCCh--hhh--hhhCCCCC---CCCeEEEEEeCCc
Q 010355          251 ILVILDDIWTN--LDL--ENVGIPFG---VRGCRVLMTARSQ  285 (512)
Q Consensus       251 ~LlVlDdv~~~--~~~--~~l~~~~~---~~gs~iivTtR~~  285 (512)
                      =||||||+...  ..|  ..+...+.   ..+..+||||...
T Consensus       248 DLLIIDDlG~e~~t~~~~~~Lf~iin~R~~~~k~tIiTSNl~  289 (329)
T PRK06835        248 DLLIIDDLGTEKITEFSKSELFNLINKRLLRQKKMIISTNLS  289 (329)
T ss_pred             CEEEEeccCCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence            58999999432  122  11211111   3355688888754

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

Probab=97.40  E-value=0.0039  Score=63.07  Aligned_cols=157  Identities=20%  Similarity=0.309  Sum_probs=82.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHH--
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERL--  245 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l--  245 (512)
                      .+...+.+.|++|+|||+||..++....    |..+--++.....             |.     +.......+...+  
T Consensus       536 s~lvSvLl~Gp~~sGKTaLAA~iA~~S~----FPFvKiiSpe~mi-------------G~-----sEsaKc~~i~k~F~D  593 (744)
T KOG0741|consen  536 SPLVSVLLEGPPGSGKTALAAKIALSSD----FPFVKIISPEDMI-------------GL-----SESAKCAHIKKIFED  593 (744)
T ss_pred             CcceEEEEecCCCCChHHHHHHHHhhcC----CCeEEEeChHHcc-------------Cc-----cHHHHHHHHHHHHHH
Confidence            4567888999999999999999987643    6554433221111             11     1111122222222  


Q ss_pred             -hCCCeEEEEEeCCCChhhhhhhCCCC---------------CCCCeE--EEEEeCCcchhcc--ccC-CccceecCCCC
Q 010355          246 -KKEKKILVILDDIWTNLDLENVGIPF---------------GVRGCR--VLMTARSQDVLSS--KMD-CQNNFLIGVLN  304 (512)
Q Consensus       246 -~~~k~~LlVlDdv~~~~~~~~l~~~~---------------~~~gs~--iivTtR~~~v~~~--~~~-~~~~~~l~~L~  304 (512)
                       .+..--+||+||+....+|..++..+               +..|-|  |+-||....+...  .+. -...|.++.|+
T Consensus       594 AYkS~lsiivvDdiErLiD~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~i~~~F~~~i~Vpnl~  673 (744)
T KOG0741|consen  594 AYKSPLSIIVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMGILDCFSSTIHVPNLT  673 (744)
T ss_pred             hhcCcceEEEEcchhhhhcccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcCHHHhhhheeecCccC
Confidence             22355789999997766554432111               123333  4445555444421  111 22578888888


Q ss_pred             H-HHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHHHHh
Q 010355          305 E-SEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARAL  350 (512)
Q Consensus       305 ~-~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~~L  350 (512)
                      . ++..+.++..-  .......+.++.+...+|  +-..|+.+-.++
T Consensus       674 ~~~~~~~vl~~~n--~fsd~~~~~~~~~~~~~~--~~vgIKklL~li  716 (744)
T KOG0741|consen  674 TGEQLLEVLEELN--IFSDDEVRAIAEQLLSKK--VNVGIKKLLMLI  716 (744)
T ss_pred             chHHHHHHHHHcc--CCCcchhHHHHHHHhccc--cchhHHHHHHHH
Confidence            7 66667666542  111233344566666665  223344444443

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.40  E-value=0.0026  Score=71.22  Aligned_cols=106  Identities=22%  Similarity=0.247  Sum_probs=60.9

Q ss_pred             cccccchHHHHHHHHHhcC-------C--CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHH
Q 010355          149 EAFESRMSTLNDVINALKN-------P--DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQG  219 (512)
Q Consensus       149 ~~~~gR~~~l~~l~~~L~~-------~--~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~  219 (512)
                      ..++|....+..+...+..       .  ...++.++|++|+|||+||+.++......  ....+.++++....... . 
T Consensus       565 ~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~~--~~~~i~~d~s~~~~~~~-~-  640 (852)
T TIGR03346       565 ERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLFDD--EDAMVRIDMSEYMEKHS-V-  640 (852)
T ss_pred             cccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhcCC--CCcEEEEechhhcccch-H-
Confidence            3578888888888887752       1  23578899999999999999999875421  23344555554322111 1 


Q ss_pred             HHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCCh
Q 010355          220 QIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTN  261 (512)
Q Consensus       220 ~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~  261 (512)
                        ..-+|.++.-. .......+...++.....+|+||++...
T Consensus       641 --~~l~g~~~g~~-g~~~~g~l~~~v~~~p~~vlllDeieka  679 (852)
T TIGR03346       641 --ARLIGAPPGYV-GYEEGGQLTEAVRRKPYSVVLFDEVEKA  679 (852)
T ss_pred             --HHhcCCCCCcc-CcccccHHHHHHHcCCCcEEEEeccccC
Confidence              11122221111 0111123444444444569999999743

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.

>PRK04296 thymidine kinase; Provisional

Probab=97.38  E-value=0.00035  Score=63.47  Aligned_cols=111  Identities=17%  Similarity=0.136  Sum_probs=63.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCC---CCchHHHHHHHHHHhC
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYE---ESESGRARKLCERLKK  247 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~---~~~~~~~~~l~~~l~~  247 (512)
                      .++.|+|+.|.||||++..++.+....  ...++.+.  ..++.......++.+++.....   .........+..  ..
T Consensus         3 ~i~litG~~GsGKTT~~l~~~~~~~~~--g~~v~i~k--~~~d~~~~~~~i~~~lg~~~~~~~~~~~~~~~~~~~~--~~   76 (190)
T PRK04296          3 KLEFIYGAMNSGKSTELLQRAYNYEER--GMKVLVFK--PAIDDRYGEGKVVSRIGLSREAIPVSSDTDIFELIEE--EG   76 (190)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHHHc--CCeEEEEe--ccccccccCCcEecCCCCcccceEeCChHHHHHHHHh--hC
Confidence            478899999999999999998887532  33344442  1112222244566666654332   111222222322  33


Q ss_pred             CCeEEEEEeCCCCh--hhhhhhCCCCCCCCeEEEEEeCCcch
Q 010355          248 EKKILVILDDIWTN--LDLENVGIPFGVRGCRVLMTARSQDV  287 (512)
Q Consensus       248 ~k~~LlVlDdv~~~--~~~~~l~~~~~~~gs~iivTtR~~~v  287 (512)
                      ++.-+||+|.+.-.  .++..+...+...|..||+|.+....
T Consensus        77 ~~~dvviIDEaq~l~~~~v~~l~~~l~~~g~~vi~tgl~~~~  118 (190)
T PRK04296         77 EKIDCVLIDEAQFLDKEQVVQLAEVLDDLGIPVICYGLDTDF  118 (190)
T ss_pred             CCCCEEEEEccccCCHHHHHHHHHHHHHcCCeEEEEecCccc
Confidence            34458999999532  22333322223568889999998643

>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=97.36  E-value=0.012  Score=58.24  Aligned_cols=42  Identities=29%  Similarity=0.468  Sum_probs=33.0

Q ss_pred             HHHHHHHHHhcC---CCceEEEEEcCCCCcHHHHHHHHHHhhhhc
Q 010355          156 STLNDVINALKN---PDVHMIGAYGMAGVGKTMLVKEVARQAKAD  197 (512)
Q Consensus       156 ~~l~~l~~~L~~---~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~  197 (512)
                      ...+.|.+.+.+   ....+|+|.|.=|+||||+.+.+.+.....
T Consensus         3 ~~a~~la~~I~~~~~~~~~~IgL~G~WGsGKSs~l~~l~~~L~~~   47 (325)
T PF07693_consen    3 PYAKALAEIIKNPDSDDPFVIGLYGEWGSGKSSFLNMLKEELKED   47 (325)
T ss_pred             HHHHHHHHHHhccCCCCCeEEEEECCCCCCHHHHHHHHHHHHhcc
Confidence            334555666653   467899999999999999999999888754

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 [].

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

Probab=97.36  E-value=0.0094  Score=62.51  Aligned_cols=199  Identities=16%  Similarity=0.189  Sum_probs=117.1

Q ss_pred             ccccccchHHHHHHHHHhc----C-CCceEEEEEcCCCCcHHHHHHHHHHhhhh---c---CCCCeEEEEEeCCCCCHHH
Q 010355          148 YEAFESRMSTLNDVINALK----N-PDVHMIGAYGMAGVGKTMLVKEVARQAKA---D---KLFDEVVYAEVSQRPDVKK  216 (512)
Q Consensus       148 ~~~~~gR~~~l~~l~~~L~----~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~---~---~~f~~~~wv~~~~~~~~~~  216 (512)
                      +..+-+|+.+..+|...+.    . .....+-|.|.+|+|||.++..|.+....   +   ..|. .+.|+.-.-..+.+
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 PESLPCRENEFSEIEDFLRSFISDQGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFD-YVEINGLRLASPRE  473 (767)
T ss_pred             cccccchhHHHHHHHHHHHhhcCCCCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCcc-EEEEcceeecCHHH
Confidence            4456689999988887765    3 34458899999999999999999986541   1   2233 34455555668999


Q ss_pred             HHHHHHHHhCCCCCCCCchHHHHHHHHHHh----CCCeEEEEEeCCCChh-----hhhhhCCCCC-CCCeEEEEEeCCc-
Q 010355          217 IQGQIADKLGLKFYEESESGRARKLCERLK----KEKKILVILDDIWTNL-----DLENVGIPFG-VRGCRVLMTARSQ-  285 (512)
Q Consensus       217 ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~~-----~~~~l~~~~~-~~gs~iivTtR~~-  285 (512)
                      ++..|..++.....  .....+..|..++.    ..++++|++|+++...     .+-.+ +-.+ .++++++|.+=.. 
T Consensus       474 ~Y~~I~~~lsg~~~--~~~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~QdVlYn~-fdWpt~~~sKLvvi~IaNT  550 (767)
T KOG1514|consen  474 IYEKIWEALSGERV--TWDAALEALNFRFTVPKPKRSTTVVLIDELDILVTRSQDVLYNI-FDWPTLKNSKLVVIAIANT  550 (767)
T ss_pred             HHHHHHHhcccCcc--cHHHHHHHHHHhhccCCCCCCCEEEEeccHHHHhcccHHHHHHH-hcCCcCCCCceEEEEeccc
Confidence            99999998865322  22333445555554    2467899999985432     12222 1111 4667766544221 


Q ss_pred             -chhcc-------ccCCccceecCCCCHHHHHHHHHHHhCCC--CCCchhHHHHHHHHHHcCCChhHHHHHHHHh
Q 010355          286 -DVLSS-------KMDCQNNFLIGVLNESEARDLFKKLVGDK--IENNDLKSLAMNIVKACRGLPIAIVTIARAL  350 (512)
Q Consensus       286 -~v~~~-------~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~--~~~~~~~~~~~~I~~~~~GlPLai~~ia~~L  350 (512)
                       .....       ..-+...+...|-+..+-.++...++...  ......+=++++++...|-.-.|+.+.-+..
T Consensus       551 mdlPEr~l~nrvsSRlg~tRi~F~pYth~qLq~Ii~~RL~~~~~f~~~aielvarkVAavSGDaRraldic~RA~  625 (767)
T KOG1514|consen  551 MDLPERLLMNRVSSRLGLTRICFQPYTHEQLQEIISARLKGLDAFENKAIELVARKVAAVSGDARRALDICRRAA  625 (767)
T ss_pred             ccCHHHHhccchhhhccceeeecCCCCHHHHHHHHHHhhcchhhcchhHHHHHHHHHHhccccHHHHHHHHHHHH
Confidence             11100       11123467778888888877777666422  1122233345555555555555555544443

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=97.35  E-value=0.0016  Score=68.75  Aligned_cols=49  Identities=27%  Similarity=0.413  Sum_probs=40.6

Q ss_pred             cCccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          146 KGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       146 ~~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .....++|....+..+...+.......+.|+|++|+|||++|+.+++..
T Consensus        62 ~~f~~iiGqs~~i~~l~~al~~~~~~~vLi~Ge~GtGKt~lAr~i~~~~  110 (531)
T TIGR02902        62 KSFDEIIGQEEGIKALKAALCGPNPQHVIIYGPPGVGKTAAARLVLEEA  110 (531)
T ss_pred             CCHHHeeCcHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            3445689999999998887776666778899999999999999998754

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.

>TIGR02012 tigrfam_recA protein RecA

Probab=97.35  E-value=0.00095  Score=65.11  Aligned_cols=84  Identities=17%  Similarity=0.216  Sum_probs=54.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC------CCCchHHHHHHH
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFY------EESESGRARKLC  242 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~------~~~~~~~~~~l~  242 (512)
                      .-+++.|+|++|+||||||.+++......  -..++|++....++..     .+++++....      .....+....+.
T Consensus        54 ~G~iteI~G~~GsGKTtLaL~~~~~~~~~--g~~v~yId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~~~~  126 (321)
T TIGR02012        54 RGRIIEIYGPESSGKTTLALHAIAEAQKA--GGTAAFIDAEHALDPV-----YARKLGVDIDNLLVSQPDTGEQALEIAE  126 (321)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc--CCcEEEEcccchhHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHHH
Confidence            34799999999999999999988776532  4567888877655543     3555554321      112222333333


Q ss_pred             HHHhCCCeEEEEEeCCC
Q 010355          243 ERLKKEKKILVILDDIW  259 (512)
Q Consensus       243 ~~l~~~k~~LlVlDdv~  259 (512)
                      ..+..+..-+||+|.+.
T Consensus       127 ~li~~~~~~lIVIDSv~  143 (321)
T TIGR02012       127 TLVRSGAVDIIVVDSVA  143 (321)
T ss_pred             HHhhccCCcEEEEcchh
Confidence            33445567899999984

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.

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.33  E-value=0.0036  Score=69.90  Aligned_cols=105  Identities=21%  Similarity=0.244  Sum_probs=58.7

Q ss_pred             cccccchHHHHHHHHHhcC-------CC--ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHH
Q 010355          149 EAFESRMSTLNDVINALKN-------PD--VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQG  219 (512)
Q Consensus       149 ~~~~gR~~~l~~l~~~L~~-------~~--~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~  219 (512)
                      ..++|....+..|...+..       ++  ..++.++|++|+|||+||+.+++.....  ....+.++++.... ...  
T Consensus       568 ~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l~~~--~~~~i~id~se~~~-~~~--  642 (857)
T PRK10865        568 HRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFMFDS--DDAMVRIDMSEFME-KHS--  642 (857)
T ss_pred             CeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHhhcC--CCcEEEEEhHHhhh-hhh--
Confidence            3577888888887776651       11  2478899999999999999999765321  22344555443211 111  


Q ss_pred             HHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCC
Q 010355          220 QIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWT  260 (512)
Q Consensus       220 ~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~  260 (512)
                       +..-+|.++.-. .......+...++....-+|+||++..
T Consensus       643 -~~~LiG~~pgy~-g~~~~g~l~~~v~~~p~~vLllDEiek  681 (857)
T PRK10865        643 -VSRLVGAPPGYV-GYEEGGYLTEAVRRRPYSVILLDEVEK  681 (857)
T ss_pred             -HHHHhCCCCccc-ccchhHHHHHHHHhCCCCeEEEeehhh
Confidence             111223221111 111112344444433446999999963

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=97.32  E-value=0.0016  Score=61.37  Aligned_cols=49  Identities=10%  Similarity=0.272  Sum_probs=36.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHH
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQI  221 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i  221 (512)
                      ...++.|.|.+|+|||+||.++......  .-..++|++...  ++.++.+.+
T Consensus        20 ~gs~~lI~G~pGsGKT~la~~~l~~~~~--~ge~~lyvs~ee--~~~~i~~~~   68 (237)
T TIGR03877        20 ERNVVLLSGGPGTGKSIFSQQFLWNGLQ--MGEPGIYVALEE--HPVQVRRNM   68 (237)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHHH--cCCcEEEEEeeC--CHHHHHHHH
Confidence            3478999999999999999998766432  245688888765  455666553

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.

>PRK07261 topology modulation protein; Provisional

Probab=97.32  E-value=0.00079  Score=59.98  Aligned_cols=34  Identities=21%  Similarity=0.441  Sum_probs=25.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhhhc-CCCCeEEE
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAKAD-KLFDEVVY  205 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~~~-~~f~~~~w  205 (512)
                      .|+|+|++|+||||||+.+....... -+.+...|
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~D~~~~   36 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHF   36 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCeEecCCEEe
Confidence            48899999999999999998765432 13455555

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

Probab=97.29  E-value=0.0097  Score=64.18  Aligned_cols=103  Identities=20%  Similarity=0.260  Sum_probs=62.3

Q ss_pred             ccccchHHHHHHHHHhc---------CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHH
Q 010355          150 AFESRMSTLNDVINALK---------NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQ  220 (512)
Q Consensus       150 ~~~gR~~~l~~l~~~L~---------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~  220 (512)
                      .++|.+..+..+.+.+.         +....+..+.|+.|+|||.||++++...-..  =...+-++.|......    .
T Consensus       492 rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~--e~aliR~DMSEy~EkH----s  565 (786)
T COG0542         492 RVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGD--EQALIRIDMSEYMEKH----S  565 (786)
T ss_pred             ceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhcCC--CccceeechHHHHHHH----H
Confidence            46788988888888775         2235678889999999999999999876311  1345555555422111    2


Q ss_pred             HHHHhCCCCCCCCchHHHHHHHHHHhCCCeE-EEEEeCCCC
Q 010355          221 IADKLGLKFYEESESGRARKLCERLKKEKKI-LVILDDIWT  260 (512)
Q Consensus       221 i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~-LlVlDdv~~  260 (512)
                      +.+-+|.++.-..- +....|-+.+++ +|| +|+||.|..
T Consensus       566 VSrLIGaPPGYVGy-eeGG~LTEaVRr-~PySViLlDEIEK  604 (786)
T COG0542         566 VSRLIGAPPGYVGY-EEGGQLTEAVRR-KPYSVILLDEIEK  604 (786)
T ss_pred             HHHHhCCCCCCcee-ccccchhHhhhc-CCCeEEEechhhh
Confidence            22223433221111 113345556665 555 888999964

>PRK06526 transposase; Provisional

Probab=97.29  E-value=0.00044  Score=65.62  Aligned_cols=73  Identities=21%  Similarity=0.205  Sum_probs=43.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCC
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEK  249 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  249 (512)
                      .+.+.|+|++|+|||+||..+.......  -..+.|+      +..+++..+.....    ..    ........+.  +
T Consensus        98 ~~nlll~Gp~GtGKThLa~al~~~a~~~--g~~v~f~------t~~~l~~~l~~~~~----~~----~~~~~l~~l~--~  159 (254)
T PRK06526         98 KENVVFLGPPGTGKTHLAIGLGIRACQA--GHRVLFA------TAAQWVARLAAAHH----AG----RLQAELVKLG--R  159 (254)
T ss_pred             CceEEEEeCCCCchHHHHHHHHHHHHHC--CCchhhh------hHHHHHHHHHHHHh----cC----cHHHHHHHhc--c
Confidence            4568999999999999999998876532  1233443      33445555533211    00    1122233332  4


Q ss_pred             eEEEEEeCCCC
Q 010355          250 KILVILDDIWT  260 (512)
Q Consensus       250 ~~LlVlDdv~~  260 (512)
                      .-||||||+..
T Consensus       160 ~dlLIIDD~g~  170 (254)
T PRK06526        160 YPLLIVDEVGY  170 (254)
T ss_pred             CCEEEEccccc
Confidence            56999999963

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

Probab=97.28  E-value=0.0011  Score=64.70  Aligned_cols=83  Identities=20%  Similarity=0.263  Sum_probs=54.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC------CCCchHHHHHHHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFY------EESESGRARKLCE  243 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~------~~~~~~~~~~l~~  243 (512)
                      -+++-|+|++|+||||||.+++.....  .-..++|++....+++.     .++.++....      ..+..+....+..
T Consensus        55 G~iteI~Gp~GsGKTtLal~~~~~~~~--~g~~~vyId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~i~~~  127 (325)
T cd00983          55 GRIIEIYGPESSGKTTLALHAIAEAQK--LGGTVAFIDAEHALDPV-----YAKKLGVDLDNLLISQPDTGEQALEIADS  127 (325)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHH--cCCCEEEECccccHHHH-----HHHHcCCCHHHheecCCCCHHHHHHHHHH
Confidence            478899999999999999998876653  24568899887766542     3445554321      1122223333333


Q ss_pred             HHhCCCeEEEEEeCCC
Q 010355          244 RLKKEKKILVILDDIW  259 (512)
Q Consensus       244 ~l~~~k~~LlVlDdv~  259 (512)
                      .+..+..-|||+|.|-
T Consensus       128 li~s~~~~lIVIDSva  143 (325)
T cd00983         128 LVRSGAVDLIVVDSVA  143 (325)
T ss_pred             HHhccCCCEEEEcchH
Confidence            3345567899999974

RecA couples ATP hydrolysis to DNA strand exchange.

>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=97.25  E-value=0.00025  Score=59.13  Aligned_cols=24  Identities=38%  Similarity=0.472  Sum_probs=21.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      +|+|.|++|+||||+|+.+++...
T Consensus         1 vI~I~G~~gsGKST~a~~La~~~~   24 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAERLG   24 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHT
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHC
Confidence            689999999999999999998763

...

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

Probab=97.25  E-value=0.00054  Score=60.70  Aligned_cols=80  Identities=21%  Similarity=0.182  Sum_probs=47.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCC-CeE
Q 010355          173 IGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKE-KKI  251 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~-k~~  251 (512)
                      +.|.|.+|+|||++|.+++...     ...++++.-...++. ++...|.......+..-...+....+.+.+... +.-
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~~-----~~~~~y~at~~~~d~-em~~rI~~H~~~R~~~w~t~E~~~~l~~~l~~~~~~~   75 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAEL-----GGPVTYIATAEAFDD-EMAERIARHRKRRPAHWRTIETPRDLVSALKELDPGD   75 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHhc-----CCCeEEEEccCcCCH-HHHHHHHHHHHhCCCCceEeecHHHHHHHHHhcCCCC
Confidence            6799999999999999997651     235667766665544 355555443322222222223333444444321 334


Q ss_pred             EEEEeCC
Q 010355          252 LVILDDI  258 (512)
Q Consensus       252 LlVlDdv  258 (512)
                      .+++|.+
T Consensus        76 ~VLIDcl   82 (169)
T cd00544          76 VVLIDCL   82 (169)
T ss_pred             EEEEEcH
Confidence            7999987

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.

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=97.25  E-value=0.0048  Score=66.81  Aligned_cols=128  Identities=23%  Similarity=0.336  Sum_probs=71.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCe
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKK  250 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~  250 (512)
                      +-|.|+|++|+|||++|+.++.....  .|   +.++.+.      +.. +.  .+      .....+..++.......+
T Consensus       186 ~gill~G~~G~GKt~~~~~~a~~~~~--~f---~~is~~~------~~~-~~--~g------~~~~~~~~~f~~a~~~~P  245 (644)
T PRK10733        186 KGVLMVGPPGTGKTLLAKAIAGEAKV--PF---FTISGSD------FVE-MF--VG------VGASRVRDMFEQAKKAAP  245 (644)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHcCC--CE---EEEehHH------hHH-hh--hc------ccHHHHHHHHHHHHhcCC
Confidence            45899999999999999999887653  22   2222221      111 00  01      011223334444444578


Q ss_pred             EEEEEeCCCChh----------------hhhhhCCC---CC-CCCeEEEEEeCCcchhcc-cc---CCccceecCCCCHH
Q 010355          251 ILVILDDIWTNL----------------DLENVGIP---FG-VRGCRVLMTARSQDVLSS-KM---DCQNNFLIGVLNES  306 (512)
Q Consensus       251 ~LlVlDdv~~~~----------------~~~~l~~~---~~-~~gs~iivTtR~~~v~~~-~~---~~~~~~~l~~L~~~  306 (512)
                      ++|+||+++...                .+..+...   +. ..+..||.||........ ..   .-...+.+...+..
T Consensus       246 ~IifIDEiD~l~~~r~~~~~g~~~~~~~~ln~lL~~mdg~~~~~~vivIaaTN~p~~lD~Al~RpgRfdr~i~v~~Pd~~  325 (644)
T PRK10733        246 CIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVR  325 (644)
T ss_pred             cEEEehhHhhhhhccCCCCCCCchHHHHHHHHHHHhhhcccCCCCeeEEEecCChhhcCHHHhCCcccceEEEcCCCCHH
Confidence            999999986431                11222111   11 345556667766543211 11   22357778888888


Q ss_pred             HHHHHHHHHhCC
Q 010355          307 EARDLFKKLVGD  318 (512)
Q Consensus       307 ea~~Lf~~~~~~  318 (512)
                      +-.+++..++..
T Consensus       326 ~R~~Il~~~~~~  337 (644)
T PRK10733        326 GREQILKVHMRR  337 (644)
T ss_pred             HHHHHHHHHhhc
Confidence            888888877753

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

Probab=97.25  E-value=0.0021  Score=70.17  Aligned_cols=102  Identities=17%  Similarity=0.175  Sum_probs=58.5

Q ss_pred             ccccchHHHHHHHHHhcC---------CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHH
Q 010355          150 AFESRMSTLNDVINALKN---------PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQ  220 (512)
Q Consensus       150 ~~~gR~~~l~~l~~~L~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~  220 (512)
                      .++|.+..+..|...+..         .....+.++|++|+|||+||+.++....  .   ..+.++++.......    
T Consensus       459 ~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~--~---~~i~id~se~~~~~~----  529 (758)
T PRK11034        459 LVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG--I---ELLRFDMSEYMERHT----  529 (758)
T ss_pred             eEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHhC--C---CcEEeechhhccccc----
Confidence            467888888887777651         1245789999999999999999988763  1   233444443222111    


Q ss_pred             HHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCCh
Q 010355          221 IADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTN  261 (512)
Q Consensus       221 i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~  261 (512)
                      +..-+|.+..-.. ......+.+.+......+|+||++...
T Consensus       530 ~~~LiG~~~gyvg-~~~~g~L~~~v~~~p~sVlllDEieka  569 (758)
T PRK11034        530 VSRLIGAPPGYVG-FDQGGLLTDAVIKHPHAVLLLDEIEKA  569 (758)
T ss_pred             HHHHcCCCCCccc-ccccchHHHHHHhCCCcEEEeccHhhh
Confidence            1122232211110 011123344444445679999999754

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.23  E-value=0.014  Score=59.72  Aligned_cols=59  Identities=29%  Similarity=0.408  Sum_probs=40.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCC-CCCHHHHHHHHHHHhCCCC
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQ-RPDVKKIQGQIADKLGLKF  229 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~ll~~i~~~l~~~~  229 (512)
                      ...+|.++|.+|+||||++..++..+.... + .+..|++.. .+...+.++.++.+++.+.
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L~~~g-~-kV~lV~~D~~R~aa~eQL~~la~~~gvp~  153 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYFKKKG-L-KVGLVAADTYRPAAYDQLKQLAEKIGVPF  153 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHHcC-C-eEEEecCCCCCHHHHHHHHHHHHHcCCcE
Confidence            467999999999999999999998876432 2 344444432 1233555666777777653

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.23  E-value=0.0017  Score=64.66  Aligned_cols=88  Identities=19%  Similarity=0.202  Sum_probs=55.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCC-CCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCC
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQ-RPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKE  248 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  248 (512)
                      ..+++++|+.|+||||++..++.....+.....+..++... .....+-++...+.++.+................+.  
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l~~~l~~l~--  214 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVHAVKDGGDLQLALAELR--  214 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceEecCCcccHHHHHHHhc--
Confidence            47999999999999999999998764321123455555432 234566677777777776544332222333444443  


Q ss_pred             CeEEEEEeCCC
Q 010355          249 KKILVILDDIW  259 (512)
Q Consensus       249 k~~LlVlDdv~  259 (512)
                      ++-+|++|..-
T Consensus       215 ~~DlVLIDTaG  225 (374)
T PRK14722        215 NKHMVLIDTIG  225 (374)
T ss_pred             CCCEEEEcCCC
Confidence            34567799884

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=97.21  E-value=0.0021  Score=62.26  Aligned_cols=88  Identities=22%  Similarity=0.243  Sum_probs=51.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCC-CCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhC
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQR-PDVKKIQGQIADKLGLKFYEESESGRARKLCERLKK  247 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~  247 (512)
                      ..++++|+|++|+||||++..++.....+..-..+..|+.... ......+......++.+.........+......+. 
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D~~r~~a~eql~~~~~~~~~p~~~~~~~~~l~~~l~~~~-  271 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITTDTYRIGAVEQLKTYAKILGVPVKVARDPKELRKALDRLR-  271 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECCccchhHHHHHHHHHHHhCCceeccCCHHHHHHHHHHcc-
Confidence            3579999999999999999999887754311134555655432 22334444455556665443333333444444443 


Q ss_pred             CCeEEEEEeCC
Q 010355          248 EKKILVILDDI  258 (512)
Q Consensus       248 ~k~~LlVlDdv  258 (512)
                       ..=+|++|..
T Consensus       272 -~~d~vliDt~  281 (282)
T TIGR03499       272 -DKDLILIDTA  281 (282)
T ss_pred             -CCCEEEEeCC
Confidence             2347777753

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

Probab=97.20  E-value=0.014  Score=53.62  Aligned_cols=129  Identities=20%  Similarity=0.257  Sum_probs=73.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhC
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKK  247 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~  247 (512)
                      .+++-+.++|++|.|||-||+.+++..       .+.|+.+|..    ++.+..+   |      .....+..++-..+.
T Consensus       179 aQPKGvlLygppgtGktLlaraVahht-------~c~firvsgs----elvqk~i---g------egsrmvrelfvmare  238 (404)
T KOG0728|consen  179 AQPKGVLLYGPPGTGKTLLARAVAHHT-------DCTFIRVSGS----ELVQKYI---G------EGSRMVRELFVMARE  238 (404)
T ss_pred             CCCcceEEecCCCCchhHHHHHHHhhc-------ceEEEEechH----HHHHHHh---h------hhHHHHHHHHHHHHh
Confidence            467788999999999999999998754       3456777653    2222221   1      111223344433344


Q ss_pred             CCeEEEEEeCCCChh--------------------hhhhhCCCCCCCCeEEEEEeCCcchhc----cccCCccceecCCC
Q 010355          248 EKKILVILDDIWTNL--------------------DLENVGIPFGVRGCRVLMTARSQDVLS----SKMDCQNNFLIGVL  303 (512)
Q Consensus       248 ~k~~LlVlDdv~~~~--------------------~~~~l~~~~~~~gs~iivTtR~~~v~~----~~~~~~~~~~l~~L  303 (512)
                      .-+.+|+.|.+.+..                    -++++...-..++.+||..|..-.+..    +.......++.+|-
T Consensus       239 hapsiifmdeidsigs~r~e~~~ggdsevqrtmlellnqldgfeatknikvimatnridild~allrpgridrkiefp~p  318 (404)
T KOG0728|consen  239 HAPSIIFMDEIDSIGSSRVESGSGGDSEVQRTMLELLNQLDGFEATKNIKVIMATNRIDILDPALLRPGRIDRKIEFPPP  318 (404)
T ss_pred             cCCceEeeecccccccccccCCCCccHHHHHHHHHHHHhccccccccceEEEEeccccccccHhhcCCCcccccccCCCC
Confidence            568889999885431                    122221111156778888776555431    11122356777777


Q ss_pred             CHHHHHHHHHHHh
Q 010355          304 NESEARDLFKKLV  316 (512)
Q Consensus       304 ~~~ea~~Lf~~~~  316 (512)
                      +.+.-.++++-+.
T Consensus       319 ~e~ar~~ilkihs  331 (404)
T KOG0728|consen  319 NEEARLDILKIHS  331 (404)
T ss_pred             CHHHHHHHHHHhh
Confidence            7666666665443

>PRK04132 replication factor C small subunit; Provisional

Probab=97.19  E-value=0.01  Score=65.18  Aligned_cols=158  Identities=9%  Similarity=0.061  Sum_probs=93.7

Q ss_pred             Ec--CCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEE
Q 010355          176 YG--MAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILV  253 (512)
Q Consensus       176 ~G--~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~Ll  253 (512)
                      .|  |.++||||+|..+++..-....-..++-++++...+...+ ++++..+....+              +...+.-++
T Consensus       570 ~G~lPh~lGKTT~A~ala~~l~g~~~~~~~lElNASd~rgid~I-R~iIk~~a~~~~--------------~~~~~~KVv  634 (846)
T PRK04132        570 GGNLPTVLHNTTAALALARELFGENWRHNFLELNASDERGINVI-REKVKEFARTKP--------------IGGASFKII  634 (846)
T ss_pred             cCCCCCcccHHHHHHHHHHhhhcccccCeEEEEeCCCcccHHHH-HHHHHHHHhcCC--------------cCCCCCEEE
Confidence            37  8899999999999988632211234677788775555433 333332210000              011245799


Q ss_pred             EEeCCCChh--hhhhhCCCCC--CCCeEEEEEeCCcc-hhccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHH
Q 010355          254 ILDDIWTNL--DLENVGIPFG--VRGCRVLMTARSQD-VLSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSL  328 (512)
Q Consensus       254 VlDdv~~~~--~~~~l~~~~~--~~gs~iivTtR~~~-v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~  328 (512)
                      |||+++...  ....+.-...  ...+++|++|.+.. +.....+....+.+.+++.++....+...+...... -..+.
T Consensus       635 IIDEaD~Lt~~AQnALLk~lEep~~~~~FILi~N~~~kIi~tIrSRC~~i~F~~ls~~~i~~~L~~I~~~Egi~-i~~e~  713 (846)
T PRK04132        635 FLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGLE-LTEEG  713 (846)
T ss_pred             EEECcccCCHHHHHHHHHHhhCCCCCeEEEEEeCChhhCchHHhhhceEEeCCCCCHHHHHHHHHHHHHhcCCC-CCHHH
Confidence            999997653  3333311111  35677777666543 222223445789999999999988887766422111 11356


Q ss_pred             HHHHHHHcCCChhHHHHHHHH
Q 010355          329 AMNIVKACRGLPIAIVTIARA  349 (512)
Q Consensus       329 ~~~I~~~~~GlPLai~~ia~~  349 (512)
                      ...|++.|+|.+..+..+-..
T Consensus       714 L~~Ia~~s~GDlR~AIn~Lq~  734 (846)
T PRK04132        714 LQAILYIAEGDMRRAINILQA  734 (846)
T ss_pred             HHHHHHHcCCCHHHHHHHHHH
Confidence            789999999988655444333

>smart00763 AAA_PrkA PrkA AAA domain

Probab=97.19  E-value=0.0007  Score=66.56  Aligned_cols=78  Identities=17%  Similarity=0.254  Sum_probs=53.5

Q ss_pred             ccccchHHHHHHHHHhc------CCCceEEEEEcCCCCcHHHHHHHHHHhhhhc-----CCCCeEEEEE----eCCCC--
Q 010355          150 AFESRMSTLNDVINALK------NPDVHMIGAYGMAGVGKTMLVKEVARQAKAD-----KLFDEVVYAE----VSQRP--  212 (512)
Q Consensus       150 ~~~gR~~~l~~l~~~L~------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~-----~~f~~~~wv~----~~~~~--  212 (512)
                      .++|-++.+.+|++++.      ....++++|+|++|+||||||..+++....-     +.|...-|..    +...+  
T Consensus        52 ~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l~~ys~t~eG~~Y~~~~~~~~sp~~e~Pl~  131 (361)
T smart00763       52 DFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGLEEYSKTPEGRRYTFKWNGEESPMHEDPLH  131 (361)
T ss_pred             hccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHHhhhcccccCceEEEEecCCCCCCccCCcc
Confidence            58899999999999886      2346899999999999999999999887641     2344455522    11111  


Q ss_pred             -CHHHHHHHHHHHhCC
Q 010355          213 -DVKKIQGQIADKLGL  227 (512)
Q Consensus       213 -~~~~ll~~i~~~l~~  227 (512)
                       -+...-..+...++.
T Consensus       132 l~p~~~r~~~~~~~~~  147 (361)
T smart00763      132 LFPDELREDLEDEYGI  147 (361)
T ss_pred             cCCHHHHHHHHHHhCC
Confidence             234455555666664

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=97.17  E-value=0.0066  Score=60.09  Aligned_cols=136  Identities=12%  Similarity=0.107  Sum_probs=77.3

Q ss_pred             cccchHHHHHHHHHhc-CCCce-EEEEEcCCCCcHHHHHHHHHHhhhhcC-------------------CCCeEEEEEeC
Q 010355          151 FESRMSTLNDVINALK-NPDVH-MIGAYGMAGVGKTMLVKEVARQAKADK-------------------LFDEVVYAEVS  209 (512)
Q Consensus       151 ~~gR~~~l~~l~~~L~-~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~-------------------~f~~~~wv~~~  209 (512)
                      ++|-......+..+.. ..+.+ .+.++|++|+||||+|..+++...-..                   ....+..++.+
T Consensus         3 ~~~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~lel~~s   82 (325)
T COG0470           3 LVPWQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLELNPS   82 (325)
T ss_pred             cccchhHHHHHHHHHHhcCCCCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceEEeccc
Confidence            4556666777777776 33344 499999999999999999998765221                   11234444444


Q ss_pred             CCCC---HHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh--hhhhhC--CCCCCCCeEEEEEe
Q 010355          210 QRPD---VKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL--DLENVG--IPFGVRGCRVLMTA  282 (512)
Q Consensus       210 ~~~~---~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~--~~~~l~--~~~~~~gs~iivTt  282 (512)
                      ....   ..+..+.+.........                .++.-+++||++....  ....+.  ...+...+++|++|
T Consensus        83 ~~~~~~i~~~~vr~~~~~~~~~~~----------------~~~~kviiidead~mt~~A~nallk~lEep~~~~~~il~~  146 (325)
T COG0470          83 DLRKIDIIVEQVRELAEFLSESPL----------------EGGYKVVIIDEADKLTEDAANALLKTLEEPPKNTRFILIT  146 (325)
T ss_pred             ccCCCcchHHHHHHHHHHhccCCC----------------CCCceEEEeCcHHHHhHHHHHHHHHHhccCCCCeEEEEEc
Confidence            4333   23334444333322111                2467899999997542  222221  11225667788877


Q ss_pred             CCcc-hhccccCCccceecCC
Q 010355          283 RSQD-VLSSKMDCQNNFLIGV  302 (512)
Q Consensus       283 R~~~-v~~~~~~~~~~~~l~~  302 (512)
                      .... +..........+++.+
T Consensus       147 n~~~~il~tI~SRc~~i~f~~  167 (325)
T COG0470         147 NDPSKILPTIRSRCQRIRFKP  167 (325)
T ss_pred             CChhhccchhhhcceeeecCC
Confidence            7433 3222334445677776

>PRK04328 hypothetical protein; Provisional

Probab=97.17  E-value=0.0018  Score=61.55  Aligned_cols=53  Identities=13%  Similarity=0.273  Sum_probs=36.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhC
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLG  226 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~  226 (512)
                      .-.++.|.|.+|+|||+|+.+++.....  .-..++|++...  ++..+.+ .+++++
T Consensus        22 ~gs~ili~G~pGsGKT~l~~~fl~~~~~--~ge~~lyis~ee--~~~~i~~-~~~~~g   74 (249)
T PRK04328         22 ERNVVLLSGGPGTGKSIFSQQFLWNGLQ--MGEPGVYVALEE--HPVQVRR-NMRQFG   74 (249)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHh--cCCcEEEEEeeC--CHHHHHH-HHHHcC
Confidence            3578999999999999999998776432  245678888765  3444433 334444

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

Probab=97.16  E-value=0.00057  Score=73.35  Aligned_cols=156  Identities=17%  Similarity=0.218  Sum_probs=92.5

Q ss_pred             CccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCC-----eEEEEEeCCCCCHHHHHHHH
Q 010355          147 GYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFD-----EVVYAEVSQRPDVKKIQGQI  221 (512)
Q Consensus       147 ~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~-----~~~wv~~~~~~~~~~ll~~i  221 (512)
                      ...+++||+.++.++++.|....-.--.++|.+|+|||+++.-++.+.....-..     .++-++++            
T Consensus       168 klDPvIGRd~EI~r~iqIL~RR~KNNPvLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sLD~g------------  235 (786)
T COG0542         168 KLDPVIGRDEEIRRTIQILSRRTKNNPVLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLDLG------------  235 (786)
T ss_pred             CCCCCcChHHHHHHHHHHHhccCCCCCeEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEecHH------------
Confidence            3567899999999999999844333345789999999999999998875432211     12212111            


Q ss_pred             HHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh----------hhhhhCCCCCCCC-eE-EEEEeCCcchh-
Q 010355          222 ADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL----------DLENVGIPFGVRG-CR-VLMTARSQDVL-  288 (512)
Q Consensus       222 ~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~----------~~~~l~~~~~~~g-s~-iivTtR~~~v~-  288 (512)
                       .-+........-.+.+..+.+.+...++++|++|.+.+..          +...+.-|.-..| -+ |-.||-++..- 
T Consensus       236 -~LvAGakyRGeFEeRlk~vl~ev~~~~~vILFIDEiHtiVGAG~~~G~a~DAaNiLKPaLARGeL~~IGATT~~EYRk~  314 (786)
T COG0542         236 -SLVAGAKYRGEFEERLKAVLKEVEKSKNVILFIDEIHTIVGAGATEGGAMDAANLLKPALARGELRCIGATTLDEYRKY  314 (786)
T ss_pred             -HHhccccccCcHHHHHHHHHHHHhcCCCeEEEEechhhhcCCCcccccccchhhhhHHHHhcCCeEEEEeccHHHHHHH
Confidence             1111111222334556667777765568999999986431          1112222222233 34 44555443320 


Q ss_pred             ----ccccCCccceecCCCCHHHHHHHHHHH
Q 010355          289 ----SSKMDCQNNFLIGVLNESEARDLFKKL  315 (512)
Q Consensus       289 ----~~~~~~~~~~~l~~L~~~ea~~Lf~~~  315 (512)
                          .........+.+...+.+++..+++..
T Consensus       315 iEKD~AL~RRFQ~V~V~EPs~e~ti~ILrGl  345 (786)
T COG0542         315 IEKDAALERRFQKVLVDEPSVEDTIAILRGL  345 (786)
T ss_pred             hhhchHHHhcCceeeCCCCCHHHHHHHHHHH
Confidence                111234567888888999888888754

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

Probab=97.15  E-value=0.011  Score=62.04  Aligned_cols=151  Identities=18%  Similarity=0.267  Sum_probs=85.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCC
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEK  249 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  249 (512)
                      ..-|.++|++|+|||.||.+++.....+       +|++..+    +++...   +|      ...+.+..++.+.+.-+
T Consensus       701 ~~giLLyGppGcGKT~la~a~a~~~~~~-------fisvKGP----ElL~Ky---IG------aSEq~vR~lF~rA~~a~  760 (952)
T KOG0735|consen  701 RTGILLYGPPGCGKTLLASAIASNSNLR-------FISVKGP----ELLSKY---IG------ASEQNVRDLFERAQSAK  760 (952)
T ss_pred             ccceEEECCCCCcHHHHHHHHHhhCCee-------EEEecCH----HHHHHH---hc------ccHHHHHHHHHHhhccC
Confidence            3468899999999999999998876533       5666553    233222   12      22345667777777789


Q ss_pred             eEEEEEeCCCChh-------------hhhhhCCC----CCCCCeEEEE-EeCCcchhccccC---CccceecCCCCHHHH
Q 010355          250 KILVILDDIWTNL-------------DLENVGIP----FGVRGCRVLM-TARSQDVLSSKMD---CQNNFLIGVLNESEA  308 (512)
Q Consensus       250 ~~LlVlDdv~~~~-------------~~~~l~~~----~~~~gs~iiv-TtR~~~v~~~~~~---~~~~~~l~~L~~~ea  308 (512)
                      +|+|+||.+.+..             ..+++...    -+-.|.-|+. |||..-+-.....   -.+.+.-+.-+..+-
T Consensus       761 PCiLFFDEfdSiAPkRGhDsTGVTDRVVNQlLTelDG~Egl~GV~i~aaTsRpdliDpALLRpGRlD~~v~C~~P~~~eR  840 (952)
T KOG0735|consen  761 PCILFFDEFDSIAPKRGHDSTGVTDRVVNQLLTELDGAEGLDGVYILAATSRPDLIDPALLRPGRLDKLVYCPLPDEPER  840 (952)
T ss_pred             CeEEEeccccccCcccCCCCCCchHHHHHHHHHhhccccccceEEEEEecCCccccCHhhcCCCccceeeeCCCCCcHHH
Confidence            9999999986431             12333221    1245666665 4554332111111   123344445566677


Q ss_pred             HHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhH
Q 010355          309 RDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIA  342 (512)
Q Consensus       309 ~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLa  342 (512)
                      .++|...........  .--.+.++.++.|..-|
T Consensus       841 l~il~~ls~s~~~~~--~vdl~~~a~~T~g~tgA  872 (952)
T KOG0735|consen  841 LEILQVLSNSLLKDT--DVDLECLAQKTDGFTGA  872 (952)
T ss_pred             HHHHHHHhhccCCcc--ccchHHHhhhcCCCchh
Confidence            777776654211111  11245677777776543

>PRK09183 transposase/IS protein; Provisional

Probab=97.15  E-value=0.00093  Score=63.75  Aligned_cols=26  Identities=35%  Similarity=0.344  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ...+.|+|++|+|||+||..++....
T Consensus       102 ~~~v~l~Gp~GtGKThLa~al~~~a~  127 (259)
T PRK09183        102 NENIVLLGPSGVGKTHLAIALGYEAV  127 (259)
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHHH
Confidence            35678999999999999999987754

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

Probab=97.15  E-value=0.0013  Score=68.95  Aligned_cols=75  Identities=23%  Similarity=0.322  Sum_probs=55.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHH-h
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERL-K  246 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l-~  246 (512)
                      +..+++.++|++|+||||||.-++++..     ..++=|++|...+...+-..|...+....              .+ .
T Consensus       324 P~kKilLL~GppGlGKTTLAHViAkqaG-----YsVvEINASDeRt~~~v~~kI~~avq~~s--------------~l~a  384 (877)
T KOG1969|consen  324 PPKKILLLCGPPGLGKTTLAHVIAKQAG-----YSVVEINASDERTAPMVKEKIENAVQNHS--------------VLDA  384 (877)
T ss_pred             CccceEEeecCCCCChhHHHHHHHHhcC-----ceEEEecccccccHHHHHHHHHHHHhhcc--------------cccc
Confidence            3468999999999999999999998765     34777889988888777777765543221              11 1


Q ss_pred             CCCeEEEEEeCCCCh
Q 010355          247 KEKKILVILDDIWTN  261 (512)
Q Consensus       247 ~~k~~LlVlDdv~~~  261 (512)
                      ..++..||+|.++-.
T Consensus       385 dsrP~CLViDEIDGa  399 (877)
T KOG1969|consen  385 DSRPVCLVIDEIDGA  399 (877)
T ss_pred             CCCcceEEEecccCC
Confidence            257889999998643

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

Probab=97.14  E-value=0.0037  Score=57.10  Aligned_cols=52  Identities=13%  Similarity=0.190  Sum_probs=38.8

Q ss_pred             cCccccccchHHHHHHHHH----hcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhc
Q 010355          146 KGYEAFESRMSTLNDVINA----LKNPDVHMIGAYGMAGVGKTMLVKEVARQAKAD  197 (512)
Q Consensus       146 ~~~~~~~gR~~~l~~l~~~----L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~  197 (512)
                      .....++|-+...+.|++.    +......-|.+||.-|+|||+|++++.+....+
T Consensus        57 i~L~~l~Gvd~qk~~L~~NT~~F~~G~pANnVLLwGaRGtGKSSLVKA~~~e~~~~  112 (287)
T COG2607          57 IDLADLVGVDRQKEALVRNTEQFAEGLPANNVLLWGARGTGKSSLVKALLNEYADE  112 (287)
T ss_pred             cCHHHHhCchHHHHHHHHHHHHHHcCCcccceEEecCCCCChHHHHHHHHHHHHhc
Confidence            3445577877777766653    334455678999999999999999999987743

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=97.14  E-value=0.0029  Score=59.23  Aligned_cols=53  Identities=21%  Similarity=0.190  Sum_probs=35.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCC
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGL  227 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~  227 (512)
                      ..++.|.|.+|+|||||+.+++.....+  -..++|++..  .+..++++.+ .+++.
T Consensus        24 g~~~~i~G~~G~GKTtl~~~~~~~~~~~--g~~~~yi~~e--~~~~~~~~~~-~~~g~   76 (230)
T PRK08533         24 GSLILIEGDESTGKSILSQRLAYGFLQN--GYSVSYVSTQ--LTTTEFIKQM-MSLGY   76 (230)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHhC--CCcEEEEeCC--CCHHHHHHHH-HHhCC
Confidence            4589999999999999987776655322  2345666633  3556666666 44443

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

Probab=97.13  E-value=0.0044  Score=65.27  Aligned_cols=130  Identities=20%  Similarity=0.279  Sum_probs=75.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCC
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKE  248 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  248 (512)
                      ..+.+.++|++|.|||.||+++++....  +|     +.+...    .++..   .+      ......+..++..-+..
T Consensus       275 ~~~giLl~GpPGtGKT~lAkava~~~~~--~f-----i~v~~~----~l~sk---~v------Gesek~ir~~F~~A~~~  334 (494)
T COG0464         275 PPKGVLLYGPPGTGKTLLAKAVALESRS--RF-----ISVKGS----ELLSK---WV------GESEKNIRELFEKARKL  334 (494)
T ss_pred             CCCeeEEECCCCCCHHHHHHHHHhhCCC--eE-----EEeeCH----HHhcc---cc------chHHHHHHHHHHHHHcC
Confidence            4568999999999999999999996552  23     222221    11110   00      11122344455555556


Q ss_pred             CeEEEEEeCCCChhh-------------hhhhCCCC----CCCCeEEEEEeCCcchhc----cccCCccceecCCCCHHH
Q 010355          249 KKILVILDDIWTNLD-------------LENVGIPF----GVRGCRVLMTARSQDVLS----SKMDCQNNFLIGVLNESE  307 (512)
Q Consensus       249 k~~LlVlDdv~~~~~-------------~~~l~~~~----~~~gs~iivTtR~~~v~~----~~~~~~~~~~l~~L~~~e  307 (512)
                      .+++|++|.+.....             ...+....    ...+..||-||.......    +...-...+.+.+-+..+
T Consensus       335 ~p~iiFiDEiDs~~~~r~~~~~~~~~r~~~~lL~~~d~~e~~~~v~vi~aTN~p~~ld~a~lR~gRfd~~i~v~~pd~~~  414 (494)
T COG0464         335 APSIIFIDEIDSLASGRGPSEDGSGRRVVGQLLTELDGIEKAEGVLVIAATNRPDDLDPALLRPGRFDRLIYVPLPDLEE  414 (494)
T ss_pred             CCcEEEEEchhhhhccCCCCCchHHHHHHHHHHHHhcCCCccCceEEEecCCCccccCHhhcccCccceEeecCCCCHHH
Confidence            899999999854311             12221111    134444555555443321    111224588889999999


Q ss_pred             HHHHHHHHhCC
Q 010355          308 ARDLFKKLVGD  318 (512)
Q Consensus       308 a~~Lf~~~~~~  318 (512)
                      ..+.|..+...
T Consensus       415 r~~i~~~~~~~  425 (494)
T COG0464         415 RLEIFKIHLRD  425 (494)
T ss_pred             HHHHHHHHhcc
Confidence            99999998863

>PTZ00494 tuzin-like protein; Provisional

Probab=97.13  E-value=0.055  Score=54.25  Aligned_cols=165  Identities=10%  Similarity=0.090  Sum_probs=98.6

Q ss_pred             ccccCccccccchHHHHHHHHH---hcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHH
Q 010355          143 TSIKGYEAFESRMSTLNDVINA---LKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQG  219 (512)
Q Consensus       143 ~~~~~~~~~~gR~~~l~~l~~~---L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~  219 (512)
                      ..+.....++.|+.+-..+.+.   +....++++++.|.-|.||++|.+........     ..++|.+...   ++-++
T Consensus       365 ~a~a~~~~~V~R~~eE~~vRqvL~qld~aHPRIvV~TG~~GcGKSslcRsAvrkE~~-----paV~VDVRg~---EDtLr  436 (664)
T PTZ00494        365 LAAAAEAFEVRREDEEALVRSVLTQMAPSHPRIVALAGGSGGGRCVPCRRAVRVEGV-----ALVHVDVGGT---EDTLR  436 (664)
T ss_pred             ccccccccccchhhHHHHHHHHHhhccCCCCcEEEEecCCCCCchHHHHHHHHHcCC-----CeEEEEecCC---cchHH
Confidence            3445667788998765544444   44668899999999999999999988776542     3567888765   45678


Q ss_pred             HHHHHhCCCCCCCCchHHHHHHHHHH------hCCCeEEEEEe--CCCChh-hhhhh-CCCCCCCCeEEEEEeCCcchh-
Q 010355          220 QIADKLGLKFYEESESGRARKLCERL------KKEKKILVILD--DIWTNL-DLENV-GIPFGVRGCRVLMTARSQDVL-  288 (512)
Q Consensus       220 ~i~~~l~~~~~~~~~~~~~~~l~~~l------~~~k~~LlVlD--dv~~~~-~~~~l-~~~~~~~gs~iivTtR~~~v~-  288 (512)
                      .+.+.||.+....-. ..+..+-+..      .+++.-+||+=  .-.+.. .++.. .+.....-|+|++---.+.+. 
T Consensus       437 sVVKALgV~nve~CG-DlLdFI~ea~~~A~~~~~g~~P~lVlkLREGssL~RVYnE~vaLacDrRlCHvv~EVplESLT~  515 (664)
T PTZ00494        437 SVVRALGVSNVEVCG-DLLGFVEEAMRGATVKASDGVPFLVMRLREGSDLGRVYGEVVSLVSDCQACHIVLAVPMKALTP  515 (664)
T ss_pred             HHHHHhCCCChhhhc-cHHHHHHHHHHHHHHhcCCCCCEEEEEeccCCcHHHHHHHHHHHHccchhheeeeechHhhhch
Confidence            888999887543211 1122222211      13444455543  222211 11111 122123446777644333221 


Q ss_pred             -ccccCCccceecCCCCHHHHHHHHHHHh
Q 010355          289 -SSKMDCQNNFLIGVLNESEARDLFKKLV  316 (512)
Q Consensus       289 -~~~~~~~~~~~l~~L~~~ea~~Lf~~~~  316 (512)
                       ....+....|.+++|+..+|.++..+.+
T Consensus       516 ~n~~LPRLDFy~VPnFSr~QAf~YtqH~l  544 (664)
T PTZ00494        516 LNVSSRRLDFYCIPPFSRRQAFAYAEHTL  544 (664)
T ss_pred             hhccCccceeEecCCcCHHHHHHHHhccc
Confidence             2234555789999999999999887765

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=97.12  E-value=0.0091  Score=58.86  Aligned_cols=152  Identities=13%  Similarity=0.118  Sum_probs=79.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcC---------------------CCCeEEEEEeCCCCCHHHHHHHHHHHhCC
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADK---------------------LFDEVVYAEVSQRPDVKKIQGQIADKLGL  227 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~---------------------~f~~~~wv~~~~~~~~~~ll~~i~~~l~~  227 (512)
                      -.+.+.++|+.|+|||++|..++...--..                     |.+ .+++........          -| 
T Consensus        20 ~~hA~Lf~G~~G~GK~~la~~~a~~llC~~~~~~~~~Cg~C~~C~~~~~~~HpD-~~~~~p~~~~~~----------~g-   87 (325)
T PRK08699         20 RPNAWLFAGKKGIGKTAFARFAAQALLCETPAPGHKPCGECMSCHLFGQGSHPD-FYEITPLSDEPE----------NG-   87 (325)
T ss_pred             cceEEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCcCHHHHHHhcCCCCC-EEEEeccccccc----------cc-
Confidence            346788999999999999999988753100                     111 112211000000          00 


Q ss_pred             CCCCCCchHHHHHHHHHHh----CCCeEEEEEeCCCCh--hh----hhhhCCCCCCCCeEEEEEeCCcc-hhccccCCcc
Q 010355          228 KFYEESESGRARKLCERLK----KEKKILVILDDIWTN--LD----LENVGIPFGVRGCRVLMTARSQD-VLSSKMDCQN  296 (512)
Q Consensus       228 ~~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~----~~~l~~~~~~~gs~iivTtR~~~-v~~~~~~~~~  296 (512)
                      .....-..+.+..+.+.+.    .+++-++|+|.+...  ..    +..+..|  ..++.+|++|.+.. +.........
T Consensus        88 ~~~~~I~id~iR~l~~~~~~~p~~~~~kV~iiEp~~~Ld~~a~naLLk~LEep--~~~~~~Ilvth~~~~ll~ti~SRc~  165 (325)
T PRK08699         88 RKLLQIKIDAVREIIDNVYLTSVRGGLRVILIHPAESMNLQAANSLLKVLEEP--PPQVVFLLVSHAADKVLPTIKSRCR  165 (325)
T ss_pred             ccCCCcCHHHHHHHHHHHhhCcccCCceEEEEechhhCCHHHHHHHHHHHHhC--cCCCEEEEEeCChHhChHHHHHHhh
Confidence            0000011223333433332    134445566887643  11    2223223  23566777777654 3333334457


Q ss_pred             ceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHH
Q 010355          297 NFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAI  343 (512)
Q Consensus       297 ~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai  343 (512)
                      .+.+.+++.+++.+.+... +.   ...     ...+..++|.|+.+
T Consensus       166 ~~~~~~~~~~~~~~~L~~~-~~---~~~-----~~~l~~~~g~p~~~  203 (325)
T PRK08699        166 KMVLPAPSHEEALAYLRER-GV---AEP-----EERLAFHSGAPLFD  203 (325)
T ss_pred             hhcCCCCCHHHHHHHHHhc-CC---CcH-----HHHHHHhCCChhhh
Confidence            8999999999999888654 11   111     11235789999653

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=97.11  E-value=0.0021  Score=62.86  Aligned_cols=89  Identities=20%  Similarity=0.266  Sum_probs=57.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhc----CCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCC----------Cch
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKAD----KLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEE----------SES  235 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~----~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~----------~~~  235 (512)
                      -.++-|+|++|+|||+|+.+++-.....    ..-..++||+....+++..+. +++..++......          +..
T Consensus        96 G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~-~~a~~~g~d~~~~l~~i~~~~~~~~e  174 (313)
T TIGR02238        96 MSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIR-AIAERFGVDPDAVLDNILYARAYTSE  174 (313)
T ss_pred             CeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHH-HHHHHcCCChHHhcCcEEEecCCCHH
Confidence            4788899999999999999887543211    112478999999888888765 4566666543210          111


Q ss_pred             ---HHHHHHHHHHhCCCeEEEEEeCCC
Q 010355          236 ---GRARKLCERLKKEKKILVILDDIW  259 (512)
Q Consensus       236 ---~~~~~l~~~l~~~k~~LlVlDdv~  259 (512)
                         ..+..+...+...+.-|||+|.+.
T Consensus       175 ~~~~~l~~l~~~i~~~~~~LvVIDSis  201 (313)
T TIGR02238       175 HQMELLDYLAAKFSEEPFRLLIVDSIM  201 (313)
T ss_pred             HHHHHHHHHHHHhhccCCCEEEEEcch
Confidence               122333334444456689999874

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.

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

Probab=97.11  E-value=0.0036  Score=58.55  Aligned_cols=49  Identities=24%  Similarity=0.315  Sum_probs=36.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcC----CCCeEEEEEeCCCCCHHHHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADK----LFDEVVYAEVSQRPDVKKIQ  218 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~----~f~~~~wv~~~~~~~~~~ll  218 (512)
                      -.++.|+|.+|+|||+|+.+++.......    .-..++|++....+....+.
T Consensus        19 g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~~~~~~rl~   71 (226)
T cd01393          19 GRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEGAFRPERLV   71 (226)
T ss_pred             CcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCCCCCHHHHH
Confidence            47899999999999999999987654221    01568899887776665443

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.

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

Probab=97.10  E-value=0.0022  Score=63.12  Aligned_cols=84  Identities=27%  Similarity=0.354  Sum_probs=58.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCC--CchHHHHHHHHHHhC
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEE--SESGRARKLCERLKK  247 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~--~~~~~~~~l~~~l~~  247 (512)
                      -.+|.|-|-+|||||||..+++.+...+.   .++||+-...  +.++ +--+..|+.+....  -....+..+...+.+
T Consensus        93 Gs~iLIgGdPGIGKSTLLLQva~~lA~~~---~vLYVsGEES--~~Qi-klRA~RL~~~~~~l~l~aEt~~e~I~~~l~~  166 (456)
T COG1066          93 GSVILIGGDPGIGKSTLLLQVAARLAKRG---KVLYVSGEES--LQQI-KLRADRLGLPTNNLYLLAETNLEDIIAELEQ  166 (456)
T ss_pred             ccEEEEccCCCCCHHHHHHHHHHHHHhcC---cEEEEeCCcC--HHHH-HHHHHHhCCCccceEEehhcCHHHHHHHHHh
Confidence            47899999999999999999999987542   6777765443  3222 22356677554321  122345667777777


Q ss_pred             CCeEEEEEeCCC
Q 010355          248 EKKILVILDDIW  259 (512)
Q Consensus       248 ~k~~LlVlDdv~  259 (512)
                      .++-|+|+|-+.
T Consensus       167 ~~p~lvVIDSIQ  178 (456)
T COG1066         167 EKPDLVVIDSIQ  178 (456)
T ss_pred             cCCCEEEEeccc
Confidence            789999999984

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

Probab=97.09  E-value=0.0061  Score=63.85  Aligned_cols=158  Identities=19%  Similarity=0.166  Sum_probs=87.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCC--CHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRP--DVKKIQGQIADKLGLKFYEESESGRARKLCERLK  246 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~--~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~  246 (512)
                      ..+.|.|.|+.|+|||+||+++++... +.....+.+++++.-.  .+..+++-+-.                .....+.
T Consensus       430 ~~~~Ill~G~~GsGKT~L~kal~~~~~-k~~~~hv~~v~Cs~l~~~~~e~iQk~l~~----------------vfse~~~  492 (952)
T KOG0735|consen  430 RHGNILLNGPKGSGKTNLVKALFDYYS-KDLIAHVEIVSCSTLDGSSLEKIQKFLNN----------------VFSEALW  492 (952)
T ss_pred             ccccEEEeCCCCCCHhHHHHHHHHHhc-cccceEEEEEechhccchhHHHHHHHHHH----------------HHHHHHh
Confidence            346789999999999999999999887 3455566677766432  23333322211                1112222


Q ss_pred             CCCeEEEEEeCCCChh--------h-----------hhhhCCCCCCCCe--EEEEEeCCcchhc----cccCCccceecC
Q 010355          247 KEKKILVILDDIWTNL--------D-----------LENVGIPFGVRGC--RVLMTARSQDVLS----SKMDCQNNFLIG  301 (512)
Q Consensus       247 ~~k~~LlVlDdv~~~~--------~-----------~~~l~~~~~~~gs--~iivTtR~~~v~~----~~~~~~~~~~l~  301 (512)
                       ..+-+|||||+....        +           +.++..-+...+.  ++|.|.....-..    ...--..++.|.
T Consensus       493 -~~PSiIvLDdld~l~~~s~~e~~q~~~~~~rla~flnqvi~~y~~~~~~ia~Iat~qe~qtl~~~L~s~~~Fq~~~~L~  571 (952)
T KOG0735|consen  493 -YAPSIIVLDDLDCLASASSNENGQDGVVSERLAAFLNQVIKIYLKRNRKIAVIATGQELQTLNPLLVSPLLFQIVIALP  571 (952)
T ss_pred             -hCCcEEEEcchhhhhccCcccCCcchHHHHHHHHHHHHHHHHHHccCcEEEEEEechhhhhcChhhcCccceEEEEecC
Confidence             368999999985321        1           1111111122233  4555554433221    111223577888


Q ss_pred             CCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCC-hhHHHH
Q 010355          302 VLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGL-PIAIVT  345 (512)
Q Consensus       302 ~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~Gl-PLai~~  345 (512)
                      ++...+-.++++..+.... .........-+..+|+|. |.-+.+
T Consensus       572 ap~~~~R~~IL~~~~s~~~-~~~~~~dLd~ls~~TEGy~~~DL~i  615 (952)
T KOG0735|consen  572 APAVTRRKEILTTIFSKNL-SDITMDDLDFLSVKTEGYLATDLVI  615 (952)
T ss_pred             CcchhHHHHHHHHHHHhhh-hhhhhHHHHHHHHhcCCccchhHHH
Confidence            8888888888877664222 111223344477888775 443333

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

Probab=97.08  E-value=0.0028  Score=56.81  Aligned_cols=74  Identities=26%  Similarity=0.329  Sum_probs=45.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCC
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKE  248 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  248 (512)
                      ...-+.|+|.+|+|||.||..+++....+  -..+.|++      ..+++..|-..-    ...    ....+.+.+.  
T Consensus        46 ~~~~l~l~G~~G~GKThLa~ai~~~~~~~--g~~v~f~~------~~~L~~~l~~~~----~~~----~~~~~~~~l~--  107 (178)
T PF01695_consen   46 NGENLILYGPPGTGKTHLAVAIANEAIRK--GYSVLFIT------ASDLLDELKQSR----SDG----SYEELLKRLK--  107 (178)
T ss_dssp             C--EEEEEESTTSSHHHHHHHHHHHHHHT--T--EEEEE------HHHHHHHHHCCH----CCT----THCHHHHHHH--
T ss_pred             cCeEEEEEhhHhHHHHHHHHHHHHHhccC--CcceeEee------cCceeccccccc----ccc----chhhhcCccc--
Confidence            34679999999999999999999876642  33456664      345555543221    111    1223455565  


Q ss_pred             CeEEEEEeCCCC
Q 010355          249 KKILVILDDIWT  260 (512)
Q Consensus       249 k~~LlVlDdv~~  260 (512)
                      +.=||||||+-.
T Consensus       108 ~~dlLilDDlG~  119 (178)
T PF01695_consen  108 RVDLLILDDLGY  119 (178)
T ss_dssp             TSSCEEEETCTS
T ss_pred             cccEecccccce
Confidence            346888999953

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.

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=97.08  E-value=0.0034  Score=62.06  Aligned_cols=89  Identities=19%  Similarity=0.219  Sum_probs=56.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhc----CCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCC----------CCch
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKAD----KLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYE----------ESES  235 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~----~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~----------~~~~  235 (512)
                      ..++-|+|.+|+|||+|+.+++-.....    ..-..++||+....+++..+.. +++.++.....          .+..
T Consensus       126 G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~-ia~~~g~d~~~~l~~I~~~~~~~~e  204 (344)
T PLN03187        126 RCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVP-IAERFGMDADAVLDNIIYARAYTYE  204 (344)
T ss_pred             CeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHH-HHHHcCCChhhhcCeEEEecCCCHH
Confidence            4788899999999999999987543211    1124789999999898887654 56666654321          0111


Q ss_pred             H---HHHHHHHHHhCCCeEEEEEeCCC
Q 010355          236 G---RARKLCERLKKEKKILVILDDIW  259 (512)
Q Consensus       236 ~---~~~~l~~~l~~~k~~LlVlDdv~  259 (512)
                      .   .+..+...+...+.-|||+|.+-
T Consensus       205 ~~~~~l~~l~~~i~~~~~~LvVIDSit  231 (344)
T PLN03187        205 HQYNLLLGLAAKMAEEPFRLLIVDSVI  231 (344)
T ss_pred             HHHHHHHHHHHHHHhcCCCEEEEeCcH
Confidence            1   12223333334456688999874

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.06  E-value=0.003  Score=70.46  Aligned_cols=105  Identities=21%  Similarity=0.242  Sum_probs=59.1

Q ss_pred             cccccchHHHHHHHHHhc-------CC--CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHH
Q 010355          149 EAFESRMSTLNDVINALK-------NP--DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQG  219 (512)
Q Consensus       149 ~~~~gR~~~l~~l~~~L~-------~~--~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~  219 (512)
                      ..++|.+..+..|...+.       ..  ...++.++|+.|+|||+||+.+++..-..  -...+-++.+.-.....+  
T Consensus       509 ~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~~~--~~~~~~~d~s~~~~~~~~--  584 (821)
T CHL00095        509 KRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYFFGS--EDAMIRLDMSEYMEKHTV--  584 (821)
T ss_pred             CcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCC--ccceEEEEchhccccccH--
Confidence            456788888888877664       11  13467899999999999999999875311  123444454432221111  


Q ss_pred             HHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCC
Q 010355          220 QIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWT  260 (512)
Q Consensus       220 ~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~  260 (512)
                        ..-+|.++.-. .......+.+.++.....+|+||++..
T Consensus       585 --~~l~g~~~gyv-g~~~~~~l~~~~~~~p~~VvllDeiek  622 (821)
T CHL00095        585 --SKLIGSPPGYV-GYNEGGQLTEAVRKKPYTVVLFDEIEK  622 (821)
T ss_pred             --HHhcCCCCccc-CcCccchHHHHHHhCCCeEEEECChhh
Confidence              11122221100 011122345555544446999999964

>PHA02244 ATPase-like protein

Probab=97.06  E-value=0.0075  Score=59.55  Aligned_cols=35  Identities=20%  Similarity=0.278  Sum_probs=26.1

Q ss_pred             HHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          159 NDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       159 ~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ..+..++..+  ..|.|+|++|+|||+||+++++...
T Consensus       110 ~ri~r~l~~~--~PVLL~GppGtGKTtLA~aLA~~lg  144 (383)
T PHA02244        110 ADIAKIVNAN--IPVFLKGGAGSGKNHIAEQIAEALD  144 (383)
T ss_pred             HHHHHHHhcC--CCEEEECCCCCCHHHHHHHHHHHhC
Confidence            3444555433  3467899999999999999998754

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=97.04  E-value=0.0027  Score=59.36  Aligned_cols=44  Identities=23%  Similarity=0.317  Sum_probs=34.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKK  216 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~  216 (512)
                      -.++.|+|.+|+|||+||.+++.....  ....++|++.. .++...
T Consensus        23 g~i~~i~G~~GsGKT~l~~~la~~~~~--~~~~v~yi~~e-~~~~~r   66 (225)
T PRK09361         23 GTITQIYGPPGSGKTNICLQLAVEAAK--NGKKVIYIDTE-GLSPER   66 (225)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHH--CCCeEEEEECC-CCCHHH
Confidence            479999999999999999999887653  24678899887 455444

>PRK06696 uridine kinase; Validated

Probab=97.04  E-value=0.00097  Score=62.26  Aligned_cols=44  Identities=20%  Similarity=0.299  Sum_probs=35.6

Q ss_pred             cchHHHHHHHHHhc---CCCceEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          153 SRMSTLNDVINALK---NPDVHMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       153 gR~~~l~~l~~~L~---~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      .|.+.+.+|.+.+.   ..+..+|+|.|.+|+||||||+.++.....
T Consensus         2 ~~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~~l~~   48 (223)
T PRK06696          2 SRKQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAEEIKK   48 (223)
T ss_pred             cHHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            35666777777664   456789999999999999999999988753

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

Probab=97.02  E-value=0.026  Score=52.82  Aligned_cols=206  Identities=12%  Similarity=0.157  Sum_probs=113.9

Q ss_pred             ccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhh----cCCCCeEEEEEeCCC----------C-
Q 010355          148 YEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKA----DKLFDEVVYAEVSQR----------P-  212 (512)
Q Consensus       148 ~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~----~~~f~~~~wv~~~~~----------~-  212 (512)
                      ...+.++.+.-..+......+..+-+.++|++|.||-|.+..+.+..-.    +-.-....|.+.+..          . 
T Consensus        12 l~~l~~~~e~~~~Lksl~~~~d~PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~~tpS~kklEistvsS~yH   91 (351)
T KOG2035|consen   12 LDELIYHEELANLLKSLSSTGDFPHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTFTTPSKKKLEISTVSSNYH   91 (351)
T ss_pred             hhhcccHHHHHHHHHHhcccCCCCeEEEECCCCCCchhhHHHHHHHHhCCCchheeeeeEEEecCCCceEEEEEecccce
Confidence            3345667776677776666677899999999999999998888776421    111223344433322          1 


Q ss_pred             ----------CHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeE-EEEEeCCCCh--hhhhhhCCCCC--CCCeE
Q 010355          213 ----------DVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKI-LVILDDIWTN--LDLENVGIPFG--VRGCR  277 (512)
Q Consensus       213 ----------~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~-LlVlDdv~~~--~~~~~l~~~~~--~~gs~  277 (512)
                                .-+-+.+.|++.++...+-.            ....++| ++|+-.++..  +.-..++....  ...+|
T Consensus        92 lEitPSDaG~~DRvViQellKevAQt~qie------------~~~qr~fKvvvi~ead~LT~dAQ~aLRRTMEkYs~~~R  159 (351)
T KOG2035|consen   92 LEITPSDAGNYDRVVIQELLKEVAQTQQIE------------TQGQRPFKVVVINEADELTRDAQHALRRTMEKYSSNCR  159 (351)
T ss_pred             EEeChhhcCcccHHHHHHHHHHHHhhcchh------------hccccceEEEEEechHhhhHHHHHHHHHHHHHHhcCce
Confidence                      11233344444332211100            0112445 4444444322  11112211101  45678


Q ss_pred             EEEEeCCcchh-ccccCCccceecCCCCHHHHHHHHHHHhCCCC-CCchhHHHHHHHHHHcCCChhHHHHHHHHhc--cC
Q 010355          278 VLMTARSQDVL-SSKMDCQNNFLIGVLNESEARDLFKKLVGDKI-ENNDLKSLAMNIVKACRGLPIAIVTIARALR--NK  353 (512)
Q Consensus       278 iivTtR~~~v~-~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~-~~~~~~~~~~~I~~~~~GlPLai~~ia~~L~--~~  353 (512)
                      +|+...+.... .......-.+++...++++....+++.+.... ..|  .+++.+|+++++|+-.-..++-..++  +.
T Consensus       160 lIl~cns~SriIepIrSRCl~iRvpaps~eeI~~vl~~v~~kE~l~lp--~~~l~rIa~kS~~nLRrAllmlE~~~~~n~  237 (351)
T KOG2035|consen  160 LILVCNSTSRIIEPIRSRCLFIRVPAPSDEEITSVLSKVLKKEGLQLP--KELLKRIAEKSNRNLRRALLMLEAVRVNNE  237 (351)
T ss_pred             EEEEecCcccchhHHhhheeEEeCCCCCHHHHHHHHHHHHHHhcccCc--HHHHHHHHHHhcccHHHHHHHHHHHHhccc
Confidence            77755433211 11123335788999999999999998875322 222  57899999999998654444444443  11


Q ss_pred             ---------CHHHHHHHHHHhcC
Q 010355          354 ---------NTFEWKSALRELTR  367 (512)
Q Consensus       354 ---------~~~~w~~~l~~l~~  367 (512)
                               +..+|.-++.++..
T Consensus       238 ~~~a~~~~i~~~dWe~~i~e~a~  260 (351)
T KOG2035|consen  238 PFTANSQVIPKPDWEIYIQEIAR  260 (351)
T ss_pred             cccccCCCCCCccHHHHHHHHHH
Confidence                     45579887776543

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

Probab=97.02  E-value=0.0041  Score=59.21  Aligned_cols=89  Identities=27%  Similarity=0.311  Sum_probs=55.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhc----CCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCC----------CCch
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKAD----KLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYE----------ESES  235 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~----~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~----------~~~~  235 (512)
                      ..+.=|+|.+|+|||.|+.+++-.....    ..-..++|++-...++...+. +|++..+.....          .+..
T Consensus        38 g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~-~i~~~~~~~~~~~l~~I~v~~~~~~~  116 (256)
T PF08423_consen   38 GSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQ-QIAERFGLDPEEILDNIFVIRVFDLE  116 (256)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHH-HHHHHTTS-HHHHHHTEEEEE-SSHH
T ss_pred             CcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHH-HHhhccccccchhhhceeeeecCCHH
Confidence            3688899999999999999887654321    123469999999989887765 566665433110          0111


Q ss_pred             ---HHHHHHHHHHhCCCeEEEEEeCCC
Q 010355          236 ---GRARKLCERLKKEKKILVILDDIW  259 (512)
Q Consensus       236 ---~~~~~l~~~l~~~k~~LlVlDdv~  259 (512)
                         ..+..+...+...+--|||+|.+-
T Consensus       117 ~l~~~L~~l~~~l~~~~ikLIVIDSIa  143 (256)
T PF08423_consen  117 ELLELLEQLPKLLSESKIKLIVIDSIA  143 (256)
T ss_dssp             HHHHHHHHHHHHHHHSCEEEEEEETSS
T ss_pred             HHHHHHHHHHhhccccceEEEEecchH
Confidence               122233333434566688899874

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 ....

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.00  E-value=0.0072  Score=60.11  Aligned_cols=89  Identities=16%  Similarity=0.227  Sum_probs=50.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCC-CCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhC
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQR-PDVKKIQGQIADKLGLKFYEESESGRARKLCERLKK  247 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~  247 (512)
                      +.++|+|+|++|+||||++..++.....+  -..+..++.... ....+-++..+..++.+.........+......+..
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~~L~~~--GkkVglI~aDt~RiaAvEQLk~yae~lgipv~v~~d~~~L~~aL~~lk~  317 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAWQFHGK--KKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKE  317 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHHHHHc--CCcEEEEecCCcchHHHHHHHHHhhhcCCcEEecCCHHHHHHHHHHHHh
Confidence            45799999999999999999998876532  123445554322 223333444455566554433333333344444432


Q ss_pred             -CCeEEEEEeCCC
Q 010355          248 -EKKILVILDDIW  259 (512)
Q Consensus       248 -~k~~LlVlDdv~  259 (512)
                       .+.=+|++|-.-
T Consensus       318 ~~~~DvVLIDTaG  330 (436)
T PRK11889        318 EARVDYILIDTAG  330 (436)
T ss_pred             ccCCCEEEEeCcc
Confidence             123477788763

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

Probab=96.98  E-value=0.029  Score=59.53  Aligned_cols=95  Identities=17%  Similarity=0.321  Sum_probs=64.7

Q ss_pred             CccccccchHHHHHHHHHhc---------CC---CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCH
Q 010355          147 GYEAFESRMSTLNDVINALK---------NP---DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDV  214 (512)
Q Consensus       147 ~~~~~~gR~~~l~~l~~~L~---------~~---~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  214 (512)
                      .+..+-|-++....|.+.+.         ..   ...-|.++|++|.|||-||++|+.....       -|++|..+   
T Consensus       670 ~WdDVGGLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATEcsL-------~FlSVKGP---  739 (953)
T KOG0736|consen  670 SWDDVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATECSL-------NFLSVKGP---  739 (953)
T ss_pred             chhcccCHHHHHHHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhhcee-------eEEeecCH---
Confidence            35556677777777776554         12   2457889999999999999999977653       25666543   


Q ss_pred             HHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCCh
Q 010355          215 KKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTN  261 (512)
Q Consensus       215 ~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~  261 (512)
                       +++..-   +      ......+..++++-++.++|+|+||.+++.
T Consensus       740 -ELLNMY---V------GqSE~NVR~VFerAR~A~PCVIFFDELDSl  776 (953)
T KOG0736|consen  740 -ELLNMY---V------GQSEENVREVFERARSAAPCVIFFDELDSL  776 (953)
T ss_pred             -HHHHHH---h------cchHHHHHHHHHHhhccCCeEEEecccccc
Confidence             222211   1      123345778888888889999999998654

>PRK05541 adenylylsulfate kinase; Provisional

Probab=96.98  E-value=0.0022  Score=57.39  Aligned_cols=37  Identities=30%  Similarity=0.481  Sum_probs=29.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEE
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAE  207 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~  207 (512)
                      ...+|.|.|++|+||||+|+.++.....  .+..++++.
T Consensus         6 ~~~~I~i~G~~GsGKst~a~~l~~~l~~--~~~~~~~~~   42 (176)
T PRK05541          6 NGYVIWITGLAGSGKTTIAKALYERLKL--KYSNVIYLD   42 (176)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHHH--cCCcEEEEe
Confidence            4468999999999999999999998863  355555553

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=96.95  E-value=0.057  Score=54.90  Aligned_cols=28  Identities=25%  Similarity=0.297  Sum_probs=24.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      ...+|.++|++|+||||++..++.....
T Consensus        99 ~~~vi~lvG~~GvGKTTtaaKLA~~l~~  126 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTCTKLAYYYQR  126 (429)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4689999999999999999999887653

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.

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=96.91  E-value=0.0041  Score=62.39  Aligned_cols=85  Identities=25%  Similarity=0.293  Sum_probs=54.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCC--CchHHHHHHHHHHhC
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEE--SESGRARKLCERLKK  247 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~--~~~~~~~~l~~~l~~  247 (512)
                      -.++.|.|.+|+|||||+.+++......  ...++|++...  +..++. .-+..++......  .....+..+.+.+..
T Consensus        82 GslvLI~G~pG~GKStLllq~a~~~a~~--g~~VlYvs~EE--s~~qi~-~Ra~rlg~~~~~l~l~~e~~le~I~~~i~~  156 (372)
T cd01121          82 GSVILIGGDPGIGKSTLLLQVAARLAKR--GGKVLYVSGEE--SPEQIK-LRADRLGISTENLYLLAETNLEDILASIEE  156 (372)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHhc--CCeEEEEECCc--CHHHHH-HHHHHcCCCcccEEEEccCcHHHHHHHHHh
Confidence            4689999999999999999999876532  34677887654  333332 2245566543221  011224455556655


Q ss_pred             CCeEEEEEeCCC
Q 010355          248 EKKILVILDDIW  259 (512)
Q Consensus       248 ~k~~LlVlDdv~  259 (512)
                      .++-+||+|.+.
T Consensus       157 ~~~~lVVIDSIq  168 (372)
T cd01121         157 LKPDLVIIDSIQ  168 (372)
T ss_pred             cCCcEEEEcchH
Confidence            577899999984

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.

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.91  E-value=0.0074  Score=62.38  Aligned_cols=88  Identities=23%  Similarity=0.281  Sum_probs=52.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCC-CCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCC
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQ-RPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKE  248 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  248 (512)
                      ..+|+|+|++|+||||++..++.....+.....+..++... .......++.....++...........+..+++.+.  
T Consensus       350 G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLIdtDtyRigA~EQLk~ya~iLgv~v~~a~d~~~L~~aL~~l~--  427 (559)
T PRK12727        350 GGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGREQLHSYGRQLGIAVHEADSAESLLDLLERLR--  427 (559)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEecccccccHHHHHHHhhcccCceeEecCcHHHHHHHHHHhc--
Confidence            47999999999999999999887765332223455555432 222333444444555554433333333444444553  


Q ss_pred             CeEEEEEeCCC
Q 010355          249 KKILVILDDIW  259 (512)
Q Consensus       249 k~~LlVlDdv~  259 (512)
                      ..=+||+|..-
T Consensus       428 ~~DLVLIDTaG  438 (559)
T PRK12727        428 DYKLVLIDTAG  438 (559)
T ss_pred             cCCEEEecCCC
Confidence            34688889874

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=96.90  E-value=0.0061  Score=60.03  Aligned_cols=57  Identities=25%  Similarity=0.384  Sum_probs=41.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcC----CCCeEEEEEeCCCCCHHHHHHHHHHHhCC
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADK----LFDEVVYAEVSQRPDVKKIQGQIADKLGL  227 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~----~f~~~~wv~~~~~~~~~~ll~~i~~~l~~  227 (512)
                      ..++-|+|.+|+|||+|+.+++.......    .-..++||+....+++..+. +++..++.
T Consensus        95 g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~-~~~~~~gl  155 (310)
T TIGR02236        95 QAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIM-QMAEARGL  155 (310)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHH-HHHHHcCC
Confidence            57889999999999999999987653211    11378999998888877654 44555554

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.

>PRK13531 regulatory ATPase RavA; Provisional

Probab=96.90  E-value=0.0027  Score=64.84  Aligned_cols=49  Identities=12%  Similarity=0.206  Sum_probs=40.1

Q ss_pred             ccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCC
Q 010355          150 AFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLF  200 (512)
Q Consensus       150 ~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f  200 (512)
                      .|+||++.++.+...+..+  ..|.|.|++|+|||+||+.+.........|
T Consensus        21 ~i~gre~vI~lll~aalag--~hVLL~GpPGTGKT~LAraLa~~~~~~~~F   69 (498)
T PRK13531         21 GLYERSHAIRLCLLAALSG--ESVFLLGPPGIAKSLIARRLKFAFQNARAF   69 (498)
T ss_pred             hccCcHHHHHHHHHHHccC--CCEEEECCCChhHHHHHHHHHHHhcccCcc
Confidence            4889999999998888754  568899999999999999999876533334

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=96.89  E-value=0.011  Score=58.66  Aligned_cols=101  Identities=19%  Similarity=0.183  Sum_probs=61.1

Q ss_pred             HHHHHHHHhcCC----CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCC-CCCHHHHHHHHHHHhCCCCCC
Q 010355          157 TLNDVINALKNP----DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQ-RPDVKKIQGQIADKLGLKFYE  231 (512)
Q Consensus       157 ~l~~l~~~L~~~----~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~ll~~i~~~l~~~~~~  231 (512)
                      .+..+..++..+    +.++|.++|+.|+||||-...++.+......=..+..|+... .....+-++.-+.-++.+...
T Consensus       186 ~l~~~~~~~~~~~~~~~~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~v  265 (407)
T COG1419         186 KLRKLLLSLIENLIVEQKRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPLEV  265 (407)
T ss_pred             HHHHHHHhhccccccccCcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHHHHHHhCCceEE
Confidence            344555555543    479999999999999965444444433111223455665543 235566677778888887766


Q ss_pred             CCchHHHHHHHHHHhCCCeEEEEEeCCC
Q 010355          232 ESESGRARKLCERLKKEKKILVILDDIW  259 (512)
Q Consensus       232 ~~~~~~~~~l~~~l~~~k~~LlVlDdv~  259 (512)
                      ......+......+.. . =+|.+|-+-
T Consensus       266 v~~~~el~~ai~~l~~-~-d~ILVDTaG  291 (407)
T COG1419         266 VYSPKELAEAIEALRD-C-DVILVDTAG  291 (407)
T ss_pred             ecCHHHHHHHHHHhhc-C-CEEEEeCCC
Confidence            5555555555555553 2 566677664

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.88  E-value=0.0075  Score=59.76  Aligned_cols=89  Identities=16%  Similarity=0.183  Sum_probs=57.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCC-CCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhC
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQR-PDVKKIQGQIADKLGLKFYEESESGRARKLCERLKK  247 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~  247 (512)
                      +.++++|+|+.|+||||++..++.....+  -..+.++++... .....-++.....++.+.........+......+..
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA~~l~~~--g~~V~lItaDtyR~gAveQLk~yae~lgvpv~~~~dp~dL~~al~~l~~  282 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLGWQLLKQ--NRTVGFITTDTFRSGAVEQFQGYADKLDVELIVATSPAELEEAVQYMTY  282 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc--CCeEEEEeCCccCccHHHHHHHHhhcCCCCEEecCCHHHHHHHHHHHHh
Confidence            45899999999999999999998776533  235666766432 234556677777777654433333334444444431


Q ss_pred             -CCeEEEEEeCCC
Q 010355          248 -EKKILVILDDIW  259 (512)
Q Consensus       248 -~k~~LlVlDdv~  259 (512)
                       +..=+|++|-.-
T Consensus       283 ~~~~D~VLIDTAG  295 (407)
T PRK12726        283 VNCVDHILIDTVG  295 (407)
T ss_pred             cCCCCEEEEECCC
Confidence             234678888874

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.87  E-value=0.0014  Score=56.06  Aligned_cols=28  Identities=36%  Similarity=0.419  Sum_probs=24.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcC
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADK  198 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~  198 (512)
                      .-|+|.|++|+|||||++.+++..+.+.
T Consensus         6 mki~ITG~PGvGKtTl~~ki~e~L~~~g   33 (179)
T COG1618           6 MKIFITGRPGVGKTTLVLKIAEKLREKG   33 (179)
T ss_pred             eEEEEeCCCCccHHHHHHHHHHHHHhcC
Confidence            4689999999999999999999887653

>cd01394 radB RadB

Probab=96.86  E-value=0.0047  Score=57.43  Aligned_cols=41  Identities=22%  Similarity=0.311  Sum_probs=32.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCC
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRP  212 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~  212 (512)
                      -.++.|+|.+|+|||||+.+++.....  .-..++|++....+
T Consensus        19 g~i~~i~G~~GsGKT~l~~~~a~~~~~--~g~~v~yi~~e~~~   59 (218)
T cd01394          19 GTVTQVYGPPGTGKTNIAIQLAVETAG--QGKKVAYIDTEGLS   59 (218)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHh--cCCeEEEEECCCCC
Confidence            578999999999999999999887653  23467888765544

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

>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=96.86  E-value=0.0037  Score=56.46  Aligned_cols=109  Identities=16%  Similarity=0.185  Sum_probs=60.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCC----------------CCch
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYE----------------ESES  235 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~----------------~~~~  235 (512)
                      ++.|.|++|+|||+|+.+++......  -..++|++...  +...+...+ .++|.....                .+..
T Consensus         1 ~~li~G~~G~GKT~l~~~~~~~~~~~--g~~v~~~s~e~--~~~~~~~~~-~~~g~~~~~l~~~g~l~~~d~~~~~~s~~   75 (187)
T cd01124           1 STLLSGGPGTGKTTFALQFLYAGLAR--GEPGLYVTLEE--SPEELIENA-ESLGWDLERLEDEGLLAIVDADPDEIGPA   75 (187)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHHHC--CCcEEEEECCC--CHHHHHHHH-HHcCCChHHHHhcCCeEEEecCccccchh
Confidence            36899999999999999988765422  34577887654  455554443 333332110                0000


Q ss_pred             ------HHHHHHHHHHhCCCeEEEEEeCCCChhh---------hhhhCCCCCCCCeEEEEEeCCc
Q 010355          236 ------GRARKLCERLKKEKKILVILDDIWTNLD---------LENVGIPFGVRGCRVLMTARSQ  285 (512)
Q Consensus       236 ------~~~~~l~~~l~~~k~~LlVlDdv~~~~~---------~~~l~~~~~~~gs~iivTtR~~  285 (512)
                            .....+...+...++-++|+|.+.....         +..+...+...|..+|+|+...
T Consensus        76 ~~~~~~~~~~~i~~~~~~~~~~~lviD~~~~~~~~~~~~~~~~i~~l~~~l~~~g~tvi~v~~~~  140 (187)
T cd01124          76 ESSLRLELIQRLKDAIEEFKAKRVVIDSVSGLLLMEQSTARLEIRRLLFALKRFGVTTLLTSEQS  140 (187)
T ss_pred             hhhhhHHHHHHHHHHHHHhCCCEEEEeCcHHHhhcChHHHHHHHHHHHHHHHHCCCEEEEEeccc
Confidence                  1123444444444678999999853211         1111111123466788887654

A related protein is found in archaea.

>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=96.85  E-value=0.14  Score=51.32  Aligned_cols=60  Identities=25%  Similarity=0.381  Sum_probs=42.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEe-CCCCCHHHHHHHHHHHhCCCCC
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEV-SQRPDVKKIQGQIADKLGLKFY  230 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~-~~~~~~~~ll~~i~~~l~~~~~  230 (512)
                      .+.+|.++|.-|+||||.+..+++.++.+ .+ .+.-|++ -..+...+-++.+..+++.+..
T Consensus        99 ~P~vImmvGLQGsGKTTt~~KLA~~lkk~-~~-kvllVaaD~~RpAA~eQL~~La~q~~v~~f  159 (451)
T COG0541          99 PPTVILMVGLQGSGKTTTAGKLAKYLKKK-GK-KVLLVAADTYRPAAIEQLKQLAEQVGVPFF  159 (451)
T ss_pred             CCeEEEEEeccCCChHhHHHHHHHHHHHc-CC-ceEEEecccCChHHHHHHHHHHHHcCCcee
Confidence            46789999999999999999999988753 22 2223332 2334556667788888876643

>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=96.82  E-value=0.12  Score=50.68  Aligned_cols=47  Identities=17%  Similarity=0.192  Sum_probs=34.0

Q ss_pred             ceecCCCCHHHHHHHHHHHhCCCCCC--chhHHHHHHHHHHcCCChhHH
Q 010355          297 NFLIGVLNESEARDLFKKLVGDKIEN--NDLKSLAMNIVKACRGLPIAI  343 (512)
Q Consensus       297 ~~~l~~L~~~ea~~Lf~~~~~~~~~~--~~~~~~~~~I~~~~~GlPLai  343 (512)
                      .+++++++.+|+..++.-+.......  ..-+...+++.-..+|+|.-+
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            78999999999999999877432221  223445667777779999754

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).

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

Probab=96.81  E-value=0.011  Score=56.35  Aligned_cols=92  Identities=23%  Similarity=0.337  Sum_probs=58.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCC-CHHHHHHHHHHHhCCC-------CCCCCch-----
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRP-DVKKIQGQIADKLGLK-------FYEESES-----  235 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~ll~~i~~~l~~~-------~~~~~~~-----  235 (512)
                      .-.-++|.|.+|+|||||++.+++....+ +-+.++++-+++.. ...+++..+...-...       ....+..     
T Consensus        68 ~GQr~~If~~~G~GKTtLa~~i~~~i~~~-~~~~~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~~  146 (274)
T cd01133          68 KGGKIGLFGGAGVGKTVLIMELINNIAKA-HGGYSVFAGVGERTREGNDLYHEMKESGVLSKTALVYGQMNEPPGARARV  146 (274)
T ss_pred             cCCEEEEecCCCCChhHHHHHHHHHHHhc-CCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHH
Confidence            34678999999999999999999988743 22456677776654 4455666554432111       0111111     


Q ss_pred             -HHHHHHHHHHh-C-CCeEEEEEeCCCCh
Q 010355          236 -GRARKLCERLK-K-EKKILVILDDIWTN  261 (512)
Q Consensus       236 -~~~~~l~~~l~-~-~k~~LlVlDdv~~~  261 (512)
                       .....+.+++. + ++.+||++|++...
T Consensus       147 ~~~a~~~AEyfr~~~g~~Vl~~~Dsltr~  175 (274)
T cd01133         147 ALTGLTMAEYFRDEEGQDVLLFIDNIFRF  175 (274)
T ss_pred             HHHHHHHHHHHHHhcCCeEEEEEeChhHH
Confidence             12334556664 3 79999999999643

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.

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=96.80  E-value=0.0076  Score=59.51  Aligned_cols=58  Identities=24%  Similarity=0.371  Sum_probs=42.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCC----CCeEEEEEeCCCCCHHHHHHHHHHHhCC
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKL----FDEVVYAEVSQRPDVKKIQGQIADKLGL  227 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~----f~~~~wv~~~~~~~~~~ll~~i~~~l~~  227 (512)
                      ...++-|+|++|+|||+|+.+++........    -..++||+....+++..+.+ ++..++.
T Consensus       101 ~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~-~~~~~g~  162 (317)
T PRK04301        101 TQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQ-MAEALGL  162 (317)
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHH-HHHHcCC
Confidence            3578889999999999999999876432111    14789999988888776654 4455554

>PTZ00035 Rad51 protein; Provisional

Probab=96.79  E-value=0.008  Score=59.58  Aligned_cols=89  Identities=18%  Similarity=0.215  Sum_probs=54.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhc----CCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCC----------CCch
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKAD----KLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYE----------ESES  235 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~----~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~----------~~~~  235 (512)
                      ..++.|+|.+|+|||+|+.+++-.....    ..-..++|++....+++.. +.++++.++.....          .+..
T Consensus       118 G~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~~f~~er-i~~ia~~~g~~~~~~l~nI~~~~~~~~e  196 (337)
T PTZ00035        118 GSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPER-IVQIAERFGLDPEDVLDNIAYARAYNHE  196 (337)
T ss_pred             CeEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEccCCCCHHH-HHHHHHHhCCChHhHhhceEEEccCCHH
Confidence            5788999999999999999887544310    1123577999887777766 44556665543211          1111


Q ss_pred             H---HHHHHHHHHhCCCeEEEEEeCCC
Q 010355          236 G---RARKLCERLKKEKKILVILDDIW  259 (512)
Q Consensus       236 ~---~~~~l~~~l~~~k~~LlVlDdv~  259 (512)
                      .   .+..+...+...+.-|||+|.+.
T Consensus       197 ~~~~~l~~~~~~l~~~~~~lvVIDSit  223 (337)
T PTZ00035        197 HQMQLLSQAAAKMAEERFALLIVDSAT  223 (337)
T ss_pred             HHHHHHHHHHHHhhccCccEEEEECcH
Confidence            1   12222333334456788999874

>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=96.78  E-value=0.0065  Score=54.17  Aligned_cols=54  Identities=22%  Similarity=0.314  Sum_probs=33.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCC-CCHHHHHHHHHHHhCC
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQR-PDVKKIQGQIADKLGL  227 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-~~~~~ll~~i~~~l~~  227 (512)
                      ++.++|++|+||||++..++......  -..++.++.... ......+...+...+.
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~~~~--g~~v~~i~~D~~~~~~~~~l~~~~~~~~~   56 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYLKKK--GKKVLLVAADTYRPAAIEQLRVLGEQVGV   56 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHC--CCcEEEEEcCCCChHHHHHHHHhcccCCe
Confidence            67899999999999999999877643  123444544322 2333444444555554

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.

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.78  E-value=0.0063  Score=61.20  Aligned_cols=85  Identities=21%  Similarity=0.262  Sum_probs=47.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCC-CCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCC
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQ-RPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKE  248 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  248 (512)
                      ..+++|+|++|+||||++.+++........+ .+..++... .......++..+..++.+....   .....+...+...
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~~~~~~~G~-~V~Lit~Dt~R~aA~eQLk~yAe~lgvp~~~~---~~~~~l~~~l~~~  298 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAAKYFLHMGK-SVSLYTTDNYRIAAIEQLKRYADTMGMPFYPV---KDIKKFKETLARD  298 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHhcCC-eEEEecccchhhhHHHHHHHHHHhcCCCeeeh---HHHHHHHHHHHhC
Confidence            4689999999999999999998755322122 233333322 1223344455555666543221   1133444444433


Q ss_pred             CeEEEEEeCC
Q 010355          249 KKILVILDDI  258 (512)
Q Consensus       249 k~~LlVlDdv  258 (512)
                      ..=+||+|-.
T Consensus       299 ~~D~VLIDTa  308 (432)
T PRK12724        299 GSELILIDTA  308 (432)
T ss_pred             CCCEEEEeCC
Confidence            3356888843

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=96.77  E-value=0.0079  Score=56.80  Aligned_cols=114  Identities=18%  Similarity=0.183  Sum_probs=60.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhhhcCC----------CCeEEEEEeCCCC-CHHHHHHHHHHHhCCCCC----------
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAKADKL----------FDEVVYAEVSQRP-DVKKIQGQIADKLGLKFY----------  230 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~~~~~----------f~~~~wv~~~~~~-~~~~ll~~i~~~l~~~~~----------  230 (512)
                      +..|+|++|+|||+|+.+++........          -..+++++..... .+..-+..+...++....          
T Consensus         3 ~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~Ed~~~~i~~Rl~~i~~~~~~~~~~~rl~~~~g~   82 (239)
T cd01125           3 VSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAEDPREEIHRRLEAILQHLEPDDAGDRLFIDSGR   82 (239)
T ss_pred             eeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEECCCCHHHHHHHHHHHHhhcCCcCcccceEEeccC
Confidence            5679999999999999999876543211          1235566554432 223333334443321100          


Q ss_pred             -------C---CCchHHHHHHHHHHhCCCeEEEEEeCCCC--------hhhhhhhCCCC----CCCCeEEEEEeCCc
Q 010355          231 -------E---ESESGRARKLCERLKKEKKILVILDDIWT--------NLDLENVGIPF----GVRGCRVLMTARSQ  285 (512)
Q Consensus       231 -------~---~~~~~~~~~l~~~l~~~k~~LlVlDdv~~--------~~~~~~l~~~~----~~~gs~iivTtR~~  285 (512)
                             .   ......+..+.+.+...++-+||+|.+..        ......+...+    ...|+.||+++...
T Consensus        83 ~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~lvviDpl~~~~~~~~~d~~~~~~~~~~L~~~a~~~g~avl~v~H~~  159 (239)
T cd01125          83 IQPISIAREGRIIVVPEFERIIEQLLIRRIDLVVIDPLVSFHGVSENDNGAMDAVIKALRRIAAQTGAAILLVHHVR  159 (239)
T ss_pred             CCceecccCCcccccHHHHHHHHHHHhcCCCEEEECChHHhCCCCcCCHHHHHHHHHHHHHHHHHhCCEEEEEeccC
Confidence                   0   01123345555555444678999997631        11222211111    14577888888755

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.

>cd01131 PilT Pilus retraction ATPase PilT

Probab=96.77  E-value=0.003  Score=57.77  Aligned_cols=107  Identities=8%  Similarity=0.086  Sum_probs=57.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHH---HHHHHhCCCCCCCCchHHHHHHHHHHhC
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQG---QIADKLGLKFYEESESGRARKLCERLKK  247 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~---~i~~~l~~~~~~~~~~~~~~~l~~~l~~  247 (512)
                      ++|.|+|+.|+||||++..++.....  .....++.- ..+..  ....   .++.+-..   ..........+...++.
T Consensus         2 GlilI~GptGSGKTTll~~ll~~~~~--~~~~~i~t~-e~~~E--~~~~~~~~~i~q~~v---g~~~~~~~~~i~~aLr~   73 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDYINK--NKTHHILTI-EDPIE--FVHESKRSLINQREV---GLDTLSFENALKAALRQ   73 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhhh--cCCcEEEEE-cCCcc--ccccCccceeeeccc---CCCccCHHHHHHHHhcC
Confidence            57899999999999999988776642  233333322 11111  0000   01111000   01112233445555554


Q ss_pred             CCeEEEEEeCCCChhhhhhhCCCCCCCCeEEEEEeCCcch
Q 010355          248 EKKILVILDDIWTNLDLENVGIPFGVRGCRVLMTARSQDV  287 (512)
Q Consensus       248 ~k~~LlVlDdv~~~~~~~~l~~~~~~~gs~iivTtR~~~v  287 (512)
                       .+=+|++|.+.+...+...... ...|..++.|+....+
T Consensus        74 -~pd~ii~gEird~e~~~~~l~~-a~~G~~v~~t~Ha~~~  111 (198)
T cd01131          74 -DPDVILVGEMRDLETIRLALTA-AETGHLVMSTLHTNSA  111 (198)
T ss_pred             -CcCEEEEcCCCCHHHHHHHHHH-HHcCCEEEEEecCCcH
Confidence             5779999999876654442111 1345567888776654

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.

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=96.77  E-value=0.0066  Score=59.65  Aligned_cols=59  Identities=19%  Similarity=0.221  Sum_probs=41.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhc---C-CCCeEEEEEeCCCCCHHHHHHHHHHHhCCC
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKAD---K-LFDEVVYAEVSQRPDVKKIQGQIADKLGLK  228 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~---~-~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~  228 (512)
                      ...++.|+|.+|+|||+|+.+++......   . .-..++|++....++... +.++++.++..
T Consensus        95 ~g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~f~~~R-l~~ia~~~~~~  157 (316)
T TIGR02239        95 TGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPER-LLAIAERYGLN  157 (316)
T ss_pred             CCeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCCCCHHH-HHHHHHHcCCC
Confidence            35789999999999999999987643211   1 123679999888777776 44455665543

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).

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

Probab=96.77  E-value=0.019  Score=53.26  Aligned_cols=91  Identities=20%  Similarity=0.294  Sum_probs=56.6

Q ss_pred             cccccchHHHHHHHHHhc-------------CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHH
Q 010355          149 EAFESRMSTLNDVINALK-------------NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVK  215 (512)
Q Consensus       149 ~~~~gR~~~l~~l~~~L~-------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  215 (512)
                      ..+-|=.+++++|.+...             -...+-|.++|++|.|||-+|++|+++-..  .|-.++     .     
T Consensus       177 ~dvggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravanrtda--cfirvi-----g-----  244 (435)
T KOG0729|consen  177 SDVGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANRTDA--CFIRVI-----G-----  244 (435)
T ss_pred             ccccchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhcccCc--eEEeeh-----h-----
Confidence            344566677777665433             134577889999999999999999987552  232222     1     


Q ss_pred             HHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCC
Q 010355          216 KIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIW  259 (512)
Q Consensus       216 ~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~  259 (512)
                         ..+.+..-     ......+..+++..+..|-|+|+||.+.
T Consensus       245 ---selvqkyv-----gegarmvrelf~martkkaciiffdeid  280 (435)
T KOG0729|consen  245 ---SELVQKYV-----GEGARMVRELFEMARTKKACIIFFDEID  280 (435)
T ss_pred             ---HHHHHHHh-----hhhHHHHHHHHHHhcccceEEEEeeccc
Confidence               11111110     1122345566666667788999999874

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

Probab=96.76  E-value=0.005  Score=58.62  Aligned_cols=28  Identities=32%  Similarity=0.377  Sum_probs=25.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhc
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKAD  197 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~  197 (512)
                      .++|.++|++|.|||+|++.+++...++
T Consensus       177 NRliLlhGPPGTGKTSLCKaLaQkLSIR  204 (423)
T KOG0744|consen  177 NRLILLHGPPGTGKTSLCKALAQKLSIR  204 (423)
T ss_pred             eeEEEEeCCCCCChhHHHHHHHHhheee
Confidence            4899999999999999999999988764

>PRK06547 hypothetical protein; Provisional

Probab=96.76  E-value=0.0023  Score=56.93  Aligned_cols=36  Identities=22%  Similarity=0.208  Sum_probs=29.2

Q ss_pred             HHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          160 DVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       160 ~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .+...+......+|+|.|++|+||||||+.++....
T Consensus         5 ~~~~~~~~~~~~~i~i~G~~GsGKTt~a~~l~~~~~   40 (172)
T PRK06547          5 LIAARLCGGGMITVLIDGRSGSGKTTLAGALAARTG   40 (172)
T ss_pred             HHHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHhC
Confidence            344445567788999999999999999999988754

>PRK14974 cell division protein FtsY; Provisional

Probab=96.75  E-value=0.015  Score=57.38  Aligned_cols=90  Identities=24%  Similarity=0.259  Sum_probs=51.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCC-CCCHHHHHHHHHHHhCCCCCCC----CchHHHHHHHH
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQ-RPDVKKIQGQIADKLGLKFYEE----SESGRARKLCE  243 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~ll~~i~~~l~~~~~~~----~~~~~~~~l~~  243 (512)
                      +..+|.++|++|+||||++..++...... .+ .++.+.... ......-++..+..++.+....    .....+....+
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~~l~~~-g~-~V~li~~Dt~R~~a~eqL~~~a~~lgv~v~~~~~g~dp~~v~~~ai~  216 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAYYLKKN-GF-SVVIAAGDTFRAGAIEQLEEHAERLGVKVIKHKYGADPAAVAYDAIE  216 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHHHc-CC-eEEEecCCcCcHHHHHHHHHHHHHcCCceecccCCCCHHHHHHHHHH
Confidence            46899999999999999999998877643 23 344444321 1233345566777777654321    11121222222


Q ss_pred             HHhCCCeEEEEEeCCCC
Q 010355          244 RLKKEKKILVILDDIWT  260 (512)
Q Consensus       244 ~l~~~k~~LlVlDdv~~  260 (512)
                      .......=+|++|-.-.
T Consensus       217 ~~~~~~~DvVLIDTaGr  233 (336)
T PRK14974        217 HAKARGIDVVLIDTAGR  233 (336)
T ss_pred             HHHhCCCCEEEEECCCc
Confidence            22222223899998743

>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=96.75  E-value=0.0036  Score=53.54  Aligned_cols=43  Identities=26%  Similarity=0.335  Sum_probs=32.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHH
Q 010355          173 IGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQ  220 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~  220 (512)
                      |.|+|++|+|||+||+.+++...     ....-+.++...+..+++..
T Consensus         2 vlL~G~~G~GKt~l~~~la~~~~-----~~~~~i~~~~~~~~~dl~g~   44 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAALLG-----RPVIRINCSSDTTEEDLIGS   44 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHHT-----CEEEEEE-TTTSTHHHHHCE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhh-----cceEEEEeccccccccceee
Confidence            68999999999999999998873     23445677777777776543

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.

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=96.75  E-value=0.0063  Score=60.21  Aligned_cols=58  Identities=21%  Similarity=0.283  Sum_probs=42.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhc----CCCCeEEEEEeCCCCCHHHHHHHHHHHhCCC
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKAD----KLFDEVVYAEVSQRPDVKKIQGQIADKLGLK  228 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~----~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~  228 (512)
                      ..++-|+|.+|+|||+|+..++-.....    ..-..++|++....+++..+ .++++.++..
T Consensus       123 g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl-~qia~~~~~~  184 (342)
T PLN03186        123 GSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRL-IQIAERFGLN  184 (342)
T ss_pred             ceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHH-HHHHHHcCCC
Confidence            5788899999999999999887543211    11236999999998888776 4566766654

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=96.75  E-value=0.013  Score=56.00  Aligned_cols=124  Identities=18%  Similarity=0.161  Sum_probs=67.3

Q ss_pred             HHHHHHhc-CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhC-CCCCC-----
Q 010355          159 NDVINALK-NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLG-LKFYE-----  231 (512)
Q Consensus       159 ~~l~~~L~-~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~-~~~~~-----  231 (512)
                      +.++..|. ......++|+|+.|+|||||.+.++.....   ..+.+++.-..-... +-..++..... .+...     
T Consensus        99 ~~~l~~l~~~~~~~~~~i~g~~g~GKttl~~~l~~~~~~---~~G~i~~~g~~v~~~-d~~~ei~~~~~~~~q~~~~~r~  174 (270)
T TIGR02858        99 DKLLPYLVRNNRVLNTLIISPPQCGKTTLLRDLARILST---GISQLGLRGKKVGIV-DERSEIAGCVNGVPQHDVGIRT  174 (270)
T ss_pred             HHHHHHHHhCCCeeEEEEEcCCCCCHHHHHHHHhCccCC---CCceEEECCEEeecc-hhHHHHHHHhcccccccccccc
Confidence            33444443 444578999999999999999999977652   233444321111000 11122322221 11110     


Q ss_pred             --CCchHHHHHHHHHHhCCCeEEEEEeCCCChhhhhhhCCCCCCCCeEEEEEeCCcch
Q 010355          232 --ESESGRARKLCERLKKEKKILVILDDIWTNLDLENVGIPFGVRGCRVLMTARSQDV  287 (512)
Q Consensus       232 --~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~~~~l~~~~~~~gs~iivTtR~~~v  287 (512)
                        .........+...++...+-+|++|.+.....+..+.... ..|..||+||....+
T Consensus       175 ~v~~~~~k~~~~~~~i~~~~P~villDE~~~~e~~~~l~~~~-~~G~~vI~ttH~~~~  231 (270)
T TIGR02858       175 DVLDGCPKAEGMMMLIRSMSPDVIVVDEIGREEDVEALLEAL-HAGVSIIATAHGRDV  231 (270)
T ss_pred             cccccchHHHHHHHHHHhCCCCEEEEeCCCcHHHHHHHHHHH-hCCCEEEEEechhHH
Confidence              0111122334444554578999999997666555442222 357789999987554

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.

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=96.74  E-value=0.013  Score=54.83  Aligned_cols=29  Identities=21%  Similarity=0.339  Sum_probs=25.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      ....+++|.|++|+|||||++.+....+.
T Consensus        31 ~~~~iigi~G~~GsGKTTl~~~L~~~l~~   59 (229)
T PRK09270         31 QRRTIVGIAGPPGAGKSTLAEFLEALLQQ   59 (229)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            56789999999999999999999988764

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

Probab=96.74  E-value=0.055  Score=49.81  Aligned_cols=73  Identities=27%  Similarity=0.348  Sum_probs=46.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhC
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKK  247 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~  247 (512)
                      +..+-|.++|++|+|||.||+++++.-..  .|     +.+-..    ++.+   +.||..      ...+..+++..+.
T Consensus       187 dpprgvllygppg~gktml~kava~~t~a--~f-----irvvgs----efvq---kylgeg------prmvrdvfrlake  246 (408)
T KOG0727|consen  187 DPPRGVLLYGPPGTGKTMLAKAVANHTTA--AF-----IRVVGS----EFVQ---KYLGEG------PRMVRDVFRLAKE  246 (408)
T ss_pred             CCCcceEEeCCCCCcHHHHHHHHhhccch--he-----eeeccH----HHHH---HHhccC------cHHHHHHHHHHhc
Confidence            35678899999999999999999987653  23     333221    1111   122321      2344555555556


Q ss_pred             CCeEEEEEeCCCC
Q 010355          248 EKKILVILDDIWT  260 (512)
Q Consensus       248 ~k~~LlVlDdv~~  260 (512)
                      +-+.+|++|.+..
T Consensus       247 napsiifideida  259 (408)
T KOG0727|consen  247 NAPSIIFIDEIDA  259 (408)
T ss_pred             cCCcEEEeehhhh
Confidence            7889999998853

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=96.74  E-value=0.013  Score=55.00  Aligned_cols=39  Identities=23%  Similarity=0.325  Sum_probs=30.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCC
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQ  210 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~  210 (512)
                      -.++.|.|.+|+|||+|+.+++.....  .-..++|++...
T Consensus        20 G~~~~i~G~~G~GKT~l~~~~~~~~~~--~g~~~~~is~e~   58 (229)
T TIGR03881        20 GFFVAVTGEPGTGKTIFCLHFAYKGLR--DGDPVIYVTTEE   58 (229)
T ss_pred             CeEEEEECCCCCChHHHHHHHHHHHHh--cCCeEEEEEccC
Confidence            478999999999999999998765432  245678887644

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.

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

Probab=96.74  E-value=0.0016  Score=55.84  Aligned_cols=44  Identities=16%  Similarity=0.280  Sum_probs=30.5

Q ss_pred             ccchHHHHHHHHHhc--CCCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          152 ESRMSTLNDVINALK--NPDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       152 ~gR~~~l~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      +|+-..++++.+.+.  ......|.|+|..|+||+++|+.++....
T Consensus         1 vG~S~~~~~l~~~l~~~a~~~~pvli~GE~GtGK~~~A~~lh~~~~   46 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLAKSSSPVLITGEPGTGKSLLARALHRYSG   46 (138)
T ss_dssp             --SCHHHHHHHHHHHHHHCSSS-EEEECCTTSSHHHHHHCCHHTTT
T ss_pred             CCCCHHHHHHHHHHHHHhCCCCcEEEEcCCCCCHHHHHHHHHhhcC
Confidence            355556666665554  23446678999999999999999887654

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

Probab=96.74  E-value=0.0061  Score=57.15  Aligned_cols=117  Identities=20%  Similarity=0.239  Sum_probs=66.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCC-----CCCHHHHHHHHHHHhCCCCC-------CCCchH
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQ-----RPDVKKIQGQIADKLGLKFY-------EESESG  236 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-----~~~~~~ll~~i~~~l~~~~~-------~~~~~~  236 (512)
                      ...+++|+|.+|+|||||++.+..-...   -.+.+++.-..     .....+-..+++..+|++..       +.+..+
T Consensus        38 ~ge~~glVGESG~GKSTlgr~i~~L~~p---t~G~i~f~g~~i~~~~~~~~~~~v~elL~~Vgl~~~~~~ryPhelSGGQ  114 (268)
T COG4608          38 EGETLGLVGESGCGKSTLGRLILGLEEP---TSGEILFEGKDITKLSKEERRERVLELLEKVGLPEEFLYRYPHELSGGQ  114 (268)
T ss_pred             CCCEEEEEecCCCCHHHHHHHHHcCcCC---CCceEEEcCcchhhcchhHHHHHHHHHHHHhCCCHHHhhcCCcccCchh
Confidence            4478999999999999999999987653   23344433221     22234455666777775421       112222


Q ss_pred             HHH-HHHHHHhCCCeEEEEEeCCCChhhh------hhhCCCCC-CCCeEEEEEeCCcchhc
Q 010355          237 RAR-KLCERLKKEKKILVILDDIWTNLDL------ENVGIPFG-VRGCRVLMTARSQDVLS  289 (512)
Q Consensus       237 ~~~-~l~~~l~~~k~~LlVlDdv~~~~~~------~~l~~~~~-~~gs~iivTtR~~~v~~  289 (512)
                      ... .+.+.|. -++-|||.|..-+..+.      -.+..-+. ..|...|+.|.+-.+..
T Consensus       115 rQRi~IARALa-l~P~liV~DEpvSaLDvSiqaqIlnLL~dlq~~~~lt~lFIsHDL~vv~  174 (268)
T COG4608         115 RQRIGIARALA-LNPKLIVADEPVSALDVSVQAQILNLLKDLQEELGLTYLFISHDLSVVR  174 (268)
T ss_pred             hhhHHHHHHHh-hCCcEEEecCchhhcchhHHHHHHHHHHHHHHHhCCeEEEEEEEHHhhh
Confidence            222 2333443 47899999987543221      11111111 34566777777766653

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=96.73  E-value=0.0043  Score=55.85  Aligned_cols=24  Identities=17%  Similarity=0.235  Sum_probs=21.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      +|.|+|++|+||||+|+.++....
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~~~   24 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVENFG   24 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHcC
Confidence            578999999999999999988664

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.

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=96.72  E-value=0.0022  Score=54.90  Aligned_cols=45  Identities=24%  Similarity=0.421  Sum_probs=36.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCC
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKF  229 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~  229 (512)
                      +|.|.|++|+||||+|+.+++...-.       .+      +...+++++++..|+..
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~gl~-------~v------saG~iFR~~A~e~gmsl   46 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHLGLK-------LV------SAGTIFREMARERGMSL   46 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHhCCc-------ee------eccHHHHHHHHHcCCCH
Confidence            68999999999999999999987632       12      33478899999988764

>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]

Probab=96.71  E-value=0.0085  Score=58.14  Aligned_cols=41  Identities=24%  Similarity=0.404  Sum_probs=33.9

Q ss_pred             cccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHH
Q 010355          151 FESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVA  191 (512)
Q Consensus       151 ~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~  191 (512)
                      +-+|..+-.--+++|.++....|.+.|.+|+|||.||.+..
T Consensus       226 i~prn~eQ~~ALdlLld~dI~lV~L~G~AGtGKTlLALaAg  266 (436)
T COG1875         226 IRPRNAEQRVALDLLLDDDIDLVSLGGKAGTGKTLLALAAG  266 (436)
T ss_pred             cCcccHHHHHHHHHhcCCCCCeEEeeccCCccHhHHHHHHH
Confidence            44566666667788889999999999999999999887654

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=96.70  E-value=0.083  Score=51.35  Aligned_cols=162  Identities=10%  Similarity=0.053  Sum_probs=90.9

Q ss_pred             HHHHHHhcCC-CceEEEEEcCCCCcHHHHHHHHHHhh--------hhcCCCCeEEEEEe-CCCCCHHHHHHHHHHHhCCC
Q 010355          159 NDVINALKNP-DVHMIGAYGMAGVGKTMLVKEVARQA--------KADKLFDEVVYAEV-SQRPDVKKIQGQIADKLGLK  228 (512)
Q Consensus       159 ~~l~~~L~~~-~~~vi~I~G~gGiGKTtLa~~v~~~~--------~~~~~f~~~~wv~~-~~~~~~~~ll~~i~~~l~~~  228 (512)
                      ..+.+.+..+ -.++..++|..|.||+++|..+.+..        ....+.+.+.++.. +......++. .++..+...
T Consensus         6 ~~l~~~i~~~~l~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d~~g~~i~vd~Ir-~l~~~~~~~   84 (299)
T PRK07132          6 KFLDNSATQNKISHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDIFDKDLSKSEFL-SAINKLYFS   84 (299)
T ss_pred             HHHHHHHHhCCCCeEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEeccCCCcCCHHHHH-HHHHHhccC
Confidence            4445555544 35777899999999999999998876        22222323444432 2223333333 344443322


Q ss_pred             CCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh--hhh----hhCCCCCCCCeEEEEEeCCc-chhccccCCccceecC
Q 010355          229 FYEESESGRARKLCERLKKEKKILVILDDIWTNL--DLE----NVGIPFGVRGCRVLMTARSQ-DVLSSKMDCQNNFLIG  301 (512)
Q Consensus       229 ~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~--~~~----~l~~~~~~~gs~iivTtR~~-~v~~~~~~~~~~~~l~  301 (512)
                      ..               ..+.+-++|+|++....  ..+    .+.-|  .+++.+|++|.+. .+..........+++.
T Consensus        85 ~~---------------~~~~~KvvII~~~e~m~~~a~NaLLK~LEEP--p~~t~~il~~~~~~kll~TI~SRc~~~~f~  147 (299)
T PRK07132         85 SF---------------VQSQKKILIIKNIEKTSNSLLNALLKTIEEP--PKDTYFLLTTKNINKVLPTIVSRCQVFNVK  147 (299)
T ss_pred             Cc---------------ccCCceEEEEecccccCHHHHHHHHHHhhCC--CCCeEEEEEeCChHhChHHHHhCeEEEECC
Confidence            11               01466788888886432  222    22222  4566677655443 3333334556789999


Q ss_pred             CCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHH
Q 010355          302 VLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVT  345 (512)
Q Consensus       302 ~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~  345 (512)
                      +++..+....+... +   .++   +.+..++...+|.=.|+..
T Consensus       148 ~l~~~~l~~~l~~~-~---~~~---~~a~~~a~~~~~~~~a~~~  184 (299)
T PRK07132        148 EPDQQKILAKLLSK-N---KEK---EYNWFYAYIFSNFEQAEKY  184 (299)
T ss_pred             CCCHHHHHHHHHHc-C---CCh---hHHHHHHHHcCCHHHHHHH
Confidence            99999998877664 2   111   3355566666663344444

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.70  E-value=0.0086  Score=60.23  Aligned_cols=89  Identities=17%  Similarity=0.124  Sum_probs=54.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcC--CCCeEEEEEeCCC-CCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHH
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADK--LFDEVVYAEVSQR-PDVKKIQGQIADKLGLKFYEESESGRARKLCERL  245 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~--~f~~~~wv~~~~~-~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l  245 (512)
                      ..++|.++|+.|+||||.+..++.......  .-..+..+++... .....-++..+..++.+.........+......+
T Consensus       173 ~~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~~~~~~~~l~~~L~~~  252 (388)
T PRK12723        173 KKRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPVKAIESFKDLKEEITQS  252 (388)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcceEeeCcHHHHHHHHHHh
Confidence            357999999999999999999987765321  1234555555432 2233346666777777644333333333333333


Q ss_pred             hCCCeEEEEEeCCC
Q 010355          246 KKEKKILVILDDIW  259 (512)
Q Consensus       246 ~~~k~~LlVlDdv~  259 (512)
                        .+.-+|++|-.-
T Consensus       253 --~~~DlVLIDTaG  264 (388)
T PRK12723        253 --KDFDLVLVDTIG  264 (388)
T ss_pred             --CCCCEEEEcCCC
Confidence              245688889874

>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=96.69  E-value=0.0098  Score=55.27  Aligned_cols=24  Identities=25%  Similarity=0.389  Sum_probs=21.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      +|+|.|.+|+||||||+.+.....
T Consensus         1 IigI~G~sGSGKTTla~~L~~~l~   24 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQALLS   24 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHHHh
Confidence            589999999999999999998775

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>PF12061 DUF3542: Protein of unknown function (DUF3542); InterPro: IPR021929 R1 is a gene for resistance to late blight, the most destructive disease in potato cultivation worldwide

Probab=96.69  E-value=0.0043  Score=58.48  Aligned_cols=100  Identities=10%  Similarity=0.061  Sum_probs=67.1

Q ss_pred             hhhhhhhcchhchH-HhHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHHHHHHhccccccc-c
Q 010355           18 HPIIHPFAYCYNYK-SNLEKLKNEVQKLRGAKESVQQKIDDAKRSGEDIEQRVENWLITADEILDAAARIIEGTEDTT-N   95 (512)
Q Consensus        18 ~~l~~~~~~~~~~~-~~~~~l~~~~~~L~~~l~~i~~~l~~a~~~~~~~~~~~~~wl~~vr~~~~d~ed~ld~~~~~~-~   95 (512)
                      ..+.+.+..+.+.+ ..+..++.+++-++.+++.+|.||.......+..-...+.+..++...||++|.++|-+.... +
T Consensus       299 dFlL~NLkdfq~rysdSlaflKnQiqvIQ~elesLqpFLk~V~ee~~nkh~~~ed~a~~ii~kAyevEYVVDaCi~k~~P  378 (402)
T PF12061_consen  299 DFLLKNLKDFQGRYSDSLAFLKNQIQVIQTELESLQPFLKHVVEEPHNKHDTNEDCATQIIRKAYEVEYVVDACISKSVP  378 (402)
T ss_pred             HHHHhhHHHHhccccchHHHHHHHHHHHHHHHHHhhHHHHHHHhccchhhhhhhhHHHHHHHHHhheeeeeehhhcCCCc
Confidence            44444444444333 336789999999999999999999986444222334599999999999999999999765443 2


Q ss_pred             cCCCChhHhhhHHHHHHHHHHHH
Q 010355           96 RLCPNLNTRYQVSKKAAREVKAA  118 (512)
Q Consensus        96 ~~~~~~~~~~~~~~~i~~~~~~l  118 (512)
                      .||. ..+-+.+..+|.-+++++
T Consensus       379 ~Wcl-~~WL~dIieei~~ik~~i  400 (402)
T PF12061_consen  379 HWCL-ERWLLDIIEEITCIKAKI  400 (402)
T ss_pred             HHHH-HHHHHHHHHHHHHHHHHh
Confidence            2331 233344555565555554

The R1 gene belongs to the class of plant genes for pathogen resistance that have a leucine zipper motif, a putative nucleotide binding domain and a leucine-rich repeat domain []. Most proteins matching this entry are found associated with PF00931 from PFAM.

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=96.68  E-value=0.0076  Score=63.09  Aligned_cols=86  Identities=19%  Similarity=0.244  Sum_probs=58.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCC----------------C
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYE----------------E  232 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~----------------~  232 (512)
                      .-.++.|.|++|+|||||+.+++.....+  -..++|++...  +..++.... +.+|.+...                .
T Consensus       262 ~gs~~li~G~~G~GKt~l~~~f~~~~~~~--ge~~~y~s~eE--s~~~i~~~~-~~lg~~~~~~~~~g~l~~~~~~p~~~  336 (484)
T TIGR02655       262 KDSIILATGATGTGKTLLVSKFLENACAN--KERAILFAYEE--SRAQLLRNA-YSWGIDFEEMEQQGLLKIICAYPESA  336 (484)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHC--CCeEEEEEeeC--CHHHHHHHH-HHcCCChHHHhhCCcEEEEEcccccC
Confidence            34789999999999999999999877532  34667776554  455666554 555543211                1


Q ss_pred             CchHHHHHHHHHHhCCCeEEEEEeCCC
Q 010355          233 SESGRARKLCERLKKEKKILVILDDIW  259 (512)
Q Consensus       233 ~~~~~~~~l~~~l~~~k~~LlVlDdv~  259 (512)
                      .....+..+.+.+...++-++|+|.+.
T Consensus       337 ~~~~~~~~i~~~i~~~~~~~vvIDsi~  363 (484)
T TIGR02655       337 GLEDHLQIIKSEIADFKPARIAIDSLS  363 (484)
T ss_pred             ChHHHHHHHHHHHHHcCCCEEEEcCHH
Confidence            124456667777765567788999885

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.

>PRK05973 replicative DNA helicase; Provisional

Probab=96.68  E-value=0.018  Score=53.82  Aligned_cols=112  Identities=20%  Similarity=0.165  Sum_probs=61.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCC--------CchHHHHHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEE--------SESGRARKL  241 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~--------~~~~~~~~l  241 (512)
                      ..++.|.|.+|+|||+|+.+++......  -..++|++....  ..++...+. +++......        ........+
T Consensus        64 Gsl~LIaG~PG~GKT~lalqfa~~~a~~--Ge~vlyfSlEes--~~~i~~R~~-s~g~d~~~~~~~~~~d~~d~~~~~~i  138 (237)
T PRK05973         64 GDLVLLGARPGHGKTLLGLELAVEAMKS--GRTGVFFTLEYT--EQDVRDRLR-ALGADRAQFADLFEFDTSDAICADYI  138 (237)
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHHHHHhc--CCeEEEEEEeCC--HHHHHHHHH-HcCCChHHhccceEeecCCCCCHHHH
Confidence            3688999999999999999998766432  345677766553  455555543 233321110        000011122


Q ss_pred             HHHHh-CCCeEEEEEeCCCChh------hhhh----hCCCCCCCCeEEEEEeCCcc
Q 010355          242 CERLK-KEKKILVILDDIWTNL------DLEN----VGIPFGVRGCRVLMTARSQD  286 (512)
Q Consensus       242 ~~~l~-~~k~~LlVlDdv~~~~------~~~~----l~~~~~~~gs~iivTtR~~~  286 (512)
                      ...+. ..+.-++|+|.+....      .+..    +.......|..||+|+....
T Consensus       139 i~~l~~~~~~~lVVIDsLq~l~~~~~~~el~~~~~~Lk~~Ak~~gitvIl~sQl~r  194 (237)
T PRK05973        139 IARLASAPRGTLVVIDYLQLLDQRREKPDLSVQVRALKSFARERGLIIVFISQIDR  194 (237)
T ss_pred             HHHHHHhhCCCEEEEEcHHHHhhcccchhHHHHHHHHHHHHHhCCCeEEEEecCcc
Confidence            33332 2234699999974221      1111    11111256788999887553

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=96.68  E-value=0.013  Score=55.07  Aligned_cols=86  Identities=16%  Similarity=0.177  Sum_probs=54.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCC-----------------
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYE-----------------  231 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~-----------------  231 (512)
                      ...++.|+|.+|+|||+|+.+++.....  .-..++|++...  ++..+++++ .+++.....                 
T Consensus        24 ~g~~~~i~G~~GsGKt~l~~~~~~~~~~--~g~~~~y~~~e~--~~~~~~~~~-~~~g~~~~~~~~~g~l~i~~~~~~~~   98 (234)
T PRK06067         24 FPSLILIEGDHGTGKSVLSQQFVYGALK--QGKKVYVITTEN--TSKSYLKQM-ESVKIDISDFFLWGYLRIFPLNTEGF   98 (234)
T ss_pred             CCcEEEEECCCCCChHHHHHHHHHHHHh--CCCEEEEEEcCC--CHHHHHHHH-HHCCCChhHHHhCCCceEEecccccc
Confidence            3578999999999999999999765432  245788888865  445666654 334432110                 


Q ss_pred             ----CCchHHHHHHHHHHhCCCeEEEEEeCCC
Q 010355          232 ----ESESGRARKLCERLKKEKKILVILDDIW  259 (512)
Q Consensus       232 ----~~~~~~~~~l~~~l~~~k~~LlVlDdv~  259 (512)
                          .........+...+...++-++|+|.+.
T Consensus        99 ~~~~~~~~~ll~~l~~~i~~~~~~~iviDs~t  130 (234)
T PRK06067         99 EWNSTLANKLLELIIEFIKSKREDVIIIDSLT  130 (234)
T ss_pred             ccCcchHHHHHHHHHHHHHhcCCCEEEEecHH
Confidence                1112344555555554466789999875

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

Probab=96.67  E-value=0.0088  Score=52.80  Aligned_cols=27  Identities=22%  Similarity=0.335  Sum_probs=23.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      -..+.|+|++|.|||||.+.+|...+.
T Consensus        28 Gef~fl~GpSGAGKSTllkLi~~~e~p   54 (223)
T COG2884          28 GEFVFLTGPSGAGKSTLLKLIYGEERP   54 (223)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhhcC
Confidence            467899999999999999999987653

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=96.66  E-value=0.012  Score=56.67  Aligned_cols=28  Identities=18%  Similarity=0.151  Sum_probs=23.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ....+|+|.|..|+||||||+.+.....
T Consensus        60 ~~p~IIGIaG~~GSGKSTlar~L~~ll~   87 (290)
T TIGR00554        60 KIPYIISIAGSVAVGKSTTARILQALLS   87 (290)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            4568999999999999999988766554

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.

>PRK07667 uridine kinase; Provisional

Probab=96.65  E-value=0.0029  Score=57.57  Aligned_cols=38  Identities=29%  Similarity=0.535  Sum_probs=29.2

Q ss_pred             HHHHHHhc--CCCceEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          159 NDVINALK--NPDVHMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       159 ~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      +.|.+.+.  ..+..+|+|.|.+|+||||+|+.+......
T Consensus         4 ~~~~~~~~~~~~~~~iIgI~G~~gsGKStla~~L~~~l~~   43 (193)
T PRK07667          4 NELINIMKKHKENRFILGIDGLSRSGKTTFVANLKENMKQ   43 (193)
T ss_pred             HHHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            34444444  345589999999999999999999987753

>PRK10867 signal recognition particle protein; Provisional

Probab=96.64  E-value=0.011  Score=60.18  Aligned_cols=28  Identities=29%  Similarity=0.368  Sum_probs=24.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      ...+|.++|++|+||||++..++.....
T Consensus        99 ~p~vI~~vG~~GsGKTTtaakLA~~l~~  126 (433)
T PRK10867         99 PPTVIMMVGLQGAGKTTTAGKLAKYLKK  126 (433)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHHH
Confidence            4689999999999999999888876653

>PRK11823 DNA repair protein RadA; Provisional

Probab=96.63  E-value=0.0078  Score=62.12  Aligned_cols=85  Identities=25%  Similarity=0.318  Sum_probs=54.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCC--CchHHHHHHHHHHhC
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEE--SESGRARKLCERLKK  247 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~--~~~~~~~~l~~~l~~  247 (512)
                      -.++.|.|.+|+|||||+.+++......  -..++|++...  +..++... +..++......  ........+.+.+..
T Consensus        80 Gs~~lI~G~pG~GKTtL~lq~a~~~a~~--g~~vlYvs~Ee--s~~qi~~r-a~rlg~~~~~l~~~~e~~l~~i~~~i~~  154 (446)
T PRK11823         80 GSVVLIGGDPGIGKSTLLLQVAARLAAA--GGKVLYVSGEE--SASQIKLR-AERLGLPSDNLYLLAETNLEAILATIEE  154 (446)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHhc--CCeEEEEEccc--cHHHHHHH-HHHcCCChhcEEEeCCCCHHHHHHHHHh
Confidence            4689999999999999999998876522  34678887654  33444332 45565432210  011123455555655


Q ss_pred             CCeEEEEEeCCC
Q 010355          248 EKKILVILDDIW  259 (512)
Q Consensus       248 ~k~~LlVlDdv~  259 (512)
                      .++-+||+|.+.
T Consensus       155 ~~~~lVVIDSIq  166 (446)
T PRK11823        155 EKPDLVVIDSIQ  166 (446)
T ss_pred             hCCCEEEEechh
Confidence            567799999984

>TIGR01817 nifA Nif-specific regulatory protein

Probab=96.62  E-value=0.021  Score=60.72  Aligned_cols=62  Identities=11%  Similarity=0.190  Sum_probs=43.9

Q ss_pred             CccccccchHHHHHHHHHhc--CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCC
Q 010355          147 GYEAFESRMSTLNDVINALK--NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQ  210 (512)
Q Consensus       147 ~~~~~~gR~~~l~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~  210 (512)
                      ....++|....+.++.+.+.  ......|.|+|..|+|||++|+.+++.....  -...+.|++..
T Consensus       194 ~~~~liG~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~lA~~ih~~s~r~--~~pfv~i~c~~  257 (534)
T TIGR01817       194 KEDGIIGKSPAMRQVVDQARVVARSNSTVLLRGESGTGKELIAKAIHYLSPRA--KRPFVKVNCAA  257 (534)
T ss_pred             ccCceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCccHHHHHHHHHHhCCCC--CCCeEEeecCC
Confidence            34578999988888887665  2334567899999999999999998865421  12334455544

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.

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=96.62  E-value=0.0098  Score=56.83  Aligned_cols=39  Identities=21%  Similarity=0.394  Sum_probs=30.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCC
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQ  210 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~  210 (512)
                      ..++.|.|.+|+|||+|+.+++.....+  -..++|++...
T Consensus        36 gs~~lI~G~pGtGKT~l~~qf~~~~a~~--Ge~vlyis~Ee   74 (259)
T TIGR03878        36 YSVINITGVSDTGKSLMVEQFAVTQASR--GNPVLFVTVES   74 (259)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHHhC--CCcEEEEEecC
Confidence            4789999999999999999987765422  34678888764

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

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=96.62  E-value=0.0027  Score=65.84  Aligned_cols=48  Identities=15%  Similarity=0.299  Sum_probs=41.3

Q ss_pred             cccccchHHHHHHHHHhc------CCCceEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          149 EAFESRMSTLNDVINALK------NPDVHMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       149 ~~~~gR~~~l~~l~~~L~------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      ..++|-++.+++|+..|.      ....+++.++|++|+||||||+.+++....
T Consensus        76 ~d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~le~  129 (644)
T PRK15455         76 EEFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSLMER  129 (644)
T ss_pred             hcccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHHHHh
Confidence            357899999999999883      456689999999999999999999987753

>TIGR00959 ffh signal recognition particle protein

Probab=96.60  E-value=0.016  Score=59.20  Aligned_cols=27  Identities=30%  Similarity=0.305  Sum_probs=23.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .+.++.++|++|+||||++..++....
T Consensus        98 ~p~vi~~vG~~GsGKTTtaakLA~~l~  124 (428)
T TIGR00959        98 PPTVILMVGLQGSGKTTTCGKLAYYLK  124 (428)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHH
Confidence            457999999999999999999887754

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.

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

Probab=96.59  E-value=0.0018  Score=54.36  Aligned_cols=22  Identities=45%  Similarity=0.745  Sum_probs=20.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      |+|.|.+|+||||||+.+....
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            6899999999999999999885

...

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=96.58  E-value=0.014  Score=56.09  Aligned_cols=88  Identities=19%  Similarity=0.211  Sum_probs=49.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCC-CCHHHHHHHHHHHhCCCCCC----CCchHHH-HHHH
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQR-PDVKKIQGQIADKLGLKFYE----ESESGRA-RKLC  242 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-~~~~~ll~~i~~~l~~~~~~----~~~~~~~-~~l~  242 (512)
                      ..+++.++|++|+||||++..++......  -..+.+++.... .....-+...+...+.+...    .+..... ..+.
T Consensus        71 ~~~vi~l~G~~G~GKTTt~akLA~~l~~~--g~~V~li~~D~~r~~a~~ql~~~~~~~~i~~~~~~~~~dp~~~~~~~l~  148 (272)
T TIGR00064        71 KPNVILFVGVNGVGKTTTIAKLANKLKKQ--GKSVLLAAGDTFRAAAIEQLEEWAKRLGVDVIKQKEGADPAAVAFDAIQ  148 (272)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhc--CCEEEEEeCCCCCHHHHHHHHHHHHhCCeEEEeCCCCCCHHHHHHHHHH
Confidence            45899999999999999999998877532  235666665431 12233344455555544211    1111211 2222


Q ss_pred             HHHhCCCeEEEEEeCCC
Q 010355          243 ERLKKEKKILVILDDIW  259 (512)
Q Consensus       243 ~~l~~~k~~LlVlDdv~  259 (512)
                      .... ...=++++|-.-
T Consensus       149 ~~~~-~~~D~ViIDT~G  164 (272)
T TIGR00064       149 KAKA-RNIDVVLIDTAG  164 (272)
T ss_pred             HHHH-CCCCEEEEeCCC
Confidence            2222 334578888764

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.

>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=96.57  E-value=0.012  Score=57.38  Aligned_cols=84  Identities=17%  Similarity=0.240  Sum_probs=52.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCC------CCchHHHHHHHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYE------ESESGRARKLCE  243 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~------~~~~~~~~~l~~  243 (512)
                      -+++-|+|+.|+||||||.+++......  -..++|+.....+++     ..+..+|.+...      ....+.+..+..
T Consensus        53 G~ivEi~G~~ssGKttLaL~~ia~~q~~--g~~~a~ID~e~~ld~-----~~a~~lGvdl~rllv~~P~~~E~al~~~e~  125 (322)
T PF00154_consen   53 GRIVEIYGPESSGKTTLALHAIAEAQKQ--GGICAFIDAEHALDP-----EYAESLGVDLDRLLVVQPDTGEQALWIAEQ  125 (322)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHHT--T-EEEEEESSS---H-----HHHHHTT--GGGEEEEE-SSHHHHHHHHHH
T ss_pred             CceEEEeCCCCCchhhhHHHHHHhhhcc--cceeEEecCcccchh-----hHHHhcCccccceEEecCCcHHHHHHHHHH
Confidence            4799999999999999999998876532  467889998876655     345556654332      222333333333


Q ss_pred             HHhCCCeEEEEEeCCCC
Q 010355          244 RLKKEKKILVILDDIWT  260 (512)
Q Consensus       244 ~l~~~k~~LlVlDdv~~  260 (512)
                      .++.+.--++|+|-|-.
T Consensus       126 lirsg~~~lVVvDSv~a  142 (322)
T PF00154_consen  126 LIRSGAVDLVVVDSVAA  142 (322)
T ss_dssp             HHHTTSESEEEEE-CTT
T ss_pred             HhhcccccEEEEecCcc
Confidence            44555566899998853

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 ....

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=96.56  E-value=0.087  Score=57.89  Aligned_cols=60  Identities=12%  Similarity=0.232  Sum_probs=42.4

Q ss_pred             cccccchHHHHHHHHHhc--CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCC
Q 010355          149 EAFESRMSTLNDVINALK--NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQ  210 (512)
Q Consensus       149 ~~~~gR~~~l~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~  210 (512)
                      ..++|+...+..+.+.+.  ......|.|+|..|+|||++|+.+++.....  -...+.+++..
T Consensus       376 ~~liG~S~~~~~~~~~~~~~a~~~~pVLI~GE~GTGK~~lA~~ih~~s~r~--~~~~v~i~c~~  437 (686)
T PRK15429        376 GEIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSGRN--NRRMVKMNCAA  437 (686)
T ss_pred             cceeecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhcCCC--CCCeEEEeccc
Confidence            468899888888766554  2344578899999999999999998765421  23445555554

>CHL00206 ycf2 Ycf2; Provisional

Probab=96.56  E-value=0.05  Score=63.80  Aligned_cols=28  Identities=29%  Similarity=0.331  Sum_probs=24.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      ..+-|.++|++|+|||.||++++....+
T Consensus      1629 pPKGILLiGPPGTGKTlLAKALA~es~V 1656 (2281)
T CHL00206       1629 PSRGILVIGSIGTGRSYLVKYLATNSYV 1656 (2281)
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHhcCC
Confidence            4567899999999999999999988653

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

Probab=96.56  E-value=0.017  Score=52.44  Aligned_cols=50  Identities=22%  Similarity=0.351  Sum_probs=33.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCC--------CeEEEEEeCCCCCHHHHHHHHH
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLF--------DEVVYAEVSQRPDVKKIQGQIA  222 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f--------~~~~wv~~~~~~~~~~ll~~i~  222 (512)
                      .++.|.|++|+|||+++.+++........|        ..++|++....  ...+.+.+.
T Consensus        33 ~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~--~~~~~~rl~   90 (193)
T PF13481_consen   33 ELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS--ESQIARRLR   90 (193)
T ss_dssp             SEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS---HHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC--HHHHHHHHH
Confidence            588999999999999999998877643322        36788877655  334444443

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

Probab=96.55  E-value=0.018  Score=54.95  Aligned_cols=88  Identities=19%  Similarity=0.210  Sum_probs=54.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhC-CCCCCCCchH----HHHHHHH
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLG-LKFYEESESG----RARKLCE  243 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~-~~~~~~~~~~----~~~~l~~  243 (512)
                      ..+++=|+|+.|+||||||.+++-....  .-..++|++....+++..+..-....+. +-.......+    .+..+..
T Consensus        59 ~g~ItEiyG~~gsGKT~lal~~~~~aq~--~g~~a~fIDtE~~l~p~r~~~l~~~~~d~l~v~~~~~~e~q~~i~~~~~~  136 (279)
T COG0468          59 RGRITEIYGPESSGKTTLALQLVANAQK--PGGKAAFIDTEHALDPERAKQLGVDLLDNLLVSQPDTGEQQLEIAEKLAR  136 (279)
T ss_pred             cceEEEEecCCCcchhhHHHHHHHHhhc--CCCeEEEEeCCCCCCHHHHHHHHHhhhcceeEecCCCHHHHHHHHHHHHH
Confidence            3478889999999999999998876653  3458899999999988765543322121 1111111112    2222332


Q ss_pred             HHhCCCeEEEEEeCCC
Q 010355          244 RLKKEKKILVILDDIW  259 (512)
Q Consensus       244 ~l~~~k~~LlVlDdv~  259 (512)
                      ...+ +--|||+|.+-
T Consensus       137 ~~~~-~i~LvVVDSva  151 (279)
T COG0468         137 SGAE-KIDLLVVDSVA  151 (279)
T ss_pred             hccC-CCCEEEEecCc
Confidence            2222 36799999984

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.53  E-value=0.0099  Score=60.86  Aligned_cols=87  Identities=16%  Similarity=0.144  Sum_probs=49.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCC-CHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCC
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRP-DVKKIQGQIADKLGLKFYEESESGRARKLCERLKKE  248 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  248 (512)
                      .++++++|++|+||||++..++...........+..|+..... ....-++.....++++................+.  
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~~r~~a~eqL~~~a~~~~vp~~~~~~~~~l~~~l~~~~--  298 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDTYRIGAVEQLKTYAKIMGIPVEVVYDPKELAKALEQLR--  298 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCccHHHHHHHHHHHHHHhCCceEccCCHHhHHHHHHHhC--
Confidence            3689999999999999999888766411123456666654321 1223344445556655433222222233333333  


Q ss_pred             CeEEEEEeCC
Q 010355          249 KKILVILDDI  258 (512)
Q Consensus       249 k~~LlVlDdv  258 (512)
                      ..=+||+|..
T Consensus       299 ~~DlVlIDt~  308 (424)
T PRK05703        299 DCDVILIDTA  308 (424)
T ss_pred             CCCEEEEeCC
Confidence            3468889966

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

Probab=96.51  E-value=0.0023  Score=54.95  Aligned_cols=24  Identities=33%  Similarity=0.490  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      +|.++|++|+||||+|+.+.....
T Consensus         1 lii~~G~pgsGKSt~a~~l~~~~~   24 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLAKRLG   24 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHST
T ss_pred             CEEEECCCCCCHHHHHHHHHHHCC
Confidence            588999999999999999986654

...

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=96.51  E-value=0.014  Score=51.53  Aligned_cols=25  Identities=36%  Similarity=0.446  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ..+++|.|++|+|||||++.+....
T Consensus         4 G~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           4 GLLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhc
Confidence            3678999999999999999998876

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

Probab=96.50  E-value=0.005  Score=57.57  Aligned_cols=86  Identities=16%  Similarity=0.226  Sum_probs=51.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC-------------------
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFY-------------------  230 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~-------------------  230 (512)
                      ..++.|.|.+|+|||+|+.+++.....+ .-..++|++...  ++..+.+.+. .++....                   
T Consensus        19 gs~~li~G~~GsGKT~l~~q~l~~~~~~-~ge~vlyvs~ee--~~~~l~~~~~-s~g~d~~~~~~~g~l~~~d~~~~~~~   94 (226)
T PF06745_consen   19 GSVVLISGPPGSGKTTLALQFLYNGLKN-FGEKVLYVSFEE--PPEELIENMK-SFGWDLEEYEDSGKLKIIDAFPERIG   94 (226)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHHH-HT--EEEEESSS---HHHHHHHHH-TTTS-HHHHHHTTSEEEEESSGGGST
T ss_pred             CcEEEEEeCCCCCcHHHHHHHHHHhhhh-cCCcEEEEEecC--CHHHHHHHHH-HcCCcHHHHhhcCCEEEEeccccccc
Confidence            4789999999999999999987654321 024577887654  3455555543 4442210                   


Q ss_pred             --CCCchHHHHHHHHHHhCCCeEEEEEeCCC
Q 010355          231 --EESESGRARKLCERLKKEKKILVILDDIW  259 (512)
Q Consensus       231 --~~~~~~~~~~l~~~l~~~k~~LlVlDdv~  259 (512)
                        ..+.......+.+.+...+...+|+|.+.
T Consensus        95 ~~~~~~~~l~~~i~~~i~~~~~~~vVIDsls  125 (226)
T PF06745_consen   95 WSPNDLEELLSKIREAIEELKPDRVVIDSLS  125 (226)
T ss_dssp             -TSCCHHHHHHHHHHHHHHHTSSEEEEETHH
T ss_pred             ccccCHHHHHHHHHHHHHhcCCCEEEEECHH
Confidence              11223344555555554456899999874

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 ....

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=96.50  E-value=0.0023  Score=58.29  Aligned_cols=25  Identities=40%  Similarity=0.579  Sum_probs=23.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      +|+|.|++|+||||||+.+...+..
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~L~~   25 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQILNK   25 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHTT
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhCc
Confidence            6999999999999999999998864

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 ....

>PRK05439 pantothenate kinase; Provisional

Probab=96.48  E-value=0.032  Score=54.30  Aligned_cols=28  Identities=21%  Similarity=0.259  Sum_probs=24.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ...-+|+|.|.+|+||||+|+.+.....
T Consensus        84 ~~~~iIgIaG~~gsGKSTla~~L~~~l~  111 (311)
T PRK05439         84 KVPFIIGIAGSVAVGKSTTARLLQALLS  111 (311)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4567999999999999999999988664

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

Probab=96.48  E-value=0.053  Score=53.19  Aligned_cols=27  Identities=33%  Similarity=0.383  Sum_probs=24.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ..+-|.++|++|.|||-||++|+....
T Consensus       244 PWkgvLm~GPPGTGKTlLAKAvATEc~  270 (491)
T KOG0738|consen  244 PWKGVLMVGPPGTGKTLLAKAVATECG  270 (491)
T ss_pred             ccceeeeeCCCCCcHHHHHHHHHHhhc
Confidence            457899999999999999999998765

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.47  E-value=0.023  Score=57.69  Aligned_cols=87  Identities=20%  Similarity=0.219  Sum_probs=47.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCC-CCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCC
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQ-RPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKE  248 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  248 (512)
                      ..+++++|+.|+||||++..++...........+..+.... .....+-+..+.+.++.+.............+..+.  
T Consensus       191 g~vi~lvGpnG~GKTTtlakLA~~~~~~~~~~~v~~i~~d~~rigalEQL~~~a~ilGvp~~~v~~~~dl~~al~~l~--  268 (420)
T PRK14721        191 GGVYALIGPTGVGKTTTTAKLAARAVIRHGADKVALLTTDSYRIGGHEQLRIYGKLLGVSVRSIKDIADLQLMLHELR--  268 (420)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecCCcchhHHHHHHHHHHHcCCceecCCCHHHHHHHHHHhc--
Confidence            47999999999999999998887543222223344443322 223344455566666665443322222223333332  


Q ss_pred             CeEEEEEeCC
Q 010355          249 KKILVILDDI  258 (512)
Q Consensus       249 k~~LlVlDdv  258 (512)
                      ..-++++|-.
T Consensus       269 ~~d~VLIDTa  278 (420)
T PRK14721        269 GKHMVLIDTV  278 (420)
T ss_pred             CCCEEEecCC
Confidence            2345666654

>PRK08233 hypothetical protein; Provisional

Probab=96.46  E-value=0.0026  Score=57.14  Aligned_cols=26  Identities=27%  Similarity=0.428  Sum_probs=23.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ..+|+|.|.+|+||||||..++....
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~l~   28 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHKLK   28 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhCC
Confidence            47899999999999999999998764

>TIGR01069 mutS2 MutS2 family protein

Probab=96.46  E-value=0.0027  Score=69.74  Aligned_cols=184  Identities=14%  Similarity=0.152  Sum_probs=84.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh-hhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCC------CC-CCchHHHHH
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQA-KADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKF------YE-ESESGRARK  240 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~-~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~------~~-~~~~~~~~~  240 (512)
                      +.++++|+|+.|.|||||.+.+.-.. ....    -++|.+..... ..++.++...++...      .. .........
T Consensus       321 ~~~~liItGpNg~GKSTlLK~i~~~~l~aq~----G~~Vpa~~~~~-~~~~d~i~~~i~~~~si~~~LStfS~~m~~~~~  395 (771)
T TIGR01069       321 EKRVLAITGPNTGGKTVTLKTLGLLALMFQS----GIPIPANEHSE-IPYFEEIFADIGDEQSIEQNLSTFSGHMKNISA  395 (771)
T ss_pred             CceEEEEECCCCCCchHHHHHHHHHHHHHHh----CCCccCCcccc-ccchhheeeecChHhHHhhhhhHHHHHHHHHHH
Confidence            45789999999999999999887652 1100    01111111000 000111111111100      00 000111222


Q ss_pred             HHHHHhCCCeEEEEEeCCCChh---hhhhh----CCCCCCCCeEEEEEeCCcchhccccCCc--cceecCCCCHHHHHHH
Q 010355          241 LCERLKKEKKILVILDDIWTNL---DLENV----GIPFGVRGCRVLMTARSQDVLSSKMDCQ--NNFLIGVLNESEARDL  311 (512)
Q Consensus       241 l~~~l~~~k~~LlVlDdv~~~~---~~~~l----~~~~~~~gs~iivTtR~~~v~~~~~~~~--~~~~l~~L~~~ea~~L  311 (512)
                      +...+  ..+-|++||......   ....+    ...+...|+.+|+||....+........  ....+. ++.+ ... 
T Consensus       396 il~~~--~~~sLvLlDE~g~GtD~~eg~ala~aiLe~l~~~g~~viitTH~~eL~~~~~~~~~v~~~~~~-~d~~-~l~-  470 (771)
T TIGR01069       396 ILSKT--TENSLVLFDELGAGTDPDEGSALAISILEYLLKQNAQVLITTHYKELKALMYNNEGVENASVL-FDEE-TLS-  470 (771)
T ss_pred             HHHhc--CCCcEEEecCCCCCCCHHHHHHHHHHHHHHHHhcCCEEEEECChHHHHHHhcCCCCeEEeEEE-EcCC-CCc-
Confidence            22222  368999999985431   11111    1111245788999999876532111111  111111 1111 100 


Q ss_pred             HHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHHHHhccCCHHHHHHHHHHhc
Q 010355          312 FKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARALRNKNTFEWKSALRELT  366 (512)
Q Consensus       312 f~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~~L~~~~~~~w~~~l~~l~  366 (512)
                      |...+-...+.   ...+-.|++++ |+|-.|..-|..+.......+..++..|.
T Consensus       471 p~Ykl~~G~~g---~S~a~~iA~~~-Glp~~ii~~A~~~~~~~~~~~~~li~~L~  521 (771)
T TIGR01069       471 PTYKLLKGIPG---ESYAFEIAQRY-GIPHFIIEQAKTFYGEFKEEINVLIEKLS  521 (771)
T ss_pred             eEEEECCCCCC---CcHHHHHHHHh-CcCHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            01111111111   23466777776 89998888888877554445555555544

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.

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

Probab=96.46  E-value=0.0046  Score=58.46  Aligned_cols=62  Identities=24%  Similarity=0.384  Sum_probs=46.3

Q ss_pred             HHHHHHhc--CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHH
Q 010355          159 NDVINALK--NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQ  220 (512)
Q Consensus       159 ~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~  220 (512)
                      .+|+..+.  .++..+|+|.|.||+|||||.-.+...+..+.+=-.++=|+-|.+++-..++-.
T Consensus        38 ~~ll~~l~p~tG~a~viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlAVDPSSp~TGGsiLGD  101 (323)
T COG1703          38 RELLRALYPRTGNAHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLAVDPSSPFTGGSILGD  101 (323)
T ss_pred             HHHHHHHhhcCCCCcEEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEEECCCCCCCCcccccc
Confidence            34555554  556789999999999999999999998876655556677777777765555544

>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=96.45  E-value=0.0052  Score=53.28  Aligned_cols=36  Identities=28%  Similarity=0.291  Sum_probs=28.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEE
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAE  207 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~  207 (512)
                      ..+|.|+|.+|+||||||+.+...+...  -..++++.
T Consensus         2 g~vIwltGlsGsGKtTlA~~L~~~L~~~--g~~~~~LD   37 (156)
T PF01583_consen    2 GFVIWLTGLSGSGKTTLARALERRLFAR--GIKVYLLD   37 (156)
T ss_dssp             -EEEEEESSTTSSHHHHHHHHHHHHHHT--TS-EEEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHc--CCcEEEec
Confidence            3689999999999999999999998754  34555554

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 ....

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=96.45  E-value=0.0051  Score=54.98  Aligned_cols=24  Identities=33%  Similarity=0.468  Sum_probs=21.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .|.|.|++|+||||+|+.+++...
T Consensus         2 riiilG~pGaGK~T~A~~La~~~~   25 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKLG   25 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999999854

>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=96.44  E-value=0.0027  Score=47.03  Aligned_cols=23  Identities=35%  Similarity=0.540  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      +|+|.|.+|+||||+++.+....
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.

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

Probab=96.43  E-value=0.039  Score=58.01  Aligned_cols=172  Identities=23%  Similarity=0.327  Sum_probs=89.0

Q ss_pred             cccccchH---HHHHHHHHhcCCC---------ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHH
Q 010355          149 EAFESRMS---TLNDVINALKNPD---------VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKK  216 (512)
Q Consensus       149 ~~~~gR~~---~l~~l~~~L~~~~---------~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~  216 (512)
                      ...-|.++   ++.++++.|.++.         ++-+.++|++|.|||.||++++....+-  |     .+.|... +.+
T Consensus       150 ~DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA~VP--F-----f~iSGS~-FVe  221 (596)
T COG0465         150 ADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVP--F-----FSISGSD-FVE  221 (596)
T ss_pred             hhhcCcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhcccCCC--c-----eeccchh-hhh
Confidence            34456654   5566667776432         4678899999999999999999887753  2     1222210 000


Q ss_pred             HHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCCh----------------hhhhhhCCCC---C-CCCe
Q 010355          217 IQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTN----------------LDLENVGIPF---G-VRGC  276 (512)
Q Consensus       217 ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~----------------~~~~~l~~~~---~-~~gs  276 (512)
                          +.  .|      -....+..++..-++.-+|+|++|.++..                ..++++..-.   . +.|.
T Consensus       222 ----mf--VG------vGAsRVRdLF~qAkk~aP~IIFIDEiDAvGr~Rg~g~GggnderEQTLNQlLvEmDGF~~~~gv  289 (596)
T COG0465         222 ----MF--VG------VGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGGNEGV  289 (596)
T ss_pred             ----hh--cC------CCcHHHHHHHHHhhccCCCeEEEehhhhcccccCCCCCCCchHHHHHHHHHHhhhccCCCCCce
Confidence                00  01      11123445555555456899999987532                1233332111   1 2344


Q ss_pred             EEEEEeCCcchh----ccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhH
Q 010355          277 RVLMTARSQDVL----SSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIA  342 (512)
Q Consensus       277 ~iivTtR~~~v~----~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLa  342 (512)
                      .||..|-...+.    .+...-...+.++.-+-..-.+.++-++......+.. + ...|++.+-|.--|
T Consensus       290 iviaaTNRpdVlD~ALlRpgRFDRqI~V~~PDi~gRe~IlkvH~~~~~l~~~V-d-l~~iAr~tpGfsGA  357 (596)
T COG0465         290 IVIAATNRPDVLDPALLRPGRFDRQILVELPDIKGREQILKVHAKNKPLAEDV-D-LKKIARGTPGFSGA  357 (596)
T ss_pred             EEEecCCCcccchHhhcCCCCcceeeecCCcchhhHHHHHHHHhhcCCCCCcC-C-HHHHhhhCCCcccc
Confidence            444434434343    1111223455555555566666666555332222211 1 22377888876543

>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=96.41  E-value=0.0073  Score=56.30  Aligned_cols=61  Identities=20%  Similarity=0.273  Sum_probs=38.0

Q ss_pred             HHHHHHHhc--CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHH
Q 010355          158 LNDVINALK--NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQ  218 (512)
Q Consensus       158 l~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll  218 (512)
                      ...|+..+.  ..+..+|+|.|+||+|||||+..+...+..+.+=-.++=|+-+.+++=..+|
T Consensus        15 ~~~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~~~~~~~g~~VaVlAVDPSSp~tGGAlL   77 (266)
T PF03308_consen   15 ARELLKRLYPHTGRAHVIGITGPPGAGKSTLIDALIRELRERGKRVAVLAVDPSSPFTGGALL   77 (266)
T ss_dssp             HHHHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHHHHHHHHTT--EEEEEE-GGGGCC---SS
T ss_pred             HHHHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHHHHHHhhcCCceEEEEECCCCCCCCCccc
Confidence            344444444  4467899999999999999999999888765444455566666666544443

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.

>TIGR00416 sms DNA repair protein RadA

Probab=96.41  E-value=0.012  Score=60.79  Aligned_cols=85  Identities=24%  Similarity=0.322  Sum_probs=52.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCC--CchHHHHHHHHHHhC
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEE--SESGRARKLCERLKK  247 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~--~~~~~~~~l~~~l~~  247 (512)
                      -.++.|.|.+|+|||||+.+++......  -..++|++...  +..++... +..++......  ........+...+..
T Consensus        94 GsvilI~G~pGsGKTTL~lq~a~~~a~~--g~kvlYvs~EE--s~~qi~~r-a~rlg~~~~~l~~~~e~~~~~I~~~i~~  168 (454)
T TIGR00416        94 GSLILIGGDPGIGKSTLLLQVACQLAKN--QMKVLYVSGEE--SLQQIKMR-AIRLGLPEPNLYVLSETNWEQICANIEE  168 (454)
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHHHhc--CCcEEEEECcC--CHHHHHHH-HHHcCCChHHeEEcCCCCHHHHHHHHHh
Confidence            4789999999999999999998776532  23577887654  33333322 33454432110  001123455556655


Q ss_pred             CCeEEEEEeCCC
Q 010355          248 EKKILVILDDIW  259 (512)
Q Consensus       248 ~k~~LlVlDdv~  259 (512)
                      .+.-+||+|.+.
T Consensus       169 ~~~~~vVIDSIq  180 (454)
T TIGR00416       169 ENPQACVIDSIQ  180 (454)
T ss_pred             cCCcEEEEecch
Confidence            567799999984

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)).

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=96.40  E-value=0.0066  Score=64.94  Aligned_cols=79  Identities=14%  Similarity=0.142  Sum_probs=60.0

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADK  224 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~  224 (512)
                      +.....++|.+..+..|...+...  +.+.|+|++|+||||+|+.++..... ..++..+|..- ...+...+++.++..
T Consensus        27 ~~~~~~vigq~~a~~~L~~~~~~~--~~~l~~G~~G~GKttla~~l~~~l~~-~~~~~~~~~~n-p~~~~~~~~~~v~~~  102 (637)
T PRK13765         27 ERLIDQVIGQEHAVEVIKKAAKQR--RHVMMIGSPGTGKSMLAKAMAELLPK-EELQDILVYPN-PEDPNNPKIRTVPAG  102 (637)
T ss_pred             cccHHHcCChHHHHHHHHHHHHhC--CeEEEECCCCCcHHHHHHHHHHHcCh-HhHHHheEeeC-CCcchHHHHHHHHHh
Confidence            345567889999888888777654  47899999999999999999987643 34577778544 445778888888877


Q ss_pred             hCC
Q 010355          225 LGL  227 (512)
Q Consensus       225 l~~  227 (512)
                      +|.
T Consensus       103 ~G~  105 (637)
T PRK13765        103 KGK  105 (637)
T ss_pred             cCH
Confidence            764

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=96.40  E-value=0.014  Score=63.36  Aligned_cols=83  Identities=18%  Similarity=0.210  Sum_probs=56.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCC------CCchHHHHHHHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYE------ESESGRARKLCE  243 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~------~~~~~~~~~l~~  243 (512)
                      .+++-|+|++|+|||||+.+++.....  .-..++|+.....+.+     ..++++|.....      .+.......+..
T Consensus        60 GsiteI~G~~GsGKTtLal~~~~~a~~--~G~~v~yId~E~t~~~-----~~A~~lGvDl~~llv~~~~~~E~~l~~i~~  132 (790)
T PRK09519         60 GRVIEIYGPESSGKTTVALHAVANAQA--AGGVAAFIDAEHALDP-----DYAKKLGVDTDSLLVSQPDTGEQALEIADM  132 (790)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHH--cCCcEEEECCccchhH-----HHHHHcCCChhHeEEecCCCHHHHHHHHHH
Confidence            578889999999999999887765442  2356789988777664     366777765321      122223333444


Q ss_pred             HHhCCCeEEEEEeCCC
Q 010355          244 RLKKEKKILVILDDIW  259 (512)
Q Consensus       244 ~l~~~k~~LlVlDdv~  259 (512)
                      .+..++.-|||+|.+.
T Consensus       133 lv~~~~~~LVVIDSI~  148 (790)
T PRK09519        133 LIRSGALDIVVIDSVA  148 (790)
T ss_pred             HhhcCCCeEEEEcchh
Confidence            4455677899999974

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

Probab=96.39  E-value=0.015  Score=55.13  Aligned_cols=29  Identities=31%  Similarity=0.441  Sum_probs=25.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhc
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKAD  197 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~  197 (512)
                      .+..++|||++|.|||-||+.|+......
T Consensus       165 ~Pkg~ll~GppGtGKTlla~~Vaa~mg~n  193 (388)
T KOG0651|consen  165 PPKGLLLYGPPGTGKTLLARAVAATMGVN  193 (388)
T ss_pred             CCceeEEeCCCCCchhHHHHHHHHhcCCc
Confidence            35788999999999999999999988753

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.38  E-value=0.021  Score=58.90  Aligned_cols=60  Identities=18%  Similarity=0.162  Sum_probs=38.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCC-CCCHHHHHHHHHHHhCCCC
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQ-RPDVKKIQGQIADKLGLKF  229 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~ll~~i~~~l~~~~  229 (512)
                      .++++++|+.|+||||++..++.....+.....+..+.... .....+-++...+.++.+.
T Consensus       256 g~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~~Dt~RigA~EQLr~~AeilGVpv  316 (484)
T PRK06995        256 GGVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLTTDSYRIGGHEQLRIYGKILGVPV  316 (484)
T ss_pred             CcEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEeCCccchhHHHHHHHHHHHhCCCe
Confidence            37999999999999999999998764322122345555432 2234444555566666554

>PF13245 AAA_19: Part of AAA domain

Probab=96.37  E-value=0.0099  Score=44.90  Aligned_cols=26  Identities=23%  Similarity=0.300  Sum_probs=18.9

Q ss_pred             CceEEEEEcCCCCcHHHHH-HHHHHhh
Q 010355          169 DVHMIGAYGMAGVGKTMLV-KEVARQA  194 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa-~~v~~~~  194 (512)
                      +.+++.|.|++|.|||+++ ..+.+..
T Consensus         9 ~~~~~vv~g~pGtGKT~~~~~~i~~l~   35 (76)
T PF13245_consen    9 GSPLFVVQGPPGTGKTTTLAARIAELL   35 (76)
T ss_pred             hCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            3577888999999999554 4444444

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.37  E-value=0.032  Score=60.49  Aligned_cols=59  Identities=20%  Similarity=0.207  Sum_probs=36.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCC-CCCHHHHHHHHHHHhCCC
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQ-RPDVKKIQGQIADKLGLK  228 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~ll~~i~~~l~~~  228 (512)
                      .++++++|+.|+||||++..++...........+..+.... .....+-++.....++.+
T Consensus       185 g~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt~RigA~eQL~~~a~~~gvp  244 (767)
T PRK14723        185 GGVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQLRIYGRILGVP  244 (767)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCcccchHHHHHHHHHHHhCCCC
Confidence            47999999999999999999887664221122444444322 122344455555555544

>PRK05480 uridine/cytidine kinase; Provisional

Probab=96.36  E-value=0.0037  Score=57.68  Aligned_cols=27  Identities=26%  Similarity=0.386  Sum_probs=24.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .+..+|+|.|.+|+|||||++.++...
T Consensus         4 ~~~~iI~I~G~sGsGKTTl~~~l~~~l   30 (209)
T PRK05480          4 KKPIIIGIAGGSGSGKTTVASTIYEEL   30 (209)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            356799999999999999999999876

>PRK06762 hypothetical protein; Provisional

Probab=96.36  E-value=0.0035  Score=55.52  Aligned_cols=25  Identities=28%  Similarity=0.432  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ..+|.|+|++|+||||+|+.++...
T Consensus         2 ~~li~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          2 TTLIIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3689999999999999999998876

>PTZ00301 uridine kinase; Provisional

Probab=96.35  E-value=0.0036  Score=57.58  Aligned_cols=26  Identities=27%  Similarity=0.486  Sum_probs=23.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ..+|+|.|.+|+||||||+.+.....
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~~l~   28 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVSELM   28 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHHHHH
Confidence            47899999999999999999987764

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

Probab=96.35  E-value=0.012  Score=56.44  Aligned_cols=49  Identities=14%  Similarity=0.205  Sum_probs=39.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHH
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQI  221 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i  221 (512)
                      ..+++.|+|.+|+|||+++.++......  ....++||+....  ...+++..
T Consensus        22 ~g~~~lI~G~pGsGKT~f~~qfl~~~~~--~ge~vlyvs~~e~--~~~l~~~~   70 (260)
T COG0467          22 RGSVVLITGPPGTGKTIFALQFLYEGAR--EGEPVLYVSTEES--PEELLENA   70 (260)
T ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHHHh--cCCcEEEEEecCC--HHHHHHHH
Confidence            4589999999999999999999988774  3788999988764  44455444

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

Probab=96.30  E-value=0.2  Score=46.43  Aligned_cols=50  Identities=20%  Similarity=0.357  Sum_probs=38.5

Q ss_pred             cCccccccchHHHHHHHHHhc-------------CCCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          146 KGYEAFESRMSTLNDVINALK-------------NPDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       146 ~~~~~~~gR~~~l~~l~~~L~-------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ..+..+-|-++.+++|++.+.             -..++-+..+|++|.|||-+|++.+.+-.
T Consensus       168 E~YsDiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT~  230 (424)
T KOG0652|consen  168 EQYSDIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQTN  230 (424)
T ss_pred             ccccccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhcc
Confidence            345567788888888888764             12456788999999999999999887654

>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=96.29  E-value=0.0034  Score=60.29  Aligned_cols=86  Identities=21%  Similarity=0.302  Sum_probs=46.8

Q ss_pred             HHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHH
Q 010355          160 DVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRAR  239 (512)
Q Consensus       160 ~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~  239 (512)
                      .+++.+...+ +-+.++|+.|+|||++++.+....... .| .+.-++.+...+...++..|-..+... ...       
T Consensus        24 ~ll~~l~~~~-~pvLl~G~~GtGKT~li~~~l~~l~~~-~~-~~~~~~~s~~Tts~~~q~~ie~~l~k~-~~~-------   92 (272)
T PF12775_consen   24 YLLDLLLSNG-RPVLLVGPSGTGKTSLIQNFLSSLDSD-KY-LVITINFSAQTTSNQLQKIIESKLEKR-RGR-------   92 (272)
T ss_dssp             HHHHHHHHCT-EEEEEESSTTSSHHHHHHHHHHCSTTC-CE-EEEEEES-TTHHHHHHHHCCCTTECEC-TTE-------
T ss_pred             HHHHHHHHcC-CcEEEECCCCCchhHHHHhhhccCCcc-cc-ceeEeeccCCCCHHHHHHHHhhcEEcC-CCC-------
Confidence            3444444433 567899999999999999988765432 11 233455555444443332221111100 000       


Q ss_pred             HHHHHH--hCCCeEEEEEeCCCC
Q 010355          240 KLCERL--KKEKKILVILDDIWT  260 (512)
Q Consensus       240 ~l~~~l--~~~k~~LlVlDdv~~  260 (512)
                          .+  ..+|++++++||+..
T Consensus        93 ----~~gP~~~k~lv~fiDDlN~  111 (272)
T PF12775_consen   93 ----VYGPPGGKKLVLFIDDLNM  111 (272)
T ss_dssp             ----EEEEESSSEEEEEEETTT-
T ss_pred             ----CCCCCCCcEEEEEecccCC
Confidence                00  136899999999953

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=96.29  E-value=0.028  Score=53.95  Aligned_cols=94  Identities=12%  Similarity=0.140  Sum_probs=53.5

Q ss_pred             HHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCC-------CC
Q 010355          161 VINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYE-------ES  233 (512)
Q Consensus       161 l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~-------~~  233 (512)
                      ...++...+..+|.|.|.+|+|||||+..+.......  . .++.+ .....+..+  ...+...+.+...       ..
T Consensus        95 ~r~~~~~~~~~~v~l~G~pGsGKTTLl~~l~~~l~~~--~-~~~VI-~gD~~t~~D--a~rI~~~g~pvvqi~tG~~Chl  168 (290)
T PRK10463         95 NRARFAARKQLVLNLVSSPGSGKTTLLTETLMRLKDS--V-PCAVI-EGDQQTVND--AARIRATGTPAIQVNTGKGCHL  168 (290)
T ss_pred             HHHHHHhcCCeEEEEECCCCCCHHHHHHHHHHHhccC--C-CEEEE-CCCcCcHHH--HHHHHhcCCcEEEecCCCCCcC
Confidence            3344556788999999999999999999999887532  2 22222 222222222  1223444433211       11


Q ss_pred             chHHHHHHHHHHhCCCeEEEEEeCCCC
Q 010355          234 ESGRARKLCERLKKEKKILVILDDIWT  260 (512)
Q Consensus       234 ~~~~~~~l~~~l~~~k~~LlVlDdv~~  260 (512)
                      ....+...+..|.....-+||++++-+
T Consensus       169 ~a~mv~~Al~~L~~~~~d~liIEnvGn  195 (290)
T PRK10463        169 DAQMIADAAPRLPLDDNGILFIENVGN  195 (290)
T ss_pred             cHHHHHHHHHHHhhcCCcEEEEECCCC
Confidence            223344445555444456888999864

>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=96.28  E-value=0.016  Score=53.31  Aligned_cols=85  Identities=32%  Similarity=0.533  Sum_probs=53.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCC-CCHHHHHHHHHHHhCCC-------CCCCCchH------
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQR-PDVKKIQGQIADKLGLK-------FYEESESG------  236 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-~~~~~ll~~i~~~l~~~-------~~~~~~~~------  236 (512)
                      .-++|.|.+|+|||+|+..+++...    -+.++++.+++. ....++++.+...-...       ....+...      
T Consensus        16 qr~~I~g~~g~GKt~Ll~~i~~~~~----~d~~V~~~iGer~~Ev~~~~~~~~~~~~~~~t~vv~~t~~~~~~~r~~~~~   91 (215)
T PF00006_consen   16 QRIGIFGGAGVGKTVLLQEIANNQD----ADVVVYALIGERGREVTEFIEELKGEGALERTVVVAATSDEPPAARYRAPY   91 (215)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHCT----TTEEEEEEESECHHHHHHHHHHHHHTTGGGGEEEEEEETTS-HHHHHHHHH
T ss_pred             CEEEEEcCcccccchhhHHHHhccc----ccceeeeeccccchhHHHHHHHHhhcccccccccccccchhhHHHHhhhhc
Confidence            6788999999999999999998875    345578888765 35555666554321111       11111111      


Q ss_pred             HHHHHHHHHh-CCCeEEEEEeCCC
Q 010355          237 RARKLCERLK-KEKKILVILDDIW  259 (512)
Q Consensus       237 ~~~~l~~~l~-~~k~~LlVlDdv~  259 (512)
                      ..-.+.+++. ++++.||++||+.
T Consensus        92 ~a~t~AEyfrd~G~dVlli~Dslt  115 (215)
T PF00006_consen   92 TALTIAEYFRDQGKDVLLIIDSLT  115 (215)
T ss_dssp             HHHHHHHHHHHTTSEEEEEEETHH
T ss_pred             cchhhhHHHhhcCCceeehhhhhH
Confidence            1223344443 5899999999984

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 ....

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=96.26  E-value=0.0066  Score=63.49  Aligned_cols=59  Identities=20%  Similarity=0.288  Sum_probs=43.8

Q ss_pred             ccCccccccchHHHHHHHHHhc-----CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEE
Q 010355          145 IKGYEAFESRMSTLNDVINALK-----NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAE  207 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~-----~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~  207 (512)
                      |.....+.-..+.++++..||.     ....+++.++|++|+||||+++.+++...    |..+=|.+
T Consensus        15 P~~~~eLavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~elg----~~v~Ew~n   78 (519)
T PF03215_consen   15 PKTLDELAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKELG----FEVQEWIN   78 (519)
T ss_pred             CCCHHHhhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHhC----CeeEEecC
Confidence            3344455555677788888887     22357999999999999999999998865    56666754

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

Probab=96.25  E-value=0.036  Score=53.40  Aligned_cols=52  Identities=19%  Similarity=0.144  Sum_probs=37.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADK  224 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~  224 (512)
                      ..++.|.|.+|+|||||+.+++...... +-..++|+++..  +..++...+...
T Consensus        30 g~~~~i~g~~G~GKT~l~~~~~~~~~~~-~g~~vl~iS~E~--~~~~~~~r~~~~   81 (271)
T cd01122          30 GELIILTAGTGVGKTTFLREYALDLITQ-HGVRVGTISLEE--PVVRTARRLLGQ   81 (271)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHHHh-cCceEEEEEccc--CHHHHHHHHHHH
Confidence            3588899999999999999998776422 234678887755  445666665544

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

>TIGR00235 udk uridine kinase

Probab=96.24  E-value=0.0047  Score=56.94  Aligned_cols=28  Identities=32%  Similarity=0.476  Sum_probs=24.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ....+|+|+|++|+|||||++.++....
T Consensus         4 ~~g~vi~I~G~sGsGKSTl~~~l~~~l~   31 (207)
T TIGR00235         4 PKGIIIGIGGGSGSGKTTVARKIYEQLG   31 (207)
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            3457999999999999999999998754

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

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

Probab=96.23  E-value=0.0089  Score=55.85  Aligned_cols=63  Identities=16%  Similarity=0.161  Sum_probs=33.2

Q ss_pred             HHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhh-----cCCCCeEEEEEeCCCCCHHHHHHHHH
Q 010355          158 LNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKA-----DKLFDEVVYAEVSQRPDVKKIQGQIA  222 (512)
Q Consensus       158 l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~-----~~~f~~~~wv~~~~~~~~~~ll~~i~  222 (512)
                      .+.+...+....  +..|+|++|.|||+++..+......     .......+-+....+..+..++..+.
T Consensus         7 ~~Ai~~~~~~~~--~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~   74 (236)
T PF13086_consen    7 REAIQSALSSNG--ITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLK   74 (236)
T ss_dssp             HHHHHHHCTSSE---EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCC--CEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHH
Confidence            344444444332  7899999999999877777766511     12233334444444444444444443

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

Probab=96.23  E-value=0.055  Score=44.81  Aligned_cols=44  Identities=16%  Similarity=0.254  Sum_probs=30.8

Q ss_pred             cccchHHHHHHH----HHhc---CCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          151 FESRMSTLNDVI----NALK---NPDVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       151 ~~gR~~~l~~l~----~~L~---~~~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ++|..-..+.|+    ..+.   ..++-|++++|.+|+|||.+++.+++..
T Consensus        27 l~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~l   77 (127)
T PF06309_consen   27 LFGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEHL   77 (127)
T ss_pred             ccCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHHH
Confidence            445444444444    4444   2356788999999999999999998874

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

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

Probab=96.22  E-value=0.023  Score=53.20  Aligned_cols=24  Identities=25%  Similarity=0.408  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ..++|+|+.|.|||||.+.+.--.
T Consensus        31 ~~~~iiGPNGaGKSTLlK~iLGll   54 (254)
T COG1121          31 EITALIGPNGAGKSTLLKAILGLL   54 (254)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC
Confidence            789999999999999999998744

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=96.22  E-value=0.015  Score=56.61  Aligned_cols=66  Identities=12%  Similarity=0.129  Sum_probs=45.4

Q ss_pred             cCccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHH
Q 010355          146 KGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQ  218 (512)
Q Consensus       146 ~~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll  218 (512)
                      ...+.|+=.......++.++...  +.|.|.|++|+||||+|++++......     .+.|++.......+++
T Consensus        42 ~~d~~y~f~~~~~~~vl~~l~~~--~~ilL~G~pGtGKTtla~~lA~~l~~~-----~~rV~~~~~l~~~Dli  107 (327)
T TIGR01650        42 DIDPAYLFDKATTKAICAGFAYD--RRVMVQGYHGTGKSTHIEQIAARLNWP-----CVRVNLDSHVSRIDLV  107 (327)
T ss_pred             CCCCCccCCHHHHHHHHHHHhcC--CcEEEEeCCCChHHHHHHHHHHHHCCC-----eEEEEecCCCChhhcC
Confidence            33445666666677788777643  569999999999999999999987621     2355555555444433

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.

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

Probab=96.22  E-value=0.0036  Score=50.98  Aligned_cols=24  Identities=42%  Similarity=0.652  Sum_probs=20.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      |.|+|.+|+|||+||..++.....
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~~   24 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLLK   24 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHHH
Confidence            568999999999999998887653

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

>PRK03839 putative kinase; Provisional

Probab=96.22  E-value=0.0042  Score=55.84  Aligned_cols=24  Identities=38%  Similarity=0.519  Sum_probs=21.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .|.|.|++|+||||+++.+++...
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~~   25 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKLG   25 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            488999999999999999999875

>PF05659 RPW8: Arabidopsis broad-spectrum mildew resistance protein RPW8; InterPro: IPR008808 This entry represents the RPW8 domain found in several broad-spectrum mildew resistance proteins from Arabidopsis thaliana and other dicots

Probab=96.21  E-value=0.066  Score=45.98  Aligned_cols=110  Identities=15%  Similarity=0.186  Sum_probs=71.5

Q ss_pred             hhhH-HHHHHHHHHHHHhhhhhhhcchhchHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHH
Q 010355            2 VEIA-VAIAVKVAECLVHPIIHPFAYCYNYKSNLEKLKNEVQKLRGAKESVQQKIDDAKRSGEDIEQRVENWLITADEIL   80 (512)
Q Consensus         2 ae~~-~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~l~~~~~~L~~~l~~i~~~l~~a~~~~~~~~~~~~~wl~~vr~~~   80 (512)
                      |+++ .++++.+++.++..+.+.......       .+.-++.|..++.+|..++.+.+..+...+...+.-+.++.+..
T Consensus         3 ~eL~~gaalG~~~~eLlk~v~~~~~k~~~-------fk~~l~~L~sTl~~i~P~i~eI~~~~~eld~~~~ee~e~L~~~L   75 (147)
T PF05659_consen    3 AELVGGAALGAVFGELLKAVIDASKKSLS-------FKSILKRLESTLESIIPIIKEIDKLNVELDRPRQEEIERLKELL   75 (147)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHh-------hhhHHHHHHHHHHHhhhHHHHHHHHhhhcCCchhHHHHHHHHHH
Confidence            3444 345556666555555555544333       44455666666677777777766655444555577788889999


Q ss_pred             HHHHHHhcccccccccCCCChhHhhhHHHHHHHHHHHHHHH
Q 010355           81 DAAARIIEGTEDTTNRLCPNLNTRYQVSKKAAREVKAAAEL  121 (512)
Q Consensus        81 ~d~ed~ld~~~~~~~~~~~~~~~~~~~~~~i~~~~~~l~~i  121 (512)
                      .++..++..+..-.   ++++...++.+++|+++.+.+...
T Consensus        76 ~~g~~LV~k~sk~~---r~n~~kk~~y~~Ki~~le~~l~~f  113 (147)
T PF05659_consen   76 EKGKELVEKCSKVR---RWNLYKKPRYARKIEELEESLRRF  113 (147)
T ss_pred             HHHHHHHHHhcccc---HHHHHhhHhHHHHHHHHHHHHHHH
Confidence            99999998765433   234556677788898888887665

Plant disease resistance (R) genes control the recognition of specific pathogens and activate subsequent defence responses. The R protein-mediated defences typically involve a rapid, localized necrosis, or hypersensitive response (HR), at the site of infection, and the localised formation of antimicrobial chemicals and proteins that restrict growth of the pathogen. The A. thaliana locus Resistance to Powdery Mildew 8 (RPW8) contains two naturally polymorphic, dominant R genes: RPW8.1 and RPW8.2, which individually control resistance to a broad range of powdery mildew pathogens. They induce localised, salicylic acid-dependent defences similar to those induced by R genes that control specific resistance. Apparently, broad-spectrum resistance mediated by RPW8 uses the same mechanisms as specific resistance [, ]. RPW8.1 and RPW8.2 share similarity with an ~150 amino acid module forming the N terminus of a group of disease resistance proteins, which have a nucleotide-binding site (NBS) and leucine-rich repeats (LRRs) [, ]. The RPW8 domain sequences contain a predicted N-terminal transmembrane (TM) region or possibly a signal peptide, and a coiled-coil (CC) motif [].

>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B

Probab=96.21  E-value=0.021  Score=54.25  Aligned_cols=99  Identities=22%  Similarity=0.241  Sum_probs=62.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhh--cCCCCeEEEEEeCCCC-CHHHHHHHHHHHhCCCC-------CCCCch---
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKA--DKLFDEVVYAEVSQRP-DVKKIQGQIADKLGLKF-------YEESES---  235 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~--~~~f~~~~wv~~~~~~-~~~~ll~~i~~~l~~~~-------~~~~~~---  235 (512)
                      .-.-++|.|-+|+|||+|+..++++...  +..-+.++++-+++.. ...+++..+...-.+..       ...+..   
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            3456799999999999999998877541  1224678888887765 55666666654322211       111111   


Q ss_pred             ---HHHHHHHHHHhC--CCeEEEEEeCCCCh-hhhhhh
Q 010355          236 ---GRARKLCERLKK--EKKILVILDDIWTN-LDLENV  267 (512)
Q Consensus       236 ---~~~~~l~~~l~~--~k~~LlVlDdv~~~-~~~~~l  267 (512)
                         .....+.++++.  ++++||++||+... .....+
T Consensus       148 ~a~~~a~aiAEyfrd~~g~~VLl~~D~ltr~A~A~rEi  185 (276)
T cd01135         148 ITPRMALTTAEYLAYEKGKHVLVILTDMTNYAEALREI  185 (276)
T ss_pred             HHHHHHHHHHHHHHhccCCeEEEEEcChhHHHHHHHHH
Confidence               123356666653  69999999999643 334444

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.

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=96.19  E-value=0.0046  Score=55.85  Aligned_cols=26  Identities=19%  Similarity=0.275  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ..++|+|.|++|+||||+++.++...
T Consensus         2 ~~~ii~i~G~~GsGKsTl~~~l~~~~   27 (188)
T TIGR01360         2 KCKIIFIVGGPGSGKGTQCEKIVEKY   27 (188)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            45789999999999999999998765

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.

>PRK01184 hypothetical protein; Provisional

Probab=96.16  E-value=0.037  Score=49.84  Aligned_cols=21  Identities=48%  Similarity=0.803  Sum_probs=17.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHH
Q 010355          171 HMIGAYGMAGVGKTMLVKEVAR  192 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~  192 (512)
                      .+|+|+|++|+||||+++ ++.
T Consensus         2 ~~i~l~G~~GsGKsT~a~-~~~   22 (184)
T PRK01184          2 KIIGVVGMPGSGKGEFSK-IAR   22 (184)
T ss_pred             cEEEEECCCCCCHHHHHH-HHH
Confidence            479999999999999987 444

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

Probab=96.15  E-value=0.0087  Score=52.83  Aligned_cols=110  Identities=16%  Similarity=0.209  Sum_probs=57.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCC--CCHHHHHHHHHHHhCCCCCCCCch-HHHHHHHHHHh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQR--PDVKKIQGQIADKLGLKFYEESES-GRARKLCERLK  246 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~--~~~~~ll~~i~~~l~~~~~~~~~~-~~~~~l~~~l~  246 (512)
                      -.+++|.|+.|+|||||.+.++....   ...+.+++.-...  .+.....+   ..++.-.. .+.. ...-.+...+.
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~i~G~~~---~~~G~v~~~g~~~~~~~~~~~~~---~~i~~~~q-LS~G~~qrl~laral~   98 (163)
T cd03216          26 GEVHALLGENGAGKSTLMKILSGLYK---PDSGEILVDGKEVSFASPRDARR---AGIAMVYQ-LSVGERQMVEIARALA   98 (163)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCC---CCCeEEEECCEECCcCCHHHHHh---cCeEEEEe-cCHHHHHHHHHHHHHh
Confidence            46899999999999999999987643   2445555432111  11111111   11211111 1211 12223444454


Q ss_pred             CCCeEEEEEeCCCChhh---hhhh---CCCCCCCCeEEEEEeCCcch
Q 010355          247 KEKKILVILDDIWTNLD---LENV---GIPFGVRGCRVLMTARSQDV  287 (512)
Q Consensus       247 ~~k~~LlVlDdv~~~~~---~~~l---~~~~~~~gs~iivTtR~~~v  287 (512)
                      . ++-+|++|+.....+   ...+   ...+...+..||++|.+...
T Consensus        99 ~-~p~illlDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~~  144 (163)
T cd03216          99 R-NARLLILDEPTAALTPAEVERLFKVIRRLRAQGVAVIFISHRLDE  144 (163)
T ss_pred             c-CCCEEEEECCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHH
Confidence            4 678899998754321   1111   11111346678888887653

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.

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=96.15  E-value=0.02  Score=53.37  Aligned_cols=47  Identities=23%  Similarity=0.328  Sum_probs=34.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQ  220 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~  220 (512)
                      ..++.|.|.+|+|||+++.+++.....+  -..++|++...  ++..+...
T Consensus        16 g~~~li~G~~G~GKt~~~~~~~~~~~~~--g~~~~y~s~e~--~~~~l~~~   62 (224)
T TIGR03880        16 GHVIVVIGEYGTGKTTFSLQFLYQGLKN--GEKAMYISLEE--REERILGY   62 (224)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhC--CCeEEEEECCC--CHHHHHHH
Confidence            4789999999999999999998765422  35677887765  34454444

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

>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=96.12  E-value=0.012  Score=57.65  Aligned_cols=49  Identities=16%  Similarity=0.198  Sum_probs=37.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQ  220 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~  220 (512)
                      .+++.+.|.||+||||+|.+.+-.....  ...++-|+..+..++.+++..
T Consensus         2 ~riv~f~GKGGVGKTT~aaA~A~~lA~~--g~kvLlvStDPAhsL~d~f~~   50 (322)
T COG0003           2 TRIVFFTGKGGVGKTTIAAATAVKLAES--GKKVLLVSTDPAHSLGDVFDL   50 (322)
T ss_pred             cEEEEEecCCcccHHHHHHHHHHHHHHc--CCcEEEEEeCCCCchHhhhcc
Confidence            4789999999999999999987776643  345777777777777666654

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=96.11  E-value=0.0065  Score=56.47  Aligned_cols=63  Identities=21%  Similarity=0.226  Sum_probs=40.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEE-------EeCCCCCHHHH--HHHHHHHhCCCCCC
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYA-------EVSQRPDVKKI--QGQIADKLGLKFYE  231 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv-------~~~~~~~~~~l--l~~i~~~l~~~~~~  231 (512)
                      +..+|.++||+|+||||..++++.....+.....++-+       ..+.+.++++.  ++...++.++.+..
T Consensus        18 ~p~~ilVvGMAGSGKTTF~QrL~~hl~~~~~ppYviNLDPAv~~vpy~aniDIRDtVkYkEvMkqY~LGPNG   89 (366)
T KOG1532|consen   18 RPVIILVVGMAGSGKTTFMQRLNSHLHAKKTPPYVINLDPAVRNVPYPANIDIRDTVKYKEVMKQYQLGPNG   89 (366)
T ss_pred             CCcEEEEEecCCCCchhHHHHHHHHHhhccCCCeEEeCCHHHhcCCCccCCchhhhhhHHHHHHHhCCCCCc
Confidence            46788899999999999999999887755333333322       11223344443  34567776665443

>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=96.08  E-value=0.02  Score=51.16  Aligned_cols=24  Identities=29%  Similarity=0.331  Sum_probs=20.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHH
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVAR  192 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~  192 (512)
                      .-.+++|+|+.|+|||||.+.+..
T Consensus        20 ~G~~~~l~G~nG~GKSTLl~~il~   43 (176)
T cd03238          20 LNVLVVVTGVSGSGKSTLVNEGLY   43 (176)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhh
Confidence            346899999999999999998863

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.

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

Probab=96.06  E-value=0.061  Score=50.66  Aligned_cols=91  Identities=26%  Similarity=0.372  Sum_probs=57.9

Q ss_pred             ccccccchHHHHHHHHHhc-------------CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCH
Q 010355          148 YEAFESRMSTLNDVINALK-------------NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDV  214 (512)
Q Consensus       148 ~~~~~gR~~~l~~l~~~L~-------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  214 (512)
                      +..+-|-+..+++|.+...             -..++-|.++|.+|.|||-||++|+++-..  .|-.++          
T Consensus       184 y~diGGle~QiQEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLLAKAVANqTSA--TFlRvv----------  251 (440)
T KOG0726|consen  184 YADIGGLESQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQTSA--TFLRVV----------  251 (440)
T ss_pred             hcccccHHHHHHHHHHhhcCCCCCHHHHHHcCCCCCCeeEEeCCCCCchhHHHHHHhcccch--hhhhhh----------
Confidence            4455677888888877654             123567789999999999999999998663  232211          


Q ss_pred             HHHHHHHHH-HhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCC
Q 010355          215 KKIQGQIAD-KLGLKFYEESESGRARKLCERLKKEKKILVILDDIW  259 (512)
Q Consensus       215 ~~ll~~i~~-~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~  259 (512)
                         -..+++ .+|      ....++..+++.....-+.++++|.+.
T Consensus       252 ---GseLiQkylG------dGpklvRqlF~vA~e~apSIvFiDEId  288 (440)
T KOG0726|consen  252 ---GSELIQKYLG------DGPKLVRELFRVAEEHAPSIVFIDEID  288 (440)
T ss_pred             ---hHHHHHHHhc------cchHHHHHHHHHHHhcCCceEEeehhh
Confidence               112222 222      223345556655555678888889874

>PRK04040 adenylate kinase; Provisional

Probab=96.06  E-value=0.0058  Score=55.28  Aligned_cols=26  Identities=27%  Similarity=0.519  Sum_probs=23.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ..+|+|+|++|+||||+++.+.....
T Consensus         2 ~~~i~v~G~pG~GKtt~~~~l~~~l~   27 (188)
T PRK04040          2 MKVVVVTGVPGVGKTTVLNKALEKLK   27 (188)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHhc
Confidence            36899999999999999999998764

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

Probab=96.06  E-value=0.063  Score=58.96  Aligned_cols=102  Identities=18%  Similarity=0.134  Sum_probs=64.0

Q ss_pred             ccccchHHHHHHHHHhcC------C--CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHH
Q 010355          150 AFESRMSTLNDVINALKN------P--DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQI  221 (512)
Q Consensus       150 ~~~gR~~~l~~l~~~L~~------~--~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i  221 (512)
                      .++|.++.+..|.+.+..      .  ...++.+.|+.|+|||-||++++...-  +.....+-++.+.-.      .  
T Consensus       563 ~V~gQ~eAv~aIa~AI~~sr~gl~~~~~~awflflGpdgvGKt~lAkaLA~~~F--gse~~~IriDmse~~------e--  632 (898)
T KOG1051|consen  563 RVIGQDEAVAAIAAAIRRSRAGLKDPNPDAWFLFLGPDGVGKTELAKALAEYVF--GSEENFIRLDMSEFQ------E--  632 (898)
T ss_pred             hccchHHHHHHHHHHHHhhhcccCCCCCCeEEEEECCCchhHHHHHHHHHHHHc--CCccceEEechhhhh------h--
Confidence            345666666666666651      1  456788999999999999999998764  234455555554321      1  


Q ss_pred             HHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCCh
Q 010355          222 ADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTN  261 (512)
Q Consensus       222 ~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~  261 (512)
                      ...+...++.--..+....|.+.+++....+|+||+|...
T Consensus       633 vskligsp~gyvG~e~gg~LteavrrrP~sVVLfdeIEkA  672 (898)
T KOG1051|consen  633 VSKLIGSPPGYVGKEEGGQLTEAVKRRPYSVVLFEEIEKA  672 (898)
T ss_pred             hhhccCCCcccccchhHHHHHHHHhcCCceEEEEechhhc
Confidence            2333222222223344557888888755568889999743

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

Probab=96.06  E-value=0.13  Score=54.97  Aligned_cols=166  Identities=12%  Similarity=0.152  Sum_probs=88.7

Q ss_pred             ccchHHHHHHHHHhcCC---------CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHH
Q 010355          152 ESRMSTLNDVINALKNP---------DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIA  222 (512)
Q Consensus       152 ~gR~~~l~~l~~~L~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~  222 (512)
                      .++...+..+...+...         ...++.++|.+|+||||+++.++.....  |+   +-+++      .++..+  
T Consensus       404 ~~~~~~~~~l~~vl~p~~~~s~~~~~~~~~vLLhG~~g~GK~t~V~~vas~lg~--h~---~evdc------~el~~~--  470 (953)
T KOG0736|consen  404 PGLEAKVLELVAVLSPQKQPSGALLTLNPSVLLHGPPGSGKTTVVRAVASELGL--HL---LEVDC------YELVAE--  470 (953)
T ss_pred             ccchHHHHHHHHHhCcccCcchhccccceEEEEeCCCCCChHHHHHHHHHHhCC--ce---EeccH------HHHhhc--
Confidence            35666666777777621         3468899999999999999999988763  22   11111      011000  


Q ss_pred             HHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCCh-------h------hhhhh-C---CCCCCCCeEEEEEeCCc
Q 010355          223 DKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTN-------L------DLENV-G---IPFGVRGCRVLMTARSQ  285 (512)
Q Consensus       223 ~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~-------~------~~~~l-~---~~~~~~gs~iivTtR~~  285 (512)
                             ............+.+.+.-.+.+|.|=|+.-.       .      .++.+ .   .++..++..++.||.+.
T Consensus       471 -------s~~~~etkl~~~f~~a~~~~pavifl~~~dvl~id~dgged~rl~~~i~~~ls~e~~~~~~~~~ivv~t~~s~  543 (953)
T KOG0736|consen  471 -------SASHTETKLQAIFSRARRCSPAVLFLRNLDVLGIDQDGGEDARLLKVIRHLLSNEDFKFSCPPVIVVATTSSI  543 (953)
T ss_pred             -------ccchhHHHHHHHHHHHhhcCceEEEEeccceeeecCCCchhHHHHHHHHHHHhcccccCCCCceEEEEecccc
Confidence                   00111112233333333345667766665311       1      11111 1   22235566666666543


Q ss_pred             c-hhcccc-CCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCC
Q 010355          286 D-VLSSKM-DCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGL  339 (512)
Q Consensus       286 ~-v~~~~~-~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~Gl  339 (512)
                      . +..... ...+.+.+..|+.++-.++|+-++........  ...+.++++|.|.
T Consensus       544 ~~lp~~i~~~f~~ei~~~~lse~qRl~iLq~y~~~~~~n~~--v~~k~~a~~t~gf  597 (953)
T KOG0736|consen  544 EDLPADIQSLFLHEIEVPALSEEQRLEILQWYLNHLPLNQD--VNLKQLARKTSGF  597 (953)
T ss_pred             ccCCHHHHHhhhhhccCCCCCHHHHHHHHHHHHhccccchH--HHHHHHHHhcCCC
Confidence            3 221111 12367889999999999999988754332221  2234566666554

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=96.06  E-value=0.014  Score=53.39  Aligned_cols=51  Identities=20%  Similarity=0.288  Sum_probs=35.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFY  230 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~  230 (512)
                      .|+|+|-||+||||+|..++.....++. ..++-|+...++++       ..+||...+
T Consensus         2 kIaI~GKGG~GKTtiaalll~~l~~~~~-~~VLvVDaDpd~nL-------~~~LGve~~   52 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLKRLLSKGG-YNVLVVDADPDSNL-------PEALGVEEP   52 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHHHHHhcCC-ceEEEEeCCCCCCh-------HHhcCCCCC
Confidence            5899999999999999996666554332 34556676666554       345666544

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=96.06  E-value=0.026  Score=51.33  Aligned_cols=116  Identities=21%  Similarity=0.205  Sum_probs=65.3

Q ss_pred             HHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhc-CCCCe--EEEEEeCCCCCHHHHHHHHHHHhC--------CCC
Q 010355          161 VINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKAD-KLFDE--VVYAEVSQRPDVKKIQGQIADKLG--------LKF  229 (512)
Q Consensus       161 l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~-~~f~~--~~wv~~~~~~~~~~ll~~i~~~l~--------~~~  229 (512)
                      ++..|-..+..-..|.|++|+|||||.+.+++..... +.|-.  +.-|+-+.         .|+..+.        ...
T Consensus       128 li~~ly~~g~lntLiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDers---------EIag~~~gvpq~~~g~R~  198 (308)
T COG3854         128 LIKDLYQNGWLNTLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERS---------EIAGCLNGVPQHGRGRRM  198 (308)
T ss_pred             HHHHHHhcCceeeEEecCCCCChHHHHHHHHHHhhccccccCCceEEEEeccc---------hhhccccCCchhhhhhhh
Confidence            4555555566667899999999999999999877643 23422  22232221         1222111        000


Q ss_pred             CCCCchHHHHHHHHHHhCCCeEEEEEeCCCChhhhhhhCCCCCCCCeEEEEEeCCcc
Q 010355          230 YEESESGRARKLCERLKKEKKILVILDDIWTNLDLENVGIPFGVRGCRVLMTARSQD  286 (512)
Q Consensus       230 ~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~~~~l~~~~~~~gs~iivTtR~~~  286 (512)
                      +-...-....-+...+++-.+=+||+|.+-...+...+... ...|.++|.|..--.
T Consensus       199 dVld~cpk~~gmmmaIrsm~PEViIvDEIGt~~d~~A~~ta-~~~GVkli~TaHG~~  254 (308)
T COG3854         199 DVLDPCPKAEGMMMAIRSMSPEVIIVDEIGTEEDALAILTA-LHAGVKLITTAHGNG  254 (308)
T ss_pred             hhcccchHHHHHHHHHHhcCCcEEEEeccccHHHHHHHHHH-HhcCcEEEEeecccc
Confidence            10111112333444555567889999999876554444221 156888888876543

>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed

Probab=96.06  E-value=0.024  Score=62.64  Aligned_cols=179  Identities=19%  Similarity=0.239  Sum_probs=86.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh--hcCCC-----------CeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCch
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK--ADKLF-----------DEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESES  235 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~--~~~~f-----------~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~  235 (512)
                      +.+++.|+|+.+.||||+.+.+.-..-  ....|           -..++..++...++..-+..+...          .
T Consensus       326 ~~~~~iITGpN~gGKTt~lktigl~~~maq~G~~vpa~~~~~i~~~~~i~~~ig~~~si~~~lStfS~~----------m  395 (782)
T PRK00409        326 DKTVLVITGPNTGGKTVTLKTLGLAALMAKSGLPIPANEPSEIPVFKEIFADIGDEQSIEQSLSTFSGH----------M  395 (782)
T ss_pred             CceEEEEECCCCCCcHHHHHHHHHHHHHHHhCCCcccCCCccccccceEEEecCCccchhhchhHHHHH----------H
Confidence            457889999999999999988764311  00111           011223333222222111111110          0


Q ss_pred             HHHHHHHHHHhCCCeEEEEEeCCCChhh---hhhh----CCCCCCCCeEEEEEeCCcchhccccCCcc--ceecCCCCHH
Q 010355          236 GRARKLCERLKKEKKILVILDDIWTNLD---LENV----GIPFGVRGCRVLMTARSQDVLSSKMDCQN--NFLIGVLNES  306 (512)
Q Consensus       236 ~~~~~l~~~l~~~k~~LlVlDdv~~~~~---~~~l----~~~~~~~gs~iivTtR~~~v~~~~~~~~~--~~~l~~L~~~  306 (512)
                      .....+...+  ..+-|++||......+   -..+    ...+...|+.+|+||....+.........  ...+. ++. 
T Consensus       396 ~~~~~Il~~~--~~~sLvLlDE~~~GtDp~eg~ala~aile~l~~~~~~vIitTH~~el~~~~~~~~~v~~~~~~-~d~-  471 (782)
T PRK00409        396 TNIVRILEKA--DKNSLVLFDELGAGTDPDEGAALAISILEYLRKRGAKIIATTHYKELKALMYNREGVENASVE-FDE-  471 (782)
T ss_pred             HHHHHHHHhC--CcCcEEEecCCCCCCCHHHHHHHHHHHHHHHHHCCCEEEEECChHHHHHHHhcCCCeEEEEEE-Eec-
Confidence            1122233333  3678999999853211   1111    11112457899999998766432111111  11111 111 


Q ss_pred             HHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHHHHhccCCHHHHHHHHHHhc
Q 010355          307 EARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARALRNKNTFEWKSALRELT  366 (512)
Q Consensus       307 ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~~L~~~~~~~w~~~l~~l~  366 (512)
                      +......+...+...    ...+-.|++++ |+|-.|..-|..+.......+..++..|.
T Consensus       472 ~~l~~~Ykl~~G~~g----~S~a~~iA~~~-Glp~~ii~~A~~~~~~~~~~~~~li~~l~  526 (782)
T PRK00409        472 ETLRPTYRLLIGIPG----KSNAFEIAKRL-GLPENIIEEAKKLIGEDKEKLNELIASLE  526 (782)
T ss_pred             CcCcEEEEEeeCCCC----CcHHHHHHHHh-CcCHHHHHHHHHHHhhhhhHHHHHHHHHH
Confidence            111100111111111    23466777776 88998888888877554555666655544

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

Probab=96.05  E-value=0.0092  Score=54.32  Aligned_cols=52  Identities=21%  Similarity=0.289  Sum_probs=34.7

Q ss_pred             hHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEe
Q 010355          155 MSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEV  208 (512)
Q Consensus       155 ~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~  208 (512)
                      ..+-...++.|.  ...++.+.|++|+|||.||...+.+.-....|+.++++.-
T Consensus         6 ~~~Q~~~~~al~--~~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp   57 (205)
T PF02562_consen    6 NEEQKFALDALL--NNDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRP   57 (205)
T ss_dssp             SHHHHHHHHHHH--H-SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-
T ss_pred             CHHHHHHHHHHH--hCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEec
Confidence            334444555555  4579999999999999999998876655577888887743

; GO: 0005524 ATP binding; PDB: 3B85_A.

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=96.05  E-value=0.062  Score=46.81  Aligned_cols=114  Identities=21%  Similarity=0.181  Sum_probs=60.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEe---CCCCCHHHHHHHHH----HHhCCC--CCCCCchH-----
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEV---SQRPDVKKIQGQIA----DKLGLK--FYEESESG-----  236 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~---~~~~~~~~ll~~i~----~~l~~~--~~~~~~~~-----  236 (512)
                      ..|-|++..|.||||+|...+.+....  -..+.++..   ........+++.+-    .+.+..  ........     
T Consensus         3 G~i~vy~g~G~Gkt~~a~g~~~ra~~~--g~~v~~vQFlKg~~~~gE~~~l~~l~~v~~~~~g~~~~~~~~~~~~~~~~a   80 (159)
T cd00561           3 GLIQVYTGNGKGKTTAALGLALRALGH--GYRVGVVQFLKGGWKYGELKALERLPNIEIHRMGRGFFWTTENDEEDIAAA   80 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHC--CCeEEEEEEeCCCCccCHHHHHHhCCCcEEEECCCCCccCCCChHHHHHHH
Confidence            568888889999999999888776532  234444433   22344444444441    001111  00011111     


Q ss_pred             --HHHHHHHHHhCCCeEEEEEeCCCChhhh-----hhhC--CCCCCCCeEEEEEeCCcc
Q 010355          237 --RARKLCERLKKEKKILVILDDIWTNLDL-----ENVG--IPFGVRGCRVLMTARSQD  286 (512)
Q Consensus       237 --~~~~l~~~l~~~k~~LlVlDdv~~~~~~-----~~l~--~~~~~~gs~iivTtR~~~  286 (512)
                        ......+.+..+.-=|||||.+-....+     +.+.  +.....+..||+|.|+..
T Consensus        81 ~~~~~~a~~~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~~p  139 (159)
T cd00561          81 AEGWAFAKEAIASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRNAP  139 (159)
T ss_pred             HHHHHHHHHHHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCCCC
Confidence              1233344444555569999998543211     1111  111245678999999865

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.

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=96.04  E-value=0.0065  Score=55.32  Aligned_cols=28  Identities=39%  Similarity=0.546  Sum_probs=25.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      ++.+|+|.|.+|+||||+|+.++..+..
T Consensus         7 ~~iiIgIaG~SgSGKTTva~~l~~~~~~   34 (218)
T COG0572           7 KVIIIGIAGGSGSGKTTVAKELSEQLGV   34 (218)
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHhCc
Confidence            4579999999999999999999998874

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

Probab=96.04  E-value=0.0057  Score=51.57  Aligned_cols=36  Identities=28%  Similarity=0.345  Sum_probs=28.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCC
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRP  212 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~  212 (512)
                      .+-|.|.|-+|+|||||+.+++.....       -|++++.-.
T Consensus         7 ~PNILvtGTPG~GKstl~~~lae~~~~-------~~i~isd~v   42 (176)
T KOG3347|consen    7 RPNILVTGTPGTGKSTLAERLAEKTGL-------EYIEISDLV   42 (176)
T ss_pred             CCCEEEeCCCCCCchhHHHHHHHHhCC-------ceEehhhHH
Confidence            466899999999999999999976542       267766543

>TIGR00750 lao LAO/AO transport system ATPase

Probab=96.04  E-value=0.027  Score=55.11  Aligned_cols=31  Identities=23%  Similarity=0.497  Sum_probs=26.2

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHHHhhhhc
Q 010355          167 NPDVHMIGAYGMAGVGKTMLVKEVARQAKAD  197 (512)
Q Consensus       167 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~  197 (512)
                      .....+|+|.|++|+|||||+..+.......
T Consensus        31 ~~~~~~i~i~G~~G~GKttl~~~l~~~~~~~   61 (300)
T TIGR00750        31 TGNAHRVGITGTPGAGKSTLLEALGMELRRR   61 (300)
T ss_pred             cCCceEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            3467899999999999999999998876543

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

>PRK00131 aroK shikimate kinase; Reviewed

Probab=96.04  E-value=0.0062  Score=54.19  Aligned_cols=26  Identities=23%  Similarity=0.291  Sum_probs=23.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ...|.|+|++|+||||+|+.++....
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~~l~   29 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAKRLG   29 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHhC
Confidence            46899999999999999999998874

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=96.02  E-value=0.013  Score=50.18  Aligned_cols=39  Identities=18%  Similarity=0.297  Sum_probs=28.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCC
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQ  210 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~  210 (512)
                      ++|.|+|..|+|||||++.+.+....+ .+...+..+...
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l~~~-g~~v~~ik~~~~   39 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINELKRR-GYRVAVIKHTDH   39 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHHHT-T--EEEEEE-ST
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHhHc-CCceEEEEEccC
Confidence            589999999999999999999998753 345555555544

>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=96.02  E-value=0.0043  Score=51.42  Aligned_cols=24  Identities=42%  Similarity=0.527  Sum_probs=18.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      |.|+|.+|+|||++|+.++.....
T Consensus         2 vLleg~PG~GKT~la~~lA~~~~~   25 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALARSLGL   25 (131)
T ss_dssp             EEEES---HHHHHHHHHHHHHTT-
T ss_pred             EeeECCCccHHHHHHHHHHHHcCC
Confidence            679999999999999999998763

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.

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=96.01  E-value=0.02  Score=60.56  Aligned_cols=88  Identities=17%  Similarity=0.162  Sum_probs=54.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCC-----------------
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYE-----------------  231 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~-----------------  231 (512)
                      .-+++.|.|.+|+|||+|+.+++.....+ +-..++|++...  +..++.+.+. .++.....                 
T Consensus        30 ~Gs~~li~G~pGsGKT~l~~qf~~~~~~~-~ge~~lyis~ee--~~~~i~~~~~-~~g~d~~~~~~~g~l~~~~~~~~~~  105 (509)
T PRK09302         30 KGRPTLVSGTAGTGKTLFALQFLVNGIKR-FDEPGVFVTFEE--SPEDIIRNVA-SFGWDLQKLIDEGKLFILDASPDPS  105 (509)
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHHh-cCCCEEEEEccC--CHHHHHHHHH-HcCCCHHHHhhCCeEEEEecCcccc
Confidence            34789999999999999999987655422 135678887766  4455555543 23322100                 


Q ss_pred             -------CCchHHHHHHHHHHhCCCeEEEEEeCCCC
Q 010355          232 -------ESESGRARKLCERLKKEKKILVILDDIWT  260 (512)
Q Consensus       232 -------~~~~~~~~~l~~~l~~~k~~LlVlDdv~~  260 (512)
                             .........+...+...+.-.+|+|.+..
T Consensus       106 ~~~~~~~~~~~~l~~~l~~~i~~~~~~~vVIDSls~  141 (509)
T PRK09302        106 EQEEAGEYDLEALFIRIEYAIDKIGAKRVVLDSIEA  141 (509)
T ss_pred             cccccccccHHHHHHHHHHHHHhhCCCEEEECCHHH
Confidence                   01122334455555444566799999853

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=96.00  E-value=0.0096  Score=53.66  Aligned_cols=37  Identities=27%  Similarity=0.318  Sum_probs=29.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEe
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEV  208 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~  208 (512)
                      .++++|+|+.|+|||||+..++....  ..|..+++.+-
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~~~~--~~~~~~v~~TT   38 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQEFP--DKFGRVVSHTT   38 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHHHST--TTEEEEEEEES
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcc--cccccceeecc
Confidence            47899999999999999999999876  44755555443

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 ....

>PRK00625 shikimate kinase; Provisional

Probab=96.00  E-value=0.0059  Score=54.36  Aligned_cols=24  Identities=33%  Similarity=0.336  Sum_probs=21.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .|.|+|++|+||||+++.++....
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l~   25 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFLS   25 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            488999999999999999988765

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=96.00  E-value=0.0058  Score=54.97  Aligned_cols=26  Identities=31%  Similarity=0.439  Sum_probs=24.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ..+|+|-||=|+||||||+.+++...
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~l~   29 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEHLG   29 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHHhC
Confidence            47899999999999999999999876

>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=95.98  E-value=0.031  Score=49.43  Aligned_cols=26  Identities=23%  Similarity=0.221  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      -.+++|.|+.|+|||||++.++....
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~G~~~   52 (166)
T cd03223          27 GDRLLITGPSGTGKSSLFRALAGLWP   52 (166)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            46899999999999999999987654

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

>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=95.97  E-value=0.011  Score=57.79  Aligned_cols=47  Identities=17%  Similarity=0.215  Sum_probs=33.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHH
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQG  219 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~  219 (512)
                      +++.+.|.||+||||+|...+-....+  -..++-++.....++.+++.
T Consensus         2 r~~~~~GKGGVGKTT~aaA~A~~~A~~--G~rtLlvS~Dpa~~L~d~l~   48 (305)
T PF02374_consen    2 RILFFGGKGGVGKTTVAAALALALARR--GKRTLLVSTDPAHSLSDVLG   48 (305)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHHHT--TS-EEEEESSTTTHHHHHHT
T ss_pred             eEEEEecCCCCCcHHHHHHHHHHHhhC--CCCeeEeecCCCccHHHHhC
Confidence            689999999999999998888776643  23466666666555555443

...

>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=95.96  E-value=0.047  Score=49.02  Aligned_cols=115  Identities=21%  Similarity=0.246  Sum_probs=60.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeC--CCCCHHHH------HHHHHHHhCCCCC------CCCc
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVS--QRPDVKKI------QGQIADKLGLKFY------EESE  234 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~--~~~~~~~l------l~~i~~~l~~~~~------~~~~  234 (512)
                      .-.+++|.|..|+|||||++.++....   ...+.+++.-.  .......+      ..++++.+++...      ..+.
T Consensus        24 ~G~~~~l~G~nGsGKStLl~~i~G~~~---~~~G~v~~~g~~~~~~~~~~~~~~i~~~~q~l~~~gl~~~~~~~~~~LS~  100 (180)
T cd03214          24 AGEIVGILGPNGAGKSTLLKTLAGLLK---PSSGEILLDGKDLASLSPKELARKIAYVPQALELLGLAHLADRPFNELSG  100 (180)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCC---CCCcEEEECCEECCcCCHHHHHHHHhHHHHHHHHcCCHhHhcCCcccCCH
Confidence            346899999999999999999987653   23444444211  11122121      1224555554311      1111


Q ss_pred             hH-HHHHHHHHHhCCCeEEEEEeCCCChh---hhhhh---CCCCCCC-CeEEEEEeCCcch
Q 010355          235 SG-RARKLCERLKKEKKILVILDDIWTNL---DLENV---GIPFGVR-GCRVLMTARSQDV  287 (512)
Q Consensus       235 ~~-~~~~l~~~l~~~k~~LlVlDdv~~~~---~~~~l---~~~~~~~-gs~iivTtR~~~v  287 (512)
                      .+ ..-.+...+.. .+-++++|.-....   ....+   ...+... +..||++|.....
T Consensus       101 G~~qrl~laral~~-~p~llllDEP~~~LD~~~~~~~~~~l~~~~~~~~~tiii~sh~~~~  160 (180)
T cd03214         101 GERQRVLLARALAQ-EPPILLLDEPTSHLDIAHQIELLELLRRLARERGKTVVMVLHDLNL  160 (180)
T ss_pred             HHHHHHHHHHHHhc-CCCEEEEeCCccCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHH
Confidence            11 22234445554 67899999875332   11111   1111122 5678888887654

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.

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=95.96  E-value=0.042  Score=48.48  Aligned_cols=115  Identities=18%  Similarity=0.107  Sum_probs=61.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEE---EEEeCCCCCHHHHHHHHH---HHhCCC--CCCCCch------
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVV---YAEVSQRPDVKKIQGQIA---DKLGLK--FYEESES------  235 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~---wv~~~~~~~~~~ll~~i~---~~l~~~--~~~~~~~------  235 (512)
                      ...|-|++..|.||||+|..++.+..... + .++   |+.-.........+..+.   .+++..  ....+..      
T Consensus         5 ~Gli~v~~g~GkGKtt~a~g~a~ra~~~g-~-~v~ivQFlKg~~~~GE~~~l~~~~~~~~~~g~g~~~~~~~~~~~~~~~   82 (173)
T TIGR00708         5 RGIIIVHTGNGKGKTTAAFGMALRALGHG-K-KVGVIQFIKGAWPNGERAAFEPHGVEFQVMGTGFTWETQNREADTAIA   82 (173)
T ss_pred             ccEEEEECCCCCChHHHHHHHHHHHHHCC-C-eEEEEEEecCCcccChHHHHHhcCcEEEECCCCCeecCCCcHHHHHHH
Confidence            36788888899999999999888765322 2 232   333332344444544430   011111  1111111      


Q ss_pred             -HHHHHHHHHHhCCCeEEEEEeCCCChhhh-----hhhC--CCCCCCCeEEEEEeCCcc
Q 010355          236 -GRARKLCERLKKEKKILVILDDIWTNLDL-----ENVG--IPFGVRGCRVLMTARSQD  286 (512)
Q Consensus       236 -~~~~~l~~~l~~~k~~LlVlDdv~~~~~~-----~~l~--~~~~~~gs~iivTtR~~~  286 (512)
                       .......+.+..+.-=|||||.+.....+     +.+.  +....++..||+|-|+..
T Consensus        83 ~~~~~~a~~~l~~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evVlTGR~~p  141 (173)
T TIGR00708        83 KAAWQHAKEMLADPELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRGCP  141 (173)
T ss_pred             HHHHHHHHHHHhcCCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEEEECCCCC
Confidence             12334445555555569999998533221     1111  111246778999999874

Alternate name: corrinoid adenosyltransferase.

>PRK13768 GTPase; Provisional

Probab=95.95  E-value=0.039  Score=52.51  Aligned_cols=36  Identities=25%  Similarity=0.278  Sum_probs=27.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEe
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEV  208 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~  208 (512)
                      .+++|.|++|+||||++..+.......  -..++.++.
T Consensus         3 ~~i~v~G~~G~GKTt~~~~~~~~l~~~--g~~v~~i~~   38 (253)
T PRK13768          3 YIVFFLGTAGSGKTTLTKALSDWLEEQ--GYDVAIVNL   38 (253)
T ss_pred             EEEEEECCCCccHHHHHHHHHHHHHhc--CCceEEEEC
Confidence            578999999999999999998877643  234444544

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=95.94  E-value=0.022  Score=57.18  Aligned_cols=47  Identities=30%  Similarity=0.316  Sum_probs=35.1

Q ss_pred             ccccchHHHHHHHHHhcCC--------------CceEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          150 AFESRMSTLNDVINALKNP--------------DVHMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       150 ~~~gR~~~l~~l~~~L~~~--------------~~~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      .++|.++..+.+.-.+.+.              ..+.|.++|++|+|||+||+.++.....
T Consensus        13 ~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l~~   73 (441)
T TIGR00390        13 YIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLANA   73 (441)
T ss_pred             hccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHhCC
Confidence            4677777776665444321              2367899999999999999999988753

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.

>PLN02165 adenylate isopentenyltransferase

Probab=95.93  E-value=0.009  Score=58.32  Aligned_cols=30  Identities=23%  Similarity=0.325  Sum_probs=25.8

Q ss_pred             cCCCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          166 KNPDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       166 ~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .+....+|+|+|+.|+|||+||..++....
T Consensus        39 ~~~~g~iivIiGPTGSGKStLA~~LA~~l~   68 (334)
T PLN02165         39 QNCKDKVVVIMGATGSGKSRLSVDLATRFP   68 (334)
T ss_pred             cCCCCCEEEEECCCCCcHHHHHHHHHHHcC
Confidence            455567999999999999999999988754

>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues

Probab=95.93  E-value=0.011  Score=53.85  Aligned_cols=10  Identities=20%  Similarity=0.378  Sum_probs=5.0

Q ss_pred             CCCeEEEEEe
Q 010355          273 VRGCRVLMTA  282 (512)
Q Consensus       273 ~~gs~iivTt  282 (512)
                      .+|.||.--+
T Consensus       137 ~hGGrif~Cs  146 (314)
T PF06524_consen  137 DHGGRIFKCS  146 (314)
T ss_pred             cCCCeEEEee
Confidence            3455555444

The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=95.92  E-value=0.061  Score=50.76  Aligned_cols=51  Identities=12%  Similarity=0.148  Sum_probs=36.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIAD  223 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~  223 (512)
                      -.++.|.|.+|+|||+++.+++...... +-..++|++...  +...+...++.
T Consensus        13 G~l~lI~G~~G~GKT~~~~~~~~~~~~~-~g~~vly~s~E~--~~~~~~~r~~~   63 (242)
T cd00984          13 GDLIIIAARPSMGKTAFALNIAENIAKK-QGKPVLFFSLEM--SKEQLLQRLLA   63 (242)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHHh-CCCceEEEeCCC--CHHHHHHHHHH
Confidence            3689999999999999999988776542 134567776654  55666666653

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.

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=95.92  E-value=0.028  Score=50.35  Aligned_cols=26  Identities=27%  Similarity=0.387  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      -.+++|.|+.|+|||||++.++....
T Consensus        28 Ge~~~i~G~nGsGKStLl~~l~G~~~   53 (178)
T cd03247          28 GEKIALLGRSGSGKSTLLQLLTGDLK   53 (178)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhccCC
Confidence            36899999999999999999987653

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.

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

Probab=95.92  E-value=0.019  Score=57.03  Aligned_cols=64  Identities=20%  Similarity=0.184  Sum_probs=47.9

Q ss_pred             cccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHH
Q 010355          151 FESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQI  221 (512)
Q Consensus       151 ~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i  221 (512)
                      ++|++..+..+...+..+  +.+.+.|.+|+|||+||+.++.....     ..+++.+.....+.+++...
T Consensus        26 ~~g~~~~~~~~l~a~~~~--~~vll~G~PG~gKT~la~~lA~~l~~-----~~~~i~~t~~l~p~d~~G~~   89 (329)
T COG0714          26 VVGDEEVIELALLALLAG--GHVLLEGPPGVGKTLLARALARALGL-----PFVRIQCTPDLLPSDLLGTY   89 (329)
T ss_pred             eeccHHHHHHHHHHHHcC--CCEEEECCCCccHHHHHHHHHHHhCC-----CeEEEecCCCCCHHHhcCch
Confidence            778888888877766644  55789999999999999999988762     24566676666666655443

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

Probab=95.90  E-value=0.052  Score=52.97  Aligned_cols=27  Identities=44%  Similarity=0.581  Sum_probs=24.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ..+-|.++|++|.|||-||++++....
T Consensus       126 p~kGiLL~GPpG~GKTmlAKA~Akeag  152 (386)
T KOG0737|consen  126 PPKGILLYGPPGTGKTMLAKAIAKEAG  152 (386)
T ss_pred             CCccceecCCCCchHHHHHHHHHHHcC
Confidence            456788999999999999999999876

>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta

Probab=95.90  E-value=0.047  Score=55.71  Aligned_cols=92  Identities=20%  Similarity=0.352  Sum_probs=59.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCC-CHHHHHHHHHHHhCCC-------CCCCCch-----
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRP-DVKKIQGQIADKLGLK-------FYEESES-----  235 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~ll~~i~~~l~~~-------~~~~~~~-----  235 (512)
                      .-.-++|.|.+|+|||+|+.++++.... .+-+.++|+-++... ...+++..+...-.+.       ....+..     
T Consensus       137 kGQr~~Ifg~~G~GKt~l~~~~~~~~~~-~~~~v~V~~~iGeR~rEv~e~~~~~~~~~~l~rtvvv~~ts~~~~~~r~~~  215 (449)
T TIGR03305       137 RGGKAGLFGGAGVGKTVLLTEMIHNMVG-QHQGVSIFCGIGERCREGEELYREMKEAGVLDNTVMVFGQMNEPPGARFRV  215 (449)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHHHHh-cCCCEEEEEEeccCcHHHHHHHHHHhhccccceEEEEEeCCCCCHHHHHHH
Confidence            3467899999999999999999887542 234677888887655 4556666665432211       1111111     


Q ss_pred             -HHHHHHHHHHh--CCCeEEEEEeCCCCh
Q 010355          236 -GRARKLCERLK--KEKKILVILDDIWTN  261 (512)
Q Consensus       236 -~~~~~l~~~l~--~~k~~LlVlDdv~~~  261 (512)
                       .....+.++++  +++++||++||+...
T Consensus       216 ~~~a~tiAEyfrd~~G~~VLl~~DslTR~  244 (449)
T TIGR03305       216 GHTALTMAEYFRDDEKQDVLLLIDNIFRF  244 (449)
T ss_pred             HHHHHHHHHHHHHhcCCceEEEecChHHH
Confidence             12345666776  379999999999543

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.

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

Probab=95.89  E-value=0.18  Score=50.90  Aligned_cols=73  Identities=26%  Similarity=0.403  Sum_probs=43.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhC
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKK  247 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~  247 (512)
                      ..++-+.+.|++|.|||.|++.++......       +.+++..    .+..        ...... ...+..++..-+.
T Consensus       184 ~p~rglLLfGPpgtGKtmL~~aiAsE~~at-------ff~iSas----sLts--------K~~Ge~-eK~vralf~vAr~  243 (428)
T KOG0740|consen  184 EPVRGLLLFGPPGTGKTMLAKAIATESGAT-------FFNISAS----SLTS--------KYVGES-EKLVRALFKVARS  243 (428)
T ss_pred             cccchhheecCCCCchHHHHHHHHhhhcce-------EeeccHH----Hhhh--------hccChH-HHHHHHHHHHHHh
Confidence            345677799999999999999999876642       2222211    1110        111111 2234444444445


Q ss_pred             CCeEEEEEeCCCC
Q 010355          248 EKKILVILDDIWT  260 (512)
Q Consensus       248 ~k~~LlVlDdv~~  260 (512)
                      ..+.++++|++..
T Consensus       244 ~qPsvifidEids  256 (428)
T KOG0740|consen  244 LQPSVIFIDEIDS  256 (428)
T ss_pred             cCCeEEEechhHH
Confidence            6789999999853

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=95.88  E-value=0.034  Score=54.77  Aligned_cols=38  Identities=24%  Similarity=0.476  Sum_probs=29.6

Q ss_pred             HHHHHhc--CCCceEEEEEcCCCCcHHHHHHHHHHhhhhc
Q 010355          160 DVINALK--NPDVHMIGAYGMAGVGKTMLVKEVARQAKAD  197 (512)
Q Consensus       160 ~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~  197 (512)
                      .|++.+.  ..+..+|+|.|.+|+|||||+..+.......
T Consensus        44 ~l~~~~~~~~~~~~~igi~G~~GaGKSTl~~~l~~~l~~~   83 (332)
T PRK09435         44 ELLDALLPHTGNALRIGITGVPGVGKSTFIEALGMHLIEQ   83 (332)
T ss_pred             HHHHHHhhcCCCcEEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            4444443  4567899999999999999999988887643

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=95.88  E-value=0.048  Score=56.00  Aligned_cols=91  Identities=23%  Similarity=0.361  Sum_probs=59.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCC-CHHHHHHHHHHHhCCC-------CCCCCch-----
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRP-DVKKIQGQIADKLGLK-------FYEESES-----  235 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~ll~~i~~~l~~~-------~~~~~~~-----  235 (512)
                      .-.-++|.|.+|+|||||+..+++..... +-+.++++-++... ...+++..+...-...       ....+..     
T Consensus       142 kGQR~gIfa~~G~GKt~Ll~~~~~~~~~~-~~dv~V~~liGER~rEv~ef~~~~~~~~~l~rsvvv~atsd~~~~~R~~a  220 (461)
T PRK12597        142 KGGKTGLFGGAGVGKTVLMMELIFNISKQ-HSGSSVFAGVGERSREGHELYHEMKESGVLDKTVMVYGQMNEPPGARMRV  220 (461)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHHHHhh-CCCEEEEEcCCcchHHHHHHHHHHHhcCCcceeEEEecCCCCCHHHHHHH
Confidence            34678999999999999999998877643 56777787776554 4556666665432211       1111111     


Q ss_pred             -HHHHHHHHHHh-C-CCeEEEEEeCCCC
Q 010355          236 -GRARKLCERLK-K-EKKILVILDDIWT  260 (512)
Q Consensus       236 -~~~~~l~~~l~-~-~k~~LlVlDdv~~  260 (512)
                       .....+.++++ + ++++||++|++..
T Consensus       221 ~~~a~tiAEyfrd~~G~~VLl~~DslTR  248 (461)
T PRK12597        221 VLTGLTIAEYLRDEEKEDVLLFIDNIFR  248 (461)
T ss_pred             HHHHHHHHHHHHHhcCCceEEEeccchH
Confidence             12345666664 2 7999999999954

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

Probab=95.87  E-value=0.039  Score=48.87  Aligned_cols=68  Identities=9%  Similarity=0.141  Sum_probs=39.0

Q ss_pred             ccchHHHHHHHHHhc--CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHH
Q 010355          152 ESRMSTLNDVINALK--NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIA  222 (512)
Q Consensus       152 ~gR~~~l~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~  222 (512)
                      +|....+.++++.+.  ......|.|+|..|+||+.+|+.+++.....  -...+-|+++. .+...+-..++
T Consensus         2 iG~s~~m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~lA~~IH~~s~r~--~~pfi~vnc~~-~~~~~~e~~LF   71 (168)
T PF00158_consen    2 IGESPAMKRLREQAKRAASSDLPVLITGETGTGKELLARAIHNNSPRK--NGPFISVNCAA-LPEELLESELF   71 (168)
T ss_dssp             S--SHHHHHHHHHHHHHTTSTS-EEEECSTTSSHHHHHHHHHHCSTTT--TS-EEEEETTT-S-HHHHHHHHH
T ss_pred             EeCCHHHHHHHHHHHHHhCCCCCEEEEcCCCCcHHHHHHHHHHhhhcc--cCCeEEEehhh-hhcchhhhhhh
Confidence            566666766666554  2333567799999999999999998854421  22334445443 23344444443

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 ....

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=95.87  E-value=0.0074  Score=54.13  Aligned_cols=25  Identities=24%  Similarity=0.348  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .+++|+|++|+|||||++.++....
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~~~   26 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARARLA   26 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcC
Confidence            4789999999999999999988754

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.

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=95.87  E-value=0.028  Score=56.11  Aligned_cols=108  Identities=13%  Similarity=0.143  Sum_probs=58.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHH---HHHHhCCCCCCCCchHHHHHHHHHH
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQ---IADKLGLKFYEESESGRARKLCERL  245 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~---i~~~l~~~~~~~~~~~~~~~l~~~l  245 (512)
                      ....+.|.|+.|+||||+++.+.....  ......++. +..+...  ....   +..+-..   ..........+...|
T Consensus       121 ~~g~ili~G~tGSGKTT~l~al~~~i~--~~~~~~i~t-iEdp~E~--~~~~~~~~i~q~ev---g~~~~~~~~~l~~~l  192 (343)
T TIGR01420       121 PRGLILVTGPTGSGKSTTLASMIDYIN--KNAAGHIIT-IEDPIEY--VHRNKRSLINQREV---GLDTLSFANALRAAL  192 (343)
T ss_pred             cCcEEEEECCCCCCHHHHHHHHHHhhC--cCCCCEEEE-EcCChhh--hccCccceEEcccc---CCCCcCHHHHHHHhh
Confidence            347899999999999999999887654  223344443 2222111  1000   0000000   111112334455555


Q ss_pred             hCCCeEEEEEeCCCChhhhhh-hCCCCCCCCeEEEEEeCCcch
Q 010355          246 KKEKKILVILDDIWTNLDLEN-VGIPFGVRGCRVLMTARSQDV  287 (512)
Q Consensus       246 ~~~k~~LlVlDdv~~~~~~~~-l~~~~~~~gs~iivTtR~~~v  287 (512)
                      + ..+=+|++|.+.+...+.. +...  ..|..|+.|......
T Consensus       193 r-~~pd~i~vgEird~~~~~~~l~aa--~tGh~v~~T~Ha~~~  232 (343)
T TIGR01420       193 R-EDPDVILIGEMRDLETVELALTAA--ETGHLVFGTLHTNSA  232 (343)
T ss_pred             c-cCCCEEEEeCCCCHHHHHHHHHHH--HcCCcEEEEEcCCCH
Confidence            5 4788999999987766544 2221  345557777665543

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.

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=95.87  E-value=0.021  Score=61.31  Aligned_cols=76  Identities=16%  Similarity=0.179  Sum_probs=51.9

Q ss_pred             ccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCC
Q 010355          148 YEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGL  227 (512)
Q Consensus       148 ~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~  227 (512)
                      ...++|.++.+..+...+...  +.+.++|++|+||||||+.++...... .|..++++. ....+...+++.++..++.
T Consensus        17 ~~~viG~~~a~~~l~~a~~~~--~~~ll~G~pG~GKT~la~~la~~l~~~-~~~~~~~~~-n~~~~~~~~~~~v~~~~g~   92 (608)
T TIGR00764        17 IDQVIGQEEAVEIIKKAAKQK--RNVLLIGEPGVGKSMLAKAMAELLPDE-ELEDILVYP-NPEDPNMPRIVEVPAGEGR   92 (608)
T ss_pred             HhhccCHHHHHHHHHHHHHcC--CCEEEECCCCCCHHHHHHHHHHHcCch-hheeEEEEe-CCCCCchHHHHHHHHhhch
Confidence            456789988888777777654  366699999999999999999877542 333333322 2233555667777666653

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

>PRK08927 fliI flagellum-specific ATP synthase; Validated

Probab=95.86  E-value=0.064  Score=54.67  Aligned_cols=88  Identities=23%  Similarity=0.334  Sum_probs=54.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCC-CHHHHHHHHHHHhCCCC-------CCCCch-----
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRP-DVKKIQGQIADKLGLKF-------YEESES-----  235 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~ll~~i~~~l~~~~-------~~~~~~-----  235 (512)
                      .-..++|.|..|+|||||++.+++...    .+.++++-++... ...+++...+..-+...       ...+..     
T Consensus       157 ~Gqri~I~G~sG~GKTtLL~~I~~~~~----~d~~v~~~iGER~rEv~ef~~~~l~~~~l~rsvvv~atsd~~~~~r~~a  232 (442)
T PRK08927        157 RGQRMGIFAGSGVGKSVLLSMLARNAD----ADVSVIGLIGERGREVQEFLQDDLGPEGLARSVVVVATSDEPALMRRQA  232 (442)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhccC----CCEEEEEEEecCcHHHHHHHHHHhhccCceeEEEEEECCCCCHHHHHHH
Confidence            446789999999999999999987654    3455556666554 34455554444322211       111111     


Q ss_pred             -HHHHHHHHHHh-CCCeEEEEEeCCCC
Q 010355          236 -GRARKLCERLK-KEKKILVILDDIWT  260 (512)
Q Consensus       236 -~~~~~l~~~l~-~~k~~LlVlDdv~~  260 (512)
                       .....+.++++ .++++||++|++..
T Consensus       233 ~~~a~tiAEyfrd~G~~Vll~~DslTr  259 (442)
T PRK08927        233 AYLTLAIAEYFRDQGKDVLCLMDSVTR  259 (442)
T ss_pred             HHHHHHHHHHHHHCCCcEEEEEeCcHH
Confidence             12334555553 57999999999954

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=95.86  E-value=0.0081  Score=53.69  Aligned_cols=25  Identities=16%  Similarity=0.248  Sum_probs=22.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ++|.+.|++|+||||+|+.+.....
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~~~   27 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSVLA   27 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhhC
Confidence            6899999999999999999987753

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=95.85  E-value=0.011  Score=58.25  Aligned_cols=49  Identities=16%  Similarity=0.251  Sum_probs=39.2

Q ss_pred             cCccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          146 KGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       146 ~~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .+...++|.+..+..+.-.+...+..-+.|.|.+|+||||||+.+..-.
T Consensus         5 ~~f~~i~Gq~~~~~~l~~~~~~~~~~~vLl~G~pG~gKT~lar~la~ll   53 (334)
T PRK13407          5 FPFSAIVGQEEMKQAMVLTAIDPGIGGVLVFGDRGTGKSTAVRALAALL   53 (334)
T ss_pred             CCHHHhCCHHHHHHHHHHHHhccCCCcEEEEcCCCCCHHHHHHHHHHHC
Confidence            4456788999988887755544455668999999999999999998875

>PRK08149 ATP synthase SpaL; Validated

Probab=95.85  E-value=0.028  Score=57.13  Aligned_cols=88  Identities=18%  Similarity=0.271  Sum_probs=52.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCC-CCHHHHHHHHHHHhCCC-------CCCCCch-----
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQR-PDVKKIQGQIADKLGLK-------FYEESES-----  235 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-~~~~~ll~~i~~~l~~~-------~~~~~~~-----  235 (512)
                      .-..++|+|.+|+|||||+..++....    .+.++...+... .....+...+.......       ....+..     
T Consensus       150 ~Gq~i~I~G~sG~GKTTLl~~i~~~~~----~dv~v~g~Ig~rg~ev~e~~~~~l~~~~~~~~~vV~~~sd~p~~~r~~a  225 (428)
T PRK08149        150 VGQRMGIFASAGCGKTSLMNMLIEHSE----ADVFVIGLIGERGREVTEFVESLRASSRREKCVLVYATSDFSSVDRCNA  225 (428)
T ss_pred             cCCEEEEECCCCCChhHHHHHHhcCCC----CCeEEEEEEeeCCccHHHHHHHHhhcccccceEEEEECCCCCHHHHHhH
Confidence            346789999999999999998887543    233334444433 34556666665533221       1111111     


Q ss_pred             -HHHHHHHHHHh-CCCeEEEEEeCCCC
Q 010355          236 -GRARKLCERLK-KEKKILVILDDIWT  260 (512)
Q Consensus       236 -~~~~~l~~~l~-~~k~~LlVlDdv~~  260 (512)
                       .....+.++++ +++++||++|++..
T Consensus       226 ~~~a~tiAE~fr~~G~~Vll~~DslTr  252 (428)
T PRK08149        226 ALVATTVAEYFRDQGKRVVLFIDSMTR  252 (428)
T ss_pred             HHHHHHHHHHHHHcCCCEEEEccchHH
Confidence             12334555553 57999999999954

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

Probab=95.85  E-value=0.017  Score=58.84  Aligned_cols=46  Identities=22%  Similarity=0.166  Sum_probs=34.2

Q ss_pred             ccccchHHHHHHHHHhc-------CC---------CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          150 AFESRMSTLNDVINALK-------NP---------DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       150 ~~~gR~~~l~~l~~~L~-------~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .++|.+..++.|...+.       ..         ..+.+.|+|++|+|||+||+.++....
T Consensus        72 ~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l~  133 (412)
T PRK05342         72 YVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARILD  133 (412)
T ss_pred             HeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhC
Confidence            46888888777654431       10         235689999999999999999987654

>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=95.85  E-value=0.033  Score=49.79  Aligned_cols=27  Identities=41%  Similarity=0.465  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .-.+++|.|+.|+|||||++.++....
T Consensus        24 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~~   50 (177)
T cd03222          24 EGEVIGIVGPNGTGKTTAVKILAGQLI   50 (177)
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcCCC
Confidence            346899999999999999999887653

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.

>PRK08972 fliI flagellum-specific ATP synthase; Validated

Probab=95.85  E-value=0.032  Score=56.64  Aligned_cols=88  Identities=23%  Similarity=0.358  Sum_probs=54.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCC-CHHHHHHHHHHHhCCCC-------CCCCch-----
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRP-DVKKIQGQIADKLGLKF-------YEESES-----  235 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~ll~~i~~~l~~~~-------~~~~~~-----  235 (512)
                      .-..++|.|..|+|||||++.++....    .+.++.+-++... ...+++..++..-+...       ...+..     
T Consensus       161 ~GqrigI~G~sG~GKSTLL~~I~~~~~----~dv~Vi~lIGER~rEv~efi~~~l~~~~l~rtvvv~atsd~p~~~R~~a  236 (444)
T PRK08972        161 KGQRMGLFAGSGVGKSVLLGMMTRGTT----ADVIVVGLVGERGREVKEFIEEILGEEGRARSVVVAAPADTSPLMRLKG  236 (444)
T ss_pred             CCCEEEEECCCCCChhHHHHHhccCCC----CCEEEEEEEcCChHHHHHHHHHhhccCCcccEEEEEECCCCCHHHHHHH
Confidence            346789999999999999999886433    3456666666654 34556666544322211       111111     


Q ss_pred             -HHHHHHHHHHh-CCCeEEEEEeCCCC
Q 010355          236 -GRARKLCERLK-KEKKILVILDDIWT  260 (512)
Q Consensus       236 -~~~~~l~~~l~-~~k~~LlVlDdv~~  260 (512)
                       .....+.++++ .++++||++|++..
T Consensus       237 ~~~A~tiAEyfrd~G~~VLl~~DslTR  263 (444)
T PRK08972        237 CETATTIAEYFRDQGLNVLLLMDSLTR  263 (444)
T ss_pred             HHHHHHHHHHHHHcCCCEEEEEcChHH
Confidence             12234555553 47999999999954

>PRK14531 adenylate kinase; Provisional

Probab=95.82  E-value=0.027  Score=50.71  Aligned_cols=25  Identities=16%  Similarity=0.175  Sum_probs=22.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ..|.|+|++|+||||+++.++....
T Consensus         3 ~~i~i~G~pGsGKsT~~~~la~~~g   27 (183)
T PRK14531          3 QRLLFLGPPGAGKGTQAARLCAAHG   27 (183)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3588999999999999999988764

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

Probab=95.82  E-value=0.043  Score=53.19  Aligned_cols=56  Identities=21%  Similarity=0.194  Sum_probs=42.4

Q ss_pred             cCccccccchHHHHH---HHHHhcCC--CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCC
Q 010355          146 KGYEAFESRMSTLND---VINALKNP--DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFD  201 (512)
Q Consensus       146 ~~~~~~~gR~~~l~~---l~~~L~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~  201 (512)
                      ....+|||..+..+.   |++++.++  .-+.|.|+|++|.|||+||..+++.+...-+|.
T Consensus        36 ~~~dG~VGQ~~AReAaGvIv~mik~gk~aGrgiLi~GppgTGKTAlA~gIa~eLG~dvPF~   96 (450)
T COG1224          36 FIGDGLVGQEEAREAAGVIVKMIKQGKMAGRGILIVGPPGTGKTALAMGIARELGEDVPFV   96 (450)
T ss_pred             EcCCcccchHHHHHhhhHHHHHHHhCcccccEEEEECCCCCcHHHHHHHHHHHhCCCCCce
Confidence            345678998765443   55555543  358999999999999999999999988666664

>PRK06217 hypothetical protein; Validated

Probab=95.81  E-value=0.0075  Score=54.38  Aligned_cols=34  Identities=24%  Similarity=0.325  Sum_probs=26.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhhhcCCC--CeEEEE
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAKADKLF--DEVVYA  206 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~~~~~f--~~~~wv  206 (512)
                      .|+|.|.+|+||||||+++....... +|  +..+|.
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l~~~-~~~~D~~~~~   38 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERLDIP-HLDTDDYFWL   38 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCc-EEEcCceeec
Confidence            48999999999999999999887532 23  345553

>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=95.81  E-value=0.035  Score=49.47  Aligned_cols=26  Identities=19%  Similarity=0.308  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      -.+++|.|+.|+|||||.+.++....
T Consensus        28 Ge~~~i~G~nGsGKStLl~~l~G~~~   53 (173)
T cd03246          28 GESLAIIGPSGSGKSTLARLILGLLR   53 (173)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhccC
Confidence            46899999999999999999987653

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

>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=95.81  E-value=0.026  Score=48.59  Aligned_cols=26  Identities=35%  Similarity=0.489  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      -.+++|.|..|.|||||++.++....
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~~~   51 (144)
T cd03221          26 GDRIGLVGRNGAGKSTLLKLIAGELE   51 (144)
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCCCC
Confidence            46899999999999999999987653

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.

>cd01134 V_A-ATPase_A V/A-type ATP synthase catalytic subunit A

Probab=95.80  E-value=0.066  Score=52.53  Aligned_cols=86  Identities=14%  Similarity=0.205  Sum_probs=53.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCC-CHHHHHHHHHHH----hCCC----------CCCCCc
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRP-DVKKIQGQIADK----LGLK----------FYEESE  234 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~ll~~i~~~----l~~~----------~~~~~~  234 (512)
                      -..++|.|..|+|||+|+++++++..    -+.++++-++... ...+++..+-..    ++..          ....+.
T Consensus       157 Gqr~~I~G~~G~GKT~L~~~Iak~~~----~dvvVyv~iGERg~Ev~e~l~ef~~l~~~~~~~~~m~rtvlV~nts~~p~  232 (369)
T cd01134         157 GGTAAIPGPFGCGKTVIQQSLSKYSN----SDIVIYVGCGERGNEMTEVLEEFPELTDPVTGEPLMKRTVLIANTSNMPV  232 (369)
T ss_pred             CCEEEEECCCCCChHHHHHHHHhCCC----CCEEEEEEeCCChHHHHHHHHHHHhhccccccCCccceEEEEEECCCCCH
Confidence            35789999999999999999988643    3568888887654 445555554321    1111          001111


Q ss_pred             h------HHHHHHHHHHh-CCCeEEEEEeCCC
Q 010355          235 S------GRARKLCERLK-KEKKILVILDDIW  259 (512)
Q Consensus       235 ~------~~~~~l~~~l~-~~k~~LlVlDdv~  259 (512)
                      .      .....+.++++ .++.+||++|++.
T Consensus       233 ~~R~~s~yta~tiAEYfrd~G~dVll~~Ds~t  264 (369)
T cd01134         233 AAREASIYTGITIAEYFRDMGYNVALMADSTS  264 (369)
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCCEEEEEcChh
Confidence            1      11234555553 4789999999984

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.

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=95.79  E-value=0.015  Score=57.46  Aligned_cols=47  Identities=17%  Similarity=0.247  Sum_probs=39.5

Q ss_pred             ccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          148 YEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       148 ~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ...++|.+..+..|+-.+.++...-+.|.|..|+|||||++.+....
T Consensus         3 f~~ivgq~~~~~al~~~~~~~~~g~vli~G~~G~gKttl~r~~~~~~   49 (337)
T TIGR02030         3 FTAIVGQDEMKLALLLNVIDPKIGGVMVMGDRGTGKSTAVRALAALL   49 (337)
T ss_pred             ccccccHHHHHHHHHHHhcCCCCCeEEEEcCCCCCHHHHHHHHHHhh
Confidence            45678999988888777777667778899999999999999998765

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.

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=95.78  E-value=0.011  Score=52.23  Aligned_cols=28  Identities=25%  Similarity=0.353  Sum_probs=25.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      ..++++|+|..|+|||||++.+......
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~l~~   32 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPALCA   32 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHHHhh
Confidence            4679999999999999999999988764

>PRK00889 adenylylsulfate kinase; Provisional

Probab=95.78  E-value=0.011  Score=52.86  Aligned_cols=28  Identities=21%  Similarity=0.368  Sum_probs=24.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      ...+|+|+|++|+||||+|+.++.....
T Consensus         3 ~g~~i~~~G~~GsGKST~a~~la~~l~~   30 (175)
T PRK00889          3 RGVTVWFTGLSGAGKTTIARALAEKLRE   30 (175)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4568999999999999999999988753

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=95.77  E-value=0.0073  Score=52.43  Aligned_cols=23  Identities=30%  Similarity=0.512  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ++.|+|++|+||||+|+.+....
T Consensus         1 li~l~G~~GsGKST~a~~l~~~~   23 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAERL   23 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhhc
Confidence            47899999999999999998764

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>PTZ00088 adenylate kinase 1; Provisional

Probab=95.76  E-value=0.038  Score=51.53  Aligned_cols=24  Identities=25%  Similarity=0.501  Sum_probs=21.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .|.|.|++|+||||+|+.++....
T Consensus         8 rIvl~G~PGsGK~T~a~~La~~~g   31 (229)
T PTZ00088          8 KIVLFGAPGVGKGTFAEILSKKEN   31 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            388999999999999999988764

>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=95.73  E-value=0.014  Score=51.68  Aligned_cols=24  Identities=46%  Similarity=0.540  Sum_probs=20.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      |.|.|.+|+|||||++.++...+.
T Consensus         2 i~iTG~pG~GKTTll~k~i~~l~~   25 (168)
T PF03266_consen    2 IFITGPPGVGKTTLLKKVIEELKK   25 (168)
T ss_dssp             EEEES-TTSSHHHHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHHhhc
Confidence            689999999999999999988753

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.

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

Probab=95.73  E-value=0.012  Score=52.76  Aligned_cols=24  Identities=33%  Similarity=0.623  Sum_probs=22.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      +|+|.|.+|+||||||+.+.....
T Consensus         1 ii~i~G~sgsGKttla~~l~~~l~   24 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQLR   24 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHH
Confidence            589999999999999999998875

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

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

Probab=95.72  E-value=0.0078  Score=54.17  Aligned_cols=23  Identities=35%  Similarity=0.538  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      +|+|.|.+|+||||||+.++...
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~~   23 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRIL   23 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            58999999999999999999875

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.

>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=95.72  E-value=0.09  Score=51.56  Aligned_cols=92  Identities=21%  Similarity=0.339  Sum_probs=61.0

Q ss_pred             cccccchHHHHHHHHHhc------CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeC----CCC---CHH
Q 010355          149 EAFESRMSTLNDVINALK------NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVS----QRP---DVK  215 (512)
Q Consensus       149 ~~~~gR~~~l~~l~~~L~------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~----~~~---~~~  215 (512)
                      ..|+|-++.+++|++.+.      ...-+++.++|+.|.|||||+..+.+-...   |  .+|.-..    ..+   =+.
T Consensus        61 ~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~~le~---y--~~Y~l~~~Pm~e~PL~L~P~  135 (358)
T PF08298_consen   61 DEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKRGLEE---Y--PIYTLKGCPMHEEPLHLFPK  135 (358)
T ss_pred             ccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHHHhhe---E--EEEEecCCccccChhhhCCH
Confidence            478999999999999886      345789999999999999999999887763   2  3333221    111   245


Q ss_pred             HHHHHHHHHhCCCCCCCCchHHHHHHHHHH
Q 010355          216 KIQGQIADKLGLKFYEESESGRARKLCERL  245 (512)
Q Consensus       216 ~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l  245 (512)
                      ++-..+...++......-.......|.+..
T Consensus       136 ~~r~~~~~~~~~~i~g~l~p~~~~~L~~~y  165 (358)
T PF08298_consen  136 ELRREFEDELGIRIEGELCPWCRKRLLEEY  165 (358)
T ss_pred             hHHHHHHHHhCcccCCCcCHHHHHHHHHHh
Confidence            555666777776544433333333444444

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=95.72  E-value=0.0079  Score=54.98  Aligned_cols=23  Identities=39%  Similarity=0.616  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      +|+|.|++|+|||||++.+....
T Consensus         1 iigi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999998875

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.

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

Probab=95.71  E-value=0.0083  Score=51.69  Aligned_cols=24  Identities=33%  Similarity=0.483  Sum_probs=21.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      +|.|.|++|+||||+|+.+.....
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~~~   24 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKKLG   24 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhC
Confidence            589999999999999999998764

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=95.71  E-value=0.014  Score=57.75  Aligned_cols=49  Identities=14%  Similarity=0.215  Sum_probs=42.4

Q ss_pred             CccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          147 GYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       147 ~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      +...++|.++.+..|+..+.++...-|.|.|..|+||||+|+.++....
T Consensus        15 pf~~ivGq~~~k~al~~~~~~p~~~~vli~G~~GtGKs~~ar~~~~~l~   63 (350)
T CHL00081         15 PFTAIVGQEEMKLALILNVIDPKIGGVMIMGDRGTGKSTTIRALVDLLP   63 (350)
T ss_pred             CHHHHhChHHHHHHHHHhccCCCCCeEEEEcCCCCCHHHHHHHHHHHHh
Confidence            4567899999988888888888888888999999999999999987654

>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic

Probab=95.70  E-value=0.036  Score=54.64  Aligned_cols=23  Identities=17%  Similarity=0.374  Sum_probs=21.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhhh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      +++.|++|+||||+++.+.....
T Consensus         2 ~~l~Gl~GaGKST~~~~l~~~l~   24 (340)
T TIGR03575         2 CVLCGLPAAGKSTLARSLSATLR   24 (340)
T ss_pred             eEEECCCCCCHHHHHHHHHHHHH
Confidence            67899999999999999998875

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.

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=95.70  E-value=0.021  Score=48.07  Aligned_cols=27  Identities=26%  Similarity=0.252  Sum_probs=24.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      ..+|.+.|.-|+|||||++.++.....
T Consensus        22 ~~~i~l~G~lGaGKTtl~~~l~~~lg~   48 (133)
T TIGR00150        22 GTVVLLKGDLGAGKTTLVQGLLQGLGI   48 (133)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHcCC
Confidence            468999999999999999999998754

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.

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

Probab=95.69  E-value=0.017  Score=56.70  Aligned_cols=53  Identities=21%  Similarity=0.300  Sum_probs=37.0

Q ss_pred             ccccccchHHHHH---HHHHhcCCC--ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCC
Q 010355          148 YEAFESRMSTLND---VINALKNPD--VHMIGAYGMAGVGKTMLVKEVARQAKADKLF  200 (512)
Q Consensus       148 ~~~~~gR~~~l~~---l~~~L~~~~--~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f  200 (512)
                      ..++||..+..+.   +++++...+  -+.|.|.|++|.|||+||..+++.....-.|
T Consensus        23 ~~GlVGQ~~AReAagiiv~mIk~~K~aGr~iLiaGppGtGKTAlA~~ia~eLG~~~PF   80 (398)
T PF06068_consen   23 ADGLVGQEKAREAAGIIVDMIKEGKIAGRAILIAGPPGTGKTALAMAIAKELGEDVPF   80 (398)
T ss_dssp             ETTEES-HHHHHHHHHHHHHHHTT--TT-EEEEEE-TTSSHHHHHHHHHHHCTTTS-E
T ss_pred             cccccChHHHHHHHHHHHHHHhcccccCcEEEEeCCCCCCchHHHHHHHHHhCCCCCe
Confidence            4589998765543   455555443  5899999999999999999999998755444

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.

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=95.68  E-value=0.23  Score=47.86  Aligned_cols=36  Identities=14%  Similarity=0.066  Sum_probs=28.5

Q ss_pred             HHHHHHhcCCC-ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          159 NDVINALKNPD-VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       159 ~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ++|...+..++ .+...++|+.|+||+++|..++...
T Consensus         7 ~~L~~~i~~~rl~HAyLf~G~~G~Gk~~lA~~~A~~l   43 (290)
T PRK05917          7 EALIQRVRDQKVPSAIILHGQDLSNLSARAYELASLI   43 (290)
T ss_pred             HHHHHHHHcCCcCeeEeeECCCCCcHHHHHHHHHHHH
Confidence            45666666544 5678899999999999999988765

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=95.67  E-value=0.15  Score=55.58  Aligned_cols=48  Identities=15%  Similarity=0.320  Sum_probs=35.5

Q ss_pred             ccccccchHHHHHHHHHhc--CCCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          148 YEAFESRMSTLNDVINALK--NPDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       148 ~~~~~gR~~~l~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ...++|....+.++...+.  ......|.|+|..|+||+++|+.+.+...
T Consensus       324 ~~~l~g~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~~A~~ih~~s~  373 (638)
T PRK11388        324 FDHMPQDSPQMRRLIHFGRQAAKSSFPVLLCGEEGVGKALLAQAIHNESE  373 (638)
T ss_pred             ccceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCcCHHHHHHHHHHhCC
Confidence            3457788877777766554  12334578999999999999999987643

>PF11868 DUF3388: Protein of unknown function (DUF3388); InterPro: IPR024514 This domain is found in a family of bacterial proteins that are functionally uncharacterised

Probab=95.66  E-value=0.027  Score=47.95  Aligned_cols=47  Identities=26%  Similarity=0.333  Sum_probs=31.8

Q ss_pred             HHHHHHHHH----hcCCCceEEEEEcCCCCcHHHH--HHHHHHhhhhcCCCCeEEEEEeCCC
Q 010355          156 STLNDVINA----LKNPDVHMIGAYGMAGVGKTML--VKEVARQAKADKLFDEVVYAEVSQR  211 (512)
Q Consensus       156 ~~l~~l~~~----L~~~~~~vi~I~G~gGiGKTtL--a~~v~~~~~~~~~f~~~~wv~~~~~  211 (512)
                      +++.-|++.    +...+.++|+|-||+-+|||.-  |..||...         -|+-+|..
T Consensus        36 eeLGlLVDFmaEl~K~~Gh~lIGiRGmPRVGKTEsivAasVcAnK---------rW~f~SST   88 (192)
T PF11868_consen   36 EELGLLVDFMAELFKEEGHKLIGIRGMPRVGKTESIVAASVCANK---------RWLFLSST   88 (192)
T ss_pred             hHhccHHHHHHHHHHhcCceEEeecCCCccCchhHHHHHhhhcCc---------eEEEeeHH
Confidence            344444444    4477889999999999999954  44444333         38888763

Proteins in this family are typically between 261 to 275 amino acids in length and have a N-terminal ACT domain.

>PRK06002 fliI flagellum-specific ATP synthase; Validated

Probab=95.65  E-value=0.036  Score=56.48  Aligned_cols=88  Identities=20%  Similarity=0.268  Sum_probs=49.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHh-----CCCCCC-CCch------HH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKL-----GLKFYE-ESES------GR  237 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l-----~~~~~~-~~~~------~~  237 (512)
                      -..++|+|..|+|||||++.++....   ...+++++.-.....+..+....+...     +.-... .+..      ..
T Consensus       165 Gqri~I~G~SGsGKTTLL~~Ia~l~~---pd~gvv~liGergrev~e~~~~~l~~~r~rtI~vV~qsd~~~~~r~~~~~~  241 (450)
T PRK06002        165 GQRIGIFAGSGVGKSTLLAMLARADA---FDTVVIALVGERGREVREFLEDTLADNLKKAVAVVATSDESPMMRRLAPLT  241 (450)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCC---CCeeeeeecccCCccHHHHhHHHHHHhhCCeEEEEEcCCCCHHHHHHHHHH
Confidence            36789999999999999988876543   223445443323334444444333322     111111 1111      12


Q ss_pred             HHHHHHHHh-CCCeEEEEEeCCCC
Q 010355          238 ARKLCERLK-KEKKILVILDDIWT  260 (512)
Q Consensus       238 ~~~l~~~l~-~~k~~LlVlDdv~~  260 (512)
                      ...+.++++ +++.+||++|++..
T Consensus       242 a~~iAEyfrd~G~~Vll~~DslTr  265 (450)
T PRK06002        242 ATAIAEYFRDRGENVLLIVDSVTR  265 (450)
T ss_pred             HHHHHHHHHHcCCCEEEeccchHH
Confidence            234455553 47899999999854

>PRK00279 adk adenylate kinase; Reviewed

Probab=95.65  E-value=0.052  Score=50.29  Aligned_cols=24  Identities=25%  Similarity=0.232  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .|.|.|++|+||||+|+.++....
T Consensus         2 ~I~v~G~pGsGKsT~a~~la~~~~   25 (215)
T PRK00279          2 RLILLGPPGAGKGTQAKFIAEKYG   25 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999987654

>TIGR01041 ATP_syn_B_arch ATP synthase archaeal, B subunit

Probab=95.64  E-value=0.045  Score=56.20  Aligned_cols=91  Identities=21%  Similarity=0.227  Sum_probs=57.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCC--CeEEEEEeCCCC-CHHHHHHHHHHHhCCCC-------CCCCc-----
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLF--DEVVYAEVSQRP-DVKKIQGQIADKLGLKF-------YEESE-----  234 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f--~~~~wv~~~~~~-~~~~ll~~i~~~l~~~~-------~~~~~-----  234 (512)
                      -.-++|.|..|+|||+|+..+++.......+  ..++++-+++.. ...+++..+...-.+..       ...+.     
T Consensus       141 GQR~gIfgg~G~GKs~L~~~ia~~~~ad~~~~~~v~V~~~iGERgrEv~efi~~~~~~~~l~rtvvv~atsd~p~~~R~~  220 (458)
T TIGR01041       141 GQKLPIFSGSGLPHNELAAQIARQATVRGEESEFAVVFAAMGITYEEANFFMKDFEETGALERAVVFLNLADDPAVERIV  220 (458)
T ss_pred             CCEEEeeCCCCCCHHHHHHHHHHhhcccCCCCceEEEEEEccccchHHHHHHHHHHhcCCcceEEEEEECCCCCHHHHHH
Confidence            4568899999999999999998876532111  155666666554 55666666654322211       11111     


Q ss_pred             -hHHHHHHHHHHh--CCCeEEEEEeCCCC
Q 010355          235 -SGRARKLCERLK--KEKKILVILDDIWT  260 (512)
Q Consensus       235 -~~~~~~l~~~l~--~~k~~LlVlDdv~~  260 (512)
                       ......+.++++  +++++||++|++..
T Consensus       221 a~~~a~tiAEyfr~d~G~~VLli~DslTR  249 (458)
T TIGR01041       221 TPRMALTAAEYLAFEKDMHVLVILTDMTN  249 (458)
T ss_pred             HHHHHHHHHHHHHHccCCcEEEEEcChhH
Confidence             112345777776  58999999999954

Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases.

>PRK14527 adenylate kinase; Provisional

Probab=95.62  E-value=0.012  Score=53.37  Aligned_cols=27  Identities=19%  Similarity=0.265  Sum_probs=24.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ...+|.|+|++|+||||+|+.++....
T Consensus         5 ~~~~i~i~G~pGsGKsT~a~~La~~~~   31 (191)
T PRK14527          5 KNKVVIFLGPPGAGKGTQAERLAQELG   31 (191)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            457899999999999999999987765

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

Probab=95.61  E-value=0.019  Score=50.05  Aligned_cols=34  Identities=26%  Similarity=0.446  Sum_probs=28.1

Q ss_pred             HHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          158 LNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       158 l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ++.|..+|.+   ++++++|..|+|||||+..+....
T Consensus        26 ~~~l~~~l~~---k~~vl~G~SGvGKSSLiN~L~~~~   59 (161)
T PF03193_consen   26 IEELKELLKG---KTSVLLGQSGVGKSSLINALLPEA   59 (161)
T ss_dssp             HHHHHHHHTT---SEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             HHHHHHHhcC---CEEEEECCCCCCHHHHHHHHHhhc
Confidence            5667777764   789999999999999999987653

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.

>PRK13947 shikimate kinase; Provisional

Probab=95.60  E-value=0.01  Score=52.71  Aligned_cols=24  Identities=38%  Similarity=0.404  Sum_probs=22.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .|.|+|++|+||||+|+.+++...
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~lg   26 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTLS   26 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhC
Confidence            488999999999999999998875

>PRK14529 adenylate kinase; Provisional

Probab=95.60  E-value=0.048  Score=50.53  Aligned_cols=83  Identities=18%  Similarity=0.175  Sum_probs=46.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhhhhcCCCCe--EEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCe
Q 010355          173 IGAYGMAGVGKTMLVKEVARQAKADKLFDE--VVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKK  250 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~~~~~~~f~~--~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~  250 (512)
                      |.|.|++|+||||+++.++...... +.+.  .+.-.+..........+.++..-..    ....-....+.+++.....
T Consensus         3 I~l~G~PGsGK~T~a~~La~~~~~~-~is~gdllr~~i~~~t~lg~~i~~~i~~G~l----vpdei~~~lv~~~l~~~~~   77 (223)
T PRK14529          3 ILIFGPNGSGKGTQGALVKKKYDLA-HIESGAIFREHIGGGTELGKKAKEYIDRGDL----VPDDITIPMILETLKQDGK   77 (223)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCC-CcccchhhhhhccCCChHHHHHHHHHhccCc----chHHHHHHHHHHHHhccCC
Confidence            7889999999999999999887632 2211  1111222223333444444433211    1222334455666653224


Q ss_pred             EEEEEeCCCC
Q 010355          251 ILVILDDIWT  260 (512)
Q Consensus       251 ~LlVlDdv~~  260 (512)
                      .-+|||.+-.
T Consensus        78 ~g~iLDGfPR   87 (223)
T PRK14529         78 NGWLLDGFPR   87 (223)
T ss_pred             CcEEEeCCCC
Confidence            5689999853

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=95.59  E-value=0.014  Score=53.77  Aligned_cols=32  Identities=22%  Similarity=0.369  Sum_probs=27.5

Q ss_pred             HhcCCCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          164 ALKNPDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       164 ~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .+...++++|+|+|..|+|||||..++.+...
T Consensus        16 ~~~~~~~~~i~~~G~~gsGKTTli~~l~~~~~   47 (207)
T TIGR00073        16 RLDKHGLVVLNFMSSPGSGKTTLIEKLIDNLK   47 (207)
T ss_pred             HhhhcCcEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            34467899999999999999999999988754

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>PHA02774 E1; Provisional

Probab=95.59  E-value=0.037  Score=57.68  Aligned_cols=49  Identities=20%  Similarity=0.322  Sum_probs=35.7

Q ss_pred             HHHHHHHHhcC-CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeC
Q 010355          157 TLNDVINALKN-PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVS  209 (512)
Q Consensus       157 ~l~~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~  209 (512)
                      .+..|..+|.. ++...+.|+|++|+|||.+|..+++-..    ...+.|++..
T Consensus       420 fl~~lk~~l~~~PKknciv~~GPP~TGKS~fa~sL~~~L~----G~vi~fvN~~  469 (613)
T PHA02774        420 FLTALKDFLKGIPKKNCLVIYGPPDTGKSMFCMSLIKFLK----GKVISFVNSK  469 (613)
T ss_pred             HHHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHhC----CCEEEEEECc
Confidence            45666666663 3346899999999999999999998764    2345667653

>COG3598 RepA RecA-family ATPase [DNA replication, recombination, and repair]

Probab=95.58  E-value=0.054  Score=51.80  Aligned_cols=67  Identities=24%  Similarity=0.354  Sum_probs=41.4

Q ss_pred             HHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhh-cCCCC-------eEEEEEeCCC-CCHHHHHHHHHHHhCCCC
Q 010355          161 VINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKA-DKLFD-------EVVYAEVSQR-PDVKKIQGQIADKLGLKF  229 (512)
Q Consensus       161 l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~-~~~f~-------~~~wv~~~~~-~~~~~ll~~i~~~l~~~~  229 (512)
                      |-.++..+  .++.|+|.||+|||||+..++-.... ++.|.       .+++|++... .++..-++.++.++++++
T Consensus        82 Id~~fr~g--~~~~~~gdsg~GKttllL~l~IalaaG~~lfG~~v~epGkvlyvslEl~re~~L~Rl~~v~a~mgLsP  157 (402)
T COG3598          82 IDEFFRKG--YVSILYGDSGVGKTTLLLYLCIALAAGKNLFGNKVKEPGKVLYVSLELYREDILERLEPVRARMGLSP  157 (402)
T ss_pred             hhHHhhcC--eeEEEecCCcccHhHHHHHHHHHHHhhHHHhcccccCCCeEEEEEeccChHHHHHHHHHHHHHcCCCh
Confidence            33444433  45567799999999998877654322 23333       5777776532 344455566677887654

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=95.57  E-value=0.11  Score=50.94  Aligned_cols=28  Identities=36%  Similarity=0.477  Sum_probs=25.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      +..+++|+|++|+||||++..++.....
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~l~~  140 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHKYKA  140 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHh
Confidence            4689999999999999999999988764

>PRK14530 adenylate kinase; Provisional

Probab=95.56  E-value=0.011  Score=54.72  Aligned_cols=25  Identities=24%  Similarity=0.240  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      +.|+|+|++|+||||+|+.++....
T Consensus         4 ~~I~i~G~pGsGKsT~~~~La~~~~   28 (215)
T PRK14530          4 PRILLLGAPGAGKGTQSSNLAEEFG   28 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4689999999999999999988764

>COG4240 Predicted kinase [General function prediction only]

Probab=95.55  E-value=0.097  Score=47.59  Aligned_cols=82  Identities=12%  Similarity=0.123  Sum_probs=51.5

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhC-----CCCCCCCchHHHHHH
Q 010355          167 NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLG-----LKFYEESESGRARKL  241 (512)
Q Consensus       167 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~-----~~~~~~~~~~~~~~l  241 (512)
                      .++.-+++|.|+-|+||||++..+++....+.- ..+...++..-+-...-.-.++++..     -..+...+......+
T Consensus        47 ~grPli~gisGpQGSGKStls~~i~~~L~~kg~-ert~~lSLDDlYlthadrl~La~q~npllq~RGlpGTHD~tlglnV  125 (300)
T COG4240          47 RGRPLIVGISGPQGSGKSTLSALIVRLLAAKGL-ERTATLSLDDLYLTHADRLRLARQVNPLLQTRGLPGTHDPTLGLNV  125 (300)
T ss_pred             cCCceEEEeecCCCCchhhHHHHHHHHHHHhcc-cceEEeehhhhhcchHHHHHHHHhcCchhcccCCCCCCchHHHHHH
Confidence            445678999999999999999999998875532 45666655443333333334444431     112233445566677


Q ss_pred             HHHHhCCC
Q 010355          242 CERLKKEK  249 (512)
Q Consensus       242 ~~~l~~~k  249 (512)
                      .+.+.+++
T Consensus       126 Lnai~~g~  133 (300)
T COG4240         126 LNAIARGG  133 (300)
T ss_pred             HHHHhcCC
Confidence            77777655

>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=95.54  E-value=0.012  Score=48.59  Aligned_cols=23  Identities=35%  Similarity=0.488  Sum_probs=20.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhhh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      |.|+|..|+|||||.+.++....
T Consensus         2 I~V~G~~g~GKTsLi~~l~~~~~   24 (119)
T PF08477_consen    2 IVVLGDSGVGKTSLIRRLCGGEF   24 (119)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS-
T ss_pred             EEEECcCCCCHHHHHHHHhcCCC
Confidence            78999999999999999997654

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.

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=95.52  E-value=0.039  Score=50.16  Aligned_cols=26  Identities=23%  Similarity=0.309  Sum_probs=23.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      ..|+|.|..|+||||+++.++.....
T Consensus         4 ~~IvieG~~GsGKsT~~~~L~~~l~~   29 (195)
T TIGR00041         4 MFIVIEGIDGAGKTTQANLLKKLLQE   29 (195)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            57999999999999999999988764

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.

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

Probab=95.50  E-value=0.044  Score=52.35  Aligned_cols=78  Identities=21%  Similarity=0.285  Sum_probs=45.6

Q ss_pred             HHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHH---HHHHHHHhCCCCCCCC
Q 010355          157 TLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKI---QGQIADKLGLKFYEES  233 (512)
Q Consensus       157 ~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~l---l~~i~~~l~~~~~~~~  233 (512)
                      .+-+|...|..++ +-..++|.||+||+||++.++.-...+     ++-+.++..++..++   ++.++...|.      
T Consensus        19 hi~ri~RvL~~~~-Gh~LLvG~~GsGr~sl~rLaa~i~~~~-----~~~i~~~~~y~~~~f~~dLk~~~~~ag~------   86 (268)
T PF12780_consen   19 HIARISRVLSQPR-GHALLVGVGGSGRQSLARLAAFICGYE-----VFQIEITKGYSIKDFKEDLKKALQKAGI------   86 (268)
T ss_dssp             HHHHHHHHHCSTT-EEEEEECTTTSCHHHHHHHHHHHTTEE-----EE-TTTSTTTHHHHHHHHHHHHHHHHHC------
T ss_pred             HHHHHHHHHcCCC-CCeEEecCCCccHHHHHHHHHHHhccc-----eEEEEeeCCcCHHHHHHHHHHHHHHHhc------
Confidence            3455566666544 556699999999999999888755421     223334555555443   3333333332      


Q ss_pred             chHHHHHHHHHHhCCCeEEEEEeCCC
Q 010355          234 ESGRARKLCERLKKEKKILVILDDIW  259 (512)
Q Consensus       234 ~~~~~~~l~~~l~~~k~~LlVlDdv~  259 (512)
                                   .+++..+++.|-+
T Consensus        87 -------------~~~~~vfll~d~q   99 (268)
T PF12780_consen   87 -------------KGKPTVFLLTDSQ   99 (268)
T ss_dssp             -------------S-S-EEEEEECCC
T ss_pred             -------------cCCCeEEEecCcc
Confidence                         3577888887753

The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules, of which four (D1 - D4) correspond to the ATP binding sites with P-loop signatures described previously, and two (D5, D6) are modules in which the P loop has been lost in evolution. This particular entry represents the D4 ATP-binding domain of the motor [].; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=95.50  E-value=0.079  Score=56.04  Aligned_cols=85  Identities=15%  Similarity=0.144  Sum_probs=54.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC----------------CCC
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFY----------------EES  233 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~----------------~~~  233 (512)
                      ..++.|.|.+|+|||+|+.+++.....  .-..++|++....  +..+.+.+ ..+|.+..                ...
T Consensus       273 g~~~li~G~~G~GKT~l~~~~~~~~~~--~g~~~~yis~e~~--~~~i~~~~-~~~g~~~~~~~~~g~l~i~~~~~~~~~  347 (509)
T PRK09302        273 GSIILVSGATGTGKTLLASKFAEAACR--RGERCLLFAFEES--RAQLIRNA-RSWGIDLEKMEEKGLLKIICARPESYG  347 (509)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHHh--CCCcEEEEEecCC--HHHHHHHH-HHcCCChHHHhhcCCceeecCCcccCC
Confidence            468889999999999999999876643  2467888877653  55555443 44543211                011


Q ss_pred             chHHHHHHHHHHhCCCeEEEEEeCCC
Q 010355          234 ESGRARKLCERLKKEKKILVILDDIW  259 (512)
Q Consensus       234 ~~~~~~~l~~~l~~~k~~LlVlDdv~  259 (512)
                      .......+...+...+.-++|+|.+.
T Consensus       348 ~~~~~~~i~~~i~~~~~~~vVIDslt  373 (509)
T PRK09302        348 LEDHLIIIKREIEEFKPSRVAIDPLS  373 (509)
T ss_pred             HHHHHHHHHHHHHHcCCCEEEEcCHH
Confidence            12334455555554456689999984

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

Probab=95.49  E-value=0.036  Score=55.82  Aligned_cols=40  Identities=28%  Similarity=0.424  Sum_probs=32.1

Q ss_pred             HHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          157 TLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       157 ~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      .++.+++.+.......+.|.|.||+|||+|.+.+.+..+.
T Consensus         9 ~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~~~~~~   48 (364)
T PF05970_consen    9 VFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAIIDYLRS   48 (364)
T ss_pred             HHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHHHHhcc
Confidence            3455666666566688999999999999999999988764

The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].

>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=95.49  E-value=0.038  Score=50.22  Aligned_cols=24  Identities=33%  Similarity=0.502  Sum_probs=22.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      +|+|.|+.|+||||+++.++....
T Consensus         2 ~I~ieG~~GsGKtT~~~~L~~~l~   25 (200)
T cd01672           2 FIVFEGIDGAGKTTLIELLAERLE   25 (200)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            689999999999999999998875

TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=95.49  E-value=0.049  Score=48.31  Aligned_cols=49  Identities=27%  Similarity=0.344  Sum_probs=31.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKL  225 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l  225 (512)
                      .++.|.|.+|+||||+|..++.....     .++++.-.. ..-.+....|....
T Consensus         2 ~~ili~G~~~sGKS~~a~~l~~~~~~-----~~~~iat~~-~~~~e~~~ri~~h~   50 (170)
T PRK05800          2 MLILVTGGARSGKSRFAERLAAQSGL-----QVLYIATAQ-PFDDEMAARIAHHR   50 (170)
T ss_pred             CEEEEECCCCccHHHHHHHHHHHcCC-----CcEeCcCCC-CChHHHHHHHHHHH
Confidence            36899999999999999999876431     233444333 33345556664443

>PRK12678 transcription termination factor Rho; Provisional

Probab=95.49  E-value=0.057  Score=56.16  Aligned_cols=100  Identities=18%  Similarity=0.179  Sum_probs=53.8

Q ss_pred             HHHHhc-CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeE-EEEEeCCCCCHH-HHHHHHHHHhCCCCCCCC----
Q 010355          161 VINALK-NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEV-VYAEVSQRPDVK-KIQGQIADKLGLKFYEES----  233 (512)
Q Consensus       161 l~~~L~-~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~-~wv~~~~~~~~~-~ll~~i~~~l~~~~~~~~----  233 (512)
                      ++++|. -..-.-.+|+|++|+|||||++.+++.... ++-++. +.+-+...+... ++.+.+-..+-......+    
T Consensus       406 vIDll~PIGkGQR~LIvgpp~aGKTtLL~~IAn~i~~-n~~~~~~ivvLIgERpeEVtdm~rsVkgeVVasT~D~p~~~~  484 (672)
T PRK12678        406 VIDLIMPIGKGQRGLIVSPPKAGKTTILQNIANAITT-NNPECHLMVVLVDERPEEVTDMQRSVKGEVIASTFDRPPSDH  484 (672)
T ss_pred             eeeeecccccCCEeEEeCCCCCCHHHHHHHHHHHHhh-cCCCeEEEEEEEeCchhhHHHHHHhccceEEEECCCCCHHHH
Confidence            344444 223456789999999999999999987754 233333 344555544322 222222000100000111    


Q ss_pred             --chHHHHHHHHHHh-CCCeEEEEEeCCCCh
Q 010355          234 --ESGRARKLCERLK-KEKKILVILDDIWTN  261 (512)
Q Consensus       234 --~~~~~~~l~~~l~-~~k~~LlVlDdv~~~  261 (512)
                        .......+.+++. .++.+||++|++...
T Consensus       485 ~~~a~~ai~~Ae~fre~G~dVlillDSlTR~  515 (672)
T PRK12678        485 TTVAELAIERAKRLVELGKDVVVLLDSITRL  515 (672)
T ss_pred             HHHHHHHHHHHHHHHHcCCCEEEEEeCchHH
Confidence              1122334445553 589999999999543

>PRK13949 shikimate kinase; Provisional

Probab=95.49  E-value=0.013  Score=52.01  Aligned_cols=25  Identities=40%  Similarity=0.405  Sum_probs=22.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      +.|.|+|++|+|||||++.++....
T Consensus         2 ~~I~liG~~GsGKstl~~~La~~l~   26 (169)
T PRK13949          2 ARIFLVGYMGAGKTTLGKALARELG   26 (169)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcC
Confidence            3589999999999999999998875

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=95.48  E-value=0.051  Score=55.65  Aligned_cols=91  Identities=23%  Similarity=0.382  Sum_probs=58.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCC-CHHHHHHHHHHHhCCCC-------CCCCch-----
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRP-DVKKIQGQIADKLGLKF-------YEESES-----  235 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~ll~~i~~~l~~~~-------~~~~~~-----  235 (512)
                      .-.-++|.|.+|+|||||+..++....... -..++++-++... ...+++..+...-....       ...+..     
T Consensus       143 kGQR~gIfa~~GvGKt~Ll~~i~~~~~~~~-~~v~V~~liGER~rEv~efi~~~~~~~~l~rsvvV~atsd~p~~~r~~a  221 (463)
T PRK09280        143 KGGKIGLFGGAGVGKTVLIQELINNIAKEH-GGYSVFAGVGERTREGNDLYHEMKESGVLDKTALVFGQMNEPPGARLRV  221 (463)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHHHHhcC-CCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHH
Confidence            346789999999999999999887765322 2456777776554 45666666655322210       111111     


Q ss_pred             -HHHHHHHHHHh--CCCeEEEEEeCCCC
Q 010355          236 -GRARKLCERLK--KEKKILVILDDIWT  260 (512)
Q Consensus       236 -~~~~~l~~~l~--~~k~~LlVlDdv~~  260 (512)
                       .....+.++++  +++++||++|++..
T Consensus       222 ~~~a~tiAEyfrd~~G~~VLll~DslTR  249 (463)
T PRK09280        222 ALTGLTMAEYFRDVEGQDVLLFIDNIFR  249 (463)
T ss_pred             HHHHHHHHHHHHHhcCCceEEEecchHH
Confidence             12334566663  57999999999954

>TIGR03263 guanyl_kin guanylate kinase

Probab=95.48  E-value=0.011  Score=53.10  Aligned_cols=24  Identities=38%  Similarity=0.527  Sum_probs=21.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ++|+|+|+.|+|||||++.++...
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~~~   25 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLEED   25 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHccC
Confidence            578999999999999999998754

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.

>PRK15453 phosphoribulokinase; Provisional

Probab=95.48  E-value=0.093  Score=50.00  Aligned_cols=28  Identities=18%  Similarity=0.342  Sum_probs=24.4

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ....+|+|.|.+|+||||+++.+...+.
T Consensus         3 ~k~piI~ItG~SGsGKTTva~~l~~if~   30 (290)
T PRK15453          3 AKHPIIAVTGSSGAGTTTVKRAFEKIFR   30 (290)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHh
Confidence            3468999999999999999999987664

>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=95.48  E-value=0.068  Score=50.50  Aligned_cols=25  Identities=20%  Similarity=0.324  Sum_probs=22.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      +|+|.|.+|+||||+++.+....+.
T Consensus         1 IIgItG~SGSGKTTv~~~l~~~l~~   25 (277)
T cd02029           1 VIAVTGSSGAGTTTVKRAFEHIFAR   25 (277)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHh
Confidence            5899999999999999999987753

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.

>TIGR01040 V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit

Probab=95.47  E-value=0.046  Score=55.65  Aligned_cols=92  Identities=22%  Similarity=0.229  Sum_probs=59.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhc-----------CCCCeEEEEEeCCCCCHHHHHHHHHHHhC-CCC-------
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKAD-----------KLFDEVVYAEVSQRPDVKKIQGQIADKLG-LKF-------  229 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~-----------~~f~~~~wv~~~~~~~~~~ll~~i~~~l~-~~~-------  229 (512)
                      .-.-++|.|-+|+|||||+..++++....           ..-..++++-++......+.+...+..-+ +..       
T Consensus       140 ~GQRigIfagsGvGKs~L~~~i~~~~~~~~~~~aD~~~~~~~~~v~V~a~IGerre~~efi~~~l~~~g~l~rtvvv~at  219 (466)
T TIGR01040       140 RGQKIPIFSAAGLPHNEIAAQICRQAGLVKLPTKDVHDGHEDNFAIVFAAMGVNMETARFFKQDFEENGSMERVCLFLNL  219 (466)
T ss_pred             cCCeeeeecCCCCCHHHHHHHHHHhhccccccccccccccCCceEEEEEEeeeehHHHHHHHHHHHhcCCcceEEEEEEC
Confidence            34568899999999999999998876510           01115677777877666666666665544 221       


Q ss_pred             CCCCch------HHHHHHHHHHh--CCCeEEEEEeCCCC
Q 010355          230 YEESES------GRARKLCERLK--KEKKILVILDDIWT  260 (512)
Q Consensus       230 ~~~~~~------~~~~~l~~~l~--~~k~~LlVlDdv~~  260 (512)
                      ...+..      .....+.++++  +++++||++||+..
T Consensus       220 sd~p~~~R~~a~~~a~tiAEyfr~~~G~~VLl~~DslTr  258 (466)
T TIGR01040       220 ANDPTIERIITPRLALTTAEYLAYQCEKHVLVILTDMSS  258 (466)
T ss_pred             CCCCHHHHHHHHhhhHHHHHHHHHhcCCcEEEeccChHH
Confidence            111111      12345667776  47999999999953

This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase.

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=95.46  E-value=0.028  Score=49.02  Aligned_cols=33  Identities=24%  Similarity=0.343  Sum_probs=27.6

Q ss_pred             hcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhc
Q 010355          165 LKNPDVHMIGAYGMAGVGKTMLVKEVARQAKAD  197 (512)
Q Consensus       165 L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~  197 (512)
                      +...+..+|-+.|.+|+||||||..+.......
T Consensus        18 ~~~~~~~viW~TGLSGsGKSTiA~ale~~L~~~   50 (197)
T COG0529          18 LKGQKGAVIWFTGLSGSGKSTIANALEEKLFAK   50 (197)
T ss_pred             HhCCCCeEEEeecCCCCCHHHHHHHHHHHHHHc
Confidence            344566799999999999999999999988643

>PRK03846 adenylylsulfate kinase; Provisional

Probab=95.46  E-value=0.023  Score=51.95  Aligned_cols=28  Identities=14%  Similarity=0.232  Sum_probs=24.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .+..+|+|+|++|+||||||+.+.....
T Consensus        22 ~~~~~i~i~G~~GsGKSTla~~l~~~l~   49 (198)
T PRK03846         22 HKGVVLWFTGLSGSGKSTVAGALEEALH   49 (198)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4568999999999999999999998764

>PRK07594 type III secretion system ATPase SsaN; Validated

Probab=95.44  E-value=0.042  Score=55.95  Aligned_cols=89  Identities=17%  Similarity=0.271  Sum_probs=53.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCC-CCHHHHHHHHHHHhCCC-------CCCCCch-----
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQR-PDVKKIQGQIADKLGLK-------FYEESES-----  235 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-~~~~~ll~~i~~~l~~~-------~~~~~~~-----  235 (512)
                      .-..++|.|..|+|||||++.++....    .+..+++.++.. ....+++.+....-...       ....+..     
T Consensus       154 ~GqrigI~G~sG~GKSTLL~~I~~~~~----~d~~vi~~iGeRgrEv~efl~~~~~~~~~~rtv~vv~tsd~p~~~r~~a  229 (433)
T PRK07594        154 EGQRVGIFSAPGVGKSTLLAMLCNAPD----ADSNVLVLIGERGREVREFIDFTLSEETRKRCVIVVATSDRPALERVRA  229 (433)
T ss_pred             CCCEEEEECCCCCCccHHHHHhcCCCC----CCEEEEEEECCCchHHHHHHHHhhccCCcceEEEEEECCCCCHHHHHHH
Confidence            446889999999999999998886543    444555555554 34445566553211110       0011111     


Q ss_pred             -HHHHHHHHHHh-CCCeEEEEEeCCCCh
Q 010355          236 -GRARKLCERLK-KEKKILVILDDIWTN  261 (512)
Q Consensus       236 -~~~~~l~~~l~-~~k~~LlVlDdv~~~  261 (512)
                       .....+.++++ +++++||++||+...
T Consensus       230 ~~~a~tiAEyfrd~G~~VLl~~Dsltr~  257 (433)
T PRK07594        230 LFVATTIAEFFRDNGKRVVLLADSLTRY  257 (433)
T ss_pred             HHHHHHHHHHHHHCCCcEEEEEeCHHHH
Confidence             12334555554 578999999999543

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=95.44  E-value=0.1  Score=49.84  Aligned_cols=89  Identities=16%  Similarity=0.234  Sum_probs=51.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCC-CHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhC
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRP-DVKKIQGQIADKLGLKFYEESESGRARKLCERLKK  247 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~  247 (512)
                      ...+++++|.+|+||||++..+......+  -..+.+++..... ....-++..+..++.+.........+......+..
T Consensus        74 ~~~~i~~~G~~g~GKTtl~~~l~~~l~~~--~~~v~~i~~D~~ri~~~~ql~~~~~~~~~~~~~~~~~~~l~~~l~~l~~  151 (270)
T PRK06731         74 EVQTIALIGPTGVGKTTTLAKMAWQFHGK--KKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKE  151 (270)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHHHHc--CCeEEEEecCCCCHHHHHHHHHHhhhcCceEEecCCHHHHHHHHHHHHh
Confidence            44799999999999999999988776432  2245556554321 22233334444555443332223333344444432


Q ss_pred             -CCeEEEEEeCCC
Q 010355          248 -EKKILVILDDIW  259 (512)
Q Consensus       248 -~k~~LlVlDdv~  259 (512)
                       .+.=++++|..-
T Consensus       152 ~~~~D~ViIDt~G  164 (270)
T PRK06731        152 EARVDYILIDTAG  164 (270)
T ss_pred             cCCCCEEEEECCC
Confidence             244688888874

>PRK06936 type III secretion system ATPase; Provisional

Probab=95.44  E-value=0.088  Score=53.61  Aligned_cols=89  Identities=22%  Similarity=0.384  Sum_probs=55.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCC-CHHHHHHHHHHHhCCCC-------CCCCchH----
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRP-DVKKIQGQIADKLGLKF-------YEESESG----  236 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~ll~~i~~~l~~~~-------~~~~~~~----  236 (512)
                      +-..++|.|..|+|||||.+.+++...    .+.++++-++... ...+++...+..-+...       ...+...    
T Consensus       161 ~Gq~~~I~G~sG~GKStLl~~Ia~~~~----~dv~V~~liGERgrEv~ef~~~~l~~~~l~rtvvv~atsd~p~~~R~~a  236 (439)
T PRK06936        161 EGQRMGIFAAAGGGKSTLLASLIRSAE----VDVTVLALIGERGREVREFIESDLGEEGLRKAVLVVATSDRPSMERAKA  236 (439)
T ss_pred             CCCEEEEECCCCCChHHHHHHHhcCCC----CCEEEEEEEccCcHHHHHHHHHHhcccccceeEEEEECCCCCHHHHHHH
Confidence            446889999999999999999988754    3567777776654 44455544333222111       1111111    


Q ss_pred             --HHHHHHHHHh-CCCeEEEEEeCCCCh
Q 010355          237 --RARKLCERLK-KEKKILVILDDIWTN  261 (512)
Q Consensus       237 --~~~~l~~~l~-~~k~~LlVlDdv~~~  261 (512)
                        ....+.++++ .++++||++|++...
T Consensus       237 ~~~a~tiAEyfrd~G~~Vll~~DslTR~  264 (439)
T PRK06936        237 GFVATSIAEYFRDQGKRVLLLMDSVTRF  264 (439)
T ss_pred             HHHHHHHHHHHHHcCCCEEEeccchhHH
Confidence              1234555554 579999999999543

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=95.43  E-value=0.015  Score=52.89  Aligned_cols=26  Identities=31%  Similarity=0.356  Sum_probs=23.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ..+|.|.|.+|+||||+|+.++....
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~~~   28 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARHRA   28 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhcC
Confidence            46899999999999999999988753

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=95.43  E-value=0.011  Score=52.22  Aligned_cols=22  Identities=27%  Similarity=0.475  Sum_probs=19.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      |.|+|++|+||||+|+.+....
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l   22 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRL   22 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999998775

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.

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

Probab=95.41  E-value=0.014  Score=50.85  Aligned_cols=23  Identities=35%  Similarity=0.439  Sum_probs=20.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhhh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      |.|+|++|+||||+|+.++....
T Consensus         2 i~l~G~~GsGKstla~~la~~l~   24 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKALG   24 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHhC
Confidence            78999999999999999988764

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.

>TIGR01039 atpD ATP synthase, F1 beta subunit

Probab=95.40  E-value=0.12  Score=52.71  Aligned_cols=92  Identities=22%  Similarity=0.354  Sum_probs=59.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCC-CHHHHHHHHHHHhCCCC-------CCCCch-----
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRP-DVKKIQGQIADKLGLKF-------YEESES-----  235 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~ll~~i~~~l~~~~-------~~~~~~-----  235 (512)
                      .-.-++|.|.+|+|||||+..++...... +-..++++-++... ...+++..+...-....       ...+..     
T Consensus       142 ~GQr~~If~~~G~GKt~L~~~~~~~~~~~-~~~v~V~alIGER~rEv~ef~~~~~~~~~l~rtvvV~atsd~p~~~R~~a  220 (461)
T TIGR01039       142 KGGKIGLFGGAGVGKTVLIQELINNIAKE-HGGYSVFAGVGERTREGNDLYHEMKESGVIDKTALVYGQMNEPPGARMRV  220 (461)
T ss_pred             cCCEEEeecCCCCChHHHHHHHHHHHHhc-CCCeEEEEEecCCchHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHH
Confidence            34678999999999999999998776532 23467777776654 45667766654322211       111111     


Q ss_pred             -HHHHHHHHHHh--CCCeEEEEEeCCCCh
Q 010355          236 -GRARKLCERLK--KEKKILVILDDIWTN  261 (512)
Q Consensus       236 -~~~~~l~~~l~--~~k~~LlVlDdv~~~  261 (512)
                       .....+.++++  +++++||++|++...
T Consensus       221 ~~~a~tiAEyfrd~~G~~VLll~DslTR~  249 (461)
T TIGR01039       221 ALTGLTMAEYFRDEQGQDVLLFIDNIFRF  249 (461)
T ss_pred             HHHHHHHHHHHHHhcCCeeEEEecchhHH
Confidence             12345666774  378999999999543

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.

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=95.39  E-value=0.19  Score=52.91  Aligned_cols=118  Identities=22%  Similarity=0.236  Sum_probs=64.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhc-C-----CCCeEEEEEeCC-----C----------C-C-HHHHHHHHHHHhC
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKAD-K-----LFDEVVYAEVSQ-----R----------P-D-VKKIQGQIADKLG  226 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~-~-----~f~~~~wv~~~~-----~----------~-~-~~~ll~~i~~~l~  226 (512)
                      -..|+|+|+.|+|||||.+.+....... .     .--.+.|+.-..     .          + . ...-.+..+..++
T Consensus       348 g~riaiiG~NG~GKSTLlk~l~g~~~~~~G~v~~g~~v~igyf~Q~~~~l~~~~t~~d~l~~~~~~~~e~~~r~~L~~f~  427 (530)
T COG0488         348 GDRIAIVGPNGAGKSTLLKLLAGELGPLSGTVKVGETVKIGYFDQHRDELDPDKTVLEELSEGFPDGDEQEVRAYLGRFG  427 (530)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhhhcccCCceEEeCCceEEEEEEehhhhcCccCcHHHHHHhhCccccHHHHHHHHHHcC
Confidence            3578999999999999999996654321 0     001122221111     0          0 1 1445555666666


Q ss_pred             CCCCC-------CCchHHHHHHHHHHhCCCeEEEEEeCCCChhhhh---hhCCCCC-CCCeEEEEEeCCcchh
Q 010355          227 LKFYE-------ESESGRARKLCERLKKEKKILVILDDIWTNLDLE---NVGIPFG-VRGCRVLMTARSQDVL  288 (512)
Q Consensus       227 ~~~~~-------~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~~~---~l~~~~~-~~gs~iivTtR~~~v~  288 (512)
                      .+...       .+..+....++..+.-.++-+||||.-.+..++.   .+...+. -+| .||+.|.++...
T Consensus       428 F~~~~~~~~v~~LSGGEk~Rl~La~ll~~~pNvLiLDEPTNhLDi~s~~aLe~aL~~f~G-tvl~VSHDr~Fl  499 (530)
T COG0488         428 FTGEDQEKPVGVLSGGEKARLLLAKLLLQPPNLLLLDEPTNHLDIESLEALEEALLDFEG-TVLLVSHDRYFL  499 (530)
T ss_pred             CChHHHhCchhhcCHhHHHHHHHHHHhccCCCEEEEcCCCccCCHHHHHHHHHHHHhCCC-eEEEEeCCHHHH
Confidence            55332       1222334444444444588999999875543322   2211122 234 488888887654

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=95.39  E-value=0.073  Score=55.79  Aligned_cols=86  Identities=16%  Similarity=0.163  Sum_probs=52.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC------------------
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFY------------------  230 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~------------------  230 (512)
                      .-+++.|.|.+|+||||||.+++..-.. +.-..++||+...  ++.++.+. +..+|....                  
T Consensus        20 ~g~~~Li~G~pGsGKT~la~qfl~~g~~-~~ge~~lyvs~eE--~~~~l~~~-~~~~G~~~~~~~~~g~l~~~~~~~~~~   95 (484)
T TIGR02655        20 IGRSTLVSGTSGTGKTLFSIQFLYNGII-HFDEPGVFVTFEE--SPQDIIKN-ARSFGWDLQKLVDEGKLFILDASPDPE   95 (484)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHHH-hCCCCEEEEEEec--CHHHHHHH-HHHcCCCHHHHhhcCceEEEecCchhc
Confidence            3579999999999999999999765322 1125678888764  44454444 333443211                  


Q ss_pred             ------CCCchHHHHHHHHHHhCCCeEEEEEeCC
Q 010355          231 ------EESESGRARKLCERLKKEKKILVILDDI  258 (512)
Q Consensus       231 ------~~~~~~~~~~l~~~l~~~k~~LlVlDdv  258 (512)
                            ..........+...+..+++-.+|||-+
T Consensus        96 ~~~~~~~~~l~~~l~~i~~~ls~g~~qRVvIDSl  129 (484)
T TIGR02655        96 GQDVVGGFDLSALIERINYAIRKYKAKRVSIDSV  129 (484)
T ss_pred             cccccccCCHHHHHHHHHHHHHHhCCcEEEEeeh
Confidence                  0111234455556666666778899954

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.

>PRK00300 gmk guanylate kinase; Provisional

Probab=95.37  E-value=0.015  Score=53.39  Aligned_cols=27  Identities=30%  Similarity=0.369  Sum_probs=23.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ...+|+|+|++|+|||||++.++....
T Consensus         4 ~g~~i~i~G~sGsGKstl~~~l~~~~~   30 (205)
T PRK00300          4 RGLLIVLSGPSGAGKSTLVKALLERDP   30 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhCc
Confidence            346899999999999999999988653

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

Probab=95.37  E-value=0.013  Score=50.80  Aligned_cols=24  Identities=21%  Similarity=0.419  Sum_probs=21.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      +|.|+|.+|+||||||+.+.....
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~l~   24 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEKLF   24 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHH
Confidence            478999999999999999998764

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>PRK09099 type III secretion system ATPase; Provisional

Probab=95.37  E-value=0.047  Score=55.74  Aligned_cols=90  Identities=20%  Similarity=0.272  Sum_probs=53.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCC-------CCCCch------
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKF-------YEESES------  235 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~-------~~~~~~------  235 (512)
                      .-..++|.|..|+|||||++.++.....   -.++++..-.......++...+...-++..       ...+..      
T Consensus       162 ~Gq~~~I~G~sG~GKTtLl~~ia~~~~~---d~~vi~~iGer~~ev~ef~~~~~~~~~l~rtvvv~~tsd~p~~~r~~a~  238 (441)
T PRK09099        162 EGQRMGIFAPAGVGKSTLMGMFARGTQC---DVNVIALIGERGREVREFIELILGEDGMARSVVVCATSDRSSIERAKAA  238 (441)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCC---CeEEEEEEccChHHHHHHHHHHhhcCCcceEEEEEECCCCCHHHHHHHH
Confidence            4578899999999999999998875542   123444333333455555555544322211       111111      


Q ss_pred             HHHHHHHHHHh-CCCeEEEEEeCCCCh
Q 010355          236 GRARKLCERLK-KEKKILVILDDIWTN  261 (512)
Q Consensus       236 ~~~~~l~~~l~-~~k~~LlVlDdv~~~  261 (512)
                      .....+.++++ +++++||++|++...
T Consensus       239 ~~a~tiAEyfrd~G~~VLl~~DslTr~  265 (441)
T PRK09099        239 YVATAIAEYFRDRGLRVLLMMDSLTRF  265 (441)
T ss_pred             HHHHHHHHHHHHcCCCEEEeccchhHH
Confidence            12334555554 578999999999543

>PTZ00185 ATPase alpha subunit; Provisional

Probab=95.36  E-value=0.099  Score=53.82  Aligned_cols=92  Identities=17%  Similarity=0.198  Sum_probs=55.3

Q ss_pred             CceEEEEEcCCCCcHHHHH-HHHHHhhhhc-----CCCCeEEEEEeCCCCCHHHHHHHHHHHhC-CCCC-------CCCc
Q 010355          169 DVHMIGAYGMAGVGKTMLV-KEVARQAKAD-----KLFDEVVYAEVSQRPDVKKIQGQIADKLG-LKFY-------EESE  234 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa-~~v~~~~~~~-----~~f~~~~wv~~~~~~~~~~ll~~i~~~l~-~~~~-------~~~~  234 (512)
                      .-.-++|.|..|+|||+|| ..+.++....     ..-..++++-+++..+...-+...+..-+ +...       ..+.
T Consensus       188 RGQR~lIfGd~GtGKTtLAld~IinQ~~~~~~~~~~~~~v~VyvaIGeR~rEV~ei~~~L~e~GaL~~TvVV~AtAdep~  267 (574)
T PTZ00185        188 RGQRELIVGDRQTGKTSIAVSTIINQVRINQQILSKNAVISIYVSIGQRCSNVARIHRLLRSYGALRYTTVMAATAAEPA  267 (574)
T ss_pred             CCCEEEeecCCCCChHHHHHHHHHhhhhhccccccCCCCEEEEEEeccchHHHHHHHHHHHhcCCccceEEEEECCCCCH
Confidence            3456889999999999997 6667765321     23456788888887644333444444433 2110       1111


Q ss_pred             hH------HHHHHHHHHh-CCCeEEEEEeCCCC
Q 010355          235 SG------RARKLCERLK-KEKKILVILDDIWT  260 (512)
Q Consensus       235 ~~------~~~~l~~~l~-~~k~~LlVlDdv~~  260 (512)
                      ..      ....+.+++. +++.+|||+||+..
T Consensus       268 ~~r~~Apy~a~tiAEYFrd~GkdVLiv~DDLTr  300 (574)
T PTZ00185        268 GLQYLAPYSGVTMGEYFMNRGRHCLCVYDDLSK  300 (574)
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCCEEEEEcCchH
Confidence            11      1234555553 47899999999953

>PRK06851 hypothetical protein; Provisional

Probab=95.35  E-value=0.17  Score=50.47  Aligned_cols=43  Identities=26%  Similarity=0.261  Sum_probs=31.8

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCC
Q 010355          167 NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQ  210 (512)
Q Consensus       167 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~  210 (512)
                      .+-.+++.|.|.+|+|||||+++++.....+ -+...++-|...
T Consensus       211 ~~~~~~~~i~G~pG~GKstl~~~i~~~a~~~-G~~v~~~hC~~d  253 (367)
T PRK06851        211 EGVKNRYFLKGRPGTGKSTMLKKIAKAAEER-GFDVEVYHCGFD  253 (367)
T ss_pred             cccceEEEEeCCCCCcHHHHHHHHHHHHHhC-CCeEEEEeCCCC
Confidence            3445889999999999999999999988654 355444444333

>PRK14737 gmk guanylate kinase; Provisional

Probab=95.35  E-value=0.016  Score=52.38  Aligned_cols=26  Identities=15%  Similarity=0.304  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      +..+|.|+|++|+|||||++.+....
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhcC
Confidence            45789999999999999999998764

>PRK13975 thymidylate kinase; Provisional

Probab=95.31  E-value=0.016  Score=52.69  Aligned_cols=25  Identities=32%  Similarity=0.383  Sum_probs=23.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ..|+|.|+.|+||||+++.++....
T Consensus         3 ~~I~ieG~~GsGKtT~~~~L~~~l~   27 (196)
T PRK13975          3 KFIVFEGIDGSGKTTQAKLLAEKLN   27 (196)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            5799999999999999999998876

>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=95.31  E-value=0.037  Score=48.40  Aligned_cols=109  Identities=17%  Similarity=0.228  Sum_probs=57.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCC--CHHHHHHHHHHHhCCCCCCCCc-hHHHHHHHHHHhC
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRP--DVKKIQGQIADKLGLKFYEESE-SGRARKLCERLKK  247 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~--~~~~ll~~i~~~l~~~~~~~~~-~~~~~~l~~~l~~  247 (512)
                      .+++|+|..|.|||||++.++....   ...+.+++.-....  .....    ...++.-.. .+. ....-.+...+..
T Consensus        26 ~~~~i~G~nGsGKStll~~l~g~~~---~~~G~i~~~~~~~~~~~~~~~----~~~i~~~~q-lS~G~~~r~~l~~~l~~   97 (157)
T cd00267          26 EIVALVGPNGSGKSTLLRAIAGLLK---PTSGEILIDGKDIAKLPLEEL----RRRIGYVPQ-LSGGQRQRVALARALLL   97 (157)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCC---CCccEEEECCEEcccCCHHHH----HhceEEEee-CCHHHHHHHHHHHHHhc
Confidence            6899999999999999999987653   24455554332111  11111    111221111 111 1122234444543


Q ss_pred             CCeEEEEEeCCCChh---hhhhh---CCCCCCCCeEEEEEeCCcchh
Q 010355          248 EKKILVILDDIWTNL---DLENV---GIPFGVRGCRVLMTARSQDVL  288 (512)
Q Consensus       248 ~k~~LlVlDdv~~~~---~~~~l---~~~~~~~gs~iivTtR~~~v~  288 (512)
                       .+-++++|......   ....+   .......+..+|++|......
T Consensus        98 -~~~i~ilDEp~~~lD~~~~~~l~~~l~~~~~~~~tii~~sh~~~~~  143 (157)
T cd00267          98 -NPDLLLLDEPTSGLDPASRERLLELLRELAEEGRTVIIVTHDPELA  143 (157)
T ss_pred             -CCCEEEEeCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHH
Confidence             57899999985332   11111   111112356788888876554

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.

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=95.30  E-value=0.013  Score=49.98  Aligned_cols=24  Identities=33%  Similarity=0.510  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .|+|+|+.|+|||||++.++....
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~~~~   24 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLEEFD   24 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHhcCC
Confidence            378999999999999999987653

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.

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

Probab=95.30  E-value=0.045  Score=55.10  Aligned_cols=46  Identities=28%  Similarity=0.286  Sum_probs=35.7

Q ss_pred             ccccchHHHHHHHHHhcC--------------CCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          150 AFESRMSTLNDVINALKN--------------PDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       150 ~~~gR~~~l~~l~~~L~~--------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .++|.+..+..+..++.+              ...+.|.++|++|+|||+||+.++....
T Consensus        16 ~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l~   75 (443)
T PRK05201         16 YIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLAN   75 (443)
T ss_pred             ccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHhC
Confidence            467888877777666532              0146789999999999999999998865

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

Probab=95.29  E-value=0.015  Score=50.65  Aligned_cols=20  Identities=40%  Similarity=0.600  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q 010355          172 MIGAYGMAGVGKTMLVKEVA  191 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~  191 (512)
                      .|+|.|.||+||||++..+.
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            58999999999999999987

>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]

Probab=95.25  E-value=0.018  Score=50.24  Aligned_cols=28  Identities=32%  Similarity=0.608  Sum_probs=25.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhc
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKAD  197 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~  197 (512)
                      .++++|+|..|+|||||+..+....+.+
T Consensus         2 ~~Il~ivG~k~SGKTTLie~lv~~L~~~   29 (161)
T COG1763           2 MKILGIVGYKNSGKTTLIEKLVRKLKAR   29 (161)
T ss_pred             CcEEEEEecCCCChhhHHHHHHHHHHhC
Confidence            4799999999999999999999998865

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

Probab=95.24  E-value=0.021  Score=52.57  Aligned_cols=27  Identities=30%  Similarity=0.427  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .-.+++|+|.+|+|||||++.++-..+
T Consensus        32 ~Ge~lgivGeSGsGKSTL~r~l~Gl~~   58 (252)
T COG1124          32 RGETLGIVGESGSGKSTLARLLAGLEK   58 (252)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhcccC
Confidence            346899999999999999999986543

>PRK04196 V-type ATP synthase subunit B; Provisional

Probab=95.24  E-value=0.063  Score=55.25  Aligned_cols=90  Identities=23%  Similarity=0.277  Sum_probs=58.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhc---CCCCeEEEEEeCCCC-CHHHHHHHHHHHhCCCC-------CCCCc----
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKAD---KLFDEVVYAEVSQRP-DVKKIQGQIADKLGLKF-------YEESE----  234 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~---~~f~~~~wv~~~~~~-~~~~ll~~i~~~l~~~~-------~~~~~----  234 (512)
                      -.-++|.|..|+|||+|+..+++.....   ..+ .++++-+++.. ...+++..+...-.+..       ...+.    
T Consensus       143 GQR~gIfgg~G~GKs~L~~~ia~~~~~d~~~~~~-v~V~~~iGeRgrEv~e~~~~~~~~~~l~rtvvV~atsd~p~~~R~  221 (460)
T PRK04196        143 GQKLPIFSGSGLPHNELAAQIARQAKVLGEEENF-AVVFAAMGITFEEANFFMEDFEETGALERSVVFLNLADDPAIERI  221 (460)
T ss_pred             CCEEEeeCCCCCCccHHHHHHHHhhhhccCCCce-EEEEEEeccccHHHHHHHHHHHhcCCcceEEEEEEcCCCCHHHHH
Confidence            4568899999999999999998876532   111 56677776654 55667776655422211       11111    


Q ss_pred             --hHHHHHHHHHHh--CCCeEEEEEeCCCC
Q 010355          235 --SGRARKLCERLK--KEKKILVILDDIWT  260 (512)
Q Consensus       235 --~~~~~~l~~~l~--~~k~~LlVlDdv~~  260 (512)
                        ......+.++++  +++++||++|++..
T Consensus       222 ~a~~~a~tiAEyfr~d~G~~VLli~DslTR  251 (460)
T PRK04196        222 LTPRMALTAAEYLAFEKGMHVLVILTDMTN  251 (460)
T ss_pred             HHHHHHHHHHHHHHHhcCCcEEEEEcChHH
Confidence              112446677776  57999999999854

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

Probab=95.24  E-value=0.058  Score=51.61  Aligned_cols=116  Identities=19%  Similarity=0.202  Sum_probs=58.2

Q ss_pred             HHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHH
Q 010355          158 LNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGR  237 (512)
Q Consensus       158 l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~  237 (512)
                      ++.|..++ .....+|.|.|..|+||||++..+......  .-..++.+  ..+....  +..+ .++...  .......
T Consensus        69 ~~~l~~~~-~~~~GlilisG~tGSGKTT~l~all~~i~~--~~~~iiti--Edp~E~~--~~~~-~q~~v~--~~~~~~~  138 (264)
T cd01129          69 LEIFRKLL-EKPHGIILVTGPTGSGKTTTLYSALSELNT--PEKNIITV--EDPVEYQ--IPGI-NQVQVN--EKAGLTF  138 (264)
T ss_pred             HHHHHHHH-hcCCCEEEEECCCCCcHHHHHHHHHhhhCC--CCCeEEEE--CCCceec--CCCc-eEEEeC--CcCCcCH
Confidence            33343443 344578999999999999999988776532  11223333  2221100  0000 111111  1111122


Q ss_pred             HHHHHHHHhCCCeEEEEEeCCCChhhhhh-hCCCCCCCCeEEEEEeCCcc
Q 010355          238 ARKLCERLKKEKKILVILDDIWTNLDLEN-VGIPFGVRGCRVLMTARSQD  286 (512)
Q Consensus       238 ~~~l~~~l~~~k~~LlVlDdv~~~~~~~~-l~~~~~~~gs~iivTtR~~~  286 (512)
                      ...+...++ ..+=.|++..+.+...... +...  ..|..++-|.....
T Consensus       139 ~~~l~~~lR-~~PD~i~vgEiR~~e~a~~~~~aa--~tGh~v~tTlHa~~  185 (264)
T cd01129         139 ARGLRAILR-QDPDIIMVGEIRDAETAEIAVQAA--LTGHLVLSTLHTND  185 (264)
T ss_pred             HHHHHHHhc-cCCCEEEeccCCCHHHHHHHHHHH--HcCCcEEEEeccCC
Confidence            334444454 4678899999988765443 3222  23434555555443

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.

>PRK00698 tmk thymidylate kinase; Validated

Probab=95.23  E-value=0.055  Score=49.55  Aligned_cols=26  Identities=19%  Similarity=0.332  Sum_probs=23.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      .+|+|.|+.|+||||+++.+.+....
T Consensus         4 ~~I~ieG~~gsGKsT~~~~L~~~l~~   29 (205)
T PRK00698          4 MFITIEGIDGAGKSTQIELLKELLEQ   29 (205)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            68999999999999999999987753

>TIGR01287 nifH nitrogenase iron protein

Probab=95.22  E-value=0.025  Score=54.64  Aligned_cols=37  Identities=22%  Similarity=0.355  Sum_probs=27.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeC
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVS  209 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~  209 (512)
                      +.|+|+|-||+||||++..++.....++ + .++-|+..
T Consensus         1 ~~ia~~gKGGVGKTT~a~nLA~~La~~G-~-~VlliD~D   37 (275)
T TIGR01287         1 RQIAIYGKGGIGKSTTTQNIAAALAEMG-K-KVMIVGCD   37 (275)
T ss_pred             CeeEEeCCCcCcHHHHHHHHHHHHHHCC-C-eEEEEeCC
Confidence            4689999999999999999988776542 2 34444443

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.

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=95.21  E-value=0.018  Score=50.28  Aligned_cols=25  Identities=28%  Similarity=0.453  Sum_probs=22.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      +++|+|+.|+|||||+..+....+.
T Consensus         1 vi~i~G~~gsGKTtl~~~l~~~l~~   25 (155)
T TIGR00176         1 VLQIVGPKNSGKTTLIERLVKALKA   25 (155)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHh
Confidence            5789999999999999999998764

This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=95.21  E-value=0.019  Score=51.19  Aligned_cols=26  Identities=27%  Similarity=0.335  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ...|+|+|+.|+|||||++.++....
T Consensus         4 ~~~I~liG~~GaGKStl~~~La~~l~   29 (172)
T PRK05057          4 KRNIFLVGPMGAGKSTIGRQLAQQLN   29 (172)
T ss_pred             CCEEEEECCCCcCHHHHHHHHHHHcC
Confidence            35699999999999999999998754

>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=95.21  E-value=0.018  Score=46.40  Aligned_cols=22  Identities=32%  Similarity=0.306  Sum_probs=19.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVA  191 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~  191 (512)
                      -..++|.|++|+|||||++.+.
T Consensus        15 ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          15 KVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             CEEEEEEcCCCCCHHHHHHHhh
Confidence            3688999999999999999976

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

>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=95.20  E-value=0.023  Score=53.40  Aligned_cols=33  Identities=24%  Similarity=0.342  Sum_probs=23.0

Q ss_pred             EEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeC
Q 010355          175 AYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVS  209 (512)
Q Consensus       175 I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~  209 (512)
                      |+|++|+||||+++.+.+.....  -..++-|++.
T Consensus         1 ViGpaGSGKTT~~~~~~~~~~~~--~~~~~~vNLD   33 (238)
T PF03029_consen    1 VIGPAGSGKTTFCKGLSEWLESN--GRDVYIVNLD   33 (238)
T ss_dssp             -EESTTSSHHHHHHHHHHHHTTT---S-EEEEE--
T ss_pred             CCCCCCCCHHHHHHHHHHHHHhc--cCCceEEEcc
Confidence            68999999999999999988743  3345555554

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=95.19  E-value=0.016  Score=52.43  Aligned_cols=24  Identities=25%  Similarity=0.430  Sum_probs=21.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .+++|+|+.|+|||||++.++...
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~~   26 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQRE   26 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhccC
Confidence            478999999999999999997654

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

Probab=95.19  E-value=0.0098  Score=54.57  Aligned_cols=22  Identities=14%  Similarity=0.199  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHH
Q 010355          171 HMIGAYGMAGVGKTMLVKEVAR  192 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~  192 (512)
                      .+++|+|+.|.|||||.+.++.
T Consensus        30 ~~~~l~G~Ng~GKStll~~i~~   51 (202)
T cd03243          30 RLLLITGPNMGGKSTYLRSIGL   51 (202)
T ss_pred             eEEEEECCCCCccHHHHHHHHH
Confidence            7899999999999999999984

Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, and recognition of specific DNA stru

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=95.18  E-value=0.016  Score=51.03  Aligned_cols=21  Identities=33%  Similarity=0.428  Sum_probs=17.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~  193 (512)
                      |+|+|..|+|||||++.+...
T Consensus         2 I~i~G~~stGKTTL~~~L~~~   22 (163)
T PF13521_consen    2 IVITGGPSTGKTTLIEALAAR   22 (163)
T ss_dssp             EEEE--TTSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHc
Confidence            789999999999999999876

>PLN02200 adenylate kinase family protein

Probab=95.17  E-value=0.02  Score=53.67  Aligned_cols=27  Identities=15%  Similarity=0.162  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ...+|.|.|++|+||||+|+.++....
T Consensus        42 ~~~ii~I~G~PGSGKsT~a~~La~~~g   68 (234)
T PLN02200         42 TPFITFVLGGPGSGKGTQCEKIVETFG   68 (234)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHhC
Confidence            346889999999999999999987654

>PRK05688 fliI flagellum-specific ATP synthase; Validated

Probab=95.15  E-value=0.066  Score=54.69  Aligned_cols=89  Identities=24%  Similarity=0.387  Sum_probs=52.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCC-CHHHHHHHHHHHhCCCCC-------CCCch-----
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRP-DVKKIQGQIADKLGLKFY-------EESES-----  235 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~ll~~i~~~l~~~~~-------~~~~~-----  235 (512)
                      .-..++|+|..|+|||||++.++....    .+.++...++... ....+...+...-++...       ..+..     
T Consensus       167 ~GqrigI~G~sG~GKSTLl~~I~g~~~----~dv~V~g~Ig~rg~ev~~~~~~~~~~~~l~rsvvv~atsd~~p~~r~~a  242 (451)
T PRK05688        167 RGQRLGLFAGTGVGKSVLLGMMTRFTE----ADIIVVGLIGERGREVKEFIEHILGEEGLKRSVVVASPADDAPLMRLRA  242 (451)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCC----CCEEEEEEeCcCcHhHHHHHHHHhhcCCccEEEEEEECCCCCHHHHHHH
Confidence            346789999999999999998876432    3344444444332 455555555544332210       11111     


Q ss_pred             -HHHHHHHHHHh-CCCeEEEEEeCCCCh
Q 010355          236 -GRARKLCERLK-KEKKILVILDDIWTN  261 (512)
Q Consensus       236 -~~~~~l~~~l~-~~k~~LlVlDdv~~~  261 (512)
                       .....+.++++ +++++||++|++...
T Consensus       243 ~~~a~aiAEyfrd~G~~VLl~~DslTR~  270 (451)
T PRK05688        243 AMYCTRIAEYFRDKGKNVLLLMDSLTRF  270 (451)
T ss_pred             HHHHHHHHHHHHHCCCCEEEEecchhHH
Confidence             12234555554 579999999999543

>cd03116 MobB Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes

Probab=95.13  E-value=0.031  Score=48.95  Aligned_cols=27  Identities=33%  Similarity=0.535  Sum_probs=24.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhc
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKAD  197 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~  197 (512)
                      +++.|+|..|+|||||+..+......+
T Consensus         2 ~vi~i~G~~gsGKTTli~~L~~~l~~~   28 (159)
T cd03116           2 KVIGFVGYSGSGKTTLLEKLIPALSAR   28 (159)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            689999999999999999999887643

In E. coli, the synthesis of Moco involves genes from several loci: moa, mob, mod, moe and mog. The mob locus contains mobA and mobB genes. MobB catalyzes the attachment of the guanine dinucleotide to molybdopterin.

>PRK13946 shikimate kinase; Provisional

Probab=95.13  E-value=0.02  Score=51.67  Aligned_cols=26  Identities=19%  Similarity=0.312  Sum_probs=23.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .+.|.++|++|+||||+++.++....
T Consensus        10 ~~~I~l~G~~GsGKsti~~~LA~~Lg   35 (184)
T PRK13946         10 KRTVVLVGLMGAGKSTVGRRLATMLG   35 (184)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHcC
Confidence            36799999999999999999998875

>PLN02348 phosphoribulokinase

Probab=95.10  E-value=0.046  Score=54.53  Aligned_cols=29  Identities=17%  Similarity=0.327  Sum_probs=25.7

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          167 NPDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       167 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .+...+|+|.|.+|+||||||+.+...+.
T Consensus        46 ~~~p~IIGIaG~SGSGKSTfA~~L~~~Lg   74 (395)
T PLN02348         46 DDGTVVIGLAADSGCGKSTFMRRLTSVFG   74 (395)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            34678999999999999999999998875

>TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily

Probab=95.08  E-value=2.6  Score=43.41  Aligned_cols=53  Identities=13%  Similarity=0.160  Sum_probs=38.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKL  225 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l  225 (512)
                      ..++.|.|.+|+|||++|..++.....+. -..++|++..  .+..++...++...
T Consensus       194 g~liviag~pg~GKT~~al~ia~~~a~~~-g~~v~~fSlE--m~~~~l~~Rl~~~~  246 (421)
T TIGR03600       194 GDLIVIGARPSMGKTTLALNIAENVALRE-GKPVLFFSLE--MSAEQLGERLLASK  246 (421)
T ss_pred             CceEEEEeCCCCCHHHHHHHHHHHHHHhC-CCcEEEEECC--CCHHHHHHHHHHHH
Confidence            36889999999999999999997654322 2356666543  46777777776543

Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model.

>cd01878 HflX HflX subfamily

Probab=95.08  E-value=0.071  Score=48.82  Aligned_cols=27  Identities=15%  Similarity=0.337  Sum_probs=23.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .....|+|+|.+|+|||||...+....
T Consensus        39 ~~~~~I~iiG~~g~GKStLl~~l~~~~   65 (204)
T cd01878          39 SGIPTVALVGYTNAGKSTLFNALTGAD   65 (204)
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHhcch
Confidence            445789999999999999999988753

A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.

>CHL00060 atpB ATP synthase CF1 beta subunit

Probab=95.07  E-value=0.097  Score=53.88  Aligned_cols=91  Identities=22%  Similarity=0.341  Sum_probs=58.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCC-CHHHHHHHHHHHhCCCC--------------CCCC
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRP-DVKKIQGQIADKLGLKF--------------YEES  233 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~ll~~i~~~l~~~~--------------~~~~  233 (512)
                      .-.-++|.|.+|+|||+|+..+...... .+-+.++++-++... ...+++..+...-....              ...+
T Consensus       160 kGQR~gIfgg~GvGKs~L~~~~~~~~~~-~~~dv~V~~lIGERgrEv~efi~~~~~~~~~~~~~~~~~rsvvv~atsd~p  238 (494)
T CHL00060        160 RGGKIGLFGGAGVGKTVLIMELINNIAK-AHGGVSVFGGVGERTREGNDLYMEMKESGVINEQNIAESKVALVYGQMNEP  238 (494)
T ss_pred             cCCEEeeecCCCCChhHHHHHHHHHHHH-hcCCeEEEEEeccCchHHHHHHHHHHhcCccccCcccccceEEEEECCCCC
Confidence            3467899999999999999998877432 112678888887664 45667766655211110              0011


Q ss_pred             ch------HHHHHHHHHHhC-C-CeEEEEEeCCCC
Q 010355          234 ES------GRARKLCERLKK-E-KKILVILDDIWT  260 (512)
Q Consensus       234 ~~------~~~~~l~~~l~~-~-k~~LlVlDdv~~  260 (512)
                      ..      .....+.++++. + +++||++||+..
T Consensus       239 ~~~R~~a~~~A~tiAEyfrd~g~~~VLll~DslTR  273 (494)
T CHL00060        239 PGARMRVGLTALTMAEYFRDVNKQDVLLFIDNIFR  273 (494)
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCCCEEEEcccchH
Confidence            11      223456777753 4 499999999954

>PRK14738 gmk guanylate kinase; Provisional

Probab=95.07  E-value=0.022  Score=52.42  Aligned_cols=26  Identities=19%  Similarity=0.359  Sum_probs=22.4

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      ...+.|+|+|++|+|||||++.+...
T Consensus        11 ~~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738         11 AKPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CCCeEEEEECcCCCCHHHHHHHHHhc
Confidence            35688999999999999999998754

>TIGR03496 FliI_clade1 flagellar protein export ATPase FliI

Probab=95.06  E-value=0.1  Score=53.10  Aligned_cols=88  Identities=27%  Similarity=0.389  Sum_probs=51.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCC-CHHHHHHHHHHHhCCC-------CCCCCch-----
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRP-DVKKIQGQIADKLGLK-------FYEESES-----  235 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~ll~~i~~~l~~~-------~~~~~~~-----  235 (512)
                      .-..++|.|..|+|||||++.++....    .+..+...++... ...++...+...-...       ....+..     
T Consensus       136 ~Gq~~~I~G~sG~GKTtLl~~I~~~~~----~~~~vi~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~tsd~~~~~r~~a  211 (411)
T TIGR03496       136 RGQRMGIFAGSGVGKSTLLGMMARYTE----ADVVVVGLIGERGREVKEFIEDILGEEGLARSVVVAATADESPLMRLRA  211 (411)
T ss_pred             cCcEEEEECCCCCCHHHHHHHHhcCCC----CCEEEEEEEecChHHHHHHHHHHhhCCCcceEEEEEECCCCCHHHHHHH
Confidence            346789999999999999988886543    2344445555433 3445555544332111       1111111     


Q ss_pred             -HHHHHHHHHHh-CCCeEEEEEeCCCC
Q 010355          236 -GRARKLCERLK-KEKKILVILDDIWT  260 (512)
Q Consensus       236 -~~~~~l~~~l~-~~k~~LlVlDdv~~  260 (512)
                       .....+.++++ +++++||++||+..
T Consensus       212 ~~~a~tiAEyfr~~G~~Vll~~Dsltr  238 (411)
T TIGR03496       212 AFYATAIAEYFRDQGKDVLLLMDSLTR  238 (411)
T ss_pred             HHHHHHHHHHHHHCCCCEEEEEeChHH
Confidence             12334555553 57899999999853

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.

>cd01136 ATPase_flagellum-secretory_path_III Flagellum-specific ATPase/type III secretory pathway virulence-related protein

Probab=95.06  E-value=0.17  Score=49.58  Aligned_cols=89  Identities=25%  Similarity=0.342  Sum_probs=52.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeC-CCCCHHHHHHHHHHHhCCCC-------CCCCch-----
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVS-QRPDVKKIQGQIADKLGLKF-------YEESES-----  235 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~-~~~~~~~ll~~i~~~l~~~~-------~~~~~~-----  235 (512)
                      .-..++|.|..|+|||||++.++....    .+..+..-++ .......+.......-++..       ...+..     
T Consensus        68 ~Gqri~I~G~sG~GKTtLl~~Ia~~~~----~~~~vi~~iGer~~ev~~~~~~~~~~~~l~rtvvv~~t~d~~~~~r~~~  143 (326)
T cd01136          68 KGQRLGIFAGSGVGKSTLLGMIARGTT----ADVNVIALIGERGREVREFIEKDLGEEGLKRSVVVVATSDESPLLRVKA  143 (326)
T ss_pred             CCcEEEEECCCCCChHHHHHHHhCCCC----CCEEEEEEEecCCccHHHHHHHHHhcCccceEEEEEcCCCCCHHHHHHH
Confidence            346789999999999999998887654    2333444444 33355555555554433211       111111     


Q ss_pred             -HHHHHHHHHHh-CCCeEEEEEeCCCCh
Q 010355          236 -GRARKLCERLK-KEKKILVILDDIWTN  261 (512)
Q Consensus       236 -~~~~~l~~~l~-~~k~~LlVlDdv~~~  261 (512)
                       .....+.+++. +++.+||++|++...
T Consensus       144 ~~~a~~~AEyfr~~g~~Vll~~Dsltr~  171 (326)
T cd01136         144 AYTATAIAEYFRDQGKDVLLLMDSLTRF  171 (326)
T ss_pred             HHHHHHHHHHHHHcCCCeEEEeccchHH
Confidence             12234445553 578999999998543

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.

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

Probab=95.05  E-value=0.12  Score=46.22  Aligned_cols=29  Identities=28%  Similarity=0.421  Sum_probs=25.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      ..-.+++|.|+.|.||||+.+.++.-...
T Consensus        26 e~Gei~GlLG~NGAGKTT~LRmiatlL~P   54 (245)
T COG4555          26 EEGEITGLLGENGAGKTTLLRMIATLLIP   54 (245)
T ss_pred             ccceEEEEEcCCCCCchhHHHHHHHhccC
Confidence            34589999999999999999999987653

>cd02040 NifH NifH gene encodes component II (iron protein) of nitrogenase

Probab=95.04  E-value=0.042  Score=52.84  Aligned_cols=40  Identities=18%  Similarity=0.328  Sum_probs=29.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCC
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRP  212 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~  212 (512)
                      ++|+|.|-||+||||++..++......  -..++-|++....
T Consensus         2 ~~iav~~KGGvGKTT~~~nLA~~La~~--G~kVlliD~Dpq~   41 (270)
T cd02040           2 RQIAIYGKGGIGKSTTTQNLSAALAEM--GKKVMIVGCDPKA   41 (270)
T ss_pred             cEEEEEeCCcCCHHHHHHHHHHHHHhC--CCeEEEEEcCCCC
Confidence            568888999999999999998887643  2245556665443

Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the mollybdenum-iron (alternatively, vanadium-iron or iron-iron) protein (commonly referred to as component 1), and the iron protein (commonly referred to as component 2). The iron protein is a homodimer, with an Fe4S4 cluster bound between the subunits and two ATP-binding domains. It supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component 1 for the reduction of molecular nitrogen to ammonia.

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=95.03  E-value=0.02  Score=51.14  Aligned_cols=27  Identities=33%  Similarity=0.539  Sum_probs=23.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhc
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKAD  197 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~  197 (512)
                      +.|.+.|.+|+||||+|++++...+.+
T Consensus         2 pLiIlTGyPgsGKTtfakeLak~L~~~   28 (261)
T COG4088           2 PLIILTGYPGSGKTTFAKELAKELRQE   28 (261)
T ss_pred             ceEEEecCCCCCchHHHHHHHHHHHHh
Confidence            568899999999999999999887653

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

Probab=95.03  E-value=0.052  Score=49.46  Aligned_cols=107  Identities=20%  Similarity=0.243  Sum_probs=53.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHh-
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLK-  246 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~-  246 (512)
                      ++-+++.|.|++|+||||+++.+........  ..++++ ........    .+....+....      .+..+..... 
T Consensus        16 ~~~~~~~l~G~aGtGKT~~l~~~~~~~~~~g--~~v~~~-apT~~Aa~----~L~~~~~~~a~------Ti~~~l~~~~~   82 (196)
T PF13604_consen   16 SGDRVSVLQGPAGTGKTTLLKALAEALEAAG--KRVIGL-APTNKAAK----ELREKTGIEAQ------TIHSFLYRIPN   82 (196)
T ss_dssp             CTCSEEEEEESTTSTHHHHHHHHHHHHHHTT----EEEE-ESSHHHHH----HHHHHHTS-EE------EHHHHTTEECC
T ss_pred             cCCeEEEEEECCCCCHHHHHHHHHHHHHhCC--CeEEEE-CCcHHHHH----HHHHhhCcchh------hHHHHHhcCCc
Confidence            3457899999999999999999888776532  233333 33322222    23333332110      0000000000 


Q ss_pred             --------CCCeEEEEEeCCCCh--hhhhhhCCCCCCCCeEEEEEeCCcch
Q 010355          247 --------KEKKILVILDDIWTN--LDLENVGIPFGVRGCRVLMTARSQDV  287 (512)
Q Consensus       247 --------~~k~~LlVlDdv~~~--~~~~~l~~~~~~~gs~iivTtR~~~v  287 (512)
                              ..++-+||+|.+...  ..+..+.......|+++|+.-=..+.
T Consensus        83 ~~~~~~~~~~~~~vliVDEasmv~~~~~~~ll~~~~~~~~klilvGD~~QL  133 (196)
T PF13604_consen   83 GDDEGRPELPKKDVLIVDEASMVDSRQLARLLRLAKKSGAKLILVGDPNQL  133 (196)
T ss_dssp             EECCSSCC-TSTSEEEESSGGG-BHHHHHHHHHHS-T-T-EEEEEE-TTSH
T ss_pred             ccccccccCCcccEEEEecccccCHHHHHHHHHHHHhcCCEEEEECCcchh
Confidence                    023459999999754  34444422223457888887655443

>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=95.03  E-value=0.46  Score=45.42  Aligned_cols=41  Identities=17%  Similarity=0.245  Sum_probs=31.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeC
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVS  209 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~  209 (512)
                      +.-+.+|+|+.|+|||.|.+.+.......-....|+||.-.
T Consensus        86 qP~I~~VYGPTG~GKSqLlRNLis~~lI~P~PETVfFItP~  126 (369)
T PF02456_consen   86 QPFIGVVYGPTGSGKSQLLRNLISCQLIQPPPETVFFITPQ  126 (369)
T ss_pred             CceEEEEECCCCCCHHHHHHHhhhcCcccCCCCceEEECCC
Confidence            34566789999999999999998876665556778888643

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

>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop

Probab=95.02  E-value=0.048  Score=45.24  Aligned_cols=35  Identities=34%  Similarity=0.392  Sum_probs=26.5

Q ss_pred             HHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhc
Q 010355          161 VINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKAD  197 (512)
Q Consensus       161 l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~  197 (512)
                      |...|.  ...+|.+.|.=|+||||+++.++......
T Consensus         8 l~~~l~--~g~vi~L~GdLGaGKTtf~r~l~~~lg~~   42 (123)
T PF02367_consen    8 LAQILK--PGDVILLSGDLGAGKTTFVRGLARALGID   42 (123)
T ss_dssp             HHHHHS--S-EEEEEEESTTSSHHHHHHHHHHHTT--
T ss_pred             HHHhCC--CCCEEEEECCCCCCHHHHHHHHHHHcCCC
Confidence            444443  34899999999999999999999987543

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.

>PRK04182 cytidylate kinase; Provisional

Probab=95.02  E-value=0.022  Score=50.98  Aligned_cols=24  Identities=29%  Similarity=0.419  Sum_probs=22.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      +|+|.|+.|+||||+|+.++....
T Consensus         2 ~I~i~G~~GsGKstia~~la~~lg   25 (180)
T PRK04182          2 IITISGPPGSGKTTVARLLAEKLG   25 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            689999999999999999998764

>PRK05922 type III secretion system ATPase; Validated

Probab=95.01  E-value=0.17  Score=51.58  Aligned_cols=89  Identities=21%  Similarity=0.315  Sum_probs=52.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCC-CCCHHHHHHHHHHHhCCCCC-------CCCch-----
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQ-RPDVKKIQGQIADKLGLKFY-------EESES-----  235 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~ll~~i~~~l~~~~~-------~~~~~-----  235 (512)
                      .-..++|.|..|+|||||.+.++....    .+..+++.++. .......+.+....+.....       ..+..     
T Consensus       156 ~GqrigI~G~nG~GKSTLL~~Ia~~~~----~d~gvi~liGerg~ev~eyl~q~~~~~~~~rTVlv~atsd~~~~~r~~a  231 (434)
T PRK05922        156 KGQRIGVFSEPGSGKSSLLSTIAKGSK----STINVIALIGERGREVREYIEQHKEGLAAQRTIIIASPAHETAPTKVIA  231 (434)
T ss_pred             CCcEEEEECCCCCChHHHHHHHhccCC----CCceEEEEeCCCCchHHHHHHHHHhhccccceEEEEECCCCCHHHHHHH
Confidence            345689999999999999999887643    23334433433 23345555555443332211       11111     


Q ss_pred             -HHHHHHHHHHh-CCCeEEEEEeCCCCh
Q 010355          236 -GRARKLCERLK-KEKKILVILDDIWTN  261 (512)
Q Consensus       236 -~~~~~l~~~l~-~~k~~LlVlDdv~~~  261 (512)
                       .....+.++++ .++++||++|++...
T Consensus       232 ~~~a~tiAEyfrd~G~~VLl~~DslTR~  259 (434)
T PRK05922        232 GRAAMTIAEYFRDQGHRVLFIMDSLSRW  259 (434)
T ss_pred             HHHHHHHHHHHHHcCCCEEEeccchhHH
Confidence             12334556664 579999999999543

>PRK14532 adenylate kinase; Provisional

Probab=95.00  E-value=0.02  Score=51.80  Aligned_cols=23  Identities=17%  Similarity=0.289  Sum_probs=20.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhhh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      |.|.|++|+||||+|+.++....
T Consensus         3 i~~~G~pGsGKsT~a~~la~~~g   25 (188)
T PRK14532          3 LILFGPPAAGKGTQAKRLVEERG   25 (188)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcC
Confidence            78899999999999999987653

>cd02117 NifH_like This family contains the NifH (iron protein) of nitrogenase, L subunit (BchL/ChlL) of the protochlorophyllide reductase and the BchX subunit of the Chlorophyllide reductase

Probab=95.00  E-value=0.024  Score=52.37  Aligned_cols=26  Identities=23%  Similarity=0.485  Sum_probs=22.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      ++|+|.|-||+||||++..++.....
T Consensus         1 ~~iav~gKGGvGKTt~~~nLA~~la~   26 (212)
T cd02117           1 RQIAIYGKGGIGKSTTSQNLSAALAE   26 (212)
T ss_pred             CEEEEECCCcCcHHHHHHHHHHHHHH
Confidence            47899999999999999988887764

Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.

>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain

Probab=94.99  E-value=0.13  Score=49.02  Aligned_cols=95  Identities=15%  Similarity=0.206  Sum_probs=54.7

Q ss_pred             ceEEEEEcCCCCcHHHHH-HHHHHhhhhcCCCCeE-EEEEeCCCC-CHHHHHHHHHHHhCCC-------CCCCCchH---
Q 010355          170 VHMIGAYGMAGVGKTMLV-KEVARQAKADKLFDEV-VYAEVSQRP-DVKKIQGQIADKLGLK-------FYEESESG---  236 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa-~~v~~~~~~~~~f~~~-~wv~~~~~~-~~~~ll~~i~~~l~~~-------~~~~~~~~---  236 (512)
                      -+-++|.|.+|+|||+|| ..+.+...    -+.+ +++-++... ...+++..+...-...       ....+...   
T Consensus        69 GQr~~Ifg~~g~GKt~L~l~~i~~~~~----~~v~~V~~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~  144 (274)
T cd01132          69 GQRELIIGDRQTGKTAIAIDTIINQKG----KKVYCIYVAIGQKASTVAQVVKTLEEHGAMEYTIVVAATASDPAPLQYL  144 (274)
T ss_pred             CCEEEeeCCCCCCccHHHHHHHHHhcC----CCeEEEEEecccchHHHHHHHHHHHhcCccceeEEEEeCCCCchhHHHH
Confidence            356889999999999996 55555432    2333 666666654 4556666665432111       01111111   


Q ss_pred             ---HHHHHHHHHh-CCCeEEEEEeCCCCh-hhhhhhC
Q 010355          237 ---RARKLCERLK-KEKKILVILDDIWTN-LDLENVG  268 (512)
Q Consensus       237 ---~~~~l~~~l~-~~k~~LlVlDdv~~~-~~~~~l~  268 (512)
                         ....+.+++. +++.+|||+||+... ..+..+.
T Consensus       145 a~~~a~aiAE~fr~~G~~Vlvl~DslTr~A~A~rEis  181 (274)
T cd01132         145 APYTGCAMGEYFMDNGKHALIIYDDLSKQAVAYRQMS  181 (274)
T ss_pred             HHHHHHHHHHHHHHCCCCEEEEEcChHHHHHHHHHHH
Confidence               1234444554 478999999999654 3455553

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.

>PRK13948 shikimate kinase; Provisional

Probab=94.99  E-value=0.025  Score=50.70  Aligned_cols=27  Identities=26%  Similarity=0.368  Sum_probs=24.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ..+.|.++|+.|+||||+++.++....
T Consensus         9 ~~~~I~LiG~~GsGKSTvg~~La~~lg   35 (182)
T PRK13948          9 PVTWVALAGFMGTGKSRIGWELSRALM   35 (182)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHcC
Confidence            457899999999999999999998765

>TIGR03498 FliI_clade3 flagellar protein export ATPase FliI

Probab=94.99  E-value=0.11  Score=52.78  Aligned_cols=89  Identities=24%  Similarity=0.310  Sum_probs=51.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCC-------CCCCch------
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKF-------YEESES------  235 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~-------~~~~~~------  235 (512)
                      .-..++|.|..|+|||||++.++.....   ...++.+.-.......++....+..-+...       ...+..      
T Consensus       139 ~Gq~i~I~G~sG~GKTtLl~~I~~~~~~---~~gvi~~iGer~~ev~~~~~~~l~~~~~~~tvvv~atsd~~~~~r~~a~  215 (418)
T TIGR03498       139 RGQRLGIFAGSGVGKSTLLSMLARNTDA---DVVVIALVGERGREVREFLEDDLGEEGLKRSVVVVATSDESPLMRRQAA  215 (418)
T ss_pred             CCcEEEEECCCCCChHHHHHHHhCCCCC---CEEEEEEEeeechHHHHHHHHhhhccccceeEEEEECCCCCHHHHHHHH
Confidence            3467899999999999999888865432   223333222233345555555444322221       111111      


Q ss_pred             HHHHHHHHHHh-CCCeEEEEEeCCCC
Q 010355          236 GRARKLCERLK-KEKKILVILDDIWT  260 (512)
Q Consensus       236 ~~~~~l~~~l~-~~k~~LlVlDdv~~  260 (512)
                      .....+.++++ +++++||++|++..
T Consensus       216 ~~a~~iAEyfrd~G~~Vll~~DslTr  241 (418)
T TIGR03498       216 YTATAIAEYFRDQGKDVLLLMDSVTR  241 (418)
T ss_pred             HHHHHHHHHHHHcCCCEEEeccchhH
Confidence            12334555554 47899999999954

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.

>COG0237 CoaE Dephospho-CoA kinase [Coenzyme metabolism]

Probab=94.98  E-value=0.087  Score=47.97  Aligned_cols=23  Identities=35%  Similarity=0.512  Sum_probs=20.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVAR  192 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~  192 (512)
                      ..+|+|+|+.|+||||+|+.+..
T Consensus         2 ~~iIglTG~igsGKStva~~~~~   24 (201)
T COG0237           2 MLIIGLTGGIGSGKSTVAKILAE   24 (201)
T ss_pred             ceEEEEecCCCCCHHHHHHHHHH
Confidence            36899999999999999998876

>PRK07196 fliI flagellum-specific ATP synthase; Validated

Probab=94.96  E-value=0.08  Score=53.94  Aligned_cols=88  Identities=20%  Similarity=0.329  Sum_probs=47.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCC-CCCHHHHHHHHHHHhCCC-------CCCCCc------
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQ-RPDVKKIQGQIADKLGLK-------FYEESE------  234 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~ll~~i~~~l~~~-------~~~~~~------  234 (512)
                      .-..++|.|..|+|||||++.++....    .+..+...+.. ......+....+..-+..       ....+.      
T Consensus       154 ~GQ~igI~G~sGaGKSTLl~~I~g~~~----~dv~vig~IGerg~ev~ef~~~~l~~~gl~rsvvv~~~~d~s~~~rl~a  229 (434)
T PRK07196        154 KGQRVGLMAGSGVGKSVLLGMITRYTQ----ADVVVVGLIGERGREVKEFIEHSLQAAGMAKSVVVAAPADESPLMRIKA  229 (434)
T ss_pred             cceEEEEECCCCCCccHHHHHHhcccC----CCeEEEEEEeeecHHHHHHHHHHhhhcccceEEEEEecCCCChhhhHHH
Confidence            447899999999999999998877543    23322232322 223333333333332221       111111      


Q ss_pred             hHHHHHHHHHHh-CCCeEEEEEeCCCC
Q 010355          235 SGRARKLCERLK-KEKKILVILDDIWT  260 (512)
Q Consensus       235 ~~~~~~l~~~l~-~~k~~LlVlDdv~~  260 (512)
                      ......+.+++. .++++||++|++..
T Consensus       230 ~e~a~~iAEyfr~~g~~Vll~~Dsltr  256 (434)
T PRK07196        230 TELCHAIATYYRDKGHDVLLLVDSLTR  256 (434)
T ss_pred             HHHHHHHHHHhhhccCCEEEeecchhH
Confidence            112223333332 47899999999854

>PRK13230 nitrogenase reductase-like protein; Reviewed

Probab=94.96  E-value=0.035  Score=53.75  Aligned_cols=36  Identities=22%  Similarity=0.350  Sum_probs=26.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEe
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEV  208 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~  208 (512)
                      ++|+|+|-||+||||++..++......+  ..++-|+.
T Consensus         2 ~~i~~~gKGGVGKTT~a~nLA~~La~~G--~rVLliD~   37 (279)
T PRK13230          2 RKFCFYGKGGIGKSTTVCNIAAALAESG--KKVLVVGC   37 (279)
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHHhCC--CEEEEEee
Confidence            5788999999999999999888776432  23444444

>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]

Probab=94.96  E-value=0.026  Score=48.70  Aligned_cols=25  Identities=28%  Similarity=0.450  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ..+++|+|.+|+||||+.+.+....
T Consensus         4 ~kvvvitGVpGvGKTTVl~~~~~~l   28 (189)
T COG2019           4 RKVVVITGVPGVGKTTVLKIALKEL   28 (189)
T ss_pred             ceEEEEEcCCCCChHHHHHHHHHHH
Confidence            5799999999999999998877665

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=94.96  E-value=0.019  Score=54.61  Aligned_cols=25  Identities=36%  Similarity=0.597  Sum_probs=22.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      .|.|+|++|+||||+|+.++.....
T Consensus         1 LIvl~G~pGSGKST~a~~La~~l~~   25 (249)
T TIGR03574         1 LIILTGLPGVGKSTFSKELAKKLSE   25 (249)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            3789999999999999999987753

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.

>PRK06761 hypothetical protein; Provisional

Probab=94.95  E-value=0.047  Score=52.35  Aligned_cols=26  Identities=23%  Similarity=0.316  Sum_probs=23.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      ++|.|.|++|+||||+++.++.....
T Consensus         4 ~lIvI~G~~GsGKTTla~~L~~~L~~   29 (282)
T PRK06761          4 KLIIIEGLPGFGKSTTAKMLNDILSQ   29 (282)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhcCc
Confidence            58999999999999999999988763

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=94.94  E-value=0.026  Score=44.37  Aligned_cols=25  Identities=36%  Similarity=0.453  Sum_probs=22.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      ++.+.|.+|+||||++..++.....
T Consensus         1 ~~~~~g~~G~Gktt~~~~l~~~l~~   25 (99)
T cd01983           1 VIVVTGKGGVGKTTLAANLAAALAK   25 (99)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4788999999999999999998764

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.

>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=94.93  E-value=0.022  Score=51.76  Aligned_cols=23  Identities=26%  Similarity=0.317  Sum_probs=20.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhhh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      |.|.|++|+||||+|+.++....
T Consensus         2 I~i~G~pGsGKst~a~~La~~~~   24 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAKKYG   24 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcC
Confidence            78999999999999999988753

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>TIGR02173 cyt_kin_arch cytidylate kinase, putative

Probab=94.91  E-value=0.025  Score=50.18  Aligned_cols=23  Identities=35%  Similarity=0.462  Sum_probs=0.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      +|.|.|+.|+||||+|+.+.+..
T Consensus         2 iI~i~G~~GSGKstia~~la~~l   24 (171)
T TIGR02173         2 IITISGPPGSGKTTVAKILAEKL   24 (171)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc

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.

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

Probab=94.90  E-value=0.022  Score=52.74  Aligned_cols=20  Identities=30%  Similarity=0.637  Sum_probs=0.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q 010355          172 MIGAYGMAGVGKTMLVKEVA  191 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~  191 (512)
                      .|+|+|++|+|||||.+.++
T Consensus        31 fvsilGpSGcGKSTLLriiA   50 (248)
T COG1116          31 FVAILGPSGCGKSTLLRLIA   50 (248)
T ss_pred             EEEEECCCCCCHHHHHHHHh

>cd03282 ABC_MSH4_euk MutS4 homolog in eukaryotes

Probab=94.88  E-value=0.04  Score=50.52  Aligned_cols=113  Identities=14%  Similarity=0.094  Sum_probs=0.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHh----
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLK----  246 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~----  246 (512)
                      +++.|.|+.|.||||+.+.++...--.+.--.+     ......-.+...|...++..............=..++.    
T Consensus        30 ~~~~l~G~n~~GKstll~~i~~~~~la~~G~~v-----pa~~~~l~~~d~I~~~~~~~d~~~~~~S~fs~e~~~~~~il~  104 (204)
T cd03282          30 RFHIITGPNMSGKSTYLKQIALLAIMAQIGCFV-----PAEYATLPIFNRLLSRLSNDDSMERNLSTFASEMSETAYILD  104 (204)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHHHcCCCc-----chhhcCccChhheeEecCCccccchhhhHHHHHHHHHHHHHH


Q ss_pred             -CCCeEEEEEeCC---CChhhhhhhCCCCC----CCCeEEEEEeCCcchh
Q 010355          247 -KEKKILVILDDI---WTNLDLENVGIPFG----VRGCRVLMTARSQDVL  288 (512)
Q Consensus       247 -~~k~~LlVlDdv---~~~~~~~~l~~~~~----~~gs~iivTtR~~~v~  288 (512)
                       ..++-|+++|..   .+..+...+.....    ..++.+|+||.....+
T Consensus       105 ~~~~~~lvllDE~~~gt~~~~~~~l~~~il~~l~~~~~~~i~~TH~~~l~  154 (204)
T cd03282         105 YADGDSLVLIDELGRGTSSADGFAISLAILECLIKKESTVFFATHFRDIA  154 (204)
T ss_pred             hcCCCcEEEeccccCCCCHHHHHHHHHHHHHHHHhcCCEEEEECChHHHH

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

>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional

Probab=94.86  E-value=0.034  Score=53.32  Aligned_cols=34  Identities=21%  Similarity=0.295  Sum_probs=0.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEE
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVV  204 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~  204 (512)
                      .++|+|+|.+|+|||||+..+...+..+. .-+++
T Consensus         1 M~~i~i~G~~gSGKTTLi~~Li~~L~~~G-~V~~I   34 (274)
T PRK14493          1 MKVLSIVGYKATGKTTLVERLVDRLSGRG-RVGTV   34 (274)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHhCC-CEEEE

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=94.85  E-value=0.026  Score=50.43  Aligned_cols=25  Identities=20%  Similarity=0.312  Sum_probs=0.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .+++|+|++|+|||||++.++....
T Consensus         4 e~i~l~G~sGsGKSTl~~~la~~l~   28 (176)
T PRK09825          4 ESYILMGVSGSGKSLIGSKIAALFS   28 (176)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhcC

>KOG0943 consensus Predicted ubiquitin-protein ligase/hyperplastic discs protein, HECT superfamily [Posttranslational modification, protein turnover, chaperones]

Probab=94.84  E-value=0.016  Score=63.38  Aligned_cols=78  Identities=26%  Similarity=0.290  Sum_probs=0.0

Q ss_pred             hhhhhhhhcCCCcccccchhhhccCCcCCCCCCCCCCCCCCCCCCCcccCCCCCCCcCCCCCCCCccCCCCCccccCC
Q 010355          435 TEVEYESEMSTSEEIEEEEEEENAERPMILLDTDEDEDEEYGEDDEDEEYSEYDEDEEYGEDDEDEEDDGEDDDIQSY  512 (512)
Q Consensus       435 ~~~~~~~~~~~~~e~~e~~~~e~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  512 (512)
                      ......+++.+..+..+.+|..+.+-.+++-++++||+++.++++||++++++|.|-+-+.--++|+++|.++.+.+.
T Consensus      1711 nttndtnaDnEEregq~~ef~GEed~~Dddnddddddd~EaEdddDddDdDdeD~d~~aea~aEdEe~eEgdeheQDe 1788 (3015)
T KOG0943|consen 1711 NTTNDTNADNEEREGQEGEFAGEEDHHDDDNDDDDDDDAEAEDDDDDDDDDDEDMDLDAEAAAEDEEDEEGDEHEQDE 1788 (3015)
T ss_pred             CccCccccchhhhcCCcccccCcccccccccccccccchhhccccccccccccccccchhhhhccccccccccccccc

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=94.84  E-value=0.026  Score=50.15  Aligned_cols=24  Identities=25%  Similarity=0.267  Sum_probs=0.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ..|.|+|++|+||||+++.++...
T Consensus         3 ~~i~~~G~~GsGKst~~~~la~~l   26 (171)
T PRK03731          3 QPLFLVGARGCGKTTVGMALAQAL   26 (171)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh

>PRK13695 putative NTPase; Provisional

Probab=94.84  E-value=0.04  Score=49.11  Aligned_cols=34  Identities=35%  Similarity=0.429  Sum_probs=0.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEE
Q 010355          173 IGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAE  207 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~  207 (512)
                      |+|+|.+|+|||||++.+++.... ..+...-|+.
T Consensus         3 i~ltG~~G~GKTTll~~i~~~l~~-~G~~~~g~~~   36 (174)
T PRK13695          3 IGITGPPGVGKTTLVLKIAELLKE-EGYKVGGFYT   36 (174)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHH-CCCeEEEEEc

>PRK13236 nitrogenase reductase; Reviewed

Probab=94.82  E-value=0.048  Score=53.26  Aligned_cols=52  Identities=13%  Similarity=0.372  Sum_probs=0.0

Q ss_pred             hcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHH
Q 010355          165 LKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQ  218 (512)
Q Consensus       165 L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll  218 (512)
                      +.+.+.+++++.|-||+||||++..++....  ..-..+.-+.+....+...++
T Consensus         1 ~~~~~~~~~~~~GKGGVGKTt~a~NLA~~La--~~G~rVLliD~D~q~~~~~~l   52 (296)
T PRK13236          1 MTDENIRQIAFYGKGGIGKSTTSQNTLAAMA--EMGQRILIVGCDPKADSTRLM   52 (296)
T ss_pred             CCCcCceEEEEECCCcCCHHHHHHHHHHHHH--HCCCcEEEEEccCCCCccchh

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	512
3sfz_A	1249	Crystal Structure Of Full-Length Murine Apaf-1 Leng		8e-05
3shf_A	1256	Crystal Structure Of The R265s Mutant Of Full-Lengt		4e-04
3iza_B	1263	Structure Of An Apoptosome-Procaspase-9 Card Comple		6e-04
1z6t_A	591	Structure Of The Apoptotic Protease-activating Fact		7e-04

>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1 Length = 1249

Iteration: 1
 Score = 45.1 bits (105), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 49/199 (24%), Positives = 87/199 (43%), Gaps = 9/199 (4%)
Query: 173 IGAYGMAGVGKTMLVKEVAR-QAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYE 231
           +  YGMAG GK++L  E  R  +  +  F   V+     + D   +  ++ +       E
Sbjct: 150 VTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQNLCMRLDQE 209
Query: 232 ESESGRAXXXXXXXXXXXXILVILDDIWTNLDLENVGIPFGVRG----CRVLMTARSQDV 287
           ES S R             +L++     + L L++V  P+ ++     C++L+T R + V
Sbjct: 210 ESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAFDNQCQILLTTRDKSV 269
Query: 288 LSSKMDCQNNFLI-GVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTI 346
             S M  ++   +   L   +  ++    V  K E  DL + A +I+K C+G P+ +  I
Sbjct: 270 TDSVMGPKHVVPVESGLGREKGLEILSLFVNMKKE--DLPAEAHSIIKECKGSPLVVSLI 327
Query: 347 ARALRNKNTFEWKSALREL 365
              LR+     W   LR+L
Sbjct: 328 GALLRDFPN-RWAYYLRQL 345

>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length Murine Apaf-1 Length = 1256

Iteration: 1
 Score = 42.7 bits (99), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 48/199 (24%), Positives = 86/199 (43%), Gaps = 9/199 (4%)
Query: 173 IGAYGMAGVGKTMLVKEVAR-QAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYE 231
           +  YGMAG GK++L  E  R  +  +  F   V+     + D   +  ++ +       E
Sbjct: 157 VTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQNLCMRLDQE 216
Query: 232 ESESGRAXXXXXXXXXXXXILVILDDIWTNLDLENVGIPFGVRG----CRVLMTARSQDV 287
           ES S R             +L++     + L L++V  P+ ++     C++L+T   + V
Sbjct: 217 ESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAFDNQCQILLTTSDKSV 276
Query: 288 LSSKMDCQNNFLI-GVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTI 346
             S M  ++   +   L   +  ++    V  K E  DL + A +I+K C+G P+ +  I
Sbjct: 277 TDSVMGPKHVVPVESGLGREKGLEILSLFVNMKKE--DLPAEAHSIIKECKGSPLVVSLI 334
Query: 347 ARALRNKNTFEWKSALREL 365
              LR+     W   LR+L
Sbjct: 335 GALLRDFPN-RWAYYLRQL 352

>pdb|1Z6T|A Chain A, Structure Of The Apoptotic Protease-activating Factor 1 Bound To Adp Length = 591

Iteration: 1
 Score = 42.0 bits (97), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 48/206 (23%), Positives = 87/206 (42%), Gaps = 23/206 (11%)
Query: 173 IGAYGMAGVGKTMLVKEVAR-QAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYE 231
           +  +GMAG GK++L  E  R  +  +  F   V+     + D   +  ++ +       +
Sbjct: 150 VTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMKLQNLCTRLDQD 209
Query: 232 ESESGRAXXXXXXXXXXXXI---------LVILDDIWTNLDLENVGIPFGVRGCRVLMTA 282
           ES S R             I         L+ILDD+W +  L+          C++L+T 
Sbjct: 210 ESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAFD-----SQCQILLTT 264
Query: 283 RSQDVLSSKMDCQNNFLIGV---LNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGL 339
           R + V  S M     +++ V   L + +  ++    V   ++  DL   A +I+K C+G 
Sbjct: 265 RDKSVTDSVMG--PKYVVPVESSLGKEKGLEILSLFVN--MKKADLPEQAHSIIKECKGS 320
Query: 340 PIAIVTIARALRNKNTFEWKSALREL 365
           P+ +  I   LR+     W+  L++L
Sbjct: 321 PLVVSLIGALLRDFPN-RWEYYLKQL 345

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	512
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-41
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	4e-40
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	2e-30
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	9e-18
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	6e-04
2ayu_A	417	Nucleosome assembly protein; histone chaperone; 3.	6e-04

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score =  156 bits (395), Expect = 7e-41
 Identities = 83/547 (15%), Positives = 168/547 (30%), Gaps = 141/547 (25%)

Query: 16  LVHPIIHPFAYCYNYKSNLEKLKN-----EVQKLRGAKESVQQK---IDDAKRSGEDIEQ 67
           ++      F   ++ K   +  K+     E+  +  +K++V              E++ Q
Sbjct: 21  ILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQ 80

Query: 68  R-VE-------NWLITADEILDAAARIIEGTEDTTNRLCPNLNTRYQVSKKAAREVKAAA 119
           + VE        +L          + I            P++ TR  + ++         
Sbjct: 81  KFVEEVLRINYKFL---------MSPIKTEQRQ------PSMMTRMYIEQR--------- 116

Query: 120 ELLQQEGR-FDKVSYRTVPEDVWLTSIKGYEAFESRMSTLNDVINALKNPDVHM-IGAYG 177
           + L  + + F K     V                 R+     +  AL        +   G
Sbjct: 117 DRLYNDNQVFAK---YNVS----------------RLQPYLKLRQALLELRPAKNVLIDG 157

Query: 178 MAGVGKTMLVKEVARQAKADKLFDEVVY----AEVSQRPDVKKIQGQIADKLGLKFYEES 233
           + G GKT +  +V    K     D  ++       +    V ++  ++  ++   +   S
Sbjct: 158 VLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRS 217

Query: 234 ESGRARKL-CERLKKEKKI----------LVILDDIWTNLDLENVGIPFGVRGCRVLMTA 282
           +     KL    ++ E +           L++L ++            F +  C++L+T 
Sbjct: 218 DHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWN----AFNL-SCKILLTT 272

Query: 283 RSQ---DVLSSKMDCQ--NNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACR 337
           R +   D LS+        +     L   E + L  K +  + +  DL        +   
Sbjct: 273 RFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQ--DLPR------EVLT 324

Query: 338 GLPIAIVTIARALRN-KNTFE-WKSALRE-LTRPSSGSFSGVAAEAYKTSELSYNHLEGA 394
             P  +  IA ++R+   T++ WK    + LT                  E S N LE A
Sbjct: 325 TNPRRLSIIAESIRDGLATWDNWKHVNCDKLTT---------------IIESSLNVLEPA 369

Query: 395 LKTARLRA---------VPNWELDEEYCWAGDLNTTLQHLNEKMAKRRMTEVEYESEMST 445
                            +P   L     W   + + +  +  K+ K  +           
Sbjct: 370 EYRKMFDRLSVFPPSAHIPTILL--SLIWFDVIKSDVMVVVNKLHKYSL----------- 416

Query: 446 SEEIEEEEEEENAERPMILLDTDEDEDEEYGEDDEDEEYSEYDEDEEYGEDDEDEEDDGE 505
              +E++ +E     P I L+     + EY           Y+  + +  D +D      
Sbjct: 417 ---VEKQPKESTISIPSIYLELKVKLENEY--ALHRSIVDHYNIPKTF--DSDDLIPPYL 469

Query: 506 DDDIQSY 512
           D    S+
Sbjct: 470 DQYFYSH 476

>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 =  151 bits (383), Expect = 4e-40
 Identities = 35/261 (13%), Positives = 81/261 (31%), Gaps = 20/261 (7%)

Query: 152 ESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAK--ADKLFDEVVYAEVS 209
           E  +  +   ++ + + D   +  +G AG GK+++  +   ++       +D +V+ + S
Sbjct: 134 EYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDS 193

Query: 210 Q---------RPDVKKIQGQIADKLGLKFYEE-SESGRARKLCERLKKEKKILVILDDIW 259
                       D+  +     D L     E  +     R +C  L      L + DD+ 
Sbjct: 194 GTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVV 253

Query: 260 TNLDLENVGIPFGVRGCRVLMTARSQDVLSSKMDCQNNFLIGVLNESEARDLFKKLVGDK 319
                E           R L+T R  ++ ++         +  L   E  D  +      
Sbjct: 254 Q----EETIRWAQELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPM 309

Query: 320 IENNDLKSLAMNIVKACRGLPIAIVTIARALRNKNTFEWKSALRELTRPSSGSFSGVAAE 379
                 + +    ++   G P  ++   ++   K   +      +L          +   
Sbjct: 310 PVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRGLVGVECITPY 369

Query: 380 AYKTS----ELSYNHLEGALK 396
           +YK+     +     L    +
Sbjct: 370 SYKSLAMALQRCVEVLSDEDR 390

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens} Length = 591

 Score =  124 bits (312), Expect = 2e-30
 Identities = 73/391 (18%), Positives = 135/391 (34%), Gaps = 40/391 (10%)

Query: 35  EKLKNEVQKLRGAKES---VQQKIDDAKRSG---EDIEQRVENWLITADEILDAAARIIE 88
            K +N + + R A E        +D     G      E++V N              I++
Sbjct: 3   AKARNCLLQHREALEKDIKTSYIMDHMISDGFLTISEEEKVRNEPTQQQRAAMLIKMILK 62

Query: 89  GTEDTTNRLCPNLNTRYQVSKKAAREVKAAAELLQQEGRFDKVSYRTVPEDVWLTSIKGY 148
              D+      N          AA        +    G+       +    V      G 
Sbjct: 63  KDNDSYVSFY-NALLHEGYKDLAALLHDGIPVVSSSSGKDSVSGITSYVRTVLCEG--GV 119

Query: 149 EAFESRMSTLNDVINALKN------PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLF-- 200
                   T   ++NA++        +   +  +GMAG GK++L  E  R     +    
Sbjct: 120 PQRPVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFP 179

Query: 201 DEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRA----RKLCERLK-----KEKKI 251
             V +  V ++     +  ++ +       +ES S R      +  +RL+     K  + 
Sbjct: 180 GGVHWVSVGKQDKSGLLM-KLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRS 238

Query: 252 LVILDDIWTNLDLENVGIPFGVRGCRVLMTARSQDVLSSKM-DCQNNFLIGVLNESEARD 310
           L+ILDD+W +  L+          C++L+T R + V  S M       +   L + +  +
Sbjct: 239 LLILDDVWDSWVLKAFD-----SQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLE 293

Query: 311 LFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARALRNKNTFEWKSALRELTRPSS 370
           +    V    +  DL   A +I+K C+G P+ +  I   LR+     W+  L++L     
Sbjct: 294 ILSLFVNM--KKADLPEQAHSIIKECKGSPLVVSLIGALLRDFPN-RWEYYLKQLQNKQF 350

Query: 371 GSFSGVAAEAY----KTSELSYNHLEGALKT 397
                 ++  Y    +   +S   L   +K 
Sbjct: 351 KRIRKSSSYDYEALDEAMSISVEMLREDIKD 381

>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 = 86.0 bits (213), Expect = 9e-18
 Identities = 57/264 (21%), Positives = 104/264 (39%), Gaps = 25/264 (9%)

Query: 151 FESRMSTLNDVINALKNPDVH--MIGAYGMAGVGKTMLVKEVARQAKA-DKLFDEVVY-- 205
           F +R   ++ +   L   +     +  YGMAG GK++L  E  R     +  F   V+  
Sbjct: 126 FVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWV 185

Query: 206 --AEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLK-----KEKKILVILDDI 258
              +  +   + K+Q         + + +       +  +RL+     K  + L+ILDD+
Sbjct: 186 SIGKQDKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDV 245

Query: 259 WTNLDLENVGIPFGVRGCRVLMTARSQDVLSSKMDCQNNFLI-GVLNESEARDLFKKLVG 317
           W    L+          C++L+T R + V  S M  ++   +   L   +  ++    V 
Sbjct: 246 WDPWVLKAFD-----NQCQILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVN 300

Query: 318 DKIENNDLKSLAMNIVKACRGLPIAIVTIARALRNKNTFEWKSALRELTRPSSGSFSGVA 377
            K E  DL + A +I+K C+G P+ +  I   LR+     W   LR+L           +
Sbjct: 301 MKKE--DLPAEAHSIIKECKGSPLVVSLIGALLRDFPN-RWAYYLRQLQNKQFKRIRKSS 357

Query: 378 AEAY----KTSELSYNHLEGALKT 397
           +  Y    +   +S   L   +K 
Sbjct: 358 SYDYEALDEAMSISVEMLREDIKD 381

>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 Length = 389

 Score = 41.3 bits (96), Expect = 6e-04
 Identities = 19/84 (22%), Positives = 32/84 (38%), Gaps = 3/84 (3%)

Query: 176 YGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESES 235
            G  G GKT+ ++++    K        VY       +   I G+IA  L + F     S
Sbjct: 50  LGRPGTGKTVTLRKLWELYKDKTTAR-FVYINGFIYRNFTAIIGEIARSLNIPFPRRGLS 108

Query: 236 GRA--RKLCERLKKEKKILVILDD 257
                  L E L++    + ++ D
Sbjct: 109 RDEFLALLVEHLRERDLYMFLVLD 132

>2ayu_A Nucleosome assembly protein; histone chaperone; 3.00A {Saccharomyces cerevisiae} SCOP: d.305.1.1 PDB: 2z2r_A Length = 417

 Score = 41.1 bits (95), Expect = 6e-04
 Identities = 13/41 (31%), Positives = 24/41 (58%)

Query: 468 DEDEDEEYGEDDEDEEYSEYDEDEEYGEDDEDEEDDGEDDD 508
              E E   +++E +E  + +ED+++G +D+D E   E DD
Sbjct: 363 AALEFEFEEDEEEADEDEDEEEDDDHGLEDDDGESAEEQDD 403

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	512
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	100.0
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	100.0
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	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.	99.64
2fna_A	357	Conserved hypothetical protein; structural genomic	99.57
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.57
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.52
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.48
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.44
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.43
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.42
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	99.39
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.29
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	99.21
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	99.09
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	99.04
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	99.01
2chq_A	319	Replication factor C small subunit; DNA-binding pr	98.99
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	98.89
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	98.87
3pvs_A	447	Replication-associated recombination protein A; ma	98.8
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	98.75
3bos_A	242	Putative DNA replication factor; P-loop containing	98.73
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	98.73
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	98.7
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	98.69
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	98.63
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	98.63
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	98.62
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	98.6
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	98.58
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	98.58
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	98.55
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	98.54
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	98.52
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	98.52
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	98.51
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	98.5
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	98.5
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	98.5
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	98.48
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	98.48
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	98.46
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	98.45
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	98.44
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	98.43
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	98.41
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	98.4
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	98.38
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	98.38
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	98.37
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	98.32
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	98.32
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	98.29
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	98.26
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	98.26
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	98.12
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	98.11
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	98.1
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	98.05
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	98.05
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	98.01
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	97.97
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	97.97
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	97.93
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	97.86
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.84
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	97.78
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	97.77
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	97.67
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	97.67
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	97.65
3co5_A	143	Putative two-component system transcriptional RES	97.64
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.58
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	97.48
3io5_A	333	Recombination and repair protein; storage dimer, i	97.47
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	97.46
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.41
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	97.4
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	97.34
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	97.32
2qgz_A	308	Helicase loader, putative primosome component; str	97.28
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	97.27
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	97.27
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.25
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	97.24
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	97.22
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	97.2
4a74_A	231	DNA repair and recombination protein RADA; hydrola	97.19
2z43_A	324	DNA repair and recombination protein RADA; archaea	97.16
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.15
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	97.12
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	97.07
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	97.02
1xp8_A	366	RECA protein, recombinase A; recombination, radior	97.01
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	96.99
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	96.98
1u94_A	356	RECA protein, recombinase A; homologous recombinat	96.92
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	96.81
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	96.79
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	96.79
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	96.79
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	96.67
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.54
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	96.47
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	96.46
3ice_A	422	Transcription termination factor RHO; transcriptio	96.44
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	96.44
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	96.42
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.33
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	96.33
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	96.32
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.3
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	96.27
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	96.23
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.22
2xxa_A	433	Signal recognition particle protein; protein trans	96.22
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	96.19
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.17
2r44_A	331	Uncharacterized protein; putative ATPase, structur	96.17
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	96.17
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	96.14
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.12
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.11
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	96.1
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.1
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	96.09
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.07
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	96.01
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.0
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	95.99
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	95.99
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	95.98
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	95.95
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	95.94
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	95.93
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	95.93
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	95.92
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	95.9
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	95.9
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	95.9
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	95.89
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	95.88
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	95.87
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	95.87
3fwy_A	314	Light-independent protochlorophyllide reductase I	95.85
2hf9_A	226	Probable hydrogenase nickel incorporation protein	95.83
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	95.8
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	95.77
1via_A	175	Shikimate kinase; structural genomics, transferase	95.76
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	95.75
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	95.75
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	95.74
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	95.74
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	95.73
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	95.73
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	95.73
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	95.71
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	95.7
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	95.7
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	95.69
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	95.69
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	95.69
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	95.68
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	95.67
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	95.67
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	95.66
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	95.64
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	95.61
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	95.6
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	95.6
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	95.59
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	95.59
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	95.57
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	95.57
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	95.56
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	95.56
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	95.54
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	95.54
1tue_A	212	Replication protein E1; helicase, replication, E1E	95.53
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	95.51
2vli_A	183	Antibiotic resistance protein; transferase, tunica	95.51
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	95.5
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	95.49
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	95.49
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	95.49
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	95.49
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	95.46
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	95.46
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	95.46
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	95.43
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	95.43
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	95.41
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	95.39
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	95.36
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	95.35
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	95.35
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	95.33
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	95.32
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	95.31
2r6a_A	454	DNAB helicase, replicative helicase; replication,	95.31
3l0o_A	427	Transcription termination factor RHO; helicase, RH	95.3
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	95.29
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	95.28
3end_A	307	Light-independent protochlorophyllide reductase ir	95.27
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	95.25
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	95.24
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	95.22
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	95.21
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	95.2
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	95.2
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	95.18
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	95.18
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	95.16
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	95.14
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	95.13
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	95.12
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	95.1
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	95.08
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	95.08
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	95.06
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	95.05
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	95.04
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	95.03
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	95.02
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	95.01
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	94.99
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	94.98
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	94.96
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	94.91
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	94.89
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	94.89
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	94.88
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	94.86
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	94.86
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	94.85
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	94.84
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	94.78
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	94.77
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	94.77
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	94.77
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	94.75
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	94.71
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	94.71
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	94.71
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	94.71
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	94.69
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	94.68
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	94.67
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	94.65
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	94.65
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	94.64
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	94.62
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	94.62
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	94.61
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	94.61
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	94.61
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	94.55
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	94.54
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	94.51
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	94.51
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	94.47
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	94.37
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	94.34
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	94.33
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	94.3
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	94.29
3vr4_A	600	V-type sodium ATPase catalytic subunit A; V-ATPase	94.28
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	94.28
3mfy_A	588	V-type ATP synthase alpha chain; A-type ATP syntha	94.28
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	94.24
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	94.24
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	94.24
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	94.22
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	94.2
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	94.16
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	94.15
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	94.12
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	94.11
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	94.07
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	94.04
2og2_A	359	Putative signal recognition particle receptor; nuc	94.04
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	94.03
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	93.97
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	93.92
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	93.9
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	93.89
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	93.88
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	93.88
2eyu_A	261	Twitching motility protein PILT; pilus retraction	93.88
2wji_A	165	Ferrous iron transport protein B homolog; membrane	93.82
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	93.82
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	93.8
2ged_A	193	SR-beta, signal recognition particle receptor beta	93.79
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	93.75
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	93.73
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	93.73
1b0u_A	262	Histidine permease; ABC transporter, transport pro	93.71
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	93.71
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	93.7
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	93.69
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	93.68
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	93.66
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	93.66
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	93.65
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	93.62
1ji0_A	240	ABC transporter; ATP binding protein, structural g	93.62
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	93.61
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	93.6
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	93.57
1g6h_A	257	High-affinity branched-chain amino acid transport	93.57
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	93.55
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	93.55
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	93.51
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	93.51
1sgw_A	214	Putative ABC transporter; structural genomics, P p	93.5
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	93.49
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	93.45
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	93.45
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	93.41
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	93.4
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	93.39
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	93.38
2ghi_A	260	Transport protein; multidrug resistance protein, M	93.36
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	93.33
2woo_A	329	ATPase GET3; tail-anchored, membrane protein, targ	93.3
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	93.29
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	93.28
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	93.27
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	93.22
1nrj_B	218	SR-beta, signal recognition particle receptor beta	93.2
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	93.18
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	93.18
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	93.16
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	93.16
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	93.15
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	93.13
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	93.13
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	93.12
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	93.11
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	93.08
3cwq_A	209	Para family chromosome partitioning protein; alpha	93.06
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	93.06
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	93.04
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	93.03
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	93.01
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	92.99
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	92.98
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	92.97
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	92.96
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	92.94
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	92.92
3zq6_A	324	Putative arsenical pump-driving ATPase; tail-ancho	92.89
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	92.89
2woj_A	354	ATPase GET3; tail-anchored, membrane protein, targ	92.89
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	92.87
3kta_A	182	Chromosome segregation protein SMC; structural mai	92.86
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	92.85
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	92.81
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	92.8
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	92.8
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	92.75
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	92.75
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	92.74
3ug7_A	349	Arsenical pump-driving ATPase; tail-anchored, memb	92.73
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	92.73
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	92.73
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	92.7
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	92.69
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	92.69
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	92.69
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	92.68
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	92.68
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	92.68
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	92.68
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	92.65
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	92.64
3gqb_A	578	V-type ATP synthase alpha chain; A3B3, V-ATPase, A	92.62
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	92.61
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	92.61
2ewv_A	372	Twitching motility protein PILT; pilus retraction	92.59
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	92.58
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	92.58
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	92.56
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	92.56
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	92.56
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	92.55
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	92.55
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	92.53
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	92.52
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	92.51
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	92.5
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	92.47
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	92.47
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	92.46
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	92.45
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	92.43
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	92.42
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	92.42
1p9r_A	418	General secretion pathway protein E; bacterial typ	92.4
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	92.39
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	92.39
1ihu_A	589	Arsenical pump-driving ATPase; aluminum fluoride,	92.38
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	92.38
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	92.36
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	92.36
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	92.34
4fp9_B	335	Mterf domain-containing protein 2; modification en	92.32
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	92.3
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	92.3
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	92.3
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	92.29
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	92.28
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	92.28
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	92.27
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	92.26
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	92.23
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	92.23
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	92.22
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	92.2
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	92.2
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	92.19
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	92.19
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	92.18
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	92.15
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	92.12
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	92.11
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	92.1
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	92.1
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	92.09
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	92.06
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	92.05
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	92.05
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	92.05
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	92.0
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	92.0
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	91.98
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	91.97
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	91.97
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	91.96
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	91.95
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	91.94
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	91.94
2fh5_B	214	SR-beta, signal recognition particle receptor beta	91.91
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	91.9
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	91.88
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	91.88
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	91.88
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	91.86
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	91.86
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	91.85
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	91.84
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	91.8
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	91.79
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	91.76
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	91.73
3igf_A	374	ALL4481 protein; two-domained protein consisting o	91.67
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	91.64
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	91.63
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	91.6
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	91.59
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	91.59
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	91.56
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	91.52
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	91.42
3ch4_B	202	Pmkase, phosphomevalonate kinase; parallel beta-sh	91.42
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	91.41
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	91.41
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	91.4
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	91.39
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	91.31
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	91.31
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	91.28
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	91.27
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	91.27
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	91.21
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	91.2
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	91.18
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	91.18
3ez2_A	398	Plasmid partition protein A; type IA, DNA binding,	91.15
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	91.15
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	91.12
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	91.11
3bfv_A	271	CAPA1, CAPB2, membrane protein CAPA1, protein tyro	91.09
3hdt_A	223	Putative kinase; structura genomics, PSI-2, protei	91.08
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	91.08
3llu_A	196	RAS-related GTP-binding protein C; structural geno	91.07
1wcv_1	257	SOJ, segregation protein; ATPase, bacterial, chrom	91.07
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	91.07
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	91.05
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	91.05
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	91.04
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	91.04
3k9g_A	267	PF-32 protein; ssgcid, SBRI, decode biostructures,	91.0
3cio_A	299	ETK, tyrosine-protein kinase ETK; WZC, escherichia	91.0
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	90.97
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	90.96
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	90.95
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	90.92

>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=1.6e-40  Score=351.30  Aligned_cols=285  Identities=15%  Similarity=0.152  Sum_probs=216.5

Q ss_pred             ccchHHHHHHHHHhcCC---CceEEEEEcCCCCcHHHHHHHHHH--hhhhcCCCCeEEEEEeCCCC--CHHHHHHHHHHH
Q 010355          152 ESRMSTLNDVINALKNP---DVHMIGAYGMAGVGKTMLVKEVAR--QAKADKLFDEVVYAEVSQRP--DVKKIQGQIADK  224 (512)
Q Consensus       152 ~gR~~~l~~l~~~L~~~---~~~vi~I~G~gGiGKTtLa~~v~~--~~~~~~~f~~~~wv~~~~~~--~~~~ll~~i~~~  224 (512)
                      +||+.++++|.++|...   ..++|+|+||||+||||||+++|+  +.+.+.+|++++||++++.+  ++..++..|+.+
T Consensus       131 ~GR~~~~~~l~~~L~~~~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~~~il~~  210 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLM  210 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhcccCCCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEEEEEECCCCCCCHHHHHHHHHHH
Confidence            39999999999999733   679999999999999999999998  45666889999999999885  789999999999


Q ss_pred             hCCCCC---C-----CCchHHHHHHHHHHhCCCeEEEEEeCCCChhhhhhhCCCCCCCCeEEEEEeCCcchhccccCCcc
Q 010355          225 LGLKFY---E-----ESESGRARKLCERLKKEKKILVILDDIWTNLDLENVGIPFGVRGCRVLMTARSQDVLSSKMDCQN  296 (512)
Q Consensus       225 l~~~~~---~-----~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~~~~l~~~~~~~gs~iivTtR~~~v~~~~~~~~~  296 (512)
                      ++....   .     .+.......+.+.|..+|||||||||||+..++ .+.   ..+||+||||||+..++........
T Consensus       211 l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~~~-~~~---~~~gs~ilvTTR~~~v~~~~~~~~~  286 (549)
T 2a5y_B          211 LKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETI-RWA---QELRLRCLVTTRDVEISNAASQTCE  286 (549)
T ss_dssp             HTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHH-HHH---HHTTCEEEEEESBGGGGGGCCSCEE
T ss_pred             HhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCchhh-ccc---ccCCCEEEEEcCCHHHHHHcCCCCe
Confidence            986522   1     112234567777776434999999999998765 221   1279999999999988753222446


Q ss_pred             ceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHHHHhccCCHHHHHHHHHH-hcCCCCCCCCc
Q 010355          297 NFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARALRNKNTFEWKSALRE-LTRPSSGSFSG  375 (512)
Q Consensus       297 ~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~~L~~~~~~~w~~~l~~-l~~~~~~~~~~  375 (512)
                      .|+|++|+.++||+||.+.++.....+.+.+++.+|+++|+|+||||+++|+.|+.++. .|...+.. +....      
T Consensus       287 ~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~I~~~c~GlPLAl~~~g~~l~~~~w-~~~~~l~~~l~~~~------  359 (549)
T 2a5y_B          287 FIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTF-EKMAQLNNKLESRG------  359 (549)
T ss_dssp             EEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSSH-HHHHHHHHHHHHHC------
T ss_pred             EEECCCCCHHHHHHHHHHHhcCCCCchhHHHHHHHHHHHhCCChHHHHHHHHHhccchH-HHHHHhHHHhhccc------
Confidence            79999999999999999998765445778889999999999999999999999987642 33333332 21101      


Q ss_pred             chHHHHhHHHHHHhccchhhhhcc------------c-cccc-ccchhhhHhhcc--ccccccchhHHHHHhhhhhhhhh
Q 010355          376 VAAEAYKTSELSYNHLEGALKTAR------------L-RAVP-NWELDEEYCWAG--DLNTTLQHLNEKMAKRRMTEVEY  439 (512)
Q Consensus       376 ~~~~~~~~l~~sy~~L~~~~k~cf------------l-~~fp-~~~i~~~~~~~~--g~~~~~~~l~e~~~~~~~~~~~~  439 (512)
                       ...+..+|.+||+.||+++|.||            . ++|| ++.|+...|+++  ||+....                
T Consensus       360 -~~~i~~~l~~Sy~~L~~~lk~~f~~Ls~~er~l~~~ls~fp~~~~i~i~~w~a~~~G~i~~~~----------------  422 (549)
T 2a5y_B          360 -LVGVECITPYSYKSLAMALQRCVEVLSDEDRSALAFAVVMPPGVDIPVKLWSCVIPVDICSNE----------------  422 (549)
T ss_dssp             -SSTTCCCSSSSSSSHHHHHHHHHHTSCHHHHHHTTGGGSSCTTCCEEHHHHHHHSCC----------------------
T ss_pred             -HHHHHHHHhcccccccHHHHHHHhccchhhhhHhhheeeeCCCCeeeeeeeeeeccceeccCC----------------
Confidence             23468889999999999999997            5 8887 999999999999  8865421                


Q ss_pred             hhhcCCCcccccchhhhccCCcCCCCCC
Q 010355          440 ESEMSTSEEIEEEEEEENAERPMILLDT  467 (512)
Q Consensus       440 ~~~~~~~~e~~e~~~~e~~~~~~~~~~~  467 (512)
                        ...+.+++++ ++.++.++++.+...
T Consensus       423 --~~~~~~~~~~-~l~~L~~rsLl~~~~  447 (549)
T 2a5y_B          423 --EEQLDDEVAD-RLKRLSKRGALLSGK  447 (549)
T ss_dssp             ---CCCTHHHHH-HHHHTTTBSSCSEEE
T ss_pred             --CCCCHHHHHH-HHHHHHHcCCeeEec
Confidence              1234455666 899999999888643

>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=5.8e-33  Score=321.76  Aligned_cols=284  Identities=20%  Similarity=0.258  Sum_probs=216.7

Q ss_pred             ccccCccccccchHHHHHHHHHhc--CCCceEEEEEcCCCCcHHHHHHHHHHhhhh-cC-CCCeEEEEEeCCCCC--HHH
Q 010355          143 TSIKGYEAFESRMSTLNDVINALK--NPDVHMIGAYGMAGVGKTMLVKEVARQAKA-DK-LFDEVVYAEVSQRPD--VKK  216 (512)
Q Consensus       143 ~~~~~~~~~~gR~~~l~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~-~~-~f~~~~wv~~~~~~~--~~~  216 (512)
                      ..|+.+..|+||+.++++|.++|.  ....++|+|+||||+||||||+++|++.+. .. +|+.++|+++++...  ...
T Consensus       118 ~~p~~~~~~vgR~~~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~  197 (1249)
T 3sfz_A          118 GVPQRPVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLM  197 (1249)
T ss_dssp             TCCCCCSSCCCCHHHHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHHHHH
T ss_pred             CCCCCCceeccHHHHHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchHHHH
Confidence            345667789999999999999995  456899999999999999999999987543 23 457889999988543  444


Q ss_pred             HHHHHHHHhCCCCCC-----CCchHHHHHHHHHHhC-CCeEEEEEeCCCChhhhhhhCCCCCCCCeEEEEEeCCcchhcc
Q 010355          217 IQGQIADKLGLKFYE-----ESESGRARKLCERLKK-EKKILVILDDIWTNLDLENVGIPFGVRGCRVLMTARSQDVLSS  290 (512)
Q Consensus       217 ll~~i~~~l~~~~~~-----~~~~~~~~~l~~~l~~-~k~~LlVlDdv~~~~~~~~l~~~~~~~gs~iivTtR~~~v~~~  290 (512)
                      .+..++..++.....     .........+...+.. ++|+||||||||+...|..+     ++||+||||||+..++..
T Consensus       198 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~~~~~~~-----~~~~~ilvTtR~~~~~~~  272 (1249)
T 3sfz_A          198 KLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAF-----DNQCQILLTTRDKSVTDS  272 (1249)
T ss_dssp             HHHHHHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCHHHHTTT-----CSSCEEEEEESSTTTTTT
T ss_pred             HHHHHHHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCHHHHHhh-----cCCCEEEEEcCCHHHHHh
Confidence            566677777643221     2223344455555542 24999999999999888776     468999999999988744


Q ss_pred             ccCCccceecCC-CCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHHHHhccCCHHHHHHHHHHhcCCC
Q 010355          291 KMDCQNNFLIGV-LNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARALRNKNTFEWKSALRELTRPS  369 (512)
Q Consensus       291 ~~~~~~~~~l~~-L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~~L~~~~~~~w~~~l~~l~~~~  369 (512)
                      .......+.+.+ |+.++|++||...++...  +.+.+.+.+|+++|+|+||||+++|++|+.++ ..|..++..+....
T Consensus       273 ~~~~~~~~~~~~~l~~~~a~~l~~~~~~~~~--~~~~~~~~~i~~~~~glPLal~~~~~~l~~~~-~~~~~~l~~l~~~~  349 (1249)
T 3sfz_A          273 VMGPKHVVPVESGLGREKGLEILSLFVNMKK--EDLPAEAHSIIKECKGSPLVVSLIGALLRDFP-NRWAYYLRQLQNKQ  349 (1249)
T ss_dssp             CCSCBCCEECCSSCCHHHHHHHHHHHHTSCS--TTCCTHHHHHHHHTTTCHHHHHHHHHHHHHSS-SCHHHHHHHHHSCC
T ss_pred             hcCCceEEEecCCCCHHHHHHHHHHhhCCCh--hhCcHHHHHHHHHhCCCHHHHHHHHHHhhcCh-hHHHHHHHHHhhhh
Confidence            456667899996 999999999999886332  33446789999999999999999999999775 46999998886554


Q ss_pred             CCCC----CcchHHHHhHHHHHHhccchhhhhccc--cccc-ccchhh----hHhhccccccccchhHHHHHhhhhh
Q 010355          370 SGSF----SGVAAEAYKTSELSYNHLEGALKTARL--RAVP-NWELDE----EYCWAGDLNTTLQHLNEKMAKRRMT  435 (512)
Q Consensus       370 ~~~~----~~~~~~~~~~l~~sy~~L~~~~k~cfl--~~fp-~~~i~~----~~~~~~g~~~~~~~l~e~~~~~~~~  435 (512)
                      ...+    ......+..+|.+||+.||+++|.||+  ++|| ++.|++    ..|.+.+ ......+.++..+.++.
T Consensus       350 ~~~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~~~~l~~f~~~~~i~~~~~~~~~~~~~-~~~~~~l~~L~~~sl~~  425 (1249)
T 3sfz_A          350 FKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLWDLET-EEVEDILQEFVNKSLLF  425 (1249)
T ss_dssp             CCCSSCTTCTTHHHHHHHHHHHHHTSCTTTHHHHHHGGGSCTTCCEEHHHHHHHHTCCH-HHHHHHHHHHHHTTSCE
T ss_pred             hhhcccccccchHHHHHHHHHHHHhCCHHHHHHHHHhCccCCCCeeCHHHHHHHhCCCH-HHHHHHHHHHHhccceE
Confidence            3322    122467999999999999999999999  6687 889997    5554433 34556777777777664

>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=9.8e-34  Score=304.80  Aligned_cols=257  Identities=17%  Similarity=0.170  Sum_probs=196.5

Q ss_pred             cccchHHHHHHHHHhcC-CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCe-EEEEEeCCCCCHHHHHHHHHHHhCCC
Q 010355          151 FESRMSTLNDVINALKN-PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDE-VVYAEVSQRPDVKKIQGQIADKLGLK  228 (512)
Q Consensus       151 ~~gR~~~l~~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~-~~wv~~~~~~~~~~ll~~i~~~l~~~  228 (512)
                      .+||+.++++|.++|.. ...++|+|+||||+||||||+++|++.+.+.+|+. ++|+++++.++...++..|+..++..
T Consensus       130 ~VGRe~eLeeL~elL~~~d~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~~d~~~IL~~Ll~lL~~i  209 (1221)
T 1vt4_I          130 NVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQI  209 (1221)
T ss_dssp             CCCCHHHHHHHHHHHHHCCSSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCSSSHHHHHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHhccCCCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHhhc
Confidence            48999999999999874 55799999999999999999999987666677875 99999999999888888887754321


Q ss_pred             ---CCCC-----Cc----hHHHHHHHHHHh--CCCeEEEEEeCCCChhhhhhhCCCCCCCCeEEEEEeCCcchhccccCC
Q 010355          229 ---FYEE-----SE----SGRARKLCERLK--KEKKILVILDDIWTNLDLENVGIPFGVRGCRVLMTARSQDVLSSKMDC  294 (512)
Q Consensus       229 ---~~~~-----~~----~~~~~~l~~~l~--~~k~~LlVlDdv~~~~~~~~l~~~~~~~gs~iivTtR~~~v~~~~~~~  294 (512)
                         ....     ..    ......+...|.  .++|+||||||||+...|..+.     +||+||||||+..++.. +..
T Consensus       210 ~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd~eqLe~f~-----pGSRILVTTRd~~Va~~-l~g  283 (1221)
T 1vt4_I          210 DPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFN-----LSCKILLTTRFKQVTDF-LSA  283 (1221)
T ss_dssp             CSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCCHHHHHHHH-----SSCCEEEECSCSHHHHH-HHH
T ss_pred             CcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcChHHHHHhhC-----CCeEEEEeccChHHHHh-cCC
Confidence               1100     11    122334444441  4689999999999988888762     68999999999987632 222


Q ss_pred             ccceecC------CCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHHHHhccC--CHHHHHHHHHHhc
Q 010355          295 QNNFLIG------VLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARALRNK--NTFEWKSALRELT  366 (512)
Q Consensus       295 ~~~~~l~------~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~~L~~~--~~~~w~~~l~~l~  366 (512)
                      ...+.|+      +|+.++|++||.+.++..  ..   ++..+   .|+|+||||.++|+.|+.+  +...|...     
T Consensus       284 ~~vy~LeL~d~dL~LS~eEA~eLF~~~~g~~--~e---eL~~e---ICgGLPLALkLaGs~Lr~k~~s~eeW~~~-----  350 (1221)
T 1vt4_I          284 ATTTHISLDHHSMTLTPDEVKSLLLKYLDCR--PQ---DLPRE---VLTTNPRRLSIIAESIRDGLATWDNWKHV-----  350 (1221)
T ss_dssp             HSSCEEEECSSSSCCCHHHHHHHHHHHHCCC--TT---THHHH---HCCCCHHHHHHHHHHHHHSCSSHHHHHHC-----
T ss_pred             CeEEEecCccccCCcCHHHHHHHHHHHcCCC--HH---HHHHH---HhCCCHHHHHHHHHHHhCCCCCHHHHhcC-----
Confidence            3356666      999999999999986533  11   23333   3999999999999999977  77888652     


Q ss_pred             CCCCCCCCcchHHHHhHHHHHHhccchhh-hhccc--cccc-ccchhh----hHhhccccccccchhHHHHHhhhhh
Q 010355          367 RPSSGSFSGVAAEAYKTSELSYNHLEGAL-KTARL--RAVP-NWELDE----EYCWAGDLNTTLQHLNEKMAKRRMT  435 (512)
Q Consensus       367 ~~~~~~~~~~~~~~~~~l~~sy~~L~~~~-k~cfl--~~fp-~~~i~~----~~~~~~g~~~~~~~l~e~~~~~~~~  435 (512)
                           .    ...+..+|.+||+.||++. |.||+  |+|| ++.|+.    ..|.+.|.......+.++..+++..
T Consensus       351 -----~----~~~I~aaLelSYd~Lp~eelK~cFL~LAIFPed~~I~~elLa~LW~aeGeedAe~~L~eLvdRSLLq  418 (1221)
T 1vt4_I          351 -----N----CDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVE  418 (1221)
T ss_dssp             -----S----CHHHHHHHHHHHHHSCTTHHHHHHHHTTSSCTTSCEEHHHHHHHHCSSCSHHHHHHHHHHHTSSSSS
T ss_pred             -----C----hhHHHHHHHHHHHhCCHHHHHHHHHHHhCCCCCCCCCHHHHHHHhcCCCHHHHHHHHHHHHhhCCEE
Confidence                 1    3679999999999999999 99999  7787 888886    6788776444556677777666554

>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=8.3e-32  Score=288.15  Aligned_cols=279  Identities=20%  Similarity=0.301  Sum_probs=203.2

Q ss_pred             ccCccccccchHHHHHHHHHhc--CCCceEEEEEcCCCCcHHHHHHHHHHhhhh-cCCC-CeEEEEEeCCCCCHHHHHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALK--NPDVHMIGAYGMAGVGKTMLVKEVARQAKA-DKLF-DEVVYAEVSQRPDVKKIQGQ  220 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~-~~~f-~~~~wv~~~~~~~~~~ll~~  220 (512)
                      |+.+..|+||+.+++.|..+|.  .++.++|+|+|+||+||||||.++++.... ..+| ++++|++++.. +...++..
T Consensus       120 P~~~~~~vGR~~~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~-~~~~~~~~  198 (591)
T 1z6t_A          120 PQRPVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQ-DKSGLLMK  198 (591)
T ss_dssp             CCCCSSCCCCHHHHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESC-CHHHHHHH
T ss_pred             CCCCCeecccHHHHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCC-chHHHHHH
Confidence            4556789999999999999997  356789999999999999999999987643 4568 58999999875 33344444


Q ss_pred             H---HHHhCCCC-----CCCCchHHHHHHHHHHhC-CCeEEEEEeCCCChhhhhhhCCCCCCCCeEEEEEeCCcchhccc
Q 010355          221 I---ADKLGLKF-----YEESESGRARKLCERLKK-EKKILVILDDIWTNLDLENVGIPFGVRGCRVLMTARSQDVLSSK  291 (512)
Q Consensus       221 i---~~~l~~~~-----~~~~~~~~~~~l~~~l~~-~k~~LlVlDdv~~~~~~~~l~~~~~~~gs~iivTtR~~~v~~~~  291 (512)
                      +   +..++...     ...........+...+.. .+++||||||+|+...+..+     ++|++||||||...++...
T Consensus       199 l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~~~l~~l-----~~~~~ilvTsR~~~~~~~~  273 (591)
T 1z6t_A          199 LQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAF-----DSQCQILLTTRDKSVTDSV  273 (591)
T ss_dssp             HHHHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCHHHHHTT-----CSSCEEEEEESCGGGGTTC
T ss_pred             HHHHHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCHHHHHHh-----cCCCeEEEECCCcHHHHhc
Confidence            3   44555211     112223445556666653 37899999999998777654     4689999999999875432


Q ss_pred             cCCccceec---CCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHHHHhccCCHHHHHHHHHHhcCC
Q 010355          292 MDCQNNFLI---GVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARALRNKNTFEWKSALRELTRP  368 (512)
Q Consensus       292 ~~~~~~~~l---~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~~L~~~~~~~w~~~l~~l~~~  368 (512)
                      .+  ..+.+   .+|+.+++++||...++...  ....+.+.+|+++|+|+||||.++|++|+.+. ..|..++..+...
T Consensus       274 ~~--~~~~v~~l~~L~~~ea~~L~~~~~~~~~--~~~~~~~~~i~~~~~G~PLal~~~a~~l~~~~-~~w~~~l~~l~~~  348 (591)
T 1z6t_A          274 MG--PKYVVPVESSLGKEKGLEILSLFVNMKK--ADLPEQAHSIIKECKGSPLVVSLIGALLRDFP-NRWEYYLKQLQNK  348 (591)
T ss_dssp             CS--CEEEEECCSSCCHHHHHHHHHHHHTSCG--GGSCTHHHHHHHHHTTCHHHHHHHHHHHHHST-TCHHHHHHHHHSC
T ss_pred             CC--CceEeecCCCCCHHHHHHHHHHHhCCCc--ccccHHHHHHHHHhCCCcHHHHHHHHHHhcCc-hhHHHHHHHHHHh
Confidence            22  23343   58999999999999987421  22235788999999999999999999998763 3698888888654


Q ss_pred             CCCCC----CcchHHHHhHHHHHHhccchhhhhccc--cccc-ccchhh----hHhhccccccccchhHHHHHhhhhh
Q 010355          369 SSGSF----SGVAAEAYKTSELSYNHLEGALKTARL--RAVP-NWELDE----EYCWAGDLNTTLQHLNEKMAKRRMT  435 (512)
Q Consensus       369 ~~~~~----~~~~~~~~~~l~~sy~~L~~~~k~cfl--~~fp-~~~i~~----~~~~~~g~~~~~~~l~e~~~~~~~~  435 (512)
                      ....+    ......+..+|.+||+.||++.|.||+  ++|| ++.|+.    ..|.. ........+.++..+.++.
T Consensus       349 ~~~~~~~~~~~~~~~l~~~l~~s~~~L~~~~~~~l~~la~f~~~~~i~~~~l~~l~~~-~~~~~~~~l~~L~~~~Ll~  425 (591)
T 1z6t_A          349 QFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCILWDM-ETEEVEDILQEFVNKSLLF  425 (591)
T ss_dssp             CCCCSSCCCSSCCHHHHHHHHHHHHTSCTTTHHHHHHGGGCCTTCCEEHHHHHHHHTC-CHHHHHHHHHHHHHTTSSE
T ss_pred             HHHHhhhccccchHHHHHHHHHHHHhCCHHHHHHHHHccccCCCCccCHHHHHHHhcc-CHHHHHHHHHHHHhCcCeE
Confidence            32221    222468999999999999999999999  7777 888886    33433 3223455677777666543

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.64  E-value=2.4e-15  Score=149.40  Aligned_cols=198  Identities=12%  Similarity=0.124  Sum_probs=129.9

Q ss_pred             cccCccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCC------CHHHH
Q 010355          144 SIKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRP------DVKKI  217 (512)
Q Consensus       144 ~~~~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~------~~~~l  217 (512)
                      ++..+..|+||+.+++.|..++..+  +++.|+|++|+|||||++++++...       ++|+++....      +...+
T Consensus         7 ~~~~~~~~~gR~~el~~L~~~l~~~--~~v~i~G~~G~GKT~Ll~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~   77 (350)
T 2qen_A            7 PKTRREDIFDREEESRKLEESLENY--PLTLLLGIRRVGKSSLLRAFLNERP-------GILIDCRELYAERGHITREEL   77 (350)
T ss_dssp             CCCSGGGSCSCHHHHHHHHHHHHHC--SEEEEECCTTSSHHHHHHHHHHHSS-------EEEEEHHHHHHTTTCBCHHHH
T ss_pred             CCCChHhcCChHHHHHHHHHHHhcC--CeEEEECCCcCCHHHHHHHHHHHcC-------cEEEEeecccccccCCCHHHH
Confidence            3455678999999999999988754  7999999999999999999987641       6788765432      56677


Q ss_pred             HHHHHHHhCC-----------------CCC--CCCchHHHHHHHHHHhCCCeEEEEEeCCCChhh---------hhhhCC
Q 010355          218 QGQIADKLGL-----------------KFY--EESESGRARKLCERLKKEKKILVILDDIWTNLD---------LENVGI  269 (512)
Q Consensus       218 l~~i~~~l~~-----------------~~~--~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~---------~~~l~~  269 (512)
                      +..+...+..                 ...  ..........+.......++++|||||++....         +..+..
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            7777665542                 000  011122233333333222389999999975432         222211


Q ss_pred             CCC-CCCeEEEEEeCCcchhcc----------ccCC-ccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcC
Q 010355          270 PFG-VRGCRVLMTARSQDVLSS----------KMDC-QNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACR  337 (512)
Q Consensus       270 ~~~-~~gs~iivTtR~~~v~~~----------~~~~-~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~  337 (512)
                      ... .++.++|+|++.......          ..+. ...+.+.||+.+++.+++...+....... -.+.+..|+..|+
T Consensus       158 ~~~~~~~~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~~~~~~~~~-~~~~~~~i~~~tg  236 (350)
T 2qen_A          158 AYDSLPNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFLKRGFREVNLDV-PENEIEEAVELLD  236 (350)
T ss_dssp             HHHHCTTEEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHHHHHHHHHHHHTTTCCC-CHHHHHHHHHHHT
T ss_pred             HHHhcCCeEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHhC
Confidence            111 257889999887532110          1111 24789999999999999987653221111 1356789999999


Q ss_pred             CChhHHHHHHHHhc
Q 010355          338 GLPIAIVTIARALR  351 (512)
Q Consensus       338 GlPLai~~ia~~L~  351 (512)
                      |+|+++..++..+.
T Consensus       237 G~P~~l~~~~~~~~  250 (350)
T 2qen_A          237 GIPGWLVVFGVEYL  250 (350)
T ss_dssp             TCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHh
Confidence            99999999987653

>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=99.57  E-value=2.3e-14  Score=142.61  Aligned_cols=194  Identities=11%  Similarity=0.217  Sum_probs=124.7

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCC-----CCHHHHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQR-----PDVKKIQG  219 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-----~~~~~ll~  219 (512)
                      +..+..|+||+.+++.|.. +..   +++.|+|++|+|||+|++++++....     ..+|+++...     .+...++.
T Consensus         9 ~~~~~~~~gR~~el~~L~~-l~~---~~v~i~G~~G~GKT~L~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~   79 (357)
T 2fna_A            9 KDNRKDFFDREKEIEKLKG-LRA---PITLVLGLRRTGKSSIIKIGINELNL-----PYIYLDLRKFEERNYISYKDFLL   79 (357)
T ss_dssp             CCSGGGSCCCHHHHHHHHH-TCS---SEEEEEESTTSSHHHHHHHHHHHHTC-----CEEEEEGGGGTTCSCCCHHHHHH
T ss_pred             CCCHHHhcChHHHHHHHHH-hcC---CcEEEECCCCCCHHHHHHHHHHhcCC-----CEEEEEchhhccccCCCHHHHHH
Confidence            3456679999999999999 765   69999999999999999999987641     2578887642     34455555


Q ss_pred             HHHHHhC------------------CCCCCCC--------chHHHHHHHHHHhC-C-CeEEEEEeCCCChh-----hh-h
Q 010355          220 QIADKLG------------------LKFYEES--------ESGRARKLCERLKK-E-KKILVILDDIWTNL-----DL-E  265 (512)
Q Consensus       220 ~i~~~l~------------------~~~~~~~--------~~~~~~~l~~~l~~-~-k~~LlVlDdv~~~~-----~~-~  265 (512)
                      .+...+.                  .+.+...        .......+...+.. . ++++|||||++...     .+ .
T Consensus        80 ~l~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~vlvlDe~~~~~~~~~~~~~~  159 (357)
T 2fna_A           80 ELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVKLRGVNLLP  159 (357)
T ss_dssp             HHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGGCTTCCCHH
T ss_pred             HHHHHHHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcCCCCeEEEEECHHHhhccCchhHHH
Confidence            5544331                  0000000        01123344444432 1 48999999996532     11 1


Q ss_pred             hhCCCCC-CCCeEEEEEeCCcchhcc----------ccCC-ccceecCCCCHHHHHHHHHHHhCC-CCCCchhHHHHHHH
Q 010355          266 NVGIPFG-VRGCRVLMTARSQDVLSS----------KMDC-QNNFLIGVLNESEARDLFKKLVGD-KIENNDLKSLAMNI  332 (512)
Q Consensus       266 ~l~~~~~-~~gs~iivTtR~~~v~~~----------~~~~-~~~~~l~~L~~~ea~~Lf~~~~~~-~~~~~~~~~~~~~I  332 (512)
                      .+..... .++.++|+|++.......          ..+. ...+.+.||+.+++.+++...+.. ......    ...|
T Consensus       160 ~l~~~~~~~~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~l~~~~~~~~~~~~~----~~~i  235 (357)
T 2fna_A          160 ALAYAYDNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFKD----YEVV  235 (357)
T ss_dssp             HHHHHHHHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCCCC----HHHH
T ss_pred             HHHHHHHcCCCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHHHHHHHHHcCCCCCc----HHHH
Confidence            1111111 247889999997642110          1112 257899999999999999876531 111121    1789


Q ss_pred             HHHcCCChhHHHHHHHHhc
Q 010355          333 VKACRGLPIAIVTIARALR  351 (512)
Q Consensus       333 ~~~~~GlPLai~~ia~~L~  351 (512)
                      +..|+|+|+++..++..+.
T Consensus       236 ~~~t~G~P~~l~~~~~~~~  254 (357)
T 2fna_A          236 YEKIGGIPGWLTYFGFIYL  254 (357)
T ss_dssp             HHHHCSCHHHHHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHc
Confidence            9999999999999988765

>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=99.57  E-value=6.7e-14  Score=142.33  Aligned_cols=237  Identities=14%  Similarity=0.092  Sum_probs=148.9

Q ss_pred             cccccchHHHHHHHHHh-c----C--CCceEEEE--EcCCCCcHHHHHHHHHHhhhhc---CCC-CeEEEEEeCCCCCHH
Q 010355          149 EAFESRMSTLNDVINAL-K----N--PDVHMIGA--YGMAGVGKTMLVKEVARQAKAD---KLF-DEVVYAEVSQRPDVK  215 (512)
Q Consensus       149 ~~~~gR~~~l~~l~~~L-~----~--~~~~vi~I--~G~gGiGKTtLa~~v~~~~~~~---~~f-~~~~wv~~~~~~~~~  215 (512)
                      ..|+||+.+++.|..++ .    .  ...+.+.|  +|++|+|||||++.+++.....   ..| ..++|+++....+..
T Consensus        22 ~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  101 (412)
T 1w5s_A           22 PELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLY  101 (412)
T ss_dssp             SSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHH
T ss_pred             CCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCCCCHH
Confidence            67999999999999888 4    2  34567778  9999999999999999876532   112 246788877777899


Q ss_pred             HHHHHHHHHhCCCCCC--CCchHHHHHHHHHHh-CCCeEEEEEeCCCChh--------hhhhh-CCC--CC--C--CCeE
Q 010355          216 KIQGQIADKLGLKFYE--ESESGRARKLCERLK-KEKKILVILDDIWTNL--------DLENV-GIP--FG--V--RGCR  277 (512)
Q Consensus       216 ~ll~~i~~~l~~~~~~--~~~~~~~~~l~~~l~-~~k~~LlVlDdv~~~~--------~~~~l-~~~--~~--~--~gs~  277 (512)
                      .++..++..++...+.  .+.......+...+. .+++++|||||++...        .+..+ ...  ..  +  .+..
T Consensus       102 ~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~~~v~  181 (412)
T 1w5s_A          102 TILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRIG  181 (412)
T ss_dssp             HHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCBEE
T ss_pred             HHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhcccCCCCceEE
Confidence            9999999999875432  222334455555554 3579999999997532        22221 111  11  2  4456


Q ss_pred             EEEEeCCcchhcc-------c-cCCccceecCCCCHHHHHHHHHHHhC---CCCCCchhHHHHHHHHHHcC------CCh
Q 010355          278 VLMTARSQDVLSS-------K-MDCQNNFLIGVLNESEARDLFKKLVG---DKIENNDLKSLAMNIVKACR------GLP  340 (512)
Q Consensus       278 iivTtR~~~v~~~-------~-~~~~~~~~l~~L~~~ea~~Lf~~~~~---~~~~~~~~~~~~~~I~~~~~------GlP  340 (512)
                      ||+||+...+...       . ......+.+.||+.++++++|...+.   ....  -..+....|++.|+      |+|
T Consensus       182 lI~~~~~~~~~~~l~~~~~~~~~~~~~~i~l~~l~~~e~~~ll~~~~~~~~~~~~--~~~~~~~~i~~~~~~~~~~~G~p  259 (412)
T 1w5s_A          182 FLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTV--WEPRHLELISDVYGEDKGGDGSA  259 (412)
T ss_dssp             EEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCTTS--CCHHHHHHHHHHHCGGGTSCCCH
T ss_pred             EEEEeccccHHHHHhhhcchhhhhcCCeeeeCCCCHHHHHHHHHHHHHhcCCCCC--CChHHHHHHHHHHHHhccCCCcH
Confidence            8888875542100       0 01112399999999999999976642   2111  11356788999999      999


Q ss_pred             hHHHHHHHHhc------cC---CHHHHHHHHHHhcCCCCCCCCcchHHHHhHHHHHHhccchhhhhccc
Q 010355          341 IAIVTIARALR------NK---NTFEWKSALRELTRPSSGSFSGVAAEAYKTSELSYNHLEGALKTARL  400 (512)
Q Consensus       341 Lai~~ia~~L~------~~---~~~~w~~~l~~l~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~k~cfl  400 (512)
                      ..+..+.....      +.   +...+..++.....             ...+.-++..||.+.+.++.
T Consensus       260 ~~~~~l~~~a~~~a~~~~~~~i~~~~v~~~~~~~~~-------------~~~~~~~l~~l~~~~~~~l~  315 (412)
T 1w5s_A          260 RRAIVALKMACEMAEAMGRDSLSEDLVRKAVSENEA-------------ASIQTHELEALSIHELIILR  315 (412)
T ss_dssp             HHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHC-------------------CCSSSSSCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhc-------------cchHHHHHHcCCHHHHHHHH
Confidence            76665544321      11   33444444433210             11233355678888887776

>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=99.52  E-value=4.8e-13  Score=134.68  Aligned_cols=232  Identities=15%  Similarity=0.112  Sum_probs=152.4

Q ss_pred             cccccchHHHHHHHHHhc----CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcC-----C-CCeEEEEEeCCCC-CHHHH
Q 010355          149 EAFESRMSTLNDVINALK----NPDVHMIGAYGMAGVGKTMLVKEVARQAKADK-----L-FDEVVYAEVSQRP-DVKKI  217 (512)
Q Consensus       149 ~~~~gR~~~l~~l~~~L~----~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~-----~-f~~~~wv~~~~~~-~~~~l  217 (512)
                      ..|+||+.+++.|..++.    ....+.+.|+|++|+|||+||+.+++......     . ...++|+++.... +...+
T Consensus        20 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~   99 (384)
T 2qby_B           20 KEIPFREDILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQAV   99 (384)
T ss_dssp             SSCTTCHHHHHHHHHHHHHHHTTCCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHHHHCSCHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECccCCCCHHHH
Confidence            679999999999887665    44467899999999999999999998764321     1 3457788877766 88889


Q ss_pred             HHHHHHHh-CCCCCC--CCchHHHHHHHHHHhCCCeEEEEEeCCCChhh-------hhhhCCCCCCCCeEEEEEeCCcch
Q 010355          218 QGQIADKL-GLKFYE--ESESGRARKLCERLKKEKKILVILDDIWTNLD-------LENVGIPFGVRGCRVLMTARSQDV  287 (512)
Q Consensus       218 l~~i~~~l-~~~~~~--~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~-------~~~l~~~~~~~gs~iivTtR~~~v  287 (512)
                      +..++..+ +.....  .........+...+... +.+||||+++....       +..+...  ..+..||+||+....
T Consensus       100 ~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~-~~vlilDEi~~l~~~~~~~~~l~~l~~~--~~~~~iI~~t~~~~~  176 (384)
T 2qby_B          100 LSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNI-RAIIYLDEVDTLVKRRGGDIVLYQLLRS--DANISVIMISNDINV  176 (384)
T ss_dssp             HHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSS-CEEEEEETTHHHHHSTTSHHHHHHHHTS--SSCEEEEEECSSTTT
T ss_pred             HHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccC-CCEEEEECHHHhccCCCCceeHHHHhcC--CcceEEEEEECCCch
Confidence            99988887 332221  22344566667777653 44999999975421       2222111  167889999887532


Q ss_pred             h----cccc-CCccceecCCCCHHHHHHHHHHHhC---C-CCCCchhHHHHHHHHHHcC---CChh-HHHHHHHHh--c-
Q 010355          288 L----SSKM-DCQNNFLIGVLNESEARDLFKKLVG---D-KIENNDLKSLAMNIVKACR---GLPI-AIVTIARAL--R-  351 (512)
Q Consensus       288 ~----~~~~-~~~~~~~l~~L~~~ea~~Lf~~~~~---~-~~~~~~~~~~~~~I~~~~~---GlPL-ai~~ia~~L--~-  351 (512)
                      .    .... .....+.++|++.++...+|...+.   . ...++   +....|++.|+   |.|. ++.++-...  . 
T Consensus       177 ~~~l~~~l~sr~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~---~~~~~i~~~~~~~~G~~r~a~~~l~~a~~~a~  253 (384)
T 2qby_B          177 RDYMEPRVLSSLGPSVIFKPYDAEQLKFILSKYAEYGLIKGTYDD---EILSYIAAISAKEHGDARKAVNLLFRAAQLAS  253 (384)
T ss_dssp             TTTSCHHHHHTCCCEEEECCCCHHHHHHHHHHHHHHTSCTTSCCS---HHHHHHHHHHHTTCCCHHHHHHHHHHHHHHTT
T ss_pred             HhhhCHHHHhcCCCeEEECCCCHHHHHHHHHHHHHhhcccCCcCH---HHHHHHHHHHHhccCCHHHHHHHHHHHHHHhc
Confidence            1    1000 1123899999999999999998753   1 22222   45677888888   9887 443433332  1 


Q ss_pred             ---cCCHHHHHHHHHHhcCCCCCCCCcchHHHHhHHHHHHhccchhhhhccc
Q 010355          352 ---NKNTFEWKSALRELTRPSSGSFSGVAAEAYKTSELSYNHLEGALKTARL  400 (512)
Q Consensus       352 ---~~~~~~w~~~l~~l~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~k~cfl  400 (512)
                         ..+.+.+..++....              ...+..++..|+.+.+..+.
T Consensus       254 ~~~~i~~~~v~~~~~~~~--------------~~~~~~~~~~l~~~~~~~l~  291 (384)
T 2qby_B          254 GGGIIRKEHVDKAIVDYE--------------QERLIEAVKALPFHYKLALR  291 (384)
T ss_dssp             SSSCCCHHHHHHHHHHHH--------------HHHHHHHHHSSCHHHHHHHH
T ss_pred             CCCccCHHHHHHHHHHHh--------------cchHHHHHHcCCHHHHHHHH
Confidence               126677776666532              23455667788877776555

>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=99.48  E-value=5.7e-13  Score=133.97  Aligned_cols=239  Identities=15%  Similarity=0.103  Sum_probs=150.4

Q ss_pred             ccccccchHHHHHHHHHhc----CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCC-CCeEEEEEeCCCCCHHHHHHHHH
Q 010355          148 YEAFESRMSTLNDVINALK----NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKL-FDEVVYAEVSQRPDVKKIQGQIA  222 (512)
Q Consensus       148 ~~~~~gR~~~l~~l~~~L~----~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~-f~~~~wv~~~~~~~~~~ll~~i~  222 (512)
                      +..|+||+.+++.|..++.    ....+.+.|+|++|+|||||++.+++....... -..++|+++....+...++..++
T Consensus        19 p~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~i~   98 (386)
T 2qby_A           19 PDELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLADLL   98 (386)
T ss_dssp             CSCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHHCSHHHHHHHHT
T ss_pred             CCCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCCCCHHHHHHHHH
Confidence            3679999999999999887    445678999999999999999999987753211 23567888777778888888888


Q ss_pred             HHhCCCCCCC--CchHHHHHHHHHHhC-CCeEEEEEeCCCChh------hhhhhCCCC---CCCCeEEEEEeCCcchhcc
Q 010355          223 DKLGLKFYEE--SESGRARKLCERLKK-EKKILVILDDIWTNL------DLENVGIPF---GVRGCRVLMTARSQDVLSS  290 (512)
Q Consensus       223 ~~l~~~~~~~--~~~~~~~~l~~~l~~-~k~~LlVlDdv~~~~------~~~~l~~~~---~~~gs~iivTtR~~~v~~~  290 (512)
                      ..++......  +.......+...+.. +++.+||||+++...      .+..+....   ...+..+|+||+.......
T Consensus        99 ~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~~~~~I~~~~~~~~~~~  178 (386)
T 2qby_A           99 ESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITNDVKFVDL  178 (386)
T ss_dssp             TTTSCCCCSSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC--EEEEEEESCGGGGGG
T ss_pred             HHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcCCCeEEEEEEECCCChHhh
Confidence            8887653322  233345556666653 458999999996532      122221001   2345677888886543211


Q ss_pred             c----cC--CccceecCCCCHHHHHHHHHHHhCC-CCCCchhHHHHHHHHHHcC---CChhHHHHHHHHhc------c--
Q 010355          291 K----MD--CQNNFLIGVLNESEARDLFKKLVGD-KIENNDLKSLAMNIVKACR---GLPIAIVTIARALR------N--  352 (512)
Q Consensus       291 ~----~~--~~~~~~l~~L~~~ea~~Lf~~~~~~-~~~~~~~~~~~~~I~~~~~---GlPLai~~ia~~L~------~--  352 (512)
                      .    ..  ....+.++|++.++..++|...+.. .....-...+...|++.++   |.|..+..+.....      +  
T Consensus       179 ~~~~~~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G~~r~~~~ll~~a~~~a~~~~~~  258 (386)
T 2qby_A          179 LDPRVKSSLSEEEIIFPPYNAEELEDILTKRAQMAFKPGVLPDNVIKLCAALAAREHGDARRALDLLRVSGEIAERMKDT  258 (386)
T ss_dssp             CTTHHHHTTTTEEEEECCCCHHHHHHHHHHHHHHHBCSSCSCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCS
T ss_pred             hCHHHhccCCCeeEEeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhcCCC
Confidence            0    01  1147999999999999999986531 0011112345677778887   99985444333221      1  


Q ss_pred             C-CHHHHHHHHHHhcCCCCCCCCcchHHHHhHHHHHHhccchhhhhccc
Q 010355          353 K-NTFEWKSALRELTRPSSGSFSGVAAEAYKTSELSYNHLEGALKTARL  400 (512)
Q Consensus       353 ~-~~~~w~~~l~~l~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~k~cfl  400 (512)
                      . +...+..++..+.              ...+.-++..||...+..+.
T Consensus       259 ~i~~~~v~~a~~~~~--------------~~~~~~~~~~l~~~~~~il~  293 (386)
T 2qby_A          259 KVKEEYVYMAKEEIE--------------RDRVRDIILTLPFHSKLVLM  293 (386)
T ss_dssp             SCCHHHHHHHHHHHH--------------HHHHHHHHHTSCHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHh--------------hchHHHHHHcCCHHHHHHHH
Confidence            1 4455555544421              23455566778877765555

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.44  E-value=2.6e-12  Score=129.20  Aligned_cols=235  Identities=16%  Similarity=0.167  Sum_probs=152.0

Q ss_pred             cccccchHHHHHHHHHhc----CCCceEEEEEcCCCCcHHHHHHHHHHhhhhc----CCCCeEEEEEeCCCCCHHHHHHH
Q 010355          149 EAFESRMSTLNDVINALK----NPDVHMIGAYGMAGVGKTMLVKEVARQAKAD----KLFDEVVYAEVSQRPDVKKIQGQ  220 (512)
Q Consensus       149 ~~~~gR~~~l~~l~~~L~----~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~----~~f~~~~wv~~~~~~~~~~ll~~  220 (512)
                      ..|+||+.+++.|..++.    ....+.+.|+|++|+||||||+.+++.....    ..-..++|+++....+...++..
T Consensus        19 ~~~~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~   98 (387)
T 2v1u_A           19 DVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRVASA   98 (387)
T ss_dssp             SCCTTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTSCSHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcCCCHHHHHHH
Confidence            679999999999999884    3456789999999999999999999876432    11234678888888899999999


Q ss_pred             HHHHhCCCCCCC--CchHHHHHHHHHHh-CCCeEEEEEeCCCChhh-------hhhh-CCCC--C-CCCeEEEEEeCCcc
Q 010355          221 IADKLGLKFYEE--SESGRARKLCERLK-KEKKILVILDDIWTNLD-------LENV-GIPF--G-VRGCRVLMTARSQD  286 (512)
Q Consensus       221 i~~~l~~~~~~~--~~~~~~~~l~~~l~-~~k~~LlVlDdv~~~~~-------~~~l-~~~~--~-~~gs~iivTtR~~~  286 (512)
                      ++..++...+..  +.......+...+. .+++++||||+++....       +..+ ..+.  . ..+..+|+||+...
T Consensus        99 l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~~~~~~~I~~t~~~~  178 (387)
T 2v1u_A           99 IAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLVGITNSLG  178 (387)
T ss_dssp             HHHHHSCCCCSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----CEEEEECSCST
T ss_pred             HHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcCCCceEEEEEEECCCc
Confidence            999997654332  23344556666664 35689999999975432       1111 1111  1 34567788877653


Q ss_pred             hh----ccccCCc--cceecCCCCHHHHHHHHHHHhCC----CCCCchhHHHHHHHHHHcC---CChhHHH-HHHHHhc-
Q 010355          287 VL----SSKMDCQ--NNFLIGVLNESEARDLFKKLVGD----KIENNDLKSLAMNIVKACR---GLPIAIV-TIARALR-  351 (512)
Q Consensus       287 v~----~~~~~~~--~~~~l~~L~~~ea~~Lf~~~~~~----~~~~~~~~~~~~~I~~~~~---GlPLai~-~ia~~L~-  351 (512)
                      ..    .......  ..+.++|++.++...++...+..    ....+   +....|++.++   |.|..+. ++..... 
T Consensus       179 ~~~~l~~~l~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~G~~r~~~~~l~~a~~~  255 (387)
T 2v1u_A          179 FVENLEPRVKSSLGEVELVFPPYTAPQLRDILETRAEEAFNPGVLDP---DVVPLCAALAAREHGDARRALDLLRVAGEI  255 (387)
T ss_dssp             TSSSSCHHHHTTTTSEECCBCCCCHHHHHHHHHHHHHHHBCTTTBCS---SHHHHHHHHHHSSSCCHHHHHHHHHHHHHH
T ss_pred             hHhhhCHHHHhcCCCeEEeeCCCCHHHHHHHHHHHHHhhccCCCCCH---HHHHHHHHHHHHhccCHHHHHHHHHHHHHH
Confidence            21    0111111  47899999999999999887531    12222   35677888888   9994333 3322221 


Q ss_pred             ----c--C-CHHHHHHHHHHhcCCCCCCCCcchHHHHhHHHHHHhccchhhhhccc
Q 010355          352 ----N--K-NTFEWKSALRELTRPSSGSFSGVAAEAYKTSELSYNHLEGALKTARL  400 (512)
Q Consensus       352 ----~--~-~~~~w~~~l~~l~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~k~cfl  400 (512)
                          +  . +...+..++..+.              ...+.-++..||.+.+..++
T Consensus       256 a~~~~~~~i~~~~v~~a~~~~~--------------~~~~~~~~~~l~~~~~~~l~  297 (387)
T 2v1u_A          256 AERRREERVRREHVYSARAEIE--------------RDRVSEVVRTLPLHAKLVLL  297 (387)
T ss_dssp             HHHTTCSCBCHHHHHHHHHHHH--------------HHHHHHHHHSSCHHHHHHHH
T ss_pred             HHHcCCCCcCHHHHHHHHHHHh--------------hchHHHHHHcCCHHHHHHHH
Confidence                1  1 5566666665531              22355667888888876655

>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=99.43  E-value=3.3e-12  Score=119.48  Aligned_cols=199  Identities=11%  Similarity=0.129  Sum_probs=117.1

Q ss_pred             ccCccccccchHHHHHHHHHhcCCC-ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPD-VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIAD  223 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~  223 (512)
                      |.....|+||...++.|..++.... .+.+.|+|++|+||||||+.+++.......+..      ........ ...+..
T Consensus        19 p~~~~~~~g~~~~~~~l~~~l~~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~------~~~~~~~~-~~~~~~   91 (250)
T 1njg_A           19 PQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITA------TPCGVCDN-CREIEQ   91 (250)
T ss_dssp             CCSGGGCCSCHHHHHHHHHHHHHTCCCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCS------SCCSCSHH-HHHHHT
T ss_pred             CccHHHHhCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCC------CCCcccHH-HHHHhc
Confidence            3445679999999999999887443 458999999999999999999987653211100      00000000 000100


Q ss_pred             HhC-----CCCCCCCchHHHHHHHHHHh----CCCeEEEEEeCCCCh--hhhhhhCCC--CCCCCeEEEEEeCCcchh-c
Q 010355          224 KLG-----LKFYEESESGRARKLCERLK----KEKKILVILDDIWTN--LDLENVGIP--FGVRGCRVLMTARSQDVL-S  289 (512)
Q Consensus       224 ~l~-----~~~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~--~~~~gs~iivTtR~~~v~-~  289 (512)
                      ...     ..............+...+.    .+++.+||||+++..  ..+..+...  ....++.+|+||+..... .
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~t~~~~~~~~  171 (250)
T 1njg_A           92 GRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPV  171 (250)
T ss_dssp             TCCSSEEEEETTCGGGHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSCH
T ss_pred             cCCcceEEecCcccccHHHHHHHHHHhhhchhcCCceEEEEECcccccHHHHHHHHHHHhcCCCceEEEEEeCChHhCCH
Confidence            000     00000011111222222221    246799999999642  333333111  114578888888765432 1


Q ss_pred             cccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHHHHhc
Q 010355          290 SKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARALR  351 (512)
Q Consensus       290 ~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~~L~  351 (512)
                      ........+.+.+++.++..+++...+...... --.+....|++.|+|+|..+..+...+.
T Consensus       172 ~l~~r~~~i~l~~l~~~e~~~~l~~~~~~~~~~-~~~~~~~~l~~~~~G~~~~~~~~~~~~~  232 (250)
T 1njg_A          172 TILSRCLQFHLKALDVEQIRHQLEHILNEEHIA-HEPRALQLLARAAEGSLRDALSLTDQAI  232 (250)
T ss_dssp             HHHTTSEEEECCCCCHHHHHHHHHHHHHHTTCC-BCHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHhhhccCCCCCHHHHHHHHHHHHHhcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            112234689999999999999999877422111 1135678999999999999988776543

>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=99.42  E-value=3e-12  Score=118.05  Aligned_cols=189  Identities=8%  Similarity=0.074  Sum_probs=118.7

Q ss_pred             cCccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHh
Q 010355          146 KGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKL  225 (512)
Q Consensus       146 ~~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l  225 (512)
                      .....|+||...+..|..++.....+.+.|+|++|+|||+||+.+++.......-...+.++.+.......+...+....
T Consensus        14 ~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (226)
T 2chg_A           14 RTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVRHKIKEFA   93 (226)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHTTCCCCEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEETTCTTCHHHHHHHHHHHH
T ss_pred             CCHHHHcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHhccccccceEEeccccccChHHHHHHHHHHh
Confidence            44567899999999999999876666699999999999999999998764322112344455444444333322221111


Q ss_pred             CCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCCh--hhhhhhCCCC--CCCCeEEEEEeCCcchh-ccccCCccceec
Q 010355          226 GLKFYEESESGRARKLCERLKKEKKILVILDDIWTN--LDLENVGIPF--GVRGCRVLMTARSQDVL-SSKMDCQNNFLI  300 (512)
Q Consensus       226 ~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~l~~~~--~~~gs~iivTtR~~~v~-~~~~~~~~~~~l  300 (512)
                      ....               +..+++.+||||+++..  .....+...+  ...++++|+||+..... .........+.+
T Consensus        94 ~~~~---------------~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~l~~r~~~i~~  158 (226)
T 2chg_A           94 RTAP---------------IGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRF  158 (226)
T ss_dssp             TSCC---------------STTCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEEC
T ss_pred             cccC---------------CCccCceEEEEeChhhcCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcCHHHHHhCceeec
Confidence            1100               11246899999999653  2222221111  14567889888765422 111223348899


Q ss_pred             CCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHHHHh
Q 010355          301 GVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARAL  350 (512)
Q Consensus       301 ~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~~L  350 (512)
                      .+++.++...++.+.+...... --.+....|++.++|+|..+..+...+
T Consensus       159 ~~~~~~~~~~~l~~~~~~~~~~-~~~~~~~~l~~~~~g~~r~l~~~l~~~  207 (226)
T 2chg_A          159 KPVPKEAMKKRLLEICEKEGVK-ITEDGLEALIYISGGDFRKAINALQGA  207 (226)
T ss_dssp             CCCCHHHHHHHHHHHHHHHTCC-BCHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            9999999999999876421111 113567789999999999765554443

>3qfl_A MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-binding domain, L rich repeat containing receptors, protein binding; 2.00A {Hordeum vulgare}

Probab=99.39  E-value=5.7e-13  Score=108.83  Aligned_cols=66  Identities=11%  Similarity=0.109  Sum_probs=58.4

Q ss_pred             chHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHcC-CcchHHHHHHHHHHHHHHHHHHHHhccccccc
Q 010355           29 NYKSNLEKLKNEVQKLRGAKESVQQKIDDAKRSG-EDIEQRVENWLITADEILDAAARIIEGTEDTT   94 (512)
Q Consensus        29 ~~~~~~~~l~~~~~~L~~~l~~i~~~l~~a~~~~-~~~~~~~~~wl~~vr~~~~d~ed~ld~~~~~~   94 (512)
                      ..+..+.++++++++|+.+|.+|++||.+++.+. ...++.++.|+.+||+++||+|||||+|.++.
T Consensus        16 ~E~~l~~gv~~~i~~Lk~eL~~m~a~L~da~~~~~~~~d~~vk~W~~~vrdlaYD~ED~iD~f~~~~   82 (115)
T 3qfl_A           16 EEFKLHKGVKKNIEDLGKELESMNAALIKIGEVPREQLDSQDKLWADEVRELSYVIEDVVDKFLVQV   82 (115)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCGGGCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhchHHHHHHHHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3455688999999999999999999999999873 23588999999999999999999999998765

>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=99.29  E-value=1.1e-10  Score=117.49  Aligned_cols=199  Identities=18%  Similarity=0.176  Sum_probs=132.9

Q ss_pred             cccccchHHHHHHHHHhcC----CCce--EEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHH
Q 010355          149 EAFESRMSTLNDVINALKN----PDVH--MIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIA  222 (512)
Q Consensus       149 ~~~~gR~~~l~~l~~~L~~----~~~~--vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~  222 (512)
                      ..|+||+.+++.|..++..    ....  .+.|+|++|+|||||++.+++...... -..++|++++...+...++..++
T Consensus        17 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~-~~~~~~i~~~~~~~~~~~~~~l~   95 (389)
T 1fnn_A           17 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKT-TARFVYINGFIYRNFTAIIGEIA   95 (389)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSC-CCEEEEEETTTCCSHHHHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHHhhhc-CeeEEEEeCccCCCHHHHHHHHH
Confidence            5799999999999888863    3334  899999999999999999998875321 13567888878788899999999


Q ss_pred             HHhCCCCCCC--CchHHHHHHHHHHh-CCCeEEEEEeCCCCh--hhhhhhCCCC---CC---CCeEEEEEeCCcchhccc
Q 010355          223 DKLGLKFYEE--SESGRARKLCERLK-KEKKILVILDDIWTN--LDLENVGIPF---GV---RGCRVLMTARSQDVLSSK  291 (512)
Q Consensus       223 ~~l~~~~~~~--~~~~~~~~l~~~l~-~~k~~LlVlDdv~~~--~~~~~l~~~~---~~---~gs~iivTtR~~~v~~~~  291 (512)
                      ..++......  ........+...+. .+++.+||||+++..  ..+..+....   ..   .+..||+||+........
T Consensus        96 ~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~~~iI~~~~~~~~~~~l  175 (389)
T 1fnn_A           96 RSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNNL  175 (389)
T ss_dssp             HHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHHHTS
T ss_pred             HHhCccCCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECccccchHHHHHHHHHHHhCCCCCcCCEEEEEEECCchHHHHh
Confidence            9987653322  23334445555553 356899999999653  2233321111   12   477888888876332111


Q ss_pred             c----C--CccceecCCCCHHHHHHHHHHHhCC-CCCCchhHHHHHHHHHHc---------CCChhHHHHHHH
Q 010355          292 M----D--CQNNFLIGVLNESEARDLFKKLVGD-KIENNDLKSLAMNIVKAC---------RGLPIAIVTIAR  348 (512)
Q Consensus       292 ~----~--~~~~~~l~~L~~~ea~~Lf~~~~~~-~~~~~~~~~~~~~I~~~~---------~GlPLai~~ia~  348 (512)
                      .    .  ....+.+.|++.++...++...+.. .....--.+....|++.+         +|.|..+..+..
T Consensus       176 ~~~~~~r~~~~~i~~~pl~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~G~~r~~~~~l~  248 (389)
T 1fnn_A          176 DPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRGDARLAIDILY  248 (389)
T ss_dssp             CHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSSTTCTTSCCHHHHHHHHH
T ss_pred             CHHhhhcCCCceEEeCCCCHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHH
Confidence            0    1  1236999999999999999887632 000111235778899999         788765554443

>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=99.21  E-value=7.9e-11  Score=115.31  Aligned_cols=190  Identities=13%  Similarity=0.100  Sum_probs=116.0

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADK  224 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~  224 (512)
                      |.....|+||+..++.|..++..+..+.+.|+|++|+|||++|+.+++..........+++++.+...+...+ +.++..
T Consensus        17 p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i-~~~~~~   95 (323)
T 1sxj_B           17 PQVLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGIDVV-RNQIKH   95 (323)
T ss_dssp             CSSGGGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSHHHH-HTHHHH
T ss_pred             CCCHHHHHCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEecCccccChHHH-HHHHHH
Confidence            3445679999999999999998766656999999999999999999987642211122444444433332222 222221


Q ss_pred             hCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCCh--hhhhhhCCCC--CCCCeEEEEEeCCcchh-ccccCCcccee
Q 010355          225 LGLKFYEESESGRARKLCERLKKEKKILVILDDIWTN--LDLENVGIPF--GVRGCRVLMTARSQDVL-SSKMDCQNNFL  299 (512)
Q Consensus       225 l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~l~~~~--~~~gs~iivTtR~~~v~-~~~~~~~~~~~  299 (512)
                      +.....             .+..+++.+||||+++..  ..+..+...+  +..++++|+||+..... .........+.
T Consensus        96 ~~~~~~-------------~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~~~~~~l~~~l~sr~~~i~  162 (323)
T 1sxj_B           96 FAQKKL-------------HLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILR  162 (323)
T ss_dssp             HHHBCC-------------CCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEE
T ss_pred             HHhccc-------------cCCCCCceEEEEECcccCCHHHHHHHHHHHhccCCCceEEEEeCChhhchhHHHhhceEEe
Confidence            110000             000245899999999753  2222221111  14567888888764321 11123345899


Q ss_pred             cCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhH-HHHHHHH
Q 010355          300 IGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIA-IVTIARA  349 (512)
Q Consensus       300 l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLa-i~~ia~~  349 (512)
                      +.+++.++...++...+...... --.+....|++.|+|.|.. +..+...
T Consensus       163 ~~~~~~~~~~~~l~~~~~~~~~~-~~~~~~~~l~~~~~G~~r~a~~~l~~~  212 (323)
T 1sxj_B          163 YSKLSDEDVLKRLLQIIKLEDVK-YTNDGLEAIIFTAEGDMRQAINNLQST  212 (323)
T ss_dssp             CCCCCHHHHHHHHHHHHHHHTCC-BCHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             ecCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            99999999999998876321111 1135678899999999954 4444433

>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=99.09  E-value=3.2e-10  Score=111.14  Aligned_cols=189  Identities=10%  Similarity=0.072  Sum_probs=115.0

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADK  224 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~  224 (512)
                      |.....++|++..+..|..++..+..+.+.|+|++|+||||+|+.+++.......-...+.+..+....... ++..+..
T Consensus        21 p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~   99 (327)
T 1iqp_A           21 PQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERGINV-IREKVKE   99 (327)
T ss_dssp             CCSTTTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHHHHT-THHHHHH
T ss_pred             CCCHHHhhCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCceEEeeccccCchHH-HHHHHHH
Confidence            344567899999999999998876666699999999999999999998754211111233444332111111 1111100


Q ss_pred             hCCCCCCCCchHHHHHHHHH--HhCCCeEEEEEeCCCCh--hhhhhhCCCC--CCCCeEEEEEeCCcchh-ccccCCccc
Q 010355          225 LGLKFYEESESGRARKLCER--LKKEKKILVILDDIWTN--LDLENVGIPF--GVRGCRVLMTARSQDVL-SSKMDCQNN  297 (512)
Q Consensus       225 l~~~~~~~~~~~~~~~l~~~--l~~~k~~LlVlDdv~~~--~~~~~l~~~~--~~~gs~iivTtR~~~v~-~~~~~~~~~  297 (512)
                                      ....  +..+++.+||+|+++..  .....+...+  ...++++|+||...... .........
T Consensus       100 ----------------~~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~  163 (327)
T 1iqp_A          100 ----------------FARTKPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAI  163 (327)
T ss_dssp             ----------------HHHSCCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEE
T ss_pred             ----------------HHhhCCcCCCCCeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCCccccCHHHHhhCcE
Confidence                            0000  11146789999999753  2233221111  14568888888765421 111122347


Q ss_pred             eecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHHHHhc
Q 010355          298 FLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARALR  351 (512)
Q Consensus       298 ~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~~L~  351 (512)
                      +.+.+++.++...++...+...... --.+....|++.++|.|..+..+...+.
T Consensus       164 ~~~~~l~~~~~~~~l~~~~~~~~~~-~~~~~~~~l~~~~~g~~r~~~~~l~~~~  216 (327)
T 1iqp_A          164 FRFRPLRDEDIAKRLRYIAENEGLE-LTEEGLQAILYIAEGDMRRAINILQAAA  216 (327)
T ss_dssp             EECCCCCHHHHHHHHHHHHHTTTCE-ECHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             EEecCCCHHHHHHHHHHHHHhcCCC-CCHHHHHHHHHHCCCCHHHHHHHHHHHH
Confidence            8999999999999998876432211 1235678899999999997665544443

>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=99.04  E-value=5.3e-09  Score=102.37  Aligned_cols=176  Identities=13%  Similarity=0.094  Sum_probs=109.3

Q ss_pred             cCccccccchHHHHHHHHHhc-----CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHH
Q 010355          146 KGYEAFESRMSTLNDVINALK-----NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQ  220 (512)
Q Consensus       146 ~~~~~~~gR~~~l~~l~~~L~-----~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~  220 (512)
                      .....|+|+...+..+..++.     ....+.+.|+|++|+|||+||+.+++....     ..++++.+.......+.. 
T Consensus         9 ~~~~~~ig~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~i~~~~~~-----~~~~~~~~~~~~~~~l~~-   82 (324)
T 1hqc_A            9 KTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGV-----NLRVTSGPAIEKPGDLAA-   82 (324)
T ss_dssp             CSTTTCCSCHHHHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCHHHHHHHHHHHTC-----CEEEECTTTCCSHHHHHH-
T ss_pred             ccHHHhhCHHHHHHHHHHHHHHHHccCCCCCcEEEECCCCCCHHHHHHHHHHHhCC-----CEEEEeccccCChHHHHH-
Confidence            345679999998888887765     234467899999999999999999987641     234454433323222221 


Q ss_pred             HHHHhCCCCCCCCchHHHHHHHHHHhC--CCeEEEEEeCCCChh--hhhhh-------C--CCC-----------CCCCe
Q 010355          221 IADKLGLKFYEESESGRARKLCERLKK--EKKILVILDDIWTNL--DLENV-------G--IPF-----------GVRGC  276 (512)
Q Consensus       221 i~~~l~~~~~~~~~~~~~~~l~~~l~~--~k~~LlVlDdv~~~~--~~~~l-------~--~~~-----------~~~gs  276 (512)
                                             .+..  .++.+|+||++....  ....+       .  ...           ..++.
T Consensus        83 -----------------------~l~~~~~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~  139 (324)
T 1hqc_A           83 -----------------------ILANSLEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRF  139 (324)
T ss_dssp             -----------------------HHTTTCCTTCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCCC
T ss_pred             -----------------------HHHHhccCCCEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCCCCE
Confidence                                   1111  356788999986532  11111       0  000           01245


Q ss_pred             EEEEEeCCcchh-ccccCCc-cceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHHHHhc
Q 010355          277 RVLMTARSQDVL-SSKMDCQ-NNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARALR  351 (512)
Q Consensus       277 ~iivTtR~~~v~-~~~~~~~-~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~~L~  351 (512)
                      ++|.||...... ....... ..+.+.+++.++...++.+.+...... --.+....|++.|+|+|..+..+...+.
T Consensus       140 ~~i~~t~~~~~~~~~l~~R~~~~i~l~~~~~~e~~~~l~~~~~~~~~~-~~~~~~~~l~~~~~G~~r~l~~~l~~~~  215 (324)
T 1hqc_A          140 TLIGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGVR-ITEEAALEIGRRSRGTMRVAKRLFRRVR  215 (324)
T ss_dssp             EEEEEESCCSSCSCSTTTTCSCEEECCCCCHHHHHHHHHHHHHTTTCC-CCHHHHHHHHHHSCSCHHHHHHHHHHHT
T ss_pred             EEEEeCCCcccCCHHHHhcccEEEecCCCCHHHHHHHHHHHHHhcCCC-CCHHHHHHHHHHccCCHHHHHHHHHHHH
Confidence            677777654322 1112222 578999999999999998877422211 1135678899999999988877666553

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=99.01  E-value=1e-08  Score=98.95  Aligned_cols=168  Identities=7%  Similarity=0.061  Sum_probs=106.8

Q ss_pred             ccccchHHHHHHHHHhc----CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCC---C--CeEEEEEeCCCCCHHHHHHH
Q 010355          150 AFESRMSTLNDVINALK----NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKL---F--DEVVYAEVSQRPDVKKIQGQ  220 (512)
Q Consensus       150 ~~~gR~~~l~~l~~~L~----~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~---f--~~~~wv~~~~~~~~~~ll~~  220 (512)
                      .+.||++++..|...|.    ....+.+.|+|++|+|||++++.+++.......   .  -.++++++....+...++..
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            47899999999887765    567788999999999999999999998754211   1  13567777777888999999


Q ss_pred             HHHHhCCCC-CCCCchHHHHHHHHHH--hCCCeEEEEEeCCCChhh---hhhh-CCC-CCCCCeEEEEEeCCcchhc---
Q 010355          221 IADKLGLKF-YEESESGRARKLCERL--KKEKKILVILDDIWTNLD---LENV-GIP-FGVRGCRVLMTARSQDVLS---  289 (512)
Q Consensus       221 i~~~l~~~~-~~~~~~~~~~~l~~~l--~~~k~~LlVlDdv~~~~~---~~~l-~~~-~~~~gs~iivTtR~~~v~~---  289 (512)
                      |++++.... ........+..++..+  ..+++++|+||.++....   +-.+ ..+ .......||.++.......   
T Consensus       101 I~~~L~g~~~~~~~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~~q~~L~~l~~~~~~~~s~~~vI~i~n~~d~~~~~L  180 (318)
T 3te6_A          101 IWFAISKENLCGDISLEALNFYITNVPKAKKRKTLILIQNPENLLSEKILQYFEKWISSKNSKLSIICVGGHNVTIREQI  180 (318)
T ss_dssp             HHHHHSCCC--CCCCHHHHHHHHHHSCGGGSCEEEEEEECCSSSCCTHHHHHHHHHHHCSSCCEEEEEECCSSCCCHHHH
T ss_pred             HHHHhcCCCCCchHHHHHHHHHHHHhhhccCCceEEEEecHHHhhcchHHHHHHhcccccCCcEEEEEEecCcccchhhc
Confidence            999985432 1122233445555554  235789999999975431   1111 111 1122233444444332211   


Q ss_pred             --ccc--CCccceecCCCCHHHHHHHHHHHhC
Q 010355          290 --SKM--DCQNNFLIGVLNESEARDLFKKLVG  317 (512)
Q Consensus       290 --~~~--~~~~~~~l~~L~~~ea~~Lf~~~~~  317 (512)
                        ...  -....+.+.|++.++-..++.+++.
T Consensus       181 ~~~v~SR~~~~~i~F~pYt~~el~~Il~~Rl~  212 (318)
T 3te6_A          181 NIMPSLKAHFTEIKLNKVDKNELQQMIITRLK  212 (318)
T ss_dssp             HTCHHHHTTEEEEECCCCCHHHHHHHHHHHHH
T ss_pred             chhhhccCCceEEEeCCCCHHHHHHHHHHHHH
Confidence              000  1124689999999999999988763

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=98.99  E-value=3.8e-09  Score=103.02  Aligned_cols=187  Identities=9%  Similarity=0.080  Sum_probs=114.6

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCH---HHHHHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDV---KKIQGQI  221 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~---~~ll~~i  221 (512)
                      |.....++|+...+..|..++..+..+.+.|+|++|+|||++|+.+++.......-...+.++.+.....   ...+..+
T Consensus        13 p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (319)
T 2chq_A           13 PRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVRHKIKEF   92 (319)
T ss_dssp             CSSGGGSCSCHHHHHHHHTTTTTTCCCCEEEESSSSSSHHHHHHHHHHHHHTTCHHHHCEEEETTSTTCTTTSSHHHHHH
T ss_pred             CCCHHHHhCCHHHHHHHHHHHhCCCCCeEEEECcCCcCHHHHHHHHHHHhcCCcccCCeEEEeCccccChHHHHHHHHHH
Confidence            3445678999999999999888766666999999999999999999987532111112233444332111   1111111


Q ss_pred             HHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCCh--hhhhhhCCCCC--CCCeEEEEEeCCcchh-ccccCCcc
Q 010355          222 ADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTN--LDLENVGIPFG--VRGCRVLMTARSQDVL-SSKMDCQN  296 (512)
Q Consensus       222 ~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~l~~~~~--~~gs~iivTtR~~~v~-~~~~~~~~  296 (512)
                      ....                  .+..+++.+||||++...  .....+...+.  ..++++|+||...... ........
T Consensus        93 ~~~~------------------~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~  154 (319)
T 2chq_A           93 ARTA------------------PIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCA  154 (319)
T ss_dssp             HHSC------------------CSSSCCCEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEESCGGGSCHHHHTTCE
T ss_pred             HhcC------------------CCCCCCceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcchHHHhhCe
Confidence            1000                  011246789999999643  22333321111  4567888888665421 11123345


Q ss_pred             ceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHHHHh
Q 010355          297 NFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARAL  350 (512)
Q Consensus       297 ~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~~L  350 (512)
                      .+.+.+++.++...++...+...... --.+....|+..++|.|..+..+...+
T Consensus       155 ~i~~~~~~~~~~~~~l~~~~~~~~~~-i~~~~l~~l~~~~~G~~r~~~~~l~~~  207 (319)
T 2chq_A          155 VFRFKPVPKEAMKKRLLEICEKEGVK-ITEDGLEALIYISGGDFRKAINALQGA  207 (319)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHTTCCC-BCHHHHHHHHHTTTTCHHHHHHHHHHH
T ss_pred             EEEecCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            89999999999999998877432221 113567789999999998765544433

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=98.89  E-value=2e-08  Score=100.30  Aligned_cols=195  Identities=12%  Similarity=0.136  Sum_probs=111.5

Q ss_pred             CccccccchHHHHHHHHHhcCCC-ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHh
Q 010355          147 GYEAFESRMSTLNDVINALKNPD-VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKL  225 (512)
Q Consensus       147 ~~~~~~gR~~~l~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l  225 (512)
                      ....++||+..++.|..++..+. .+.+.|+|++|+||||+|+.+++.......+..       ..+........+....
T Consensus        14 ~~~~~vg~~~~~~~L~~~l~~~~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~-------~~~~~~~~~~~~~~~~   86 (373)
T 1jr3_A           14 TFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITA-------TPCGVCDNCREIEQGR   86 (373)
T ss_dssp             STTTSCSCHHHHHHHHHHHHHTCCCSEEEEESCTTSSHHHHHHHHHHHHSCTTCSCS-------SCCSSSHHHHHHHTSC
T ss_pred             chhhccCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCC-------CCCcccHHHHHHhccC
Confidence            44568999999999999887543 467899999999999999999987643211100       0000000011111000


Q ss_pred             C-----CCCCCCCchHHHHHHHHHHh----CCCeEEEEEeCCCCh--hhhhhhCC--CCCCCCeEEEEEeCCcchh-ccc
Q 010355          226 G-----LKFYEESESGRARKLCERLK----KEKKILVILDDIWTN--LDLENVGI--PFGVRGCRVLMTARSQDVL-SSK  291 (512)
Q Consensus       226 ~-----~~~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~--~~~~~gs~iivTtR~~~v~-~~~  291 (512)
                      .     ..............+...+.    .+++.+||||++...  ..+..+..  .....++.+|++|....-. ...
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l  166 (373)
T 1jr3_A           87 FVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTI  166 (373)
T ss_dssp             CSSCEEEETTCSCCSSCHHHHHHHTTSCCSSSSSEEEEEECGGGSCHHHHHHHHHHHHSCCSSEEEEEEESCGGGSCHHH
T ss_pred             CCceEEecccccCCHHHHHHHHHHHhhccccCCeEEEEEECcchhcHHHHHHHHHHHhcCCCceEEEEEeCChHhCcHHH
Confidence            0     00000001111233333332    246789999999643  22222211  1113467777777654321 112


Q ss_pred             cCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHHHH
Q 010355          292 MDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARA  349 (512)
Q Consensus       292 ~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~~  349 (512)
                      ......+.+.+++.++...++.+.+...... --.+....|++.++|.|..+..+...
T Consensus       167 ~sr~~~i~~~~l~~~~~~~~l~~~~~~~~~~-~~~~a~~~l~~~~~G~~r~~~~~l~~  223 (373)
T 1jr3_A          167 LSRCLQFHLKALDVEQIRHQLEHILNEEHIA-HEPRALQLLARAAEGSLRDALSLTDQ  223 (373)
T ss_dssp             HTTSEEEECCCCCHHHHHHHHHHHHHHHTCC-BCHHHHHHHHHHSSSCHHHHHHHHHH
T ss_pred             HhheeEeeCCCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHCCCCHHHHHHHHHH
Confidence            2334689999999999999998776321111 11346778999999999988766543

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=98.87  E-value=1.8e-09  Score=96.73  Aligned_cols=153  Identities=14%  Similarity=0.194  Sum_probs=87.8

Q ss_pred             CccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcC-----CCCeEEEEEeCCCCCHHHHHHHH
Q 010355          147 GYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADK-----LFDEVVYAEVSQRPDVKKIQGQI  221 (512)
Q Consensus       147 ~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~-----~f~~~~wv~~~~~~~~~~ll~~i  221 (512)
                      ....|+||+..+..+..++.....+.+.|+|++|+|||+||+.+++......     ....+++++++.      +.   
T Consensus        20 ~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~---   90 (195)
T 1jbk_A           20 KLDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGA------LV---   90 (195)
T ss_dssp             CSCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHH------HH---
T ss_pred             cccccccchHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEEeeHHH------Hh---
Confidence            4556899999999999999877677889999999999999999998764311     112344443321      10   


Q ss_pred             HHHhCCCCCCCCchHHHHHHHHHH-hCCCeEEEEEeCCCChh---------h-hhhhCCCCCCCCeEEEEEeCCcchh--
Q 010355          222 ADKLGLKFYEESESGRARKLCERL-KKEKKILVILDDIWTNL---------D-LENVGIPFGVRGCRVLMTARSQDVL--  288 (512)
Q Consensus       222 ~~~l~~~~~~~~~~~~~~~l~~~l-~~~k~~LlVlDdv~~~~---------~-~~~l~~~~~~~gs~iivTtR~~~v~--  288 (512)
                       .  +.. ...........+...+ ..+++.+||||++....         . ...+.......+..+|+||......  
T Consensus        91 -~--~~~-~~~~~~~~~~~~~~~~~~~~~~~vl~iDe~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~i~~~~~~~~~~~  166 (195)
T 1jbk_A           91 -A--GAK-YRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALARGELHCVGATTLDEYRQY  166 (195)
T ss_dssp             -T--TTC-SHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHHTTSCCEEEEECHHHHHHH
T ss_pred             -c--cCC-ccccHHHHHHHHHHHHhhcCCCeEEEEeCHHHHhccCcccchHHHHHHHHHhhccCCeEEEEeCCHHHHHHH
Confidence             0  000 0000111222333333 24568899999996542         1 1111111113345677777654311  


Q ss_pred             ----ccccCCccceecCCCCHHHHHHHH
Q 010355          289 ----SSKMDCQNNFLIGVLNESEARDLF  312 (512)
Q Consensus       289 ----~~~~~~~~~~~l~~L~~~ea~~Lf  312 (512)
                          .........+.+.+++.++..+++
T Consensus       167 ~~~~~~l~~r~~~i~~~~p~~~~~~~il  194 (195)
T 1jbk_A          167 IEKDAALERRFQKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             TTTCHHHHTTEEEEECCCCCHHHHHTTC
T ss_pred             HhcCHHHHHHhceeecCCCCHHHHHHHh
Confidence                111222336888888888776553

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=98.80  E-value=7.1e-08  Score=98.23  Aligned_cols=182  Identities=13%  Similarity=0.154  Sum_probs=107.5

Q ss_pred             ccCccccccchHHH---HHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHH
Q 010355          145 IKGYEAFESRMSTL---NDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQI  221 (512)
Q Consensus       145 ~~~~~~~~gR~~~l---~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i  221 (512)
                      |.....++|....+   ..|...+.....+.+.|+|++|+||||||+.+++....  .|   +.++.. ......+ +.+
T Consensus        22 P~~l~~ivGq~~~~~~~~~L~~~i~~~~~~~vLL~GppGtGKTtlAr~ia~~~~~--~f---~~l~a~-~~~~~~i-r~~   94 (447)
T 3pvs_A           22 PENLAQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTTLAEVIARYANA--DV---ERISAV-TSGVKEI-REA   94 (447)
T ss_dssp             CCSTTTCCSCHHHHSTTSHHHHHHHHTCCCEEEEECSTTSSHHHHHHHHHHHTTC--EE---EEEETT-TCCHHHH-HHH
T ss_pred             CCCHHHhCCcHHHHhchHHHHHHHHcCCCcEEEEECCCCCcHHHHHHHHHHHhCC--Ce---EEEEec-cCCHHHH-HHH
Confidence            34566789998888   67777777777788999999999999999999987642  12   222221 1222222 222


Q ss_pred             HHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh--hhhhhCCCCCCCCeEEEEEe-CCcc--hhccccCCcc
Q 010355          222 ADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL--DLENVGIPFGVRGCRVLMTA-RSQD--VLSSKMDCQN  296 (512)
Q Consensus       222 ~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~--~~~~l~~~~~~~gs~iivTt-R~~~--v~~~~~~~~~  296 (512)
                      +                .........+++.+|+||++....  ....+...+......+|.+| .+..  +.........
T Consensus        95 ~----------------~~a~~~~~~~~~~iLfIDEI~~l~~~~q~~LL~~le~~~v~lI~att~n~~~~l~~aL~sR~~  158 (447)
T 3pvs_A           95 I----------------ERARQNRNAGRRTILFVDEVHRFNKSQQDAFLPHIEDGTITFIGATTENPSFELNSALLSRAR  158 (447)
T ss_dssp             H----------------HHHHHHHHTTCCEEEEEETTTCC------CCHHHHHTTSCEEEEEESSCGGGSSCHHHHTTEE
T ss_pred             H----------------HHHHHhhhcCCCcEEEEeChhhhCHHHHHHHHHHHhcCceEEEecCCCCcccccCHHHhCcee
Confidence            1                111112223578999999997542  22222111112234444444 4432  1111223445


Q ss_pred             ceecCCCCHHHHHHHHHHHhCCC------CCCchhHHHHHHHHHHcCCChhHHHHHHHH
Q 010355          297 NFLIGVLNESEARDLFKKLVGDK------IENNDLKSLAMNIVKACRGLPIAIVTIARA  349 (512)
Q Consensus       297 ~~~l~~L~~~ea~~Lf~~~~~~~------~~~~~~~~~~~~I~~~~~GlPLai~~ia~~  349 (512)
                      ++.+.+++.++...++.+.+...      ....--.+....|++.++|.+-.+..+...
T Consensus       159 v~~l~~l~~edi~~il~~~l~~~~~~~~~~~~~i~~~al~~L~~~~~Gd~R~lln~Le~  217 (447)
T 3pvs_A          159 VYLLKSLSTEDIEQVLTQAMEDKTRGYGGQDIVLPDETRRAIAELVNGDARRALNTLEM  217 (447)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHCTTTSSTTSSEECCHHHHHHHHHHHCSCHHHHHHHHHH
T ss_pred             EEeeCCcCHHHHHHHHHHHHHHHhhhhccccCcCCHHHHHHHHHHCCCCHHHHHHHHHH
Confidence            88899999999999998876421      111112456778888999988766554443

>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=98.75  E-value=6.5e-07  Score=84.49  Aligned_cols=181  Identities=18%  Similarity=0.189  Sum_probs=99.9

Q ss_pred             ccccccchHHHHHHHHHh---cC---------CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHH
Q 010355          148 YEAFESRMSTLNDVINAL---KN---------PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVK  215 (512)
Q Consensus       148 ~~~~~gR~~~l~~l~~~L---~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  215 (512)
                      ...++|.+..++.|.+++   ..         ...+.+.|+|++|+|||+||+.+++....     ..+.++.+.-... 
T Consensus         5 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~~-----~~~~~~~~~~~~~-   78 (262)
T 2qz4_A            5 FKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQV-----PFLAMAGAEFVEV-   78 (262)
T ss_dssp             TTSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHTC-----CEEEEETTTTSSS-
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhCC-----CEEEechHHHHhh-
Confidence            445778877666665443   21         23467889999999999999999987642     2334444332110 


Q ss_pred             HHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh-----------------hhhhh----CCCCCCC
Q 010355          216 KIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL-----------------DLENV----GIPFGVR  274 (512)
Q Consensus       216 ~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~-----------------~~~~l----~~~~~~~  274 (512)
                                    ...........+........+.+|+||++....                 .+..+    .......
T Consensus        79 --------------~~~~~~~~~~~~~~~a~~~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~  144 (262)
T 2qz4_A           79 --------------IGGLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTTD  144 (262)
T ss_dssp             --------------STTHHHHHHHHHHHHHHHTCSEEEEEECC-------------------CHHHHHHHHHHHTCCTTC
T ss_pred             --------------ccChhHHHHHHHHHHHHhcCCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcCCCC
Confidence                          000111223334444444468999999997531                 11111    1111134


Q ss_pred             CeEEEEEeCCcchhc-ccc---CCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChh-HHHHHHH
Q 010355          275 GCRVLMTARSQDVLS-SKM---DCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPI-AIVTIAR  348 (512)
Q Consensus       275 gs~iivTtR~~~v~~-~~~---~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPL-ai~~ia~  348 (512)
                      +..||.||....... ...   .....+.+.+.+.++..+++...+...............|++.+.|.+- .|..+..
T Consensus       145 ~~~vi~~tn~~~~ld~~l~~~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~~~l~~~~~g~~~~~l~~l~~  223 (262)
T 2qz4_A          145 HVIVLASTNRADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLKLTQSSTFYSQRLAELTPGFSGADIANICN  223 (262)
T ss_dssp             CEEEEEEESCGGGGGSGGGSTTSCCEEEECCSCCHHHHHHHHHHHHHHTTCCBTHHHHHHHHHHTCTTCCHHHHHHHHH
T ss_pred             CEEEEecCCChhhcCHHHhcCCcCCeEEEeCCcCHHHHHHHHHHHHHhCCCCcchhhHHHHHHHHCCCCCHHHHHHHHH
Confidence            567777776544221 111   1225678889999999999988774322222222234678888888754 4544443

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=98.73  E-value=1.6e-08  Score=94.23  Aligned_cols=175  Identities=11%  Similarity=0.110  Sum_probs=104.4

Q ss_pred             Cccccccc---hHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHH
Q 010355          147 GYEAFESR---MSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIAD  223 (512)
Q Consensus       147 ~~~~~~gR---~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~  223 (512)
                      ....|+|+   ...+..+..++.....+.+.|+|++|+||||||+.+++.....  ...++|++++.....      +. 
T Consensus        26 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~la~~l~~~~~~~--~~~~~~~~~~~~~~~------~~-   96 (242)
T 3bos_A           26 TFTSYYPAAGNDELIGALKSAASGDGVQAIYLWGPVKSGRTHLIHAACARANEL--ERRSFYIPLGIHASI------ST-   96 (242)
T ss_dssp             STTTSCC--CCHHHHHHHHHHHHTCSCSEEEEECSTTSSHHHHHHHHHHHHHHT--TCCEEEEEGGGGGGS------CG-
T ss_pred             ChhhccCCCCCHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHHc--CCeEEEEEHHHHHHH------HH-
Confidence            34556663   3556666666665567889999999999999999999887643  345667765432110      00 


Q ss_pred             HhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChhh----hhhhCCCC---CCCC-eEEEEEeCCcchh-----cc
Q 010355          224 KLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNLD----LENVGIPF---GVRG-CRVLMTARSQDVL-----SS  290 (512)
Q Consensus       224 ~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~----~~~l~~~~---~~~g-s~iivTtR~~~v~-----~~  290 (512)
                                      .....+  .++.+||||+++....    ...+...+   ...+ .++|+||+...-.     ..
T Consensus        97 ----------------~~~~~~--~~~~vliiDe~~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~~~~~~~~~~~~~~~~  158 (242)
T 3bos_A           97 ----------------ALLEGL--EQFDLICIDDVDAVAGHPLWEEAIFDLYNRVAEQKRGSLIVSASASPMEAGFVLPD  158 (242)
T ss_dssp             ----------------GGGTTG--GGSSEEEEETGGGGTTCHHHHHHHHHHHHHHHHHCSCEEEEEESSCTTTTTCCCHH
T ss_pred             ----------------HHHHhc--cCCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCCeEEEEcCCCHHHHHHhhhh
Confidence                            000111  2467999999864321    11111100   1122 2478887754310     00


Q ss_pred             cc---CCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHHHH
Q 010355          291 KM---DCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARA  349 (512)
Q Consensus       291 ~~---~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~~  349 (512)
                      ..   .....+.+.+++.++..+++.+.+..... .-..+....|++.++|.+..+..+...
T Consensus       159 l~~r~~~~~~i~l~~~~~~~~~~~l~~~~~~~~~-~~~~~~~~~l~~~~~g~~r~l~~~l~~  219 (242)
T 3bos_A          159 LVSRMHWGLTYQLQPMMDDEKLAALQRRAAMRGL-QLPEDVGRFLLNRMARDLRTLFDVLDR  219 (242)
T ss_dssp             HHHHHHHSEEEECCCCCGGGHHHHHHHHHHHTTC-CCCHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             hhhHhhcCceEEeCCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHccCCHHHHHHHHHH
Confidence            11   11267899999999999999987642111 111356778999999998777655443

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=98.73  E-value=2.7e-07  Score=88.35  Aligned_cols=180  Identities=16%  Similarity=0.186  Sum_probs=106.0

Q ss_pred             cCccccccchHHHHHHHHHhcC-------------CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCC
Q 010355          146 KGYEAFESRMSTLNDVINALKN-------------PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRP  212 (512)
Q Consensus       146 ~~~~~~~gR~~~l~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~  212 (512)
                      .....++|.+..++.|...+..             ...+.+.|+|++|+|||+||+.+++....     ..+.+..+.-.
T Consensus        14 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~~-----~~~~v~~~~~~   88 (285)
T 3h4m_A           14 VRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNA-----TFIRVVGSELV   88 (285)
T ss_dssp             CCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTTC-----EEEEEEGGGGC
T ss_pred             CCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhCC-----CEEEEehHHHH
Confidence            3456788999999888877641             34567999999999999999999987642     12333322111


Q ss_pred             CHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh----------------hhhhh----CCCCC
Q 010355          213 DVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL----------------DLENV----GIPFG  272 (512)
Q Consensus       213 ~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~----------------~~~~l----~~~~~  272 (512)
                      .              . ...........+.......++.+|+||++....                .+..+    .....
T Consensus        89 ~--------------~-~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~  153 (285)
T 3h4m_A           89 K--------------K-FIGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDA  153 (285)
T ss_dssp             C--------------C-STTHHHHHHHHHHHHHHHTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTCS
T ss_pred             H--------------h-ccchHHHHHHHHHHHHHHcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCCCC
Confidence            0              0 000111223344444444567999999995431                11111    11112


Q ss_pred             CCCeEEEEEeCCcchhcc-cc---CCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCC-ChhHHHHHH
Q 010355          273 VRGCRVLMTARSQDVLSS-KM---DCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRG-LPIAIVTIA  347 (512)
Q Consensus       273 ~~gs~iivTtR~~~v~~~-~~---~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~G-lPLai~~ia  347 (512)
                      ..+..||.||........ ..   .....+.+.+.+.++..++|...+........  .....|+..+.| .|-.|..+.
T Consensus       154 ~~~~~vI~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~--~~~~~l~~~~~g~~~~~i~~l~  231 (285)
T 3h4m_A          154 RGDVKIIGATNRPDILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKMNLAED--VNLEEIAKMTEGCVGAELKAIC  231 (285)
T ss_dssp             SSSEEEEEECSCGGGBCHHHHSTTSEEEEEECCCCCHHHHHHHHHHHHTTSCBCTT--CCHHHHHHHCTTCCHHHHHHHH
T ss_pred             CCCEEEEEeCCCchhcCHHHcCCCcCCeEEEECCCCHHHHHHHHHHHHhcCCCCCc--CCHHHHHHHcCCCCHHHHHHHH
Confidence            346778888875533210 01   12247899999999999999988753322111  124567788877 454555443

>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=98.70  E-value=9e-08  Score=99.74  Aligned_cols=191  Identities=10%  Similarity=0.074  Sum_probs=108.5

Q ss_pred             ccCccccccchHHHHHHHHHhcC-----------------CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEE
Q 010355          145 IKGYEAFESRMSTLNDVINALKN-----------------PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAE  207 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~-----------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~  207 (512)
                      |.....++|++..++.|..|+..                 ...+.+.|+|++|+|||+||+.+++...    + .++.++
T Consensus        35 P~~~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l~----~-~~i~in  109 (516)
T 1sxj_A           35 PTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELG----Y-DILEQN  109 (516)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTT----C-EEEEEC
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHcC----C-CEEEEe
Confidence            44567799999999999999874                 1347899999999999999999998763    1 244555


Q ss_pred             eCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHH-HhCCCeEEEEEeCCCChhh-----hhhhCCCCCCCCeEEEEE
Q 010355          208 VSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCER-LKKEKKILVILDDIWTNLD-----LENVGIPFGVRGCRVLMT  281 (512)
Q Consensus       208 ~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~-l~~~k~~LlVlDdv~~~~~-----~~~l~~~~~~~gs~iivT  281 (512)
                      ++...... ++...+...........   ........ ...+++.+||||++.....     +..+.......+..||++
T Consensus       110 ~s~~~~~~-~~~~~i~~~~~~~~~~~---~~~~~~~~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~l~~~~~~iIli  185 (516)
T 1sxj_A          110 ASDVRSKT-LLNAGVKNALDNMSVVG---YFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKTSTPLILI  185 (516)
T ss_dssp             TTSCCCHH-HHHHTGGGGTTBCCSTT---TTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHHCSSCEEEE
T ss_pred             CCCcchHH-HHHHHHHHHhccccHHH---HHhhhhhhhhccCCCeEEEEECCCccchhhHHHHHHHHHHHHhcCCCEEEE
Confidence            55444433 33332222111000000   00000000 1235789999999964311     122211111223446665


Q ss_pred             eCCcch--hccccCCccceecCCCCHHHHHHHHHHHhC--CCCCCchhHHHHHHHHHHcCCCh-hHHHHHH
Q 010355          282 ARSQDV--LSSKMDCQNNFLIGVLNESEARDLFKKLVG--DKIENNDLKSLAMNIVKACRGLP-IAIVTIA  347 (512)
Q Consensus       282 tR~~~v--~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~--~~~~~~~~~~~~~~I~~~~~GlP-Lai~~ia  347 (512)
                      +.....  ..........+.+.+++.++...++...+.  .....+   +....|++.++|.+ .++..+.
T Consensus       186 ~~~~~~~~l~~l~~r~~~i~f~~~~~~~~~~~L~~i~~~~~~~i~~---~~l~~la~~s~GdiR~~i~~L~  253 (516)
T 1sxj_A          186 CNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLDP---NVIDRLIQTTRGDIRQVINLLS  253 (516)
T ss_dssp             ESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCCT---THHHHHHHHTTTCHHHHHHHHT
T ss_pred             EcCCCCccchhhHhceEEEEeCCCCHHHHHHHHHHHHHHcCCCCCH---HHHHHHHHHcCCcHHHHHHHHH
Confidence            544321  111223345789999999999999887663  111222   35678899999954 4455443

>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=98.69  E-value=1.2e-07  Score=93.84  Aligned_cols=197  Identities=13%  Similarity=0.123  Sum_probs=112.6

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCC-CeEEEEEeCCCCCHHHHHHHHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLF-DEVVYAEVSQRPDVKKIQGQIAD  223 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f-~~~~wv~~~~~~~~~~ll~~i~~  223 (512)
                      |.....++|++..++.|..++.....+.+.|+|++|+||||||+.+++.......+ ..++.++.+.......+ ...+.
T Consensus        33 p~~~~~i~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~  111 (353)
T 1sxj_D           33 PKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIV-REKVK  111 (353)
T ss_dssp             CSSTTTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHH-TTHHH
T ss_pred             CCCHHHhhCCHHHHHHHHHHHhcCCCCEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEccccccchHHH-HHHHH
Confidence            34456789999999999999987655558999999999999999999875421111 12333444433333222 22211


Q ss_pred             HhC-CCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCCh--hhhhhhCCCC--CCCCeEEEEEeCCcchh-ccccCCccc
Q 010355          224 KLG-LKFYEESESGRARKLCERLKKEKKILVILDDIWTN--LDLENVGIPF--GVRGCRVLMTARSQDVL-SSKMDCQNN  297 (512)
Q Consensus       224 ~l~-~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~l~~~~--~~~gs~iivTtR~~~v~-~~~~~~~~~  297 (512)
                      .+. .........     .......+++-+|++|++...  .....+...+  .....++|++|...... .........
T Consensus       112 ~~~~~~~~~~~~~-----~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~l~sR~~~  186 (353)
T 1sxj_D          112 NFARLTVSKPSKH-----DLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSK  186 (353)
T ss_dssp             HHHHSCCCCCCTT-----HHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSEE
T ss_pred             HHhhhcccccchh-----hcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcCCCceEEEEeCchhhCcchhhccCce
Confidence            110 000000000     000111235679999998643  2222221100  13456777777554321 111122347


Q ss_pred             eecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHHH
Q 010355          298 FLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIAR  348 (512)
Q Consensus       298 ~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~  348 (512)
                      +.+.+++.++...++...+...... --.+....|++.++|.|..+..+..
T Consensus       187 i~~~~~~~~~~~~~l~~~~~~~~~~-i~~~~l~~l~~~~~G~~r~~~~~l~  236 (353)
T 1sxj_D          187 FRFKALDASNAIDRLRFISEQENVK-CDDGVLERILDISAGDLRRGITLLQ  236 (353)
T ss_dssp             EECCCCCHHHHHHHHHHHHHTTTCC-CCHHHHHHHHHHTSSCHHHHHHHHH
T ss_pred             EEeCCCCHHHHHHHHHHHHHHhCCC-CCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            8999999999999998876422111 1135778999999999987554433

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=98.63  E-value=3.5e-06  Score=82.07  Aligned_cols=183  Identities=17%  Similarity=0.176  Sum_probs=106.2

Q ss_pred             cCccccccchHHHHHHHHHhc------------CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCC
Q 010355          146 KGYEAFESRMSTLNDVINALK------------NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPD  213 (512)
Q Consensus       146 ~~~~~~~gR~~~l~~l~~~L~------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  213 (512)
                      .....+.|.+..++.|.+.+.            ....+.|.|+|++|+|||+||+.+++....    ...+.++.+.-.+
T Consensus         9 ~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~----~~~~~i~~~~l~~   84 (322)
T 1xwi_A            9 VKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANN----STFFSISSSDLVS   84 (322)
T ss_dssp             CCGGGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHTTS----CEEEEEECCSSCC
T ss_pred             CCHHHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHcCC----CcEEEEEhHHHHh
Confidence            345567888877777766542            123468999999999999999999987621    1223344332110


Q ss_pred             HHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChhh-----------------hhhhC-CCCCCCC
Q 010355          214 VKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNLD-----------------LENVG-IPFGVRG  275 (512)
Q Consensus       214 ~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~-----------------~~~l~-~~~~~~g  275 (512)
                                    . ...........++......++.+|+||++.....                 +..+. ......+
T Consensus        85 --------------~-~~g~~~~~~~~lf~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~~  149 (322)
T 1xwi_A           85 --------------K-WLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDG  149 (322)
T ss_dssp             --------------S-SCCSCHHHHHHHHHHHHHTSSEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHHHCSSSCCTT
T ss_pred             --------------h-hhhHHHHHHHHHHHHHHhcCCcEEEeecHHHhccccccccchHHHHHHHHHHHHHhcccccCCC
Confidence                          0 0011223344455555445789999999965410                 11111 1111345


Q ss_pred             eEEEEEeCCcchhc-cc-cCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCC-hhHHHHHHH
Q 010355          276 CRVLMTARSQDVLS-SK-MDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGL-PIAIVTIAR  348 (512)
Q Consensus       276 s~iivTtR~~~v~~-~~-~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~Gl-PLai~~ia~  348 (512)
                      ..||.||....... .. ......+.+.+.+.++-..+|..++....... .......|++.+.|. +-.|..+..
T Consensus       150 v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~l-~~~~l~~la~~t~G~sgadl~~l~~  224 (322)
T 1xwi_A          150 ILVLGATNIPWVLDSAIRRRFEKRIYIPLPEPHARAAMFKLHLGTTQNSL-TEADFRELGRKTDGYSGADISIIVR  224 (322)
T ss_dssp             EEEEEEESCTTTSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTCCBCC-CHHHHHHHHHTCTTCCHHHHHHHHH
T ss_pred             EEEEEecCCcccCCHHHHhhcCeEEEeCCcCHHHHHHHHHHHHhcCCCCC-CHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            66666775543221 00 12235678888999999999988875432211 134567888999887 444555544

>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=98.63  E-value=2.9e-07  Score=89.97  Aligned_cols=184  Identities=9%  Similarity=0.070  Sum_probs=105.6

Q ss_pred             ccCccccccchHHHHHHHHHhcCCC-ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPD-VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIAD  223 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~  223 (512)
                      |.....++|+...+..|..++..+. .+++.++|++|+|||++|+.+++...     ..++.++.+.. ... .++.++.
T Consensus        22 P~~~~~ivg~~~~~~~l~~~l~~~~~~~~~L~~G~~G~GKT~la~~la~~l~-----~~~~~i~~~~~-~~~-~i~~~~~   94 (324)
T 3u61_B           22 PSTIDECILPAFDKETFKSITSKGKIPHIILHSPSPGTGKTTVAKALCHDVN-----ADMMFVNGSDC-KID-FVRGPLT   94 (324)
T ss_dssp             CCSTTTSCCCHHHHHHHHHHHHTTCCCSEEEECSSTTSSHHHHHHHHHHHTT-----EEEEEEETTTC-CHH-HHHTHHH
T ss_pred             CCCHHHHhCcHHHHHHHHHHHHcCCCCeEEEeeCcCCCCHHHHHHHHHHHhC-----CCEEEEccccc-CHH-HHHHHHH
Confidence            4456779999999999999998554 36778889999999999999988763     22445554432 222 2222211


Q ss_pred             HhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh---hhhhhCCCCC--CCCeEEEEEeCCcchh-ccccCCccc
Q 010355          224 KLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL---DLENVGIPFG--VRGCRVLMTARSQDVL-SSKMDCQNN  297 (512)
Q Consensus       224 ~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~---~~~~l~~~~~--~~gs~iivTtR~~~v~-~~~~~~~~~  297 (512)
                      .......               ..+++.+||||++....   ....+...+.  ..++++|+||....-. .........
T Consensus        95 ~~~~~~~---------------~~~~~~vliiDEi~~l~~~~~~~~L~~~le~~~~~~~iI~~~n~~~~l~~~l~sR~~~  159 (324)
T 3u61_B           95 NFASAAS---------------FDGRQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQSRCRV  159 (324)
T ss_dssp             HHHHBCC---------------CSSCEEEEEEESCCCGGGHHHHHHHHHHHHHHGGGCEEEEEESSGGGSCTTHHHHSEE
T ss_pred             HHHhhcc---------------cCCCCeEEEEECCcccCcHHHHHHHHHHHHhCCCCcEEEEEeCCccccCHHHHhhCcE
Confidence            1100000               01367899999998654   2222211111  3456788888765421 111122357


Q ss_pred             eecCCCCHHHHHHHHH-------HHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHHHHh
Q 010355          298 FLIGVLNESEARDLFK-------KLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARAL  350 (512)
Q Consensus       298 ~~l~~L~~~ea~~Lf~-------~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~~L  350 (512)
                      +.+.+++.++-..++.       ..+......-.-.+....|++.++|.+..+......+
T Consensus       160 i~~~~~~~~e~~~il~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~gd~R~a~~~L~~~  219 (324)
T 3u61_B          160 ITFGQPTDEDKIEMMKQMIRRLTEICKHEGIAIADMKVVAALVKKNFPDFRKTIGELDSY  219 (324)
T ss_dssp             EECCCCCHHHHHHHHHHHHHHHHHHHHHHTCCBSCHHHHHHHHHHTCSCTTHHHHHHHHH
T ss_pred             EEeCCCCHHHHHHHHHHHHHHHHHHHHHcCCCCCcHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            8999999887443332       2221111111002567788899998877544443333

>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=98.62  E-value=7.9e-07  Score=84.53  Aligned_cols=194  Identities=15%  Similarity=0.170  Sum_probs=102.3

Q ss_pred             ccccchHHHHHHHH-------Hhc---CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHH
Q 010355          150 AFESRMSTLNDVIN-------ALK---NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQG  219 (512)
Q Consensus       150 ~~~gR~~~l~~l~~-------~L~---~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~  219 (512)
                      .++|+...+..++.       .+.   ....+.+.|+|++|+|||+||+.+++....    . .+.+..+...       
T Consensus        34 ~~i~~~~~~~~i~~~~~~l~~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~~~~----~-~~~i~~~~~~-------  101 (272)
T 1d2n_A           34 GIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNF----P-FIKICSPDKM-------  101 (272)
T ss_dssp             CCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTC----S-EEEEECGGGC-------
T ss_pred             CCCCccHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCC----C-EEEEeCHHHh-------
Confidence            45666555554444       332   455688999999999999999999987531    1 2223322100       


Q ss_pred             HHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCCh------------hhhhhh---CCCC--CCCCeEEEEEe
Q 010355          220 QIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTN------------LDLENV---GIPF--GVRGCRVLMTA  282 (512)
Q Consensus       220 ~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~------------~~~~~l---~~~~--~~~gs~iivTt  282 (512)
                           ++.  ...........+.......++.+|+||++...            ..+..+   ....  ......||.||
T Consensus       102 -----~g~--~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~ii~tt  174 (272)
T 1d2n_A          102 -----IGF--SETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLIIGTT  174 (272)
T ss_dssp             -----TTC--CHHHHHHHHHHHHHHHHTSSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEEEEEEE
T ss_pred             -----cCC--chHHHHHHHHHHHHHHHhcCCcEEEEEChhhhhccCCCChhHHHHHHHHHHHHhcCccCCCCCEEEEEec
Confidence                 010  00000112233333333356899999998532            111222   1111  12334566677


Q ss_pred             CCcchhcc--ccCC-ccceecCCCCH-HHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCC------hhHHHHHHHHhcc
Q 010355          283 RSQDVLSS--KMDC-QNNFLIGVLNE-SEARDLFKKLVGDKIENNDLKSLAMNIVKACRGL------PIAIVTIARALRN  352 (512)
Q Consensus       283 R~~~v~~~--~~~~-~~~~~l~~L~~-~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~Gl------PLai~~ia~~L~~  352 (512)
                      ........  .... ...+.+++++. ++...++.+...   ..   ......|++.+.|.      +-++.++-.....
T Consensus       175 n~~~~l~~~~l~~rf~~~i~~p~l~~r~~i~~i~~~~~~---~~---~~~~~~l~~~~~g~~~~g~ir~l~~~l~~a~~~  248 (272)
T 1d2n_A          175 SRKDVLQEMEMLNAFSTTIHVPNIATGEQLLEALELLGN---FK---DKERTTIAQQVKGKKVWIGIKKLLMLIEMSLQM  248 (272)
T ss_dssp             SCHHHHHHTTCTTTSSEEEECCCEEEHHHHHHHHHHHTC---SC---HHHHHHHHHHHTTSEEEECHHHHHHHHHHHTTS
T ss_pred             CChhhcchhhhhcccceEEcCCCccHHHHHHHHHHhcCC---CC---HHHHHHHHHHhcCCCccccHHHHHHHHHHHhhh
Confidence            66533211  1122 35688899988 666666655321   11   34567888888883      3333333333222


Q ss_pred             CCHHHHHHHHHHhcCC
Q 010355          353 KNTFEWKSALRELTRP  368 (512)
Q Consensus       353 ~~~~~w~~~l~~l~~~  368 (512)
                      .....+..+++.+...
T Consensus       249 ~~~~~~~~~~~~l~~~  264 (272)
T 1d2n_A          249 DPEYRVRKFLALLREE  264 (272)
T ss_dssp             CGGGHHHHHHHHHHHT
T ss_pred             chHHHHHHHHHHHHHc
Confidence            3455666666665543

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=98.60  E-value=3.8e-07  Score=89.72  Aligned_cols=176  Identities=15%  Similarity=0.153  Sum_probs=105.2

Q ss_pred             ccCccccccchHHHHHHHHHhc-----CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALK-----NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQG  219 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~-----~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~  219 (512)
                      |.....|+|+...+..+..++.     ....+.+.|+|++|+|||+||+.+++....  .   .+.++.+.......+  
T Consensus        25 p~~~~~iiG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~~~~~--~---~~~~~~~~~~~~~~~--   97 (338)
T 3pfi_A           25 PSNFDGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYEMSA--N---IKTTAAPMIEKSGDL--   97 (338)
T ss_dssp             CCSGGGCCSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHHHTTC--C---EEEEEGGGCCSHHHH--
T ss_pred             CCCHHHhCChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHHHhCC--C---eEEecchhccchhHH--
Confidence            3456679999999998888776     234567899999999999999999887542  1   233333222111111  


Q ss_pred             HHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh--hh-------hhhCC-------------CCCCCCeE
Q 010355          220 QIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL--DL-------ENVGI-------------PFGVRGCR  277 (512)
Q Consensus       220 ~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~--~~-------~~l~~-------------~~~~~gs~  277 (512)
                                         ..+...  ..++.+|+||++....  ..       +....             ....++..
T Consensus        98 -------------------~~~~~~--~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  156 (338)
T 3pfi_A           98 -------------------AAILTN--LSEGDILFIDEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPKFT  156 (338)
T ss_dssp             -------------------HHHHHT--CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCC---------CCCCCCCCCCCE
T ss_pred             -------------------HHHHHh--ccCCCEEEEechhhcCHHHHHHHHHHHHhccchhhcccCccccceecCCCCeE
Confidence                               111111  1356788999986431  11       11100             00012356


Q ss_pred             EEEEeCCcchhc-cccCC-ccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHHHH
Q 010355          278 VLMTARSQDVLS-SKMDC-QNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARA  349 (512)
Q Consensus       278 iivTtR~~~v~~-~~~~~-~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~~  349 (512)
                      +|.||....... ..... ...+.+.+++.++...++.+.+..... .--.+....|++.+.|+|-.+..+...
T Consensus       157 ~i~atn~~~~l~~~L~~R~~~~i~l~~~~~~e~~~il~~~~~~~~~-~~~~~~~~~l~~~~~G~~r~l~~~l~~  229 (338)
T 3pfi_A          157 LIGATTRAGMLSNPLRDRFGMQFRLEFYKDSELALILQKAALKLNK-TCEEKAALEIAKRSRSTPRIALRLLKR  229 (338)
T ss_dssp             EEEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTC-EECHHHHHHHHHTTTTCHHHHHHHHHH
T ss_pred             EEEeCCCccccCHHHHhhcCEEeeCCCcCHHHHHHHHHHHHHhcCC-CCCHHHHHHHHHHHCcCHHHHHHHHHH
Confidence            666666543221 11122 267999999999999999887642211 112356778899999999666554443

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=98.58  E-value=2.5e-06  Score=82.06  Aligned_cols=182  Identities=15%  Similarity=0.200  Sum_probs=104.0

Q ss_pred             cCccccccchHHHHHHHHHhcC------------CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCC
Q 010355          146 KGYEAFESRMSTLNDVINALKN------------PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPD  213 (512)
Q Consensus       146 ~~~~~~~gR~~~l~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  213 (512)
                      .....++|.+..++.|..++..            ...+.+.|+|++|+|||+||+.++.....     ..+.++.+.-..
T Consensus        18 ~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~~~-----~~~~i~~~~l~~   92 (297)
T 3b9p_A           18 VEWTDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATECSA-----TFLNISAASLTS   92 (297)
T ss_dssp             CCGGGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHTTC-----EEEEEESTTTSS
T ss_pred             CCHHHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHhCC-----CeEEeeHHHHhh
Confidence            3456789999988888877631            23578999999999999999999987641     223344332110


Q ss_pred             HHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChhh-----------------hhhh-CCCCC--C
Q 010355          214 VKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNLD-----------------LENV-GIPFG--V  273 (512)
Q Consensus       214 ~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~-----------------~~~l-~~~~~--~  273 (512)
                                    . ...........+.......++.+|+||++.....                 +..+ ..+..  +
T Consensus        93 --------------~-~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~  157 (297)
T 3b9p_A           93 --------------K-YVGDGEKLVRALFAVARHMQPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPGNPDG  157 (297)
T ss_dssp             --------------S-SCSCHHHHHHHHHHHHHHTCSEEEEEETGGGTSBCC-----CCSHHHHHHHHHHHHHCC-----
T ss_pred             --------------c-ccchHHHHHHHHHHHHHHcCCcEEEeccHHHhccccccCcchHHHHHHHHHHHHHhcccccCCC
Confidence                          0 0011122233344444445689999999954310                 1111 11111  2


Q ss_pred             CCeEEEEEeCCcchhc-ccc-CCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChh-HHHHHHH
Q 010355          274 RGCRVLMTARSQDVLS-SKM-DCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPI-AIVTIAR  348 (512)
Q Consensus       274 ~gs~iivTtR~~~v~~-~~~-~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPL-ai~~ia~  348 (512)
                      .+..||.||....... ... .....+.+...+.++...++...+...... -.......|++.+.|.+- +|..+..
T Consensus       158 ~~v~vi~~tn~~~~l~~~l~~R~~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~~la~~~~g~~~~~l~~l~~  234 (297)
T 3b9p_A          158 DRIVVLAATNRPQELDEAALRRFTKRVYVSLPDEQTRELLLNRLLQKQGSP-LDTEALRRLAKITDGYSGSDLTALAK  234 (297)
T ss_dssp             -CEEEEEEESCGGGBCHHHHHHCCEEEECCCCCHHHHHHHHHHHHGGGSCC-SCHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             CcEEEEeecCChhhCCHHHHhhCCeEEEeCCcCHHHHHHHHHHHHHhcCCC-CCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            3466777777643211 000 122467777788888888888776422111 113456788999999876 5544443

>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=98.58  E-value=1.5e-06  Score=86.16  Aligned_cols=183  Identities=13%  Similarity=0.103  Sum_probs=105.8

Q ss_pred             cCccccccchHHHHHHHHHhc------------CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCC
Q 010355          146 KGYEAFESRMSTLNDVINALK------------NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPD  213 (512)
Q Consensus       146 ~~~~~~~gR~~~l~~l~~~L~------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  213 (512)
                      .....++|.+..++.|.+.+.            ....+.|.|+|++|+|||+||+.+++....     ..+.++++.-..
T Consensus        81 ~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~-----~~~~i~~~~l~~  155 (357)
T 3d8b_A           81 VNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQSGA-----TFFSISASSLTS  155 (357)
T ss_dssp             CCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHHTTC-----EEEEEEGGGGCC
T ss_pred             CCHHHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHHcCC-----eEEEEehHHhhc
Confidence            345678999998888887663            234578999999999999999999887531     234444432111


Q ss_pred             HHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCCh-------------h----hhhhhC-CCC-CCC
Q 010355          214 VKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTN-------------L----DLENVG-IPF-GVR  274 (512)
Q Consensus       214 ~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~-------------~----~~~~l~-~~~-~~~  274 (512)
                      .              . ..........+.......++.+|+||++...             .    .+..+. ... ...
T Consensus       156 ~--------------~-~g~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~  220 (357)
T 3d8b_A          156 K--------------W-VGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGATTSSED  220 (357)
T ss_dssp             S--------------S-TTHHHHHHHHHHHHHHHTCSEEEEEETHHHHTBC------CHHHHHHHHHHHHHHC----CCC
T ss_pred             c--------------c-cchHHHHHHHHHHHHHhcCCeEEEEeCchhhhccCCCCcchHHHHHHHHHHHHHhcccccCCC
Confidence            0              0 0001122233344443456899999998432             0    111111 111 134


Q ss_pred             CeEEEEEeCCcchh-cccc-CCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCC-ChhHHHHHHHH
Q 010355          275 GCRVLMTARSQDVL-SSKM-DCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRG-LPIAIVTIARA  349 (512)
Q Consensus       275 gs~iivTtR~~~v~-~~~~-~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~G-lPLai~~ia~~  349 (512)
                      +..||.||...... .... .....+.+...+.++...++...+...... -.......|++.+.| .|-.|..+...
T Consensus       221 ~v~vI~atn~~~~l~~~l~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~-l~~~~l~~la~~t~G~s~~dl~~l~~~  297 (357)
T 3d8b_A          221 RILVVGATNRPQEIDEAARRRLVKRLYIPLPEASARKQIVINLMSKEQCC-LSEEEIEQIVQQSDAFSGADMTQLCRE  297 (357)
T ss_dssp             CEEEEEEESCGGGBCHHHHTTCCEEEECCCCCHHHHHHHHHHHHHTSCBC-CCHHHHHHHHHHTTTCCHHHHHHHHHH
T ss_pred             CEEEEEecCChhhCCHHHHhhCceEEEeCCcCHHHHHHHHHHHHhhcCCC-ccHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence            55666677654321 1111 222467888899999999998776422111 113467789999988 55566665543

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=98.55  E-value=3.3e-07  Score=94.15  Aligned_cols=151  Identities=14%  Similarity=0.172  Sum_probs=88.3

Q ss_pred             CccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCC----C-eEEEEEeCCCCCHHHHHHHH
Q 010355          147 GYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLF----D-EVVYAEVSQRPDVKKIQGQI  221 (512)
Q Consensus       147 ~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f----~-~~~wv~~~~~~~~~~ll~~i  221 (512)
                      ...+++||+.++..+...|.......+.|+|++|+|||+||+.++.........    . .++.++++..          
T Consensus       178 ~ld~iiGr~~~i~~l~~~l~r~~~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~~----------  247 (468)
T 3pxg_A          178 SLDPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMGTK----------  247 (468)
T ss_dssp             CSCCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC---------------
T ss_pred             CCCCccCcHHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeCCcc----------
Confidence            356799999999999999986666778899999999999999999886422111    1 1223333200          


Q ss_pred             HHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChhhhhhhCCCCCCCCeEEEEEeCCcc------hhccccCCc
Q 010355          222 ADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNLDLENVGIPFGVRGCRVLMTARSQD------VLSSKMDCQ  295 (512)
Q Consensus       222 ~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~~~~l~~~~~~~gs~iivTtR~~~------v~~~~~~~~  295 (512)
                        ..|      ........+...+...++.+|++|  ........+...+.....++|.+|....      .........
T Consensus       248 --~~g------~~e~~~~~~~~~~~~~~~~iLfiD--~~~~a~~~L~~~L~~g~v~vI~at~~~e~~~~~~~~~al~~Rf  317 (468)
T 3pxg_A          248 --YRG------EFEDRLKKVMDEIRQAGNIILFID--AAIDASNILKPSLARGELQCIGATTLDEYRKYIEKDAALERRF  317 (468)
T ss_dssp             -------------CTTHHHHHHHHHTCCCCEEEEC--C--------CCCTTSSSCEEEEECCTTTTHHHHTTCSHHHHSE
T ss_pred             --ccc------hHHHHHHHHHHHHHhcCCeEEEEe--CchhHHHHHHHhhcCCCEEEEecCCHHHHHHHhhcCHHHHHhC
Confidence              000      001123345555555567899999  2222222232222233456666665443      111112233


Q ss_pred             cceecCCCCHHHHHHHHHHHhC
Q 010355          296 NNFLIGVLNESEARDLFKKLVG  317 (512)
Q Consensus       296 ~~~~l~~L~~~ea~~Lf~~~~~  317 (512)
                      ..+.+.+.+.++...++...+.
T Consensus       318 ~~i~v~~p~~e~~~~iL~~~~~  339 (468)
T 3pxg_A          318 QPIQVDQPSVDESIQILQGLRD  339 (468)
T ss_dssp             EEEECCCCCHHHHHHHHHHTTT
T ss_pred             ccceeCCCCHHHHHHHHHHHHH
Confidence            4699999999999999987664

>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=98.54  E-value=1.7e-06  Score=84.37  Aligned_cols=182  Identities=17%  Similarity=0.153  Sum_probs=107.4

Q ss_pred             cCccccccchHHHHHHHHHhc------------CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCC
Q 010355          146 KGYEAFESRMSTLNDVINALK------------NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPD  213 (512)
Q Consensus       146 ~~~~~~~gR~~~l~~l~~~L~------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  213 (512)
                      .....++|.+..++.|..++.            ....+.+.|+|++|+|||+||+.+++....     ..+.++.+    
T Consensus        15 ~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~-----~~~~v~~~----   85 (322)
T 3eie_A           15 VKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANS-----TFFSVSSS----   85 (322)
T ss_dssp             CCGGGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHHTC-----EEEEEEHH----
T ss_pred             CCHHHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHHCC-----CEEEEchH----
Confidence            446678999999888887762            122467999999999999999999987642     12333321    


Q ss_pred             HHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChhh-------------hh----hhCCC-CCCCC
Q 010355          214 VKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNLD-------------LE----NVGIP-FGVRG  275 (512)
Q Consensus       214 ~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~-------------~~----~l~~~-~~~~g  275 (512)
                        .+.    ...     ..........+.......++.+|+||++.....             ..    .+... ....+
T Consensus        86 --~l~----~~~-----~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~  154 (322)
T 3eie_A           86 --DLV----SKW-----MGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQG  154 (322)
T ss_dssp             --HHH----TTT-----GGGHHHHHHHHHHHHHHTSSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGGTSCCC
T ss_pred             --HHh----hcc-----cchHHHHHHHHHHHHHhcCCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhccccccCCc
Confidence              111    100     011122344455555555789999999964311             11    11111 12445


Q ss_pred             eEEEEEeCCcchhcc--ccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCC-ChhHHHHHHH
Q 010355          276 CRVLMTARSQDVLSS--KMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRG-LPIAIVTIAR  348 (512)
Q Consensus       276 s~iivTtR~~~v~~~--~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~G-lPLai~~ia~  348 (512)
                      ..||.||........  .......+.+...+.++-.++|..++....... .......|++.+.| .+-.|..+..
T Consensus       155 v~vi~atn~~~~ld~al~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~-~~~~l~~la~~t~g~sg~di~~l~~  229 (322)
T 3eie_A          155 VLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPCVL-TKEDYRTLGAMTEGYSGSDIAVVVK  229 (322)
T ss_dssp             EEEEEEESCGGGSCHHHHHHCCEEEECCCCCHHHHHHHHHHHHTTCCCCC-CHHHHHHHHHTTTTCCHHHHHHHHH
T ss_pred             eEEEEecCChhhCCHHHHcccCeEEEeCCCCHHHHHHHHHHHhccCCCCC-CHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            667777765433210  011235678888999999999998886433211 12456788888887 4545554443

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=98.52  E-value=1.2e-06  Score=87.22  Aligned_cols=197  Identities=10%  Similarity=0.079  Sum_probs=102.9

Q ss_pred             ccccccchHHHHH---HHHHhcCCCc--eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEe----CCCCCHHHHH
Q 010355          148 YEAFESRMSTLND---VINALKNPDV--HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEV----SQRPDVKKIQ  218 (512)
Q Consensus       148 ~~~~~gR~~~l~~---l~~~L~~~~~--~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~----~~~~~~~~ll  218 (512)
                      ...|+|++..+..   +...+.....  +.+.|+|++|+|||+||+.+++.......|   +.+..    +........+
T Consensus        43 ~~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l~~~~~~---~~~~~~~~~~~~~~~~~~~  119 (368)
T 3uk6_A           43 SQGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQALGPDTPF---TAIAGSEIFSLEMSKTEAL  119 (368)
T ss_dssp             ETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHHCSSCCE---EEEEGGGGSCSSSCHHHHH
T ss_pred             hhhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHhcccCCc---ccccchhhhhcccchhHHH
Confidence            5679999988665   4455554433  589999999999999999999987532122   22221    1223334444


Q ss_pred             HHHHHHh-CCC--------------------C--------C--CCCchH---HHHHHHHH-HhCCC----eEEEEEeCCC
Q 010355          219 GQIADKL-GLK--------------------F--------Y--EESESG---RARKLCER-LKKEK----KILVILDDIW  259 (512)
Q Consensus       219 ~~i~~~l-~~~--------------------~--------~--~~~~~~---~~~~l~~~-l~~~k----~~LlVlDdv~  259 (512)
                      ...+... +..                    .        .  ......   .+...... ...++    +.+|+||++.
T Consensus       120 ~~~~~~~~~~~~~~~~~~~~~~~~ld~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~g~~~~~~~vl~IDEi~  199 (368)
T 3uk6_A          120 TQAFRRSIGVRIKAGAVHTVSLHEIDVINSRTQGFLALFSGDTGEIKSEVREQINAKVAEWREEGKAEIIPGVLFIDEVH  199 (368)
T ss_dssp             HHHHHHSBEECC------CEEHHHHHHHTC----CCSCC-------CHHHHHHHHHHHHHHHHHTC---CBCEEEEESGG
T ss_pred             HHHHHHHHHHHhhhhccccccHhhhhhhhcccccchhhccCcccccHHHHHHHHHHHHHHhhhhccccccCceEEEhhcc
Confidence            4433321 100                    0        0  000111   11111111 11233    4599999996


Q ss_pred             Ch--hhhhhhCCCCC-CCCeEEEEEeCCc-------------chhccccCCccceecCCCCHHHHHHHHHHHhCCCCCCc
Q 010355          260 TN--LDLENVGIPFG-VRGCRVLMTARSQ-------------DVLSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENN  323 (512)
Q Consensus       260 ~~--~~~~~l~~~~~-~~gs~iivTtR~~-------------~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~  323 (512)
                      ..  .....+...+. .....++++|...             .+..........+.+.+++.++...++...+..... .
T Consensus       200 ~l~~~~~~~L~~~le~~~~~~~ii~t~~~~~~i~~t~~~~~~~l~~~l~sR~~~i~~~~~~~~e~~~il~~~~~~~~~-~  278 (368)
T 3uk6_A          200 MLDIESFSFLNRALESDMAPVLIMATNRGITRIRGTSYQSPHGIPIDLLDRLLIVSTTPYSEKDTKQILRIRCEEEDV-E  278 (368)
T ss_dssp             GSBHHHHHHHHHHTTCTTCCEEEEEESCSEEECBTSSCEEETTCCHHHHTTEEEEEECCCCHHHHHHHHHHHHHHTTC-C
T ss_pred             ccChHHHHHHHHHhhCcCCCeeeeecccceeeeeccCCCCcccCCHHHHhhccEEEecCCCHHHHHHHHHHHHHHcCC-C
Confidence            53  22222211111 1122344444310             011111223345899999999999999987642211 1


Q ss_pred             hhHHHHHHHHHHcC-CChhHHHHHHH
Q 010355          324 DLKSLAMNIVKACR-GLPIAIVTIAR  348 (512)
Q Consensus       324 ~~~~~~~~I~~~~~-GlPLai~~ia~  348 (512)
                      --.+....|++.+. |.|..+..+..
T Consensus       279 ~~~~~l~~l~~~~~~G~~r~~~~ll~  304 (368)
T 3uk6_A          279 MSEDAYTVLTRIGLETSLRYAIQLIT  304 (368)
T ss_dssp             BCHHHHHHHHHHHHHSCHHHHHHHHH
T ss_pred             CCHHHHHHHHHHhcCCCHHHHHHHHH
Confidence            12356788899997 87776554443

>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=98.52  E-value=2.2e-07  Score=91.98  Aligned_cols=197  Identities=12%  Similarity=0.078  Sum_probs=107.9

Q ss_pred             ccCccccccchHHHHHHHHHh-cCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCC----CCe-----------------
Q 010355          145 IKGYEAFESRMSTLNDVINAL-KNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKL----FDE-----------------  202 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L-~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~----f~~-----------------  202 (512)
                      |.....++|++..+..|..++ ..+..+.+.|+|++|+|||||++.++........    +++                 
T Consensus        10 P~~~~~~vg~~~~~~~l~~~~~~~~~~~~~ll~Gp~G~GKTtl~~~la~~l~~~~~g~i~~~~~~~~~~~~~~~~~~~~~   89 (354)
T 1sxj_E           10 PKSLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVVS   89 (354)
T ss_dssp             CCSGGGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCEE
T ss_pred             CCCHHHhcCCHHHHHHHHHHHhhCCCCCeEEEECCCCCCHHHHHHHHHHHHcCCCCCeEEecceeecccccccceeeeec
Confidence            344567899999999999988 6555445999999999999999999885321100    000                 


Q ss_pred             ---EEEEEeCCCC-CHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh--hhhh----hCCCCC
Q 010355          203 ---VVYAEVSQRP-DVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL--DLEN----VGIPFG  272 (512)
Q Consensus       203 ---~~wv~~~~~~-~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~--~~~~----l~~~~~  272 (512)
                         .+.+..+... ......+.++..+.....-...   . .+ ..+. +++-+||||++....  ....    +..+  
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~---~-~l-s~l~-~~~~vlilDE~~~L~~~~~~~L~~~le~~--  161 (354)
T 1sxj_E           90 SPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVDFQ---D-SK-DGLA-HRYKCVIINEANSLTKDAQAALRRTMEKY--  161 (354)
T ss_dssp             CSSEEEECCC----CCHHHHHHHHHHHTTTTC------------------CCEEEEEECTTSSCHHHHHHHHHHHHHS--
T ss_pred             ccceEEecHhhcCCcchHHHHHHHHHHHHhcccccc---c-cc-cccC-CCCeEEEEeCccccCHHHHHHHHHHHHhh--
Confidence               1111111100 0000122222222111000000   0 00 0011 357799999997531  1121    2111  


Q ss_pred             CCCeEEEEEeCCcch-hccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchh-HHHHHHHHHHcCCChhHHHHHHHHh
Q 010355          273 VRGCRVLMTARSQDV-LSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDL-KSLAMNIVKACRGLPIAIVTIARAL  350 (512)
Q Consensus       273 ~~gs~iivTtR~~~v-~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~-~~~~~~I~~~~~GlPLai~~ia~~L  350 (512)
                      ..++.+|++|..... ..........+.+.+++.++...++.+.+...... -- .+.+..|++.++|.+..+..+...+
T Consensus       162 ~~~~~~Il~t~~~~~l~~~l~sR~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~~~~~l~~i~~~~~G~~r~a~~~l~~~  240 (354)
T 1sxj_E          162 SKNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQ-LETKDILKRIAQASNGNLRVSLLMLESM  240 (354)
T ss_dssp             TTTEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCE-ECCSHHHHHHHHHHTTCHHHHHHHHTHH
T ss_pred             cCCCEEEEEeCCHHHHHHHHHhhceEEecCCcCHHHHHHHHHHHHHHcCCC-CCcHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            346788888876432 22122334689999999999999998876321110 00 2456789999999988766555443

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=98.51  E-value=3.8e-06  Score=84.24  Aligned_cols=183  Identities=14%  Similarity=0.146  Sum_probs=105.3

Q ss_pred             ccCccccccchHHHHHHHHHhc------------CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCC
Q 010355          145 IKGYEAFESRMSTLNDVINALK------------NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRP  212 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~  212 (512)
                      +.....++|....++.|..++.            ....+.|.|+|++|+|||+||+.+++....     ..+.++++.-.
T Consensus       111 ~~~~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~~~-----~~~~v~~~~l~  185 (389)
T 3vfd_A          111 AVKFDDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESNA-----TFFNISAASLT  185 (389)
T ss_dssp             CCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHTTC-----EEEEECSCCC-
T ss_pred             CCChHHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhhcC-----cEEEeeHHHhh
Confidence            3456678999999999888772            123478999999999999999999877541     23334333211


Q ss_pred             CHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh-------------hhhhhC-----CCC-CC
Q 010355          213 DVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL-------------DLENVG-----IPF-GV  273 (512)
Q Consensus       213 ~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~-------------~~~~l~-----~~~-~~  273 (512)
                      ..  .       .      .........++.......+.+|+||++....             ....+.     ... ..
T Consensus       186 ~~--~-------~------g~~~~~~~~~~~~a~~~~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  250 (389)
T 3vfd_A          186 SK--Y-------V------GEGEKLVRALFAVARELQPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQSAGD  250 (389)
T ss_dssp             ---------------------CHHHHHHHHHHHHHSSSEEEEEETGGGGC--------CTHHHHHHHHHHHHHHHC----
T ss_pred             cc--c-------c------chHHHHHHHHHHHHHhcCCeEEEEECchhhcccCCCccchHHHHHHHHHHHHhhcccccCC
Confidence            10  0       0      0111223344444444467899999996430             011110     000 12


Q ss_pred             CCeEEEEEeCCcchh-ccccC-CccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChh-HHHHHHH
Q 010355          274 RGCRVLMTARSQDVL-SSKMD-CQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPI-AIVTIAR  348 (512)
Q Consensus       274 ~gs~iivTtR~~~v~-~~~~~-~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPL-ai~~ia~  348 (512)
                      ....||.||...... ..... ....+.+...+.++...++...+...... -.......|++.+.|..- +|..+..
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            345666677653322 11111 22468888999999999998887532221 113466789999988544 5555543

>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=98.50  E-value=5.8e-06  Score=84.26  Aligned_cols=183  Identities=16%  Similarity=0.188  Sum_probs=104.8

Q ss_pred             cCccccccchHHHHHHHHHhc------------CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCC
Q 010355          146 KGYEAFESRMSTLNDVINALK------------NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPD  213 (512)
Q Consensus       146 ~~~~~~~gR~~~l~~l~~~L~------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  213 (512)
                      .....++|.+..++.|...+.            ....+.|.|+|++|+|||+||+.+++....      .-++.++... 
T Consensus       131 ~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~~~------~~~~~v~~~~-  203 (444)
T 2zan_A          131 VKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANN------STFFSISSSD-  203 (444)
T ss_dssp             CCGGGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHCCS------SEEEEECCC--
T ss_pred             CCHHHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHcCC------CCEEEEeHHH-
Confidence            445678899988888887662            123478999999999999999999987621      1123333221 


Q ss_pred             HHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh-------------hhhhhCCCC-----CCCC
Q 010355          214 VKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL-------------DLENVGIPF-----GVRG  275 (512)
Q Consensus       214 ~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~-------------~~~~l~~~~-----~~~g  275 (512)
                         +....   .+.      ....+..++......++.+|+||++....             ....+...+     ...+
T Consensus       204 ---l~~~~---~g~------~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~  271 (444)
T 2zan_A          204 ---LVSKW---LGE------SEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDG  271 (444)
T ss_dssp             --------------------CCCTHHHHHHHHHHSCSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTCSSCCCSS
T ss_pred             ---HHhhh---cch------HHHHHHHHHHHHHHcCCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhCcccCCCC
Confidence               11110   111      01123344444444578999999997541             111121111     1345


Q ss_pred             eEEEEEeCCcchhc-ccc-CCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCC-hhHHHHHHH
Q 010355          276 CRVLMTARSQDVLS-SKM-DCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGL-PIAIVTIAR  348 (512)
Q Consensus       276 s~iivTtR~~~v~~-~~~-~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~Gl-PLai~~ia~  348 (512)
                      ..||.||....... ... .....+.+...+.++...+|..++....... .......|++.+.|. +-.|..+..
T Consensus       272 v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~l-~~~~l~~la~~t~G~sgadl~~l~~  346 (444)
T 2zan_A          272 ILVLGATNIPWVLDSAIRRRFEKRIYIPLPEAHARAAMFRLHLGSTQNSL-TEADFQELGRKTDGYSGADISIIVR  346 (444)
T ss_dssp             CEEEEEESCGGGSCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCEEC-CHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             EEEEecCCCccccCHHHHhhcceEEEeCCcCHHHHHHHHHHHHhcCCCCC-CHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            66777776543221 111 2224677888888989999988875432111 124567888999884 545555443

>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=98.50  E-value=3.5e-06  Score=81.31  Aligned_cols=174  Identities=13%  Similarity=0.196  Sum_probs=100.5

Q ss_pred             CccccccchHHHHHHHHHhc-------------CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCC
Q 010355          147 GYEAFESRMSTLNDVINALK-------------NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPD  213 (512)
Q Consensus       147 ~~~~~~gR~~~l~~l~~~L~-------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  213 (512)
                      ....++|.+..++.|..++.             -...+.+.|+|++|+|||+||+.+++....     ..+.++      
T Consensus        13 ~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~~~-----~~i~v~------   81 (301)
T 3cf0_A           13 TWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQA-----NFISIK------   81 (301)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHTTC-----EEEEEC------
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHhCC-----CEEEEE------
Confidence            34567888887777766553             134567999999999999999999987641     122222      


Q ss_pred             HHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChhh--------------------hhhhCCCCCC
Q 010355          214 VKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNLD--------------------LENVGIPFGV  273 (512)
Q Consensus       214 ~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~--------------------~~~l~~~~~~  273 (512)
                      ...+....   ++..      ......++.......+.+|+||++.....                    +..+......
T Consensus        82 ~~~l~~~~---~g~~------~~~~~~~f~~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~~~~  152 (301)
T 3cf0_A           82 GPELLTMW---FGES------EANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTK  152 (301)
T ss_dssp             HHHHHHHH---HTTC------TTHHHHHHHHHHHTCSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSSCTT
T ss_pred             hHHHHhhh---cCch------HHHHHHHHHHHHhcCCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhcccCC
Confidence            22333222   1211      11233444444445789999999964210                    1111111123


Q ss_pred             CCeEEEEEeCCcchh-cccc---CCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhH
Q 010355          274 RGCRVLMTARSQDVL-SSKM---DCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIA  342 (512)
Q Consensus       274 ~gs~iivTtR~~~v~-~~~~---~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLa  342 (512)
                      .+..||.||...... ....   .-...+.+.+.+.++-.++|...+.........  ....++..+.|.|-+
T Consensus       153 ~~v~vi~atn~~~~ld~al~r~gRf~~~i~i~~p~~~~r~~il~~~l~~~~~~~~~--~~~~la~~~~g~sg~  223 (301)
T 3cf0_A          153 KNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDV--DLEFLAKMTNGFSGA  223 (301)
T ss_dssp             SSEEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCSSC--CHHHHHHTCSSCCHH
T ss_pred             CCEEEEEecCCccccChHHhcCCccceEEecCCcCHHHHHHHHHHHHccCCCCccc--hHHHHHHHcCCCCHH
Confidence            467777788665322 1111   122578899999999999998887532211111  123566677777654

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=98.50  E-value=9.9e-08  Score=84.82  Aligned_cols=49  Identities=22%  Similarity=0.240  Sum_probs=43.3

Q ss_pred             CccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          147 GYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       147 ~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ....|+||+.++..+..++.....+.+.|+|++|+|||+||+.+++...
T Consensus        20 ~~~~~~g~~~~~~~l~~~l~~~~~~~vll~G~~G~GKT~la~~~~~~~~   68 (187)
T 2p65_A           20 KLDPVIGRDTEIRRAIQILSRRTKNNPILLGDPGVGKTAIVEGLAIKIV   68 (187)
T ss_dssp             CSCCCCSCHHHHHHHHHHHTSSSSCEEEEESCGGGCHHHHHHHHHHHHH
T ss_pred             ccchhhcchHHHHHHHHHHhCCCCCceEEECCCCCCHHHHHHHHHHHHH
Confidence            4557899999999999999877677889999999999999999998764

>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=98.48  E-value=1.1e-06  Score=89.46  Aligned_cols=200  Identities=14%  Similarity=0.178  Sum_probs=114.3

Q ss_pred             ccccc-cchH--HHHHHHHHhcCCC-ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHH
Q 010355          148 YEAFE-SRMS--TLNDVINALKNPD-VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIAD  223 (512)
Q Consensus       148 ~~~~~-gR~~--~l~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~  223 (512)
                      ...|+ |...  ....+.......+ ...+.|+|++|+||||||+.+++.......-..+++++..      .+...+..
T Consensus       104 fd~fv~g~~n~~a~~~~~~~a~~~~~~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~~------~~~~~~~~  177 (440)
T 2z4s_A          104 FENFVVGPGNSFAYHAALEVAKHPGRYNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSE------KFLNDLVD  177 (440)
T ss_dssp             GGGCCCCTTTHHHHHHHHHHHHSTTSSCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEHH------HHHHHHHH
T ss_pred             hhhcCCCCchHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHH------HHHHHHHH
Confidence            34565 5433  3334444444333 6789999999999999999999877533112234555443      23344444


Q ss_pred             HhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh----hhhhhCCCC---CCCCeEEEEEeCCcchh--------
Q 010355          224 KLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL----DLENVGIPF---GVRGCRVLMTARSQDVL--------  288 (512)
Q Consensus       224 ~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~----~~~~l~~~~---~~~gs~iivTtR~~~v~--------  288 (512)
                      .+...        ....+...+. .++.+|+||+++...    ....+...+   ...|..||+||......        
T Consensus       178 ~~~~~--------~~~~~~~~~~-~~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~~~~~~iIitt~~~~~~l~~l~~~L  248 (440)
T 2z4s_A          178 SMKEG--------KLNEFREKYR-KKVDILLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRL  248 (440)
T ss_dssp             HHHTT--------CHHHHHHHHT-TTCSEEEEECGGGGSSCHHHHHHHHHHHHHHHTTTCEEEEEESSCGGGCSSCCHHH
T ss_pred             HHHcc--------cHHHHHHHhc-CCCCEEEEeCcccccCChHHHHHHHHHHHHHHHCCCeEEEEECCCHHHHHHHHHHH
Confidence            33211        0122333332 256799999996432    111121111   14567888988864221        


Q ss_pred             ccccCCccceecCCCCHHHHHHHHHHHhC--CCCCCchhHHHHHHHHHHcCCChhHHHHHHHHhc------cC--CHHHH
Q 010355          289 SSKMDCQNNFLIGVLNESEARDLFKKLVG--DKIENNDLKSLAMNIVKACRGLPIAIVTIARALR------NK--NTFEW  358 (512)
Q Consensus       289 ~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~--~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~~L~------~~--~~~~w  358 (512)
                      ...+.....+.+.+++.++...++.+.+.  +...++   ++...|++.++|.+-.+.-+...+.      ++  +.+.+
T Consensus       249 ~sR~~~g~~i~l~~p~~e~r~~iL~~~~~~~~~~i~~---e~l~~la~~~~gn~R~l~~~L~~~~~~a~~~~~~It~~~~  325 (440)
T 2z4s_A          249 VSRFQMGLVAKLEPPDEETRKSIARKMLEIEHGELPE---EVLNFVAENVDDNLRRLRGAIIKLLVYKETTGKEVDLKEA  325 (440)
T ss_dssp             HHHHHSSBCCBCCCCCHHHHHHHHHHHHHHHTCCCCT---THHHHHHHHCCSCHHHHHHHHHHHHHHHHHSSSCCCHHHH
T ss_pred             HhhccCCeEEEeCCCCHHHHHHHHHHHHHHcCCCCCH---HHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCCCCHHHH
Confidence            00112235789999999999999988763  111222   3567888999999876554433221      22  66666


Q ss_pred             HHHHHHh
Q 010355          359 KSALREL  365 (512)
Q Consensus       359 ~~~l~~l  365 (512)
                      ..++..+
T Consensus       326 ~~~l~~~  332 (440)
T 2z4s_A          326 ILLLKDF  332 (440)
T ss_dssp             HHHTSTT
T ss_pred             HHHHHHH
Confidence            6666654

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.48  E-value=4e-06  Score=82.94  Aligned_cols=172  Identities=13%  Similarity=0.179  Sum_probs=100.9

Q ss_pred             CccccccchHHHHHHHHHhc-------------CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCC
Q 010355          147 GYEAFESRMSTLNDVINALK-------------NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPD  213 (512)
Q Consensus       147 ~~~~~~gR~~~l~~l~~~L~-------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  213 (512)
                      .+..+.|-+..++.|.+.+.             -...+-|.++|++|+|||.||+++++.....     .+.++.+.-.+
T Consensus       146 ~~~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~~~~-----f~~v~~s~l~s  220 (405)
T 4b4t_J          146 TYDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDCK-----FIRVSGAELVQ  220 (405)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHHTCE-----EEEEEGGGGSC
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhhCCC-----ceEEEhHHhhc
Confidence            34566677776666655432             1235778999999999999999999987632     23344332111


Q ss_pred             HHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh----------------h----hhhhCCCCCC
Q 010355          214 VKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL----------------D----LENVGIPFGV  273 (512)
Q Consensus       214 ~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~----------------~----~~~l~~~~~~  273 (512)
                                    . ........+..++...+...+++|+||+++...                .    +..+......
T Consensus       221 --------------k-~vGese~~vr~lF~~Ar~~aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~  285 (405)
T 4b4t_J          221 --------------K-YIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFETS  285 (405)
T ss_dssp             --------------S-STTHHHHHHHHHHHHHHHTCSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTTCC
T ss_pred             --------------c-ccchHHHHHHHHHHHHHHhCCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccCCC
Confidence                          0 001112234455555555679999999986421                0    1111111124


Q ss_pred             CCeEEEEEeCCcchh----ccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCCh
Q 010355          274 RGCRVLMTARSQDVL----SSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLP  340 (512)
Q Consensus       274 ~gs~iivTtR~~~v~----~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlP  340 (512)
                      .+..||.||......    .+...-...+.++.-+.++-.++|+.++......+..  -...|++.|.|.-
T Consensus       286 ~~V~vIaATNrpd~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~l~~dv--dl~~lA~~t~G~S  354 (405)
T 4b4t_J          286 KNIKIIMATNRLDILDPALLRPGRIDRKIEFPPPSVAARAEILRIHSRKMNLTRGI--NLRKVAEKMNGCS  354 (405)
T ss_dssp             CCEEEEEEESCSSSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSBCCSSC--CHHHHHHHCCSCC
T ss_pred             CCeEEEeccCChhhCCHhHcCCCcCceEEEcCCcCHHHHHHHHHHHhcCCCCCccC--CHHHHHHHCCCCC
Confidence            456677777665433    1111234678888889999999998877543222221  1456778887753

>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=98.46  E-value=2.9e-06  Score=83.83  Aligned_cols=182  Identities=16%  Similarity=0.175  Sum_probs=105.2

Q ss_pred             cCccccccchHHHHHHHHHhc------------CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCC
Q 010355          146 KGYEAFESRMSTLNDVINALK------------NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPD  213 (512)
Q Consensus       146 ~~~~~~~gR~~~l~~l~~~L~------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  213 (512)
                      .....++|.+..++.|...+.            ....+.|.|+|++|+|||+||+.+++....     ..+.++.+    
T Consensus        48 ~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~-----~~~~v~~~----  118 (355)
T 2qp9_X           48 VKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANS-----TFFSVSSS----  118 (355)
T ss_dssp             CCGGGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHHTC-----EEEEEEHH----
T ss_pred             CCHHHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCC-----CEEEeeHH----
Confidence            345678899988888887662            122356889999999999999999988742     12233222    


Q ss_pred             HHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChhh-------------hhhh----C-CCCCCCC
Q 010355          214 VKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNLD-------------LENV----G-IPFGVRG  275 (512)
Q Consensus       214 ~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~-------------~~~l----~-~~~~~~g  275 (512)
                        .+.    ...    . .........++......++.+|+||++.....             ...+    . ......+
T Consensus       119 --~l~----~~~----~-g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~~~~~~  187 (355)
T 2qp9_X          119 --DLV----SKW----M-GESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQG  187 (355)
T ss_dssp             --HHH----SCC--------CHHHHHHHHHHHHHTSSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC---CC
T ss_pred             --HHh----hhh----c-chHHHHHHHHHHHHHHcCCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhcccccCCC
Confidence              111    110    0 11122344444444445789999999964320             1111    1 1111345


Q ss_pred             eEEEEEeCCcchhc-c-ccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCC-ChhHHHHHHH
Q 010355          276 CRVLMTARSQDVLS-S-KMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRG-LPIAIVTIAR  348 (512)
Q Consensus       276 s~iivTtR~~~v~~-~-~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~G-lPLai~~ia~  348 (512)
                      ..||.||....... . .......+.+.+.+.++-..+|..++....... -......|++.+.| .|-.|..+..
T Consensus       188 v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~~-~~~~l~~la~~t~G~sg~dl~~l~~  262 (355)
T 2qp9_X          188 VLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPSVL-TKEDYRTLGAMTEGYSGSDIAVVVK  262 (355)
T ss_dssp             EEEEEEESCGGGSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTSCBCC-CHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             eEEEeecCCcccCCHHHHcccCEEEEeCCcCHHHHHHHHHHHHhhCCCCC-CHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            66776776543211 0 112235678888999999999998876432111 13456788899988 4545555443

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=98.45  E-value=5.5e-07  Score=87.26  Aligned_cols=152  Identities=9%  Similarity=0.078  Sum_probs=83.4

Q ss_pred             ccccchHHHHHHHHHhc---------------CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCH
Q 010355          150 AFESRMSTLNDVINALK---------------NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDV  214 (512)
Q Consensus       150 ~~~gR~~~l~~l~~~L~---------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  214 (512)
                      .++|.+..++.|..++.               ......+.|+|++|+|||+||+.+++...........-++.++..   
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~---  108 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRD---  108 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECGG---
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHH---
Confidence            46788777776665443               234557999999999999999999887754322221123333211   


Q ss_pred             HHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCCh-----------hhhhhhCCCC--CCCCeEEEEE
Q 010355          215 KKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTN-----------LDLENVGIPF--GVRGCRVLMT  281 (512)
Q Consensus       215 ~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~-----------~~~~~l~~~~--~~~gs~iivT  281 (512)
                               .+...... ........++...   ++.+|+||++...           ..+..+...+  ...+..||+|
T Consensus       109 ---------~l~~~~~g-~~~~~~~~~~~~~---~~~vl~iDEid~l~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~~i~~  175 (309)
T 3syl_A          109 ---------DLVGQYIG-HTAPKTKEVLKRA---MGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENNRDDLVVILA  175 (309)
T ss_dssp             ---------GTCCSSTT-CHHHHHHHHHHHH---TTSEEEEETGGGSCCCC---CCTHHHHHHHHHHHHHCTTTCEEEEE
T ss_pred             ---------Hhhhhccc-ccHHHHHHHHHhc---CCCEEEEEChhhhccCCCcccccHHHHHHHHHHHhcCCCCEEEEEe
Confidence                     11000000 1111122222222   3469999999732           2222221111  1345677788


Q ss_pred             eCCcchh------cccc-CCccceecCCCCHHHHHHHHHHHhC
Q 010355          282 ARSQDVL------SSKM-DCQNNFLIGVLNESEARDLFKKLVG  317 (512)
Q Consensus       282 tR~~~v~------~~~~-~~~~~~~l~~L~~~ea~~Lf~~~~~  317 (512)
                      |......      .... .....+.+++++.++...++...+.
T Consensus       176 ~~~~~~~~~~~~~~~l~~R~~~~i~~~~~~~~~~~~il~~~l~  218 (309)
T 3syl_A          176 GYADRMENFFQSNPGFRSRIAHHIEFPDYSDEELFEIAGHMLD  218 (309)
T ss_dssp             ECHHHHHHHHHHSTTHHHHEEEEEEECCCCHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHhhCHHHHHhCCeEEEcCCcCHHHHHHHHHHHHH
Confidence            7543210      0001 1226889999999999999988764

>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=98.44  E-value=1.6e-06  Score=85.28  Aligned_cols=183  Identities=11%  Similarity=0.085  Sum_probs=104.9

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCC-eEEEEEeCCCCCHHHHHHHHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFD-EVVYAEVSQRPDVKKIQGQIAD  223 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~-~~~wv~~~~~~~~~~ll~~i~~  223 (512)
                      |.....++|....+..|..++..+..+.+.++|++|+||||+|+.++...... .+. .+..++.+.......+. .++.
T Consensus        21 p~~~~~~~g~~~~~~~L~~~i~~g~~~~~ll~Gp~G~GKTtla~~la~~l~~~-~~~~~~~~~~~~~~~~~~~ir-~~i~   98 (340)
T 1sxj_C           21 PETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYGK-NYSNMVLELNASDDRGIDVVR-NQIK   98 (340)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHHTT-SHHHHEEEECTTSCCSHHHHH-THHH
T ss_pred             CCcHHHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHcCC-CccceEEEEcCcccccHHHHH-HHHH
Confidence            34456678999889999888887766559999999999999999999876421 111 12233333222222221 1111


Q ss_pred             HhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCCh--hhhhhhCCC--CCCCCeEEEEEeCCcch-hccccCCccce
Q 010355          224 KLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTN--LDLENVGIP--FGVRGCRVLMTARSQDV-LSSKMDCQNNF  298 (512)
Q Consensus       224 ~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~l~~~--~~~~gs~iivTtR~~~v-~~~~~~~~~~~  298 (512)
                      .+.....              ...+.+-++|+|++...  .....+...  .+...+++|++|....- ..........+
T Consensus        99 ~~~~~~~--------------~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~n~~~~i~~~i~sR~~~~  164 (340)
T 1sxj_C           99 DFASTRQ--------------IFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRF  164 (340)
T ss_dssp             HHHHBCC--------------SSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEE
T ss_pred             HHHhhcc--------------cCCCCceEEEEeCCCCCCHHHHHHHHHHHhcCCCCeEEEEEecCccccchhHHhhceeE
Confidence            1100000              00124688999998542  222222100  01345677777754431 11112233478


Q ss_pred             ecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHH
Q 010355          299 LIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIV  344 (512)
Q Consensus       299 ~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~  344 (512)
                      .+.+++.++....+...+...... --......|++.++|.+--+.
T Consensus       165 ~~~~l~~~~~~~~l~~~~~~~~~~-i~~~~~~~i~~~s~G~~r~~~  209 (340)
T 1sxj_C          165 RFQPLPQEAIERRIANVLVHEKLK-LSPNAEKALIELSNGDMRRVL  209 (340)
T ss_dssp             ECCCCCHHHHHHHHHHHHHTTTCC-BCHHHHHHHHHHHTTCHHHHH
T ss_pred             eccCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHH
Confidence            899999999999888776321111 113467788899999887443

>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=98.43  E-value=5.5e-06  Score=81.20  Aligned_cols=162  Identities=13%  Similarity=0.151  Sum_probs=100.3

Q ss_pred             hHHHHHHHHHhcCCC-ceEEEEEcCCCCcHHHHHHHHHHhhhhcC--------------------CCCeEEEEEeC---C
Q 010355          155 MSTLNDVINALKNPD-VHMIGAYGMAGVGKTMLVKEVARQAKADK--------------------LFDEVVYAEVS---Q  210 (512)
Q Consensus       155 ~~~l~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~--------------------~f~~~~wv~~~---~  210 (512)
                      ....+.|...+..++ .+.+.++|++|+|||++|+.+++......                    +++ ..++...   .
T Consensus         8 ~~~~~~l~~~i~~~~~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d-~~~~~~~~~~~   86 (334)
T 1a5t_A            8 RPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPD-YYTLAPEKGKN   86 (334)
T ss_dssp             HHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTT-EEEECCCTTCS
T ss_pred             HHHHHHHHHHHHcCCcceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCC-EEEEeccccCC
Confidence            455667777777555 46799999999999999999998764221                    112 2233221   1


Q ss_pred             CCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHh----CCCeEEEEEeCCCCh--hhhhh----hCCCCCCCCeEEEE
Q 010355          211 RPDVKKIQGQIADKLGLKFYEESESGRARKLCERLK----KEKKILVILDDIWTN--LDLEN----VGIPFGVRGCRVLM  280 (512)
Q Consensus       211 ~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~----l~~~~~~~gs~iiv  280 (512)
                      .....                     .+..+.+.+.    .+++-++|+|++...  ...+.    +..|  ..++.+|+
T Consensus        87 ~~~i~---------------------~ir~l~~~~~~~~~~~~~kvviIdead~l~~~a~naLLk~lEep--~~~~~~Il  143 (334)
T 1a5t_A           87 TLGVD---------------------AVREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEP--PAETWFFL  143 (334)
T ss_dssp             SBCHH---------------------HHHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSC--CTTEEEEE
T ss_pred             CCCHH---------------------HHHHHHHHHhhccccCCcEEEEECchhhcCHHHHHHHHHHhcCC--CCCeEEEE
Confidence            11221                     2223333332    246789999999753  22222    2222  45677777


Q ss_pred             EeCCcc-hhccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHH
Q 010355          281 TARSQD-VLSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTI  346 (512)
Q Consensus       281 TtR~~~-v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~i  346 (512)
                      +|.... +..........+.+.+++.++...++.+...   ..   .+.+..+++.++|.|..+..+
T Consensus       144 ~t~~~~~l~~ti~SRc~~~~~~~~~~~~~~~~L~~~~~---~~---~~~~~~l~~~s~G~~r~a~~~  204 (334)
T 1a5t_A          144 ATREPERLLATLRSRCRLHYLAPPPEQYAVTWLSREVT---MS---QDALLAALRLSAGSPGAALAL  204 (334)
T ss_dssp             EESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHCC---CC---HHHHHHHHHHTTTCHHHHHHT
T ss_pred             EeCChHhCcHHHhhcceeeeCCCCCHHHHHHHHHHhcC---CC---HHHHHHHHHHcCCCHHHHHHH
Confidence            776653 2222233446899999999999999988751   11   245678999999999866543

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.41  E-value=5.1e-06  Score=83.51  Aligned_cols=171  Identities=18%  Similarity=0.255  Sum_probs=98.2

Q ss_pred             ccccccchHHHHHHHHHhc-------------CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCH
Q 010355          148 YEAFESRMSTLNDVINALK-------------NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDV  214 (512)
Q Consensus       148 ~~~~~gR~~~l~~l~~~L~-------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  214 (512)
                      +..+.|-+..++.|.+.+.             -...+-|.++|++|+|||+||+++++.....     .+.++.+.-.+ 
T Consensus       180 ~~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~~~~-----~~~v~~s~l~s-  253 (437)
T 4b4t_L          180 FDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGAN-----FIFSPASGIVD-  253 (437)
T ss_dssp             SGGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCE-----EEEEEGGGTCC-
T ss_pred             hhHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCC-----EEEEehhhhcc-
Confidence            4556677776666655432             2345789999999999999999999987632     23344332111 


Q ss_pred             HHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh----------------h----hhhhCCCCCCC
Q 010355          215 KKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL----------------D----LENVGIPFGVR  274 (512)
Q Consensus       215 ~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~----------------~----~~~l~~~~~~~  274 (512)
                                   . ........+..++.......+++|+||+++...                .    +..+.......
T Consensus       254 -------------k-~~Gese~~ir~~F~~A~~~~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~  319 (437)
T 4b4t_L          254 -------------K-YIGESARIIREMFAYAKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFDNLG  319 (437)
T ss_dssp             -------------S-SSSHHHHHHHHHHHHHHHSCSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSSCTT
T ss_pred             -------------c-cchHHHHHHHHHHHHHHhcCCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhcccCCC
Confidence                         0 001112234444544545679999999996321                0    11111111134


Q ss_pred             CeEEEEEeCCcchhc-cccC---CccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCCh
Q 010355          275 GCRVLMTARSQDVLS-SKMD---CQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLP  340 (512)
Q Consensus       275 gs~iivTtR~~~v~~-~~~~---~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlP  340 (512)
                      +..||.||....... ....   -...+.++..+.++-.++|+.++.........  -...|++.+.|+-
T Consensus       320 ~vivI~ATNrp~~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~d~--dl~~lA~~t~G~s  387 (437)
T 4b4t_L          320 QTKIIMATNRPDTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKVKKTGEF--DFEAAVKMSDGFN  387 (437)
T ss_dssp             SSEEEEEESSTTSSCTTTTSTTSEEEEECCCCCCHHHHHHHHHHHHHTSCBCSCC--CHHHHHHTCCSCC
T ss_pred             CeEEEEecCCchhhCHHHhCCCccceeeecCCcCHHHHHHHHHHHhcCCCCCccc--CHHHHHHhCCCCC
Confidence            567777876654331 1111   23578888888888888888776432222211  1356778887753

>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=98.40  E-value=1.7e-06  Score=84.55  Aligned_cols=165  Identities=17%  Similarity=0.135  Sum_probs=93.3

Q ss_pred             HHHHHHHhcCC--CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCch
Q 010355          158 LNDVINALKNP--DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESES  235 (512)
Q Consensus       158 l~~l~~~L~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~  235 (512)
                      ...+..++...  ....+.|+|++|+||||||+.+++.....  -..++++++.      .+...+...+...       
T Consensus        23 ~~~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~~~~~--~~~~~~i~~~------~~~~~~~~~~~~~-------   87 (324)
T 1l8q_A           23 YEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKR--GYRVIYSSAD------DFAQAMVEHLKKG-------   87 (324)
T ss_dssp             HHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHT--TCCEEEEEHH------HHHHHHHHHHHHT-------
T ss_pred             HHHHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHHHHHHC--CCEEEEEEHH------HHHHHHHHHHHcC-------
Confidence            34444444433  34678999999999999999999887532  2234555432      3333333332110       


Q ss_pred             HHHHHHHHHHhCCCeEEEEEeCCCChh---h-hhhhCCCC---CCCCeEEEEEeCCcchh-----c---cccCCccceec
Q 010355          236 GRARKLCERLKKEKKILVILDDIWTNL---D-LENVGIPF---GVRGCRVLMTARSQDVL-----S---SKMDCQNNFLI  300 (512)
Q Consensus       236 ~~~~~l~~~l~~~k~~LlVlDdv~~~~---~-~~~l~~~~---~~~gs~iivTtR~~~v~-----~---~~~~~~~~~~l  300 (512)
                       ....+...+.  ++.+|+||++....   . ...+...+   ...+..||+||......     .   ........+.+
T Consensus        88 -~~~~~~~~~~--~~~vL~iDEi~~l~~~~~~~~~l~~~l~~~~~~~~~iii~~~~~~~~l~~l~~~L~sR~~~~~~i~l  164 (324)
T 1l8q_A           88 -TINEFRNMYK--SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGGILVEI  164 (324)
T ss_dssp             -CHHHHHHHHH--TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEEEEC
T ss_pred             -cHHHHHHHhc--CCCEEEEcCcccccCChHHHHHHHHHHHHHHHCCCeEEEEecCChHHHHHhhhHhhhcccCceEEEe
Confidence             0122233333  36799999996532   1 11121111   13456788888654221     0   01122256899


Q ss_pred             CCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHH
Q 010355          301 GVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAI  343 (512)
Q Consensus       301 ~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai  343 (512)
                      .| +.++...++...+..... .--.+....|++.+ |.+-.+
T Consensus       165 ~~-~~~e~~~il~~~~~~~~~-~l~~~~l~~l~~~~-g~~r~l  204 (324)
T 1l8q_A          165 EL-DNKTRFKIIKEKLKEFNL-ELRKEVIDYLLENT-KNVREI  204 (324)
T ss_dssp             CC-CHHHHHHHHHHHHHHTTC-CCCHHHHHHHHHHC-SSHHHH
T ss_pred             CC-CHHHHHHHHHHHHHhcCC-CCCHHHHHHHHHhC-CCHHHH
Confidence            99 999999999887642111 11135677888888 776543

>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=98.38  E-value=1.1e-06  Score=97.12  Aligned_cols=158  Identities=14%  Similarity=0.192  Sum_probs=90.0

Q ss_pred             cCccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCC-----CCeEEEEEeCCCCCHHHHHHH
Q 010355          146 KGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKL-----FDEVVYAEVSQRPDVKKIQGQ  220 (512)
Q Consensus       146 ~~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~-----f~~~~wv~~~~~~~~~~ll~~  220 (512)
                      ....+++||+.++..++..|.....+.+.|+|++|+|||+||+.+++.......     -..+++++++.-..       
T Consensus       167 ~~ld~viGr~~~i~~l~~~l~~~~~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~l~~-------  239 (854)
T 1qvr_A          167 GKLDPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLA-------  239 (854)
T ss_dssp             TCSCCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC------------
T ss_pred             CCCcccCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHHhhc-------
Confidence            445678999999999999998766667899999999999999999988643111     12334443322110       


Q ss_pred             HHHHhCCCCCCCCchHHHHHHHHHHhC-CCeEEEEEeCCCChhh-------hhh---hCCCCCCCCeEEEEEeCCcch--
Q 010355          221 IADKLGLKFYEESESGRARKLCERLKK-EKKILVILDDIWTNLD-------LEN---VGIPFGVRGCRVLMTARSQDV--  287 (512)
Q Consensus       221 i~~~l~~~~~~~~~~~~~~~l~~~l~~-~k~~LlVlDdv~~~~~-------~~~---l~~~~~~~gs~iivTtR~~~v--  287 (512)
                           +.. ........+..+...+.. +++.+|+||++.....       +..   +...+...+..+|.||.....  
T Consensus       240 -----g~~-~~g~~~~~l~~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~g~~~~~~~L~~~l~~~~i~~I~at~~~~~~~  313 (854)
T 1qvr_A          240 -----GAK-YRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALARGELRLIGATTLDEYRE  313 (854)
T ss_dssp             ------------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHHTTCCCEEEEECHHHHHH
T ss_pred             -----cCc-cchHHHHHHHHHHHHHHhcCCCeEEEEecHHHHhccCCccchHHHHHHHHHHHhCCCeEEEEecCchHHhh
Confidence                 000 001112233444455543 3689999999975420       111   100011334556666553321  


Q ss_pred             ---hccccCCccceecCCCCHHHHHHHHHHHh
Q 010355          288 ---LSSKMDCQNNFLIGVLNESEARDLFKKLV  316 (512)
Q Consensus       288 ---~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~  316 (512)
                         ..........+.+.+++.++...++....
T Consensus       314 ~~~d~aL~rRf~~i~l~~p~~~e~~~iL~~~~  345 (854)
T 1qvr_A          314 IEKDPALERRFQPVYVDEPTVEETISILRGLK  345 (854)
T ss_dssp             HTTCTTTCSCCCCEEECCCCHHHHHHHHHHHH
T ss_pred             hccCHHHHhCCceEEeCCCCHHHHHHHHHhhh
Confidence               11122333468999999999999997543

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.38  E-value=9.1e-06  Score=81.53  Aligned_cols=170  Identities=15%  Similarity=0.165  Sum_probs=98.8

Q ss_pred             ccccccchHHHHHHHHHhc-------------CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCH
Q 010355          148 YEAFESRMSTLNDVINALK-------------NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDV  214 (512)
Q Consensus       148 ~~~~~gR~~~l~~l~~~L~-------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  214 (512)
                      ...+.|-+..++.|.+.+.             -...+-|.++|++|+|||+||+++++.....     .+.++.+.-.+ 
T Consensus       208 ~~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~~~~-----fi~vs~s~L~s-  281 (467)
T 4b4t_H          208 YSDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDAT-----FIRVIGSELVQ-  281 (467)
T ss_dssp             CSSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHHTCE-----EEEEEGGGGCC-
T ss_pred             HHHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhccCCC-----eEEEEhHHhhc-
Confidence            3456677777766655432             2356789999999999999999999987632     23343332110 


Q ss_pred             HHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh----------------h----hhhhCCCCCCC
Q 010355          215 KKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL----------------D----LENVGIPFGVR  274 (512)
Q Consensus       215 ~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~----------------~----~~~l~~~~~~~  274 (512)
                                   . ........+..++.......+++|++|++....                .    +..+.......
T Consensus       282 -------------k-~vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~  347 (467)
T 4b4t_H          282 -------------K-YVGEGARMVRELFEMARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDPRG  347 (467)
T ss_dssp             -------------C-SSSHHHHHHHHHHHHHHHTCSEEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSSCCTT
T ss_pred             -------------c-cCCHHHHHHHHHHHHHHhcCCceEeecccccccccccCcCCCccHHHHHHHHHHHHHhhccCCCC
Confidence                         0 001112234445555555679999999986331                0    11121111234


Q ss_pred             CeEEEEEeCCcchhc----cccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCC
Q 010355          275 GCRVLMTARSQDVLS----SKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGL  339 (512)
Q Consensus       275 gs~iivTtR~~~v~~----~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~Gl  339 (512)
                      +..||.||.......    +...-...+.++..+.++-.++|+.++.........  -...|++.|.|.
T Consensus       348 ~ViVIaATNrpd~LDpALlRpGRFD~~I~i~lPd~~~R~~Ilk~~l~~~~l~~dv--dl~~LA~~T~Gf  414 (467)
T 4b4t_H          348 NIKVMFATNRPNTLDPALLRPGRIDRKVEFSLPDLEGRANIFRIHSKSMSVERGI--RWELISRLCPNS  414 (467)
T ss_dssp             TEEEEEECSCTTSBCHHHHSTTTCCEEECCCCCCHHHHHHHHHHHHTTSCBCSSC--CHHHHHHHCCSC
T ss_pred             cEEEEeCCCCcccCChhhhccccccEEEEeCCcCHHHHHHHHHHHhcCCCCCCCC--CHHHHHHHCCCC
Confidence            556677776544321    111234678888888898899998877543322221  135677888875

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.37  E-value=3.5e-06  Score=84.57  Aligned_cols=171  Identities=15%  Similarity=0.175  Sum_probs=97.3

Q ss_pred             CccccccchHHHHHHHHHhc-------------CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCC
Q 010355          147 GYEAFESRMSTLNDVINALK-------------NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPD  213 (512)
Q Consensus       147 ~~~~~~gR~~~l~~l~~~L~-------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  213 (512)
                      .+..+.|-+..++.|.+.+.             -...+-|.++|++|+|||.||+++++.....     .+.++.+.-.+
T Consensus       179 t~~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~~~~-----f~~v~~s~l~~  253 (434)
T 4b4t_M          179 TYSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNAT-----FLKLAAPQLVQ  253 (434)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCE-----EEEEEGGGGCS
T ss_pred             ChHhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHhCCC-----EEEEehhhhhh
Confidence            45667788877777765432             1346789999999999999999999987632     23343332110


Q ss_pred             HHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh--------------------hhhhhCCCCCC
Q 010355          214 VKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL--------------------DLENVGIPFGV  273 (512)
Q Consensus       214 ~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~--------------------~~~~l~~~~~~  273 (512)
                                    . ........+..++.......+++|++|++....                    -+..+......
T Consensus       254 --------------~-~vGese~~ir~lF~~A~~~aP~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~~~  318 (434)
T 4b4t_M          254 --------------M-YIGEGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFSSD  318 (434)
T ss_dssp             --------------S-CSSHHHHHHHHHHHHHHHHCSEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSCSS
T ss_pred             --------------c-ccchHHHHHHHHHHHHHhcCCeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhccCCC
Confidence                          0 001112233444444444578999999984220                    01112111113


Q ss_pred             CCeEEEEEeCCcchhccc-c---CCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCC
Q 010355          274 RGCRVLMTARSQDVLSSK-M---DCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGL  339 (512)
Q Consensus       274 ~gs~iivTtR~~~v~~~~-~---~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~Gl  339 (512)
                      .+..||.||......... .   .-...+.++..+.++-.++|+.++......+..  -...|++.|.|.
T Consensus       319 ~~ViVIaaTNrp~~LD~AllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~dv--dl~~lA~~t~G~  386 (434)
T 4b4t_M          319 DRVKVLAATNRVDVLDPALLRSGRLDRKIEFPLPSEDSRAQILQIHSRKMTTDDDI--NWQELARSTDEF  386 (434)
T ss_dssp             CSSEEEEECSSCCCCCTTTCSTTSEEEEEECCCCCHHHHHHHHHHHHHHSCBCSCC--CHHHHHHHCSSC
T ss_pred             CCEEEEEeCCCchhcCHhHhcCCceeEEEEeCCcCHHHHHHHHHHHhcCCCCCCcC--CHHHHHHhCCCC
Confidence            455666677665433111 1   223578888888888888887766422211111  135677888775

>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=98.32  E-value=8.5e-06  Score=89.07  Aligned_cols=158  Identities=18%  Similarity=0.212  Sum_probs=95.5

Q ss_pred             cCccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCC----CCeEEE-EEeCCCCCHHHHHHH
Q 010355          146 KGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKL----FDEVVY-AEVSQRPDVKKIQGQ  220 (512)
Q Consensus       146 ~~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~----f~~~~w-v~~~~~~~~~~ll~~  220 (512)
                      .....++||+.++..+...|.......+.|+|++|+|||+||+.++........    ....+| +.++.-         
T Consensus       183 ~~~d~~iGr~~~i~~l~~~l~~~~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~~~l---------  253 (758)
T 1r6b_X          183 GGIDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSL---------  253 (758)
T ss_dssp             TCSCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC-----------
T ss_pred             CCCCCccCCHHHHHHHHHHHhccCCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcHHHH---------
Confidence            345678999999999999998767778899999999999999999987643211    122222 221110         


Q ss_pred             HHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCCh----------hh-hhhhCCCCCCCCeEEEEEeCCcchh-
Q 010355          221 IADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTN----------LD-LENVGIPFGVRGCRVLMTARSQDVL-  288 (512)
Q Consensus       221 i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~----------~~-~~~l~~~~~~~gs~iivTtR~~~v~-  288 (512)
                          +...............+...+...++.+|+||++...          .. ...+...+...+.++|.+|...... 
T Consensus       254 ----~~~~~~~g~~e~~l~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~~~~~~~~~~L~~~l~~~~~~~I~at~~~~~~~  329 (758)
T 1r6b_X          254 ----LAGTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSGKIRVIGSTTYQEFSN  329 (758)
T ss_dssp             -----CCCCCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSSCCCEEEEEECHHHHHC
T ss_pred             ----hccccccchHHHHHHHHHHHHHhcCCeEEEEechHHHhhcCCCCcchHHHHHHHHHHHhCCCeEEEEEeCchHHhh
Confidence                0000011122233445555555556799999999754          11 2223222234456677766543211 


Q ss_pred             -----ccccCCccceecCCCCHHHHHHHHHHHh
Q 010355          289 -----SSKMDCQNNFLIGVLNESEARDLFKKLV  316 (512)
Q Consensus       289 -----~~~~~~~~~~~l~~L~~~ea~~Lf~~~~  316 (512)
                           .........+.+.+.+.++..+++....
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                 1111223468899999999988887654

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.32  E-value=1.2e-05  Score=79.82  Aligned_cols=171  Identities=18%  Similarity=0.188  Sum_probs=97.7

Q ss_pred             CccccccchHHHHHHHHHhc-------------CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCC
Q 010355          147 GYEAFESRMSTLNDVINALK-------------NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPD  213 (512)
Q Consensus       147 ~~~~~~gR~~~l~~l~~~L~-------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  213 (512)
                      .+..+.|-+..++.|.+.+.             -...+-|.++|++|+|||.||+++++.....     .+.++.+.-. 
T Consensus       180 ~~~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~~~-----fi~v~~s~l~-  253 (437)
T 4b4t_I          180 SYSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSAT-----FLRIVGSELI-  253 (437)
T ss_dssp             CGGGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHHTCE-----EEEEESGGGC-
T ss_pred             cceecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHhCCC-----EEEEEHHHhh-
Confidence            35556677776666655432             1345789999999999999999999987632     2333332211 


Q ss_pred             HHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh----------------h----hhhhCCCCCC
Q 010355          214 VKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL----------------D----LENVGIPFGV  273 (512)
Q Consensus       214 ~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~----------------~----~~~l~~~~~~  273 (512)
                                   .. ........+..++.......+++|+||+++...                .    +..+......
T Consensus       254 -------------sk-~vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~~~~  319 (437)
T 4b4t_I          254 -------------QK-YLGDGPRLCRQIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDDR  319 (437)
T ss_dssp             -------------CS-SSSHHHHHHHHHHHHHHHTCSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHCCCS
T ss_pred             -------------hc-cCchHHHHHHHHHHHHHhcCCcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCcCCC
Confidence                         00 011112234445555555678999999985321                0    1111111113


Q ss_pred             CCeEEEEEeCCcchhcc-cc---CCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCC
Q 010355          274 RGCRVLMTARSQDVLSS-KM---DCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGL  339 (512)
Q Consensus       274 ~gs~iivTtR~~~v~~~-~~---~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~Gl  339 (512)
                      .+..||.||........ ..   .-...+.++.-+.++-.++|..++.........  -...|++.+.|.
T Consensus       320 ~~ViVIaATNrpd~LDpALlRpGRfD~~I~v~lPd~~~R~~Il~~~l~~~~l~~dv--dl~~LA~~T~Gf  387 (437)
T 4b4t_I          320 GDVKVIMATNKIETLDPALIRPGRIDRKILFENPDLSTKKKILGIHTSKMNLSEDV--NLETLVTTKDDL  387 (437)
T ss_dssp             SSEEEEEEESCSTTCCTTSSCTTTEEEEECCCCCCHHHHHHHHHHHHTTSCBCSCC--CHHHHHHHCCSC
T ss_pred             CCEEEEEeCCChhhcCHHHhcCCceeEEEEcCCcCHHHHHHHHHHHhcCCCCCCcC--CHHHHHHhCCCC
Confidence            45667777766554311 11   122467888888888889998877543222211  135677788775

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=98.29  E-value=2.9e-06  Score=92.66  Aligned_cols=151  Identities=15%  Similarity=0.200  Sum_probs=88.6

Q ss_pred             CccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCC---C-Ce-EEEEEeCCCCCHHHHHHHH
Q 010355          147 GYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKL---F-DE-VVYAEVSQRPDVKKIQGQI  221 (512)
Q Consensus       147 ~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~---f-~~-~~wv~~~~~~~~~~ll~~i  221 (512)
                      ...+++||+.++..+...|......-+.|+|++|+|||++|+.+++.......   . .+ ++.++.             
T Consensus       178 ~ld~iiG~~~~i~~l~~~l~~~~~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~~-------------  244 (758)
T 3pxi_A          178 SLDPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDM-------------  244 (758)
T ss_dssp             CSCCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC---------------
T ss_pred             CCCCccCchHHHHHHHHHHhCCCCCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEecc-------------
Confidence            45679999999999999998766677899999999999999999988632110   0 11 222222             


Q ss_pred             HHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChhhhhhhCCCCCCCCeEEEEEeCCcch------hccccCCc
Q 010355          222 ADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNLDLENVGIPFGVRGCRVLMTARSQDV------LSSKMDCQ  295 (512)
Q Consensus       222 ~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~~~~l~~~~~~~gs~iivTtR~~~v------~~~~~~~~  295 (512)
                          +..... .....+..+...+...++.+|++|  ........+...+.....++|.||.....      ........
T Consensus       245 ----g~~~~G-~~e~~l~~~~~~~~~~~~~iLfiD--~~~~~~~~L~~~l~~~~v~~I~at~~~~~~~~~~~d~al~rRf  317 (758)
T 3pxi_A          245 ----GTKYRG-EFEDRLKKVMDEIRQAGNIILFID--AAIDASNILKPSLARGELQCIGATTLDEYRKYIEKDAALERRF  317 (758)
T ss_dssp             -------------CTTHHHHHHHHHTCCCCEEEEC--C--------CCCTTSSSCEEEEECCTTTTHHHHTTCSHHHHSE
T ss_pred             ----cccccc-hHHHHHHHHHHHHHhcCCEEEEEc--CchhHHHHHHHHHhcCCEEEEeCCChHHHHHHhhccHHHHhhC
Confidence                000000 011123444555555678999999  22222222322222445667766665441      11111233


Q ss_pred             cceecCCCCHHHHHHHHHHHhC
Q 010355          296 NNFLIGVLNESEARDLFKKLVG  317 (512)
Q Consensus       296 ~~~~l~~L~~~ea~~Lf~~~~~  317 (512)
                      ..+.+.+.+.++...++.....
T Consensus       318 ~~i~v~~p~~~~~~~il~~~~~  339 (758)
T 3pxi_A          318 QPIQVDQPSVDESIQILQGLRD  339 (758)
T ss_dssp             EEEECCCCCHHHHHHHHHHTTT
T ss_pred             cEEEeCCCCHHHHHHHHHHHHH
Confidence            5689999999999999987653

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=98.26  E-value=2.6e-05  Score=73.27  Aligned_cols=179  Identities=19%  Similarity=0.224  Sum_probs=96.5

Q ss_pred             cCccccccchHHHHHHHHH---hcC---------CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCC
Q 010355          146 KGYEAFESRMSTLNDVINA---LKN---------PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPD  213 (512)
Q Consensus       146 ~~~~~~~gR~~~l~~l~~~---L~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  213 (512)
                      .....++|.+..++.|...   +..         ...+-+.|+|++|+||||||+.+++....  .   .+.++.+.-..
T Consensus         9 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~--~---~~~i~~~~~~~   83 (257)
T 1lv7_A            9 TTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKV--P---FFTISGSDFVE   83 (257)
T ss_dssp             CCGGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTC--C---EEEECSCSSTT
T ss_pred             CCHHHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcCC--C---EEEEeHHHHHH
Confidence            3455678887766655443   321         12356889999999999999999987642  2   23333222110


Q ss_pred             HHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh----------------hhhh----hCCCCCC
Q 010355          214 VKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL----------------DLEN----VGIPFGV  273 (512)
Q Consensus       214 ~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~----------------~~~~----l~~~~~~  273 (512)
                                    ... .........+.+......+.++++|++....                .+..    +......
T Consensus        84 --------------~~~-~~~~~~~~~~~~~a~~~~~~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~  148 (257)
T 1lv7_A           84 --------------MFV-GVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGN  148 (257)
T ss_dssp             --------------SCC-CCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSS
T ss_pred             --------------Hhh-hhhHHHHHHHHHHHHHcCCeeehhhhhhhhccCCCCCcCCCchHHHHHHHHHHHHhhCcccC
Confidence                          000 1112233444444444567899999983210                0111    1111123


Q ss_pred             CCeEEEEEeCCcchh-cccc---CCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCC-ChhHHHHH
Q 010355          274 RGCRVLMTARSQDVL-SSKM---DCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRG-LPIAIVTI  346 (512)
Q Consensus       274 ~gs~iivTtR~~~v~-~~~~---~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~G-lPLai~~i  346 (512)
                      .+..||.||...... ....   .-...+.+.+.+.++-.+++..++......+..  ....++..+.| .+--|..+
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 EGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDI--DAAIIARGTPGFSGADLANL  224 (257)
T ss_dssp             SCEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTC--CHHHHHHTCTTCCHHHHHHH
T ss_pred             CCEEEEEeeCCchhCCHHHcCCCcCCeEEEeCCCCHHHHHHHHHHHHhcCCCCccc--cHHHHHHHcCCCCHHHHHHH
Confidence            456677777655422 1111   112467777888888888888776432221111  13456777777 66555443

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.26  E-value=1.2e-05  Score=80.58  Aligned_cols=171  Identities=18%  Similarity=0.194  Sum_probs=93.0

Q ss_pred             CccccccchHHHHHHHHHhc-------------CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCC
Q 010355          147 GYEAFESRMSTLNDVINALK-------------NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPD  213 (512)
Q Consensus       147 ~~~~~~gR~~~l~~l~~~L~-------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  213 (512)
                      ....+.|-+..++.|.+.+.             -...+-|.++|++|+|||+||+++++.....     .+.++.+.-.+
T Consensus       170 ~~~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~~~~-----~~~v~~~~l~~  244 (428)
T 4b4t_K          170 TYADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAA-----FIRVNGSEFVH  244 (428)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHHTCE-----EEEEEGGGTCC
T ss_pred             CHHHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHhCCC-----eEEEecchhhc
Confidence            34566777777766665442             1345779999999999999999999987632     23344332111


Q ss_pred             HHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh----------------hhh----hhCCCCCC
Q 010355          214 VKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL----------------DLE----NVGIPFGV  273 (512)
Q Consensus       214 ~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~----------------~~~----~l~~~~~~  273 (512)
                                    . ........+..++...+...+++|++|++....                .+.    .+......
T Consensus       245 --------------~-~~Ge~e~~ir~lF~~A~~~aP~IifiDEiD~i~~~R~~~~~~~~~~~~r~l~~lL~~ldg~~~~  309 (428)
T 4b4t_K          245 --------------K-YLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFDQS  309 (428)
T ss_dssp             --------------S-SCSHHHHHHHHHHHHHHHTCSEEEEEECTHHHHCSCSSSCSCCCCHHHHHHHHHHHHHHHSCSS
T ss_pred             --------------c-ccchhHHHHHHHHHHHHHcCCCeeechhhhhhhccccCCCCCCChHHHHHHHHHHHHhhCCCCC
Confidence                          0 001112234445555555678999999984210                011    11111124


Q ss_pred             CCeEEEEEeCCcchhc-ccc---CCccceecCCCCH-HHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCC
Q 010355          274 RGCRVLMTARSQDVLS-SKM---DCQNNFLIGVLNE-SEARDLFKKLVGDKIENNDLKSLAMNIVKACRGL  339 (512)
Q Consensus       274 ~gs~iivTtR~~~v~~-~~~---~~~~~~~l~~L~~-~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~Gl  339 (512)
                      .+..||.||....... ...   .-...+.+..++. .+-..+|..++......++.  -...|++.|.|.
T Consensus       310 ~~v~vI~aTN~~~~LD~AllRpGRfd~~I~~p~lPd~~~R~~Il~~~~~~~~l~~~~--dl~~lA~~t~G~  378 (428)
T 4b4t_K          310 TNVKVIMATNRADTLDPALLRPGRLDRKIEFPSLRDRRERRLIFGTIASKMSLAPEA--DLDSLIIRNDSL  378 (428)
T ss_dssp             CSEEEEEEESCSSSCCHHHHSSSSEEEEEECCSSCCHHHHHHHHHHHHHSSCBCTTC--CHHHHHHHTTTC
T ss_pred             CCEEEEEecCChhhcChhhhcCCcceEEEEcCCCCCHHHHHHHHHHHhcCCCCCccc--CHHHHHHHCCCC
Confidence            4567777886654321 111   1224677765654 44555666555322211111  135677788775

>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=98.12  E-value=2.6e-05  Score=75.07  Aligned_cols=143  Identities=15%  Similarity=0.086  Sum_probs=87.1

Q ss_pred             cchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhc-CCCCeEEEEEeCC-CCCHHHHHHHHHHHhCCCCC
Q 010355          153 SRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKAD-KLFDEVVYAEVSQ-RPDVKKIQGQIADKLGLKFY  230 (512)
Q Consensus       153 gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~-~~f~~~~wv~~~~-~~~~~~ll~~i~~~l~~~~~  230 (512)
                      |.+..+..|...+..+..+.+.++|++|+||||+|..+++..... .....+.++..+. ..+... .+.++..+...+.
T Consensus         1 g~~~~~~~L~~~i~~~~~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~~~~~~~~id~-ir~li~~~~~~p~   79 (305)
T 2gno_A            1 GAKDQLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDD-IRTIKDFLNYSPE   79 (305)
T ss_dssp             ---CHHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHH-HHHHHHHHTSCCS
T ss_pred             ChHHHHHHHHHHHHCCCCcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEcCCcCCCCHHH-HHHHHHHHhhccc
Confidence            344566777777776667899999999999999999998753211 1122335555442 233333 2334444332111


Q ss_pred             CCCchHHHHHHHHHHhCCCeEEEEEeCCCCh--hhhhhh----CCCCCCCCeEEEEEeCCcc-hhccccCCccceecCCC
Q 010355          231 EESESGRARKLCERLKKEKKILVILDDIWTN--LDLENV----GIPFGVRGCRVLMTARSQD-VLSSKMDCQNNFLIGVL  303 (512)
Q Consensus       231 ~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~l----~~~~~~~gs~iivTtR~~~-v~~~~~~~~~~~~l~~L  303 (512)
                                      .+++-++|+|++...  ...+.+    -.|  .+.+.+|++|.+.. +... .... .+++.++
T Consensus        80 ----------------~~~~kvviIdead~lt~~a~naLLk~LEep--~~~t~fIl~t~~~~kl~~t-I~SR-~~~f~~l  139 (305)
T 2gno_A           80 ----------------LYTRKYVIVHDCERMTQQAANAFLKALEEP--PEYAVIVLNTRRWHYLLPT-IKSR-VFRVVVN  139 (305)
T ss_dssp             ----------------SSSSEEEEETTGGGBCHHHHHHTHHHHHSC--CTTEEEEEEESCGGGSCHH-HHTT-SEEEECC
T ss_pred             ----------------cCCceEEEeccHHHhCHHHHHHHHHHHhCC--CCCeEEEEEECChHhChHH-HHce-eEeCCCC
Confidence                            145678999999643  223322    222  45677777775543 2222 2223 8999999


Q ss_pred             CHHHHHHHHHHHh
Q 010355          304 NESEARDLFKKLV  316 (512)
Q Consensus       304 ~~~ea~~Lf~~~~  316 (512)
                      +.++....+.+.+
T Consensus       140 ~~~~i~~~L~~~~  152 (305)
T 2gno_A          140 VPKEFRDLVKEKI  152 (305)
T ss_dssp             CCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHh
Confidence            9999999998876

>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=98.11  E-value=5.3e-05  Score=77.80  Aligned_cols=177  Identities=14%  Similarity=0.177  Sum_probs=101.1

Q ss_pred             ccccccchHHHHHHHHHhc-------------CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCH
Q 010355          148 YEAFESRMSTLNDVINALK-------------NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDV  214 (512)
Q Consensus       148 ~~~~~gR~~~l~~l~~~L~-------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  214 (512)
                      ...++|....+++|.+++.             ....+.|.|+|++|+|||+||+.+++...  .   ..+.++++     
T Consensus       203 ~~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~~--~---~fv~vn~~-----  272 (489)
T 3hu3_A          203 YDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG--A---FFFLINGP-----  272 (489)
T ss_dssp             GGGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHCS--S---EEEEEEHH-----
T ss_pred             HHHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHhC--C---CEEEEEch-----
Confidence            4568899988888877664             23456799999999999999999988753  1   22334321     


Q ss_pred             HHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh----------------h-hhhhCCCCCCCCeE
Q 010355          215 KKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL----------------D-LENVGIPFGVRGCR  277 (512)
Q Consensus       215 ~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~----------------~-~~~l~~~~~~~gs~  277 (512)
                       .+    ...+    . .........++.....+++.+|+||++....                . +..+.......+.+
T Consensus       273 -~l----~~~~----~-g~~~~~~~~~f~~A~~~~p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~~~~~~v~  342 (489)
T 3hu3_A          273 -EI----MSKL----A-GESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVI  342 (489)
T ss_dssp             -HH----HTSC----T-THHHHHHHHHHHHHHHTCSEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHSCTTSCEE
T ss_pred             -Hh----hhhh----c-chhHHHHHHHHHHHHhcCCcEEEecchhhhccccccccchHHHHHHHHHHHHhhccccCCceE
Confidence             11    1111    0 0111223334444444678999999983210                0 11111111134566


Q ss_pred             EEEEeCCcchh-cccc---CCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCC-hhHHHHH
Q 010355          278 VLMTARSQDVL-SSKM---DCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGL-PIAIVTI  346 (512)
Q Consensus       278 iivTtR~~~v~-~~~~---~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~Gl-PLai~~i  346 (512)
                      ||.||...... ....   .-...+.+.+.+.++-.++|..++........  .....++..+.|. +-.|..+
T Consensus       343 vIaaTn~~~~Ld~al~r~gRf~~~i~i~~P~~~eR~~IL~~~~~~~~l~~~--~~l~~la~~t~g~s~~dL~~L  414 (489)
T 3hu3_A          343 VMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADD--VDLEQVANETHGHVGADLAAL  414 (489)
T ss_dssp             EEEEESCGGGBCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHTTTSCBCTT--CCHHHHHHTCTTCCHHHHHHH
T ss_pred             EEEecCCccccCHHHhCCCcCceEEEeCCCCHHHHHHHHHHHHhcCCCcch--hhHHHHHHHccCCcHHHHHHH
Confidence            77777655321 1111   12246889999999999999988753322111  1134677777775 5445444

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=98.10  E-value=6.6e-06  Score=74.23  Aligned_cols=112  Identities=14%  Similarity=0.108  Sum_probs=62.4

Q ss_pred             HHHHHHHHHhcCC----CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCC
Q 010355          156 STLNDVINALKNP----DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYE  231 (512)
Q Consensus       156 ~~l~~l~~~L~~~----~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~  231 (512)
                      ..+..+..++...    ..+.+.|+|++|+|||+||+.+++.....  ...++|++++      .+...+...+..    
T Consensus        36 ~~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~~~~~~--~~~~~~~~~~------~~~~~~~~~~~~----  103 (202)
T 2w58_A           36 KAIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANELAKR--NVSSLIVYVP------ELFRELKHSLQD----  103 (202)
T ss_dssp             HHHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHHHHHTT--TCCEEEEEHH------HHHHHHHHC-------
T ss_pred             HHHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHHHHHHc--CCeEEEEEhH------HHHHHHHHHhcc----
Confidence            3445555555522    12789999999999999999999887632  3456666543      444444433211    


Q ss_pred             CCchHHHHHHHHHHhCCCeEEEEEeCCCCh--hhhhhh--CC-CCC---CCCeEEEEEeCCc
Q 010355          232 ESESGRARKLCERLKKEKKILVILDDIWTN--LDLENV--GI-PFG---VRGCRVLMTARSQ  285 (512)
Q Consensus       232 ~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~l--~~-~~~---~~gs~iivTtR~~  285 (512)
                      ..    ...+...+..  .-+||||+++..  ..|..-  .. .+.   ..+.++|+||...
T Consensus       104 ~~----~~~~~~~~~~--~~~lilDei~~~~~~~~~~~~ll~~~l~~~~~~~~~~i~tsn~~  159 (202)
T 2w58_A          104 QT----MNEKLDYIKK--VPVLMLDDLGAEAMSSWVRDDVFGPILQYRMFENLPTFFTSNFD  159 (202)
T ss_dssp             CC----CHHHHHHHHH--SSEEEEEEECCC---CCGGGTTHHHHHHHHHHTTCCEEEEESSC
T ss_pred             ch----HHHHHHHhcC--CCEEEEcCCCCCcCCHHHHHHHHHHHHHHHHhCCCCEEEEcCCC
Confidence            11    1223334432  249999999542  222211  00 011   2456788888754

>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=98.05  E-value=4e-06  Score=74.24  Aligned_cols=115  Identities=15%  Similarity=0.090  Sum_probs=64.1

Q ss_pred             chHHHHHHHHHhcC---CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC
Q 010355          154 RMSTLNDVINALKN---PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFY  230 (512)
Q Consensus       154 R~~~l~~l~~~L~~---~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~  230 (512)
                      +...+..+..++.+   .....+.|+|++|+|||||++.++........+ .+++++      ..+++..+.........
T Consensus        19 ~~~~~~~~~~~~~~~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~-~~~~~~------~~~~~~~~~~~~~~~~~   91 (180)
T 3ec2_A           19 QNRALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGI-RGYFFD------TKDLIFRLKHLMDEGKD   91 (180)
T ss_dssp             HHHHHHHHHHHHHSCCGGGCCEEEECCSSSSSHHHHHHHHHHHHHHHSCC-CCCEEE------HHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHHHhccccCCCEEEEECCCCCCHHHHHHHHHHHHHHHcCC-eEEEEE------HHHHHHHHHHHhcCchH
Confidence            44455555555542   234789999999999999999999887522222 233443      34445444433321110


Q ss_pred             CCCchHHHHHHHHHHhCCCeEEEEEeCCCC--hhhhh-----hhCCCCCCCCeEEEEEeCCc
Q 010355          231 EESESGRARKLCERLKKEKKILVILDDIWT--NLDLE-----NVGIPFGVRGCRVLMTARSQ  285 (512)
Q Consensus       231 ~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~--~~~~~-----~l~~~~~~~gs~iivTtR~~  285 (512)
                          .    .+...+.  ++-+||||+++.  ...|.     .+.......|..+|+||...
T Consensus        92 ----~----~~~~~~~--~~~llilDE~~~~~~~~~~~~~l~~ll~~~~~~~~~ii~tsn~~  143 (180)
T 3ec2_A           92 ----T----KFLKTVL--NSPVLVLDDLGSERLSDWQRELISYIITYRYNNLKSTIITTNYS  143 (180)
T ss_dssp             ----S----HHHHHHH--TCSEEEEETCSSSCCCHHHHHHHHHHHHHHHHTTCEEEEECCCC
T ss_pred             ----H----HHHHHhc--CCCEEEEeCCCCCcCCHHHHHHHHHHHHHHHHcCCCEEEEcCCC
Confidence                0    2333343  467999999973  22222     11111113567888888754

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=98.05  E-value=2.8e-06  Score=72.39  Aligned_cols=46  Identities=15%  Similarity=0.211  Sum_probs=35.5

Q ss_pred             ccccchHHHHHHHHHhc--CCCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          150 AFESRMSTLNDVINALK--NPDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       150 ~~~gR~~~l~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .++|+...+.++...+.  ......|.|+|.+|+|||+||+.+++...
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~~~~~vll~G~~GtGKt~lA~~i~~~~~   49 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSETDIAVWLYGAPGTGRMTGARYLHQFGR   49 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTTCCSCEEEESSTTSSHHHHHHHHHHSST
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCCHHHHHHHHHHhCC
Confidence            47888888888887764  23335578999999999999999988653

>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=98.01  E-value=0.00016  Score=73.73  Aligned_cols=197  Identities=17%  Similarity=0.233  Sum_probs=106.7

Q ss_pred             ccccccchHHHHHHHHH---hcC---------CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHH
Q 010355          148 YEAFESRMSTLNDVINA---LKN---------PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVK  215 (512)
Q Consensus       148 ~~~~~gR~~~l~~l~~~---L~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  215 (512)
                      ...++|.+..+.+|.+.   +..         .-.+-|.|+|++|+|||+||+.++.....  .   .+.++.+..... 
T Consensus        15 f~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~~~--~---f~~is~~~~~~~-   88 (476)
T 2ce7_A           15 FKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANV--P---FFHISGSDFVEL-   88 (476)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHHTC--C---EEEEEGGGTTTC-
T ss_pred             HHHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHcCC--C---eeeCCHHHHHHH-
Confidence            45677877765555443   322         12345889999999999999999987642  1   233443322110 


Q ss_pred             HHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh----------------hhhhhCCC---C-CCCC
Q 010355          216 KIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL----------------DLENVGIP---F-GVRG  275 (512)
Q Consensus       216 ~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~----------------~~~~l~~~---~-~~~g  275 (512)
                               +    . .........++.......+++|+||++....                .+..+...   + ...+
T Consensus        89 ---------~----~-g~~~~~~r~lf~~A~~~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~~~~  154 (476)
T 2ce7_A           89 ---------F----V-GVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSKEG  154 (476)
T ss_dssp             ---------C----T-THHHHHHHHHHHHHHHTCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCGGGT
T ss_pred             ---------H----h-cccHHHHHHHHHHHHhcCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCCCCC
Confidence                     0    0 0011223344444444578999999985320                11222110   1 1346


Q ss_pred             eEEEEEeCCcchhc-cccC---CccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChh-HHHHHHH--
Q 010355          276 CRVLMTARSQDVLS-SKMD---CQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPI-AIVTIAR--  348 (512)
Q Consensus       276 s~iivTtR~~~v~~-~~~~---~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPL-ai~~ia~--  348 (512)
                      ..||.||....... ....   -...+.+.+.+..+-.++|..++......+..  ....|++.+.|+.- -|..+..  
T Consensus       155 viVIaaTn~~~~Ld~allR~gRFd~~i~i~~Pd~~~R~~Il~~~~~~~~l~~~v--~l~~la~~t~G~sgadL~~lv~~A  232 (476)
T 2ce7_A          155 IIVMAATNRPDILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNKPLAEDV--NLEIIAKRTPGFVGADLENLVNEA  232 (476)
T ss_dssp             EEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTC--CHHHHHHTCTTCCHHHHHHHHHHH
T ss_pred             EEEEEecCChhhhchhhcccCcceeEeecCCCCHHHHHHHHHHHHHhCCCcchh--hHHHHHHhcCCCcHHHHHHHHHHH
Confidence            67777777654331 1111   22377888888888888888777533222211  13457888888772 2322211  


Q ss_pred             -Hhc---cC---CHHHHHHHHHHhc
Q 010355          349 -ALR---NK---NTFEWKSALRELT  366 (512)
Q Consensus       349 -~L~---~~---~~~~w~~~l~~l~  366 (512)
                       .+.   ++   +...+...+....
T Consensus       233 al~A~~~~~~~I~~~dl~~al~~v~  257 (476)
T 2ce7_A          233 ALLAAREGRDKITMKDFEEAIDRVI  257 (476)
T ss_dssp             HHHHHHTTCSSBCHHHHHHHHHHHC
T ss_pred             HHHHHHcCCCeecHHHHHHHHHHHh
Confidence             111   11   5666777776654

>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=97.97  E-value=0.0002  Score=69.94  Aligned_cols=192  Identities=17%  Similarity=0.146  Sum_probs=103.3

Q ss_pred             cCccccccchHHHHHHHHHhcC-----CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHH
Q 010355          146 KGYEAFESRMSTLNDVINALKN-----PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQ  220 (512)
Q Consensus       146 ~~~~~~~gR~~~l~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~  220 (512)
                      .....++|+...+..+...+..     .....++|+|++|+||||||+.++......  |   ...+.+-......    
T Consensus        22 ~~l~~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l~~~--~---~~~sg~~~~~~~~----   92 (334)
T 1in4_A           22 KSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTN--I---HVTSGPVLVKQGD----   92 (334)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTCC--E---EEEETTTCCSHHH----
T ss_pred             ccHHHccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHHHhCCC--E---EEEechHhcCHHH----
Confidence            4456678888777777665542     234679999999999999999999876421  1   1111111111111    


Q ss_pred             HHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh--hhhhh-------CCC----CC---------CCCeEE
Q 010355          221 IADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL--DLENV-------GIP----FG---------VRGCRV  278 (512)
Q Consensus       221 i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~--~~~~l-------~~~----~~---------~~gs~i  278 (512)
                                       +..+...+  .++.++++|++....  ..+.+       ...    ..         .+...+
T Consensus        93 -----------------l~~~~~~~--~~~~v~~iDE~~~l~~~~~e~L~~~~~~~~~~i~~~~~~~~~~i~~~l~~~~l  153 (334)
T 1in4_A           93 -----------------MAAILTSL--ERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTL  153 (334)
T ss_dssp             -----------------HHHHHHHC--CTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEE
T ss_pred             -----------------HHHHHHHc--cCCCEEEEcchhhcCHHHHHHHHHHHHhcccceeeccCcccccccccCCCeEE
Confidence                             11111122  134567778775321  11111       000    00         011223


Q ss_pred             EE-EeCCcchhccccC-CccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHHHHh------
Q 010355          279 LM-TARSQDVLSSKMD-CQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARAL------  350 (512)
Q Consensus       279 iv-TtR~~~v~~~~~~-~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~~L------  350 (512)
                      +. |++...+...... ....+.+++.+.++..+++.+.+..... .--.+.+..|++.+.|.|-.+..+...+      
T Consensus       154 i~at~~~~~Ls~~l~sR~~l~~~Ld~~~~~~l~~iL~~~~~~~~~-~~~~~~~~~ia~~~~G~~R~a~~ll~~~~~~a~~  232 (334)
T 1in4_A          154 VGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMDV-EIEDAAAEMIAKRSRGTPRIAIRLTKRVRDMLTV  232 (334)
T ss_dssp             EEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTC-CBCHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHH
T ss_pred             EEecCCcccCCHHHHHhcCceeeCCCCCHHHHHHHHHHHHHHcCC-CcCHHHHHHHHHhcCCChHHHHHHHHHHHHHHHH
Confidence            33 3333222111111 1235789999999999999887632111 1124568899999999997654443322      


Q ss_pred             cc--C-CHHHHHHHHHHhc
Q 010355          351 RN--K-NTFEWKSALRELT  366 (512)
Q Consensus       351 ~~--~-~~~~w~~~l~~l~  366 (512)
                      .+  . +......++..+.
T Consensus       233 ~~~~~It~~~v~~al~~~~  251 (334)
T 1in4_A          233 VKADRINTDIVLKTMEVLN  251 (334)
T ss_dssp             HTCSSBCHHHHHHHHHHHT
T ss_pred             cCCCCcCHHHHHHHHHHhC
Confidence            11  2 6666777777764

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=97.97  E-value=2.8e-05  Score=75.10  Aligned_cols=105  Identities=15%  Similarity=0.206  Sum_probs=59.8

Q ss_pred             ccccchHHHHHHHHHhcCC---------CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHH
Q 010355          150 AFESRMSTLNDVINALKNP---------DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQ  220 (512)
Q Consensus       150 ~~~gR~~~l~~l~~~L~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~  220 (512)
                      .++|....++.|...+...         ....+.|+|++|+|||+||+.++......  -...+.++++...... ....
T Consensus        18 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~~~~--~~~~~~~~~~~~~~~~-~~~~   94 (311)
T 4fcw_A           18 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDT--EEAMIRIDMTEYMEKH-AVSR   94 (311)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHHHSC--GGGEEEEEGGGCCSTT-HHHH
T ss_pred             hcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHHcCC--CcceEEeecccccccc-cHHH
Confidence            4678888888777766521         23589999999999999999999876421  2234556655432221 1112


Q ss_pred             HHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCCh
Q 010355          221 IADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTN  261 (512)
Q Consensus       221 i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~  261 (512)
                      +   +|......... ....+...+......+|+||++...
T Consensus        95 l---~g~~~~~~~~~-~~~~~~~~~~~~~~~vl~lDEi~~l  131 (311)
T 4fcw_A           95 L---IGAPPGYVGYE-EGGQLTEAVRRRPYSVILFDAIEKA  131 (311)
T ss_dssp             H---HCCCTTSTTTT-TCCHHHHHHHHCSSEEEEEETGGGS
T ss_pred             h---cCCCCcccccc-ccchHHHHHHhCCCeEEEEeChhhc
Confidence            2   22221111000 0012333444345579999999643

>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=97.93  E-value=2.7e-05  Score=75.13  Aligned_cols=46  Identities=28%  Similarity=0.313  Sum_probs=36.9

Q ss_pred             ccccchHHHHHHHHHhcC--------------CCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          150 AFESRMSTLNDVINALKN--------------PDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       150 ~~~gR~~~l~~l~~~L~~--------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .++|++..+..|...+..              ...+.+.|+|++|+|||+||+.+++...
T Consensus        16 ~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l~   75 (310)
T 1ofh_A           16 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLAN   75 (310)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             hcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHhC
Confidence            478998888888766642              2346788999999999999999998764

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=97.86  E-value=1.2e-05  Score=76.07  Aligned_cols=150  Identities=19%  Similarity=0.227  Sum_probs=79.3

Q ss_pred             ccccccchHHHHHHHHHhc---C---------CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHH
Q 010355          148 YEAFESRMSTLNDVINALK---N---------PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVK  215 (512)
Q Consensus       148 ~~~~~gR~~~l~~l~~~L~---~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  215 (512)
                      ...++|.+..++.|...+.   .         ...+.+.|+|++|+|||+||+.+++....  .|-   .+..+.-... 
T Consensus        10 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~--~~~---~v~~~~~~~~-   83 (268)
T 2r62_A           10 FKDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHV--PFF---SMGGSSFIEM-   83 (268)
T ss_dssp             STTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHTC--CCC---CCCSCTTTTS-
T ss_pred             HHHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhCC--CEE---EechHHHHHh-
Confidence            4567787766655554432   1         22345789999999999999999987652  221   1111111000 


Q ss_pred             HHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh-----------------hhhhhCCCCC-----C
Q 010355          216 KIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL-----------------DLENVGIPFG-----V  273 (512)
Q Consensus       216 ~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~-----------------~~~~l~~~~~-----~  273 (512)
                              ..+..  ...    ...++......++.+|+||++....                 .+..+...+.     .
T Consensus        84 --------~~~~~--~~~----~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~  149 (268)
T 2r62_A           84 --------FVGLG--ASR----VRDLFETAKKQAPSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFGSEN  149 (268)
T ss_dssp             --------CSSSC--SSS----SSTTHHHHHHSCSCEEEESCGGGTTC----------CCCSCSSTTTTTTTTTCSSCSC
T ss_pred             --------hcchH--HHH----HHHHHHHHHhcCCeEEEEeChhhhcccccccccCCCchhHHHHHHHHHHHhhCcccCC
Confidence                    00110  000    1112222222467899999995321                 1222211111     1


Q ss_pred             CCeEEEEEeCCcchhc-ccc---CCccceecCCCCHHHHHHHHHHHhC
Q 010355          274 RGCRVLMTARSQDVLS-SKM---DCQNNFLIGVLNESEARDLFKKLVG  317 (512)
Q Consensus       274 ~gs~iivTtR~~~v~~-~~~---~~~~~~~l~~L~~~ea~~Lf~~~~~  317 (512)
                      ....||.||....... ...   .-...+.+.+.+.++-.+++...+.
T Consensus       150 ~~v~vi~ttn~~~~ld~~l~r~~Rf~~~i~i~~p~~~~r~~il~~~~~  197 (268)
T 2r62_A          150 APVIVLAATNRPEILDPALMRPGRFDRQVLVDKPDFNGRVEILKVHIK  197 (268)
T ss_dssp             SCCEEEECBSCCTTSCGGGGSSSSSCCCCBCCCCCTTTHHHHHHHHTS
T ss_pred             CCEEEEEecCCchhcCHhHcCCCCCCeEEEecCcCHHHHHHHHHHHHh
Confidence            2245666776553221 111   1225678888899999999987764

>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=97.84  E-value=7.4e-05  Score=80.67  Aligned_cols=171  Identities=14%  Similarity=0.195  Sum_probs=94.8

Q ss_pred             ccccccchHHHHHHHHHh----cC---------CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCH
Q 010355          148 YEAFESRMSTLNDVINAL----KN---------PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDV  214 (512)
Q Consensus       148 ~~~~~gR~~~l~~l~~~L----~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  214 (512)
                      ...+.|-+..+++|.+++    ..         ...+-|.++|++|+|||+||+.+++....     ..+.|+.+.    
T Consensus       203 ~~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~elg~-----~~~~v~~~~----  273 (806)
T 3cf2_A          203 YDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA-----FFFLINGPE----  273 (806)
T ss_dssp             GGGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTTTC-----EEEEEEHHH----
T ss_pred             hhhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCC-----eEEEEEhHH----
Confidence            344556665555555443    21         23578999999999999999999987652     233443321    


Q ss_pred             HHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh-------------hhhhhCC---CCC-CCCeE
Q 010355          215 KKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL-------------DLENVGI---PFG-VRGCR  277 (512)
Q Consensus       215 ~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~-------------~~~~l~~---~~~-~~gs~  277 (512)
                            +...     ........+..++.......+++|+||++....             ....+..   .+. ..+..
T Consensus       274 ------l~sk-----~~gese~~lr~lF~~A~~~~PsIIfIDEiDal~~~r~~~~~~~~~riv~~LL~~mdg~~~~~~V~  342 (806)
T 3cf2_A          274 ------IMSK-----LAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVI  342 (806)
T ss_dssp             ------HHSS-----CTTHHHHHHHHHHHHHTTSCSEEEEEESGGGTCCTTTTCCCTTHHHHHHHHHTHHHHCCGGGCEE
T ss_pred             ------hhcc-----cchHHHHHHHHHHHHHHHcCCeEEEEehhcccccccCCCCChHHHHHHHHHHHHHhcccccCCEE
Confidence                  1110     011122234455555555679999999985321             0111110   011 33455


Q ss_pred             EEEEeCCcchhcc-cc---CCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCCh
Q 010355          278 VLMTARSQDVLSS-KM---DCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLP  340 (512)
Q Consensus       278 iivTtR~~~v~~~-~~---~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlP  340 (512)
                      ||.||........ ..   .-...+.+...+..+-.++|..++.........  -...|++++.|.-
T Consensus       343 VIaaTN~~d~LD~ALrR~GRFd~~I~i~~Pd~~~R~~IL~~~l~~~~~~~dv--dl~~lA~~T~Gfs  407 (806)
T 3cf2_A          343 VMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDV--DLEQVANETHGHV  407 (806)
T ss_dssp             EEEECSSTTTSCTTTTSTTSSCEEEECCCCCHHHHHHHHHHTCSSSEECTTC--CHHHHHHHCCSCC
T ss_pred             EEEecCChhhcCHHHhCCcccceEEecCCCCHHHHHHHHHHHhcCCCCCccc--CHHHHHHhcCCCC
Confidence            6666665433211 11   223578888888888888988776532222111  1456778888764

>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=97.78  E-value=0.0002  Score=73.18  Aligned_cols=48  Identities=17%  Similarity=0.138  Sum_probs=36.5

Q ss_pred             ccccccchHHHHHHHH---HhcCC--CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          148 YEAFESRMSTLNDVIN---ALKNP--DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       148 ~~~~~gR~~~l~~l~~---~L~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ...++|.+..++.+..   ++..+  ..+.+.++|++|+|||+||+.+++...
T Consensus        36 ~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~iLl~GppGtGKT~la~ala~~l~   88 (456)
T 2c9o_A           36 ASGLVGQENAREACGVIVELIKSKKMAGRAVLLAGPPGTGKTALALAIAQELG   88 (456)
T ss_dssp             ETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             hhhccCHHHHHHHHHHHHHHHHhCCCCCCeEEEECCCcCCHHHHHHHHHHHhC
Confidence            4678899887765444   33332  235789999999999999999998765

>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=97.77  E-value=0.00032  Score=65.50  Aligned_cols=147  Identities=20%  Similarity=0.212  Sum_probs=76.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeE
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKI  251 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~  251 (512)
                      -+.|+|++|+|||||++.++....     ...+.++..      .+    .... .    ......+..+.+......+.
T Consensus        51 g~ll~G~~G~GKTtl~~~i~~~~~-----~~~i~~~~~------~~----~~~~-~----~~~~~~i~~~~~~~~~~~~~  110 (254)
T 1ixz_A           51 GVLLVGPPGVGKTHLARAVAGEAR-----VPFITASGS------DF----VEMF-V----GVGAARVRDLFETAKRHAPC  110 (254)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHTT-----CCEEEEEHH------HH----HHSC-T----THHHHHHHHHHHHHTTSSSE
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC-----CCEEEeeHH------HH----HHHH-h----hHHHHHHHHHHHHHHhcCCe
Confidence            389999999999999999998764     123333321      11    1100 0    00111233444444334578


Q ss_pred             EEEEeCCCChh----------------hhhhh----CCCCCCCCeEEEEEeCCcchhcc-cc---CCccceecCCCCHHH
Q 010355          252 LVILDDIWTNL----------------DLENV----GIPFGVRGCRVLMTARSQDVLSS-KM---DCQNNFLIGVLNESE  307 (512)
Q Consensus       252 LlVlDdv~~~~----------------~~~~l----~~~~~~~gs~iivTtR~~~v~~~-~~---~~~~~~~l~~L~~~e  307 (512)
                      ++++|++....                ....+    ..........++.||........ ..   .-...+.+...+.++
T Consensus       111 i~~~Deid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~g~~~~~~~i~~a~t~~p~~ld~~l~r~~rf~~~i~i~~p~~~~  190 (254)
T 1ixz_A          111 IVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKG  190 (254)
T ss_dssp             EEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHH
T ss_pred             EEEehhhhhhhcccCccccccchHHHHHHHHHHHHHhCCCCCCCEEEEEccCCchhCCHHHcCCCcCCeEEeeCCcCHHH
Confidence            99999984211                01111    00001223445556665544311 11   123467888888888


Q ss_pred             HHHHHHHHhCCCCCCchhHHHHHHHHHHcCCCh
Q 010355          308 ARDLFKKLVGDKIENNDLKSLAMNIVKACRGLP  340 (512)
Q Consensus       308 a~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlP  340 (512)
                      -.+++...+.........  ....|++.+.|+-
T Consensus       191 r~~il~~~~~~~~~~~~~--~~~~la~~~~G~~  221 (254)
T 1ixz_A          191 REQILRIHARGKPLAEDV--DLALLAKRTPGFV  221 (254)
T ss_dssp             HHHHHHHHHTTSCBCTTC--CHHHHHHTCTTCC
T ss_pred             HHHHHHHHHcCCCCCccc--CHHHHHHHcCCCC
Confidence            888887766432211111  1345667777653

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=97.67  E-value=0.00099  Score=63.11  Aligned_cols=173  Identities=18%  Similarity=0.181  Sum_probs=89.1

Q ss_pred             cCccccccchHHHHHHHH---HhcC---------CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCC
Q 010355          146 KGYEAFESRMSTLNDVIN---ALKN---------PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPD  213 (512)
Q Consensus       146 ~~~~~~~gR~~~l~~l~~---~L~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  213 (512)
                      .....++|.+..+..+.+   .+..         .-.+-+.|+|++|+|||||++.++....     ...+.+...    
T Consensus        37 ~~~~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~~-----~~~i~~~~~----  107 (278)
T 1iy2_A           37 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR-----VPFITASGS----  107 (278)
T ss_dssp             CCGGGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHTT-----CCEEEEEHH----
T ss_pred             CCHHHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHcC-----CCEEEecHH----
Confidence            345567787765554443   3221         1112389999999999999999998764     223333321    


Q ss_pred             HHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh----------------hhhhh----CCCCCC
Q 010355          214 VKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL----------------DLENV----GIPFGV  273 (512)
Q Consensus       214 ~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~----------------~~~~l----~~~~~~  273 (512)
                        .+.    ... .    ......+..+.+......+.++++|++....                .+..+    ......
T Consensus       108 --~~~----~~~-~----~~~~~~i~~~~~~~~~~~~~i~~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~lsgg~~~  176 (278)
T 1iy2_A          108 --DFV----EMF-V----GVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKD  176 (278)
T ss_dssp             --HHH----HST-T----THHHHHHHHHHHHHHTSCSEEEEEETHHHHHCC--------CHHHHHHHHHHHHHHTTCCTT
T ss_pred             --HHH----HHH-h----hHHHHHHHHHHHHHHhcCCcEEehhhhHhhhcccccccCCcchHHHHHHHHHHHHHhCCCCC
Confidence              111    100 0    0011123344444443457899999984210                01111    000012


Q ss_pred             CCeEEEEEeCCcchhcc----ccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCCh
Q 010355          274 RGCRVLMTARSQDVLSS----KMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLP  340 (512)
Q Consensus       274 ~gs~iivTtR~~~v~~~----~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlP  340 (512)
                      ....++.||........    ...-...+.+.+.+.++-.+++...+.........  ....|+..+.|+.
T Consensus       177 ~~~i~~a~t~~p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~--~~~~la~~~~G~~  245 (278)
T 1iy2_A          177 TAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDV--DLALLAKRTPGFV  245 (278)
T ss_dssp             CCEEEEEEESCTTSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSCBCTTC--CHHHHHHTCTTCC
T ss_pred             CCEEEEEecCCchhCCHhHcCCCcCCeEEEeCCcCHHHHHHHHHHHHccCCCCccc--CHHHHHHHcCCCC
Confidence            23445556665544311    01223478888888888888888776432211111  1345677777754

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=97.67  E-value=0.0012  Score=62.40  Aligned_cols=124  Identities=14%  Similarity=0.223  Sum_probs=70.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCC--HHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCC
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPD--VKKIQGQIADKLGLKFYEESESGRARKLCERLKKEK  249 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~--~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  249 (512)
                      -++|+|++|+||||||+.++.....     ..+++....-.+  ....                 ...+..+.+......
T Consensus        46 GvlL~Gp~GtGKTtLakala~~~~~-----~~i~i~g~~l~~~~~~~~-----------------~~~i~~vf~~a~~~~  103 (274)
T 2x8a_A           46 GVLLAGPPGCGKTLLAKAVANESGL-----NFISVKGPELLNMYVGES-----------------ERAVRQVFQRAKNSA  103 (274)
T ss_dssp             EEEEESSTTSCHHHHHHHHHHHTTC-----EEEEEETTTTCSSTTHHH-----------------HHHHHHHHHHHHHTC
T ss_pred             eEEEECCCCCcHHHHHHHHHHHcCC-----CEEEEEcHHHHhhhhhHH-----------------HHHHHHHHHHHHhcC
Confidence            3999999999999999999987642     244444332111  0000                 112333444432346


Q ss_pred             eEEEEEeCCCChhh-------------hh----hhCCCCCCCCeEEEEEeCCcchhccc----cCCccceecCCCCHHHH
Q 010355          250 KILVILDDIWTNLD-------------LE----NVGIPFGVRGCRVLMTARSQDVLSSK----MDCQNNFLIGVLNESEA  308 (512)
Q Consensus       250 ~~LlVlDdv~~~~~-------------~~----~l~~~~~~~gs~iivTtR~~~v~~~~----~~~~~~~~l~~L~~~ea  308 (512)
                      ++++++|++.....             ..    .+..........++.+|....+....    ..-...+.++..+.++-
T Consensus       104 p~i~~~Deid~~~~~r~~~~~~~~~~~~~~~l~~Lsgg~~~~~~i~ia~tn~p~~LD~al~r~gRfd~~i~~~~P~~~~r  183 (274)
T 2x8a_A          104 PCVIFFDEVDALCPRRSDRETGASVRVVNQLLTEMDGLEARQQVFIMAATNRPDIIDPAILRPGRLDKTLFVGLPPPADR  183 (274)
T ss_dssp             SEEEEEETCTTTCC---------CTTHHHHHHHHHHTCCSTTCEEEEEEESCGGGSCHHHHSTTSSCEEEECCSCCHHHH
T ss_pred             CCeEeeehhhhhhcccCCCcchHHHHHHHHHHHhhhcccccCCEEEEeecCChhhCCHhhcCcccCCeEEEeCCcCHHHH
Confidence            79999999964210             01    11000012345566677666543111    12235678888888888


Q ss_pred             HHHHHHHhC
Q 010355          309 RDLFKKLVG  317 (512)
Q Consensus       309 ~~Lf~~~~~  317 (512)
                      .++|+....
T Consensus       184 ~~il~~~~~  192 (274)
T 2x8a_A          184 LAILKTITK  192 (274)
T ss_dssp             HHHHHHHTT
T ss_pred             HHHHHHHHh
Confidence            899987764

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=97.65  E-value=0.00024  Score=68.43  Aligned_cols=46  Identities=13%  Similarity=0.283  Sum_probs=36.5

Q ss_pred             ccccchHHHHHHHHHhc--CCCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          150 AFESRMSTLNDVINALK--NPDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       150 ~~~gR~~~l~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .++|+...+..+...+.  ......|.|+|.+|+|||++|+.+++...
T Consensus         3 ~iig~s~~~~~~~~~~~~~a~~~~~vLi~Ge~GtGKt~lAr~i~~~~~   50 (304)
T 1ojl_A            3 HMIGSSPAMQHLLNEIAMVAPSDATVLIHGDSGTGKELVARALHACSA   50 (304)
T ss_dssp             CCCCCSHHHHHHHHHHHHHCSTTSCEEEESCTTSCHHHHHHHHHHHSS
T ss_pred             CcEECCHHHHHHHHHHHHHhCCCCcEEEECCCCchHHHHHHHHHHhCc
Confidence            47888888888877665  23445678999999999999999998653

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=97.64  E-value=1.6e-05  Score=67.49  Aligned_cols=45  Identities=7%  Similarity=0.047  Sum_probs=32.4

Q ss_pred             ccccchHHHHHHHHHhc--CCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          150 AFESRMSTLNDVINALK--NPDVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       150 ~~~gR~~~l~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .++|+...+.++.+.+.  ......|.|+|.+|+|||++|+.+++..
T Consensus         5 ~~iG~s~~~~~l~~~~~~~~~~~~~vll~G~~GtGKt~lA~~i~~~~   51 (143)
T 3co5_A            5 DKLGNSAAIQEMNREVEAAAKRTSPVFLTGEAGSPFETVARYFHKNG   51 (143)
T ss_dssp             ---CCCHHHHHHHHHHHHHHTCSSCEEEEEETTCCHHHHHGGGCCTT
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhC
Confidence            46788888888777665  1233457899999999999999987653

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.58  E-value=0.00014  Score=79.31  Aligned_cols=147  Identities=15%  Similarity=0.191  Sum_probs=81.7

Q ss_pred             cccccchHHHHHHHHHhcC---------CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHH
Q 010355          149 EAFESRMSTLNDVINALKN---------PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQG  219 (512)
Q Consensus       149 ~~~~gR~~~l~~l~~~L~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~  219 (512)
                      ..++|....+..|...+..         .....+.++|++|+|||+||+.+++....  .-...+.++++......    
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~~--~~~~~i~i~~s~~~~~~----  564 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESIFG--DEESMIRIDMSEYMEKH----  564 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHHHS--CTTCEEEEEGGGGCSSC----
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcC--CCcceEEEechhccccc----
Confidence            3578999888887776651         11237999999999999999999988642  12344556654322100    


Q ss_pred             HHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCCh--hhhhhh-------CCC------CCCCCeEEEEEeCC
Q 010355          220 QIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTN--LDLENV-------GIP------FGVRGCRVLMTARS  284 (512)
Q Consensus       220 ~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~l-------~~~------~~~~gs~iivTtR~  284 (512)
                                . ..    ...+...+......+|+||++...  .....+       .+.      ....+++||+||..
T Consensus       565 ----------~-~~----~~~l~~~~~~~~~~vl~lDEi~~~~~~~~~~Ll~~le~g~~~~~~g~~~~~~~~~iI~ttn~  629 (758)
T 3pxi_A          565 ----------S-TS----GGQLTEKVRRKPYSVVLLDAIEKAHPDVFNILLQVLEDGRLTDSKGRTVDFRNTILIMTSNV  629 (758)
T ss_dssp             ----------C-CC-------CHHHHHHCSSSEEEEECGGGSCHHHHHHHHHHHHHSBCC-----CCBCTTCEEEEEESS
T ss_pred             ----------c-cc----cchhhHHHHhCCCeEEEEeCccccCHHHHHHHHHHhccCeEEcCCCCEeccCCeEEEEeCCC
Confidence                      0 00    111122232234469999999643  111111       110      01345688888873


Q ss_pred             cch-------------hccccCC-ccceecCCCCHHHHHHHHHHHh
Q 010355          285 QDV-------------LSSKMDC-QNNFLIGVLNESEARDLFKKLV  316 (512)
Q Consensus       285 ~~v-------------~~~~~~~-~~~~~l~~L~~~ea~~Lf~~~~  316 (512)
                      ..-             ....... ...+.+.||+.++...++...+
T Consensus       630 ~~~~~~~~~~~~~~~f~p~l~~Rl~~~i~~~~l~~~~~~~i~~~~l  675 (758)
T 3pxi_A          630 GASEKDKVMGELKRAFRPEFINRIDEIIVFHSLEKKHLTEIVSLMS  675 (758)
T ss_dssp             STTCCHHHHHHHHHHSCHHHHTTSSEEEECC--CHHHHHHHHHHHH
T ss_pred             ChhhHHHHHHHHHhhCCHHHHhhCCeEEecCCCCHHHHHHHHHHHH
Confidence            210             0001111 2478899999988888877654

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=97.48  E-value=0.0014  Score=67.14  Aligned_cols=198  Identities=19%  Similarity=0.223  Sum_probs=100.3

Q ss_pred             CccccccchHHHHHHHH---HhcCC---------CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCH
Q 010355          147 GYEAFESRMSTLNDVIN---ALKNP---------DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDV  214 (512)
Q Consensus       147 ~~~~~~gR~~~l~~l~~---~L~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  214 (512)
                      ....++|.+..+..+.+   .+...         -.+-+.|+|++|+|||+||+.++....     ...+.++.+.-...
T Consensus        29 ~f~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~~-----~~~i~i~g~~~~~~  103 (499)
T 2dhr_A           29 TFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR-----VPFITASGSDFVEM  103 (499)
T ss_dssp             CTTSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHTT-----CCEEEEEGGGGTSS
T ss_pred             CHHHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHhC-----CCEEEEehhHHHHh
Confidence            34567787766555444   33221         123489999999999999999998764     12344443321100


Q ss_pred             HHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh----------------hhhhhC---CCCC-CC
Q 010355          215 KKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL----------------DLENVG---IPFG-VR  274 (512)
Q Consensus       215 ~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~----------------~~~~l~---~~~~-~~  274 (512)
                                    .. ......+..+++......+.++++|++....                .+..+.   .... ..
T Consensus       104 --------------~~-g~~~~~v~~lfq~a~~~~p~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ldg~~~~~  168 (499)
T 2dhr_A          104 --------------FV-GVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDT  168 (499)
T ss_dssp             --------------CT-THHHHHHHHHTTTSSSSSSCEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGGGCCSSC
T ss_pred             --------------hh-hhHHHHHHHHHHHHHhcCCCEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhcccccCc
Confidence                          00 0000111122222112246899999984220                111211   0011 23


Q ss_pred             CeEEEEEeCCcchhcc-cc---CCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCCh-hHHHHH---
Q 010355          275 GCRVLMTARSQDVLSS-KM---DCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLP-IAIVTI---  346 (512)
Q Consensus       275 gs~iivTtR~~~v~~~-~~---~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlP-Lai~~i---  346 (512)
                      +..|+.||........ ..   .-...+.+...+..+-.++|..++......+..  ....|+..+.|+. --|..+   
T Consensus       169 ~viviAatn~p~~LD~aLlr~gRfdr~i~i~~Pd~~~R~~IL~~~~~~~~l~~dv--~l~~lA~~t~G~~gadL~~lv~~  246 (499)
T 2dhr_A          169 AIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDV--DLALLAKRTPGFVGADLENLLNE  246 (499)
T ss_dssp             CCEEEECCSCGGGSCTTTSSTTSSCCEEECCCCCHHHHHHHHHHTTSSSCCCCSS--TTHHHHTTSCSCCHHHHHHHHHH
T ss_pred             cEEEEEecCChhhcCcccccccccceEEecCCCCHHHHHHHHHHHHhcCCCChHH--HHHHHHHhcCCCCHHHHHHHHHH
Confidence            4456666665544311 11   123477888888888888888766432221111  1345777788875 222222   


Q ss_pred             HHHhc---cC---CHHHHHHHHHHhc
Q 010355          347 ARALR---NK---NTFEWKSALRELT  366 (512)
Q Consensus       347 a~~L~---~~---~~~~w~~~l~~l~  366 (512)
                      +..+.   ++   +......++....
T Consensus       247 Aa~~A~~~~~~~It~~dl~~al~~v~  272 (499)
T 2dhr_A          247 AALLAAREGRRKITMKDLEEAADRVM  272 (499)
T ss_dssp             HHHHHTTTCCSSCCSHHHHHHHHHHT
T ss_pred             HHHHHHHhCCCccCHHHHHHHHHHHh
Confidence            11111   11   5566677776654

>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=97.47  E-value=0.0007  Score=64.46  Aligned_cols=85  Identities=8%  Similarity=0.040  Sum_probs=57.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCC-----CCchHHH-HHHHHH
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYE-----ESESGRA-RKLCER  244 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~-----~~~~~~~-~~l~~~  244 (512)
                      .++.|+|++|+|||||+.+++........-..++|++....+...     .++++|.....     ....+.+ ..+.+.
T Consensus        29 GiteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E~s~~~~-----ra~~lGvd~d~llv~~~~~~E~~~l~i~~~  103 (333)
T 3io5_A           29 GLLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSEFGITPA-----YLRSMGVDPERVIHTPVQSLEQLRIDMVNQ  103 (333)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEESSCCCCHH-----HHHHTTCCGGGEEEEECSBHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEeccchhhHH-----HHHHhCCCHHHeEEEcCCCHHHHHHHHHHH
Confidence            378999999999999999988776532113468899988777653     36777765432     1222222 333344


Q ss_pred             H---hCCCeEEEEEeCCCC
Q 010355          245 L---KKEKKILVILDDIWT  260 (512)
Q Consensus       245 l---~~~k~~LlVlDdv~~  260 (512)
                      +   ..+++-|||+|-+..
T Consensus       104 l~~i~~~~~~lvVIDSI~a  122 (333)
T 3io5_A          104 LDAIERGEKVVVFIDSLGN  122 (333)
T ss_dssp             HHTCCTTCCEEEEEECSTT
T ss_pred             HHHhhccCceEEEEecccc
Confidence            3   456789999999854

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=97.46  E-value=8.3e-05  Score=63.44  Aligned_cols=40  Identities=23%  Similarity=0.333  Sum_probs=30.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCC
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQ  210 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~  210 (512)
                      ....++|+|+.|+|||||++.++......  -..++++....
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~~~~--g~~~~~~~~~~   74 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQALEA--GKNAAYIDAAS   74 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHHHTT--TCCEEEEETTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHhc--CCcEEEEcHHH
Confidence            45789999999999999999999877532  11256665543

>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=97.41  E-value=0.0004  Score=75.81  Aligned_cols=101  Identities=17%  Similarity=0.182  Sum_probs=56.9

Q ss_pred             ccccchHHHHHHHHHhcC---------CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHH
Q 010355          150 AFESRMSTLNDVINALKN---------PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQ  220 (512)
Q Consensus       150 ~~~gR~~~l~~l~~~L~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~  220 (512)
                      .++|....+..|...+..         .....+.|+|++|+|||+||+.+++...     ...+.++++......    .
T Consensus       459 ~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l~-----~~~~~i~~s~~~~~~----~  529 (758)
T 1r6b_X          459 LVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG-----IELLRFDMSEYMERH----T  529 (758)
T ss_dssp             TSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHT-----CEEEEEEGGGCSSSS----C
T ss_pred             hccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHhc-----CCEEEEechhhcchh----h
Confidence            467888888777766541         1234799999999999999999998763     234455554322110    0


Q ss_pred             HHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCC
Q 010355          221 IADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWT  260 (512)
Q Consensus       221 i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~  260 (512)
                      +...+|.+. .-........+...+......+|+||++..
T Consensus       530 ~~~l~g~~~-g~~g~~~~~~l~~~~~~~~~~vl~lDEi~~  568 (758)
T 1r6b_X          530 VSRLIGAPP-GYVGFDQGGLLTDAVIKHPHAVLLLDEIEK  568 (758)
T ss_dssp             CSSSCCCCS-CSHHHHHTTHHHHHHHHCSSEEEEEETGGG
T ss_pred             HhhhcCCCC-CCcCccccchHHHHHHhCCCcEEEEeCccc
Confidence            001112111 100001111233444444568999999964

>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=97.40  E-value=0.00072  Score=70.49  Aligned_cols=155  Identities=19%  Similarity=0.183  Sum_probs=74.2

Q ss_pred             ccccchHHHHHHHHHhc------CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHH
Q 010355          150 AFESRMSTLNDVINALK------NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIAD  223 (512)
Q Consensus       150 ~~~gR~~~l~~l~~~L~------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~  223 (512)
                      .++|-+.....+...+.      .....+++|+|++|+||||||+.++.....  .|   ..+.++.......+......
T Consensus        82 di~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~~l~~--~~---~~i~~~~~~~~~~~~g~~~~  156 (543)
T 3m6a_A           82 EHHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKSLGR--KF---VRISLGGVRDESEIRGHRRT  156 (543)
T ss_dssp             HCSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHHHHTC--EE---EEECCCC-------------
T ss_pred             HhccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHHhcCC--Ce---EEEEecccchhhhhhhHHHH
Confidence            35566655555443322      224568999999999999999999987742  12   22333322221111111111


Q ss_pred             HhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChhh------hhhhCCCC--------C---------CCCeEEEE
Q 010355          224 KLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNLD------LENVGIPF--------G---------VRGCRVLM  280 (512)
Q Consensus       224 ~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~------~~~l~~~~--------~---------~~gs~iiv  280 (512)
                      ..+..      ............. ..-+|+||.+.....      ...+...+        .         ..+..||.
T Consensus       157 ~ig~~------~~~~~~~~~~a~~-~~~vl~lDEid~l~~~~~~~~~~~LL~~ld~~~~~~~~~~~~~~~~~~~~v~iI~  229 (543)
T 3m6a_A          157 YVGAM------PGRIIQGMKKAGK-LNPVFLLDEIDKMSSDFRGDPSSAMLEVLDPEQNSSFSDHYIEETFDLSKVLFIA  229 (543)
T ss_dssp             -------------CHHHHHHTTCS-SSEEEEEEESSSCC---------CCGGGTCTTTTTBCCCSSSCCCCBCSSCEEEE
T ss_pred             HhccC------chHHHHHHHHhhc-cCCEEEEhhhhhhhhhhccCHHHHHHHHHhhhhcceeecccCCeeecccceEEEe
Confidence            11110      0011112222222 234888999864311      11110000        0         13456666


Q ss_pred             EeCCcchhc-cccCCccceecCCCCHHHHHHHHHHHh
Q 010355          281 TARSQDVLS-SKMDCQNNFLIGVLNESEARDLFKKLV  316 (512)
Q Consensus       281 TtR~~~v~~-~~~~~~~~~~l~~L~~~ea~~Lf~~~~  316 (512)
                      ||....... ........+.+.+++.++-..++..++
T Consensus       230 ttN~~~~l~~aL~~R~~vi~~~~~~~~e~~~Il~~~l  266 (543)
T 3m6a_A          230 TANNLATIPGPLRDRMEIINIAGYTEIEKLEIVKDHL  266 (543)
T ss_dssp             ECSSTTTSCHHHHHHEEEEECCCCCHHHHHHHHHHTH
T ss_pred             ccCccccCCHHHHhhcceeeeCCCCHHHHHHHHHHHH
Confidence            666543221 111223478999999999888887754

>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=97.34  E-value=0.0013  Score=60.65  Aligned_cols=90  Identities=13%  Similarity=0.150  Sum_probs=55.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcC----CCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC----------CCCch
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADK----LFDEVVYAEVSQRPDVKKIQGQIADKLGLKFY----------EESES  235 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~----~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~----------~~~~~  235 (512)
                      -.++.|+|++|+|||||+..++.......    .-..++|++....+....+. .++..++....          ..+..
T Consensus        24 G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~~~~~~~~~-~~~~~~g~~~~~~~~~~~~~~~~~~~  102 (243)
T 1n0w_A           24 GSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLL-AVAERYGLSGSDVLDNVAYARAFNTD  102 (243)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHH-HHHHHTTCCHHHHHHTEEEEECCSHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCCCcCHHHHH-HHHHHcCCCHHHHhhCeEEEecCCHH
Confidence            36899999999999999999988532211    13578898877655554443 34555554321          11111


Q ss_pred             H---HHHHHHHHHhCCCeEEEEEeCCCC
Q 010355          236 G---RARKLCERLKKEKKILVILDDIWT  260 (512)
Q Consensus       236 ~---~~~~l~~~l~~~k~~LlVlDdv~~  260 (512)
                      .   ....+...+...++-+||||.+..
T Consensus       103 ~~~~~~~~~~~~~~~~~~~lliiD~~~~  130 (243)
T 1n0w_A          103 HQTQLLYQASAMMVESRYALLIVDSATA  130 (243)
T ss_dssp             HHHHHHHHHHHHHHHSCEEEEEEETSSG
T ss_pred             HHHHHHHHHHHHHhcCCceEEEEeCchH
Confidence            1   123344444445788999999853

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=97.28  E-value=0.0003  Score=67.81  Aligned_cols=53  Identities=17%  Similarity=0.305  Sum_probs=35.9

Q ss_pred             chHHHHHHHHHhcCC---CceEEEEEcCCCCcHHHHHHHHHHhhh-hcCCCCeEEEEEe
Q 010355          154 RMSTLNDVINALKNP---DVHMIGAYGMAGVGKTMLVKEVARQAK-ADKLFDEVVYAEV  208 (512)
Q Consensus       154 R~~~l~~l~~~L~~~---~~~vi~I~G~gGiGKTtLa~~v~~~~~-~~~~f~~~~wv~~  208 (512)
                      +...+..+..++...   ....+.|+|++|+|||+||..+++... ..  ...++++++
T Consensus       133 ~~~~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~~~~~~~--g~~v~~~~~  189 (308)
T 2qgz_A          133 RMEAFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHELSEKK--GVSTTLLHF  189 (308)
T ss_dssp             HHHHHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHHHHHHHS--CCCEEEEEH
T ss_pred             HHHHHHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHHHHHHhc--CCcEEEEEH
Confidence            334455555565521   247889999999999999999998776 43  234555554

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=97.27  E-value=0.00065  Score=62.17  Aligned_cols=47  Identities=23%  Similarity=0.321  Sum_probs=32.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHH
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQI  221 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i  221 (512)
                      .+++|+|++|+|||||++.++......  -..++|+....  ....+...+
T Consensus        24 ~~~~i~G~~GsGKTtl~~~l~~~~~~~--~~~v~~~~~~~--~~~~~~~~~   70 (235)
T 2w0m_A           24 FFIALTGEPGTGKTIFSLHFIAKGLRD--GDPCIYVTTEE--SRDSIIRQA   70 (235)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHHH--TCCEEEEESSS--CHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHHHC--CCeEEEEEccc--CHHHHHHHH
Confidence            689999999999999999998665432  23466665443  344444433

>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=97.27  E-value=0.00041  Score=76.64  Aligned_cols=46  Identities=24%  Similarity=0.273  Sum_probs=36.6

Q ss_pred             ccccchHHHHHHHHHhcC---------CCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          150 AFESRMSTLNDVINALKN---------PDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       150 ~~~gR~~~l~~l~~~L~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .++|....+..+...+..         .....+.|+|++|+|||+||+.+++...
T Consensus       559 ~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~~  613 (854)
T 1qvr_A          559 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLF  613 (854)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHH
T ss_pred             ccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhc
Confidence            468998888887776641         1235899999999999999999998764

>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=97.25  E-value=0.0018  Score=58.71  Aligned_cols=84  Identities=19%  Similarity=0.211  Sum_probs=50.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCC---------CC-CCc---hH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKF---------YE-ESE---SG  236 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~---------~~-~~~---~~  236 (512)
                      -.++.|+|++|+|||||+..++. ..    -..++|++.....+...+.. ++..++...         .. ...   ..
T Consensus        20 G~~~~i~G~~GsGKTtl~~~l~~-~~----~~~v~~i~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (220)
T 2cvh_A           20 GVLTQVYGPYASGKTTLALQTGL-LS----GKKVAYVDTEGGFSPERLVQ-MAETRGLNPEEALSRFILFTPSDFKEQRR   93 (220)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHH-HH----CSEEEEEESSCCCCHHHHHH-HHHTTTCCHHHHHHHEEEECCTTTSHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH-Hc----CCcEEEEECCCCCCHHHHHH-HHHhcCCChHHHhhcEEEEecCCHHHHHH
Confidence            36899999999999999999988 21    34688888776556555443 444333210         01 111   11


Q ss_pred             HHHHHHHHHhCCCeEEEEEeCCCC
Q 010355          237 RARKLCERLKKEKKILVILDDIWT  260 (512)
Q Consensus       237 ~~~~l~~~l~~~k~~LlVlDdv~~  260 (512)
                      .+..+. .+...++-+||||.+..
T Consensus        94 ~~~~~~-~l~~~~~~lliiD~~~~  116 (220)
T 2cvh_A           94 VIGSLK-KTVDSNFALVVVDSITA  116 (220)
T ss_dssp             HHHHHH-HHCCTTEEEEEEECCCC
T ss_pred             HHHHHH-HHhhcCCCEEEEcCcHH
Confidence            222222 33322578999999854

>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=97.24  E-value=0.0012  Score=64.51  Aligned_cols=84  Identities=15%  Similarity=0.215  Sum_probs=54.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCC------CCchHHHHHHHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYE------ESESGRARKLCE  243 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~------~~~~~~~~~l~~  243 (512)
                      -.++.|+|++|+|||||+.+++......  -..++|++....+...     .++.++.....      .+.......+..
T Consensus        61 G~i~~I~GppGsGKSTLal~la~~~~~~--gg~VlyId~E~s~~~~-----ra~rlgv~~~~l~i~~~~~~e~~l~~~~~  133 (356)
T 3hr8_A           61 GRIVEIFGQESSGKTTLALHAIAEAQKM--GGVAAFIDAEHALDPV-----YAKNLGVDLKSLLISQPDHGEQALEIVDE  133 (356)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHHHHHT--TCCEEEEESSCCCCHH-----HHHHHTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHhc--CCeEEEEecccccchH-----HHHHcCCchhhhhhhhccCHHHHHHHHHH
Confidence            4699999999999999999999876532  2357888877766654     45556654321      122223333333


Q ss_pred             HHhCCCeEEEEEeCCCC
Q 010355          244 RLKKEKKILVILDDIWT  260 (512)
Q Consensus       244 ~l~~~k~~LlVlDdv~~  260 (512)
                      .+...+.-++|+|.+..
T Consensus       134 l~~~~~~dlvVIDSi~~  150 (356)
T 3hr8_A          134 LVRSGVVDLIVVDSVAA  150 (356)
T ss_dssp             HHHTSCCSEEEEECTTT
T ss_pred             HhhhcCCCeEEehHhhh
Confidence            33345667999999843

>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=97.22  E-value=0.00044  Score=66.10  Aligned_cols=68  Identities=18%  Similarity=0.244  Sum_probs=42.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEe--CCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCC
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEV--SQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKE  248 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~--~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  248 (512)
                      +++.|+|++|+|||+||.+++...     ...++|+++  ....+.               ...........+.+.+.+ 
T Consensus       124 sviLI~GpPGsGKTtLAlqlA~~~-----G~~VlyIs~~~eE~v~~---------------~~~~le~~l~~i~~~l~~-  182 (331)
T 2vhj_A          124 GMVIVTGKGNSGKTPLVHALGEAL-----GGKDKYATVRFGEPLSG---------------YNTDFNVFVDDIARAMLQ-  182 (331)
T ss_dssp             EEEEEECSCSSSHHHHHHHHHHHH-----HTTSCCEEEEBSCSSTT---------------CBCCHHHHHHHHHHHHHH-
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhC-----CCCEEEEEecchhhhhh---------------hhcCHHHHHHHHHHHHhh-
Confidence            567899999999999999998762     123456666  222110               001223334455556654 


Q ss_pred             CeEEEEEeCCCC
Q 010355          249 KKILVILDDIWT  260 (512)
Q Consensus       249 k~~LlVlDdv~~  260 (512)
                      .+ +||+|++..
T Consensus       183 ~~-LLVIDsI~a  193 (331)
T 2vhj_A          183 HR-VIVIDSLKN  193 (331)
T ss_dssp             CS-EEEEECCTT
T ss_pred             CC-EEEEecccc
Confidence            34 999999864

>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=97.20  E-value=0.0017  Score=63.55  Aligned_cols=89  Identities=16%  Similarity=0.247  Sum_probs=56.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcC----CCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC----------CCCch
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADK----LFDEVVYAEVSQRPDVKKIQGQIADKLGLKFY----------EESES  235 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~----~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~----------~~~~~  235 (512)
                      ..++.|+|.+|+|||+||.+++.......    .-..++|++....++...+.. ++..++....          ..+..
T Consensus       122 G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~~~~~~~l~~-~~~~~g~~~~~~l~~l~~~~~~~~e  200 (343)
T 1v5w_A          122 MAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRD-IADRFNVDHDAVLDNVLYARAYTSE  200 (343)
T ss_dssp             SEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHHHH-HHHHTTCCHHHHHHTEEEEECCSTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHH-HHHHcCCCHHHHHhceeEeecCCHH
Confidence            47899999999999999999988643211    234788999888777766543 4455554321          11111


Q ss_pred             ---HHHHHHHHHHhC--CCeEEEEEeCCC
Q 010355          236 ---GRARKLCERLKK--EKKILVILDDIW  259 (512)
Q Consensus       236 ---~~~~~l~~~l~~--~k~~LlVlDdv~  259 (512)
                         ..+..+...+..  .+.-+||+|.+.
T Consensus       201 ~~~~ll~~l~~~i~~~~~~~~lvVIDsl~  229 (343)
T 1v5w_A          201 HQMELLDYVAAKFHEEAGIFKLLIIDSIM  229 (343)
T ss_dssp             HHHHHHHHHHHHHHHSCSSEEEEEEETSG
T ss_pred             HHHHHHHHHHHHHHhcCCCccEEEEechH
Confidence               222333344443  467789999884

>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=97.19  E-value=0.00069  Score=61.96  Aligned_cols=90  Identities=19%  Similarity=0.234  Sum_probs=53.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhc----CCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC----------CCCc-
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKAD----KLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFY----------EESE-  234 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~----~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~----------~~~~-  234 (512)
                      -.+++|+|++|+|||||++.++......    .....++|+.......... +..+++.++....          .... 
T Consensus        25 G~~~~l~G~nGsGKSTll~~l~g~~~~~~~~g~~~~~~i~~~~~~~~~~~~-i~~~~~~~~~~~~~~~~~~~~~~~~~~~  103 (231)
T 4a74_A           25 QAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPER-IREIAQNRGLDPDEVLKHIYVARAFNSN  103 (231)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHH-HHHHHHHTTSCHHHHHHTEEEEECCSHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCEEEEEECCCCCCHHH-HHHHHHHcCCCHHHHhhcEEEEecCChH
Confidence            3799999999999999999998754321    0134578887655444333 3344444443311          0011 


Q ss_pred             --hHHHHHHHHHHh-----CCCeEEEEEeCCCC
Q 010355          235 --SGRARKLCERLK-----KEKKILVILDDIWT  260 (512)
Q Consensus       235 --~~~~~~l~~~l~-----~~k~~LlVlDdv~~  260 (512)
                        ......+...+.     ..++-+||||....
T Consensus       104 ~~~~~~~~~~~~~~~~~~~~~~~~llilDe~~~  136 (231)
T 4a74_A          104 HQMLLVQQAEDKIKELLNTDRPVKLLIVDSLTS  136 (231)
T ss_dssp             HHHHHHHHHHHHHHHHTTSSSCEEEEEEETSSH
T ss_pred             HHHHHHHHHHHHHHHhcccCCceeEEEECChHH
Confidence              111233344444     45788999999854

>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=97.16  E-value=0.0019  Score=62.62  Aligned_cols=90  Identities=21%  Similarity=0.291  Sum_probs=58.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCC----CCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC----------CCCch
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKL----FDEVVYAEVSQRPDVKKIQGQIADKLGLKFY----------EESES  235 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~----f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~----------~~~~~  235 (512)
                      ..++.|+|.+|+|||+||.+++........    -..++|++....++...+. +++..++....          ..+..
T Consensus       107 G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~~~~~~l~-~~~~~~g~~~~~~~~~l~~~~~~~~~  185 (324)
T 2z43_A          107 RTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFRWERIE-NMAKALGLDIDNVMNNIYYIRAINTD  185 (324)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHH-HHHHHTTCCHHHHHHTEEEEECCSHH
T ss_pred             CcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHH-HHHHHhCCCHHHHhccEEEEeCCCHH
Confidence            468999999999999999999876532110    2478999988877766655 34566665421          11111


Q ss_pred             ---HHHHHHHHHHhC-CCeEEEEEeCCCC
Q 010355          236 ---GRARKLCERLKK-EKKILVILDDIWT  260 (512)
Q Consensus       236 ---~~~~~l~~~l~~-~k~~LlVlDdv~~  260 (512)
                         ..+..+...+.. .+.-+||+|.+..
T Consensus       186 ~~~~~l~~l~~~~~~~~~~~lvVIDsl~~  214 (324)
T 2z43_A          186 HQIAIVDDLQELVSKDPSIKLIVVDSVTS  214 (324)
T ss_dssp             HHHHHHHHHHHHHHHCTTEEEEEETTTTH
T ss_pred             HHHHHHHHHHHHHHhccCCCEEEEeCcHH
Confidence               123344444444 5678999999853

>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=97.15  E-value=0.00059  Score=73.67  Aligned_cols=170  Identities=12%  Similarity=0.198  Sum_probs=80.3

Q ss_pred             ccccccchHHHHHHHHHhc-------------CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCH
Q 010355          148 YEAFESRMSTLNDVINALK-------------NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDV  214 (512)
Q Consensus       148 ~~~~~gR~~~l~~l~~~L~-------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  214 (512)
                      +..+.|-+...+.|.+.+.             ....+-|.++|++|+|||.||+++++.....       ++.++    .
T Consensus       476 w~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~~~~-------f~~v~----~  544 (806)
T 3cf2_A          476 WEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQAN-------FISIK----G  544 (806)
T ss_dssp             STTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTTTCE-------EEECC----H
T ss_pred             HHHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHhCCc-------eEEec----c
Confidence            4455566666666555432             1234568899999999999999999887521       23332    1


Q ss_pred             HHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh----------------hhhh----hCCCCCCC
Q 010355          215 KKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL----------------DLEN----VGIPFGVR  274 (512)
Q Consensus       215 ~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~----------------~~~~----l~~~~~~~  274 (512)
                      .+    ++...    . ......+..++...+...+++|+||+++...                ....    +.......
T Consensus       545 ~~----l~s~~----v-Gese~~vr~lF~~Ar~~~P~IifiDEiDsl~~~R~~~~~~~~~~~~rv~~~lL~~mdg~~~~~  615 (806)
T 3cf2_A          545 PE----LLTMW----F-GESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKK  615 (806)
T ss_dssp             HH----HHTTT----C-SSCHHHHHHHHHHHHTTCSEEEECSCGGGCC--------------CHHHHHHHHHHHSSCSSS
T ss_pred             ch----hhccc----c-chHHHHHHHHHHHHHHcCCceeechhhhHHhhccCCCCCCCchHHHHHHHHHHHHHhCCCCCC
Confidence            12    21111    1 1223456667777766689999999985321                0111    11111133


Q ss_pred             CeEEEEEeCCcchh----ccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCC
Q 010355          275 GCRVLMTARSQDVL----SSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGL  339 (512)
Q Consensus       275 gs~iivTtR~~~v~----~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~Gl  339 (512)
                      +.-||.||......    .+...-...+.++.-+.++-.++|+.++......++.  -...|++.+.|+
T Consensus       616 ~V~vi~aTN~p~~lD~AllRpgRfd~~i~v~lPd~~~R~~il~~~l~~~~~~~~~--dl~~la~~t~g~  682 (806)
T 3cf2_A          616 NVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDV--DLEFLAKMTNGF  682 (806)
T ss_dssp             SEEEECC-CCSSSSCHHHHSTTTSCCEEEC-----CHHHHTTTTTSSCC--CCC---------------
T ss_pred             CEEEEEeCCCchhCCHhHcCCCcceEEEEECCcCHHHHHHHHHHHhcCCCCCCCC--CHHHHHHhCCCC
Confidence            44455455544332    1111223567777666666677777666433222221  134566666654

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=97.12  E-value=0.00054  Score=65.50  Aligned_cols=27  Identities=26%  Similarity=0.391  Sum_probs=23.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ..+.+.|+|++|+|||+||+.+++...
T Consensus        35 ~p~~lLl~GppGtGKT~la~aiA~~l~   61 (293)
T 3t15_A           35 VPLILGIWGGKGQGKSFQCELVFRKMG   61 (293)
T ss_dssp             CCSEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            346788999999999999999999875

>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=97.07  E-value=0.0023  Score=62.04  Aligned_cols=89  Identities=17%  Similarity=0.220  Sum_probs=57.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcC---------CC-----CeEEEEEeCCCCCHHHHHHHHHHHhCCCCC-----
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADK---------LF-----DEVVYAEVSQRPDVKKIQGQIADKLGLKFY-----  230 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~---------~f-----~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~-----  230 (512)
                      ..++.|+|.+|+|||+||.+++.......         ..     ..++|++....++...+.. ++..++....     
T Consensus        98 g~i~~i~G~~gsGKT~la~~la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~~~~~~l~~-~~~~~g~~~~~~~~~  176 (322)
T 2i1q_A           98 QSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQ-MAEHAGIDGQTVLDN  176 (322)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHHHHH-HHHHHTCCHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhccccccccccccccCCCCCceEEEEECCCCCCHHHHHH-HHHHcCCCHHHHhcC
Confidence            47899999999999999999987632110         11     4788999888777766654 4556665421     


Q ss_pred             ----C-CCch---HHHHHHHHHHhC-CCeEEEEEeCCC
Q 010355          231 ----E-ESES---GRARKLCERLKK-EKKILVILDDIW  259 (512)
Q Consensus       231 ----~-~~~~---~~~~~l~~~l~~-~k~~LlVlDdv~  259 (512)
                          . .+..   ..+..+...+.. .+.-+||+|.+.
T Consensus       177 l~~~~~~~~~~~~~~l~~l~~~~~~~~~~~lvVIDsl~  214 (322)
T 2i1q_A          177 TFVARAYNSDMQMLFAEKIEDLIQEGNNIKLVVIDSLT  214 (322)
T ss_dssp             EEEEECSSHHHHHHHHHTHHHHHHTTCEEEEEEEECSS
T ss_pred             EEEEeCCCHHHHHHHHHHHHHHHhhccCccEEEEECcH
Confidence                0 1111   123344445554 566799999985

>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=97.02  E-value=0.0022  Score=62.76  Aligned_cols=83  Identities=19%  Similarity=0.280  Sum_probs=53.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCC-----CCchHHHHHHHHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYE-----ESESGRARKLCER  244 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~-----~~~~~~~~~l~~~  244 (512)
                      -.++.|+|.+|+||||||.+++......  -..++|++....+...     .++.++.....     .........+...
T Consensus        61 G~iv~I~G~pGsGKTtLal~la~~~~~~--g~~vlyi~~E~~~~~~-----~a~~lG~~~~~l~i~~~~~~e~~l~~~~~  133 (349)
T 2zr9_A           61 GRVIEIYGPESSGKTTVALHAVANAQAA--GGIAAFIDAEHALDPE-----YAKKLGVDTDSLLVSQPDTGEQALEIADM  133 (349)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHHT--TCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhC--CCeEEEEECCCCcCHH-----HHHHcCCCHHHeEEecCCCHHHHHHHHHH
Confidence            4789999999999999999998766532  3468899887766543     24556654221     1112222223333


Q ss_pred             H-hCCCeEEEEEeCCC
Q 010355          245 L-KKEKKILVILDDIW  259 (512)
Q Consensus       245 l-~~~k~~LlVlDdv~  259 (512)
                      + ...+.-+||+|.+.
T Consensus       134 l~~~~~~~lIVIDsl~  149 (349)
T 2zr9_A          134 LVRSGALDIIVIDSVA  149 (349)
T ss_dssp             HHTTTCCSEEEEECGG
T ss_pred             HHhcCCCCEEEEcChH
Confidence            3 34457799999984

>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=97.01  E-value=0.0024  Score=62.78  Aligned_cols=83  Identities=18%  Similarity=0.199  Sum_probs=53.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCC------CCchHHHHHHHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYE------ESESGRARKLCE  243 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~------~~~~~~~~~l~~  243 (512)
                      ..++.|+|.+|+||||||.+++......  -..++|++....+...     .+..++.....      .+.......+..
T Consensus        74 G~li~I~G~pGsGKTtlal~la~~~~~~--g~~vlyi~~E~s~~~~-----~a~~~g~d~~~l~i~~~~~~e~~l~~l~~  146 (366)
T 1xp8_A           74 GRITEIYGPESGGKTTLALAIVAQAQKA--GGTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIMEL  146 (366)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHHT--TCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCChHHHHHHHHHHHHHC--CCeEEEEECCCChhHH-----HHHHcCCCHHHceeecCCcHHHHHHHHHH
Confidence            3688999999999999999998776532  3478999988766543     24555554221      122222333333


Q ss_pred             HHhCCCeEEEEEeCCC
Q 010355          244 RLKKEKKILVILDDIW  259 (512)
Q Consensus       244 ~l~~~k~~LlVlDdv~  259 (512)
                      .+...+.-+||+|.+.
T Consensus       147 l~~~~~~~lVVIDsl~  162 (366)
T 1xp8_A          147 LVRSGAIDVVVVDSVA  162 (366)
T ss_dssp             HHTTTCCSEEEEECTT
T ss_pred             HHhcCCCCEEEEeChH
Confidence            3333456699999984

>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=96.98  E-value=0.002  Score=64.08  Aligned_cols=89  Identities=13%  Similarity=0.169  Sum_probs=54.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcC----CCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC----------CCCc-
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADK----LFDEVVYAEVSQRPDVKKIQGQIADKLGLKFY----------EESE-  234 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~----~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~----------~~~~-  234 (512)
                      -.++.|+|++|+|||||+..++-......    .-..++|++....+....+ ..+++.++....          .... 
T Consensus       178 Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~~~~~~rl-~~~a~~~gl~~~~vleni~~~~~~~~~  256 (400)
T 3lda_A          178 GSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRL-VSIAQRFGLDPDDALNNVAYARAYNAD  256 (400)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHH-HHHHHHTTCCHHHHHHTEEEEECCSHH
T ss_pred             CcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCCccCHHHH-HHHHHHcCCChHhHhhcEEEeccCChH
Confidence            36899999999999999998764432211    2346889887766655543 346666665321          0111 


Q ss_pred             --hHHHHHHHHHHhCCCeEEEEEeCCC
Q 010355          235 --SGRARKLCERLKKEKKILVILDDIW  259 (512)
Q Consensus       235 --~~~~~~l~~~l~~~k~~LlVlDdv~  259 (512)
                        ......+...+...+.-+||+|.+.
T Consensus       257 ~~~~~l~~~~~~l~~~~~~llVIDs~t  283 (400)
T 3lda_A          257 HQLRLLDAAAQMMSESRFSLIVVDSVM  283 (400)
T ss_dssp             HHHHHHHHHHHHHHHSCEEEEEEETGG
T ss_pred             HHHHHHHHHHHHHHhcCCceEEecchh
Confidence              1122333444444567899999873

>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=96.92  E-value=0.0027  Score=62.22  Aligned_cols=83  Identities=20%  Similarity=0.353  Sum_probs=52.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCC-----CCchHHHHHHHHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYE-----ESESGRARKLCER  244 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~-----~~~~~~~~~l~~~  244 (512)
                      .+++.|+|.+|+||||||.+++......  -..++|++....++..     .+..++.....     .........+...
T Consensus        63 G~ii~I~G~pGsGKTtLal~la~~~~~~--g~~vlyid~E~s~~~~-----~a~~~g~~~~~l~i~~~~~~e~~~~~~~~  135 (356)
T 1u94_A           63 GRIVEIYGPESSGKTTLTLQVIAAAQRE--GKTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDTGEQALEICDA  135 (356)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHHHHHT--TCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHC--CCeEEEEeCCCCccHH-----HHHHcCCChhheeeeCCCCHHHHHHHHHH
Confidence            4689999999999999999998776532  3468899987766643     24555554221     1112222233333


Q ss_pred             H-hCCCeEEEEEeCCC
Q 010355          245 L-KKEKKILVILDDIW  259 (512)
Q Consensus       245 l-~~~k~~LlVlDdv~  259 (512)
                      + ...+.-+||+|.+.
T Consensus       136 l~~~~~~~lVVIDsl~  151 (356)
T 1u94_A          136 LARSGAVDVIVVDSVA  151 (356)
T ss_dssp             HHHHTCCSEEEEECGG
T ss_pred             HHhccCCCEEEEcCHH
Confidence            3 23456699999974

>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=96.81  E-value=0.00079  Score=61.30  Aligned_cols=111  Identities=11%  Similarity=0.028  Sum_probs=62.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhC-
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKK-  247 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~-  247 (512)
                      ...++.|+|..|+||||++..++++....  -..++.+......  . ....+++.+|........ .....++..+.. 
T Consensus        11 ~G~i~litG~mGsGKTT~ll~~~~r~~~~--g~kVli~~~~~d~--r-~~~~i~srlG~~~~~~~~-~~~~~i~~~i~~~   84 (223)
T 2b8t_A           11 IGWIEFITGPMFAGKTAELIRRLHRLEYA--DVKYLVFKPKIDT--R-SIRNIQSRTGTSLPSVEV-ESAPEILNYIMSN   84 (223)
T ss_dssp             CCEEEEEECSTTSCHHHHHHHHHHHHHHT--TCCEEEEEECCCG--G-GCSSCCCCCCCSSCCEEE-SSTHHHHHHHHST
T ss_pred             CcEEEEEECCCCCcHHHHHHHHHHHHHhc--CCEEEEEEeccCc--h-HHHHHHHhcCCCcccccc-CCHHHHHHHHHHH
Confidence            34789999999999999999998887643  2234444333221  1 223455666654332111 112234444432 


Q ss_pred             ---CCeEEEEEeCCCCh--hhhhhhCCCCCCCCeEEEEEeCCcc
Q 010355          248 ---EKKILVILDDIWTN--LDLENVGIPFGVRGCRVLMTARSQD  286 (512)
Q Consensus       248 ---~k~~LlVlDdv~~~--~~~~~l~~~~~~~gs~iivTtR~~~  286 (512)
                         ++.-+||+|.+...  ..+..+.. +...|..||+|.+...
T Consensus        85 ~~~~~~dvViIDEaQ~l~~~~ve~l~~-L~~~gi~Vil~Gl~~d  127 (223)
T 2b8t_A           85 SFNDETKVIGIDEVQFFDDRICEVANI-LAENGFVVIISGLDKN  127 (223)
T ss_dssp             TSCTTCCEEEECSGGGSCTHHHHHHHH-HHHTTCEEEEECCSBC
T ss_pred             hhCCCCCEEEEecCccCcHHHHHHHHH-HHhCCCeEEEEecccc
Confidence               34559999998532  23333311 1123788999998543

>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=96.79  E-value=0.0014  Score=61.45  Aligned_cols=60  Identities=10%  Similarity=0.162  Sum_probs=39.3

Q ss_pred             cccccchHHHHHHHHHhc--CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCC
Q 010355          149 EAFESRMSTLNDVINALK--NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQ  210 (512)
Q Consensus       149 ~~~~gR~~~l~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~  210 (512)
                      ..|+|+...+..+.+.+.  ......|.|+|.+|+|||+||+.+++.....  -...+.++++.
T Consensus         6 ~~~ig~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKt~la~~i~~~~~~~--~~~~~~v~~~~   67 (265)
T 2bjv_A            6 DNLLGEANSFLEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLHYLSSRW--QGPFISLNCAA   67 (265)
T ss_dssp             ----CCCHHHHHHHHHHHHHTTSCSCEEEECCTTSCHHHHHHHHHHTSTTT--TSCEEEEEGGG
T ss_pred             ccceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhcCcc--CCCeEEEecCC
Confidence            457888888887776554  2233568899999999999999999875422  12345555554

>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=96.79  E-value=0.0053  Score=58.55  Aligned_cols=87  Identities=16%  Similarity=0.161  Sum_probs=49.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCC-CCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhC
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQ-RPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKK  247 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~  247 (512)
                      ...+++|+|++|+||||++..++....... -..+..+.... .....+.+......++.+.........+......+ .
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~~l~~~~-G~~V~lv~~D~~r~~a~eqL~~~~~~~gl~~~~~~~~~~l~~al~~~-~  181 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAAISMLEK-HKKIAFITTDTYRIAAVEQLKTYAELLQAPLEVCYTKEEFQQAKELF-S  181 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHHHHTT-CCCEEEEECCCSSTTHHHHHHHHHTTTTCCCCBCSSHHHHHHHHHHG-G
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHhc-CCEEEEEecCcccchHHHHHHHHHHhcCCCeEecCCHHHHHHHHHHh-c
Confidence            357999999999999999999998776321 12455555432 23344445555555555432222222222233333 2


Q ss_pred             CCeEEEEEeCC
Q 010355          248 EKKILVILDDI  258 (512)
Q Consensus       248 ~k~~LlVlDdv  258 (512)
                       +.=++|+|-.
T Consensus       182 -~~dlvIiDT~  191 (296)
T 2px0_A          182 -EYDHVFVDTA  191 (296)
T ss_dssp             -GSSEEEEECC
T ss_pred             -CCCEEEEeCC
Confidence             3457888843

>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=96.79  E-value=0.0084  Score=58.48  Aligned_cols=157  Identities=8%  Similarity=-0.094  Sum_probs=93.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhC
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKK  247 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~  247 (512)
                      .-.++..++|+.|.||++.+..+....... .|.....+.+....++.++...+..                   .-+ -
T Consensus        16 ~~~~~yl~~G~e~~~~~~~~~~l~~~~~~~-~~~~~~~~~~~~~~~~~~l~~~~~~-------------------~pl-f   74 (343)
T 1jr3_D           16 GLRAAYLLLGNDPLLLQESQDAVRQVAAAQ-GFEEHHTFSIDPNTDWNAIFSLCQA-------------------MSL-F   74 (343)
T ss_dssp             CCCSEEEEEESCHHHHHHHHHHHHHHHHHH-TCCEEEEEECCTTCCHHHHHHHHHH-------------------HHH-C
T ss_pred             CCCcEEEEECCcHHHHHHHHHHHHHHHHhC-CCCeeEEEEecCCCCHHHHHHHhcC-------------------cCC-c
Confidence            446899999999999999999998876432 2433222233333444444333210                   011 1


Q ss_pred             CCeEEEEEeCCCC-h--hhhhhhC--CCCCCCCeEEEEEeCCc-------chhccccCCccceecCCCCHHHHHHHHHHH
Q 010355          248 EKKILVILDDIWT-N--LDLENVG--IPFGVRGCRVLMTARSQ-------DVLSSKMDCQNNFLIGVLNESEARDLFKKL  315 (512)
Q Consensus       248 ~k~~LlVlDdv~~-~--~~~~~l~--~~~~~~gs~iivTtR~~-------~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~  315 (512)
                      +++-++|+|++.. .  ..++.+.  ...+.+++.+|++|...       .+..........+...+++..+....+.+.
T Consensus        75 ~~~kvvii~~~~~kl~~~~~~aLl~~le~p~~~~~~il~~~~~~~~~~~~k~~~~i~sr~~~~~~~~l~~~~l~~~l~~~  154 (343)
T 1jr3_D           75 ASRQTLLLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTCQTPEQAQLPRWVAAR  154 (343)
T ss_dssp             CSCEEEEEECCSSCCCTTHHHHHHHHHTTCBTTEEEEEEESCCCTTTTTSHHHHHHTTTCEEEEECCCCTTHHHHHHHHH
T ss_pred             cCCeEEEEECCCCCCChHHHHHHHHHHhcCCCCeEEEEEcCCCChhhHhhHHHHHHHhCceEEEeeCCCHHHHHHHHHHH
Confidence            4567888999865 2  3333331  11124577777776431       222222344568899999999999888877


Q ss_pred             hCCCCCCchhHHHHHHHHHHcCCChhHHHHH
Q 010355          316 VGDKIENNDLKSLAMNIVKACRGLPIAIVTI  346 (512)
Q Consensus       316 ~~~~~~~~~~~~~~~~I~~~~~GlPLai~~i  346 (512)
                      +..... .--.+.+..|++.++|.+..+...
T Consensus       155 ~~~~g~-~i~~~a~~~l~~~~~gdl~~~~~e  184 (343)
T 1jr3_D          155 AKQLNL-ELDDAANQVLCYCYEGNLLALAQA  184 (343)
T ss_dssp             HHHTTC-EECHHHHHHHHHSSTTCHHHHHHH
T ss_pred             HHHcCC-CCCHHHHHHHHHHhchHHHHHHHH
Confidence            642221 111356778889999988877653

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=96.67  E-value=0.011  Score=56.94  Aligned_cols=51  Identities=14%  Similarity=0.115  Sum_probs=39.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADK  224 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~  224 (512)
                      -.++.|.|.+|+||||||.+++.....+.  ..++|++..  .+..++...++..
T Consensus        68 G~l~li~G~pG~GKTtl~l~ia~~~a~~g--~~vl~~slE--~s~~~l~~R~~~~  118 (315)
T 3bh0_A           68 RNFVLIAARPSMGKTAFALKQAKNMSDND--DVVNLHSLE--MGKKENIKRLIVT  118 (315)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHHHHHTTT--CEEEEEESS--SCHHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHHHHcC--CeEEEEECC--CCHHHHHHHHHHH
Confidence            36899999999999999999987765432  577887765  4667777776654

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.54  E-value=0.0026  Score=56.96  Aligned_cols=43  Identities=14%  Similarity=0.282  Sum_probs=33.8

Q ss_pred             cchHHHHHHHHHhcC---CCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          153 SRMSTLNDVINALKN---PDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       153 gR~~~l~~l~~~L~~---~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .|.+.++.|.+.+..   ....+|+|.|..|+|||||++.+.....
T Consensus         2 ~~~~~~~~l~~~~~~~~~~~~~~i~i~G~~GsGKstl~~~l~~~~~   47 (201)
T 1rz3_A            2 ELRDRIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQTLR   47 (201)
T ss_dssp             CHHHHHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhccCCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            355667777776653   3457999999999999999999988764

>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=96.47  E-value=0.015  Score=58.30  Aligned_cols=28  Identities=29%  Similarity=0.389  Sum_probs=24.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      ...+|.|+|.+|+||||++..++.....
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l~~  126 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYFQK  126 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHHHH
Confidence            4689999999999999999999987764

>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=96.46  E-value=0.0079  Score=58.85  Aligned_cols=92  Identities=17%  Similarity=0.216  Sum_probs=53.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCC----CeEEEEEeCCCCCHHHHHHHHHHHhCCCCC----------CCC-
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLF----DEVVYAEVSQRPDVKKIQGQIADKLGLKFY----------EES-  233 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f----~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~----------~~~-  233 (512)
                      .-.++.|+|++|+|||||+.+++.........    ..++|++....+.... +..+++.++....          ... 
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 TQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPER-IREIAQNRGLDPDEVLKHIYVARAFNS  208 (349)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHH-HHHHHHTTTCCHHHHGGGEEEEECCSH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhccchhcCCCCCeEEEEeCCCCCCHHH-HHHHHHHcCCCHHHHhhCEEEEecCCh
Confidence            34799999999999999999998875311111    2458888766544333 3345555443211          000 


Q ss_pred             --chHHHHHHHHHHhC-----CCeEEEEEeCCCCh
Q 010355          234 --ESGRARKLCERLKK-----EKKILVILDDIWTN  261 (512)
Q Consensus       234 --~~~~~~~l~~~l~~-----~k~~LlVlDdv~~~  261 (512)
                        ....+..+...+..     .++-|||||.+...
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              01122233333332     46889999998643

>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=96.44  E-value=0.0053  Score=59.98  Aligned_cols=97  Identities=18%  Similarity=0.215  Sum_probs=53.8

Q ss_pred             HHHHHhc-CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcC-CCCeEEEEEeCCCCCHHHHHHHHHHHhCC----CCCCCC
Q 010355          160 DVINALK-NPDVHMIGAYGMAGVGKTMLVKEVARQAKADK-LFDEVVYAEVSQRPDVKKIQGQIADKLGL----KFYEES  233 (512)
Q Consensus       160 ~l~~~L~-~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~-~f~~~~wv~~~~~~~~~~ll~~i~~~l~~----~~~~~~  233 (512)
                      ++++.+. -..-..++|+|.+|+|||||++.+++....++ .+. ++++-+++......   .+.+.+..    .....+
T Consensus       163 raID~~~pi~rGQr~~IvG~sG~GKTtLl~~Iar~i~~~~~~v~-~I~~lIGER~~Ev~---~~~~~~~~~vV~atadep  238 (422)
T 3ice_A          163 RVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCV-LMVLLIDERPEEVT---EMQRLVKGEVVASTFDEP  238 (422)
T ss_dssp             HHHHHHSCCBTTCEEEEECCSSSSHHHHHHHHHHHHHHHCTTSE-EEEEEESSCHHHHH---HHHTTCSSEEEEECTTSC
T ss_pred             eeeeeeeeecCCcEEEEecCCCCChhHHHHHHHHHHhhcCCCee-EEEEEecCChHHHH---HHHHHhCeEEEEeCCCCC
Confidence            3444444 23346899999999999999999988765422 222 44577776542221   22222210    000111


Q ss_pred             chH------HHHHHHHHHh-CCCeEEEEEeCCCC
Q 010355          234 ESG------RARKLCERLK-KEKKILVILDDIWT  260 (512)
Q Consensus       234 ~~~------~~~~l~~~l~-~~k~~LlVlDdv~~  260 (512)
                      ...      ....+.+++. .++.+||++|++..
T Consensus       239 ~~~r~~~a~~alt~AEyfrd~G~dVLil~DslTR  272 (422)
T 3ice_A          239 ASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITR  272 (422)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTSCEEEEEEECHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhcCCCEEEEEeCchH
Confidence            111      1112333343 57999999999854

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=96.44  E-value=0.011  Score=54.27  Aligned_cols=48  Identities=13%  Similarity=0.224  Sum_probs=33.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQI  221 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i  221 (512)
                      -.++.|.|++|+|||||+.+++......  -..++|++...  +...+...+
T Consensus        23 G~~~~i~G~~GsGKTtl~~~~~~~~~~~--~~~v~~~~~e~--~~~~~~~~~   70 (247)
T 2dr3_A           23 RNVVLLSGGPGTGKTIFSQQFLWNGLKM--GEPGIYVALEE--HPVQVRQNM   70 (247)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHHHHHT--TCCEEEEESSS--CHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHhc--CCeEEEEEccC--CHHHHHHHH
Confidence            3689999999999999999887765432  34677777554  344444433

>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=96.42  E-value=0.0015  Score=63.97  Aligned_cols=50  Identities=16%  Similarity=0.222  Sum_probs=36.8

Q ss_pred             cCccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          146 KGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       146 ~~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .....++|....+..+...+.......+.|+|++|+|||+||+.+++...
T Consensus        21 ~~f~~i~G~~~~~~~l~~~~~~~~~~~vLl~G~~GtGKT~la~~la~~~~   70 (350)
T 1g8p_A           21 FPFSAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAALLP   70 (350)
T ss_dssp             CCGGGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHHHSC
T ss_pred             CCchhccChHHHHHHHHHHhhCCCCceEEEECCCCccHHHHHHHHHHhCc
Confidence            34556889888666554444333344589999999999999999998764

>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=96.33  E-value=0.0021  Score=56.09  Aligned_cols=25  Identities=24%  Similarity=0.246  Sum_probs=22.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .+|.|+|++|+||||+|+.+.....
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~~l~   28 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQSVLP   28 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcC
Confidence            5799999999999999999998764

>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=96.33  E-value=0.02  Score=57.39  Aligned_cols=28  Identities=29%  Similarity=0.233  Sum_probs=24.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      ...+|.++|++|+||||++..++.....
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~l~~  123 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYFYKK  123 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4689999999999999999999987764

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=96.32  E-value=0.0039  Score=56.12  Aligned_cols=40  Identities=23%  Similarity=0.397  Sum_probs=31.3

Q ss_pred             HHHHHHHHHhcC--CCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          156 STLNDVINALKN--PDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       156 ~~l~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ..+++|.+.+..  ....+|+|+|+.|+|||||++.++....
T Consensus         6 ~~~~~~~~~~~~~~~~g~~v~I~G~sGsGKSTl~~~l~~~~~   47 (208)
T 3c8u_A            6 ALCQGVLERLDPRQPGRQLVALSGAPGSGKSTLSNPLAAALS   47 (208)
T ss_dssp             HHHHHHHHHSCTTCCSCEEEEEECCTTSCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            345566666552  4567999999999999999999988765

>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=96.30  E-value=0.0023  Score=55.37  Aligned_cols=25  Identities=16%  Similarity=0.147  Sum_probs=22.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .+|+|.|++|+||||+++.++....
T Consensus         2 ~~i~l~G~~GsGKsT~~~~L~~~l~   26 (173)
T 3kb2_A            2 TLIILEGPDCCFKSTVAAKLSKELK   26 (173)
T ss_dssp             CEEEEECSSSSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4789999999999999999988764

>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=96.27  E-value=0.0096  Score=59.96  Aligned_cols=88  Identities=24%  Similarity=0.403  Sum_probs=52.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCC-CHHHHHHHHHHHhCCC-------CCCCCchH------
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRP-DVKKIQGQIADKLGLK-------FYEESESG------  236 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~ll~~i~~~l~~~-------~~~~~~~~------  236 (512)
                      +.++|+|.+|+|||||++.+........ ...++++.++... ...+++..+...-...       ....+...      
T Consensus       152 q~~~i~G~sGvGKTtL~~~l~~~~~~~~-~~i~V~~~iGerttev~el~~~l~~~~~l~~tvvv~~~~~d~pg~r~~~~~  230 (473)
T 1sky_E          152 GKIGLFGGAGVGKTVLIQELIHNIAQEH-GGISVFAGVGERTREGNDLYHEMKDSGVISKTAMVFGQMNEPPGARMRVAL  230 (473)
T ss_dssp             CEEEEECCSSSCHHHHHHHHHHHHHHHT-CCCEEEEEESSCHHHHHHHHHHHHHTSGGGGEEEEEECTTSCHHHHHHHHH
T ss_pred             CEEEEECCCCCCccHHHHHHHhhhhhcc-CcEEEEeeeccCchHHHHHHHHhhhcCCcceeEEEEEcCCCCHHHHHHHHH
Confidence            4588999999999999999988765432 2345666676654 3445555554321000       00011110      


Q ss_pred             HHHHHHHHHh--CCCeEEEEEeCCC
Q 010355          237 RARKLCERLK--KEKKILVILDDIW  259 (512)
Q Consensus       237 ~~~~l~~~l~--~~k~~LlVlDdv~  259 (512)
                      ....+.+++.  ++++.||++|++.
T Consensus       231 ~~ltiAEyFrd~~G~~VLl~~D~it  255 (473)
T 1sky_E          231 TGLTMAEYFRDEQGQDGLLFIDNIF  255 (473)
T ss_dssp             HHHHHHHHHHHHSCCEEEEEEECTH
T ss_pred             HHHHHHHHHHHhcCCcEEEEeccHH
Confidence            1224455554  4899999999994

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=96.23  E-value=0.01  Score=53.70  Aligned_cols=27  Identities=19%  Similarity=0.283  Sum_probs=24.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ..++|.|.|++|+||||.|+.++..+.
T Consensus        28 k~kiI~llGpPGsGKgTqa~~L~~~~g   54 (217)
T 3umf_A           28 KAKVIFVLGGPGSGKGTQCEKLVQKFH   54 (217)
T ss_dssp             SCEEEEEECCTTCCHHHHHHHHHHHHC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHC
Confidence            568999999999999999999998764

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.22  E-value=0.02  Score=55.07  Aligned_cols=44  Identities=18%  Similarity=0.178  Sum_probs=30.8

Q ss_pred             ccchHHHHHHHHHhc-C---CCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          152 ESRMSTLNDVINALK-N---PDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       152 ~gR~~~l~~l~~~L~-~---~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      +|....+..+...+. .   ....+|+|.|+.|+|||||++.+.....
T Consensus        70 ~~~~~~l~~~~~~~l~~~~~~~p~iigI~GpsGSGKSTl~~~L~~ll~  117 (321)
T 3tqc_A           70 VTARQTLQQATYQFLGKPEPKVPYIIGIAGSVAVGKSTTSRVLKALLS  117 (321)
T ss_dssp             HHHHHHHHHHHHHHHTCCCCCCCEEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             hcchHHHHHHHHHHhccCCCCCCEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            344444554443333 2   2456999999999999999999987765

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=96.22  E-value=0.022  Score=57.26  Aligned_cols=58  Identities=21%  Similarity=0.338  Sum_probs=36.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCC-CCCHHHHHHHHHHHhCC
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQ-RPDVKKIQGQIADKLGL  227 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~ll~~i~~~l~~  227 (512)
                      ..++|.|+|.+|+||||++..++.....+. -..+..+++.. .......+.......++
T Consensus        99 ~~~vI~ivG~~GvGKTT~a~~LA~~l~~~~-G~kVllvd~D~~r~~a~~ql~~~~~~~~l  157 (433)
T 2xxa_A           99 PPAVVLMAGLQGAGKTTSVGKLGKFLREKH-KKKVLVVSADVYRPAAIKQLETLAEQVGV  157 (433)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHHHHTS-CCCEEEEECCCSSTTHHHHHHHHHHHHTC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHhc-CCeEEEEecCCCCccHHHHHHhhcccCCe
Confidence            467999999999999999999998876431 22445555543 22333333333444444

>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=96.19  E-value=0.0028  Score=56.01  Aligned_cols=113  Identities=13%  Similarity=0.026  Sum_probs=59.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCC---CCCHHHHHHHHH---HHhCC--CCCCCC-------ch
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQ---RPDVKKIQGQIA---DKLGL--KFYEES-------ES  235 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~---~~~~~~ll~~i~---~~l~~--~~~~~~-------~~  235 (512)
                      ..|.|++-.|.||||+|...+-+...  +-..+.++..-.   ......++..+.   ..++.  ......       ..
T Consensus        29 g~i~v~tG~GkGKTTaA~GlalRA~g--~G~rV~~vQF~Kg~~~~gE~~~l~~L~v~~~~~g~gf~~~~~~~~~~~~~a~  106 (196)
T 1g5t_A           29 GIIIVFTGNGKGKTTAAFGTAARAVG--HGKNVGVVQFIKGTWPNGERNLLEPHGVEFQVMATGFTWETQNREADTAACM  106 (196)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHHHHHH--TTCCEEEEESSCCSSCCHHHHHHGGGTCEEEECCTTCCCCGGGHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHH--CCCeEEEEEeeCCCCCccHHHHHHhCCcEEEEcccccccCCCCcHHHHHHHH
Confidence            55667777779999999988877653  233555564433   233444444431   00011  111111       01


Q ss_pred             HHHHHHHHHHhCCCeEEEEEeCCCCh--------hhhhhhCCCCCCCCeEEEEEeCCcc
Q 010355          236 GRARKLCERLKKEKKILVILDDIWTN--------LDLENVGIPFGVRGCRVLMTARSQD  286 (512)
Q Consensus       236 ~~~~~l~~~l~~~k~~LlVlDdv~~~--------~~~~~l~~~~~~~gs~iivTtR~~~  286 (512)
                      .....+.+.+..++-=|||||.+...        ..+-.+.. .......||+|+|...
T Consensus       107 ~~l~~a~~~l~~~~yDlvILDEi~~al~~g~l~~~ev~~~l~-~Rp~~~~vIlTGr~ap  164 (196)
T 1g5t_A          107 AVWQHGKRMLADPLLDMVVLDELTYMVAYDYLPLEEVISALN-ARPGHQTVIITGRGCH  164 (196)
T ss_dssp             HHHHHHHHHTTCTTCSEEEEETHHHHHHTTSSCHHHHHHHHH-TSCTTCEEEEECSSCC
T ss_pred             HHHHHHHHHHhcCCCCEEEEeCCCccccCCCCCHHHHHHHHH-hCcCCCEEEEECCCCc
Confidence            12334455555555569999998432        11111111 1135678999999874

>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=96.17  E-value=0.0029  Score=54.82  Aligned_cols=20  Identities=35%  Similarity=0.493  Sum_probs=18.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHH
Q 010355          171 HMIGAYGMAGVGKTMLVKEV  190 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v  190 (512)
                      .+|+|.|++|+||||+|+.+
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL   21 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            47899999999999999999

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=96.17  E-value=0.0027  Score=61.66  Aligned_cols=45  Identities=18%  Similarity=0.243  Sum_probs=37.4

Q ss_pred             cccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          149 EAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       149 ~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ..++|++..+..+...+..+  ..+.|+|++|+|||+||+.+++...
T Consensus        27 ~~i~g~~~~~~~l~~~l~~~--~~vll~G~pGtGKT~la~~la~~~~   71 (331)
T 2r44_A           27 KVVVGQKYMINRLLIGICTG--GHILLEGVPGLAKTLSVNTLAKTMD   71 (331)
T ss_dssp             TTCCSCHHHHHHHHHHHHHT--CCEEEESCCCHHHHHHHHHHHHHTT
T ss_pred             cceeCcHHHHHHHHHHHHcC--CeEEEECCCCCcHHHHHHHHHHHhC
Confidence            35789999888888777643  4688999999999999999998764

>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=96.17  E-value=0.017  Score=58.23  Aligned_cols=97  Identities=24%  Similarity=0.353  Sum_probs=62.8

Q ss_pred             HHHhc-CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCC-CHHHHHHHHHHHhCCC-------CC--
Q 010355          162 INALK-NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRP-DVKKIQGQIADKLGLK-------FY--  230 (512)
Q Consensus       162 ~~~L~-~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~ll~~i~~~l~~~-------~~--  230 (512)
                      ++.|. -.+-.-++|.|.+|+|||+|+..+++.... .+-+.++++-++... ...+++..+...-...       ..  
T Consensus       156 ID~l~pigkGqr~gIfgg~GvGKT~L~~~l~~~~a~-~~~~v~V~~~iGER~rEv~e~~~~~~~~~~l~~~~l~~~rtvv  234 (498)
T 1fx0_B          156 VNLLAPYRRGGKIGLFGGAGVGKTVLIMELINNIAK-AHGGVSVFGGVGERTREGNDLYMEMKESGVINEQNIAESKVAL  234 (498)
T ss_dssp             HHHHSCCCTTCCEEEEECSSSSHHHHHHHHHHHTTT-TCSSCEEEEEESCCSHHHHHHHHHHHHTTSSCSSTTCCCCEEE
T ss_pred             eeeecccccCCeEEeecCCCCCchHHHHHHHHHHHh-hCCCEEEEEEcccCcHHHHHHHHhhhcccccccccccccceEE
Confidence            44444 223456899999999999999999987643 345678888888766 4566777776542221       00  


Q ss_pred             ---CCCc--------hHHHHHHHHHHhC--CCeEEEEEeCCC
Q 010355          231 ---EESE--------SGRARKLCERLKK--EKKILVILDDIW  259 (512)
Q Consensus       231 ---~~~~--------~~~~~~l~~~l~~--~k~~LlVlDdv~  259 (512)
                         ..+.        ......+.++++.  ++.+||++||+.
T Consensus       235 V~~t~d~p~~~R~~~~~~altiAEyfrd~~G~dVLl~~Dsit  276 (498)
T 1fx0_B          235 VYGQMNEPPGARMRVGLTALTMAEYFRDVNEQDVLLFIDNIF  276 (498)
T ss_dssp             EEECTTSCHHHHTTHHHHHHHTHHHHTTTSCCEEEEEEECSH
T ss_pred             EEeCCCCCHHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccHH
Confidence               0011        1223455666664  799999999984

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.12  E-value=0.0035  Score=55.97  Aligned_cols=27  Identities=37%  Similarity=0.367  Sum_probs=23.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ...+|+|+|++|+||||+++.++....
T Consensus        24 ~~~~i~l~G~~GsGKsTl~~~La~~l~   50 (199)
T 3vaa_A           24 AMVRIFLTGYMGAGKTTLGKAFARKLN   50 (199)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            346899999999999999999998764

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.11  E-value=0.0042  Score=54.74  Aligned_cols=29  Identities=21%  Similarity=0.286  Sum_probs=25.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      ....+|.|.|++|+||||+++.++.....
T Consensus        11 ~~~~~i~l~G~~GsGKsT~~~~L~~~l~~   39 (186)
T 2yvu_A           11 EKGIVVWLTGLPGSGKTTIATRLADLLQK   39 (186)
T ss_dssp             SCCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHHHHh
Confidence            34578999999999999999999988764

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=96.10  E-value=0.0027  Score=65.08  Aligned_cols=44  Identities=11%  Similarity=0.169  Sum_probs=36.8

Q ss_pred             ccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          150 AFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       150 ~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .++|++..+..+...+..+  ..|.|+|++|+|||+||+.+++...
T Consensus        23 ~ivGq~~~i~~l~~al~~~--~~VLL~GpPGtGKT~LAraLa~~l~   66 (500)
T 3nbx_X           23 GLYERSHAIRLCLLAALSG--ESVFLLGPPGIAKSLIARRLKFAFQ   66 (500)
T ss_dssp             TCSSCHHHHHHHHHHHHHT--CEEEEECCSSSSHHHHHHHGGGGBS
T ss_pred             hhHHHHHHHHHHHHHHhcC--CeeEeecCchHHHHHHHHHHHHHHh
Confidence            4789999888888777644  4688999999999999999988764

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.10  E-value=0.0035  Score=54.68  Aligned_cols=22  Identities=27%  Similarity=0.445  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHH
Q 010355          171 HMIGAYGMAGVGKTMLVKEVAR  192 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~  192 (512)
                      .+|.|.|++|+||||+|+.+..
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            5789999999999999999987

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=96.09  E-value=0.0094  Score=70.13  Aligned_cols=84  Identities=17%  Similarity=0.184  Sum_probs=56.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCC------CCchHHHHHHH
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYE------ESESGRARKLC  242 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~------~~~~~~~~~l~  242 (512)
                      ..+++.|+|++|+|||+||.+++.....  .-..++|+++...+....     ++.+|.+...      .+.......+.
T Consensus      1426 ~g~~vll~GppGtGKT~LA~ala~ea~~--~G~~v~Fi~~e~~~~~l~-----a~~~G~dl~~l~v~~~~~~E~~l~~~~ 1498 (2050)
T 3cmu_A         1426 MGRIVEIYGPESSGKTTLTLQVIAAAQR--EGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICD 1498 (2050)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHHHT--TTCCEEEECTTSCCCHHH-----HHHTTCCTTTCEEECCSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH--cCCcEEEEEcccccCHHH-----HHHcCCCchhceeecCChHHHHHHHHH
Confidence            4579999999999999999999887653  234678888877766554     4555643221      11223333444


Q ss_pred             HHHhCCCeEEEEEeCCC
Q 010355          243 ERLKKEKKILVILDDIW  259 (512)
Q Consensus       243 ~~l~~~k~~LlVlDdv~  259 (512)
                      ....+.+..+||+|.+.
T Consensus      1499 ~lvr~~~~~lVVIDsi~ 1515 (2050)
T 3cmu_A         1499 ALARSGAVDVIVVDSVA 1515 (2050)
T ss_dssp             HHHHHTCCSEEEESCGG
T ss_pred             HHHhcCCCCEEEEcChh
Confidence            44455678899999984

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.07  E-value=0.0036  Score=54.99  Aligned_cols=26  Identities=31%  Similarity=0.426  Sum_probs=23.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .+.|.|+|++|+||||+|+.++....
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l~   30 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLTK   30 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            46789999999999999999998764

>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=96.01  E-value=0.028  Score=53.75  Aligned_cols=87  Identities=18%  Similarity=0.203  Sum_probs=49.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCH--HHHHHHHHHHhCCCCCCC---Cch-HH-HHHH
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDV--KKIQGQIADKLGLKFYEE---SES-GR-ARKL  241 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~--~~ll~~i~~~l~~~~~~~---~~~-~~-~~~l  241 (512)
                      ...+++|+|++|+||||++..++......  -..+.++.... +..  .+-+...+..++++....   ... .. ...+
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 PPFVIMVVGVNGTGKTTSCGKLAKMFVDE--GKSVVLAAADT-FRAAAIEQLKIWGERVGATVISHSEGADPAAVAFDAV  179 (306)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHHT--TCCEEEEEECT-TCHHHHHHHHHHHHHHTCEEECCSTTCCHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHHHHHhc--CCEEEEEcccc-ccHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHH
Confidence            45799999999999999999999887642  23455555432 222  222344455555442211   111 11 1233


Q ss_pred             HHHHhCCCeEEEEEeCCC
Q 010355          242 CERLKKEKKILVILDDIW  259 (512)
Q Consensus       242 ~~~l~~~k~~LlVlDdv~  259 (512)
                      ...+.. .+-++|+|-.-
T Consensus       180 ~~a~~~-~~dvvIiDtpg  196 (306)
T 1vma_A          180 AHALAR-NKDVVIIDTAG  196 (306)
T ss_dssp             HHHHHT-TCSEEEEEECC
T ss_pred             HHHHhc-CCCEEEEECCC
Confidence            333443 44578888663

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.00  E-value=0.0034  Score=54.45  Aligned_cols=25  Identities=28%  Similarity=0.371  Sum_probs=22.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .+|+|+|++|+|||||++.++....
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~l~   29 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQLN   29 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhC
Confidence            5799999999999999999988754

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=95.99  E-value=0.0047  Score=55.15  Aligned_cols=28  Identities=21%  Similarity=0.267  Sum_probs=25.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ....+|+|+|++|+|||||++.++....
T Consensus        23 ~~g~~i~l~G~sGsGKSTl~~~La~~l~   50 (200)
T 3uie_A           23 QKGCVIWVTGLSGSGKSTLACALNQMLY   50 (200)
T ss_dssp             SCCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4568999999999999999999998775

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=95.99  E-value=0.0041  Score=54.88  Aligned_cols=25  Identities=24%  Similarity=0.369  Sum_probs=22.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .+|+|.|++|+||||+++.++....
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~~l~   26 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKEILD   26 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            5789999999999999999998775

>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=95.98  E-value=0.0067  Score=59.76  Aligned_cols=45  Identities=22%  Similarity=0.179  Sum_probs=35.5

Q ss_pred             cccchHHHHHHHHHhc-------------C--CCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          151 FESRMSTLNDVINALK-------------N--PDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       151 ~~gR~~~l~~l~~~L~-------------~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ++|....++.|...+.             .  ...+.+.|+|++|+|||++|+.+++...
T Consensus        17 i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~~   76 (363)
T 3hws_A           17 VIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLLD   76 (363)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             ccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHcC
Confidence            5788888887777662             1  1346789999999999999999998764

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=95.95  E-value=0.0049  Score=54.45  Aligned_cols=26  Identities=27%  Similarity=0.318  Sum_probs=23.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ..+|.|.|++|+||||+++.+.....
T Consensus         5 ~~~I~l~G~~GsGKST~~~~L~~~l~   30 (193)
T 2rhm_A            5 PALIIVTGHPATGKTTLSQALATGLR   30 (193)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHcC
Confidence            46899999999999999999987663

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=95.94  E-value=0.0042  Score=54.48  Aligned_cols=26  Identities=15%  Similarity=0.282  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .++++|+|++|+|||||++.+.....
T Consensus         5 g~~i~i~GpsGsGKSTL~~~L~~~~~   30 (180)
T 1kgd_A            5 RKTLVLLGAHGVGRRHIKNTLITKHP   30 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhCC
Confidence            36899999999999999999987653

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=95.93  E-value=0.0048  Score=55.09  Aligned_cols=27  Identities=26%  Similarity=0.432  Sum_probs=23.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ....+|+|.|+.|+|||||++.++...
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            345799999999999999999998765

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=95.93  E-value=0.0045  Score=54.68  Aligned_cols=24  Identities=21%  Similarity=0.343  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      ..+++|+|++|+|||||++.++..
T Consensus         9 g~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A            9 GNILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhc
Confidence            468999999999999999999765

>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=95.92  E-value=0.038  Score=52.60  Aligned_cols=87  Identities=23%  Similarity=0.267  Sum_probs=51.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCC-CCHHHHHHHHHHHhCCCCCC----CCchHHHHHHHHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQR-PDVKKIQGQIADKLGLKFYE----ESESGRARKLCER  244 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-~~~~~ll~~i~~~l~~~~~~----~~~~~~~~~l~~~  244 (512)
                      ..+++|+|.+|+||||++..++......  -..+.++..... +.....+.......+.+...    .+...........
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~~~~~--g~~v~l~~~D~~r~~a~~ql~~~~~~~~v~v~~~~~~~~p~~~~~~~l~~  175 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYFYKKK--GFKVGLVGADVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIAKRGVEK  175 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHHHHT--TCCEEEEECCCSSSHHHHHHHHHHHHHTCCEECCTTCCCHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHC--CCeEEEEecCCCCHHHHHHHHHHhccCCeEEEecCCCCCHHHHHHHHHHH
Confidence            5789999999999999999999877643  234566665432 22333344555556654222    1222333344555


Q ss_pred             HhCCCeEEEEEeCC
Q 010355          245 LKKEKKILVILDDI  258 (512)
Q Consensus       245 l~~~k~~LlVlDdv  258 (512)
                      +.....=++|+|-.
T Consensus       176 ~~~~~~D~ViIDTp  189 (297)
T 1j8m_F          176 FLSEKMEIIIVDTA  189 (297)
T ss_dssp             HHHTTCSEEEEECC
T ss_pred             HHhCCCCEEEEeCC
Confidence            54222237888875

>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=95.90  E-value=0.035  Score=55.82  Aligned_cols=98  Identities=22%  Similarity=0.342  Sum_probs=62.0

Q ss_pred             HHHHhc-CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCC-CHHHHHHHHHHHhCCC------C---
Q 010355          161 VINALK-NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRP-DVKKIQGQIADKLGLK------F---  229 (512)
Q Consensus       161 l~~~L~-~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~ll~~i~~~l~~~------~---  229 (512)
                      .++.|. -.+-.-++|.|.+|+|||+|+..+++.... .+-+.++++-++... ...++++.+...-...      .   
T Consensus       143 ~ID~l~pigkGQr~~Ifgg~G~GKT~L~~~i~~~~~~-~~~~v~V~~~iGER~rEv~e~~~~~~~~~~l~~~~~~~rtvv  221 (482)
T 2ck3_D          143 VVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVAK-AHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKVAL  221 (482)
T ss_dssp             HHHHHSCEETTCEEEEEECTTSSHHHHHHHHHHHTTT-TCSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSSCCCEEE
T ss_pred             EEecccccccCCeeeeecCCCCChHHHHHHHHHhhHh-hCCCEEEEEECCCcchHHHHHHHHhhhccccccccCCceEEE
Confidence            444444 123367899999999999999999987642 234667788887765 4556667776542221      0   


Q ss_pred             --CCCCc--h------HHHHHHHHHHh--CCCeEEEEEeCCC
Q 010355          230 --YEESE--S------GRARKLCERLK--KEKKILVILDDIW  259 (512)
Q Consensus       230 --~~~~~--~------~~~~~l~~~l~--~~k~~LlVlDdv~  259 (512)
                        ...+.  .      .....+.++++  .++.+||++|++.
T Consensus       222 V~~t~d~p~~~r~~~~~~a~tiAEyfrd~~G~dVLll~Dsit  263 (482)
T 2ck3_D          222 VYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNIF  263 (482)
T ss_dssp             EEECTTSCHHHHHHHHHHHHHHHHHHHHTTCSCEEEEEECTH
T ss_pred             EEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccHH
Confidence              00111  1      12334555665  4799999999984

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=95.90  E-value=0.073  Score=54.43  Aligned_cols=38  Identities=18%  Similarity=0.111  Sum_probs=27.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEe
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEV  208 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~  208 (512)
                      ..++|+|+|.+|+||||++..++.....+  -..+..|+.
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA~~l~~~--G~kVllVd~  137 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLAYYYQRK--GWKTCLICA  137 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHHHHHHHT--TCCEEEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhC--CCeEEEEec
Confidence            45799999999999999999999877643  123444544

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=95.90  E-value=0.0048  Score=54.37  Aligned_cols=25  Identities=20%  Similarity=0.324  Sum_probs=22.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .+|+|.|++|+||||+++.++....
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~~l~   28 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMDNLR   28 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            5799999999999999999998765

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=95.89  E-value=0.026  Score=54.65  Aligned_cols=51  Identities=12%  Similarity=0.017  Sum_probs=38.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADK  224 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~  224 (512)
                      ..++.|.|.+|+||||||..++.....  .-..++|++..  .+..++...++..
T Consensus        46 G~LiiIaG~pG~GKTt~al~ia~~~a~--~g~~Vl~fSlE--ms~~ql~~Rlls~   96 (338)
T 4a1f_A           46 GSLVIIGARPSMGKTSLMMNMVLSALN--DDRGVAVFSLE--MSAEQLALRALSD   96 (338)
T ss_dssp             TCEEEEEECTTSCHHHHHHHHHHHHHH--TTCEEEEEESS--SCHHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHHHH--cCCeEEEEeCC--CCHHHHHHHHHHH
Confidence            368999999999999999999887664  23466776653  4667777776554

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=95.88  E-value=0.0044  Score=54.23  Aligned_cols=26  Identities=42%  Similarity=0.463  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .++|.|+|++|+||||+++.++....
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~~~~   36 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELASKSG   36 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHhC
Confidence            46789999999999999999987764

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=95.87  E-value=0.0052  Score=53.05  Aligned_cols=27  Identities=26%  Similarity=0.416  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ...+|+|.|+.|+||||+++.++....
T Consensus         6 ~~~~i~l~G~~GsGKSTva~~La~~lg   32 (168)
T 1zuh_A            6 HMQHLVLIGFMGSGKSSLAQELGLALK   32 (168)
T ss_dssp             --CEEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             ccceEEEECCCCCCHHHHHHHHHHHhC
Confidence            457899999999999999999998765

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=95.87  E-value=0.0041  Score=55.61  Aligned_cols=26  Identities=23%  Similarity=0.330  Sum_probs=23.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ..+|+|.|++|+||||||+.++....
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~lg   43 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEACG   43 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            46899999999999999999988763

>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=95.85  E-value=0.011  Score=56.94  Aligned_cols=41  Identities=15%  Similarity=0.243  Sum_probs=32.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCC
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQ  210 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~  210 (512)
                      .+.++|+|+|-|||||||.+..++..+...  -..+.-|.+..
T Consensus        46 ~~aKVIAIaGKGGVGKTTtavNLA~aLA~~--GkkVllID~Dp   86 (314)
T 3fwy_A           46 TGAKVFAVYGKGGIGKSTTSSNLSAAFSIL--GKRVLQIGCDP   86 (314)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHHHHT--TCCEEEEEESS
T ss_pred             CCceEEEEECCCccCHHHHHHHHHHHHHHC--CCeEEEEecCC
Confidence            467999999999999999999988877643  23566677654

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=95.83  E-value=0.0075  Score=54.79  Aligned_cols=37  Identities=24%  Similarity=0.364  Sum_probs=28.5

Q ss_pred             HHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          159 NDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       159 ~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ..+...+.....+.|+|+|.+|+|||||+..++....
T Consensus        27 ~~~r~~~~~~~~~~i~ivG~~gvGKTtl~~~l~~~~~   63 (226)
T 2hf9_A           27 DKNRKLLNKHGVVAFDFMGAIGSGKTLLIEKLIDNLK   63 (226)
T ss_dssp             HHHHHHHHHTTCEEEEEEESTTSSHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhCCCeEEEEEcCCCCCHHHHHHHHHHHhc
Confidence            3444444445678899999999999999999988754

>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=95.80  E-value=0.0043  Score=54.71  Aligned_cols=25  Identities=28%  Similarity=0.359  Sum_probs=21.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      +.|+|+|++|+|||||++.+.....
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~~~~   26 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFAEYP   26 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhCC
Confidence            5688999999999999999987654

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=95.77  E-value=0.0058  Score=56.88  Aligned_cols=25  Identities=24%  Similarity=0.309  Sum_probs=22.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ++|+|.|++|+||||||+.++....
T Consensus         2 ~li~I~G~~GSGKSTla~~La~~~~   26 (253)
T 2ze6_A            2 LLHLIYGPTCSGKTDMAIQIAQETG   26 (253)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCcCHHHHHHHHHhcCC
Confidence            5789999999999999999988754

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=95.76  E-value=0.005  Score=53.59  Aligned_cols=25  Identities=28%  Similarity=0.452  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      +.|.|.|++|+||||+|+.++....
T Consensus         5 ~~i~i~G~~GsGKsTla~~La~~l~   29 (175)
T 1via_A            5 KNIVFIGFMGSGKSTLARALAKDLD   29 (175)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            3689999999999999999988764

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=95.75  E-value=0.05  Score=55.02  Aligned_cols=52  Identities=12%  Similarity=-0.029  Sum_probs=38.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADK  224 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~  224 (512)
                      ..++.|.|.+|+||||||.+++...... .-..++|++..  .+..++...++..
T Consensus       200 G~l~ii~G~pg~GKT~lal~ia~~~a~~-~g~~vl~~slE--~~~~~l~~R~~~~  251 (444)
T 2q6t_A          200 GSLNIIAARPAMGKTAFALTIAQNAALK-EGVGVGIYSLE--MPAAQLTLRMMCS  251 (444)
T ss_dssp             TCEEEEEECTTSCHHHHHHHHHHHHHHT-TCCCEEEEESS--SCHHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHHHHh-CCCeEEEEECC--CCHHHHHHHHHHH
Confidence            3689999999999999999999876532 12357777664  4566777776543

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=95.75  E-value=0.0093  Score=59.00  Aligned_cols=26  Identities=27%  Similarity=0.396  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ...+.|+|++|+|||+||+.+++...
T Consensus        72 ~~~ill~Gp~GtGKT~la~~la~~l~   97 (376)
T 1um8_A           72 KSNILLIGPTGSGKTLMAQTLAKHLD   97 (376)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHhC
Confidence            45688999999999999999998763

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=95.74  E-value=0.0051  Score=55.16  Aligned_cols=26  Identities=31%  Similarity=0.442  Sum_probs=23.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .++|+|+|++|+|||||++.+.....
T Consensus        12 ~~~i~l~G~sGsGKsTl~~~L~~~~~   37 (204)
T 2qor_A           12 IPPLVVCGPSGVGKGTLIKKVLSEFP   37 (204)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHHCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhCc
Confidence            46899999999999999999988763

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=95.74  E-value=0.011  Score=57.24  Aligned_cols=40  Identities=20%  Similarity=0.302  Sum_probs=29.9

Q ss_pred             HHHHHHHHHhc----CCCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          156 STLNDVINALK----NPDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       156 ~~l~~l~~~L~----~~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ...+.++..+.    .+....|.|+|++|+||||+++.++....
T Consensus         6 ~L~~~il~~l~~~i~~g~~~~i~l~G~~G~GKTTl~~~la~~l~   49 (359)
T 2ga8_A            6 KLADDVLQLLDNRIEDNYRVCVILVGSPGSGKSTIAEELCQIIN   49 (359)
T ss_dssp             HHHHHHHHHHHHTTTTCSCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccCCeeEEEEECCCCCcHHHHHHHHHHHhC
Confidence            33444444443    45567799999999999999999988765

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=95.73  E-value=0.0078  Score=52.29  Aligned_cols=25  Identities=36%  Similarity=0.535  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ..+|+|+|++|+|||||++.++...
T Consensus         8 g~~i~l~G~~GsGKSTl~~~l~~~~   32 (175)
T 1knq_A            8 HHIYVLMGVSGSGKSAVASEVAHQL   32 (175)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHhh
Confidence            4689999999999999999998764

>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=95.73  E-value=0.0062  Score=54.82  Aligned_cols=27  Identities=26%  Similarity=0.316  Sum_probs=23.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ...+|+|+|+.|+|||||++.++....
T Consensus         7 ~g~~i~l~GpsGsGKsTl~~~L~~~~~   33 (208)
T 3tau_A            7 RGLLIVLSGPSGVGKGTVREAVFKDPE   33 (208)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHSTT
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhhCC
Confidence            457899999999999999999988754

>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=95.73  E-value=0.0033  Score=61.63  Aligned_cols=111  Identities=9%  Similarity=0.091  Sum_probs=59.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHH--HHHHHHHHHhCCCCCCCCchHHHHHHHHHHh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVK--KIQGQIADKLGLKFYEESESGRARKLCERLK  246 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~--~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~  246 (512)
                      ...+++|+|+.|+|||||.+.++......  ....+ +.+..+....  .. ..++.+...   ..........+...|.
T Consensus       122 ~~g~i~I~GptGSGKTTlL~~l~g~~~~~--~~~~i-~t~ed~~e~~~~~~-~~~v~q~~~---~~~~~~~~~~La~aL~  194 (356)
T 3jvv_A          122 PRGLVLVTGPTGSGKSTTLAAMLDYLNNT--KYHHI-LTIEDPIEFVHESK-KCLVNQREV---HRDTLGFSEALRSALR  194 (356)
T ss_dssp             SSEEEEEECSTTSCHHHHHHHHHHHHHHH--CCCEE-EEEESSCCSCCCCS-SSEEEEEEB---TTTBSCHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcccCC--CCcEE-EEccCcHHhhhhcc-ccceeeeee---ccccCCHHHHHHHHhh
Confidence            33599999999999999999988766432  11222 1222211100  00 000000000   0011122335566666


Q ss_pred             CCCeEEEEEeCCCChhhhhhhCCCCCCCCeEEEEEeCCcchh
Q 010355          247 KEKKILVILDDIWTNLDLENVGIPFGVRGCRVLMTARSQDVL  288 (512)
Q Consensus       247 ~~k~~LlVlDdv~~~~~~~~l~~~~~~~gs~iivTtR~~~v~  288 (512)
                      . .+=+|++|.+.+...+..+... ...|..||+|+.....+
T Consensus       195 ~-~PdvillDEp~d~e~~~~~~~~-~~~G~~vl~t~H~~~~~  234 (356)
T 3jvv_A          195 E-DPDIILVGEMRDLETIRLALTA-AETGHLVFGTLHTTSAA  234 (356)
T ss_dssp             S-CCSEEEESCCCSHHHHHHHHHH-HHTTCEEEEEESCSSHH
T ss_pred             h-CcCEEecCCCCCHHHHHHHHHH-HhcCCEEEEEEccChHH
Confidence            4 6788999999876655543111 23466689999876543

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=95.71  E-value=0.0077  Score=52.98  Aligned_cols=25  Identities=28%  Similarity=0.298  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      ....|+|+|++|+||||+++.+...
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            3468999999999999999999876

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=95.70  E-value=0.0075  Score=53.83  Aligned_cols=27  Identities=22%  Similarity=0.335  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ...+|+|.|++|+||||+++.++....
T Consensus        14 ~~~~I~l~G~~GsGKsT~~~~L~~~~g   40 (203)
T 1ukz_A           14 QVSVIFVLGGPGAGKGTQCEKLVKDYS   40 (203)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHHHSS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHcC
Confidence            457899999999999999999987653

>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=95.70  E-value=0.035  Score=52.81  Aligned_cols=88  Identities=20%  Similarity=0.283  Sum_probs=48.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCC-HHHHHHHHHHHhCCCCCC----CCchHHHHHHHH
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPD-VKKIQGQIADKLGLKFYE----ESESGRARKLCE  243 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~-~~~ll~~i~~~l~~~~~~----~~~~~~~~~l~~  243 (512)
                      ...+++|+|.+|+||||++..++......  -..+.++....... ....+..+....+++...    ............
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~la~~~~~~--~~~v~l~~~d~~~~~~~~ql~~~~~~~~l~~~~~~~~~~p~~l~~~~l~  174 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKGK--GRRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEE  174 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHHHT--TCCEEEEECCSSCHHHHHHHHHHHHHHTCCEEECCTTCCHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc--CCeEEEecCCcccHhHHHHHHHhcccCCeEEEEcCCCCCHHHHHHHHHH
Confidence            34789999999999999999999887642  23455555432221 112233445555554321    122223233344


Q ss_pred             HHhCCCeEEEEEeCC
Q 010355          244 RLKKEKKILVILDDI  258 (512)
Q Consensus       244 ~l~~~k~~LlVlDdv  258 (512)
                      .+.....=+||+|--
T Consensus       175 ~~~~~~~D~viiDtp  189 (295)
T 1ls1_A          175 KARLEARDLILVDTA  189 (295)
T ss_dssp             HHHHHTCCEEEEECC
T ss_pred             HHHhCCCCEEEEeCC
Confidence            442123457888976

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=95.69  E-value=0.0064  Score=54.21  Aligned_cols=24  Identities=25%  Similarity=0.584  Sum_probs=21.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .|+|.|+.|+||||+++.++....
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l~   25 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKLG   25 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHC
T ss_pred             EEEEECCCccCHHHHHHHHHHhcC
Confidence            689999999999999999998765

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=95.69  E-value=0.007  Score=53.45  Aligned_cols=26  Identities=15%  Similarity=0.185  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ..+|+|.|++|+||||+|+.++....
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~~~~   28 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVEKYG   28 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhC
Confidence            36899999999999999999987653

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=95.69  E-value=0.0068  Score=53.66  Aligned_cols=26  Identities=19%  Similarity=0.287  Sum_probs=23.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ..+|+|.|++|+||||+|+.++....
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~La~~l~   34 (196)
T 2c95_A            9 TNIIFVVGGPGSGKGTQCEKIVQKYG   34 (196)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            46899999999999999999987654

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=95.68  E-value=0.014  Score=55.46  Aligned_cols=54  Identities=15%  Similarity=0.028  Sum_probs=34.4

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhhcC-CCCeEEEEEeCCCCCHHHHHHHH
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQAKADK-LFDEVVYAEVSQRPDVKKIQGQI  221 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~-~f~~~~wv~~~~~~~~~~ll~~i  221 (512)
                      ....+|+|+|..|+||||||+.+........ ....+..|+...-.-.......+
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~~~l~~~g~~~~~~~iv~~D~f~~~~~~~~~l   83 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDFYLTHEDQLKL   83 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGGBCCHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhhhcCCCCceEEEeccccccCChHHHHHH
Confidence            4567999999999999999999988765321 12233443544433333444444

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=95.67  E-value=0.01  Score=56.29  Aligned_cols=26  Identities=23%  Similarity=0.221  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ...+|.|.|++|+||||||+.+....
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            45789999999999999999998764

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=95.67  E-value=0.0053  Score=53.92  Aligned_cols=25  Identities=20%  Similarity=0.323  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ++|+|.|++|+||||+|+.++....
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~lg   27 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAKALG   27 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHcC
Confidence            4689999999999999999988764

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=95.66  E-value=0.0072  Score=54.68  Aligned_cols=40  Identities=20%  Similarity=0.326  Sum_probs=30.1

Q ss_pred             HHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          156 STLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       156 ~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .....+...+.....++|+|+|.+|+|||||+..+.....
T Consensus        16 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKTTl~~~l~~~~~   55 (221)
T 2wsm_A           16 RLAEKNREALRESGTVAVNIMGAIGSGKTLLIERTIERIG   55 (221)
T ss_dssp             HHHHHHHHHHHHHTCEEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhhcccCceEEEEEcCCCCCHHHHHHHHHHHhc
Confidence            3344444444445678999999999999999999988754

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=95.64  E-value=0.0079  Score=53.96  Aligned_cols=26  Identities=19%  Similarity=0.233  Sum_probs=23.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      .+|+|.|++|+||||+|+.++.....
T Consensus         5 ~~I~i~G~~GsGKsT~~~~L~~~l~~   30 (213)
T 2plr_A            5 VLIAFEGIDGSGKSSQATLLKDWIEL   30 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHTT
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHhh
Confidence            68999999999999999999987753

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=95.60  E-value=0.0085  Score=52.59  Aligned_cols=26  Identities=19%  Similarity=0.218  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ...|+|.|++|+||||+++.++....
T Consensus         4 g~~I~l~G~~GsGKST~~~~La~~l~   29 (186)
T 3cm0_A            4 GQAVIFLGPPGAGKGTQASRLAQELG   29 (186)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35789999999999999999987653

>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=95.60  E-value=0.038  Score=67.23  Aligned_cols=136  Identities=13%  Similarity=0.100  Sum_probs=74.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCe
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKK  250 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~  250 (512)
                      +-|.++|++|+|||+||+.+.....   . ...+.++.+...+...+.+.+-..+..........      ..-...+++
T Consensus      1268 ~~vLL~GPpGtGKT~la~~~l~~~~---~-~~~~~infsa~ts~~~~~~~i~~~~~~~~~~~g~~------~~P~~~gk~ 1337 (2695)
T 4akg_A         1268 RGIILCGPPGSGKTMIMNNALRNSS---L-YDVVGINFSKDTTTEHILSALHRHTNYVTTSKGLT------LLPKSDIKN 1337 (2695)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSCS---S-CEEEEEECCTTCCHHHHHHHHHHHBCCEEETTTEE------EEEBSSSSC
T ss_pred             CeEEEECCCCCCHHHHHHHHHhcCC---C-CceEEEEeecCCCHHHHHHHHHHHhhhccccCCcc------ccCCCCCce
Confidence            5788999999999999988776532   1 24556778877777777766665543211000000      000002578


Q ss_pred             EEEEEeCCCCh--h------h---hhhh---CC-CCCC-------CCeEEEEEeCCcc------hhccccCCccceecCC
Q 010355          251 ILVILDDIWTN--L------D---LENV---GI-PFGV-------RGCRVLMTARSQD------VLSSKMDCQNNFLIGV  302 (512)
Q Consensus       251 ~LlVlDdv~~~--~------~---~~~l---~~-~~~~-------~gs~iivTtR~~~------v~~~~~~~~~~~~l~~  302 (512)
                      ++|++|++...  .      .   +..+   +. ....       .+..+|.++....      +..........+.+..
T Consensus      1338 ~VlFiDEinmp~~d~yg~q~~lelLRq~le~gg~yd~~~~~~~~~~~i~lIaA~Npp~~gGR~~l~~rllRrf~vi~i~~ 1417 (2695)
T 4akg_A         1338 LVLFCDEINLPKLDKYGSQNVVLFLRQLMEKQGFWKTPENKWVTIERIHIVGACNPPTDPGRIPMSERFTRHAAILYLGY 1417 (2695)
T ss_dssp             EEEEEETTTCSCCCSSSCCHHHHHHHHHHHTSSEECTTTCCEEEEESEEEEEEECCTTSTTCCCCCHHHHTTEEEEECCC
T ss_pred             EEEEecccccccccccCchhHHHHHHHHHhcCCEEEcCCCcEEEecCEEEEEecCCCccCCCccCChhhhheeeEEEeCC
Confidence            99999997432  1      1   1111   00 0001       1234455553321      1112223346788888


Q ss_pred             CCHHHHHHHHHHHh
Q 010355          303 LNESEARDLFKKLV  316 (512)
Q Consensus       303 L~~~ea~~Lf~~~~  316 (512)
                      .+.+.-..+|...+
T Consensus      1418 P~~~~l~~I~~~il 1431 (2695)
T 4akg_A         1418 PSGKSLSQIYEIYY 1431 (2695)
T ss_dssp             CTTTHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHH
Confidence            88888888877654

>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=95.59  E-value=0.012  Score=50.87  Aligned_cols=28  Identities=21%  Similarity=0.245  Sum_probs=24.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      ..++++|.|..|+|||||+..++.....
T Consensus         3 ~~~~i~i~G~sGsGKTTl~~~L~~~l~~   30 (169)
T 1xjc_A            3 AMNVWQVVGYKHSGKTTLMEKWVAAAVR   30 (169)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhhHh
Confidence            4578999999999999999999987764

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=95.59  E-value=0.029  Score=51.52  Aligned_cols=49  Identities=12%  Similarity=0.240  Sum_probs=32.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQI  221 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i  221 (512)
                      -.++.|.|.+|+|||+||.+++.....+ .-..++|++...  +...+...+
T Consensus        30 G~l~~i~G~pG~GKT~l~l~~~~~~~~~-~~~~v~~~s~E~--~~~~~~~~~   78 (251)
T 2zts_A           30 GTTVLLTGGTGTGKTTFAAQFIYKGAEE-YGEPGVFVTLEE--RARDLRREM   78 (251)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHHHHHHH-HCCCEEEEESSS--CHHHHHHHH
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHHh-cCCCceeecccC--CHHHHHHHH
Confidence            3689999999999999999987553221 123566666543  455555554

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=95.57  E-value=0.008  Score=53.65  Aligned_cols=25  Identities=24%  Similarity=0.375  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ..+++|+|+.|+|||||++.++...
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            3689999999999999999998764

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=95.57  E-value=0.0074  Score=53.55  Aligned_cols=25  Identities=20%  Similarity=0.252  Sum_probs=22.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .+|+|.|++|+||||+|+.++....
T Consensus        13 ~~I~l~G~~GsGKsT~a~~L~~~l~   37 (199)
T 2bwj_A           13 KIIFIIGGPGSGKGTQCEKLVEKYG   37 (199)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhC
Confidence            6899999999999999999988764

>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=95.56  E-value=0.0066  Score=52.55  Aligned_cols=25  Identities=32%  Similarity=0.337  Sum_probs=22.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .+|.|.|++|+||||+|+.+.....
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~lg   27 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELARALG   27 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhC
Confidence            4689999999999999999988764

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=95.54  E-value=0.015  Score=53.62  Aligned_cols=28  Identities=14%  Similarity=0.026  Sum_probs=24.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .....|+|.|++|+||||+|+.+.....
T Consensus        27 ~~~~~I~l~G~~GsGKsT~a~~L~~~~g   54 (243)
T 3tlx_A           27 KPDGRYIFLGAPGSGKGTQSLNLKKSHC   54 (243)
T ss_dssp             SCCEEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3557899999999999999999987653

>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=95.54  E-value=0.0081  Score=52.98  Aligned_cols=22  Identities=36%  Similarity=0.436  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHH
Q 010355          171 HMIGAYGMAGVGKTMLVKEVAR  192 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~  192 (512)
                      .+++|+|+.|+|||||++.++.
T Consensus         3 ~ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            3 KLYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHhc
Confidence            5789999999999999999975

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=95.53  E-value=0.011  Score=52.44  Aligned_cols=38  Identities=21%  Similarity=0.238  Sum_probs=28.2

Q ss_pred             HHHHHHHhcC-CCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          158 LNDVINALKN-PDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       158 l~~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      +..|..++.. +....+.|+|++|+||||+|..+++...
T Consensus        45 ~~~l~~~~~~iPkkn~ili~GPPGtGKTt~a~ala~~l~   83 (212)
T 1tue_A           45 LGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFIQ   83 (212)
T ss_dssp             HHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4455555543 2234799999999999999999988764

>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=95.51  E-value=0.0086  Score=55.94  Aligned_cols=26  Identities=31%  Similarity=0.519  Sum_probs=23.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ..+|.|.|++|+||||+|+.++....
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~~L~   29 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAKILS   29 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            46899999999999999999998754

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=95.51  E-value=0.0055  Score=53.61  Aligned_cols=26  Identities=27%  Similarity=0.277  Sum_probs=19.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ..+|.|.|++|+||||+|+.+.....
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~~l~   30 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHERLP   30 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHHHST
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhcC
Confidence            46899999999999999999987754

>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=95.50  E-value=0.0093  Score=55.40  Aligned_cols=28  Identities=18%  Similarity=0.326  Sum_probs=23.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ....+|+|.|++|+||||+|+.+.....
T Consensus        20 ~~~~iI~I~G~~GSGKST~a~~L~~~lg   47 (252)
T 1uj2_A           20 GEPFLIGVSGGTASGKSSVCAKIVQLLG   47 (252)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHhh
Confidence            3567899999999999999999988654

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=95.49  E-value=0.009  Score=53.37  Aligned_cols=25  Identities=28%  Similarity=0.327  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ..+++|+|+.|+|||||++.+....
T Consensus         6 g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            6 GLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhh
Confidence            3689999999999999999998765

>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=95.49  E-value=0.0098  Score=53.02  Aligned_cols=26  Identities=19%  Similarity=0.176  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ...|+|.|++|+||||+|+.+.....
T Consensus        20 ~~~I~l~G~~GsGKST~a~~La~~l~   45 (201)
T 2cdn_A           20 HMRVLLLGPPGAGKGTQAVKLAEKLG   45 (201)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            45899999999999999999988764

>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=95.49  E-value=0.0089  Score=53.21  Aligned_cols=26  Identities=23%  Similarity=0.298  Sum_probs=23.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      .+..+|+|.|+.|+||||+++.+...
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            34678999999999999999999875

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=95.49  E-value=0.0094  Score=53.57  Aligned_cols=27  Identities=33%  Similarity=0.432  Sum_probs=23.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ...+|+|+|+.|+|||||++.+.....
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~~~~   31 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALARTLG   31 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHHG
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHhC
Confidence            446899999999999999999988654

>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=95.46  E-value=0.054  Score=54.12  Aligned_cols=57  Identities=18%  Similarity=0.182  Sum_probs=35.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHH--HHHHHHHHhCCC
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKK--IQGQIADKLGLK  228 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~--ll~~i~~~l~~~  228 (512)
                      ...+++|+|++|+||||++..++......  -..+..+... ...+..  .+.......+++
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~~l~~~--g~~Vllvd~D-~~r~aa~~qL~~~~~~~gv~  155 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKGK--GRRPLLVAAD-TQRPAAREQLRLLGEKVGVP  155 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTT--TCCEEEEECC-SSCHHHHHHHHHHHHHHTCC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc--CCeEEEeecc-ccCchhHHHHHHhcccCCcc
Confidence            34789999999999999999999887643  2234444442 233222  233444455543

>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=95.46  E-value=0.009  Score=52.62  Aligned_cols=26  Identities=19%  Similarity=0.263  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ..+|+|.|++|+||||+|+.++....
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~~l~   31 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVRDFG   31 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            46899999999999999999987654

>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=95.46  E-value=0.0094  Score=52.96  Aligned_cols=27  Identities=19%  Similarity=0.326  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ..++|+|+|+.|+|||||++.+.....
T Consensus        18 ~g~~ivl~GPSGaGKsTL~~~L~~~~~   44 (197)
T 3ney_A           18 GRKTLVLIGASGVGRSHIKNALLSQNP   44 (197)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CCCEEEEECcCCCCHHHHHHHHHhhCC
Confidence            457899999999999999999987654

>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=95.43  E-value=0.0088  Score=54.37  Aligned_cols=25  Identities=32%  Similarity=0.422  Sum_probs=22.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .+|+|+|++|+||||+++.+.....
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~~g   30 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEALQ   30 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            5899999999999999999987653

>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=95.43  E-value=0.0098  Score=52.05  Aligned_cols=24  Identities=42%  Similarity=0.509  Sum_probs=21.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .++|+|+.|+|||||++.++....
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l~   25 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERLG   25 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            578999999999999999998765

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=95.41  E-value=0.0099  Score=51.15  Aligned_cols=24  Identities=21%  Similarity=0.207  Sum_probs=21.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .|+|.|++|+||||+|+.+.....
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l~   25 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSLN   25 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            589999999999999999988764

>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=95.39  E-value=0.01  Score=53.86  Aligned_cols=26  Identities=15%  Similarity=0.160  Sum_probs=23.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ...|+|.|++|+||||+|+.++....
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~~l~   29 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQERFH   29 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcC
Confidence            46799999999999999999988764

>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=95.36  E-value=0.038  Score=52.95  Aligned_cols=29  Identities=24%  Similarity=0.352  Sum_probs=24.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      ....+|+|.|+.|+|||||++.++.....
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~gll~~  116 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQALLAR  116 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHhhccc
Confidence            34579999999999999999999887653

>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=95.35  E-value=0.01  Score=54.85  Aligned_cols=27  Identities=19%  Similarity=0.249  Sum_probs=23.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ...+|+|+|++|+|||||++.++....
T Consensus        26 ~~~~i~l~G~~GsGKSTl~k~La~~lg   52 (246)
T 2bbw_A           26 KLLRAVILGPPGSGKGTVCQRIAQNFG   52 (246)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            357899999999999999999997654

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=95.35  E-value=0.01  Score=53.28  Aligned_cols=27  Identities=22%  Similarity=0.156  Sum_probs=23.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      ..+|+|.|+.|+||||+++.+......
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~~l~~   36 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVEYLKN   36 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            468999999999999999999987653

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=95.33  E-value=0.0085  Score=53.45  Aligned_cols=25  Identities=24%  Similarity=0.398  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      +.++|+|+.|+|||||++.+.....
T Consensus         5 ~~i~lvGpsGaGKSTLl~~L~~~~~   29 (198)
T 1lvg_A            5 RPVVLSGPSGAGKSTLLKKLFQEHS   29 (198)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhCc
Confidence            5789999999999999999987653

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=95.32  E-value=0.011  Score=52.25  Aligned_cols=24  Identities=33%  Similarity=0.440  Sum_probs=21.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      +|+|.|+.|+||||+++.+.....
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l~   25 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYLK   25 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            689999999999999999998764

>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=95.31  E-value=0.011  Score=53.12  Aligned_cols=27  Identities=19%  Similarity=0.187  Sum_probs=24.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      ..+|+|.|+.|+||||+++.+......
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~L~~~l~~   35 (215)
T 1nn5_A            9 GALIVLEGVDRAGKSTQSRKLVEALCA   35 (215)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            468999999999999999999988753

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=95.31  E-value=0.037  Score=56.21  Aligned_cols=50  Identities=14%  Similarity=0.193  Sum_probs=36.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIA  222 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~  222 (512)
                      ..++.|.|.+|+|||||+.+++...... .-..++|++...  +...+...++
T Consensus       203 G~liiI~G~pG~GKTtl~l~ia~~~~~~-~g~~Vl~~s~E~--s~~~l~~r~~  252 (454)
T 2r6a_A          203 SDLIIVAARPSVGKTAFALNIAQNVATK-TNENVAIFSLEM--SAQQLVMRML  252 (454)
T ss_dssp             TCEEEEECCTTSCHHHHHHHHHHHHHHH-SSCCEEEEESSS--CHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHh-CCCcEEEEECCC--CHHHHHHHHH
Confidence            3689999999999999999999876542 123577776543  4566666654

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=95.30  E-value=0.011  Score=57.60  Aligned_cols=52  Identities=15%  Similarity=0.106  Sum_probs=35.3

Q ss_pred             HHHHHHhcC-CCceEEEEEcCCCCcHHHHHHHHHHhhhhcC-CCCeEEEEEeCCC
Q 010355          159 NDVINALKN-PDVHMIGAYGMAGVGKTMLVKEVARQAKADK-LFDEVVYAEVSQR  211 (512)
Q Consensus       159 ~~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~-~f~~~~wv~~~~~  211 (512)
                      -++++.+.. ..-.-++|+|.+|+|||+|+..+++.....+ .+. ++++-+++.
T Consensus       163 iraID~l~PigrGQR~lIfg~~g~GKT~Ll~~Ia~~i~~~~~dv~-~V~~lIGER  216 (427)
T 3l0o_A          163 TRLIDLFAPIGKGQRGMIVAPPKAGKTTILKEIANGIAENHPDTI-RIILLIDER  216 (427)
T ss_dssp             HHHHHHHSCCBTTCEEEEEECTTCCHHHHHHHHHHHHHHHCTTSE-EEEEECSCC
T ss_pred             chhhhhcccccCCceEEEecCCCCChhHHHHHHHHHHhhcCCCeE-EEEEEeccC
Confidence            345566652 3346789999999999999999998765321 222 355666654

>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=95.29  E-value=0.0095  Score=53.20  Aligned_cols=22  Identities=27%  Similarity=0.434  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHH
Q 010355          171 HMIGAYGMAGVGKTMLVKEVAR  192 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~  192 (512)
                      .+|+|+|+.|+||||+++.++.
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            4799999999999999999987

>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=95.28  E-value=0.049  Score=56.10  Aligned_cols=56  Identities=14%  Similarity=0.099  Sum_probs=39.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHH-hCCC
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADK-LGLK  228 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~-l~~~  228 (512)
                      -.++.|.|.+|+||||||.+++...... +-..++|++...  +..++...++.. .+.+
T Consensus       242 G~l~li~G~pG~GKT~lal~~a~~~a~~-~g~~vl~~s~E~--s~~~l~~r~~~~~~~~~  298 (503)
T 1q57_A          242 GEVIMVTSGSGMVMSTFVRQQALQWGTA-MGKKVGLAMLEE--SVEETAEDLIGLHNRVR  298 (503)
T ss_dssp             TCEEEEEESSCHHHHHHHHHHHHHHTTT-SCCCEEEEESSS--CHHHHHHHHHHHHTTSC
T ss_pred             CeEEEEeecCCCCchHHHHHHHHHHHHh-cCCcEEEEeccC--CHHHHHHHHHHHHcCCC
Confidence            3688999999999999999999876532 123577776644  566777776543 4443

>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=95.25  E-value=0.036  Score=64.47  Aligned_cols=84  Identities=17%  Similarity=0.221  Sum_probs=53.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCC------CCchHHHHHHHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYE------ESESGRARKLCE  243 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~------~~~~~~~~~l~~  243 (512)
                      ..++.|.|.+|+||||||.+++......  -..++|++........  .   ++.++.....      .+.......+..
T Consensus       732 G~lVlI~G~PG~GKTtLal~lA~~aa~~--g~~VlyiS~Ees~~ql--~---A~~lGvd~~~L~i~~~~~leei~~~l~~  804 (1706)
T 3cmw_A          732 GRIVEIYGPESSGKTTLTLQVIAAAQRE--GKTCAFIDAEHALDPI--Y---ARKLGVDIDNLLCSQPDTGEQALEICDA  804 (1706)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHHHHHT--TCCEEEECTTSCCCHH--H---HHHTTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             CceEEEECCCCCCcHHHHHHHHHHHHHc--CCCeEEEeccchHHHH--H---HHHcCCChhheEEecCCcHHHHHHHHHH
Confidence            4689999999999999999999877642  2367888776665442  2   5666654221      122223333333


Q ss_pred             HHhCCCeEEEEEeCCCC
Q 010355          244 RLKKEKKILVILDDIWT  260 (512)
Q Consensus       244 ~l~~~k~~LlVlDdv~~  260 (512)
                      .....+.-+||+|.+..
T Consensus       805 lv~~~~~~lVVIDsLq~  821 (1706)
T 3cmw_A          805 LARSGAVDVIVVDSVAA  821 (1706)
T ss_dssp             HHHHTCCSEEEESCSTT
T ss_pred             HHHccCCCEEEEechhh
Confidence            33335677999999853

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=95.24  E-value=0.01  Score=54.06  Aligned_cols=26  Identities=15%  Similarity=0.231  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ...|+|.|++|+||||+|+.++....
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La~~l~   32 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRITTHFE   32 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHSS
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcC
Confidence            46799999999999999999987653

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=95.22  E-value=0.015  Score=54.06  Aligned_cols=27  Identities=22%  Similarity=0.226  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ...+|.|+|++|+||||+|+.+.....
T Consensus        31 ~~~~i~l~G~~GsGKSTla~~L~~~l~   57 (253)
T 2p5t_B           31 QPIAILLGGQSGAGKTTIHRIKQKEFQ   57 (253)
T ss_dssp             SCEEEEEESCGGGTTHHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhcC
Confidence            357899999999999999999987653

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=95.21  E-value=0.01  Score=53.92  Aligned_cols=26  Identities=12%  Similarity=0.075  Sum_probs=23.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ...|+|.|++|+||||+++.++....
T Consensus         5 ~~~I~l~G~~GsGKsT~~~~La~~l~   30 (222)
T 1zak_A            5 PLKVMISGAPASGKGTQCELIKTKYQ   30 (222)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            46789999999999999999998764

>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=95.20  E-value=0.012  Score=52.74  Aligned_cols=25  Identities=32%  Similarity=0.570  Sum_probs=22.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ..+|+|+|++|+|||||++.+....
T Consensus        21 ~~~i~i~G~~GsGKSTl~~~L~~~~   45 (207)
T 2qt1_A           21 TFIIGISGVTNSGKTTLAKNLQKHL   45 (207)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTTS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhc
Confidence            4789999999999999999987653

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=95.20  E-value=0.043  Score=64.68  Aligned_cols=83  Identities=17%  Similarity=0.225  Sum_probs=54.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCC------CCchHHHHHHHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYE------ESESGRARKLCE  243 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~------~~~~~~~~~l~~  243 (512)
                      ..++.|+|++|+||||||.+++......  -..++|++.....+..     .++.++.+...      .+.......+..
T Consensus       383 G~lilI~G~pGsGKTtLaLqia~~~a~~--G~~vlyis~E~s~~~~-----~a~~lGvd~~~L~I~~~~~~e~il~~~~~  455 (2050)
T 3cmu_A          383 GRIVEIYGPESSGKTTLTLQVIAAAQRE--GKTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDTGEQALEICDA  455 (2050)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHHHHHTT--TCCEEEECTTSCCCHH-----HHHHTTCCTTTCEEECCSSHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHHHhc--CCeEEEEEcCCCHHHH-----HHHHcCCCHHHeEEeCCCCHHHHHHHHHH
Confidence            4799999999999999999999877632  3468888887766653     25666654321      122222333332


Q ss_pred             HHhCCCeEEEEEeCCC
Q 010355          244 RLKKEKKILVILDDIW  259 (512)
Q Consensus       244 ~l~~~k~~LlVlDdv~  259 (512)
                      .....+.-+||+|.+.
T Consensus       456 lv~~~~~~lIVIDSL~  471 (2050)
T 3cmu_A          456 LARSGAVDVIVVDSVA  471 (2050)
T ss_dssp             HHHHTCCSEEEESCGG
T ss_pred             HHHhcCCcEEEECCHH
Confidence            2334567799999984

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=95.18  E-value=0.0098  Score=51.62  Aligned_cols=21  Identities=24%  Similarity=0.468  Sum_probs=18.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEV  190 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v  190 (512)
                      ..+++|+|+.|+|||||++.+
T Consensus         9 gei~~l~G~nGsGKSTl~~~~   29 (171)
T 4gp7_A            9 LSLVVLIGSSGSGKSTFAKKH   29 (171)
T ss_dssp             SEEEEEECCTTSCHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHH
Confidence            468999999999999999963

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=95.18  E-value=0.012  Score=53.06  Aligned_cols=24  Identities=21%  Similarity=0.365  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .|+|.|++|+||||+|+.++....
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~~   25 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEKYE   25 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999987653

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=95.16  E-value=0.01  Score=51.50  Aligned_cols=36  Identities=22%  Similarity=0.257  Sum_probs=27.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEE
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYA  206 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv  206 (512)
                      ++++|+|..|+|||||++.+.........-.+.+.+
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~~~~g~~~G~I~~   38 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPILRERGLRVAVVKR   38 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHHHHTTCCEEEEEC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhhhcCCceEEEEE
Confidence            689999999999999999999877643222344443

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=95.14  E-value=0.057  Score=52.07  Aligned_cols=58  Identities=24%  Similarity=0.239  Sum_probs=37.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCC-CCCHHHHHHHHHHHhCC
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQ-RPDVKKIQGQIADKLGL  227 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~ll~~i~~~l~~  227 (512)
                      ....+++|+|+.|+|||||++.++......  -..+.++.... .....+-+......++.
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag~l~~~--~g~V~l~g~D~~r~~a~eql~~~~~~~gv  185 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLANWLKNH--GFSVVIAASDTFRAGAIEQLEEHAKRIGV  185 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHHHHHT--TCCEEEEEECCSSTTHHHHHHHHHHHTTC
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHhc--CCEEEEEeecccccchHHHHHHHHHHcCc
Confidence            456899999999999999999999877642  12344443322 22344445555566654

>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=95.13  E-value=0.012  Score=52.62  Aligned_cols=22  Identities=27%  Similarity=0.422  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHH
Q 010355          171 HMIGAYGMAGVGKTMLVKEVAR  192 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~  192 (512)
                      .+|+|.|+.|+||||+++.+..
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

>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=95.12  E-value=0.0069  Score=54.51  Aligned_cols=24  Identities=29%  Similarity=0.547  Sum_probs=22.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      +|+|.|+.|+||||+++.+.....
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~l~   25 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGAFR   25 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHH
Confidence            689999999999999999998765

>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=95.10  E-value=0.034  Score=56.55  Aligned_cols=43  Identities=28%  Similarity=0.380  Sum_probs=32.2

Q ss_pred             chHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhc
Q 010355          154 RMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKAD  197 (512)
Q Consensus       154 R~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~  197 (512)
                      ....+..+..++.... +.+.|.|.+|+|||+++..++......
T Consensus        30 Q~~av~~~~~~i~~~~-~~~li~G~aGTGKT~ll~~~~~~l~~~   72 (459)
T 3upu_A           30 QKNAFNIVMKAIKEKK-HHVTINGPAGTGATTLTKFIIEALIST   72 (459)
T ss_dssp             HHHHHHHHHHHHHSSS-CEEEEECCTTSCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhcCC-CEEEEEeCCCCCHHHHHHHHHHHHHhc
Confidence            4445566666665443 489999999999999999998877643

>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=95.08  E-value=0.013  Score=52.14  Aligned_cols=25  Identities=20%  Similarity=0.178  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ...|+|.|+.|+||||+++.+....
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            3689999999999999999998865

>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=95.08  E-value=0.043  Score=63.80  Aligned_cols=83  Identities=17%  Similarity=0.198  Sum_probs=60.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCC------CCchHHHHHHHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYE------ESESGRARKLCE  243 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~------~~~~~~~~~l~~  243 (512)
                      -++|-|+|+.|+||||||.++......  .-..++|+.+....++..     ++.+|.....      ......+..+..
T Consensus      1431 g~~iei~g~~~sGkttl~~~~~a~~~~--~g~~~~~i~~e~~~~~~~-----~~~~Gv~~~~l~~~~p~~~e~~l~~~~~ 1503 (1706)
T 3cmw_A         1431 GRIVEIYGPESSGKTTLTLQVIAAAQR--EGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICDA 1503 (1706)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHHHHH--TTCCEEEECTTSCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHh--cCCeEEEEecCCCCCHHH-----HHHcCCCHHHeEEeCCCcHHHHHHHHHH
Confidence            479999999999999999999876553  356788998887777653     7778876443      222334444555


Q ss_pred             HHhCCCeEEEEEeCCC
Q 010355          244 RLKKEKKILVILDDIW  259 (512)
Q Consensus       244 ~l~~~k~~LlVlDdv~  259 (512)
                      .++.+..-+||+|-|-
T Consensus      1504 ~~~s~~~~~vvvDsv~ 1519 (1706)
T 3cmw_A         1504 LARSGAVDVIVVDSVA 1519 (1706)
T ss_dssp             HHHHTCCSEEEESCST
T ss_pred             HHHcCCCCEEEEccHH
Confidence            5566778899999883

>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=95.06  E-value=0.013  Score=52.77  Aligned_cols=24  Identities=17%  Similarity=0.264  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .|+|.|++|+||||+|+.++....
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~~   25 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEKYG   25 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999987653

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=95.05  E-value=0.015  Score=53.99  Aligned_cols=27  Identities=30%  Similarity=0.356  Sum_probs=23.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ...+|+|.|+.|+|||||++.++....
T Consensus        26 ~g~~I~I~G~~GsGKSTl~k~La~~Lg   52 (252)
T 4e22_A           26 IAPVITVDGPSGAGKGTLCKALAESLN   52 (252)
T ss_dssp             TSCEEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhcC
Confidence            346899999999999999999997764

>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=95.04  E-value=0.024  Score=49.26  Aligned_cols=26  Identities=23%  Similarity=0.368  Sum_probs=23.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .++++|+|..|+|||||+..+.....
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~~l~   31 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIPALC   31 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhcc
Confidence            57899999999999999999988765

>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=95.03  E-value=0.016  Score=51.33  Aligned_cols=26  Identities=23%  Similarity=0.392  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ...+|+|+|+.|+||||+++.+....
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            45789999999999999999998764

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=95.02  E-value=0.014  Score=61.74  Aligned_cols=48  Identities=19%  Similarity=0.197  Sum_probs=40.1

Q ss_pred             cCccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          146 KGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       146 ~~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .....++|....++.+...+..+  ..+.|+|++|+||||||+.++....
T Consensus        38 ~~l~~i~G~~~~l~~l~~~i~~g--~~vll~Gp~GtGKTtlar~ia~~l~   85 (604)
T 3k1j_A           38 KLIDQVIGQEHAVEVIKTAANQK--RHVLLIGEPGTGKSMLGQAMAELLP   85 (604)
T ss_dssp             SHHHHCCSCHHHHHHHHHHHHTT--CCEEEECCTTSSHHHHHHHHHHTSC
T ss_pred             cccceEECchhhHhhccccccCC--CEEEEEeCCCCCHHHHHHHHhccCC
Confidence            34567889998888888777755  5789999999999999999998764

>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=95.01  E-value=0.013  Score=52.58  Aligned_cols=26  Identities=19%  Similarity=0.285  Sum_probs=23.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      -.+++|+|+.|+|||||++.+.....
T Consensus        20 Gei~~l~GpnGsGKSTLl~~l~gl~~   45 (207)
T 1znw_A           20 GRVVVLSGPSAVGKSTVVRCLRERIP   45 (207)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhCC
Confidence            46899999999999999999987653

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=94.99  E-value=0.017  Score=51.91  Aligned_cols=28  Identities=25%  Similarity=0.234  Sum_probs=24.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ....+|+|.|+.|+||||+++.+.....
T Consensus        23 ~~~~~i~~~G~~GsGKsT~~~~l~~~l~   50 (211)
T 1m7g_A           23 QRGLTIWLTGLSASGKSTLAVELEHQLV   50 (211)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHhc
Confidence            3457899999999999999999988765

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=94.98  E-value=0.078  Score=53.52  Aligned_cols=50  Identities=14%  Similarity=0.092  Sum_probs=36.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIAD  223 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~  223 (512)
                      ..++.|.|.+|+||||||.+++.....+  -..++|++...  +..++...++.
T Consensus       197 G~liiIaG~pG~GKTtlal~ia~~~a~~--g~~vl~fSlEm--s~~ql~~R~~~  246 (444)
T 3bgw_A          197 RNFVLIAARPSMGKTAFALKQAKNMSDN--DDVVNLHSLEM--GKKENIKRLIV  246 (444)
T ss_dssp             SCEEEEEECSSSSHHHHHHHHHHHHHHT--TCEEEEECSSS--CTTHHHHHHHH
T ss_pred             CcEEEEEeCCCCChHHHHHHHHHHHHHc--CCEEEEEECCC--CHHHHHHHHHH
Confidence            3689999999999999999999887643  23577776543  44455555544

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=94.96  E-value=0.017  Score=55.29  Aligned_cols=28  Identities=25%  Similarity=0.401  Sum_probs=24.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      ...+++|+|++|+|||||++.++.....
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagll~~  128 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRYYQN  128 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHh
Confidence            4579999999999999999999987764

>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=94.91  E-value=0.16  Score=51.49  Aligned_cols=42  Identities=26%  Similarity=0.313  Sum_probs=30.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCC
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPD  213 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  213 (512)
                      ...+++|+|..|+|||||++.++......   .+.+++.....+.
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAgll~~~---~G~V~l~g~D~~r  333 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLARQFEQQ---GKSVMLAAGDTFR  333 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHHHHHHT---TCCEEEECCCTTC
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHHhhhc---CCeEEEecCcccc
Confidence            45799999999999999999999877532   3445554444443

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=94.89  E-value=0.019  Score=50.02  Aligned_cols=26  Identities=19%  Similarity=0.216  Sum_probs=23.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ..+|+|.|+.|+||||+++.+.....
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~~l~   30 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEEYLV   30 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHh
Confidence            46889999999999999999988764

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=94.89  E-value=0.013  Score=53.19  Aligned_cols=25  Identities=28%  Similarity=0.426  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ..+++|+|+.|+|||||++.++...
T Consensus        23 G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           23 IYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            3689999999999999999998765

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=94.88  E-value=0.019  Score=52.97  Aligned_cols=26  Identities=19%  Similarity=0.354  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ...+|+|.|+.|+|||||++.++...
T Consensus        24 ~g~iigI~G~~GsGKSTl~k~L~~~l   49 (245)
T 2jeo_A           24 RPFLIGVSGGTASGKSTVCEKIMELL   49 (245)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            44789999999999999999998765

>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A* 1kyi_A* 1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E* 1hqy_E* 1ht1_E* 1ht2_E*

Probab=94.86  E-value=0.016  Score=58.14  Aligned_cols=46  Identities=28%  Similarity=0.313  Sum_probs=34.2

Q ss_pred             ccccchHHHHHHHHHhcC--------------CCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          150 AFESRMSTLNDVINALKN--------------PDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       150 ~~~gR~~~l~~l~~~L~~--------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .++|.+..+..|..++..              ...+-|.++|++|+|||++|+.++....
T Consensus        16 ~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~l~   75 (444)
T 1g41_A           16 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLAN   75 (444)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             HhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHHcC
Confidence            457777766666554421              1346689999999999999999998775

>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=94.86  E-value=0.048  Score=49.89  Aligned_cols=52  Identities=13%  Similarity=0.202  Sum_probs=35.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIA  222 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~  222 (512)
                      ...|+|.|+.|+||||+++.++...... .+..+....-+........++.++
T Consensus        27 ~~~i~~eG~~GsGKsT~~~~l~~~l~~~-~~~~~~~~rep~~t~~g~~ir~~l   78 (236)
T 3lv8_A           27 AKFIVIEGLEGAGKSTAIQVVVETLQQN-GIDHITRTREPGGTLLAEKLRALV   78 (236)
T ss_dssp             CCEEEEEESTTSCHHHHHHHHHHHHHHT-TCCCEEEEESSCSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhc-CCCeeeeecCCCCCHHHHHHHHHH
Confidence            4689999999999999999999987653 455344444333333344444444

>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=94.85  E-value=0.018  Score=49.20  Aligned_cols=27  Identities=26%  Similarity=0.316  Sum_probs=23.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ..-.+++|.|+.|+|||||++.++...
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            344789999999999999999999876

>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=94.84  E-value=0.018  Score=52.26  Aligned_cols=26  Identities=15%  Similarity=0.247  Sum_probs=23.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ..+++|+|+.|+|||||++.++....
T Consensus        16 G~ii~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           16 GTLYIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhccCC
Confidence            46899999999999999999988654

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=94.78  E-value=0.052  Score=48.83  Aligned_cols=52  Identities=15%  Similarity=0.157  Sum_probs=36.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHH
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIAD  223 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~  223 (512)
                      ..|+|.|+.|+||||+++.++...... .+..+++..-+....+...++.++.
T Consensus         4 ~~i~~eG~~gsGKsT~~~~l~~~l~~~-~~~~v~~~rep~~t~~g~~ir~~l~   55 (213)
T 4tmk_A            4 KYIVIEGLEGAGKTTARNVVVETLEQL-GIRDMVFTREPGGTQLAEKLRSLLL   55 (213)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHHT-TCCCEEEEESSCSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHc-CCCcceeeeCCCCCHHHHHHHHHHh
Confidence            578999999999999999999988653 3434444444333345555666654

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=94.77  E-value=0.014  Score=52.73  Aligned_cols=25  Identities=20%  Similarity=0.263  Sum_probs=22.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ..|+|.|++|+||||+|+.++....
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~~l~   30 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKKEYG   30 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            5789999999999999999988764

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=94.77  E-value=0.054  Score=51.44  Aligned_cols=52  Identities=19%  Similarity=0.169  Sum_probs=35.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADK  224 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~  224 (512)
                      -.+++|.|++|+|||||++.++....... -..++|+....  +...+...+...
T Consensus        35 G~~~~i~G~~G~GKTTl~~~ia~~~~~~~-G~~v~~~~~e~--~~~~~~~r~~~~   86 (296)
T 1cr0_A           35 GEVIMVTSGSGMGKSTFVRQQALQWGTAM-GKKVGLAMLEE--SVEETAEDLIGL   86 (296)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHHHHHHTS-CCCEEEEESSS--CHHHHHHHHHHH
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHHHc-CCeEEEEeCcC--CHHHHHHHHHHH
Confidence            36899999999999999999988765421 11466666543  445555555443

>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=94.77  E-value=0.042  Score=53.21  Aligned_cols=49  Identities=22%  Similarity=0.184  Sum_probs=36.0

Q ss_pred             hcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHH
Q 010355          165 LKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVK  215 (512)
Q Consensus       165 L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  215 (512)
                      +.....+++.+.|.||+||||+|..++......  -..++-|+.....++.
T Consensus        11 l~~~~~~i~~~sgkGGvGKTt~a~~lA~~la~~--g~~vllid~D~~~~l~   59 (334)
T 3iqw_A           11 LDQRSLRWIFVGGKGGVGKTTTSCSLAIQLAKV--RRSVLLLSTDPAHNLS   59 (334)
T ss_dssp             HHCTTCCEEEEECSTTSSHHHHHHHHHHHHTTS--SSCEEEEECCSSCHHH
T ss_pred             hcCCCeEEEEEeCCCCccHHHHHHHHHHHHHhC--CCcEEEEECCCCCChh
Confidence            344557889999999999999999999887643  3456677776554433

>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=94.75  E-value=0.019  Score=51.46  Aligned_cols=24  Identities=25%  Similarity=0.393  Sum_probs=21.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      +|.|.|++|+||||.|+.++..+.
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~g   25 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEKG   25 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            578999999999999999998764

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=94.71  E-value=0.069  Score=52.23  Aligned_cols=38  Identities=21%  Similarity=0.413  Sum_probs=29.6

Q ss_pred             HHHHHHHhc--CCCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          158 LNDVINALK--NPDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       158 l~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ...++..+.  .....+|+|+|.+|+|||||+..++....
T Consensus        65 ~~~~~~~~~~~~~~~~~I~i~G~~G~GKSTl~~~L~~~l~  104 (355)
T 3p32_A           65 AQQLLLRLLPDSGNAHRVGITGVPGVGKSTAIEALGMHLI  104 (355)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHhHhhcCCceEEEEECCCCCCHHHHHHHHHHHHH
Confidence            344454444  45678999999999999999999987764

>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=94.71  E-value=0.04  Score=50.27  Aligned_cols=28  Identities=29%  Similarity=0.305  Sum_probs=24.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      ....|+|.|+.|+||||+++.++.....
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~l~~   52 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHRLVK   52 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHHTT
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHhc
Confidence            3478999999999999999999988763

>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=94.71  E-value=0.022  Score=52.13  Aligned_cols=26  Identities=19%  Similarity=0.112  Sum_probs=23.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ...|+|.|++|+||||+|+.++....
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~~l~   41 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAKNFC   41 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35789999999999999999998764

>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=94.71  E-value=0.063  Score=48.33  Aligned_cols=52  Identities=10%  Similarity=0.038  Sum_probs=33.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIAD  223 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~  223 (512)
                      ...|+|.|+.|+||||+++.+....... .+.. +...-+........++.++.
T Consensus         6 g~~i~~eG~~gsGKsT~~~~l~~~l~~~-~~~v-~~~~~p~~~~~g~~i~~~l~   57 (213)
T 4edh_A            6 GLFVTLEGPEGAGKSTNRDYLAERLRER-GIEV-QLTREPGGTPLAERIRELLL   57 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHTT-TCCE-EEEESSCSSHHHHHHHHHHH
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHHHHc-CCCc-ccccCCCCCHHHHHHHHHHh
Confidence            3689999999999999999999887643 2433 33333322223344555443

>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=94.69  E-value=0.022  Score=51.43  Aligned_cols=23  Identities=22%  Similarity=0.325  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVAR  192 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~  192 (512)
                      ..+|+|.|+.|+||||+++.+..
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            36899999999999999999976

>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=94.68  E-value=0.02  Score=51.01  Aligned_cols=25  Identities=20%  Similarity=0.294  Sum_probs=22.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ++|+|.|+.|+||||+++.++....
T Consensus         3 ~~i~i~G~~GsGKst~~~~la~~lg   27 (208)
T 3ake_A            3 GIVTIDGPSASGKSSVARRVAAALG   27 (208)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcC
Confidence            3899999999999999999988654

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=94.67  E-value=0.021  Score=55.20  Aligned_cols=25  Identities=36%  Similarity=0.389  Sum_probs=22.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .+|+|.|+.|+||||||..++....
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l~   32 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKFN   32 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHcC
Confidence            5899999999999999999988754

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=94.65  E-value=0.02  Score=51.99  Aligned_cols=24  Identities=25%  Similarity=0.203  Sum_probs=21.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .|+|.|++|+||||+++.++....
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~lg   25 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDKYS   25 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            588999999999999999987653

>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=94.65  E-value=0.021  Score=52.16  Aligned_cols=26  Identities=27%  Similarity=0.409  Sum_probs=23.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ..+|+|.|++|+||||+++.++....
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~~lg   34 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLARALG   34 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            36899999999999999999988764

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=94.64  E-value=0.018  Score=50.90  Aligned_cols=25  Identities=32%  Similarity=0.418  Sum_probs=22.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .+++|+|+.|+|||||++.++....
T Consensus         2 ~~i~i~G~nG~GKTTll~~l~g~~~   26 (189)
T 2i3b_A            2 RHVFLTGPPGVGKTTLIHKASEVLK   26 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCChHHHHHHHHHhhcc
Confidence            3689999999999999999988764

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=94.62  E-value=0.052  Score=49.16  Aligned_cols=57  Identities=18%  Similarity=0.113  Sum_probs=35.7

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHH
Q 010355          167 NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIAD  223 (512)
Q Consensus       167 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~  223 (512)
                      ......|+|.|+.|+||||+++.+.........+..++...-+........++.++.
T Consensus        18 ~~~~~~i~~~G~~g~GKst~~~~l~~~l~~~~g~~v~~~treP~~t~~g~~ir~~l~   74 (223)
T 3ld9_A           18 GPGSMFITFEGIDGSGKTTQSHLLAEYLSEIYGVNNVVLTREPGGTLLNESVRNLLF   74 (223)
T ss_dssp             -CCCEEEEEECSTTSSHHHHHHHHHHHHHHHHCGGGEEEEESSCSSHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHhhccCceeeEeeeCCCCChHHHHHHHHHh
Confidence            345678999999999999999999988764112333331333333334455555554

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=94.62  E-value=0.017  Score=53.41  Aligned_cols=26  Identities=35%  Similarity=0.325  Sum_probs=23.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ..+|+|+|+.|+||||+++.++....
T Consensus        48 g~~i~l~G~~GsGKSTl~~~La~~lg   73 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIMARSLG   73 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcC
Confidence            36799999999999999999998764

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=94.61  E-value=0.048  Score=53.13  Aligned_cols=48  Identities=21%  Similarity=0.246  Sum_probs=34.9

Q ss_pred             hcCCCceEEEEEcCCCCcHHHHHHHHHHhhh--hcCCCCeEEEEEeCCCCCH
Q 010355          165 LKNPDVHMIGAYGMAGVGKTMLVKEVARQAK--ADKLFDEVVYAEVSQRPDV  214 (512)
Q Consensus       165 L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~--~~~~f~~~~wv~~~~~~~~  214 (512)
                      +.....+++.+.|.||+||||+|..++....  ..  -..++-|+.....++
T Consensus        13 l~~~~~~i~~~~gkGGvGKTt~a~~lA~~la~~~~--g~~vllid~D~~~~l   62 (348)
T 3io3_A           13 VQHDSLKWIFVGGKGGVGKTTTSSSVAVQLALAQP--NEQFLLISTDPAHNL   62 (348)
T ss_dssp             HTCTTCSEEEEECSTTSSHHHHHHHHHHHHHHHCT--TSCEEEEECCSSCHH
T ss_pred             hcCCCcEEEEEeCCCCCcHHHHHHHHHHHHHHhcC--CCeEEEEECCCCCCh
Confidence            3455678999999999999999999988776  32  235666666644433

>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=94.61  E-value=0.02  Score=51.60  Aligned_cols=24  Identities=17%  Similarity=0.069  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .|+|.|++|+||||+|+.++....
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~g   25 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEKYG   25 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999988653

>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=94.61  E-value=0.021  Score=54.00  Aligned_cols=24  Identities=21%  Similarity=0.540  Sum_probs=21.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHH
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVAR  192 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~  192 (512)
                      ...+|+|.|+.|+||||+|+.+..
T Consensus        74 ~~~iI~I~G~~GSGKSTva~~La~   97 (281)
T 2f6r_A           74 GLYVLGLTGISGSGKSSVAQRLKN   97 (281)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999999983

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=94.55  E-value=0.022  Score=54.65  Aligned_cols=25  Identities=28%  Similarity=0.200  Sum_probs=22.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ++|+|+|+.|+||||||..++....
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~l~   30 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADALP   30 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcC
Confidence            5899999999999999999988653

>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=94.54  E-value=0.023  Score=53.99  Aligned_cols=26  Identities=23%  Similarity=0.319  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .++|+|.|+.|+||||||..++....
T Consensus         3 ~~~i~i~GptgsGKt~la~~La~~~~   28 (322)
T 3exa_A            3 EKLVAIVGPTAVGKTKTSVMLAKRLN   28 (322)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHTTT
T ss_pred             CcEEEEECCCcCCHHHHHHHHHHhCc
Confidence            36899999999999999999987653

>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=94.51  E-value=0.034  Score=55.85  Aligned_cols=89  Identities=20%  Similarity=0.259  Sum_probs=55.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCC--CCeEEEEEeCCCC-CHHHHHHHHHHHhCCC-------CCCCCch-----
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKL--FDEVVYAEVSQRP-DVKKIQGQIADKLGLK-------FYEESES-----  235 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~--f~~~~wv~~~~~~-~~~~ll~~i~~~l~~~-------~~~~~~~-----  235 (512)
                      .-++|.|.+|+|||+|+.++++.....+.  -+.++++-+++.. ...+++..+...-.+.       ....+..     
T Consensus       153 Qr~~Ifgg~G~GKt~Ll~~Ia~~~~~n~~~~~~~~V~~~iGER~~Ev~e~~~~~~~~g~m~rtvvV~~tsd~p~~~r~~~  232 (469)
T 2c61_A          153 QKLPIFSASGLPHNEIALQIARQASVPGSESAFAVVFAAMGITNEEAQYFMSDFEKTGALERAVVFLNLADDPAVERIVT  232 (469)
T ss_dssp             CBCCEEECTTSCHHHHHHHHHHHCBCTTCSSCEEEEEEEEEECHHHHHHHHHHHHHHSGGGGEEEEEEETTSCHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHhhccCCCCcEEEEEEccCCcHHHHHHHHHHHhccCccceEEEEECCCCCHHHHHHH
Confidence            45678899999999999999988764221  1356677776554 4556666665432111       0111111     


Q ss_pred             -HHHHHHHHHHh--CCCeEEEEEeCCC
Q 010355          236 -GRARKLCERLK--KEKKILVILDDIW  259 (512)
Q Consensus       236 -~~~~~l~~~l~--~~k~~LlVlDdv~  259 (512)
                       .....+.++++  +++.+||++||+.
T Consensus       233 ~~~a~tiAEyfrdd~G~dVLl~~Dslt  259 (469)
T 2c61_A          233 PRMALTAAEYLAYEHGMHVLVILTDIT  259 (469)
T ss_dssp             HHHHHHHHHHHHHHHCCEEEEEEECHH
T ss_pred             HHHHHHHHHHHHHhcCCeEEEEEeCHH
Confidence             12335566665  5899999999973

>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=94.51  E-value=0.075  Score=53.11  Aligned_cols=89  Identities=19%  Similarity=0.213  Sum_probs=54.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcC-CC-CeEEEEEeCCCC-CHHHHHHHHHHHhCCC-------CCCCCch-----
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADK-LF-DEVVYAEVSQRP-DVKKIQGQIADKLGLK-------FYEESES-----  235 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~-~f-~~~~wv~~~~~~-~~~~ll~~i~~~l~~~-------~~~~~~~-----  235 (512)
                      .-++|.|.+|+|||+|+.++++...... +- -.++++-+++.. ...+++..+...-...       ....+..     
T Consensus       152 Qr~~Ifgg~G~GKt~L~~~Ia~~~~~~~d~~~~~~V~~~iGeR~~Ev~e~~~~~~~~g~~~rtvvV~atsd~p~~~r~~a  231 (465)
T 3vr4_D          152 QKLPVFSGSGLPHKELAAQIARQATVLDSSDDFAVVFAAIGITFEEAEFFMEDFRQTGAIDRSVMFMNLANDPAIERIAT  231 (465)
T ss_dssp             CBCCEEECTTSCHHHHHHHHHHHCBCSSCSSCEEEEEEEEEECHHHHHHHHHHHHHHTGGGGEEEEEEETTSCHHHHHHH
T ss_pred             CEEEEeCCCCcChHHHHHHHHHHHHhccCCCceEEEEEEecCCcHHHHHHHHHHhhcCCccceEEEEECCCCCHHHHHHH
Confidence            4468899999999999999998765311 11 156677776554 4556666654421111       1111111     


Q ss_pred             -HHHHHHHHHHh--CCCeEEEEEeCCC
Q 010355          236 -GRARKLCERLK--KEKKILVILDDIW  259 (512)
Q Consensus       236 -~~~~~l~~~l~--~~k~~LlVlDdv~  259 (512)
                       .....+.++++  .++.+||++||+.
T Consensus       232 ~~~a~tiAEyfrd~~G~~VLl~~DslT  258 (465)
T 3vr4_D          232 PRMALTAAEYLAYEKGMHVLVIMTDMT  258 (465)
T ss_dssp             HHHHHHHHHHHHHTTCCEEEEEEECHH
T ss_pred             HHHHHHHHHHHHHhcCCeEEEEEcChH
Confidence             12335667776  3899999999984

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=94.47  E-value=0.026  Score=53.88  Aligned_cols=28  Identities=29%  Similarity=0.344  Sum_probs=24.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      ...+++|+|+.|+|||||++.++.....
T Consensus        99 ~g~vi~lvG~nGsGKTTll~~Lag~l~~  126 (302)
T 3b9q_A           99 KPAVIMIVGVNGGGKTTSLGKLAHRLKN  126 (302)
T ss_dssp             SCEEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            3479999999999999999999987653

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=94.37  E-value=0.015  Score=53.14  Aligned_cols=25  Identities=20%  Similarity=0.275  Sum_probs=16.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHH-Hhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVA-RQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~-~~~  194 (512)
                      ..+++|+|+.|+|||||++.++ ...
T Consensus        27 G~ii~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           27 GVILVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             CCEEEEECSCC----CHHHHHHC---
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            3689999999999999999998 654

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=94.34  E-value=0.022  Score=54.82  Aligned_cols=26  Identities=23%  Similarity=0.358  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .++|+|+|+.|+|||||+..++....
T Consensus        40 ~~lIvI~GPTgsGKTtLa~~LA~~l~   65 (339)
T 3a8t_A           40 EKLLVLMGATGTGKSRLSIDLAAHFP   65 (339)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTTSC
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHCC
Confidence            46899999999999999999987653

>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=94.33  E-value=0.031  Score=53.02  Aligned_cols=27  Identities=26%  Similarity=0.165  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ..++|+|.|+.|+||||||..++....
T Consensus         9 ~~~~i~i~GptgsGKt~la~~La~~~~   35 (316)
T 3foz_A            9 LPKAIFLMGPTASGKTALAIELRKILP   35 (316)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CCcEEEEECCCccCHHHHHHHHHHhCC
Confidence            347899999999999999999987653

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=94.30  E-value=0.067  Score=48.29  Aligned_cols=39  Identities=21%  Similarity=0.152  Sum_probs=28.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCC
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQR  211 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~  211 (512)
                      -.|.+.|.||+||||+|..++.....+. + .++.+.+...
T Consensus         7 l~I~~~~kgGvGKTt~a~~la~~l~~~G-~-~V~v~d~D~q   45 (228)
T 2r8r_A            7 LKVFLGAAPGVGKTYAMLQAAHAQLRQG-V-RVMAGVVETH   45 (228)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHHTT-C-CEEEEECCCT
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHHCC-C-CEEEEEeCCC
Confidence            4578899999999999999988876432 2 3455555443

>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=94.29  E-value=0.04  Score=51.14  Aligned_cols=27  Identities=33%  Similarity=0.397  Sum_probs=23.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ...++.+.|.||+|||||+..++....
T Consensus        13 ~~~i~~~~GkgGvGKTTl~~~La~~l~   39 (262)
T 1yrb_A           13 ASMIVVFVGTAGSGKTTLTGEFGRYLE   39 (262)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            357889999999999999999987765

>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=94.28  E-value=0.16  Score=52.00  Aligned_cols=95  Identities=17%  Similarity=0.277  Sum_probs=56.9

Q ss_pred             HHHHhc-CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCC-CHHHHHHHHHH----HhCCCC-----
Q 010355          161 VINALK-NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRP-DVKKIQGQIAD----KLGLKF-----  229 (512)
Q Consensus       161 l~~~L~-~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~ll~~i~~----~l~~~~-----  229 (512)
                      +++.|. -.+-.-++|.|..|+|||+|+.++++...    -+.++++-++... ...+++..+-+    .+|...     
T Consensus       222 vID~l~PigrGqr~~Ifgg~g~GKT~L~~~ia~~~~----~~v~V~~~iGER~~Ev~e~~~~~~el~d~~~G~~~m~rtv  297 (600)
T 3vr4_A          222 VIDTFFPVTKGGAAAVPGPFGAGKTVVQHQIAKWSD----VDLVVYVGCGERGNEMTDVVNEFPELIDPNTGESLMERTV  297 (600)
T ss_dssp             HHHHHSCCBTTCEEEEECCTTSCHHHHHHHHHHHSS----CSEEEEEEEEECHHHHHHHHHHTTTCBCTTTCSBGGGGEE
T ss_pred             hhhccCCccCCCEEeeecCCCccHHHHHHHHHhccC----CCEEEEEEecccHHHHHHHHHHHHhhcccccccccccceE
Confidence            445554 23346789999999999999999988643    3567888887663 34445444322    122110     


Q ss_pred             -----CCCCchH------HHHHHHHHHh-CCCeEEEEEeCCC
Q 010355          230 -----YEESESG------RARKLCERLK-KEKKILVILDDIW  259 (512)
Q Consensus       230 -----~~~~~~~------~~~~l~~~l~-~~k~~LlVlDdv~  259 (512)
                           ...+...      ....+.++++ .++.+||++|++.
T Consensus       298 vV~~tsd~p~~~R~~~~~~altiAEyfrd~G~dVLl~~Ds~t  339 (600)
T 3vr4_A          298 LIANTSNMPVAAREASIYTGITIAEYFRDMGYDVAIMADSTS  339 (600)
T ss_dssp             EEEEETTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEECHH
T ss_pred             EEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEecchH
Confidence                 0011111      1234455554 4789999999984

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=94.28  E-value=0.045  Score=52.65  Aligned_cols=39  Identities=21%  Similarity=0.205  Sum_probs=29.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeC
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVS  209 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~  209 (512)
                      ...+|+|+|.+|+||||++..++......  -..+.++...
T Consensus       104 ~~~vI~ivG~~G~GKTT~~~~LA~~l~~~--g~kVllid~D  142 (320)
T 1zu4_A          104 RLNIFMLVGVNGTGKTTSLAKMANYYAEL--GYKVLIAAAD  142 (320)
T ss_dssp             SCEEEEEESSTTSSHHHHHHHHHHHHHHT--TCCEEEEECC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHC--CCeEEEEeCC
Confidence            45799999999999999999999877642  2345555443

>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=94.28  E-value=0.11  Score=53.14  Aligned_cols=95  Identities=17%  Similarity=0.240  Sum_probs=57.2

Q ss_pred             HHHHhc-CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCC-HHHHHHHHHH----HhCC-------
Q 010355          161 VINALK-NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPD-VKKIQGQIAD----KLGL-------  227 (512)
Q Consensus       161 l~~~L~-~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~-~~~ll~~i~~----~l~~-------  227 (512)
                      +++.|. -.+-.-++|.|..|+|||+|+.++++...    -+.++++-+++... ..+++..+-+    .++.       
T Consensus       217 vID~l~PigkGqr~~I~g~~g~GKT~L~~~ia~~~~----~~~~V~~~iGER~~Ev~e~~~~~~el~d~~~g~~~m~rtv  292 (588)
T 3mfy_A          217 VIDTFFPQAKGGTAAIPGPAGSGKTVTQHQLAKWSD----AQVVIYIGCGERGNEMTDVLEEFPKLKDPKTGKPLMERTV  292 (588)
T ss_dssp             HHHHHSCEETTCEEEECSCCSHHHHHHHHHHHHHSS----CSEEEEEECCSSSSHHHHHHHHTTTCEETTTTEEGGGGEE
T ss_pred             hhhccCCcccCCeEEeecCCCCCHHHHHHHHHhccC----CCEEEEEEecccHHHHHHHHHHHHHhcccccccccccceE
Confidence            445554 12346789999999999999999877633    35778888887664 4455555422    1110       


Q ss_pred             ---CCCCCCchH------HHHHHHHHHh-CCCeEEEEEeCCC
Q 010355          228 ---KFYEESESG------RARKLCERLK-KEKKILVILDDIW  259 (512)
Q Consensus       228 ---~~~~~~~~~------~~~~l~~~l~-~~k~~LlVlDdv~  259 (512)
                         .....+...      ....+.++++ .++.+||++|++.
T Consensus       293 vV~~tsd~p~~~r~~~~~~a~tiAEyfrd~G~dVLl~~Dslt  334 (588)
T 3mfy_A          293 LIANTSNMPVAAREASIYTGITIAEYFRDMGYDVALMADSTS  334 (588)
T ss_dssp             EEECCTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECTT
T ss_pred             EEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEeecchH
Confidence               000111111      1223444554 4799999999995

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=94.24  E-value=0.055  Score=50.46  Aligned_cols=38  Identities=16%  Similarity=0.315  Sum_probs=29.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCC
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQ  210 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~  210 (512)
                      ++|+|.|.||+||||+|..++......  -..++-|+...
T Consensus         2 ~vI~vs~KGGvGKTT~a~nLA~~la~~--G~~VlliD~D~   39 (269)
T 1cp2_A            2 RQVAIYGKGGIGKSTTTQNLTSGLHAM--GKTIMVVGCDP   39 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHTT--TCCEEEEEECT
T ss_pred             cEEEEecCCCCcHHHHHHHHHHHHHHC--CCcEEEEcCCC
Confidence            578889999999999999999887643  23566676653

>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=94.24  E-value=0.03  Score=53.61  Aligned_cols=28  Identities=18%  Similarity=0.157  Sum_probs=24.2

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ....+|+|.|+.|+|||||++.+.....
T Consensus        78 ~~g~iigI~G~~GsGKSTl~~~L~~~l~  105 (308)
T 1sq5_A           78 RIPYIISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            3457999999999999999999988654

>1u0j_A DNA replication protein; AAA+ protein, P-loop atpases, helicase; HET: DNA ADP; 2.10A {Adeno-associated virus - 2} SCOP: c.37.1.20 PDB: 1s9h_A

Probab=94.24  E-value=0.051  Score=50.49  Aligned_cols=37  Identities=19%  Similarity=0.222  Sum_probs=29.1

Q ss_pred             HHHHHHHhcCC--CceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          158 LNDVINALKNP--DVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       158 l~~l~~~L~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      +..+..||...  ....|.|+|++|+|||.||..+++..
T Consensus        90 ~~~l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~~~  128 (267)
T 1u0j_A           90 ASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             HHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             HHHHHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHhhh
Confidence            44566777743  24579999999999999999999864

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=94.22  E-value=0.027  Score=51.80  Aligned_cols=24  Identities=21%  Similarity=0.333  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .+++|+|+.|+|||||.+.++...
T Consensus        25 e~~~liG~nGsGKSTLl~~l~Gl~   48 (240)
T 2onk_A           25 DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEECCCCCCHHHHHHHHhCCC
Confidence            789999999999999999988654

>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=94.20  E-value=0.052  Score=51.36  Aligned_cols=40  Identities=15%  Similarity=0.288  Sum_probs=30.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCC
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQR  211 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~  211 (512)
                      .++|+|.|.||+||||+|..++......  -..++-|++...
T Consensus         2 MkvIavs~KGGvGKTT~a~nLA~~La~~--G~rVlliD~D~q   41 (289)
T 2afh_E            2 MRQCAIYGKGGIGKSTTTQNLVAALAEM--GKKVMIVGCDPK   41 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHHHT--TCCEEEEEECSS
T ss_pred             ceEEEEeCCCcCcHHHHHHHHHHHHHHC--CCeEEEEecCCC
Confidence            4688889999999999999999887643  235666666543

>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=94.16  E-value=0.028  Score=53.50  Aligned_cols=23  Identities=26%  Similarity=0.447  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      .+|.|.|++|+||||+|+.+...
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~~   25 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIAK   25 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            57899999999999999999874

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=94.15  E-value=0.016  Score=55.06  Aligned_cols=27  Identities=15%  Similarity=0.292  Sum_probs=20.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      +..+|+|.|..|+||||+|+.+.....
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~~~lg   30 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFDQIFR   30 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHHh
Confidence            456899999999999999999988654

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=94.12  E-value=0.023  Score=52.09  Aligned_cols=25  Identities=16%  Similarity=0.335  Sum_probs=21.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      -.+++|+|+.|+|||||++.++.-.
T Consensus        31 Ge~~~iiG~nGsGKSTLl~~l~Gl~   55 (235)
T 3tif_A           31 GEFVSIMGPSGSGKSTMLNIIGCLD   55 (235)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcCC
Confidence            4689999999999999999987654

>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=94.11  E-value=0.03  Score=49.85  Aligned_cols=36  Identities=22%  Similarity=0.153  Sum_probs=21.6

Q ss_pred             HHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          159 NDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       159 ~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      +.+.........--|+|+|.+|+|||||+..+....
T Consensus        19 ~~m~~~~~~~~~~ki~vvG~~~~GKSsLi~~l~~~~   54 (204)
T 4gzl_A           19 SHMENLYFQGQAIKCVVVGDGAVGKTCLLISYTTNA   54 (204)
T ss_dssp             -----------CEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             hHHHhHhhcCCeEEEEEECcCCCCHHHHHHHHHhCC
Confidence            333333344455678899999999999999988653

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=94.07  E-value=0.084  Score=46.84  Aligned_cols=50  Identities=16%  Similarity=0.174  Sum_probs=35.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHH
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIAD  223 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~  223 (512)
                      .|+|-|.-|+||||.++.+++.....  ...+++..-+......+.++.++.
T Consensus         2 fI~~EG~DGsGKsTq~~~L~~~L~~~--g~~v~~treP~~t~~~~~ir~~l~   51 (197)
T 3hjn_A            2 FITFEGIDGSGKSTQIQLLAQYLEKR--GKKVILKREPGGTETGEKIRKILL   51 (197)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHT--TCCEEEEESSCSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHC--CCcEEEEECCCCCcHHHHHHHHhh
Confidence            47889999999999999999988753  334555554444455555555554

>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=94.04  E-value=0.026  Score=56.64  Aligned_cols=28  Identities=29%  Similarity=0.542  Sum_probs=23.9

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          167 NPDVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       167 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .....+|.|+|++|+||||+|+.++...
T Consensus       255 ~~~~~lIil~G~pGSGKSTla~~L~~~~  282 (416)
T 3zvl_A          255 SPNPEVVVAVGFPGAGKSTFIQEHLVSA  282 (416)
T ss_dssp             CSSCCEEEEESCTTSSHHHHHHHHTGGG
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHhc
Confidence            3456899999999999999999987654

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=94.04  E-value=0.036  Score=54.18  Aligned_cols=28  Identities=29%  Similarity=0.344  Sum_probs=24.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      ...+++|+|+.|+|||||++.++.....
T Consensus       156 ~g~vi~lvG~nGsGKTTll~~Lag~l~~  183 (359)
T 2og2_A          156 KPAVIMIVGVNGGGKTTSLGKLAHRLKN  183 (359)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHhhccc
Confidence            3479999999999999999999987753

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=94.03  E-value=0.036  Score=46.81  Aligned_cols=24  Identities=25%  Similarity=0.430  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      +-|+|+|.+|+|||||+..+....
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            568999999999999999998653

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=93.97  E-value=0.024  Score=51.54  Aligned_cols=25  Identities=20%  Similarity=0.311  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      -.+++|+|+.|+|||||++.++...
T Consensus        30 Ge~~~iiG~nGsGKSTLl~~l~Gl~   54 (224)
T 2pcj_A           30 GEFVSIIGASGSGKSTLLYILGLLD   54 (224)
T ss_dssp             TCEEEEEECTTSCHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3689999999999999999987654

>1g8f_A Sulfate adenylyltransferase; alpha-beta protein, beta-barrel, rossmann-fold, kinase fold; 1.95A {Saccharomyces cerevisiae} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1g8g_A* 1g8h_A* 1j70_A 1jec_A 1jed_A* 1jee_A*

Probab=93.92  E-value=0.053  Score=55.46  Aligned_cols=45  Identities=9%  Similarity=-0.119  Sum_probs=32.8

Q ss_pred             cccchHHHHHHHHHhc--CCCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          151 FESRMSTLNDVINALK--NPDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       151 ~~gR~~~l~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ...|.+..+.+.+...  ..+..+|.|.|++|+||||+|+.++....
T Consensus       374 ~f~rpeV~~vLr~~~~~~~~~~~~I~l~GlsGsGKSTIa~~La~~L~  420 (511)
T 1g8f_A          374 WFSYPEVVKILRESNPPRPKQGFSIVLGNSLTVSREQLSIALLSTFL  420 (511)
T ss_dssp             TTSCHHHHHHHHHHSCCGGGCCEEEEECTTCCSCHHHHHHHHHHHHT
T ss_pred             cccChhhHHHHHHhcccccccceEEEecccCCCCHHHHHHHHHHHHH
Confidence            3355555455555442  23457899999999999999999999886

>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=93.90  E-value=0.097  Score=52.28  Aligned_cols=89  Identities=20%  Similarity=0.258  Sum_probs=54.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhc--------CCCC-eEEEEEeCCCC-CHHHHHHHHHHHhCCC-------CCCCC
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKAD--------KLFD-EVVYAEVSQRP-DVKKIQGQIADKLGLK-------FYEES  233 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~--------~~f~-~~~wv~~~~~~-~~~~ll~~i~~~l~~~-------~~~~~  233 (512)
                      .-++|.|.+|+|||+|+.++++.....        .+-+ .++++-+++.. ...+++..+...-...       ....+
T Consensus       148 Qr~~Ifgg~G~GKt~L~~~Ia~~~~a~~~~~~~~~d~~~~~~V~~~iGeR~~Ev~e~~~~l~~~g~~~rtvvv~~t~d~p  227 (464)
T 3gqb_B          148 QKLPIFSGSGLPANEIAAQIARQATVRPDLSGEGEKEEPFAVVFAAMGITQRELSYFIQEFERTGALSRSVLFLNKADDP  227 (464)
T ss_dssp             CBCCEEEETTSCHHHHHHHHHHHCBCCHHHHCCCSTTCCEEEEEEEEEECHHHHHHHHHHHHHTSGGGGEEEEEEETTSC
T ss_pred             CEEEEecCCCCCchHHHHHHHHHHHhcccccccccCCCceEEEEEEecCchHHHHHHHHHhhhcccccceEEEEECCCCC
Confidence            456788999999999999998876531        1111 56677776554 4555666554321011       01111


Q ss_pred             ch------HHHHHHHHHHh--CCCeEEEEEeCCC
Q 010355          234 ES------GRARKLCERLK--KEKKILVILDDIW  259 (512)
Q Consensus       234 ~~------~~~~~l~~~l~--~~k~~LlVlDdv~  259 (512)
                      ..      .....+.++++  .++.+||++||+.
T Consensus       228 ~~~r~~~~~~a~tiAEyfrd~~G~~VLl~~DdlT  261 (464)
T 3gqb_B          228 TIERILTPRMALTVAEYLAFEHDYHVLVILTDMT  261 (464)
T ss_dssp             THHHHHHHHHHHHHHHHHHHTTCCEEEEEEETHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhcCCeEEEEEcChH
Confidence            11      12335666776  3899999999984

>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=93.89  E-value=0.033  Score=49.04  Aligned_cols=25  Identities=28%  Similarity=0.460  Sum_probs=21.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .-.|+|+|.+|+|||||++.+....
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            4578999999999999999998754

>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=93.88  E-value=0.027  Score=49.75  Aligned_cols=25  Identities=24%  Similarity=0.229  Sum_probs=22.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .+.|.|.|++|+||||||..++...
T Consensus        34 g~~ilI~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHHHHHTTT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhC
Confidence            3678999999999999999998764

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=93.88  E-value=0.023  Score=50.99  Aligned_cols=23  Identities=39%  Similarity=0.421  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      .+++|+|+.|+|||||++.++..
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            68999999999999999999876

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=93.88  E-value=0.038  Score=51.50  Aligned_cols=109  Identities=14%  Similarity=0.115  Sum_probs=56.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCC-CCCHHHHHHHHH--HHhCCCCCCCCchHHHHHHHHHH
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQ-RPDVKKIQGQIA--DKLGLKFYEESESGRARKLCERL  245 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~ll~~i~--~~l~~~~~~~~~~~~~~~l~~~l  245 (512)
                      ...+++|+|+.|+|||||++.++......  +.+.+++.-.. .+-.... ..++  ..++..     .......+...|
T Consensus        24 ~g~~v~i~Gp~GsGKSTll~~l~g~~~~~--~~G~I~~~g~~i~~~~~~~-~~~v~q~~~gl~-----~~~l~~~la~aL   95 (261)
T 2eyu_A           24 KMGLILVTGPTGSGKSTTIASMIDYINQT--KSYHIITIEDPIEYVFKHK-KSIVNQREVGED-----TKSFADALRAAL   95 (261)
T ss_dssp             SSEEEEEECSTTCSHHHHHHHHHHHHHHH--CCCEEEEEESSCCSCCCCS-SSEEEEEEBTTT-----BSCHHHHHHHHH
T ss_pred             CCCEEEEECCCCccHHHHHHHHHHhCCCC--CCCEEEEcCCcceeecCCc-ceeeeHHHhCCC-----HHHHHHHHHHHH
Confidence            44789999999999999999998765431  23333332111 0000000 0000  011111     112234555556


Q ss_pred             hCCCeEEEEEeCCCChhhhhhhCCCCCCCCeEEEEEeCCcch
Q 010355          246 KKEKKILVILDDIWTNLDLENVGIPFGVRGCRVLMTARSQDV  287 (512)
Q Consensus       246 ~~~k~~LlVlDdv~~~~~~~~l~~~~~~~gs~iivTtR~~~v  287 (512)
                      .. ++=+|++|...+......+... ...|..||+||.....
T Consensus        96 ~~-~p~illlDEp~D~~~~~~~l~~-~~~g~~vl~t~H~~~~  135 (261)
T 2eyu_A           96 RE-DPDVIFVGEMRDLETVETALRA-AETGHLVFGTLHTNTA  135 (261)
T ss_dssp             HH-CCSEEEESCCCSHHHHHHHHHH-HHTTCEEEEEECCSSH
T ss_pred             hh-CCCEEEeCCCCCHHHHHHHHHH-HccCCEEEEEeCcchH
Confidence            54 5668888998755443322111 1346668888887653

>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=93.82  E-value=0.04  Score=47.08  Aligned_cols=23  Identities=22%  Similarity=0.355  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      ..|+|+|.+|+|||||...+...
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            56899999999999999998753

>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=93.82  E-value=0.029  Score=51.55  Aligned_cols=26  Identities=19%  Similarity=0.397  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      -.+++|+|+.|+|||||++.++....
T Consensus        31 Ge~~~i~G~nGsGKSTLl~~l~Gl~~   56 (237)
T 2cbz_A           31 GALVAVVGQVGCGKSSLLSALLAEMD   56 (237)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTCSE
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            46899999999999999999986543

>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=93.80  E-value=0.073  Score=48.86  Aligned_cols=40  Identities=20%  Similarity=0.377  Sum_probs=30.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCH
Q 010355          173 IGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDV  214 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  214 (512)
                      |+|.|.||+||||+|..++......  -..++-|+.....+.
T Consensus         3 I~vs~kGGvGKTt~a~~LA~~la~~--g~~VlliD~D~~~~l   42 (254)
T 3kjh_A            3 LAVAGKGGVGKTTVAAGLIKIMASD--YDKIYAVDGDPDSCL   42 (254)
T ss_dssp             EEEECSSSHHHHHHHHHHHHHHTTT--CSCEEEEEECTTSCH
T ss_pred             EEEecCCCCCHHHHHHHHHHHHHHC--CCeEEEEeCCCCcCh
Confidence            5669999999999999999888743  245777777655443

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=93.79  E-value=0.049  Score=47.74  Aligned_cols=26  Identities=23%  Similarity=0.147  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ....|+|+|.+|+|||||+..+....
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            45688999999999999999988653

>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=93.75  E-value=0.036  Score=49.11  Aligned_cols=23  Identities=30%  Similarity=0.473  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      ..|+|+|.+|+|||||.+.+...
T Consensus         6 ~kv~lvG~~g~GKSTLl~~l~~~   28 (199)
T 2f9l_A            6 FKVVLIGDSGVGKSNLLSRFTRN   28 (199)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECcCCCCHHHHHHHHhcC
Confidence            46889999999999999999875

>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=93.73  E-value=0.036  Score=51.35  Aligned_cols=24  Identities=29%  Similarity=0.310  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      -.+++|+|+.|+|||||++.++..
T Consensus        29 Ge~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           29 GEVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            368999999999999999999874

>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=93.73  E-value=0.03  Score=52.65  Aligned_cols=25  Identities=24%  Similarity=0.315  Sum_probs=21.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      -.+++|+|+.|+|||||++.++.-.
T Consensus        34 Ge~~~iiGpnGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           34 GEVTAILGGNGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHcCC
Confidence            3689999999999999999987654

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=93.71  E-value=0.03  Score=52.26  Aligned_cols=26  Identities=19%  Similarity=0.327  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .-.+++|+|+.|+|||||++.++...
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            34689999999999999999987654

>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=93.71  E-value=0.033  Score=52.49  Aligned_cols=42  Identities=21%  Similarity=0.221  Sum_probs=29.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCC--------CCeEEEEEeCCC
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKL--------FDEVVYAEVSQR  211 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~--------f~~~~wv~~~~~  211 (512)
                      -.++.|+|++|+|||||+..++........        -..++|++....
T Consensus        30 G~i~~i~G~~GsGKTtl~~~l~~~~~~g~~~~g~~~~~~~~v~~~~~e~~   79 (279)
T 1nlf_A           30 GTVGALVSPGGAGKSMLALQLAAQIAGGPDLLEVGELPTGPVIYLPAEDP   79 (279)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHTCCCTTCCCCCCCCCEEEEESSSC
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHhcCCCcCCCccCCCccEEEEECCCC
Confidence            378999999999999999999875542110        134667766543

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=93.70  E-value=0.046  Score=47.98  Aligned_cols=26  Identities=19%  Similarity=0.036  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      .++.|+|+.|+||||++.+++.....
T Consensus         4 ~i~vi~G~~gsGKTT~ll~~~~~~~~   29 (184)
T 2orw_A            4 KLTVITGPMYSGKTTELLSFVEIYKL   29 (184)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            57889999999999999877776543

>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=93.69  E-value=0.12  Score=53.51  Aligned_cols=37  Identities=30%  Similarity=0.368  Sum_probs=27.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEe
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEV  208 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~  208 (512)
                      -.+++|.|.+|+|||||++.++......  -..++++..
T Consensus       281 G~i~~i~G~~GsGKSTLl~~l~g~~~~~--G~~vi~~~~  317 (525)
T 1tf7_A          281 DSIILATGATGTGKTLLVSRFVENACAN--KERAILFAY  317 (525)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHHHTT--TCCEEEEES
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHHHhC--CCCEEEEEE
Confidence            3689999999999999999999776532  123455543

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=93.68  E-value=0.042  Score=50.46  Aligned_cols=26  Identities=23%  Similarity=0.298  Sum_probs=23.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ...|+|.|..|+||||+++.++....
T Consensus         2 ~~~i~~~G~~g~GKtt~~~~l~~~l~   27 (241)
T 2ocp_A            2 PRRLSIEGNIAVGKSTFVKLLTKTYP   27 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHCT
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            36799999999999999999998763

>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=93.66  E-value=0.03  Score=48.91  Aligned_cols=22  Identities=27%  Similarity=0.472  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      -|+|+|.+|+|||||++.++..
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            4789999999999999998763

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=93.66  E-value=0.066  Score=48.68  Aligned_cols=27  Identities=22%  Similarity=0.288  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      ...|+|.|+.|+||||+++.++.....
T Consensus        25 g~~I~~eG~~GsGKsT~~~~l~~~l~~   51 (227)
T 3v9p_A           25 GKFITFEGIDGAGKTTHLQWFCDRLQE   51 (227)
T ss_dssp             CCEEEEECCC---CHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            468999999999999999999988764

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=93.65  E-value=0.047  Score=49.94  Aligned_cols=27  Identities=26%  Similarity=0.286  Sum_probs=23.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ...+|+|.|+.|+||||+++.++....
T Consensus        15 ~~~~i~i~G~~gsGKst~~~~l~~~lg   41 (236)
T 1q3t_A           15 KTIQIAIDGPASSGKSTVAKIIAKDFG   41 (236)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHHHHHC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHcC
Confidence            456899999999999999999987653

>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=93.62  E-value=0.078  Score=47.01  Aligned_cols=43  Identities=16%  Similarity=0.185  Sum_probs=31.6

Q ss_pred             eEEEEE-cCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHH
Q 010355          171 HMIGAY-GMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVK  215 (512)
Q Consensus       171 ~vi~I~-G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  215 (512)
                      ++|+|+ +.||+||||+|..++......  -..++.++.....+..
T Consensus         2 ~vi~v~s~kgG~GKTt~a~~la~~la~~--g~~vlliD~D~~~~~~   45 (206)
T 4dzz_A            2 KVISFLNPKGGSGKTTAVINIATALSRS--GYNIAVVDTDPQMSLT   45 (206)
T ss_dssp             EEEEECCSSTTSSHHHHHHHHHHHHHHT--TCCEEEEECCTTCHHH
T ss_pred             eEEEEEeCCCCccHHHHHHHHHHHHHHC--CCeEEEEECCCCCCHH
Confidence            577777 789999999999999887643  3357777776554443

>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=93.62  E-value=0.032  Score=51.29  Aligned_cols=25  Identities=24%  Similarity=0.376  Sum_probs=21.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      -.+++|+|+.|+|||||.+.++...
T Consensus        32 Ge~~~l~G~nGsGKSTLl~~l~Gl~   56 (240)
T 1ji0_A           32 GQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3689999999999999999987654

>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=93.61  E-value=0.038  Score=51.71  Aligned_cols=24  Identities=25%  Similarity=0.326  Sum_probs=21.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      -.+++|+|+.|+|||||++.++..
T Consensus        46 Ge~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           46 GEVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999875

>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=93.60  E-value=0.044  Score=52.19  Aligned_cols=27  Identities=22%  Similarity=0.375  Sum_probs=23.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ..-.+++|+|+.|+|||||++.+....
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            344789999999999999999998765

>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=93.57  E-value=0.033  Score=52.09  Aligned_cols=25  Identities=24%  Similarity=0.388  Sum_probs=22.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      -.+++|+|+.|+|||||++.++.-.
T Consensus        37 Ge~~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           37 GEMVAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             TCEEEEECCTTSCHHHHHHHHTSSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcCC
Confidence            4689999999999999999987654

>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=93.57  E-value=0.033  Score=51.80  Aligned_cols=25  Identities=20%  Similarity=0.232  Sum_probs=21.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      -.+++|+|+.|+|||||.+.++...
T Consensus        33 Ge~~~liG~nGsGKSTLlk~l~Gl~   57 (257)
T 1g6h_A           33 GDVTLIIGPNGSGKSTLINVITGFL   57 (257)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3689999999999999999987654

>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=93.55  E-value=0.035  Score=51.14  Aligned_cols=26  Identities=23%  Similarity=0.266  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .-.+++|+|+.|+|||||++.++...
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           27 PNSIIAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34689999999999999999987654

>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=93.55  E-value=0.034  Score=50.76  Aligned_cols=26  Identities=23%  Similarity=0.396  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      -.+++|+|+.|+|||||.+.++....
T Consensus        34 Ge~~~i~G~nGsGKSTLl~~l~Gl~~   59 (229)
T 2pze_A           34 GQLLAVAGSTGAGKTSLLMMIMGELE   59 (229)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCc
Confidence            36899999999999999999987643

>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=93.51  E-value=0.034  Score=51.87  Aligned_cols=26  Identities=15%  Similarity=0.301  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .-.+++|+|+.|+|||||++.++...
T Consensus        49 ~Gei~~liG~NGsGKSTLlk~l~Gl~   74 (263)
T 2olj_A           49 EGEVVVVIGPSGSGKSTFLRCLNLLE   74 (263)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEEcCCCCcHHHHHHHHHcCC
Confidence            34689999999999999999987654

>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=93.51  E-value=0.035  Score=51.32  Aligned_cols=25  Identities=36%  Similarity=0.493  Sum_probs=21.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      -.+++|+|+.|+|||||++.++...
T Consensus        35 Ge~~~i~G~nGsGKSTLl~~l~Gl~   59 (247)
T 2ff7_A           35 GEVIGIVGRSGSGKSTLTKLIQRFY   59 (247)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3689999999999999999987654

>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=93.50  E-value=0.029  Score=50.59  Aligned_cols=24  Identities=29%  Similarity=0.516  Sum_probs=21.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .+++|+|+.|+|||||++.++...
T Consensus        36 e~~~iiG~NGsGKSTLlk~l~Gl~   59 (214)
T 1sgw_A           36 NVVNFHGPNGIGKTTLLKTISTYL   59 (214)
T ss_dssp             CCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            578999999999999999987654

>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=93.49  E-value=0.079  Score=52.12  Aligned_cols=27  Identities=22%  Similarity=0.175  Sum_probs=23.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ....+++|+|++|+|||||++.++...
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            445799999999999999999998754

>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=93.45  E-value=0.042  Score=46.44  Aligned_cols=23  Identities=26%  Similarity=0.437  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      -|+|+|.+|+|||||+..+....
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            47899999999999999998653

>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=93.45  E-value=0.044  Score=46.53  Aligned_cols=24  Identities=17%  Similarity=0.299  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      --|+|+|.+|+|||||+..+....
T Consensus         6 ~~i~v~G~~~~GKssl~~~l~~~~   29 (168)
T 1z2a_A            6 IKMVVVGNGAVGKSSMIQRYCKGI   29 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEEEECcCCCCHHHHHHHHHcCC
Confidence            457899999999999999998753

>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=93.41  E-value=0.046  Score=53.89  Aligned_cols=25  Identities=32%  Similarity=0.469  Sum_probs=22.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ++|+|.|+.|+||||||..++....
T Consensus         3 ~~i~i~GptgsGKttla~~La~~~~   27 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQLAQKFN   27 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHHHHT
T ss_pred             cEEEEECcchhhHHHHHHHHHHHCC
Confidence            6899999999999999999998754

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=93.40  E-value=0.12  Score=55.09  Aligned_cols=63  Identities=25%  Similarity=0.206  Sum_probs=40.7

Q ss_pred             HHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHH
Q 010355          156 STLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIAD  223 (512)
Q Consensus       156 ~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~  223 (512)
                      ...+.+...|...  .+..|+||+|+|||+.+.++....-..   ...+.++...+..+..++..+..
T Consensus       193 ~Q~~AV~~al~~~--~~~lI~GPPGTGKT~ti~~~I~~l~~~---~~~ILv~a~TN~AvD~i~erL~~  255 (646)
T 4b3f_X          193 SQKEAVLFALSQK--ELAIIHGPPGTGKTTTVVEIILQAVKQ---GLKVLCCAPSNIAVDNLVERLAL  255 (646)
T ss_dssp             HHHHHHHHHHHCS--SEEEEECCTTSCHHHHHHHHHHHHHHT---TCCEEEEESSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCC--CceEEECCCCCCHHHHHHHHHHHHHhC---CCeEEEEcCchHHHHHHHHHHHh
Confidence            3455566666533  477899999999997665555443322   23567777777667777766643

>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=93.39  E-value=0.037  Score=51.43  Aligned_cols=25  Identities=24%  Similarity=0.397  Sum_probs=22.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      -.+++|+|+.|+|||||.+.++...
T Consensus        41 Gei~~l~G~NGsGKSTLlk~l~Gl~   65 (256)
T 1vpl_A           41 GEIFGLIGPNGAGKTTTLRIISTLI   65 (256)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcCC
Confidence            4689999999999999999987654

>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=93.38  E-value=0.072  Score=46.41  Aligned_cols=34  Identities=21%  Similarity=0.307  Sum_probs=25.8

Q ss_pred             HHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          159 NDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       159 ~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      ..+.. +......-|+|+|.+|+|||||...+...
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 33445577899999999999999998853

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=93.36  E-value=0.038  Score=51.52  Aligned_cols=25  Identities=24%  Similarity=0.240  Sum_probs=22.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      -.+++|+|+.|+|||||++.++...
T Consensus        46 Ge~~~i~G~nGsGKSTLl~~l~Gl~   70 (260)
T 2ghi_A           46 GTTCALVGHTGSGKSTIAKLLYRFY   70 (260)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhccC
Confidence            3689999999999999999987654

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=93.33  E-value=0.038  Score=51.82  Aligned_cols=26  Identities=15%  Similarity=0.166  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .-.+++|+|+.|+|||||++.++...
T Consensus        44 ~Ge~~~i~G~nGsGKSTLlk~l~Gl~   69 (271)
T 2ixe_A           44 PGKVTALVGPNGSGKSTVAALLQNLY   69 (271)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34689999999999999999987654

>2woo_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; 3.01A {Schizosaccharomyces pombe}

Probab=93.30  E-value=0.13  Score=49.76  Aligned_cols=44  Identities=23%  Similarity=0.164  Sum_probs=32.2

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCC
Q 010355          167 NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRP  212 (512)
Q Consensus       167 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~  212 (512)
                      ....+++.+.|.||+||||+|..++......  -..+.-++.....
T Consensus        16 ~~~~~i~v~sgkGGvGKTTva~~LA~~lA~~--G~rVllvD~D~~~   59 (329)
T 2woo_A           16 QTSLKWIFVGGKGGVGKTTTSCSLAIQMSKV--RSSVLLISTDPAH   59 (329)
T ss_dssp             CTTCCEEEEECSSSSSHHHHHHHHHHHHHTS--SSCEEEEECCTTC
T ss_pred             CCCCEEEEEeCCCCCcHHHHHHHHHHHHHHC--CCeEEEEECCCCc
Confidence            3445778889999999999999999887643  3356666665443

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=93.29  E-value=0.054  Score=47.15  Aligned_cols=24  Identities=21%  Similarity=0.326  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      ...|+|+|.+|+|||||+..+...
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            357899999999999999999864

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=93.28  E-value=0.022  Score=59.87  Aligned_cols=23  Identities=26%  Similarity=0.342  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .|.|+|++|+|||+||+.+++..
T Consensus       329 ~vLL~GppGtGKT~LAr~la~~~  351 (595)
T 3f9v_A          329 HILIIGDPGTAKSQMLQFISRVA  351 (595)
T ss_dssp             CEEEEESSCCTHHHHHHSSSTTC
T ss_pred             ceEEECCCchHHHHHHHHHHHhC
Confidence            58899999999999999987665

>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=93.27  E-value=0.04  Score=50.98  Aligned_cols=25  Identities=24%  Similarity=0.380  Sum_probs=21.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      -.+++|+|+.|+|||||.+.++...
T Consensus        26 Ge~~~liG~NGsGKSTLlk~l~Gl~   50 (249)
T 2qi9_C           26 GEILHLVGPNGAGKSTLLARMAGMT   50 (249)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCC
Confidence            3689999999999999999987654

>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=93.22  E-value=0.049  Score=47.18  Aligned_cols=33  Identities=21%  Similarity=0.287  Sum_probs=24.6

Q ss_pred             HHHHHhcC-CCceEEEEEcCCCCcHHHHHHHHHH
Q 010355          160 DVINALKN-PDVHMIGAYGMAGVGKTMLVKEVAR  192 (512)
Q Consensus       160 ~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~  192 (512)
                      ++...+.. ....-|+|+|.+|+|||||...+..
T Consensus         7 ~~~~~~~~~~~~~~i~v~G~~~~GKssli~~l~~   40 (183)
T 1moz_A            7 SMFDKLWGSNKELRILILGLDGAGKTTILYRLQI   40 (183)
T ss_dssp             HHHGGGTTCSSCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             HHHHHhcCCCCccEEEEECCCCCCHHHHHHHHhc
Confidence            34443444 4567789999999999999988763

>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=93.20  E-value=0.06  Score=48.29  Aligned_cols=26  Identities=23%  Similarity=0.147  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ....|+|+|.+|+|||||+..+....
T Consensus        11 ~~~~i~~~G~~g~GKTsl~~~l~~~~   36 (218)
T 1nrj_B           11 YQPSIIIAGPQNSGKTSLLTLLTTDS   36 (218)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45678999999999999999998754

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=93.18  E-value=0.042  Score=51.42  Aligned_cols=25  Identities=28%  Similarity=0.279  Sum_probs=21.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      -.+++|+|+.|+|||||++.++...
T Consensus        33 Ge~~~liG~nGsGKSTLl~~i~Gl~   57 (266)
T 2yz2_A           33 GECLLVAGNTGSGKSTLLQIVAGLI   57 (266)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCC
Confidence            3689999999999999999987654

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=93.18  E-value=0.042  Score=50.99  Aligned_cols=25  Identities=20%  Similarity=0.348  Sum_probs=22.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      -.+++|+|+.|+|||||.+.++...
T Consensus        31 Ge~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           31 GDILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             TCEEEEECCSSSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3689999999999999999988654

>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=93.16  E-value=0.07  Score=46.34  Aligned_cols=26  Identities=31%  Similarity=0.395  Sum_probs=22.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      ....-|+|+|.+|+|||||...+...
T Consensus        14 ~~~~ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A           14 DQEVRILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             SSCEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhcC
Confidence            34567899999999999999998754

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=93.16  E-value=0.042  Score=51.79  Aligned_cols=25  Identities=28%  Similarity=0.356  Sum_probs=21.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      -.+++|+|+.|+|||||++.++...
T Consensus        47 Ge~~~liG~NGsGKSTLlk~l~Gl~   71 (279)
T 2ihy_A           47 GDKWILYGLNGAGKTTLLNILNAYE   71 (279)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCC
Confidence            3689999999999999999987654

>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=93.15  E-value=0.052  Score=47.44  Aligned_cols=24  Identities=25%  Similarity=0.389  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      --|+|+|.+|+|||||+..+....
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            467899999999999999998753

>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=93.13  E-value=0.41  Score=48.30  Aligned_cols=87  Identities=18%  Similarity=0.224  Sum_probs=51.7

Q ss_pred             ceEEEEEcCCCCcHHHHH-HHHHHhhhhcCCCCeEEEEEeCCCC-CHHHHHHHHHHHhCCCC-------CCCCchH----
Q 010355          170 VHMIGAYGMAGVGKTMLV-KEVARQAKADKLFDEVVYAEVSQRP-DVKKIQGQIADKLGLKF-------YEESESG----  236 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa-~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~ll~~i~~~l~~~~-------~~~~~~~----  236 (512)
                      -.-++|.|..|+|||+|+ ..++++..   .-..++++-+++.. ...+++..+...-.+..       ...+...    
T Consensus       162 GQR~~Ifg~~g~GKT~l~l~~I~n~~~---~dv~~V~~~IGeR~~ev~e~~~~l~~~g~m~~tvvV~atad~p~~~r~~a  238 (513)
T 3oaa_A          162 GQRELIIGDRQTGKTALAIDAIINQRD---SGIKCIYVAIGQKASTISNVVRKLEEHGALANTIVVVATASESAALQYLA  238 (513)
T ss_dssp             TCBCEEEESSSSSHHHHHHHHHHTTSS---SSCEEEEEEESCCHHHHHHHHHHHHHHSCSTTEEEEEECTTSCHHHHHHH
T ss_pred             CCEEEeecCCCCCcchHHHHHHHhhcc---CCceEEEEEecCChHHHHHHHHHHhhcCcccceEEEEECCCCChHHHHHH
Confidence            356789999999999996 45555421   22246788888765 45566666544322211       0111111    


Q ss_pred             --HHHHHHHHHh-CCCeEEEEEeCCC
Q 010355          237 --RARKLCERLK-KEKKILVILDDIW  259 (512)
Q Consensus       237 --~~~~l~~~l~-~~k~~LlVlDdv~  259 (512)
                        ....+.++++ +++..||++||+.
T Consensus       239 ~~~a~tiAEyfrd~G~dVLli~Dslt  264 (513)
T 3oaa_A          239 PYAGCAMGEYFRDRGEDALIIYDDLS  264 (513)
T ss_dssp             HHHHHHHHHHHHHTTCEEEEEEETHH
T ss_pred             HHHHHHHHHHHHhcCCCEEEEecChH
Confidence              1223444554 5799999999984

>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=93.13  E-value=0.054  Score=45.91  Aligned_cols=24  Identities=29%  Similarity=0.415  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .-|+|+|.+|+|||||+..+....
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            458899999999999999998753

>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=93.12  E-value=0.05  Score=46.63  Aligned_cols=24  Identities=33%  Similarity=0.358  Sum_probs=20.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      ..-|+|+|.+|+|||||+..+...
T Consensus         4 ~~ki~i~G~~~vGKSsl~~~l~~~   27 (175)
T 2nzj_A            4 LYRVVLLGDPGVGKTSLASLFAGK   27 (175)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEEEECCCCccHHHHHHHHhcC
Confidence            346889999999999999998754

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=93.11  E-value=0.1  Score=50.88  Aligned_cols=27  Identities=19%  Similarity=0.342  Sum_probs=23.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ...+|+|+|.+|+|||||...+.....
T Consensus        73 ~~~~v~lvG~pgaGKSTLln~L~~~~~   99 (349)
T 2www_A           73 LAFRVGLSGPPGAGKSTFIEYFGKMLT   99 (349)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHHhh
Confidence            468999999999999999999987654

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=93.08  E-value=0.054  Score=50.72  Aligned_cols=24  Identities=29%  Similarity=0.441  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .++|+|+.|+|||||.+.++....
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g~~~   27 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFKSQV   27 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            578999999999999999987653

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=93.06  E-value=0.15  Score=45.62  Aligned_cols=43  Identities=16%  Similarity=0.093  Sum_probs=31.7

Q ss_pred             EEEE-EcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHH
Q 010355          172 MIGA-YGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKI  217 (512)
Q Consensus       172 vi~I-~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~l  217 (512)
                      +|+| .+.||+||||+|..++......  - .++-++.....+....
T Consensus         2 vI~v~s~KGGvGKTT~a~~LA~~la~~--g-~VlliD~D~q~~~~~~   45 (209)
T 3cwq_A            2 IITVASFKGGVGKTTTAVHLSAYLALQ--G-ETLLIDGDPNRSATGW   45 (209)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHTT--S-CEEEEEECTTCHHHHH
T ss_pred             EEEEEcCCCCCcHHHHHHHHHHHHHhc--C-CEEEEECCCCCCHHHH
Confidence            4555 5889999999999999888743  3 6778888766544433

>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=93.06  E-value=0.055  Score=45.77  Aligned_cols=24  Identities=25%  Similarity=0.365  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      --|+|+|.+|+|||||+..+....
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            358899999999999999988653

>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=93.04  E-value=0.059  Score=45.63  Aligned_cols=22  Identities=23%  Similarity=0.321  Sum_probs=19.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      |+|+|.+|+|||||+..+....
T Consensus         3 i~~~G~~~~GKssl~~~l~~~~   24 (164)
T 1r8s_A            3 ILMVGLDAAGKTTILYKLKLGE   24 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            7899999999999999997653

>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=93.03  E-value=0.056  Score=45.81  Aligned_cols=22  Identities=27%  Similarity=0.444  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      -|+|+|.+|+|||||+..+...
T Consensus         5 ki~v~G~~~~GKssli~~l~~~   26 (167)
T 1c1y_A            5 KLVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5789999999999999999875

>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=93.01  E-value=0.056  Score=46.02  Aligned_cols=24  Identities=29%  Similarity=0.284  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      --|+|+|.+|+|||||+..+....
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~~   30 (170)
T 1z08_A            7 FKVVLLGEGCVGKTSLVLRYCENK   30 (170)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            468899999999999999998653

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=92.99  E-value=0.069  Score=45.89  Aligned_cols=25  Identities=20%  Similarity=0.324  Sum_probs=21.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      +...|+|+|.+|+|||||+..+...
T Consensus         7 ~~~~i~v~G~~~~GKssl~~~l~~~   31 (178)
T 2lkc_A            7 RPPVVTIMGHVDHGKTTLLDAIRHS   31 (178)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4567899999999999999998764

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=92.98  E-value=0.039  Score=55.46  Aligned_cols=27  Identities=30%  Similarity=0.395  Sum_probs=23.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      .++|+|+|.+|+||||++..++.....
T Consensus        99 ~~vI~ivG~~GvGKTTla~~La~~l~~  125 (432)
T 2v3c_C           99 QNVILLVGIQGSGKTTTAAKLARYIQK  125 (432)
T ss_dssp             CCCEEEECCSSSSTTHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            468999999999999999999887653

>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=92.97  E-value=0.046  Score=52.63  Aligned_cols=26  Identities=23%  Similarity=0.425  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ..++++|+|+.|+|||||.+.+....
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            46899999999999999999998754

>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=92.96  E-value=0.058  Score=45.82  Aligned_cols=23  Identities=26%  Similarity=0.329  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      -|+|+|.+|+|||||+..+....
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            47899999999999999998654

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=92.94  E-value=0.083  Score=54.73  Aligned_cols=27  Identities=22%  Similarity=0.345  Sum_probs=24.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ...+++|+|+.|+|||||++.++....
T Consensus       368 ~G~iI~LiG~sGSGKSTLar~La~~L~  394 (552)
T 3cr8_A          368 QGFTVFFTGLSGAGKSTLARALAARLM  394 (552)
T ss_dssp             SCEEEEEEESSCHHHHHHHHHHHHHHH
T ss_pred             cceEEEEECCCCChHHHHHHHHHHhhc
Confidence            347899999999999999999998875

>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=92.92  E-value=0.058  Score=47.08  Aligned_cols=25  Identities=24%  Similarity=0.286  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .--|+|+|.+|+|||||+..+....
T Consensus        20 ~~ki~ivG~~~vGKSsL~~~~~~~~   44 (184)
T 3ihw_A           20 ELKVGIVGNLSSGKSALVHRYLTGT   44 (184)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHSS
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcCC
Confidence            3568899999999999999887653

>3zq6_A Putative arsenical pump-driving ATPase; tail-anchored, membrane protein; HET: ADP; 2.11A {Methanothermobacter thermautotrophicusorganism_taxid}

Probab=92.89  E-value=0.14  Score=49.23  Aligned_cols=45  Identities=16%  Similarity=0.132  Sum_probs=32.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKK  216 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~  216 (512)
                      ..++.+.|.||+||||+|..++......  -..++-|+.....++..
T Consensus        14 ~~i~v~sgKGGvGKTTvA~~LA~~lA~~--G~rVLlvD~D~~~~l~~   58 (324)
T 3zq6_A           14 TTFVFIGGKGGVGKTTISAATALWMARS--GKKTLVISTDPAHSLSD   58 (324)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHHHT--TCCEEEEECCSSCCHHH
T ss_pred             eEEEEEeCCCCchHHHHHHHHHHHHHHC--CCcEEEEeCCCCcCHHH
Confidence            4677788999999999999998887643  33566677665555443

>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=92.89  E-value=0.057  Score=45.98  Aligned_cols=22  Identities=27%  Similarity=0.376  Sum_probs=19.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHH
Q 010355          171 HMIGAYGMAGVGKTMLVKEVAR  192 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~  192 (512)
                      --|+|+|.+|+|||||+..+..
T Consensus         3 ~ki~ivG~~~~GKSsli~~l~~   24 (169)
T 3q85_A            3 FKVMLVGESGVGKSTLAGTFGG   24 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHC
T ss_pred             EEEEEECCCCCCHHHHHHHHHh
Confidence            3578999999999999999863

>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=92.89  E-value=0.17  Score=49.31  Aligned_cols=48  Identities=19%  Similarity=0.159  Sum_probs=33.2

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHHHhhh--hcCCCCeEEEEEeCCCCCHHH
Q 010355          167 NPDVHMIGAYGMAGVGKTMLVKEVARQAK--ADKLFDEVVYAEVSQRPDVKK  216 (512)
Q Consensus       167 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~~--~~~~f~~~~wv~~~~~~~~~~  216 (512)
                      .....++.+.|.||+||||+|..++....  ..  -..++-|+.....++..
T Consensus        15 ~~~~~i~v~sgKGGvGKTTvaanLA~~lA~~~~--G~rVLLvD~D~~~~l~~   64 (354)
T 2woj_A           15 STTHKWIFVGGKGGVGKTTSSCSIAIQMALSQP--NKQFLLISTDPAHNLSD   64 (354)
T ss_dssp             CSSCCEEEEEESTTSSHHHHHHHHHHHHHHHCT--TSCEEEEECCSSCCHHH
T ss_pred             CCCcEEEEEeCCCCCcHHHHHHHHHHHHHHhcC--CCeEEEEECCCCCCHHH
Confidence            34456777889999999999999988776  32  23466666655444443

>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=92.87  E-value=0.061  Score=45.77  Aligned_cols=24  Identities=21%  Similarity=0.343  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      --|+|+|.+|+|||||+..+....
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            357899999999999999998754

>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=92.86  E-value=0.061  Score=46.81  Aligned_cols=24  Identities=17%  Similarity=0.203  Sum_probs=21.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .+.+|+|+.|+|||||+..++.-.
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            488999999999999999987754

>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=92.85  E-value=0.057  Score=46.98  Aligned_cols=25  Identities=28%  Similarity=0.291  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .--|+|+|.+|+|||||+..+....
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            3457899999999999999998753

>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=92.81  E-value=0.062  Score=46.31  Aligned_cols=26  Identities=27%  Similarity=0.409  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ...-|+|+|.+|+|||||+..+....
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            34568999999999999999988753

>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=92.80  E-value=0.11  Score=51.06  Aligned_cols=44  Identities=16%  Similarity=0.144  Sum_probs=32.7

Q ss_pred             CCceEEEEEc-CCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCC
Q 010355          168 PDVHMIGAYG-MAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPD  213 (512)
Q Consensus       168 ~~~~vi~I~G-~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  213 (512)
                      .+.++|+|+| .||+||||+|..++......  -..++.+++....+
T Consensus       141 ~~~kvIav~s~KGGvGKTT~a~nLA~~La~~--g~rVlliD~D~~~~  185 (373)
T 3fkq_A          141 DKSSVVIFTSPCGGVGTSTVAAACAIAHANM--GKKVFYLNIEQCGT  185 (373)
T ss_dssp             TSCEEEEEECSSTTSSHHHHHHHHHHHHHHH--TCCEEEEECCTTCC
T ss_pred             CCceEEEEECCCCCChHHHHHHHHHHHHHhC--CCCEEEEECCCCCC
Confidence            3568888885 99999999999998877643  34577788764333

>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=92.80  E-value=0.063  Score=46.13  Aligned_cols=25  Identities=24%  Similarity=0.369  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ..-|+|+|.+|+|||||+..+....
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            3468899999999999999998653

>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=92.75  E-value=0.073  Score=54.88  Aligned_cols=27  Identities=26%  Similarity=0.377  Sum_probs=23.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ...+|.++|++|+||||+|+.++....
T Consensus        34 ~~~lIvlvGlpGSGKSTia~~La~~L~   60 (520)
T 2axn_A           34 SPTVIVMVGLPARGKTYISKKLTRYLN   60 (520)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            457899999999999999999988765

>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=92.75  E-value=0.057  Score=46.54  Aligned_cols=23  Identities=22%  Similarity=0.306  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      ..|+|+|.+|+|||||...+...
T Consensus         5 ~ki~ivG~~g~GKStLl~~l~~~   27 (172)
T 2gj8_A            5 MKVVIAGRPNAGKSSLLNALAGR   27 (172)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            46889999999999999999864

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=92.74  E-value=0.15  Score=51.59  Aligned_cols=95  Identities=20%  Similarity=0.227  Sum_probs=56.0

Q ss_pred             HHHHhc-CCCceEEEEEcCCCCcHHHHHH-HHHHhhhhcCCCC-eEEEEEeCCCC-CHHHHHHHHHHHhCCCC-------
Q 010355          161 VINALK-NPDVHMIGAYGMAGVGKTMLVK-EVARQAKADKLFD-EVVYAEVSQRP-DVKKIQGQIADKLGLKF-------  229 (512)
Q Consensus       161 l~~~L~-~~~~~vi~I~G~gGiGKTtLa~-~v~~~~~~~~~f~-~~~wv~~~~~~-~~~~ll~~i~~~l~~~~-------  229 (512)
                      .++.|. -..-.-++|.|.+|+|||+||. .+++...    .+ .++++-+++.. ...++++.+...-....       
T Consensus       152 aID~l~PigrGQR~~Ifg~~g~GKT~Lal~~I~~~~~----~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~m~~tvvV~at  227 (502)
T 2qe7_A          152 AIDSMIPIGRGQRELIIGDRQTGKTTIAIDTIINQKG----QDVICIYVAIGQKQSTVAGVVETLRQHDALDYTIVVTAS  227 (502)
T ss_dssp             HHHHSSCCBTTCBCEEEECSSSCHHHHHHHHHHGGGS----CSEEEEEEEESCCHHHHHHHHHHHHHTTCSTTEEEEEEC
T ss_pred             ecccccccccCCEEEEECCCCCCchHHHHHHHHHhhc----CCcEEEEEECCCcchHHHHHHHHHhhCCCcceeEEEEEC
Confidence            344444 2233567899999999999964 6666542    34 35777777665 45566666654322211       


Q ss_pred             CCCCchH------HHHHHHHHHh-CCCeEEEEEeCCC
Q 010355          230 YEESESG------RARKLCERLK-KEKKILVILDDIW  259 (512)
Q Consensus       230 ~~~~~~~------~~~~l~~~l~-~~k~~LlVlDdv~  259 (512)
                      ...+...      ....+.+++. +++.+||++||+.
T Consensus       228 ad~p~~~r~~a~~~a~tiAEyfrd~G~dVLl~~Dslt  264 (502)
T 2qe7_A          228 ASEPAPLLYLAPYAGCAMGEYFMYKGKHALVVYDDLS  264 (502)
T ss_dssp             TTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEECHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEecHH
Confidence            1111111      1234455554 4799999999984

>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=92.73  E-value=0.15  Score=49.71  Aligned_cols=41  Identities=22%  Similarity=0.142  Sum_probs=29.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCC
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQ  210 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~  210 (512)
                      ....++.+.|.||+||||+|..++......  -..++-|+...
T Consensus        24 ~~~~i~v~sgKGGvGKTTvA~~LA~~lA~~--G~rVLlvD~D~   64 (349)
T 3ug7_A           24 DGTKYIMFGGKGGVGKTTMSAATGVYLAEK--GLKVVIVSTDP   64 (349)
T ss_dssp             CSCEEEEEECSSSTTHHHHHHHHHHHHHHS--SCCEEEEECCT
T ss_pred             CCCEEEEEeCCCCccHHHHHHHHHHHHHHC--CCeEEEEeCCC
Confidence            445677778999999999999998887643  23455666544

>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=92.73  E-value=0.047  Score=49.80  Aligned_cols=25  Identities=20%  Similarity=0.250  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      ...+|+|.|+.|+|||||++.++..
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            3478999999999999999988765

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=92.73  E-value=0.061  Score=45.79  Aligned_cols=23  Identities=30%  Similarity=0.563  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      --|+|+|.+|+|||||+..+...
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~   26 (172)
T 2erx_A            4 YRVAVFGAGGVGKSSLVLRFVKG   26 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            35789999999999999998864

>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=92.70  E-value=0.067  Score=45.44  Aligned_cols=23  Identities=26%  Similarity=0.348  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      --|+|+|.+|+|||||+..+...
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1r2q_A            7 FKLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            45789999999999999999864

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=92.69  E-value=0.054  Score=50.53  Aligned_cols=25  Identities=24%  Similarity=0.316  Sum_probs=21.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      -.+++|+|+.|+|||||.+.++...
T Consensus        30 Ge~~~i~G~NGsGKSTLlk~l~Gl~   54 (263)
T 2pjz_A           30 GEKVIILGPNGSGKTTLLRAISGLL   54 (263)
T ss_dssp             SSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEEECCCCCCHHHHHHHHhCCC
Confidence            3689999999999999999987653

>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=92.69  E-value=0.32  Score=44.37  Aligned_cols=39  Identities=15%  Similarity=-0.032  Sum_probs=26.8

Q ss_pred             cchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          153 SRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       153 gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      -|.-....+..++...   -+.|+|+.|.|||.+|..++...
T Consensus        94 l~~~Q~~ai~~~~~~~---~~ll~~~tG~GKT~~a~~~~~~~  132 (237)
T 2fz4_A           94 LRDYQEKALERWLVDK---RGCIVLPTGSGKTHVAMAAINEL  132 (237)
T ss_dssp             CCHHHHHHHHHHTTTS---EEEEEESSSTTHHHHHHHHHHHS
T ss_pred             cCHHHHHHHHHHHhCC---CEEEEeCCCCCHHHHHHHHHHHc
Confidence            3444444444454432   37889999999999998887664

>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=92.69  E-value=0.059  Score=52.54  Aligned_cols=25  Identities=28%  Similarity=0.363  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      -.+++|.|+.|+|||||.+.++--.
T Consensus        30 Ge~~~llGpsGsGKSTLLr~iaGl~   54 (359)
T 3fvq_A           30 GEILFIIGASGCGKTTLLRCLAGFE   54 (359)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCchHHHHHHHHhcCC
Confidence            3689999999999999999998754

>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=92.68  E-value=0.091  Score=46.42  Aligned_cols=32  Identities=22%  Similarity=0.285  Sum_probs=23.4

Q ss_pred             HHHHhc-CCCceEEEEEcCCCCcHHHHHHHHHH
Q 010355          161 VINALK-NPDVHMIGAYGMAGVGKTMLVKEVAR  192 (512)
Q Consensus       161 l~~~L~-~~~~~vi~I~G~gGiGKTtLa~~v~~  192 (512)
                      +++.+. .....-|+|+|.+|+|||||+..+..
T Consensus        15 ~l~~~~~~~~~~ki~lvG~~~vGKSsLi~~l~~   47 (198)
T 1f6b_A           15 VLQFLGLYKKTGKLVFLGLDNAGKTTLLHMLKD   47 (198)
T ss_dssp             HHHHHTCTTCCEEEEEEEETTSSHHHHHHHHSC
T ss_pred             HHHHhhccCCCcEEEEECCCCCCHHHHHHHHhc
Confidence            344442 33345688999999999999998864

>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=92.68  E-value=0.063  Score=45.65  Aligned_cols=23  Identities=30%  Similarity=0.379  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      --|+|+|.+|+|||||+..+...
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1g16_A            4 MKILLIGDSGVGKSCLLVRFVED   26 (170)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhC
Confidence            45789999999999999998864

>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=92.68  E-value=0.056  Score=45.87  Aligned_cols=21  Identities=29%  Similarity=0.423  Sum_probs=18.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 010355          172 MIGAYGMAGVGKTMLVKEVAR  192 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~  192 (512)
                      -|+|+|.+|+|||||+..+..
T Consensus         4 ki~~vG~~~~GKSsli~~l~~   24 (166)
T 3q72_A            4 KVLLLGAPGVGKSALARIFGG   24 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHcC
Confidence            478999999999999998853

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=92.68  E-value=0.076  Score=45.65  Aligned_cols=24  Identities=21%  Similarity=0.174  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      -+-|.|.|.+|+||||||..+..+
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            357889999999999999999875

>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=92.65  E-value=0.066  Score=46.79  Aligned_cols=25  Identities=20%  Similarity=0.283  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .--|+|+|.+|+|||||+..+....
T Consensus        21 ~~ki~vvG~~~vGKTsLi~~l~~~~   45 (187)
T 3c5c_A           21 EVNLAILGRRGAGKSALTVKFLTKR   45 (187)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             eEEEEEECCCCCcHHHHHHHHHhCC
Confidence            3568899999999999999988753

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=92.64  E-value=0.074  Score=47.38  Aligned_cols=25  Identities=20%  Similarity=0.255  Sum_probs=23.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .+|+|.|+.|+||||+++.++....
T Consensus         7 ~iI~i~g~~GsGk~ti~~~la~~lg   31 (201)
T 3fdi_A            7 IIIAIGREFGSGGHLVAKKLAEHYN   31 (201)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHTT
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHHhC
Confidence            6899999999999999999999876

>3gqb_A V-type ATP synthase alpha chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_A* 3a5d_A 3j0j_A* 1um2_C

Probab=92.62  E-value=0.15  Score=52.09  Aligned_cols=95  Identities=16%  Similarity=0.217  Sum_probs=55.3

Q ss_pred             HHHHhcC-CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCC-CHHHHHHHHHH----HhCCCC-----
Q 010355          161 VINALKN-PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRP-DVKKIQGQIAD----KLGLKF-----  229 (512)
Q Consensus       161 l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~ll~~i~~----~l~~~~-----  229 (512)
                      +++.|.. .+-.-++|.|..|+|||+|+.++++...    -+.++++-++... ...+++..+-+    .+|...     
T Consensus       211 vID~l~PigrGqr~~Ifg~~g~GKT~l~~~ia~~~~----~~v~V~~~iGER~~Ev~e~~~~~~el~d~~~G~~~~~rtv  286 (578)
T 3gqb_A          211 ILDVLFPVAMGGTAAIPGPFGSGKSVTQQSLAKWSN----ADVVVYVGSGERGNEMTDVLVEFPELTDPKTGGPLMHRTV  286 (578)
T ss_dssp             HHHTTSCEETTCEEEECCCTTSCHHHHHHHHHHHSS----CSEEEEEEEEECHHHHHHHHTTGGGCBCTTTSSBSGGGEE
T ss_pred             hhhhcccccCCCEEeeeCCCCccHHHHHHHHHhccC----CCEEEEEEecccHHHHHHHHHHHHhhcccccccccccceE
Confidence            4444441 2336789999999999999999987743    3567788887653 33444433321    112110     


Q ss_pred             -----CCCCchH------HHHHHHHHHh-CCCeEEEEEeCCC
Q 010355          230 -----YEESESG------RARKLCERLK-KEKKILVILDDIW  259 (512)
Q Consensus       230 -----~~~~~~~------~~~~l~~~l~-~~k~~LlVlDdv~  259 (512)
                           ...+...      ....+.++++ .++.+||++|++.
T Consensus       287 vv~~tsd~p~~~R~~~~~~altiAEyfrd~G~dVLl~~Ds~t  328 (578)
T 3gqb_A          287 LIANTSNMPVAAREASIYVGVTIAEYFRDQGFSVALMADSTS  328 (578)
T ss_dssp             EEEEETTSCHHHHHHHHHHHHHHHHHHHHTTCEEEECCSCHH
T ss_pred             EEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEecChH
Confidence                 0011111      1223444443 4789999999984

>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=92.61  E-value=0.24  Score=44.15  Aligned_cols=49  Identities=22%  Similarity=0.251  Sum_probs=32.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHH
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIA  222 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~  222 (512)
                      ..|+|-|.-|+||||+++.++.....  .+. +++..-+........++.++
T Consensus         3 kFI~~EG~dGsGKsTq~~~L~~~L~~--~~~-v~~~~eP~~t~~g~~ir~~l   51 (205)
T 4hlc_A            3 AFITFEGPEGSGKTTVINEVYHRLVK--DYD-VIMTREPGGVPTGEEIRKIV   51 (205)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHTT--TSC-EEEEESSTTCHHHHHHHHHH
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHHHC--CCC-EEEeeCCCCChHHHHHHHHH
Confidence            46889999999999999999998752  233 33333333333444455544

>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=92.61  E-value=0.15  Score=51.54  Aligned_cols=85  Identities=16%  Similarity=0.205  Sum_probs=51.7

Q ss_pred             eEEEEEcCCCCcHHHHHH-HHHHhhhhcCCCC-eEEEEEeCCCC-CHHHHHHHHHHHhCCC-------CCCCCchH----
Q 010355          171 HMIGAYGMAGVGKTMLVK-EVARQAKADKLFD-EVVYAEVSQRP-DVKKIQGQIADKLGLK-------FYEESESG----  236 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~-~v~~~~~~~~~f~-~~~wv~~~~~~-~~~~ll~~i~~~l~~~-------~~~~~~~~----  236 (512)
                      .-++|.|.+|+|||+||. .+++...    .+ .++++-+++.. ...++++.+...-.+.       ....+...    
T Consensus       176 QR~~I~g~~g~GKT~Lal~~I~~~~~----~dv~~V~~~IGeR~~Ev~e~~~~~~~~g~m~rtvvV~atad~p~~~r~~a  251 (515)
T 2r9v_A          176 QRELIIGDRQTGKTAIAIDTIINQKG----QGVYCIYVAIGQKKSAIARIIDKLRQYGAMEYTTVVVASASDPASLQYIA  251 (515)
T ss_dssp             CBEEEEEETTSSHHHHHHHHHHTTTT----TTEEEEEEEESCCHHHHHHHHHHHHHTTGGGGEEEEEECTTSCHHHHHHH
T ss_pred             CEEEEEcCCCCCccHHHHHHHHHhhc----CCcEEEEEEcCCCcHHHHHHHHHHHhCCCcceeEEEEECCCCCHHHHHHH
Confidence            568899999999999964 6666542    44 35777777665 4556666665421111       11111111    


Q ss_pred             --HHHHHHHHHh-CCCeEEEEEeCCC
Q 010355          237 --RARKLCERLK-KEKKILVILDDIW  259 (512)
Q Consensus       237 --~~~~l~~~l~-~~k~~LlVlDdv~  259 (512)
                        ....+.+++. +++.+||++||+.
T Consensus       252 ~~~a~tiAEyfrd~G~dVLli~DslT  277 (515)
T 2r9v_A          252 PYAGCAMGEYFAYSGRDALVVYDDLS  277 (515)
T ss_dssp             HHHHHHHHHHHHTTTCEEEEEEETHH
T ss_pred             HHHHHHHHHHHHHcCCcEEEEeccHH
Confidence              1234455554 4799999999984

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=92.59  E-value=0.089  Score=51.76  Aligned_cols=108  Identities=15%  Similarity=0.144  Sum_probs=56.4

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEE-EEEeCCCCCHHHHHHHHHHH--hCCCCCCCCchHHHHHHHHH
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVV-YAEVSQRPDVKKIQGQIADK--LGLKFYEESESGRARKLCER  244 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~-wv~~~~~~~~~~ll~~i~~~--l~~~~~~~~~~~~~~~l~~~  244 (512)
                      ....+++|+|+.|+|||||++.++......  ..+.+ ++.-.-......- ..++.+  ++..     .......+...
T Consensus       134 ~~g~~i~ivG~~GsGKTTll~~l~~~~~~~--~~g~I~~~e~~~e~~~~~~-~~~v~Q~~~g~~-----~~~~~~~l~~~  205 (372)
T 2ewv_A          134 RKMGLILVTGPTGSGKSTTIASMIDYINQT--KSYHIITIEDPIEYVFKHK-KSIVNQREVGED-----TKSFADALRAA  205 (372)
T ss_dssp             SSSEEEEEECSSSSSHHHHHHHHHHHHHHH--SCCEEEEEESSCCSCCCCS-SSEEEEEEBTTT-----BSCSHHHHHHH
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhhcCcC--CCcEEEEecccHhhhhccC-ceEEEeeecCCC-----HHHHHHHHHHH
Confidence            345789999999999999999998866532  12333 3321110000000 000000  1111     11123355556


Q ss_pred             HhCCCeEEEEEeCCCChhhhhh-hCCCCCCCCeEEEEEeCCcc
Q 010355          245 LKKEKKILVILDDIWTNLDLEN-VGIPFGVRGCRVLMTARSQD  286 (512)
Q Consensus       245 l~~~k~~LlVlDdv~~~~~~~~-l~~~~~~~gs~iivTtR~~~  286 (512)
                      |.. .+-+|++|.+.+...+.. +...  ..|..||.|+....
T Consensus       206 L~~-~pd~illdE~~d~e~~~~~l~~~--~~g~~vi~t~H~~~  245 (372)
T 2ewv_A          206 LRE-DPDVIFVGEMRDLETVETALRAA--ETGHLVFGTLHTNT  245 (372)
T ss_dssp             TTS-CCSEEEESCCCSHHHHHHHHHHH--TTTCEEEECCCCCS
T ss_pred             hhh-CcCEEEECCCCCHHHHHHHHHHH--hcCCEEEEEECcch
Confidence            654 567889999976554433 2211  34556777777654

>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=92.58  E-value=0.075  Score=46.55  Aligned_cols=25  Identities=20%  Similarity=0.381  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      +...|+|+|.+|+|||||+..+...
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            4577899999999999999998764

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=92.58  E-value=0.063  Score=48.29  Aligned_cols=25  Identities=32%  Similarity=0.357  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .+|+|.|+.|+||||+++.+.....
T Consensus         4 ~~i~i~G~~gsGkst~~~~l~~~~g   28 (219)
T 2h92_A            4 INIALDGPAAAGKSTIAKRVASELS   28 (219)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcC
Confidence            4789999999999999999987653

>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=92.56  E-value=0.055  Score=46.64  Aligned_cols=23  Identities=26%  Similarity=0.372  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      --|+|+|.+|+|||||+..+...
T Consensus         8 ~ki~~vG~~~vGKTsli~~l~~~   30 (178)
T 2iwr_A            8 LRLGVLGDARSGKSSLIHRFLTG   30 (178)
T ss_dssp             EEEEEECCGGGCHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            45789999999999999999875

>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=92.56  E-value=0.037  Score=51.61  Aligned_cols=26  Identities=19%  Similarity=0.298  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      +...|+|.|..|+||||+++.++...
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            45789999999999999999987765

>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=92.56  E-value=0.071  Score=45.41  Aligned_cols=24  Identities=25%  Similarity=0.319  Sum_probs=20.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      ..-|+|+|.+|+|||||+..+...
T Consensus         7 ~~~i~v~G~~~~GKssl~~~l~~~   30 (171)
T 1upt_A            7 EMRILILGLDGAGKTTILYRLQVG   30 (171)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcC
Confidence            356889999999999999999764

>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=92.55  E-value=0.07  Score=46.95  Aligned_cols=22  Identities=32%  Similarity=0.347  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHH
Q 010355          171 HMIGAYGMAGVGKTMLVKEVAR  192 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~  192 (512)
                      --|+|+|.+|+|||||...+..
T Consensus         7 ~kv~lvG~~~vGKSsL~~~~~~   28 (192)
T 2cjw_A            7 YRVVLIGEQGVGKSTLANIFAG   28 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            4588999999999999999875

>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=92.55  E-value=0.071  Score=45.77  Aligned_cols=25  Identities=24%  Similarity=0.381  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ..-|+|+|.+|+|||||+..+....
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            4568899999999999999998754

>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=92.53  E-value=0.087  Score=45.30  Aligned_cols=25  Identities=28%  Similarity=0.462  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      ...-|+|+|.+|+|||||+..+...
T Consensus         8 ~~~~i~v~G~~~~GKssli~~l~~~   32 (181)
T 2fn4_A            8 ETHKLVVVGGGGVGKSALTIQFIQS   32 (181)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhC
Confidence            3457899999999999999999876

>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=92.52  E-value=0.18  Score=50.99  Aligned_cols=99  Identities=18%  Similarity=0.241  Sum_probs=57.2

Q ss_pred             HHHHhc-CCCceEEEEEcCCCCcHHHHH-HHHHHhhhh----cCCCC-eEEEEEeCCCC-CHHHHHHHHHHHhCCC----
Q 010355          161 VINALK-NPDVHMIGAYGMAGVGKTMLV-KEVARQAKA----DKLFD-EVVYAEVSQRP-DVKKIQGQIADKLGLK----  228 (512)
Q Consensus       161 l~~~L~-~~~~~vi~I~G~gGiGKTtLa-~~v~~~~~~----~~~f~-~~~wv~~~~~~-~~~~ll~~i~~~l~~~----  228 (512)
                      .++.|. -..-.-++|.|.+|+|||+|| ..+++....    .++.+ .++++-+++.. ...++++.+...-.+.    
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            344444 223356789999999999995 566666542    11233 46778887765 4556666665432211    


Q ss_pred             ---CCCCCchH------HHHHHHHHHh-CCCeEEEEEeCCC
Q 010355          229 ---FYEESESG------RARKLCERLK-KEKKILVILDDIW  259 (512)
Q Consensus       229 ---~~~~~~~~------~~~~l~~~l~-~~k~~LlVlDdv~  259 (512)
                         ....+...      ....+.+++. +++.+||++||+.
T Consensus       232 V~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLli~Dslt  272 (510)
T 2ck3_A          232 VSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLS  272 (510)
T ss_dssp             EEECTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEETHH
T ss_pred             EEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEcCHH
Confidence               01111111      1224445554 4799999999984

>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=92.51  E-value=0.11  Score=49.53  Aligned_cols=34  Identities=18%  Similarity=0.437  Sum_probs=26.5

Q ss_pred             HHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          158 LNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       158 l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ++.|...+..   .+++|+|+.|+|||||++.+. ...
T Consensus       156 i~~L~~~l~G---~i~~l~G~sG~GKSTLln~l~-~~~  189 (302)
T 2yv5_A          156 IDELVDYLEG---FICILAGPSGVGKSSILSRLT-GEE  189 (302)
T ss_dssp             HHHHHHHTTT---CEEEEECSTTSSHHHHHHHHH-SCC
T ss_pred             HHHHHhhccC---cEEEEECCCCCCHHHHHHHHH-Hhh
Confidence            4556665542   588999999999999999998 543

>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=92.50  E-value=0.046  Score=52.15  Aligned_cols=26  Identities=19%  Similarity=0.312  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .-.+++|+|+.|+|||||++.++...
T Consensus        79 ~Ge~vaivG~sGsGKSTLl~ll~gl~  104 (306)
T 3nh6_A           79 PGQTLALVGPSGAGKSTILRLLFRFY  104 (306)
T ss_dssp             TTCEEEEESSSCHHHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCchHHHHHHHHHcCC
Confidence            34789999999999999999987654

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=92.47  E-value=0.065  Score=46.05  Aligned_cols=24  Identities=29%  Similarity=0.242  Sum_probs=20.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      .--|+|+|.+|+|||||+..+...
T Consensus         6 ~~ki~v~G~~~~GKssl~~~l~~~   29 (178)
T 2hxs_A            6 QLKIVVLGDGASGKTSLTTCFAQE   29 (178)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHGG
T ss_pred             eEEEEEECcCCCCHHHHHHHHHhC
Confidence            345889999999999999998754

>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=92.47  E-value=0.069  Score=46.87  Aligned_cols=24  Identities=21%  Similarity=0.274  Sum_probs=20.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      ...|+|+|.+|+|||||+..+...
T Consensus        23 ~~ki~~vG~~~vGKSsli~~l~~~   46 (190)
T 1m2o_B           23 HGKLLFLGLDNAGKTTLLHMLKND   46 (190)
T ss_dssp             -CEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcC
Confidence            356889999999999999998864

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=92.46  E-value=0.079  Score=48.10  Aligned_cols=25  Identities=16%  Similarity=0.158  Sum_probs=22.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ..++|.|++|+||||+|+.++....
T Consensus         9 ~~~~~~G~pGsGKsT~a~~L~~~~g   33 (230)
T 3gmt_A            9 MRLILLGAPGAGKGTQANFIKEKFG   33 (230)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             cceeeECCCCCCHHHHHHHHHHHhC
Confidence            4689999999999999999988764

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=92.45  E-value=0.07  Score=51.99  Aligned_cols=25  Identities=32%  Similarity=0.533  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      -.+++|.|+.|+|||||.+.++--.
T Consensus        41 Ge~~~llGpnGsGKSTLLr~iaGl~   65 (355)
T 1z47_A           41 GEMVGLLGPSGSGKTTILRLIAGLE   65 (355)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCC
Confidence            3689999999999999999998654

>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=92.43  E-value=0.11  Score=52.68  Aligned_cols=86  Identities=19%  Similarity=0.262  Sum_probs=50.8

Q ss_pred             ceEEEEEcCCCCcHHHHHH-HHHHhhhhcCCCC-eEEEEEeCCCC-CHHHHHHHHHHHhCCC-------CCCCC------
Q 010355          170 VHMIGAYGMAGVGKTMLVK-EVARQAKADKLFD-EVVYAEVSQRP-DVKKIQGQIADKLGLK-------FYEES------  233 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~-~v~~~~~~~~~f~-~~~wv~~~~~~-~~~~ll~~i~~~l~~~-------~~~~~------  233 (512)
                      -.-++|.|.+|+|||+||. .+++...    .+ .++++-+++.. ...++++.+...-...       ....+      
T Consensus       163 GQR~~Ifg~~g~GKT~Lal~~I~~~~~----~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~m~rtvvV~atad~p~~~r~~  238 (507)
T 1fx0_A          163 GQRELIIGDRQTGKTAVATDTILNQQG----QNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYL  238 (507)
T ss_dssp             TCBCBEEESSSSSHHHHHHHHHHTCCT----TTCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGTTH
T ss_pred             CCEEEEecCCCCCccHHHHHHHHHhhc----CCcEEEEEEcCCCchHHHHHHHHHHhcCccccceEEEECCCCCHHHHHH
Confidence            3567899999999999964 6666542    34 45777777765 3445555554321111       00011      


Q ss_pred             chHHHHHHHHHHh-CCCeEEEEEeCCC
Q 010355          234 ESGRARKLCERLK-KEKKILVILDDIW  259 (512)
Q Consensus       234 ~~~~~~~l~~~l~-~~k~~LlVlDdv~  259 (512)
                      .......+.+++. +++.+||++||+.
T Consensus       239 a~~~a~tiAEyfrd~G~dVLli~Dslt  265 (507)
T 1fx0_A          239 APYTGAALAEYFMYRERHTLIIYDDLS  265 (507)
T ss_dssp             HHHHHHHHHHHHHHTTCEEEEEEECHH
T ss_pred             HHHHHHHHHHHHHHcCCcEEEEEecHH
Confidence            1112334445554 4799999999984

>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=92.42  E-value=0.12  Score=53.85  Aligned_cols=27  Identities=15%  Similarity=0.145  Sum_probs=24.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ...+|.|.|++|+||||+|+.+.....
T Consensus       395 ~~~~I~l~GlsGSGKSTiA~~La~~L~  421 (573)
T 1m8p_A          395 QGFTIFLTGYMNSGKDAIARALQVTLN  421 (573)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             cceEEEeecCCCCCHHHHHHHHHHHhc
Confidence            457899999999999999999998865

>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=92.42  E-value=0.074  Score=46.33  Aligned_cols=25  Identities=28%  Similarity=0.319  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ..-|+|+|.+|+|||||+..+....
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            3568899999999999999998743

>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=92.40  E-value=0.14  Score=51.20  Aligned_cols=28  Identities=18%  Similarity=0.158  Sum_probs=24.4

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ....+++|+|+.|+|||||++.++....
T Consensus       165 ~~ggii~I~GpnGSGKTTlL~allg~l~  192 (418)
T 1p9r_A          165 RPHGIILVTGPTGSGKSTTLYAGLQELN  192 (418)
T ss_dssp             SSSEEEEEECSTTSCHHHHHHHHHHHHC
T ss_pred             hcCCeEEEECCCCCCHHHHHHHHHhhcC
Confidence            4557899999999999999999988764

>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=92.39  E-value=0.076  Score=45.95  Aligned_cols=25  Identities=24%  Similarity=0.311  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .--|+|+|.+|+|||||+..+....
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            4567899999999999999998653

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=92.39  E-value=0.18  Score=45.30  Aligned_cols=26  Identities=19%  Similarity=0.215  Sum_probs=23.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ...|+|.|+.|+||||+++.++....
T Consensus         5 g~~i~~eG~~g~GKst~~~~l~~~l~   30 (216)
T 3tmk_A            5 GKLILIEGLDRTGKTTQCNILYKKLQ   30 (216)
T ss_dssp             CCEEEEEECSSSSHHHHHHHHHHHHC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            46899999999999999999999876

>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=92.38  E-value=0.16  Score=53.35  Aligned_cols=41  Identities=20%  Similarity=0.112  Sum_probs=31.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCC
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQ  210 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~  210 (512)
                      ...+++.+.|.||+||||+|..++......  -..++.|+...
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            456789999999999999999998877643  23466666553

>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=92.38  E-value=0.075  Score=46.12  Aligned_cols=24  Identities=25%  Similarity=0.378  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      --|+|+|.+|+|||||+..+....
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            357899999999999999998654

>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=92.36  E-value=0.082  Score=51.91  Aligned_cols=26  Identities=23%  Similarity=0.364  Sum_probs=23.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ...++|+|..|+|||||++.++....
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl~~  195 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAVFN  195 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTT
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHHhC
Confidence            46889999999999999999988764

>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=92.36  E-value=0.077  Score=46.47  Aligned_cols=25  Identities=36%  Similarity=0.508  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .--|+|+|.+|+|||||+..+....
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            3568899999999999999988753

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=92.34  E-value=0.084  Score=46.08  Aligned_cols=26  Identities=19%  Similarity=0.236  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ....|+|+|.+|+|||||+..+....
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            34578899999999999999988753

>4fp9_B Mterf domain-containing protein 2; modification enzyme, transferase; HET: SAM; 2.90A {Homo sapiens}

Probab=92.32  E-value=0.026  Score=54.38  Aligned_cols=14  Identities=0%  Similarity=0.209  Sum_probs=8.5

Q ss_pred             CCCHHHHHHHHHHH
Q 010355          302 VLNESEARDLFKKL  315 (512)
Q Consensus       302 ~L~~~ea~~Lf~~~  315 (512)
                      +++.++...++.+.
T Consensus       160 GfS~~ev~~mv~r~  173 (335)
T 4fp9_B          160 LFTVQQVTKILHSC  173 (335)
T ss_dssp             CCCHHHHHHHHHHC
T ss_pred             CCCHHHHHHHHHhC
Confidence            46666666666654

>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=92.30  E-value=0.085  Score=52.50  Aligned_cols=25  Identities=20%  Similarity=0.353  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      ...+++|+|+.|+|||||.+.+...
T Consensus        68 ~~~~valvG~nGaGKSTLln~L~Gl   92 (413)
T 1tq4_A           68 SVLNVAVTGETGSGKSSFINTLRGI   92 (413)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHTC
T ss_pred             CCeEEEEECCCCCcHHHHHHHHhCC
Confidence            4569999999999999999999874

>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=92.30  E-value=0.074  Score=52.26  Aligned_cols=26  Identities=23%  Similarity=0.350  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      -.+++|+|+.|+|||||.+.++--..
T Consensus        29 Ge~~~llGpsGsGKSTLLr~iaGl~~   54 (381)
T 3rlf_A           29 GEFVVFVGPSGCGKSTLLRMIAGLET   54 (381)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             CCEEEEEcCCCchHHHHHHHHHcCCC
Confidence            36899999999999999999987543

>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=92.30  E-value=0.075  Score=45.61  Aligned_cols=23  Identities=26%  Similarity=0.304  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      --|+|+|.+|+|||||+..+...
T Consensus        15 ~~i~v~G~~~~GKssli~~l~~~   37 (179)
T 2y8e_A           15 FKLVFLGEQSVGKTSLITRFMYD   37 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            45789999999999999999864

>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=92.29  E-value=0.077  Score=46.43  Aligned_cols=24  Identities=29%  Similarity=0.221  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      --|+|+|.+|+|||||++.+....
T Consensus        15 ~ki~vvG~~~~GKssL~~~l~~~~   38 (198)
T 3t1o_A           15 FKIVYYGPGLSGKTTNLKWIYSKV   38 (198)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHTS
T ss_pred             cEEEEECCCCCCHHHHHHHHHhhc
Confidence            467899999999999997666543

>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=92.28  E-value=0.075  Score=51.87  Aligned_cols=26  Identities=27%  Similarity=0.461  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .-.+++|+|+.|+|||||++.++.-.
T Consensus        53 ~Gei~~IiGpnGaGKSTLlr~i~GL~   78 (366)
T 3tui_C           53 AGQIYGVIGASGAGKSTLIRCVNLLE   78 (366)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEEcCCCchHHHHHHHHhcCC
Confidence            34689999999999999999987654

>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=92.28  E-value=0.075  Score=46.09  Aligned_cols=25  Identities=24%  Similarity=0.388  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ..-|+|+|.+|+|||||+..+....
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            3568899999999999999998653

>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=92.27  E-value=0.08  Score=45.80  Aligned_cols=23  Identities=26%  Similarity=0.209  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      --|+|+|.+|+|||||+..+...
T Consensus         6 ~~i~~~G~~~~GKssl~~~l~~~   28 (186)
T 1mh1_A            6 IKCVVVGDGAVGKTCLLISYTTN   28 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            35789999999999999998764

>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=92.26  E-value=0.076  Score=51.83  Aligned_cols=25  Identities=24%  Similarity=0.271  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      -.+++|.|+.|+|||||.+.++--.
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaGl~   53 (359)
T 2yyz_A           29 GEFVALLGPSGCGKTTTLLMLAGIY   53 (359)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEEcCCCchHHHHHHHHHCCC
Confidence            4689999999999999999998654

>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=92.23  E-value=0.082  Score=45.60  Aligned_cols=24  Identities=25%  Similarity=0.209  Sum_probs=20.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      .--|+|+|.+|+|||||+..+...
T Consensus         8 ~~ki~v~G~~~~GKssl~~~~~~~   31 (182)
T 3bwd_D            8 FIKCVTVGDGAVGKTCLLISYTSN   31 (182)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            345789999999999999998764

>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=92.23  E-value=0.063  Score=50.84  Aligned_cols=27  Identities=22%  Similarity=0.378  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .-.+++|+|+.|+|||||++.++....
T Consensus        63 ~Ge~~~i~G~NGsGKSTLlk~l~Gl~~   89 (290)
T 2bbs_A           63 RGQLLAVAGSTGAGKTSLLMMIMGELE   89 (290)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCCC
Confidence            346899999999999999999876543

>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=92.22  E-value=0.082  Score=45.55  Aligned_cols=24  Identities=25%  Similarity=0.358  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .-|+|+|.+|+|||||+..+....
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            468899999999999999998753

>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=92.20  E-value=0.061  Score=47.49  Aligned_cols=23  Identities=26%  Similarity=0.420  Sum_probs=19.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHH
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVA  191 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~  191 (512)
                      ...-|+|+|.+|+|||||+..+.
T Consensus        22 ~~~ki~vvG~~~vGKSsLi~~l~   44 (195)
T 3cbq_A           22 GIFKVMLVGESGVGKSTLAGTFG   44 (195)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHTC
T ss_pred             cEEEEEEECCCCCCHHHHHHHHH
Confidence            34578999999999999999885

>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=92.20  E-value=0.083  Score=45.71  Aligned_cols=25  Identities=28%  Similarity=0.422  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ..-|+|+|.+|+|||||+..+....
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            3568899999999999999998753

>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=92.19  E-value=0.071  Score=46.40  Aligned_cols=22  Identities=27%  Similarity=0.353  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      -|+|+|.+|+|||||+..+...
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~   24 (190)
T 2cxx_A            3 TIIFAGRSNVGKSTLIYRLTGK   24 (190)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCc
Confidence            4789999999999999998764

>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral twinning, leucine-rich repeat protein, LRR, merohedral twinning; 2.2A {Schizosaccharomyces pombe} SCOP: c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A

Probab=92.19  E-value=0.035  Score=54.88  Aligned_cols=33  Identities=18%  Similarity=0.284  Sum_probs=13.5

Q ss_pred             HHHHHHHhc-CCCceEEEEEc--CCCCcHHHHHHHH
Q 010355          158 LNDVINALK-NPDVHMIGAYG--MAGVGKTMLVKEV  190 (512)
Q Consensus       158 l~~l~~~L~-~~~~~vi~I~G--~gGiGKTtLa~~v  190 (512)
                      +..|...+. ....+.+-+.+  .++.|-..++..+
T Consensus        83 ~~~l~~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~l  118 (386)
T 2ca6_A           83 LRLLLQALLKCPKLHTVRLSDNAFGPTAQEPLIDFL  118 (386)
T ss_dssp             HHHHHHHHTTCTTCCEEECCSCCCCTTTHHHHHHHH
T ss_pred             HHHHHHHHhhCCcccEEECCCCcCCHHHHHHHHHHH
Confidence            333444433 23344444433  3344444444444

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=92.18  E-value=0.078  Score=51.83  Aligned_cols=25  Identities=24%  Similarity=0.349  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      -.+++|.|+.|+|||||.+.++--.
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaGl~   53 (362)
T 2it1_A           29 GEFMALLGPSGSGKSTLLYTIAGIY   53 (362)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCchHHHHHHHHhcCC
Confidence            4689999999999999999998654

>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=92.15  E-value=0.085  Score=45.40  Aligned_cols=25  Identities=32%  Similarity=0.365  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .--|+|+|.+|+|||||+..+....
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            3467899999999999999988754

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=92.12  E-value=0.094  Score=50.84  Aligned_cols=29  Identities=21%  Similarity=0.377  Sum_probs=24.8

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          167 NPDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       167 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      -....+++|+|++|+|||||.+.+.....
T Consensus        52 ~~~g~~v~i~G~~GaGKSTLl~~l~g~~~   80 (337)
T 2qm8_A           52 TGRAIRVGITGVPGVGKSTTIDALGSLLT   80 (337)
T ss_dssp             CCCSEEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             cCCCeEEEEECCCCCCHHHHHHHHHHhhh
Confidence            34568999999999999999999987654

>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=92.11  E-value=0.084  Score=46.19  Aligned_cols=24  Identities=25%  Similarity=0.265  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      --|+|+|.+|+|||||+..+....
T Consensus        24 ~ki~v~G~~~~GKSsli~~l~~~~   47 (191)
T 3dz8_A           24 FKLLIIGNSSVGKTSFLFRYADDT   47 (191)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             eEEEEECCCCcCHHHHHHHHhcCC
Confidence            457899999999999999998754

>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=92.10  E-value=0.08  Score=51.97  Aligned_cols=25  Identities=24%  Similarity=0.311  Sum_probs=22.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      -.+++|.|+.|+|||||.+.++--.
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaGl~   53 (372)
T 1g29_1           29 GEFMILLGPSGCGKTTTLRMIAGLE   53 (372)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCcHHHHHHHHHHcCC
Confidence            3689999999999999999998654

>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=92.10  E-value=0.082  Score=45.66  Aligned_cols=25  Identities=24%  Similarity=0.327  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ..-|+|+|.+|+|||||+..+....
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            4578899999999999999998643

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=92.09  E-value=0.34  Score=59.77  Aligned_cols=146  Identities=15%  Similarity=0.091  Sum_probs=0.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHh--------CCCCCCCCchHHHHHHHHH
Q 010355          173 IGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKL--------GLKFYEESESGRARKLCER  244 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l--------~~~~~~~~~~~~~~~l~~~  244 (512)
                      |.++|++|+|||+++..+.....    -...+.++.+...+...++..+-..+        |.-..+.            
T Consensus      1307 vLL~GptGtGKT~li~~~L~~l~----~~~~~~infS~~Tta~~l~~~~e~~~e~~~~~~~G~~~~p~------------ 1370 (3245)
T 3vkg_A         1307 LILCGPPGSGKTMTLTSTLRAFP----DFEVVSLNFSSATTPELLLKTFDHHCEYKRTPSGETVLRPT------------ 1370 (3245)
T ss_dssp             CEEESSTTSSHHHHHHHHGGGCT----TEEEEEECCCTTCCHHHHHHHHHHHEEEEECTTSCEEEEES------------
T ss_pred             EEEECCCCCCHHHHHHHHHHhCC----CCceEEEEeeCCCCHHHHHHHHhhcceEEeccCCCcccCCC------------


Q ss_pred             HhC-CCeEEEEEeCCCChh-----------------hhhhhCCCCC-----CCCeEEEEEeCCcc------hhccccCCc
Q 010355          245 LKK-EKKILVILDDIWTNL-----------------DLENVGIPFG-----VRGCRVLMTARSQD------VLSSKMDCQ  295 (512)
Q Consensus       245 l~~-~k~~LlVlDdv~~~~-----------------~~~~l~~~~~-----~~gs~iivTtR~~~------v~~~~~~~~  295 (512)
                        . +|++++++||+....                 +...+..+..     ..+..+|.|.....      +..+.....
T Consensus      1371 --~~Gk~~VlFiDDiNmp~~D~yGtQ~~ielLrqlld~~g~yd~~~~~~~~i~d~~~vaamnPp~~gGr~~l~~Rf~r~F 1448 (3245)
T 3vkg_A         1371 --QLGKWLVVFCDEINLPSTDKYGTQRVITFIRQMVEKGGFWRTSDHTWIKLDKIQFVGACNPPTDAGRVQLTHRFLRHA 1448 (3245)
T ss_dssp             --STTCEEEEEETTTTCCCCCTTSCCHHHHHHHHHHHHSEEEETTTTEEEEESSEEEEEEECCTTSTTCCCCCHHHHTTC
T ss_pred             --cCCceEEEEecccCCCCccccccccHHHHHHHHHHcCCeEECCCCeEEEecCeEEEEEcCCCCCCCCccCCHHHHhhc


Q ss_pred             cceecCCCCHHHHHHHHHHHhC-CCCCCchhHHHHHHHHHHc
Q 010355          296 NNFLIGVLNESEARDLFKKLVG-DKIENNDLKSLAMNIVKAC  336 (512)
Q Consensus       296 ~~~~l~~L~~~ea~~Lf~~~~~-~~~~~~~~~~~~~~I~~~~  336 (512)
                      .++.+...+.+.-..+|..... -....+.+...+..|+..+
T Consensus      1449 ~vi~i~~ps~esL~~If~til~~~l~~~p~l~~~~~~lv~at 1490 (3245)
T 3vkg_A         1449 PILLVDFPSTSSLTQIYGTFNRALMKLLPNLRSFADNLTDAM 1490 (3245)
T ss_dssp             CEEECCCCCHHHHHHHHHHHHHHHTTSCGGGTTSHHHHHHHH
T ss_pred             eEEEeCCCCHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHH

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=92.06  E-value=0.078  Score=45.60  Aligned_cols=24  Identities=29%  Similarity=0.401  Sum_probs=20.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      ..-|+|+|.+|+|||||+..+...
T Consensus         9 ~~~i~v~G~~~~GKssl~~~l~~~   32 (181)
T 3tw8_B            9 LFKLLIIGDSGVGKSSLLLRFADN   32 (181)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHCSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcC
Confidence            456889999999999999998654

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=92.05  E-value=0.082  Score=51.87  Aligned_cols=25  Identities=24%  Similarity=0.331  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      -.+++|.|+.|+|||||.+.++--.
T Consensus        37 Ge~~~llGpnGsGKSTLLr~iaGl~   61 (372)
T 1v43_A           37 GEFLVLLGPSGCGKTTTLRMIAGLE   61 (372)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCChHHHHHHHHHcCC
Confidence            4689999999999999999998654

>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=92.05  E-value=0.087  Score=46.55  Aligned_cols=26  Identities=27%  Similarity=0.402  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ...-|+|+|.+|+|||||+..+....
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            34578899999999999999988653

>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=92.05  E-value=0.15  Score=49.41  Aligned_cols=29  Identities=17%  Similarity=0.295  Sum_probs=24.9

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          167 NPDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       167 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .....+|+|+|.+|+|||||+..++....
T Consensus        53 ~~~~~~i~i~G~~g~GKSTl~~~l~~~~~   81 (341)
T 2p67_A           53 CGNTLRLGVTGTPGAGKSTFLEAFGMLLI   81 (341)
T ss_dssp             CSCSEEEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             cCCCEEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            45678999999999999999999987654

>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=92.00  E-value=0.09  Score=45.90  Aligned_cols=24  Identities=25%  Similarity=0.285  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      --|+|+|.+|+|||||+..+....
T Consensus        23 ~ki~v~G~~~~GKSsli~~l~~~~   46 (188)
T 1zd9_A           23 MELTLVGLQYSGKTTFVNVIASGQ   46 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             cEEEEECCCCCCHHHHHHHHHcCC
Confidence            468899999999999999998653

>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=92.00  E-value=0.11  Score=45.65  Aligned_cols=25  Identities=32%  Similarity=0.484  Sum_probs=21.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      ..--|+|+|.+|+|||||+..+...
T Consensus        27 ~~~ki~v~G~~~vGKSsli~~l~~~   51 (196)
T 2atv_A           27 AEVKLAIFGRAGVGKSALVVRFLTK   51 (196)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhC
Confidence            4456889999999999999999875

>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=91.98  E-value=0.088  Score=46.58  Aligned_cols=26  Identities=27%  Similarity=0.354  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ...-|+|+|.+|+|||||+..+....
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            34568899999999999999998754

>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=91.97  E-value=0.085  Score=46.86  Aligned_cols=25  Identities=40%  Similarity=0.505  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ..-|+|+|.+|+|||||+..+....
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            4568899999999999999988653

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=91.97  E-value=0.17  Score=52.46  Aligned_cols=44  Identities=14%  Similarity=0.150  Sum_probs=31.0

Q ss_pred             cchHHHHHHHHHhc--CCCceEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          153 SRMSTLNDVINALK--NPDVHMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       153 gR~~~l~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      .|.+....+.....  .....+|.|.|++|+||||+|+.+......
T Consensus       353 ~r~eV~~~lr~~~~~~~~~~~~I~l~G~~GsGKSTia~~La~~L~~  398 (546)
T 2gks_A          353 TRPEVAEILAETYVPKHKQGFCVWLTGLPCAGKSTIAEILATMLQA  398 (546)
T ss_dssp             SCHHHHHHHHHHSCCGGGCCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             cchhHHHHHHHhhccccccceEEEccCCCCCCHHHHHHHHHHHhhh
Confidence            44444444444442  234578999999999999999999887653

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=91.96  E-value=0.089  Score=46.19  Aligned_cols=25  Identities=20%  Similarity=0.279  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .--|+|+|.+|+|||||+..+....
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            3468899999999999999998763

>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=91.95  E-value=0.07  Score=51.89  Aligned_cols=25  Identities=24%  Similarity=0.317  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      -.+++|.|+.|+|||||.+.++--.
T Consensus        26 Ge~~~llGpnGsGKSTLLr~iaGl~   50 (348)
T 3d31_A           26 GEYFVILGPTGAGKTLFLELIAGFH   50 (348)
T ss_dssp             TCEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCccHHHHHHHHHcCC
Confidence            3689999999999999999998654

>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=91.94  E-value=0.085  Score=46.98  Aligned_cols=26  Identities=27%  Similarity=0.243  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ...-|+|+|.+|+|||||+..+....
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            34568899999999999999998753

>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=91.94  E-value=0.075  Score=46.71  Aligned_cols=26  Identities=19%  Similarity=0.231  Sum_probs=21.5

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHHH
Q 010355          167 NPDVHMIGAYGMAGVGKTMLVKEVAR  192 (512)
Q Consensus       167 ~~~~~vi~I~G~gGiGKTtLa~~v~~  192 (512)
                      .....-|+|+|.+|+|||||+..+..
T Consensus        26 ~~~~~ki~v~G~~~vGKSsLi~~l~~   51 (192)
T 2b6h_A           26 GKKQMRILMVGLDAAGKTTILYKLKL   51 (192)
T ss_dssp             TTSCEEEEEEESTTSSHHHHHHHHCS
T ss_pred             cCCccEEEEECCCCCCHHHHHHHHHh
Confidence            34456689999999999999998864

>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=91.91  E-value=0.091  Score=46.89  Aligned_cols=25  Identities=20%  Similarity=0.266  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ...|+|+|.+|+|||||+..+....
T Consensus         7 ~~ki~vvG~~~~GKTsli~~l~~~~   31 (214)
T 2fh5_B            7 QRAVLFVGLCDSGKTLLFVRLLTGQ   31 (214)
T ss_dssp             -CEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4578899999999999999998754

>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=91.90  E-value=0.093  Score=45.99  Aligned_cols=25  Identities=28%  Similarity=0.301  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .--|+|+|.+|+|||||+..+....
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            3568899999999999999998754

>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=91.88  E-value=0.093  Score=47.30  Aligned_cols=22  Identities=27%  Similarity=0.320  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      -|+|+|.+|+|||+|+..+...
T Consensus        15 KivlvGd~~VGKTsLi~r~~~~   36 (216)
T 4dkx_A           15 KLVFLGEQSVGKTSLITRFMYD   36 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCcCHHHHHHHHHhC
Confidence            3778999999999999998764

>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=91.88  E-value=0.095  Score=45.85  Aligned_cols=24  Identities=25%  Similarity=0.322  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      --|+|+|.+|+|||||+..+....
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            457899999999999999988643

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=91.88  E-value=0.088  Score=46.53  Aligned_cols=26  Identities=23%  Similarity=0.270  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ...-|+|+|.+|+|||||+..+....
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            34678999999999999999998754

>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=91.86  E-value=0.088  Score=47.27  Aligned_cols=23  Identities=30%  Similarity=0.316  Sum_probs=19.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVAR  192 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~  192 (512)
                      ..-|+|+|.+|+|||||+..+..
T Consensus        37 ~~kVvlvG~~~vGKSSLl~r~~~   59 (211)
T 2g3y_A           37 YYRVVLIGEQGVGKSTLANIFAG   59 (211)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHh
Confidence            35688999999999999999873

>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=91.86  E-value=0.095  Score=45.71  Aligned_cols=25  Identities=24%  Similarity=0.278  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ..-|+|+|.+|+|||||+..+....
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            3568899999999999999998754

>3geh_A MNME, tRNA modification GTPase MNME; G protein, U34, GTP-binding, HYDR magnesium, metal-binding, nucleotide-binding, potassium, TR processing; HET: GDP FON; 3.20A {Nostoc SP}

Probab=91.85  E-value=1.6  Score=44.09  Aligned_cols=88  Identities=13%  Similarity=0.175  Sum_probs=56.8

Q ss_pred             chHHHHHHHHHHHHHHHHHHHHhcccccccccCCCChhHhhhHHHHHHHHHHHHHHHHHHcCCCcccccccCCCcccccc
Q 010355           65 IEQRVENWLITADEILDAAARIIEGTEDTTNRLCPNLNTRYQVSKKAAREVKAAAELLQQEGRFDKVSYRTVPEDVWLTS  144 (512)
Q Consensus        65 ~~~~~~~wl~~vr~~~~d~ed~ld~~~~~~~~~~~~~~~~~~~~~~i~~~~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~  144 (512)
                      .+..+..|..++.++.-.+|-.+|--. . .    ....+..+..++..+..++..+....                   
T Consensus       161 ~~~~~~~~r~~l~~~~a~iEa~iDf~e-d-~----~~~~~~~~~~~i~~l~~~l~~~~~~~-------------------  215 (462)
T 3geh_A          161 LAHPIRQLRANCLDILAEIEARIDFEE-D-L----PPLDDEAIISDIENIAAEISQLLATK-------------------  215 (462)
T ss_dssp             THHHHHHHHHHHHHHHHHHHHHTTSSS-S-S----CCCCTTTHHHHHHHHHHHHHHHTTTH-------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhccccc-c-C----ChhhHHHHHHHHHHHHHHHHHHHHHh-------------------
Confidence            467899999999999989998887432 1 1    11123345666777777776652111                   


Q ss_pred             ccCccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                              .    ..++.   . .+. .|+|+|.+|+|||||...+....
T Consensus       216 --------~----~~~~~---r-~~~-kV~ivG~~nvGKSSLln~L~~~~  248 (462)
T 3geh_A          216 --------D----KGELL---R-TGL-KVAIVGRPNVGKSSLLNAWSQSD  248 (462)
T ss_dssp             --------H----HHHHH---H-HCE-EEEEEECTTSSHHHHHHHHHHHH
T ss_pred             --------h----hhhhh---c-CCC-EEEEEcCCCCCHHHHHHHHhCCC
Confidence                    0    00111   1 133 38899999999999999998753

>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=91.84  E-value=0.11  Score=53.02  Aligned_cols=27  Identities=26%  Similarity=0.346  Sum_probs=23.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ...+|.++|++|+||||+++.++....
T Consensus        38 ~~~~IvlvGlpGsGKSTia~~La~~l~   64 (469)
T 1bif_A           38 CPTLIVMVGLPARGKTYISKKLTRYLN   64 (469)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            446889999999999999999998765

>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=91.80  E-value=0.091  Score=46.05  Aligned_cols=25  Identities=24%  Similarity=0.327  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .--|+|+|.+|+|||||+..+....
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            3468899999999999999998754

>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=91.79  E-value=0.11  Score=45.14  Aligned_cols=27  Identities=19%  Similarity=0.272  Sum_probs=22.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ....-|+|+|.+|+|||||+..+....
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            445678999999999999999987654

>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=91.76  E-value=0.098  Score=45.62  Aligned_cols=24  Identities=29%  Similarity=0.303  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      ..-|+|+|.+|+|||||+..+...
T Consensus        20 ~~ki~v~G~~~~GKSsli~~l~~~   43 (189)
T 1z06_A           20 IFKIIVIGDSNVGKTCLTYRFCAG   43 (189)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcC
Confidence            456899999999999999998864

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=91.73  E-value=0.1  Score=45.72  Aligned_cols=25  Identities=28%  Similarity=0.397  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ..-|+|+|.+|+|||||+..+....
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            3568999999999999999998754

>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=91.67  E-value=0.12  Score=50.64  Aligned_cols=41  Identities=20%  Similarity=0.297  Sum_probs=30.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCH
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDV  214 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  214 (512)
                      +++.+.|.||+||||+|..++......  -..++-|+. ...++
T Consensus         3 ~i~~~~gkGG~GKTt~a~~la~~la~~--g~~vllvd~-~~~~l   43 (374)
T 3igf_A            3 LILTFLGKSGVARTKIAIAAAKLLASQ--GKRVLLAGL-AEPVL   43 (374)
T ss_dssp             EEEEEECSBHHHHHHHHHHHHHHHHHT--TCCEEEEEC-SCSHH
T ss_pred             EEEEEeCCCCCcHHHHHHHHHHHHHHC--CCCeEEEeC-CCCCh
Confidence            678899999999999999998877643  335666776 44433

>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=91.64  E-value=0.096  Score=45.96  Aligned_cols=24  Identities=29%  Similarity=0.447  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      ..-|+|+|.+|+|||||+..+...
T Consensus         8 ~~ki~vvG~~~~GKSsli~~l~~~   31 (199)
T 2gf0_A            8 DYRVVVFGAGGVGKSSLVLRFVKG   31 (199)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCcHHHHHHHHHcC
Confidence            456889999999999999999874

>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=91.63  E-value=0.1  Score=45.98  Aligned_cols=25  Identities=24%  Similarity=0.303  Sum_probs=21.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      ...-|+|+|.+|+|||||+..+...
T Consensus        27 ~~~ki~v~G~~~~GKSsli~~l~~~   51 (199)
T 2p5s_A           27 KAYKIVLAGDAAVGKSSFLMRLCKN   51 (199)
T ss_dssp             -CEEEEEESSTTSSHHHHHHHHHHC
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHhC
Confidence            4467899999999999999998764

>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=91.60  E-value=0.066  Score=52.18  Aligned_cols=25  Identities=28%  Similarity=0.429  Sum_probs=22.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      -.+++|+|+.|+|||||.+.++--.
T Consensus        31 Ge~~~llGpnGsGKSTLLr~iaGl~   55 (353)
T 1oxx_K           31 GERFGILGPSGAGKTTFMRIIAGLD   55 (353)
T ss_dssp             TCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCC
Confidence            4689999999999999999998654

>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=91.59  E-value=0.28  Score=51.87  Aligned_cols=62  Identities=16%  Similarity=0.153  Sum_probs=40.3

Q ss_pred             HHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHH
Q 010355          157 TLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIAD  223 (512)
Q Consensus       157 ~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~  223 (512)
                      ....+...+.   .+++.|+|++|+|||+++..+.......  -...+.++...+.....+...+..
T Consensus       185 Q~~av~~~l~---~~~~li~GppGTGKT~~~~~~i~~l~~~--~~~~ilv~a~tn~A~~~l~~~l~~  246 (624)
T 2gk6_A          185 QVYAVKTVLQ---RPLSLIQGPPGTGKTVTSATIVYHLARQ--GNGPVLVCAPSNIAVDQLTEKIHQ  246 (624)
T ss_dssp             HHHHHHHHHT---CSEEEEECCTTSCHHHHHHHHHHHHHTS--SSCCEEEEESSHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhc---CCCeEEECCCCCCHHHHHHHHHHHHHHc--CCCeEEEEeCcHHHHHHHHHHHHh
Confidence            3444444443   2578899999999999888877665421  234566777766666666666543

>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=91.59  E-value=0.11  Score=45.47  Aligned_cols=24  Identities=29%  Similarity=0.368  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .-|+|+|.+|+|||||+..+....
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            468899999999999999998753

>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=91.56  E-value=0.069  Score=47.53  Aligned_cols=26  Identities=15%  Similarity=0.182  Sum_probs=21.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      .....|+|+|.+|+|||||.+.+...
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            34567999999999999999887643

>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=91.52  E-value=0.1  Score=46.10  Aligned_cols=24  Identities=29%  Similarity=0.289  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .-|+|+|.+|+|||||+..+....
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            468899999999999999987653

>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=91.42  E-value=0.1  Score=46.16  Aligned_cols=25  Identities=24%  Similarity=0.390  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ..-|+|+|.+|+|||||+..+....
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            3468899999999999999988753

>3ch4_B Pmkase, phosphomevalonate kinase; parallel beta-sheet with the strand order 23145, walker A motif, cholesterol biosynthesis, lipid synthesis; 1.76A {Homo sapiens}

Probab=91.42  E-value=0.16  Score=44.97  Aligned_cols=51  Identities=16%  Similarity=0.153  Sum_probs=33.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHH-HHHHhCCCC
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQ-IADKLGLKF  229 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~-i~~~l~~~~  229 (512)
                      ...+|+|+|++|+||+|+|..+.....    +..+.-      .++.+.++. .+...|+..
T Consensus        10 ~~~II~itGk~~SGKd~va~~l~~~~g----~~~~~v------v~msD~iK~~~a~~~gl~~   61 (202)
T 3ch4_B           10 PRLVLLFSGKRKSGKDFVTEALQSRLG----ADVCAV------LRLSGPLKEQYAQEHGLNF   61 (202)
T ss_dssp             CSEEEEEEECTTSSHHHHHHHHHHHHC----TTTEEE------ECTHHHHHHHHHHTTTCCC
T ss_pred             CCEEEEEECCCCCChHHHHHHHHHHcC----CCCceE------EEccHHHHHHHHHHcCCCc
Confidence            457999999999999999999876543    111111      245566663 555666543

>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=91.41  E-value=0.13  Score=54.02  Aligned_cols=27  Identities=19%  Similarity=0.204  Sum_probs=24.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ...+|.|.|++|+||||+|+.+.....
T Consensus        51 ~g~lIvLtGlsGSGKSTlAr~La~~L~   77 (630)
T 1x6v_B           51 RGCTVWLTGLSGAGKTTVSMALEEYLV   77 (630)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            457899999999999999999998764

>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=91.41  E-value=0.1  Score=51.59  Aligned_cols=25  Identities=28%  Similarity=0.450  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      .-.+++|+|+.|+|||||.+.++.-
T Consensus        46 ~Ge~~~llGpsGsGKSTLLr~iaGl   70 (390)
T 3gd7_A           46 PGQRVGLLGRTGSGKSTLLSAFLRL   70 (390)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCChHHHHHHHHhCC
Confidence            3468999999999999999998864

>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=91.40  E-value=0.11  Score=49.35  Aligned_cols=25  Identities=28%  Similarity=0.399  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      ....|+|+|.+|+|||||...+...
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            3568999999999999999999864

>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=91.39  E-value=0.16  Score=48.24  Aligned_cols=34  Identities=24%  Similarity=0.456  Sum_probs=26.6

Q ss_pred             HHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          158 LNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       158 l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ++++..++..   .+++|+|++|+|||||.+.+....
T Consensus       160 v~~lf~~l~g---eiv~l~G~sG~GKSTll~~l~g~~  193 (301)
T 1u0l_A          160 IEELKEYLKG---KISTMAGLSGVGKSSLLNAINPGL  193 (301)
T ss_dssp             HHHHHHHHSS---SEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             HHHHHHHhcC---CeEEEECCCCCcHHHHHHHhcccc
Confidence            4556666543   588999999999999999987544

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=91.31  E-value=0.12  Score=45.20  Aligned_cols=25  Identities=20%  Similarity=0.328  Sum_probs=21.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      ...-|+|+|.+|+|||||+..+...
T Consensus        16 ~~~ki~v~G~~~~GKSsl~~~l~~~   40 (199)
T 4bas_A           16 TKLQVVMCGLDNSGKTTIINQVKPA   40 (199)
T ss_dssp             CEEEEEEECCTTSCHHHHHHHHSCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcC
Confidence            4567899999999999999998754

>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=91.31  E-value=0.12  Score=46.75  Aligned_cols=25  Identities=28%  Similarity=0.344  Sum_probs=21.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      ....|+|+|.+|+|||||+..+...
T Consensus        28 ~~~kI~vvG~~~vGKSsLin~l~~~   52 (228)
T 2qu8_A           28 HKKTIILSGAPNVGKSSFMNIVSRA   52 (228)
T ss_dssp             TSEEEEEECSTTSSHHHHHHHHTTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4567899999999999999998764

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=91.28  E-value=0.11  Score=45.74  Aligned_cols=24  Identities=29%  Similarity=0.160  Sum_probs=20.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      .--|+|+|.+|+|||||+..+...
T Consensus        20 ~~ki~~~G~~~~GKssl~~~l~~~   43 (201)
T 2q3h_A           20 GVKCVLVGDGAVGKTSLVVSYTTN   43 (201)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHC-
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            356789999999999999988754

>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=91.27  E-value=0.13  Score=46.98  Aligned_cols=25  Identities=20%  Similarity=0.211  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      ....|+|+|.+|+|||||+..+...
T Consensus        28 ~~~~i~lvG~~g~GKStlin~l~g~   52 (239)
T 3lxx_A           28 SQLRIVLVGKTGAGKSATGNSILGR   52 (239)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CceEEEEECCCCCCHHHHHHHHcCC
Confidence            4567899999999999999998864

>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=91.27  E-value=0.088  Score=50.18  Aligned_cols=21  Identities=24%  Similarity=0.444  Sum_probs=18.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 010355          172 MIGAYGMAGVGKTMLVKEVAR  192 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~  192 (512)
                      -|+|+|.+|+|||||.+.++.
T Consensus        20 ~I~lvG~nG~GKSTLl~~L~g   40 (301)
T 2qnr_A           20 TLMVVGESGLGKSTLINSLFL   40 (301)
T ss_dssp             EEEEEEETTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            348999999999999999764

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=91.21  E-value=0.09  Score=51.54  Aligned_cols=34  Identities=26%  Similarity=0.347  Sum_probs=26.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEE
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAE  207 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~  207 (512)
                      .+++|+|+.|+|||||++.++.....   -.+.+.+.
T Consensus       176 ~~i~ivG~sGsGKSTll~~l~~~~~~---~~g~I~ie  209 (361)
T 2gza_A          176 RVIVVAGETGSGKTTLMKALMQEIPF---DQRLITIE  209 (361)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHTTSCT---TSCEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcCCC---CceEEEEC
Confidence            57999999999999999999876542   23455554

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=91.20  E-value=0.33  Score=44.23  Aligned_cols=42  Identities=14%  Similarity=0.130  Sum_probs=29.6

Q ss_pred             CceEEEEE-cCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCC
Q 010355          169 DVHMIGAY-GMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQR  211 (512)
Q Consensus       169 ~~~vi~I~-G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~  211 (512)
                      ..++|+|+ +.||+||||+|..++...... .-..++.|++...
T Consensus         3 ~~~vI~v~s~kGGvGKTt~a~~LA~~la~~-~g~~VlliD~D~~   45 (245)
T 3ea0_A            3 AKRVFGFVSAKGGDGGSCIAANFAFALSQE-PDIHVLAVDISLP   45 (245)
T ss_dssp             CCEEEEEEESSTTSSHHHHHHHHHHHHTTS-TTCCEEEEECCTT
T ss_pred             CCeEEEEECCCCCcchHHHHHHHHHHHHhC-cCCCEEEEECCCC
Confidence            34677776 679999999999999887642 1235666766533

>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=91.18  E-value=0.11  Score=46.07  Aligned_cols=24  Identities=21%  Similarity=0.256  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      ..-|+|+|.+|+|||||+..+...
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~~~   48 (207)
T 2fv8_A           25 RKKLVVVGDGACGKTCLLIVFSKD   48 (207)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             CcEEEEECcCCCCHHHHHHHHhcC
Confidence            356889999999999999998864

>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=91.18  E-value=0.11  Score=45.94  Aligned_cols=24  Identities=25%  Similarity=0.409  Sum_probs=20.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      .--|+|+|.+|+|||||+..+...
T Consensus        25 ~~ki~v~G~~~~GKSsLi~~l~~~   48 (200)
T 2o52_A           25 LFKFLVIGSAGTGKSCLLHQFIEN   48 (200)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHC-
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhC
Confidence            456889999999999999998743

>3ez2_A Plasmid partition protein A; type IA, DNA binding, winged-HTH, DNA bindin; HET: ADP EPE; 2.05A {Escherichia coli} PDB: 3ez6_A* 3ez7_A

Probab=91.15  E-value=0.47  Score=46.98  Aligned_cols=44  Identities=16%  Similarity=0.107  Sum_probs=30.9

Q ss_pred             CceEEEEE-cCCCCcHHHHHHHHHHhhhhc----CCCCeEEEEEeCCCC
Q 010355          169 DVHMIGAY-GMAGVGKTMLVKEVARQAKAD----KLFDEVVYAEVSQRP  212 (512)
Q Consensus       169 ~~~vi~I~-G~gGiGKTtLa~~v~~~~~~~----~~f~~~~wv~~~~~~  212 (512)
                      ..++|+|+ |-||+||||+|..++......    ..-..++-|++....
T Consensus       107 ~~~vIav~s~KGGvGKTT~a~nLA~~La~~~~~~~~g~rVlliD~D~q~  155 (398)
T 3ez2_A          107 EAYVIFISNLKGGVSKTVSTVSLAHAMRAHPHLLMEDLRILVIDLDPQS  155 (398)
T ss_dssp             SCEEEEECCSSSSSSHHHHHHHHHHHHHHCTTTGGGCCCEEEEEECTTC
T ss_pred             CCeEEEEEeCCCCccHHHHHHHHHHHHHhcchhhcCCCeEEEEeCCCCC
Confidence            45777776 889999999999998876531    112356777776543

>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=91.15  E-value=0.12  Score=45.86  Aligned_cols=25  Identities=28%  Similarity=0.385  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ..-|+|+|.+|+|||||+..+....
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            3568899999999999999988643

>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=91.12  E-value=0.12  Score=45.29  Aligned_cols=23  Identities=30%  Similarity=0.260  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      .-|+|+|.+|+|||||+..+...
T Consensus        19 ~ki~v~G~~~~GKssli~~l~~~   41 (194)
T 2atx_A           19 LKCVVVGDGAVGKTCLLMSYAND   41 (194)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            46889999999999999999875

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=91.11  E-value=0.16  Score=42.78  Aligned_cols=25  Identities=20%  Similarity=0.206  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .++.+|+|+.|+|||||..+++.-.
T Consensus        23 ~g~~~I~G~NGsGKStil~Ai~~~l   47 (149)
T 1f2t_A           23 EGINLIIGQNGSGKSSLLDAILVGL   47 (149)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH
Confidence            3688999999999999999887643

>3bfv_A CAPA1, CAPB2, membrane protein CAPA1, protein tyrosine kinase; chimerical protein, P-loop protein, capsule biogenesis/degradation; HET: ADP; 1.80A {Staphylococcus aureus} PDB: 2ved_A*

Probab=91.09  E-value=0.37  Score=44.95  Aligned_cols=53  Identities=11%  Similarity=0.132  Sum_probs=36.3

Q ss_pred             HHHHHHHHHhc----CCCceEEEEEcC-CCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCC
Q 010355          156 STLNDVINALK----NPDVHMIGAYGM-AGVGKTMLVKEVARQAKADKLFDEVVYAEVSQ  210 (512)
Q Consensus       156 ~~l~~l~~~L~----~~~~~vi~I~G~-gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~  210 (512)
                      +.+..|...|.    ....++|+|+|. ||+||||+|..++......  -..++.|++..
T Consensus        64 Ea~r~lrt~l~~~~~~~~~kvI~vts~kgG~GKTt~a~nLA~~lA~~--G~rVLLID~D~  121 (271)
T 3bfv_A           64 EKFRGIRSNIMFANPDSAVQSIVITSEAPGAGKSTIAANLAVAYAQA--GYKTLIVDGDM  121 (271)
T ss_dssp             HHHHHHHHHHHHSSTTCCCCEEEEECSSTTSSHHHHHHHHHHHHHHT--TCCEEEEECCS
T ss_pred             HHHHHHHHHHHhhccCCCCeEEEEECCCCCCcHHHHHHHHHHHHHhC--CCeEEEEeCCC
Confidence            34444444333    345689999875 8999999999999887642  34567777653

>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; 2.79A {Clostridium symbiosum atcc 14940}

Probab=91.08  E-value=0.16  Score=46.00  Aligned_cols=46  Identities=17%  Similarity=0.195  Sum_probs=32.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCC
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLK  228 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~  228 (512)
                      ...+|+|.|+.|+||||+|+.++......       ++      + .+++..++...|+.
T Consensus        13 ~~~iI~i~g~~gsGk~~i~~~la~~lg~~-------~~------d-~~~~~~~a~~~g~~   58 (223)
T 3hdt_A           13 KNLIITIEREYGSGGRIVGKKLAEELGIH-------FY------D-DDILKLASEKSAVG   58 (223)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHHHTCE-------EE------C-HHHHHHHHHCC---
T ss_pred             CCeEEEEeCCCCCCHHHHHHHHHHHcCCc-------EE------c-HHHHHHHHHHcCCC
Confidence            34799999999999999999999887521       12      2 45666666666654

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=91.08  E-value=0.12  Score=50.21  Aligned_cols=27  Identities=30%  Similarity=0.423  Sum_probs=23.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .-.+++|+|..|+|||||.+.++....
T Consensus        70 ~Gq~~gIiG~nGaGKTTLl~~I~g~~~   96 (347)
T 2obl_A           70 IGQRIGIFAGSGVGKSTLLGMICNGAS   96 (347)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHHSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            346899999999999999999998865

>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=91.07  E-value=0.11  Score=45.62  Aligned_cols=24  Identities=25%  Similarity=0.227  Sum_probs=20.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      ..-|+|+|.+|+|||||++.+.+.
T Consensus        20 ~~ki~~vG~~~vGKTsLi~~l~~~   43 (196)
T 3llu_A           20 KPRILLMGLRRSGKSSIQKVVFHK   43 (196)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhc
Confidence            356889999999999999876654

>1wcv_1 SOJ, segregation protein; ATPase, bacterial, chromosome segregation; 1.6A {Thermus thermophilus} PDB: 2bej_A* 2bek_A*

Probab=91.07  E-value=0.16  Score=46.90  Aligned_cols=41  Identities=22%  Similarity=0.199  Sum_probs=30.7

Q ss_pred             CceEEEEE-cCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCC
Q 010355          169 DVHMIGAY-GMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQR  211 (512)
Q Consensus       169 ~~~vi~I~-G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~  211 (512)
                      ..++|+|+ +.||+||||+|..++......  -..++-|++...
T Consensus         5 ~~~vI~v~s~kGGvGKTt~a~~LA~~la~~--g~~VlliD~D~~   46 (257)
T 1wcv_1            5 KVRRIALANQKGGVGKTTTAINLAAYLARL--GKRVLLVDLDPQ   46 (257)
T ss_dssp             CCCEEEECCSSCCHHHHHHHHHHHHHHHHT--TCCEEEEECCTT
T ss_pred             CCEEEEEEeCCCCchHHHHHHHHHHHHHHC--CCCEEEEECCCC
Confidence            45788887 789999999999999887643  235666766543

>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=91.07  E-value=0.13  Score=46.16  Aligned_cols=24  Identities=21%  Similarity=0.297  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      --|+|+|.+|+|||||+..+....
T Consensus        28 ~ki~vvG~~~vGKSsL~~~l~~~~   51 (214)
T 3q3j_B           28 CKLVLVGDVQCGKTAMLQVLAKDC   51 (214)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECcCCCCHHHHHHHHhcCC
Confidence            467899999999999999988753

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=91.05  E-value=0.12  Score=45.74  Aligned_cols=24  Identities=29%  Similarity=0.339  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      ..-|+|+|.+|+|||||+..+...
T Consensus        29 ~~ki~vvG~~~vGKSsli~~l~~~   52 (201)
T 2hup_A           29 LFKLVLVGDASVGKTCVVQRFKTG   52 (201)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHhhC
Confidence            456889999999999999998764

>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=91.05  E-value=0.13  Score=48.03  Aligned_cols=24  Identities=21%  Similarity=0.374  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      ...|+|+|.+|+|||||...+...
T Consensus         3 ~~~i~lvG~~g~GKTTL~n~l~g~   26 (271)
T 3k53_A            3 LKTVALVGNPNVGKTTIFNALTGL   26 (271)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHTT
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCC
Confidence            357899999999999999998764

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=91.04  E-value=0.12  Score=50.25  Aligned_cols=24  Identities=25%  Similarity=0.325  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .+++|+|++|+|||||++.+....
T Consensus       216 ~~~~lvG~sG~GKSTLln~L~g~~  239 (358)
T 2rcn_A          216 RISIFAGQSGVGKSSLLNALLGLQ  239 (358)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHCCS
T ss_pred             CEEEEECCCCccHHHHHHHHhccc
Confidence            588999999999999999887543

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=91.04  E-value=0.12  Score=46.01  Aligned_cols=25  Identities=20%  Similarity=0.137  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .--|+|+|.+|+|||||+..+....
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            3468899999999999999988653

>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=91.00  E-value=0.61  Score=43.16  Aligned_cols=46  Identities=15%  Similarity=0.224  Sum_probs=33.1

Q ss_pred             CCceEEEE-EcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHH
Q 010355          168 PDVHMIGA-YGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKK  216 (512)
Q Consensus       168 ~~~~vi~I-~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~  216 (512)
                      ...++|+| .|-||+||||+|..++.... +.  ..++-|++....+...
T Consensus        25 ~~~~vI~v~s~kGGvGKTT~a~~LA~~la-~g--~~VlliD~D~~~~~~~   71 (267)
T 3k9g_A           25 KKPKIITIASIKGGVGKSTSAIILATLLS-KN--NKVLLIDMDTQASITS   71 (267)
T ss_dssp             -CCEEEEECCSSSSSCHHHHHHHHHHHHT-TT--SCEEEEEECTTCHHHH
T ss_pred             CCCeEEEEEeCCCCchHHHHHHHHHHHHH-CC--CCEEEEECCCCCCHHH
Confidence            35677777 57899999999999998887 42  4577777766544433

>3cio_A ETK, tyrosine-protein kinase ETK; WZC, escherichia coli tyrosine kinase domain, signaling protein, transferase, inner membrane, membrane; 2.50A {Escherichia coli}

Probab=91.00  E-value=0.47  Score=44.98  Aligned_cols=42  Identities=14%  Similarity=0.254  Sum_probs=31.8

Q ss_pred             CCCceEEEEEcC-CCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCC
Q 010355          167 NPDVHMIGAYGM-AGVGKTMLVKEVARQAKADKLFDEVVYAEVSQ  210 (512)
Q Consensus       167 ~~~~~vi~I~G~-gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~  210 (512)
                      ....++|+|+|. ||+||||+|..++......  -..++.|++..
T Consensus       101 ~~~~kvI~vts~kgG~GKTtva~nLA~~lA~~--G~rVLLID~D~  143 (299)
T 3cio_A          101 ETENNILMITGATPDSGKTFVSSTLAAVIAQS--DQKVLFIDADL  143 (299)
T ss_dssp             SCSCCEEEEEESSSSSCHHHHHHHHHHHHHHT--TCCEEEEECCT
T ss_pred             CCCCeEEEEECCCCCCChHHHHHHHHHHHHhC--CCcEEEEECCC
Confidence            445689999885 8999999999999887643  34567777654

>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=90.97  E-value=0.11  Score=45.25  Aligned_cols=34  Identities=26%  Similarity=0.239  Sum_probs=24.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCC
Q 010355          173 IGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRP  212 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~  212 (512)
                      +.|+|.+|+|||++|.+++.. .     ..++++.-...+
T Consensus         2 ilV~Gg~~SGKS~~A~~la~~-~-----~~~~yiaT~~~~   35 (180)
T 1c9k_A            2 ILVTGGARSGKSRHAEALIGD-A-----PQVLYIATSQIL   35 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS-C-----SSEEEEECCCC-
T ss_pred             EEEECCCCCcHHHHHHHHHhc-C-----CCeEEEecCCCC
Confidence            689999999999999998754 2     235566554433

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ...

Probab=90.96  E-value=0.12  Score=45.56  Aligned_cols=24  Identities=21%  Similarity=0.268  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .-|+|+|.+|+|||||+..+....
T Consensus        26 ~ki~vvG~~~~GKSsli~~l~~~~   49 (201)
T 2gco_A           26 KKLVIVGDGACGKTCLLIVFSKDQ   49 (201)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCc
Confidence            468899999999999999988753

>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=90.95  E-value=0.12  Score=46.36  Aligned_cols=24  Identities=29%  Similarity=0.257  Sum_probs=20.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      .--|+|+|.+|+|||||+..+...
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            456889999999999999998753

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=90.92  E-value=0.074  Score=46.04  Aligned_cols=21  Identities=29%  Similarity=0.411  Sum_probs=0.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~  193 (512)
                      |+|+|.+|+|||||+..+...
T Consensus        11 i~v~G~~~~GKssl~~~l~~~   31 (183)
T 2fu5_C           11 LLLIGDSGVGKTCVLFRFSED   31 (183)
T ss_dssp             EEEECCCCC------------
T ss_pred             EEEECCCCCCHHHHHHHHHhC

---

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	512
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	2e-35

>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 =  131 bits (330), Expect = 2e-35
 Identities = 39/259 (15%), Positives = 79/259 (30%), Gaps = 26/259 (10%)

Query: 154 RMSTLNDVINALKN---PDVHMIGAYGMAGVGKTMLVKEVARQAK--ADKLFDEVVYAEV 208
           R   ++ VI  L      D   +  +G AG GK+++  +   ++       +D +V+ + 
Sbjct: 25  REYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKD 84

Query: 209 SQRPDVKKIQGQIADKLGLKFYEESESGR----------ARKLCERLKKEKKILVILDDI 258
           S               L LK  ++  +             R +C  L      L + DD+
Sbjct: 85  SGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDV 144

Query: 259 WTNLDLENVGIPFGVRGCRVLMTARSQDVLSSKMDCQNNFLIGVLNESEARDLFKKLVGD 318
                 E           R L+T R  ++ ++         +  L   E  D  +     
Sbjct: 145 VQ----EETIRWAQELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMP 200

Query: 319 KIENNDLKSLAMNIVKACRGLPIAIVTIARALRNKNTFEWKSALRELTRPSSGSFSGVAA 378
                  + +    ++   G P  ++   ++   K   +      +L          +  
Sbjct: 201 MPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRGLVGVECI-- 258

Query: 379 EAYKTSELSYNHLEGALKT 397
                +  SY  L  AL+ 
Sbjct: 259 -----TPYSYKSLAMALQR 272

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	512
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	100.0
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	99.38
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.03
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	99.02
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	99.0
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	99.0
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	98.9
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	98.87
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	98.84
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	98.84
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.77
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.72
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	98.69
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.69
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	98.66
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	98.63
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	98.63
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	98.59
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.57
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.54
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.3
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	98.29
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	98.29
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	97.6
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	97.29
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.23
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.2
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.19
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	97.16
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.15
d2qy9a2	211	GTPase domain of the signal recognition particle r	97.13
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	97.13
d1okkd2	207	GTPase domain of the signal recognition particle r	97.13
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.13
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.04
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.04
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.04
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.0
d1ls1a2	207	GTPase domain of the signal sequence recognition p	96.98
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	96.98
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	96.95
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.94
d1vmaa2	213	GTPase domain of the signal recognition particle r	96.93
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	96.92
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	96.91
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.9
d1j8yf2	211	GTPase domain of the signal sequence recognition p	96.87
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.86
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	96.82
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	96.8
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	96.75
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	96.73
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	96.73
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.7
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	96.69
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	96.62
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	96.61
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.6
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.56
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.55
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.54
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	96.49
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.47
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.47
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	96.45
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	96.45
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	96.43
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	96.43
d1xpua3	289	Transcription termination factor Rho, ATPase domai	96.39
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	96.36
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	96.31
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	96.25
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.24
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.09
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.05
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	96.05
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.02
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	95.99
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	95.98
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	95.97
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	95.94
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	95.92
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	95.89
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	95.87
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	95.87
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	95.86
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	95.84
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	95.77
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	95.64
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	95.62
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	95.58
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	95.56
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	95.51
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	95.51
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	95.24
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	95.24
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	95.19
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	95.13
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	95.13
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	95.1
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	95.08
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	95.07
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	94.98
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	94.97
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	94.96
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	94.91
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	94.82
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	94.82
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	94.74
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	94.73
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	94.63
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	94.62
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	94.61
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	94.61
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	94.42
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.41
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.4
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	94.4
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	94.4
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	94.38
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	94.28
d1g2912	240	Maltose transport protein MalK, N-terminal domain	94.28
d2awna2	232	Maltose transport protein MalK, N-terminal domain	94.27
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	94.2
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	94.14
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	94.14
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	94.12
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	94.12
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	94.12
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	94.09
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	94.03
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	94.01
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	94.0
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	93.98
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	93.93
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	93.91
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	93.9
d1nrjb_	209	Signal recognition particle receptor beta-subunit	93.9
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	93.83
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	93.82
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	93.8
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	93.8
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	93.76
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	93.74
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	93.74
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	93.74
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	93.73
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	93.73
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	93.7
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	93.68
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	93.65
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	93.63
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	93.58
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	93.57
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	93.55
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	93.55
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	93.55
d2fh5b1	207	Signal recognition particle receptor beta-subunit	93.48
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	93.47
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	93.46
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	93.42
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	93.4
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	93.37
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	93.37
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	93.34
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	93.33
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	93.3
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	93.29
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	93.28
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	93.23
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	93.23
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	93.21
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	93.18
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	93.17
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	93.17
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	93.17
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	93.15
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	93.14
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	93.06
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	93.02
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	93.01
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	92.98
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	92.97
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	92.97
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	92.96
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	92.93
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	92.85
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	92.84
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	92.78
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	92.78
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	92.77
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	92.76
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	92.67
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	92.64
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	92.61
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	92.6
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	92.58
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	92.5
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	92.47
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	92.44
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	92.4
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	92.37
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	92.34
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	92.21
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	92.2
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	92.13
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	92.13
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	92.12
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	92.12
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	92.06
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	92.06
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	92.01
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	91.91
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	91.9
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	91.59
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	91.47
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	91.46
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	91.11
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	90.97
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	90.88
d1tuea_	205	Replication protein E1 helicase domain {Human papi	90.65
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	90.52
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	90.39
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	90.0
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	89.8
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	89.73
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	89.21
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	89.0
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	88.47
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	88.27
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	87.99
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	87.96
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	87.8
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	86.22
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	86.19
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	85.59
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	85.25
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	85.19
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	83.68
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	82.55
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	82.55
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	82.09
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	81.29
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	81.23
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	81.21
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	81.07

>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=3.3e-42  Score=329.30  Aligned_cols=243  Identities=14%  Similarity=0.127  Sum_probs=192.6

Q ss_pred             CccccccchHHHHHHHHHhc---CCCceEEEEEcCCCCcHHHHHHHHHHhhh--hcCCCCeEEEEEeCCCCCHHHHHHHH
Q 010355          147 GYEAFESRMSTLNDVINALK---NPDVHMIGAYGMAGVGKTMLVKEVARQAK--ADKLFDEVVYAEVSQRPDVKKIQGQI  221 (512)
Q Consensus       147 ~~~~~~gR~~~l~~l~~~L~---~~~~~vi~I~G~gGiGKTtLa~~v~~~~~--~~~~f~~~~wv~~~~~~~~~~ll~~i  221 (512)
                      ..+.++||+.++++|+++|.   +...++|+|+||||+||||||+++|+...  ...+|++++|+++++.++...+...+
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            34457799999999999986   45678999999999999999999998754  45679999999999998877776665


Q ss_pred             HHH---hCCCCCC------C-CchHHHHHHHHHHhCCCeEEEEEeCCCChhhhhhhCCCCCCCCeEEEEEeCCcchhccc
Q 010355          222 ADK---LGLKFYE------E-SESGRARKLCERLKKEKKILVILDDIWTNLDLENVGIPFGVRGCRVLMTARSQDVLSSK  291 (512)
Q Consensus       222 ~~~---l~~~~~~------~-~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~~~~l~~~~~~~gs~iivTtR~~~v~~~~  291 (512)
                      ...   ++.....      . ........+......++|+||||||||+..+|..+.    ..||+||||||+..++...
T Consensus        98 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~~~~~~~~----~~~srilvTTR~~~v~~~~  173 (277)
T d2a5yb3          98 DILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQ----ELRLRCLVTTRDVEISNAA  173 (277)
T ss_dssp             HHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHHHHHH----HTTCEEEEEESBGGGGGGC
T ss_pred             HHHHHHhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEecchhhHHhhhhhhc----ccCceEEEEeehHHHHHhc
Confidence            433   3321111      1 111222223333344689999999999999888763    2479999999999987544


Q ss_pred             cCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHHHHhccCCHHHHHHHHHHhcCCCCC
Q 010355          292 MDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIARALRNKNTFEWKSALRELTRPSSG  371 (512)
Q Consensus       292 ~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~~L~~~~~~~w~~~l~~l~~~~~~  371 (512)
                      ......|+|++|+.++|++||.++++.....+..++++++|+++|+|+||||+++|+.|+.++.+.|.+..+.|..... 
T Consensus       174 ~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~iv~~c~GlPLAl~~ig~~l~~k~~~~~~~~~~~L~~~~~-  252 (277)
T d2a5yb3         174 SQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRGL-  252 (277)
T ss_dssp             CSCEEEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSSHHHHHHHHHHHHHHCS-
T ss_pred             CCCCceEECCCCCHHHHHHHHHHHhCCccCchhhHHHHHHHHHHhCCCHHHHHHHHHHhccCCHHHHHHHHHHHhcCcH-
Confidence            4455789999999999999999998866666667889999999999999999999999999999999999998865332 


Q ss_pred             CCCcchHHHHhHHHHHHhccchhhhhccc
Q 010355          372 SFSGVAAEAYKTSELSYNHLEGALKTARL  400 (512)
Q Consensus       372 ~~~~~~~~~~~~l~~sy~~L~~~~k~cfl  400 (512)
                            ..+..+|.+||++||+++|+||.
T Consensus       253 ------~~v~~il~~sY~~L~~~lk~c~~  275 (277)
T d2a5yb3         253 ------VGVECITPYSYKSLAMALQRCVE  275 (277)
T ss_dssp             ------STTCCCSSSSSSSHHHHHHHHHH
T ss_pred             ------HHHHHHHHHHHhcccHHHHHHHH
Confidence                  34688999999999999999984

>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=99.38  E-value=4.4e-13  Score=126.11  Aligned_cols=194  Identities=10%  Similarity=0.139  Sum_probs=113.4

Q ss_pred             cCccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeC-----CCCCHHHHHHH
Q 010355          146 KGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVS-----QRPDVKKIQGQ  220 (512)
Q Consensus       146 ~~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~-----~~~~~~~ll~~  220 (512)
                      .....|+||++++++|.+.    ..+++.|+|++|+|||+|++++++....     ...|+.+.     .......+...
T Consensus         9 ~~~~~f~GR~~el~~l~~~----~~~~i~i~G~~G~GKTsLl~~~~~~~~~-----~~~~i~~~~~~~~~~~~~~~~~~~   79 (283)
T d2fnaa2           9 DNRKDFFDREKEIEKLKGL----RAPITLVLGLRRTGKSSIIKIGINELNL-----PYIYLDLRKFEERNYISYKDFLLE   79 (283)
T ss_dssp             CSGGGSCCCHHHHHHHHHT----CSSEEEEEESTTSSHHHHHHHHHHHHTC-----CEEEEEGGGGTTCSCCCHHHHHHH
T ss_pred             CChhhCCChHHHHHHHHhc----cCCEEEEEcCCCCcHHHHHHHHHHHCCC-----CeEEEEeccccccccccHHHHHHH
Confidence            4568899999999998764    3478999999999999999999887642     23455442     12234444444


Q ss_pred             HHHHhC--------------CCC------------CCCCchHHHHHHHHHHh--CCCeEEEEEeCCCChhh------hhh
Q 010355          221 IADKLG--------------LKF------------YEESESGRARKLCERLK--KEKKILVILDDIWTNLD------LEN  266 (512)
Q Consensus       221 i~~~l~--------------~~~------------~~~~~~~~~~~l~~~l~--~~k~~LlVlDdv~~~~~------~~~  266 (512)
                      +.....              ...            ........+..+.+.+.  .++++++|+|++.....      +..
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~i~id~~~~~~~~~~~~~~~~  159 (283)
T d2fnaa2          80 LQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVKLRGVNLLPA  159 (283)
T ss_dssp             HHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGGCTTCCCHHH
T ss_pred             HHHHhhhhhhhhHHHHHHHHhhhcccccccccccccchhhhhHHHHHHHHHHhhcccccccccchhhhhcccchHHHHHH
Confidence            433221              000            00000111222333332  36889999999843211      111


Q ss_pred             hCCC-CCCCCeEEEEEeCCcchh----cc-------ccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHH
Q 010355          267 VGIP-FGVRGCRVLMTARSQDVL----SS-------KMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVK  334 (512)
Q Consensus       267 l~~~-~~~~gs~iivTtR~~~v~----~~-------~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~  334 (512)
                      +... ........+++++.....    ..       .......+.|.+|+.+++.+++.+.+.......+   ...+|++
T Consensus       160 l~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~~~l~~~~~~~~~~~~---~~~~i~~  236 (283)
T d2fnaa2         160 LAYAYDNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFK---DYEVVYE  236 (283)
T ss_dssp             HHHHHHHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCCC---CHHHHHH
T ss_pred             HHHHHHhhhhhhhhhccccchHHHHHHHhhhhcchhcccceeEEeeCCCCHHHHHHHHHhhhhhcCCCHH---HHHHHHH
Confidence            1000 012345566665543221    00       0012356889999999999999876632111111   2468999


Q ss_pred             HcCCChhHHHHHHHHhc
Q 010355          335 ACRGLPIAIVTIARALR  351 (512)
Q Consensus       335 ~~~GlPLai~~ia~~L~  351 (512)
                      .++|+|..+..++..+.
T Consensus       237 ~~~G~P~~L~~~~~~~~  253 (283)
T d2fnaa2         237 KIGGIPGWLTYFGFIYL  253 (283)
T ss_dssp             HHCSCHHHHHHHHHHHH
T ss_pred             HhCCCHHHHHHHHHHHH
Confidence            99999999999987665

>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=99.03  E-value=2.7e-09  Score=97.92  Aligned_cols=155  Identities=19%  Similarity=0.222  Sum_probs=102.7

Q ss_pred             cccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCC----CCeEEE-EEeCCCCCHHHHHHHHHH
Q 010355          149 EAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKL----FDEVVY-AEVSQRPDVKKIQGQIAD  223 (512)
Q Consensus       149 ~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~----f~~~~w-v~~~~~~~~~~ll~~i~~  223 (512)
                      .+++||++++++|+..|.......+.++|++|+|||+|+..+++.......    ....+| ++++.-          + 
T Consensus        18 d~~igRd~Ei~~l~~iL~r~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~l----------i-   86 (268)
T d1r6bx2          18 DPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSL----------L-   86 (268)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC--------------
T ss_pred             CcccChHHHHHHHHHHHhcCccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechH----------h-
Confidence            457899999999999999776677889999999999999999987654321    123444 332211          0 


Q ss_pred             HhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCCh----------hhhhhhCCC-CCCCCeEEEEEeCCcchhc---
Q 010355          224 KLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTN----------LDLENVGIP-FGVRGCRVLMTARSQDVLS---  289 (512)
Q Consensus       224 ~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~----------~~~~~l~~~-~~~~gs~iivTtR~~~v~~---  289 (512)
                        ........-...+..+...+...++++|++|++...          .....+..| +.....++|.||.......   
T Consensus        87 --ag~~~~g~~e~r~~~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~rg~i~vIgatT~eey~~~~e  164 (268)
T d1r6bx2          87 --AGTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSGKIRVIGSTTYQEFSNIFE  164 (268)
T ss_dssp             --CCCCCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSSCCCEEEEEECHHHHHCCCC
T ss_pred             --ccCccchhHHHHHHHHHHHhhccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHhCCCCeEEEeCCHHHHHHHHh
Confidence              011112223344555666666667899999998654          123333333 3355678898888765431   


Q ss_pred             ---cccCCccceecCCCCHHHHHHHHHHHh
Q 010355          290 ---SKMDCQNNFLIGVLNESEARDLFKKLV  316 (512)
Q Consensus       290 ---~~~~~~~~~~l~~L~~~ea~~Lf~~~~  316 (512)
                         ........+.+.+++.+++..++....
T Consensus       165 ~d~al~rrF~~I~V~Eps~e~t~~IL~~~~  194 (268)
T d1r6bx2         165 KDRALARRFQKIDITEPSIEETVQIINGLK  194 (268)
T ss_dssp             CTTSSGGGEEEEECCCCCHHHHHHHHHHHH
T ss_pred             hcHHHHhhhcccccCCCCHHHHHHHHHHhh
Confidence               122345789999999999999997654

>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=99.02  E-value=9.4e-10  Score=99.55  Aligned_cols=185  Identities=14%  Similarity=0.130  Sum_probs=115.6

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADK  224 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~  224 (512)
                      |.....++|.+..++.|..|+.+...+.+.++|++|+||||+|+.+++.......-..++-++.+...+...+...+...
T Consensus        11 P~~~~d~ig~~~~~~~L~~~~~~~~~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~~~~~~~~~i~~~~~~~   90 (224)
T d1sxjb2          11 PQVLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGIDVVRNQIKHF   90 (224)
T ss_dssp             CSSGGGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSHHHHHTHHHHH
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHcCCCCeEEEECCCCCCchhhHHHHHHHHhccccccccccccccccCCceehhhHHHHH
Confidence            55677899999999999999998887778899999999999999999876532111224445555444443333322211


Q ss_pred             hCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChhh--hhhhC--CCCCCCCeEEEEEeCCcc-hhccccCCcccee
Q 010355          225 LGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNLD--LENVG--IPFGVRGCRVLMTARSQD-VLSSKMDCQNNFL  299 (512)
Q Consensus       225 l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~--~~~l~--~~~~~~gs~iivTtR~~~-v~~~~~~~~~~~~  299 (512)
                      ......              ....+.-++|+|++.....  ...+.  .......+++++||.... +..........+.
T Consensus        91 ~~~~~~--------------~~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~sr~~~i~  156 (224)
T d1sxjb2          91 AQKKLH--------------LPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILR  156 (224)
T ss_dssp             HHBCCC--------------CCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEE
T ss_pred             HHhhcc--------------CCCcceEEEEEecccccchhHHHHHhhhccccccceeeeeccCchhhhhhHHHHHHHHhh
Confidence            110000              0123567889999864421  12211  111145567777776543 2222234556899


Q ss_pred             cCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHH
Q 010355          300 IGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIV  344 (512)
Q Consensus       300 l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~  344 (512)
                      +.+++.++...++.+.+......- -.+....|++.|+|.+.-+.
T Consensus       157 ~~~~~~~~i~~~l~~i~~~e~~~i-~~~~l~~I~~~s~Gd~R~ai  200 (224)
T d1sxjb2         157 YSKLSDEDVLKRLLQIIKLEDVKY-TNDGLEAIIFTAEGDMRQAI  200 (224)
T ss_dssp             CCCCCHHHHHHHHHHHHHHHTCCB-CHHHHHHHHHHHTTCHHHHH
T ss_pred             hcccchhhhHHHHHHHHHhcccCC-CHHHHHHHHHHcCCcHHHHH
Confidence            999999999999988774211111 13567899999999876443

>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=99.00  E-value=2.3e-08  Score=92.69  Aligned_cols=167  Identities=17%  Similarity=0.208  Sum_probs=109.1

Q ss_pred             cccccchHHHHHHHHHhc------CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHH
Q 010355          149 EAFESRMSTLNDVINALK------NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIA  222 (512)
Q Consensus       149 ~~~~gR~~~l~~l~~~L~------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~  222 (512)
                      ..++||+.+++.|.++|.      ....+.+.|+|++|+|||++|+.+++...... ....+|+..........++..+.
T Consensus        16 ~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~~   94 (276)
T d1fnna2          16 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKT-TARFVYINGFIYRNFTAIIGEIA   94 (276)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSC-CCEEEEEETTTCCSHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHHhccc-CCcEEEecchhhhhhhhhhhhhH
Confidence            358999999999998885      23457899999999999999999999886432 23456777788888889999998


Q ss_pred             HHhCCCCCCC--CchHHHHHHHHHHh-CCCeEEEEEeCCCChhh-----hhhhCCCCC---CCCeEEEEEeCCcchhcc-
Q 010355          223 DKLGLKFYEE--SESGRARKLCERLK-KEKKILVILDDIWTNLD-----LENVGIPFG---VRGCRVLMTARSQDVLSS-  290 (512)
Q Consensus       223 ~~l~~~~~~~--~~~~~~~~l~~~l~-~~k~~LlVlDdv~~~~~-----~~~l~~~~~---~~gs~iivTtR~~~v~~~-  290 (512)
                      ..++......  ........+...+. .....++++|.++....     ...+.....   .....+|.++........ 
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~  174 (276)
T d1fnna2          95 RSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNNL  174 (276)
T ss_dssp             HHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHHHTS
T ss_pred             HhhhhhhhhhccchhHHHHHHHHHHhhcccccccchhHHHHhhhhhhhhHHHHHhccccccccceEEeecCCchhhhhhc
Confidence            8887654332  23333444444443 34567788888764321     111211111   333455566655332110 


Q ss_pred             -----ccCCccceecCCCCHHHHHHHHHHHh
Q 010355          291 -----KMDCQNNFLIGVLNESEARDLFKKLV  316 (512)
Q Consensus       291 -----~~~~~~~~~l~~L~~~ea~~Lf~~~~  316 (512)
                           .......+.+.+++.++.++++.+++
T Consensus       175 ~~~~~~r~~~~~i~~~~~~~~e~~~il~~r~  205 (276)
T d1fnna2         175 DPSTRGIMGKYVIRFSPYTKDQIFDILLDRA  205 (276)
T ss_dssp             CHHHHHHHTTCEEECCCCBHHHHHHHHHHHH
T ss_pred             chhhhhhhcchhccccchhHHHHHHHHHHHH
Confidence                 01122457899999999999998765

>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=99.00  E-value=2e-09  Score=97.46  Aligned_cols=180  Identities=13%  Similarity=0.124  Sum_probs=110.5

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADK  224 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~  224 (512)
                      |.....++|.++.++.|..|+.....+.+.++|++|+||||+|+.+++..........++-++.+...+.......+...
T Consensus        10 P~~~~divg~~~~~~~L~~~i~~~~~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~   89 (227)
T d1sxjc2          10 PETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGIDVVRNQIKDF   89 (227)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSHHHHHTHHHHH
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEecccccCCeeeeecchhhc
Confidence            45567899999999999999998777778899999999999999999876532222223333333333332222111111


Q ss_pred             hCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh--hhhhhC--CCCCCCCeEEEEEeCCcch-hccccCCcccee
Q 010355          225 LGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL--DLENVG--IPFGVRGCRVLMTARSQDV-LSSKMDCQNNFL  299 (512)
Q Consensus       225 l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~--~~~~l~--~~~~~~gs~iivTtR~~~v-~~~~~~~~~~~~  299 (512)
                      ...               ..+..+++-+||+|++....  ....+.  +......++++++|....- ..........+.
T Consensus        90 ~~~---------------~~~~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr~~~i~  154 (227)
T d1sxjc2          90 AST---------------RQIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFR  154 (227)
T ss_dssp             HHB---------------CCSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEE
T ss_pred             ccc---------------ccccCCCeEEEEEeccccchhhHHHHHHHHhhhcccceeeccccCcHHHhHHHHHHHHhhhc
Confidence            000               00112345688899986442  111111  1111456778888776432 222234456889


Q ss_pred             cCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCCh
Q 010355          300 IGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLP  340 (512)
Q Consensus       300 l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlP  340 (512)
                      +.+++.++...++.+.+......-. .+....|++.|+|-.
T Consensus       155 ~~~~~~~~i~~~l~~I~~~e~i~i~-~~~l~~i~~~s~Gd~  194 (227)
T d1sxjc2         155 FQPLPQEAIERRIANVLVHEKLKLS-PNAEKALIELSNGDM  194 (227)
T ss_dssp             CCCCCHHHHHHHHHHHHHTTTCCBC-HHHHHHHHHHHTTCH
T ss_pred             cccccccccccccccccccccccCC-HHHHHHHHHHcCCcH
Confidence            9999999999999887743322111 356788999999864

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=98.90  E-value=2.6e-09  Score=97.08  Aligned_cols=180  Identities=10%  Similarity=0.084  Sum_probs=108.1

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCC-eEEEEEeCCCCCHHHHHHHHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFD-EVVYAEVSQRPDVKKIQGQIAD  223 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~-~~~wv~~~~~~~~~~ll~~i~~  223 (512)
                      |.....++|.+..++.|..|+.....+.+.|+|++|+||||+|+.+++..... .+. ..+-++.+...+...+...+..
T Consensus        20 P~~~~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtla~~iak~l~~~-~~~~~~~e~n~s~~~~~~~~~~~~~~   98 (231)
T d1iqpa2          20 PQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGE-NWRHNFLELNASDERGINVIREKVKE   98 (231)
T ss_dssp             CCSTTTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHHGG-GHHHHEEEEETTCHHHHHTTHHHHHH
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCcHHHHHHHHHHHHHhc-ccCCCeeEEecCcccchhHHHHHHHH
Confidence            45567899999999999999998888889999999999999999999876421 111 2233333322111111111110


Q ss_pred             HhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCCh--hhhhhhCCC--CCCCCeEEEEEeCCcc-hhccccCCccce
Q 010355          224 KLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTN--LDLENVGIP--FGVRGCRVLMTARSQD-VLSSKMDCQNNF  298 (512)
Q Consensus       224 ~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~l~~~--~~~~gs~iivTtR~~~-v~~~~~~~~~~~  298 (512)
                      ....               ......++.+|++|++...  .....+...  .....+.+|+||.... +..........+
T Consensus        99 ~~~~---------------~~~~~~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~sR~~~i  163 (231)
T d1iqpa2          99 FART---------------KPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIF  163 (231)
T ss_dssp             HHHS---------------CCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEEE
T ss_pred             HHhh---------------hhccCCCceEEeehhhhhcchhHHHHHhhhcccCCcceEEEeccCChhhchHhHhCccccc
Confidence            0000               0011246788999998643  222222111  1133456666665443 222223344689


Q ss_pred             ecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChh
Q 010355          299 LIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPI  341 (512)
Q Consensus       299 ~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPL  341 (512)
                      .+.+.+..+....+.+.+...... -..+....|++.|+|-+.
T Consensus       164 ~~~~~~~~~~~~~l~~~~~~e~i~-i~~~~l~~I~~~~~gdiR  205 (231)
T d1iqpa2         164 RFRPLRDEDIAKRLRYIAENEGLE-LTEEGLQAILYIAEGDMR  205 (231)
T ss_dssp             ECCCCCHHHHHHHHHHHHHTTTCE-ECHHHHHHHHHHHTTCHH
T ss_pred             cccccchhhHHHHHHHHHHHhCCC-CCHHHHHHHHHHcCCCHH
Confidence            999999999999998887533221 123567889999998654

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=98.87  E-value=4.7e-08  Score=88.98  Aligned_cols=184  Identities=13%  Similarity=0.179  Sum_probs=112.3

Q ss_pred             ccCccccccchHHHHHHHHHhcCCC-ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCC-------------------eEE
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPD-VHMIGAYGMAGVGKTMLVKEVARQAKADKLFD-------------------EVV  204 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~-------------------~~~  204 (512)
                      |.....++|.+..++.|..++...+ .+.+.|+|++|+||||+|+.+++.........                   .++
T Consensus         8 P~~~~dlig~~~~~~~L~~~i~~~~~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~   87 (239)
T d1njfa_           8 PQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLI   87 (239)
T ss_dssp             CSSGGGSCSCHHHHHHHHHHHHTTCCCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHHTCCTTEE
T ss_pred             CCCHHHccChHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcCccccccCccccchHHHHHHcCCCCeEE
Confidence            4456688999999999999998665 45688999999999999999988754221111                   123


Q ss_pred             EEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh--hhhhhC--CCCCCCCeEEEE
Q 010355          205 YAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL--DLENVG--IPFGVRGCRVLM  280 (512)
Q Consensus       205 wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~--~~~~l~--~~~~~~gs~iiv  280 (512)
                      .+..+....... .+.++..+....                ..+++.++|||++....  ....+.  +-.+..++++|+
T Consensus        88 ~~~~~~~~~i~~-ir~~~~~~~~~~----------------~~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il  150 (239)
T d1njfa_          88 EIDAASRTKVED-TRDLLDNVQYAP----------------ARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLL  150 (239)
T ss_dssp             EEETTCSSSHHH-HHHHHHSCCCSC----------------SSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEE
T ss_pred             EecchhcCCHHH-HHHHHHHHHhcc----------------ccCCCEEEEEECcccCCHHHHHHHHHHHhcCCCCeEEEE
Confidence            333333222222 222332222110                02456789999997541  222221  111245678888


Q ss_pred             EeCCcchh-ccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChh-HHHHH
Q 010355          281 TARSQDVL-SSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPI-AIVTI  346 (512)
Q Consensus       281 TtR~~~v~-~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPL-ai~~i  346 (512)
                      ||.+..-. .........+.+.+++.++....+...+......- -.+.+..|++.++|.|- ||..+
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            87765432 22234457899999999999998887764211111 13567889999999886 45443

>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=98.84  E-value=3.9e-09  Score=97.05  Aligned_cols=192  Identities=13%  Similarity=0.085  Sum_probs=100.6

Q ss_pred             ccCccccccchHHHHHHHHHhcCC-CceEEEEEcCCCCcHHHHHHHHHHhhhhcC----CCCeEEEEEeCCC--------
Q 010355          145 IKGYEAFESRMSTLNDVINALKNP-DVHMIGAYGMAGVGKTMLVKEVARQAKADK----LFDEVVYAEVSQR--------  211 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~-~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~----~f~~~~wv~~~~~--------  211 (512)
                      |.....++|++...+.|..++... ..+.+.|+|++|+||||+|+.+++......    .+....|...+..        
T Consensus         7 P~~~~diig~~~~~~~L~~~~~~~~~~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (252)
T d1sxje2           7 PKSLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVVS   86 (252)
T ss_dssp             CCSGGGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCEE
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHhhcCccccccccccccccccccchhhhhhcc
Confidence            445677999999888888887643 455688999999999999999998752111    1111111111100        


Q ss_pred             -------------CCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCCh--hhhhhhC--CCCCCC
Q 010355          212 -------------PDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTN--LDLENVG--IPFGVR  274 (512)
Q Consensus       212 -------------~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~l~--~~~~~~  274 (512)
                                   .....................     ...-. ....++.-++|||++...  .....+.  +.....
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~-~~~~~~~~iiiide~d~l~~~~~~~l~~~~e~~~~  160 (252)
T d1sxje2          87 SPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVD-----FQDSK-DGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSK  160 (252)
T ss_dssp             CSSEEEECCC----CCHHHHHHHHHHHTTTTC------------------CCEEEEEECTTSSCHHHHHHHHHHHHHSTT
T ss_pred             CCccceeeecccccCCcceeeehhhhhhhhhhhh-----hhhcc-cccCCCceEEEeccccccccccchhhhcccccccc
Confidence                         011111111111111000000     00000 011134568899998754  2222221  111145


Q ss_pred             CeEEEEEeCCcchh-ccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhH
Q 010355          275 GCRVLMTARSQDVL-SSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIA  342 (512)
Q Consensus       275 gs~iivTtR~~~v~-~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLa  342 (512)
                      .+++|+||...... .........+++.+++.++..+++.+.+......-...++...|++.+.|.+..
T Consensus       161 ~~~~Il~tn~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~i~~~e~~~~~~~~~l~~i~~~s~Gd~R~  229 (252)
T d1sxje2         161 NIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLETKDILKRIAQASNGNLRV  229 (252)
T ss_dssp             TEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCEECCSHHHHHHHHHHTTCHHH
T ss_pred             cccceeeeccccchhhhhhcchheeeecccchhhHHHHHHHHHHHcCCCCCcHHHHHHHHHHcCCcHHH
Confidence            67778877665321 111223357899999999999999876632111111124667899999998754

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.84  E-value=6.6e-09  Score=94.56  Aligned_cols=191  Identities=13%  Similarity=0.122  Sum_probs=113.8

Q ss_pred             ccCccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcC-CCCeEEEEEeCCCCCHHHHHHHHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADK-LFDEVVYAEVSQRPDVKKIQGQIAD  223 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~-~f~~~~wv~~~~~~~~~~ll~~i~~  223 (512)
                      |.....++|++..++.|..|+.....+.+.|+|++|+||||+|+.+++...... .......+..+.......+...+-.
T Consensus         8 P~~~~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (237)
T d1sxjd2           8 PKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKVKN   87 (237)
T ss_dssp             CSSTTTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTTHHHH
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheeccccccchHHHHHHHH
Confidence            455667899999999999999987777899999999999999999998753211 1233444555555454433333322


Q ss_pred             HhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCCh--hhhhhhC--CCCCCCCeEEEEEeCCcc-hhccccCCccce
Q 010355          224 KLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTN--LDLENVG--IPFGVRGCRVLMTARSQD-VLSSKMDCQNNF  298 (512)
Q Consensus       224 ~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~l~--~~~~~~gs~iivTtR~~~-v~~~~~~~~~~~  298 (512)
                      ...........     .........+.-+||+|++...  .....+.  .......+++|+|+.... ...........+
T Consensus        88 ~~~~~~~~~~~-----~~~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~l~sr~~~i  162 (237)
T d1sxjd2          88 FARLTVSKPSK-----HDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKF  162 (237)
T ss_dssp             HHHSCCCCCCT-----THHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSEEE
T ss_pred             HhhhhhhhhhH-----HHHhhccccCceEEEEecccccCHHHHHHHhhccccccccccccccccccccccccccchhhhh
Confidence            11111111110     1111122234457899998643  2222211  111145567777766543 222122334678


Q ss_pred             ecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChh
Q 010355          299 LIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPI  341 (512)
Q Consensus       299 ~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPL  341 (512)
                      .+.+++.++...++.+.+......- -.+....|++.++|-+.
T Consensus       163 ~f~~~~~~~~~~~L~~i~~~e~i~i-~~~~l~~ia~~s~gd~R  204 (237)
T d1sxjd2         163 RFKALDASNAIDRLRFISEQENVKC-DDGVLERILDISAGDLR  204 (237)
T ss_dssp             ECCCCCHHHHHHHHHHHHHTTTCCC-CHHHHHHHHHHTSSCHH
T ss_pred             ccccccccccchhhhhhhhhhcCcC-CHHHHHHHHHHcCCCHH
Confidence            9999999999999988775322211 13567889999988643

>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=98.77  E-value=6e-09  Score=90.25  Aligned_cols=151  Identities=13%  Similarity=0.175  Sum_probs=91.9

Q ss_pred             cccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCC----CCeEEE-EEeCCCCCHHHHHHHHHH
Q 010355          149 EAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKL----FDEVVY-AEVSQRPDVKKIQGQIAD  223 (512)
Q Consensus       149 ~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~----f~~~~w-v~~~~~~~~~~ll~~i~~  223 (512)
                      .+.+||+.+++++...|......-+.++|.+|+|||+|+..++.+......    ....+| +++      ..++    .
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 DPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDM------GALV----A   91 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECH------HHHH----T
T ss_pred             CCCcCcHHHHHHHHHHHhccCCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeH------HHHh----c
Confidence            457899999999999999766778899999999999999999987654321    223444 332      1111    1


Q ss_pred             HhCCCCCCCCchHHHHHHHHHHh-CCCeEEEEEeCCCChhh---------hhhhCCCC-CCCCeEEEEEeCCcchhc---
Q 010355          224 KLGLKFYEESESGRARKLCERLK-KEKKILVILDDIWTNLD---------LENVGIPF-GVRGCRVLMTARSQDVLS---  289 (512)
Q Consensus       224 ~l~~~~~~~~~~~~~~~l~~~l~-~~k~~LlVlDdv~~~~~---------~~~l~~~~-~~~gs~iivTtR~~~v~~---  289 (512)
                      ...   ....-.+.+..+.+.+. ...+++|++|++.....         ...+..|. .....++|.||.......   
T Consensus        92 g~~---~rG~~E~rl~~il~e~~~~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~rg~l~~IgatT~eey~~~~e  168 (195)
T d1jbka_          92 GAK---YRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALARGELHCVGATTLDEYRQYIE  168 (195)
T ss_dssp             TTC---SHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHHTTSCCEEEEECHHHHHHHTT
T ss_pred             cCC---ccHHHHHHHHHHHHHHhcCCCcEEEEcchHHHHhcCCCCCCcccHHHHHHHHHhCCCceEEecCCHHHHHHHHH
Confidence            000   00111223444555543 34579999999964411         11111111 134567888887654321   


Q ss_pred             ---cccCCccceecCCCCHHHHHHHH
Q 010355          290 ---SKMDCQNNFLIGVLNESEARDLF  312 (512)
Q Consensus       290 ---~~~~~~~~~~l~~L~~~ea~~Lf  312 (512)
                         ........+.+.+.+.+++..++
T Consensus       169 ~d~aL~rrF~~I~V~Ep~~e~t~~IL  194 (195)
T d1jbka_         169 KDAALERRFQKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             TCHHHHTTEEEEECCCCCHHHHHTTC
T ss_pred             cCHHHHhcCCEeecCCCCHHHHHHHh
Confidence               12244578889988888886543

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=98.72  E-value=2.2e-07  Score=86.34  Aligned_cols=169  Identities=18%  Similarity=0.234  Sum_probs=103.4

Q ss_pred             ccccccchHHHHHHHHHhc----C-C---C-ceEEEEEcCCCCcHHHHHHHHHHhhhhc----CCCCeEEEEEeCCCCCH
Q 010355          148 YEAFESRMSTLNDVINALK----N-P---D-VHMIGAYGMAGVGKTMLVKEVARQAKAD----KLFDEVVYAEVSQRPDV  214 (512)
Q Consensus       148 ~~~~~gR~~~l~~l~~~L~----~-~---~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~----~~f~~~~wv~~~~~~~~  214 (512)
                      +..|+||+.+++.|..++.    . .   . ..++.|+|++|+|||++++.+++.....    ......+++......+.
T Consensus        15 P~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~   94 (287)
T d1w5sa2          15 PPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNL   94 (287)
T ss_dssp             CSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSH
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeeccccccch
Confidence            4568899999999988763    1 1   1 2356678999999999999999876421    12245667888888888


Q ss_pred             HHHHHHHHHHhCCCCCC--CCchHHHHHHHHHHh-CCCeEEEEEeCCCChh--------h---hhhh---CCCC-CCCCe
Q 010355          215 KKIQGQIADKLGLKFYE--ESESGRARKLCERLK-KEKKILVILDDIWTNL--------D---LENV---GIPF-GVRGC  276 (512)
Q Consensus       215 ~~ll~~i~~~l~~~~~~--~~~~~~~~~l~~~l~-~~k~~LlVlDdv~~~~--------~---~~~l---~~~~-~~~gs  276 (512)
                      ...+..+...++.....  .........+..... .+...++++|.+....        .   +..+   ..+. .....
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~l~~~~~~~~~~~~~l~~l~~~l~~~~~~~~~  174 (287)
T d1w5sa2          95 YTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRI  174 (287)
T ss_dssp             HHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCBE
T ss_pred             hhHHHHHhhhcccccccccchHHHHHHHHHHHHHhccCccccceeEEEEeccccccchhHHHHHHHHHHhcchhhcccce
Confidence            88888888887765433  222333334443332 3467888888774221        1   1111   1121 12333


Q ss_pred             EEE-EEeCCcchh-------ccccCCccceecCCCCHHHHHHHHHHHh
Q 010355          277 RVL-MTARSQDVL-------SSKMDCQNNFLIGVLNESEARDLFKKLV  316 (512)
Q Consensus       277 ~ii-vTtR~~~v~-------~~~~~~~~~~~l~~L~~~ea~~Lf~~~~  316 (512)
                      .+| +++......       .........+.+.+++.++..+++..++
T Consensus       175 ~~i~i~~~~~~~~~~~~~~~~~~~r~~~~i~f~~y~~~el~~Il~~r~  222 (287)
T d1w5sa2         175 GFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRA  222 (287)
T ss_dssp             EEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHH
T ss_pred             eEEeecccHHHHHHHHhhccchhcccceeeeccCCcHHHHHHHHhhhH
Confidence            344 444332211       1011223578899999999999998776

>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=98.69  E-value=8.2e-07  Score=80.42  Aligned_cols=176  Identities=13%  Similarity=0.094  Sum_probs=101.9

Q ss_pred             ccCccccccchHHHHHHHHHhc-----CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALK-----NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQG  219 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~-----~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~  219 (512)
                      |.....++|.+..++.|..++.     ....+.+.++|++|+||||+|+.+++....     ...+++.+..........
T Consensus         5 P~~~ddivGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~~~~~-----~~~~~~~~~~~~~~~~~~   79 (239)
T d1ixsb2           5 PKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGV-----NLRVTSGPAIEKPGDLAA   79 (239)
T ss_dssp             CCSGGGSCSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHHHHTC-----CEEEEETTTCCSHHHHHH
T ss_pred             CCCHHHhCCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCC-----CeEeccCCccccchhhHH
Confidence            4456778999988888777764     234677889999999999999999987652     234444443333222221


Q ss_pred             HHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChhh---------hhh----hCC--C-------CCCCCeE
Q 010355          220 QIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNLD---------LEN----VGI--P-------FGVRGCR  277 (512)
Q Consensus       220 ~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~---------~~~----l~~--~-------~~~~gs~  277 (512)
                      .+..                    .+  +.+.++++|.+.....         .+.    ...  .       ...+...
T Consensus        80 ~~~~--------------------~~--~~~~i~~iDe~~~~~~~~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~  137 (239)
T d1ixsb2          80 ILAN--------------------SL--EEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFT  137 (239)
T ss_dssp             HHHT--------------------TC--CTTCEEEEETGGGCCHHHHHHHHHHHHHSEEEEECSCTTCCCEEEEECCCCE
T ss_pred             HHHh--------------------hc--cCCCeeeeecccccchhHHHhhhhhhhhhhhhhhhccchhhhhcccCCCCEE
Confidence            1111                    11  1234556677643210         000    000  0       0133444


Q ss_pred             EEEEeCCcc-hh-ccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHHH
Q 010355          278 VLMTARSQD-VL-SSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIAR  348 (512)
Q Consensus       278 iivTtR~~~-v~-~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia~  348 (512)
                      ++.+|-+.. .. .........+.+.+.+.++...++...+...... ...+....|++.+.|.+-.+..+..
T Consensus       138 ~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~i~-~~~~~l~~ia~~s~gd~R~a~~~l~  209 (239)
T d1ixsb2         138 LIGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGVR-ITEEAALEIGRRSRGTMRVAKRLFR  209 (239)
T ss_dssp             EEEEESCCSSCSCGGGGGCSEEEECCCCCHHHHHHHHHHHHGGGCCC-BCHHHHHHHHHHTTSSHHHHHHHHH
T ss_pred             EEeeccCcccccchhhcccceeeEeeccChhhhhHHHHHHHHHhCCc-cchHHHHHHHHHcCCCHHHHHHHHH
Confidence            555554332 11 2223445688889999999998888776532221 2245788999999998766644433

>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=98.69  E-value=3.3e-08  Score=95.76  Aligned_cols=156  Identities=14%  Similarity=0.184  Sum_probs=92.8

Q ss_pred             ccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcC----CCCeEEE-EEeCCCCCHHHHHHHHH
Q 010355          148 YEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADK----LFDEVVY-AEVSQRPDVKKIQGQIA  222 (512)
Q Consensus       148 ~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~----~f~~~~w-v~~~~~~~~~~ll~~i~  222 (512)
                      ..+++||+.++++++..|.......+.++|.+|+|||+|+..++++.....    ..+..+| ++++.-          +
T Consensus        21 ld~~~gr~~ei~~~~~~L~r~~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l----------~   90 (387)
T d1qvra2          21 LDPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSL----------L   90 (387)
T ss_dssp             SCCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC--------------
T ss_pred             CCCCcCcHHHHHHHHHHHhcCCCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhh----------h
Confidence            345789999999999999866556668889999999999988887754432    1233444 443321          0


Q ss_pred             HHhCCCCCCCCchHHHHHHHHHHhC-CCeEEEEEeCCCChhh---------hhhhCCC-CCCCCeEEEEEeCCcchh---
Q 010355          223 DKLGLKFYEESESGRARKLCERLKK-EKKILVILDDIWTNLD---------LENVGIP-FGVRGCRVLMTARSQDVL---  288 (512)
Q Consensus       223 ~~l~~~~~~~~~~~~~~~l~~~l~~-~k~~LlVlDdv~~~~~---------~~~l~~~-~~~~gs~iivTtR~~~v~---  288 (512)
                      ...+   ....-...+..+...+.. ..+++|++|++.....         ...+..| +.....++|.||......   
T Consensus        91 ag~~---~~g~~e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~rg~~~~I~~tT~~ey~~~e  167 (387)
T d1qvra2          91 AGAK---YRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALARGELRLIGATTLDEYREIE  167 (387)
T ss_dssp             ----------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHHTTCCCEEEEECHHHHHHHT
T ss_pred             cccC---cchhHHHHHHHHHHHhccCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHhCCCcceeeecCHHHHHHhc
Confidence            0000   011222344455555543 3479999999975421         1111111 114456788887655432   


Q ss_pred             --ccccCCccceecCCCCHHHHHHHHHHHh
Q 010355          289 --SSKMDCQNNFLIGVLNESEARDLFKKLV  316 (512)
Q Consensus       289 --~~~~~~~~~~~l~~L~~~ea~~Lf~~~~  316 (512)
                        .........+.+.+.+.+++..++....
T Consensus       168 ~d~al~rrF~~v~v~ep~~~~~~~il~~~~  197 (387)
T d1qvra2         168 KDPALERRFQPVYVDEPTVEETISILRGLK  197 (387)
T ss_dssp             TCTTTCSCCCCEEECCCCHHHHHHHHHHHH
T ss_pred             ccHHHHHhcccccCCCCcHHHHHHHHHHHH
Confidence              1123456789999999999999998654

>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=98.66  E-value=7.9e-07  Score=80.45  Aligned_cols=174  Identities=16%  Similarity=0.180  Sum_probs=102.6

Q ss_pred             ccCccccccchHHHHHHHHHhc-----CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHH
Q 010355          145 IKGYEAFESRMSTLNDVINALK-----NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQG  219 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~-----~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~  219 (512)
                      |.....++|.+..+++|..|+.     ....+.+.++|++|+||||+|+.+++....    . .+.++.+.......+. 
T Consensus         5 P~~~~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~~~----~-~~~~~~~~~~~~~~~~-   78 (238)
T d1in4a2           5 PKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQT----N-IHVTSGPVLVKQGDMA-   78 (238)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTC----C-EEEEETTTCCSHHHHH-
T ss_pred             CCcHHHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHhccCC----C-cccccCcccccHHHHH-
Confidence            3456789999999999888875     334567889999999999999999987652    2 2334444333333222 


Q ss_pred             HHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChhh---------hhhhC--C-----------CCCCCCeE
Q 010355          220 QIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNLD---------LENVG--I-----------PFGVRGCR  277 (512)
Q Consensus       220 ~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~---------~~~l~--~-----------~~~~~gs~  277 (512)
                      .++..                      .+++..+++|.+.....         .....  .           ....+.+.
T Consensus        79 ~~~~~----------------------~~~~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  136 (238)
T d1in4a2          79 AILTS----------------------LERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFT  136 (238)
T ss_dssp             HHHHH----------------------CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCE
T ss_pred             HHHHh----------------------hccCCchHHHHHHHhhhHHHhhcccceeeeeeeeeecCcccccccccCCCCeE
Confidence            11111                      12445666666543210         00000  0           00123455


Q ss_pred             EEEEeCCcchh-cc-ccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHHHHH
Q 010355          278 VLMTARSQDVL-SS-KMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIVTIA  347 (512)
Q Consensus       278 iivTtR~~~v~-~~-~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~~ia  347 (512)
                      +|++|...... .. .......+.+++.+..+...++.......... ........|++.++|.+-.+..+.
T Consensus       137 ~I~at~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~~~~l~~i~~~s~gd~R~ai~~l  207 (238)
T d1in4a2         137 LVGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMDVE-IEDAAAEMIAKRSRGTPRIAIRLT  207 (238)
T ss_dssp             EEEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTCC-BCHHHHHHHHHTSTTCHHHHHHHH
T ss_pred             EEEecCCCccccccceeeeeEEEEecCCCHHHHHHHHHHhhhhccch-hhHHHHHHHHHhCCCCHHHHHHHH
Confidence            66666554332 11 12233567899999999999998877532221 123567889999999877664433

>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=98.63  E-value=3.6e-07  Score=83.44  Aligned_cols=172  Identities=19%  Similarity=0.230  Sum_probs=101.2

Q ss_pred             ccccccchHHHHHHHH---Hhc---------CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHH
Q 010355          148 YEAFESRMSTLNDVIN---ALK---------NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVK  215 (512)
Q Consensus       148 ~~~~~gR~~~l~~l~~---~L~---------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  215 (512)
                      ...++|-+...++|.+   ++.         ....+.+.++|++|+|||+||+.+++.....     .+.++.+.-.+  
T Consensus        11 ~~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~~~-----~~~i~~~~l~~--   83 (256)
T d1lv7a_          11 FADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVP-----FFTISGSDFVE--   83 (256)
T ss_dssp             GGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCC-----EEEECSCSSTT--
T ss_pred             HHHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHcCCC-----EEEEEhHHhhh--
Confidence            4567787776666544   332         1235678999999999999999999877521     23333322111  


Q ss_pred             HHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCCh------------hh----hhh----hCCCCCCCC
Q 010355          216 KIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTN------------LD----LEN----VGIPFGVRG  275 (512)
Q Consensus       216 ~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~------------~~----~~~----l~~~~~~~g  275 (512)
                                  . ........+..+++......|++|+|||++..            ..    +..    +.......+
T Consensus        84 ------------~-~~g~~~~~l~~~f~~A~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~  150 (256)
T d1lv7a_          84 ------------M-FVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEG  150 (256)
T ss_dssp             ------------S-CCCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSC
T ss_pred             ------------c-chhHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCC
Confidence                        0 01112233555566666678899999998421            00    111    111112445


Q ss_pred             eEEEEEeCCcchhc-ccc---CCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChh
Q 010355          276 CRVLMTARSQDVLS-SKM---DCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPI  341 (512)
Q Consensus       276 s~iivTtR~~~v~~-~~~---~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPL  341 (512)
                      .-||.||....... ...   .-...+.+++.+.++-.++|+.+........+.  ....+++.+.|+.-
T Consensus       151 v~vIatTn~~~~ld~al~R~gRfd~~i~i~~P~~~~R~~il~~~l~~~~~~~~~--~~~~la~~t~G~s~  218 (256)
T d1lv7a_         151 IIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDI--DAAIIARGTPGFSG  218 (256)
T ss_dssp             EEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTC--CHHHHHHTCTTCCH
T ss_pred             EEEEEeCCCcccCCHhHcCCCCCCEEEECCCcCHHHHHHHHHHhccCCCcCccc--CHHHHHHhCCCCCH
Confidence            56676887654431 111   123688999999999999999887543322221  23567788888643

>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=98.63  E-value=1.8e-07  Score=85.18  Aligned_cols=173  Identities=18%  Similarity=0.186  Sum_probs=98.1

Q ss_pred             CccccccchHHHHHHHH---HhcC---------CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCH
Q 010355          147 GYEAFESRMSTLNDVIN---ALKN---------PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDV  214 (512)
Q Consensus       147 ~~~~~~gR~~~l~~l~~---~L~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  214 (512)
                      ....++|-+...++|.+   .+..         ...+.|.++|++|+|||+||+.+++....     ..+.++.+     
T Consensus         7 ~~~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~~~-----~~~~i~~~-----   76 (247)
T d1ixza_           7 TFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARV-----PFITASGS-----   76 (247)
T ss_dssp             CGGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTC-----CEEEEEHH-----
T ss_pred             cHHHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHcCC-----CEEEEEhH-----
Confidence            34567777766555443   3321         23467899999999999999999987642     12333321     


Q ss_pred             HHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh----------------hhhhh----CCCCCCC
Q 010355          215 KKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL----------------DLENV----GIPFGVR  274 (512)
Q Consensus       215 ~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~----------------~~~~l----~~~~~~~  274 (512)
                       .+..    .     ........+..+++......+++|+||+++...                .+..+    .......
T Consensus        77 -~l~~----~-----~~g~~~~~l~~~f~~a~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~  146 (247)
T d1ixza_          77 -DFVE----M-----FVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDT  146 (247)
T ss_dssp             -HHHH----S-----CTTHHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTC
T ss_pred             -Hhhh----c-----cccHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCC
Confidence             2211    0     000112234455555555688999999985210                01111    1111234


Q ss_pred             CeEEEEEeCCcchhcccc----CCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChh
Q 010355          275 GCRVLMTARSQDVLSSKM----DCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPI  341 (512)
Q Consensus       275 gs~iivTtR~~~v~~~~~----~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPL  341 (512)
                      +.-||.||.........+    .-...+.+.+.+.++-.++|+.++.........  ....+++.|.|+.-
T Consensus       147 ~vivi~tTn~~~~ld~al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~~~~~~~--~~~~la~~t~g~s~  215 (247)
T d1ixza_         147 AIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDV--DLALLAKRTPGFVG  215 (247)
T ss_dssp             CEEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCTTC--CHHHHHHTCTTCCH
T ss_pred             CEEEEEeCCCccccCHhHcCCCCCcEEEEECCcCHHHHHHHHHHHhcccCCcccc--CHHHHHHHCCCCCH
Confidence            444555776544321111    123588999999999999999888643322221  14567788888633

>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=98.59  E-value=1.6e-07  Score=86.02  Aligned_cols=185  Identities=9%  Similarity=0.029  Sum_probs=104.7

Q ss_pred             ccCccccccchHHHHHHHHHhcC-----------------CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEE
Q 010355          145 IKGYEAFESRMSTLNDVINALKN-----------------PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAE  207 (512)
Q Consensus       145 ~~~~~~~~gR~~~l~~l~~~L~~-----------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~  207 (512)
                      |.....++|.+..+++|..|+..                 ...+.+.++|++|+||||+|+.+++...     ..+++++
T Consensus        10 P~~~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~-----~~~~~~~   84 (253)
T d1sxja2          10 PTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELG-----YDILEQN   84 (253)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTT-----CEEEEEC
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHH-----hhhhccc
Confidence            44567789999999999988742                 2346899999999999999999998764     2345666


Q ss_pred             eCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh-----hhhhhCCCCCCCCeEEEEEe
Q 010355          208 VSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL-----DLENVGIPFGVRGCRVLMTA  282 (512)
Q Consensus       208 ~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~-----~~~~l~~~~~~~gs~iivTt  282 (512)
                      .+...+...+.. ................  .........++..++++|++....     .+..+..........+++|+
T Consensus        85 ~~~~~~~~~~~~-~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~vi~ide~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~  161 (253)
T d1sxja2          85 ASDVRSKTLLNA-GVKNALDNMSVVGYFK--HNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKTSTPLILIC  161 (253)
T ss_dssp             TTSCCCHHHHHH-TGGGGTTBCCSTTTTT--C----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHHCSSCEEEEE
T ss_pred             cccchhhHHHHH-HHHHHhhcchhhhhhh--hhhhcccccccceEEEeeeccccccchhhhhHHHhhhhccccccccccc
Confidence            665554443332 2222211110000000  000001123567889999975321     11111100001222344444


Q ss_pred             CC--cchhccccCCccceecCCCCHHHHHHHHHHHhCC--CCCCchhHHHHHHHHHHcCCCh
Q 010355          283 RS--QDVLSSKMDCQNNFLIGVLNESEARDLFKKLVGD--KIENNDLKSLAMNIVKACRGLP  340 (512)
Q Consensus       283 R~--~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~--~~~~~~~~~~~~~I~~~~~GlP  340 (512)
                      ..  .............+.+.+++.++....+...+..  -..++   +....|++.++|-.
T Consensus       162 ~~~~~~~~~~l~~~~~~i~f~~~~~~~i~~~l~~i~~~e~i~i~~---~~l~~i~~~s~GDi  220 (253)
T d1sxja2         162 NERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLDP---NVIDRLIQTTRGDI  220 (253)
T ss_dssp             SCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCCT---THHHHHHHHTTTCH
T ss_pred             ccccccccccccceeeeeeccccchhHHHHHHHHHHHHhCCCCCH---HHHHHHHHhCCCcH
Confidence            32  2222222344568999999999999998876631  11222   35678999999976

>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=98.57  E-value=3.9e-07  Score=83.61  Aligned_cols=171  Identities=13%  Similarity=0.138  Sum_probs=100.1

Q ss_pred             cccccchHHHHHHHHHh----c---------CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHH
Q 010355          149 EAFESRMSTLNDVINAL----K---------NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVK  215 (512)
Q Consensus       149 ~~~~gR~~~l~~l~~~L----~---------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  215 (512)
                      ..+.|-+..+++|.+.+    .         -...+-+.++|++|+|||+||+.+++.....     .+.++.+      
T Consensus         4 ~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~~~~-----~~~i~~~------   72 (258)
T d1e32a2           4 DDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF-----FFLINGP------   72 (258)
T ss_dssp             GGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHTTCE-----EEEECHH------
T ss_pred             hhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHhCCe-----EEEEEch------
Confidence            44667777666665543    2         1235678999999999999999999876521     2223211      


Q ss_pred             HHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCChh---------h----hhh----hCCCCCCCCeEE
Q 010355          216 KIQGQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWTNL---------D----LEN----VGIPFGVRGCRV  278 (512)
Q Consensus       216 ~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~---------~----~~~----l~~~~~~~gs~i  278 (512)
                      .        +..... ......+..++......++++|+|||+....         .    ...    +.......+.-|
T Consensus        73 ~--------l~~~~~-g~~~~~l~~~f~~A~~~~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~vlv  143 (258)
T d1e32a2          73 E--------IMSKLA-GESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIV  143 (258)
T ss_dssp             H--------HTTSCT-THHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCCCSSCEEE
T ss_pred             h--------hccccc-ccHHHHHHHHHHHHHhcCCeEEEehhhhhhccCCCCCCCchHHHHHHHhccccccccccCCccE
Confidence            1        100000 0112223344444444689999999996431         0    111    111122455667


Q ss_pred             EEEeCCcchhcc-cc---CCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChh
Q 010355          279 LMTARSQDVLSS-KM---DCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPI  341 (512)
Q Consensus       279 ivTtR~~~v~~~-~~---~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPL  341 (512)
                      |.||........ ..   .-...+.++..+.++-..+|..++.........  -...|++.|.|+--
T Consensus       144 i~tTn~~~~ld~al~r~gRfd~~i~~~~P~~~~R~~il~~~l~~~~~~~~~--~~~~la~~t~G~s~  208 (258)
T d1e32a2         144 MAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDV--DLEQVANETHGHVG  208 (258)
T ss_dssp             EEEESCGGGSCGGGTSTTSSCEEEECCCCCHHHHHHHHHHTTTTSCBCTTC--CHHHHHHHCTTCCH
T ss_pred             EEeCCCccccchhhhhcccccceeECCCCCHHHHHHHhhhhccCccccccc--chhhhhhcccCCCH
Confidence            778877654311 11   234689999999999999999887643322221  14678899988643

>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=98.54  E-value=1.4e-06  Score=76.90  Aligned_cols=165  Identities=12%  Similarity=0.127  Sum_probs=100.4

Q ss_pred             chHHHHHHHHHhcCCC-ceEEEEEcCCCCcHHHHHHHHHHhhhhcC-------------------CCCeEEEEEeCCCCC
Q 010355          154 RMSTLNDVINALKNPD-VHMIGAYGMAGVGKTMLVKEVARQAKADK-------------------LFDEVVYAEVSQRPD  213 (512)
Q Consensus       154 R~~~l~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~-------------------~f~~~~wv~~~~~~~  213 (512)
                      -....++|...+..++ .+.+.++|++|+||||+|+.+++..--..                   ......++...... 
T Consensus         7 ~~~~~~~l~~~~~~~~l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~-   85 (207)
T d1a5ta2           7 LRPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGK-   85 (207)
T ss_dssp             GHHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTTC-
T ss_pred             cHHHHHHHHHHHHcCCcCeEEEEECCCCCcHHHHHHHHHHhcccccccccccccccchhhhhhhccccccchhhhhhcc-
Confidence            3455777888777665 45699999999999999999988652110                   01111222111100 


Q ss_pred             HHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHh----CCCeEEEEEeCCCCh--hhhhhh----CCCCCCCCeEEEEEeC
Q 010355          214 VKKIQGQIADKLGLKFYEESESGRARKLCERLK----KEKKILVILDDIWTN--LDLENV----GIPFGVRGCRVLMTAR  283 (512)
Q Consensus       214 ~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l----~~~~~~~gs~iivTtR  283 (512)
                                       .......+..+...+.    .+++-++|+|++...  .....+    -.|  ..++++|+||+
T Consensus        86 -----------------~~i~~~~ir~l~~~~~~~~~~~~~kviIide~d~l~~~a~n~Llk~lEep--~~~~~fIl~t~  146 (207)
T d1a5ta2          86 -----------------NTLGVDAVREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEP--PAETWFFLATR  146 (207)
T ss_dssp             -----------------SSBCHHHHHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSC--CTTEEEEEEES
T ss_pred             -----------------cccccchhhHHhhhhhhccccCccceEEechhhhhhhhhhHHHHHHHHhh--cccceeeeeec
Confidence                             0011122233333332    246679999999753  222222    222  56788888887


Q ss_pred             Ccc-hhccccCCccceecCCCCHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhHHH
Q 010355          284 SQD-VLSSKMDCQNNFLIGVLNESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIAIV  344 (512)
Q Consensus       284 ~~~-v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLai~  344 (512)
                      +.. +..........+.+.+++.++....+.....-    +  ...+..|++.++|.|-.+.
T Consensus       147 ~~~~ll~tI~SRc~~i~~~~~~~~~~~~~L~~~~~~----~--~~~~~~i~~~s~Gs~r~al  202 (207)
T d1a5ta2         147 EPERLLATLRSRCRLHYLAPPPEQYAVTWLSREVTM----S--QDALLAALRLSAGSPGAAL  202 (207)
T ss_dssp             CGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHCCC----C--HHHHHHHHHHTTTCHHHHH
T ss_pred             ChhhhhhhhcceeEEEecCCCCHHHHHHHHHHcCCC----C--HHHHHHHHHHcCCCHHHHH
Confidence            754 33323344578999999999999998776421    1  3567789999999986553

>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=98.30  E-value=1.9e-06  Score=79.19  Aligned_cols=152  Identities=13%  Similarity=0.231  Sum_probs=86.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCC
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKE  248 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  248 (512)
                      ..+.|.++|++|+|||+||+.++......       ++.++    ...+.    .    . ........+..++......
T Consensus        40 ~~~giLL~Gp~GtGKT~l~~ala~~~~~~-------~~~~~----~~~l~----~----~-~~~~~~~~l~~~f~~A~~~   99 (265)
T d1r7ra3          40 PSKGVLFYGPPGCGKTLLAKAIANECQAN-------FISIK----GPELL----T----M-WFGESEANVREIFDKARQA   99 (265)
T ss_dssp             CCCEEEEBCCTTSSHHHHHHHHHHHTTCE-------EEEEC----HHHHH----T----S-CTTTHHHHHHHHHHHHHHT
T ss_pred             CCCeEEEECCCCCcchhHHHHHHHHhCCc-------EEEEE----HHHhh----h----c-cccchHHHHHHHHHHHHhc
Confidence            35678999999999999999999887532       12222    11111    0    0 1112223344444444446


Q ss_pred             CeEEEEEeCCCChh----------------hhhhhCCCC----CCCCeEEEEEeCCcchhccc-c---CCccceecCCCC
Q 010355          249 KKILVILDDIWTNL----------------DLENVGIPF----GVRGCRVLMTARSQDVLSSK-M---DCQNNFLIGVLN  304 (512)
Q Consensus       249 k~~LlVlDdv~~~~----------------~~~~l~~~~----~~~gs~iivTtR~~~v~~~~-~---~~~~~~~l~~L~  304 (512)
                      .+++|+|||+....                ....+...+    ..++..||.||......... .   .-...+++++.+
T Consensus       100 ~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vi~ttn~~~~ld~al~r~gRf~~~i~~~~p~  179 (265)
T d1r7ra3         100 APCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPD  179 (265)
T ss_dssp             CSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC------CCEEEECCBSCTTTSCGGGSSTTSEEEEECCCCC
T ss_pred             CCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcCCCCCEEEEEeCCCchhCCHHHhCCCCccEEEEecchH
Confidence            78999999985321                011121111    24455677777765433111 1   234689999999


Q ss_pred             HHHHHHHHHHHhCCCCCCchhHHHHHHHHHHcCCChhH
Q 010355          305 ESEARDLFKKLVGDKIENNDLKSLAMNIVKACRGLPIA  342 (512)
Q Consensus       305 ~~ea~~Lf~~~~~~~~~~~~~~~~~~~I~~~~~GlPLa  342 (512)
                      .++-..+|+..+.......+.  ....|++++.|...+
T Consensus       180 ~~~R~~il~~~l~~~~~~~~~--~l~~la~~t~g~s~~  215 (265)
T d1r7ra3         180 EKSRVAILKANLRKSPVAKDV--DLEFLAKMTNGFSGA  215 (265)
T ss_dssp             CHHHHHHHHHHTTCC----CC--CCHHHHHHHCSSCCH
T ss_pred             HHHHHHHHHHHhccCCchhhh--hHHHHHhcCCCCCHH
Confidence            999999999877543221111  135678888887544

>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=98.29  E-value=3.3e-06  Score=74.72  Aligned_cols=146  Identities=16%  Similarity=0.150  Sum_probs=84.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCe
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKK  250 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~  250 (512)
                      ..+.|+|++|+|||.|++++++....+  ...+++++.      ..+...+...+...        ......+.+.  .-
T Consensus        37 n~l~l~G~~G~GKTHLl~A~~~~~~~~--~~~~~~~~~------~~~~~~~~~~~~~~--------~~~~~~~~~~--~~   98 (213)
T d1l8qa2          37 NPIFIYGSVGTGKTHLLQAAGNEAKKR--GYRVIYSSA------DDFAQAMVEHLKKG--------TINEFRNMYK--SV   98 (213)
T ss_dssp             SSEEEECSSSSSHHHHHHHHHHHHHHT--TCCEEEEEH------HHHHHHHHHHHHHT--------CHHHHHHHHH--TC
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHhccC--ccceEEech------HHHHHHHHHHHHcc--------chhhHHHHHh--hc
Confidence            448899999999999999999988743  445666643      34444444433211        1223444454  34


Q ss_pred             EEEEEeCCCCh---hhhhhhCC----CCCCCCeEEEEEeCCcchhc--------cccCCccceecCCCCHHHHHHHHHHH
Q 010355          251 ILVILDDIWTN---LDLENVGI----PFGVRGCRVLMTARSQDVLS--------SKMDCQNNFLIGVLNESEARDLFKKL  315 (512)
Q Consensus       251 ~LlVlDdv~~~---~~~~~l~~----~~~~~gs~iivTtR~~~v~~--------~~~~~~~~~~l~~L~~~ea~~Lf~~~  315 (512)
                      -+|+|||+...   ..|+...+    .....|..||+||+......        .......++.++ ++.+.-.++++++
T Consensus        99 dll~iDDi~~i~~~~~~~~~lf~lin~~~~~~~~iiits~~~p~~l~~~~~dL~SRL~~g~~~~i~-p~d~~~~~iL~~~  177 (213)
T d1l8qa2          99 DLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGGILVEIE-LDNKTRFKIIKEK  177 (213)
T ss_dssp             SEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEEEECC-CCHHHHHHHHHHH
T ss_pred             cchhhhhhhhhcCchHHHHHHHHHHHHHhhccceEEEecCCcchhccccchHHHHHhhCceEEEEC-CCcHHHHHHHHHH
Confidence            69999999643   23332111    11156788999999764321        112344566775 4777777777777


Q ss_pred             hCCCCCCchhHHHHHHHHHHc
Q 010355          316 VGDKIENNDLKSLAMNIVKAC  336 (512)
Q Consensus       316 ~~~~~~~~~~~~~~~~I~~~~  336 (512)
                      +...... --.+++.-|++.+
T Consensus       178 a~~rgl~-l~~~v~~yl~~~~  197 (213)
T d1l8qa2         178 LKEFNLE-LRKEVIDYLLENT  197 (213)
T ss_dssp             HHHTTCC-CCHHHHHHHHHHC
T ss_pred             HHHcCCC-CCHHHHHHHHHhc
Confidence            6321111 1124555556555

>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=98.29  E-value=1.4e-05  Score=72.17  Aligned_cols=92  Identities=18%  Similarity=0.215  Sum_probs=53.4

Q ss_pred             cccccchHHHHHHHHHhc----------CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHH
Q 010355          149 EAFESRMSTLNDVINALK----------NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQ  218 (512)
Q Consensus       149 ~~~~gR~~~l~~l~~~L~----------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll  218 (512)
                      .+++|....++.+++-+.          ....+.|.++|++|+|||+||+.+++....  +|   +.++.+....     
T Consensus         9 ~~~i~~~~~i~~i~~~~~~~~~~~~~~~~~p~~~vLL~GppGtGKT~la~alA~~~~~--~~---~~i~~~~~~~-----   78 (246)
T d1d2na_           9 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNF--PF---IKICSPDKMI-----   78 (246)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTC--SE---EEEECGGGCT-----
T ss_pred             cCCcCcCHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECcCCCCHHHHHHHHhhcccc--cc---cccccccccc-----
Confidence            346676665555544322          234577899999999999999999987652  22   2333221100     


Q ss_pred             HHHHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCC
Q 010355          219 GQIADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIW  259 (512)
Q Consensus       219 ~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~  259 (512)
                             +  .........+..+++......+++|+||+++
T Consensus        79 -------g--~~~~~~~~~i~~if~~A~~~~p~il~iDEid  110 (246)
T d1d2na_          79 -------G--FSETAKCQAMKKIFDDAYKSQLSCVVVDDIE  110 (246)
T ss_dssp             -------T--CCHHHHHHHHHHHHHHHHTSSEEEEEECCHH
T ss_pred             -------c--ccccchhhhhhhhhhhhhhcccceeehhhhh
Confidence                   0  0000111223344445555678999999984

>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=97.60  E-value=0.00019  Score=62.11  Aligned_cols=129  Identities=13%  Similarity=0.021  Sum_probs=74.2

Q ss_pred             HHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhc--CCCCeEEEEEeCC-CCCHHHHHHHHHHHhCCCCCCCC
Q 010355          157 TLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKAD--KLFDEVVYAEVSQ-RPDVKKIQGQIADKLGLKFYEES  233 (512)
Q Consensus       157 ~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~--~~f~~~~wv~~~~-~~~~~~ll~~i~~~l~~~~~~~~  233 (512)
                      +++.|..++.....+.+.++|++|+|||++|..+.+.....  .|.+ ++++.... .....++. .+...+...+.   
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            35566667777788999999999999999999999876432  2223 44444322 22344332 34444433221   


Q ss_pred             chHHHHHHHHHHhCCCeEEEEEeCCCCh--hhhhhhCCC--CCCCCeEEEEEeCCcc-hhccccCCccceecCCC
Q 010355          234 ESGRARKLCERLKKEKKILVILDDIWTN--LDLENVGIP--FGVRGCRVLMTARSQD-VLSSKMDCQNNFLIGVL  303 (512)
Q Consensus       234 ~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~l~~~--~~~~gs~iivTtR~~~-v~~~~~~~~~~~~l~~L  303 (512)
                                   .+++-++|+|++...  ...+.+.-.  -+..++.+|++|.+.. +..........+.+.+.
T Consensus        77 -------------~~~~KviIId~ad~l~~~aqNaLLK~LEEPp~~t~fiLit~~~~~ll~TI~SRC~~i~~~~p  138 (198)
T d2gnoa2          77 -------------LYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSRVFRVVVNVP  138 (198)
T ss_dssp             -------------SSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCC
T ss_pred             -------------cCCCEEEEEeCccccchhhhhHHHHHHhCCCCCceeeeccCChhhCHHHHhcceEEEeCCCc
Confidence                         245568999999743  333333111  1146777777777654 32222333455666543

>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=97.29  E-value=0.00072  Score=61.08  Aligned_cols=85  Identities=20%  Similarity=0.271  Sum_probs=59.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCC-----CCchHHHHHHHH
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYE-----ESESGRARKLCE  243 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~-----~~~~~~~~~l~~  243 (512)
                      .-+++-|+|++|+||||||.+++......  -..++|++....++...     ++++|.....     ....+..-.+.+
T Consensus        59 ~g~i~e~~G~~~~GKT~l~l~~~~~~q~~--g~~~vyIDtE~~~~~e~-----a~~~GvD~d~il~~~~~~~E~~~~~~~  131 (269)
T d1mo6a1          59 RGRVIEIYGPESSGKTTVALHAVANAQAA--GGVAAFIDAEHALDPDY-----AKKLGVDTDSLLVSQPDTGEQALEIAD  131 (269)
T ss_dssp             SSSEEEEECSSSSSHHHHHHHHHHHHHHT--TCEEEEEESSCCCCHHH-----HHHHTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             cceeEEEecCCCcHHHHHHHHHHHHHhcC--CCEEEEEECCccCCHHH-----HHHhCCCHHHeEEecCCCHHHHHHHHH
Confidence            35799999999999999999888776643  34689999999888754     5566765432     122222333333


Q ss_pred             HH-hCCCeEEEEEeCCCC
Q 010355          244 RL-KKEKKILVILDDIWT  260 (512)
Q Consensus       244 ~l-~~~k~~LlVlDdv~~  260 (512)
                      .| ..++..|||+|.+-.
T Consensus       132 ~l~~~~~~~liIiDSi~a  149 (269)
T d1mo6a1         132 MLIRSGALDIVVIDSVAA  149 (269)
T ss_dssp             HHHHTTCEEEEEEECSTT
T ss_pred             HHHhcCCCCEEEEecccc
Confidence            33 456788999999853

>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=97.23  E-value=9.2e-05  Score=62.16  Aligned_cols=28  Identities=25%  Similarity=0.367  Sum_probs=24.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhc
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKAD  197 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~  197 (512)
                      .++++|+|..|+|||||+.++.+....+
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~~l~~~   29 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIPALCAR   29 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHHHT
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHC
Confidence            4799999999999999999999887643

>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=97.20  E-value=0.00017  Score=60.93  Aligned_cols=38  Identities=13%  Similarity=0.011  Sum_probs=29.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEE
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAE  207 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~  207 (512)
                      +..+|.|+|++|+||||+|+.++..+... ++....++.
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La~~L~~~-~~~~~~~~~   42 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQVTLNQQ-GGRSVSLLL   42 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHHH-CSSCEEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhhc-CCCchhhhh
Confidence            34688999999999999999999987643 345555543

>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=97.19  E-value=0.0004  Score=64.71  Aligned_cols=103  Identities=17%  Similarity=0.259  Sum_probs=54.9

Q ss_pred             cccchHHHHHHHHHhc-------CC--CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHH
Q 010355          151 FESRMSTLNDVINALK-------NP--DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQI  221 (512)
Q Consensus       151 ~~gR~~~l~~l~~~L~-------~~--~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i  221 (512)
                      ++|.+..++.|...+.       +.  ...++.++|+.|+|||.||+.++...-.  .-...+-++.+.-.....+. .+
T Consensus        25 v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l~~--~~~~~~~~~~~~~~~~~~~~-~L  101 (315)
T d1qvra3          25 VVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFD--TEEAMIRIDMTEYMEKHAVS-RL  101 (315)
T ss_dssp             SCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHS--SGGGEEEECTTTCCSSGGGG-GC
T ss_pred             EeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHHhcC--CCcceEEEeccccccchhhh-hh
Confidence            5687777777765543       11  2347889999999999999999987631  11223334443332211110 00


Q ss_pred             HHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCC
Q 010355          222 ADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWT  260 (512)
Q Consensus       222 ~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~  260 (512)
                         +|.+..-. .......+.+.+.+....+|+||++..
T Consensus       102 ---~g~~~gyv-G~~~~~~l~~~~~~~p~~Vvl~DEieK  136 (315)
T d1qvra3         102 ---IGAPPGYV-GYEEGGQLTEAVRRRPYSVILFDEIEK  136 (315)
T ss_dssp             ------------------CHHHHHHHCSSEEEEESSGGG
T ss_pred             ---cCCCCCCc-CcccCChHHHHHHhCCCcEEEEehHhh
Confidence               11110000 000112345556555679999999974

>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=97.16  E-value=0.00074  Score=61.03  Aligned_cols=84  Identities=21%  Similarity=0.257  Sum_probs=58.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCC-----CCchHHHHHHHH
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYE-----ESESGRARKLCE  243 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~-----~~~~~~~~~l~~  243 (512)
                      ..+++-|+|++|+|||+||.+++......  -..++|++....+++.     +++.+|.....     ....+..-.+.+
T Consensus        56 ~g~itei~G~~~sGKT~l~l~~~~~aqk~--g~~v~yiDtE~~~~~~-----~a~~~Gvd~d~i~~~~~~~~E~~~~~~~  128 (268)
T d1xp8a1          56 RGRITEIYGPESGGKTTLALAIVAQAQKA--GGTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIME  128 (268)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHT--TCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CceEEEEecCCccchHHHHHHHHHHHHhC--CCEEEEEECCccCCHH-----HHHHhCCCchhEEEEcCCCHHHHHHHHH
Confidence            34799999999999999999998876643  2468999999888874     56777876442     122222233344


Q ss_pred             HH-hCCCeEEEEEeCCC
Q 010355          244 RL-KKEKKILVILDDIW  259 (512)
Q Consensus       244 ~l-~~~k~~LlVlDdv~  259 (512)
                      .+ ..+..-|||+|-+-
T Consensus       129 ~l~~~~~~~liIiDSi~  145 (268)
T d1xp8a1         129 LLVRSGAIDVVVVDSVA  145 (268)
T ss_dssp             HHHTTTCCSEEEEECTT
T ss_pred             HHHhcCCCcEEEEeccc
Confidence            44 34556799999984

>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=97.15  E-value=0.00012  Score=62.44  Aligned_cols=26  Identities=23%  Similarity=0.364  Sum_probs=23.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ++.|+|.|++|+||||||+.++....
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~~~   32 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAVFN   32 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhC
Confidence            47899999999999999999998764

>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=97.13  E-value=0.0014  Score=56.63  Aligned_cols=61  Identities=18%  Similarity=0.188  Sum_probs=41.8

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCH--HHHHHHHHHHhCCCCC
Q 010355          167 NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDV--KKIQGQIADKLGLKFY  230 (512)
Q Consensus       167 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~--~~ll~~i~~~l~~~~~  230 (512)
                      ...+.||.++|+.|+||||.+..++.....+   ...+.+-....+.+  .+-++...+.++.+..
T Consensus         6 ~~~p~vi~lvGptGvGKTTTiAKLA~~~~~~---g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~   68 (211)
T d2qy9a2           6 GKAPFVILMVGVNGVGKTTTIGKLARQFEQQ---GKSVMLAAGDTFRAAAVEQLQVWGQRNNIPVI   68 (211)
T ss_dssp             SCTTEEEEEECCTTSCHHHHHHHHHHHHHTT---TCCEEEECCCTTCHHHHHHHHHHHHHTTCCEE
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHHC---CCcEEEEecccccccchhhhhhhhhhcCCccc
Confidence            3456899999999999999888888777632   22344433344433  5666777888887654

>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=97.13  E-value=0.00075  Score=60.88  Aligned_cols=83  Identities=20%  Similarity=0.353  Sum_probs=56.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCC-----CCchHHHHHHHHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYE-----ESESGRARKLCER  244 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~-----~~~~~~~~~l~~~  244 (512)
                      -+++-|+|++|+|||||+.+++......  -..++|++....++..     .++.+|+....     ....+..-.+.+.
T Consensus        54 g~itei~G~~gsGKTtl~l~~~~~~q~~--g~~~vyidtE~~~~~~-----~a~~~Gvd~d~v~~~~~~~~E~~~~~i~~  126 (263)
T d1u94a1          54 GRIVEIYGPESSGKTTLTLQVIAAAQRE--GKTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDTGEQALEICDA  126 (263)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHHHHHT--TCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             ceEEEEecCCCcHHHHHHHHHHHHHHcC--CCEEEEEccccccCHH-----HHHHhCCCHHHEEEecCCCHHHHHHHHHH
Confidence            4699999999999999999999887643  3468999998888764     35667766432     1222222223333


Q ss_pred             H-hCCCeEEEEEeCCC
Q 010355          245 L-KKEKKILVILDDIW  259 (512)
Q Consensus       245 l-~~~k~~LlVlDdv~  259 (512)
                      + ..++.-|||+|-+-
T Consensus       127 l~~~~~~~liViDSi~  142 (263)
T d1u94a1         127 LARSGAVDVIVVDSVA  142 (263)
T ss_dssp             HHHHTCCSEEEEECGG
T ss_pred             HHhcCCCCEEEEECcc
Confidence            3 33455688999883

>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=97.13  E-value=0.00097  Score=57.66  Aligned_cols=61  Identities=18%  Similarity=0.266  Sum_probs=45.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCC-CCCHHHHHHHHHHHhCCCCC
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQ-RPDVKKIQGQIADKLGLKFY  230 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~ll~~i~~~l~~~~~  230 (512)
                      ++.++|.++|+.|+||||.+..++.....+  -..+..+++.. .....+-++..++.++.+..
T Consensus         4 ~~~~vi~lvGptGvGKTTTiaKLA~~~~~~--g~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~~   65 (207)
T d1okkd2           4 PKGRVVLVVGVNGVGKTTTIAKLGRYYQNL--GKKVMFCAGDTFRAAGGTQLSEWGKRLSIPVI   65 (207)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHHHHHTT--TCCEEEECCCCSSTTHHHHHHHHHHHHTCCEE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHC--CCcEEEEEeccccccchhhHhhcccccCceEE
Confidence            456899999999999999988888877633  23566776653 45677778888888887643

>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=97.13  E-value=0.0001  Score=61.40  Aligned_cols=25  Identities=28%  Similarity=0.371  Sum_probs=22.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      +.|.|.|++|+||||+|+.++....
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~L~   27 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQLN   27 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhC
Confidence            4688889999999999999998865

>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=97.04  E-value=0.00038  Score=59.75  Aligned_cols=30  Identities=20%  Similarity=0.413  Sum_probs=26.1

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          167 NPDVHMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       167 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      ..+.-+|+|.|.+|+||||||+.+......
T Consensus        19 ~~~~~iIgI~G~~GSGKSTla~~L~~~l~~   48 (198)
T d1rz3a_          19 TAGRLVLGIDGLSRSGKTTLANQLSQTLRE   48 (198)
T ss_dssp             CSSSEEEEEEECTTSSHHHHHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            456678999999999999999999988764

>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=97.04  E-value=0.00017  Score=59.28  Aligned_cols=23  Identities=26%  Similarity=0.447  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      ++|.|+|++|+||||||+.+...
T Consensus         3 klIii~G~pGsGKTTla~~L~~~   25 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAK   25 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            57889999999999999988654

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=97.04  E-value=0.00017  Score=60.60  Aligned_cols=25  Identities=36%  Similarity=0.410  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ++|.|.|++|+||||+|+.++....
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~~~   27 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQLD   27 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHcC
Confidence            6899999999999999999987653

>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=97.00  E-value=0.00022  Score=60.47  Aligned_cols=27  Identities=30%  Similarity=0.407  Sum_probs=23.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhc
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKAD  197 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~  197 (512)
                      +.|.|+|++|+|||||+++++......
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l~~~   28 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVLKSS   28 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHHHT
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHHHC
Confidence            568999999999999999999887643

>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=96.98  E-value=0.0017  Score=56.21  Aligned_cols=60  Identities=20%  Similarity=0.280  Sum_probs=41.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCC-CCCHHHHHHHHHHHhCCCCC
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQ-RPDVKKIQGQIADKLGLKFY  230 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~ll~~i~~~l~~~~~  230 (512)
                      +.+|+.++|+.|+||||.+..++.....+  -..+..+++.. .....+-++...+.++.+..
T Consensus         9 ~~~vi~lvGp~GvGKTTTiaKLA~~~~~~--g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~   69 (207)
T d1ls1a2           9 DRNLWFLVGLQGSGKTTTAAKLALYYKGK--GRRPLLVAADTQRPAAREQLRLLGEKVGVPVL   69 (207)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHHHT--TCCEEEEECCSSCHHHHHHHHHHHHHHTCCEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHC--CCcEEEEecccccchHHHHHHHHHHhcCCccc
Confidence            45789999999999999988888877643  23455555532 23445666777778877643

>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=96.98  E-value=0.0014  Score=58.17  Aligned_cols=85  Identities=18%  Similarity=0.234  Sum_probs=53.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCC----------------CCC
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKF----------------YEE  232 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~----------------~~~  232 (512)
                      ...++.|+|.+|+|||+||.+++....  .....++|++...  +...+.+. +..++...                ...
T Consensus        25 ~gsl~li~G~pGsGKT~l~~qia~~~~--~~~~~~~~is~e~--~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~   99 (242)
T d1tf7a2          25 KDSIILATGATGTGKTLLVSRFVENAC--ANKERAILFAYEE--SRAQLLRN-AYSWGMDFEEMERQNLLKIVCAYPESA   99 (242)
T ss_dssp             SSCEEEEEECTTSSHHHHHHHHHHHHH--TTTCCEEEEESSS--CHHHHHHH-HHTTSCCHHHHHHTTSEEECCCCGGGS
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHH--HhccccceeeccC--CHHHHHHH-HHHcCCChHHHhhcCceEEEEeecchh
Confidence            347899999999999999999998865  3466788887654  33333333 23333221                111


Q ss_pred             CchHHHHHHHHHHhCCCeEEEEEeCC
Q 010355          233 SESGRARKLCERLKKEKKILVILDDI  258 (512)
Q Consensus       233 ~~~~~~~~l~~~l~~~k~~LlVlDdv  258 (512)
                      ........+...+...+.-++|+|.+
T Consensus       100 ~~~~~~~~i~~~i~~~~~~~vviDs~  125 (242)
T d1tf7a2         100 GLEDHLQIIKSEINDFKPARIAIDSL  125 (242)
T ss_dssp             CHHHHHHHHHHHHHTTCCSEEEEECH
T ss_pred             hHHHHHHHHHHHHHhcCCceeeeecc
Confidence            22233455555566666778888876

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=96.95  E-value=0.00018  Score=60.36  Aligned_cols=25  Identities=44%  Similarity=0.457  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      +.|+|.|++|+||||+|+.++....
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~~l~   29 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELASKSG   29 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHC
Confidence            5678999999999999999998764

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.94  E-value=0.0017  Score=55.64  Aligned_cols=29  Identities=21%  Similarity=0.294  Sum_probs=25.4

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          167 NPDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       167 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .+..++|+|.|++|+||||+|+.++....
T Consensus         5 ~~~~~iI~i~GppGSGKsT~a~~La~~~g   33 (196)
T d1ukza_           5 PDQVSVIFVLGGPGAGKGTQCEKLVKDYS   33 (196)
T ss_dssp             TTTCEEEEEECSTTSSHHHHHHHHHHHSS
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            34678999999999999999999988764

>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=96.93  E-value=0.0022  Score=55.54  Aligned_cols=61  Identities=20%  Similarity=0.220  Sum_probs=43.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCC-CCCHHHHHHHHHHHhCCCCC
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQ-RPDVKKIQGQIADKLGLKFY  230 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~ll~~i~~~l~~~~~  230 (512)
                      ..+.+|.++|+.|+||||.+.+++.+...+  -..+..+++.. .....+-++..++.++.+..
T Consensus         9 ~~p~vi~lvGptGvGKTTTiAKLAa~~~~~--~~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~~   70 (213)
T d1vmaa2           9 EPPFVIMVVGVNGTGKTTSCGKLAKMFVDE--GKSVVLAAADTFRAAAIEQLKIWGERVGATVI   70 (213)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHHHHT--TCCEEEEEECTTCHHHHHHHHHHHHHHTCEEE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHC--CCceEEEeecccccchhHHHHHHhhhcCcccc
Confidence            456799999999999999888888777543  24566666653 33455667777888887644

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=96.92  E-value=0.00027  Score=60.88  Aligned_cols=29  Identities=17%  Similarity=0.256  Sum_probs=25.3

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          167 NPDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       167 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .+.+.+|+|.|++|+||||+|+.++....
T Consensus         3 ~~kp~iI~i~G~pGSGKsT~a~~La~~~g   31 (194)
T d1qf9a_           3 KSKPNVVFVLGGPGSGKGTQCANIVRDFG   31 (194)
T ss_dssp             CCCCEEEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHHHC
Confidence            45678999999999999999999998764

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.91  E-value=0.0003  Score=58.94  Aligned_cols=29  Identities=38%  Similarity=0.554  Sum_probs=25.3

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          167 NPDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       167 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      +...+++.|.|++|+||||+|+.++....
T Consensus         3 ~~~~~iivl~G~~GsGKsT~a~~La~~l~   31 (171)
T d1knqa_           3 NHDHHIYVLMGVSGSGKSAVASEVAHQLH   31 (171)
T ss_dssp             CTTSEEEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            34578999999999999999999998764

>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=96.90  E-value=0.00074  Score=62.87  Aligned_cols=101  Identities=17%  Similarity=0.196  Sum_probs=56.5

Q ss_pred             ccccchHHHHHHHHHhc---------CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHH
Q 010355          150 AFESRMSTLNDVINALK---------NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQ  220 (512)
Q Consensus       150 ~~~gR~~~l~~l~~~L~---------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~  220 (512)
                      .++|.+..++.|...+.         +....++.++|++|+|||.||+.++....     ...+-++++.-.....    
T Consensus        23 ~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l~-----~~~i~~d~s~~~~~~~----   93 (315)
T d1r6bx3          23 LVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG-----IELLRFDMSEYMERHT----   93 (315)
T ss_dssp             TSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHT-----CEEEEEEGGGCSSSSC----
T ss_pred             eecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhcc-----CCeeEeccccccchhh----
Confidence            35688888887766553         12345889999999999999999998753     3344455443211100    


Q ss_pred             HHHHhCCCCCCCCchHHHHHHHHHHhCCCeEEEEEeCCCC
Q 010355          221 IADKLGLKFYEESESGRARKLCERLKKEKKILVILDDIWT  260 (512)
Q Consensus       221 i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~  260 (512)
                      +.+-+|.+ +.-........+...+......+++||++..
T Consensus        94 ~~~l~g~~-~gy~g~~~~~~l~~~~~~~~~~vvl~DeieK  132 (315)
T d1r6bx3          94 VSRLIGAP-PGYVGFDQGGLLTDAVIKHPHAVLLLDEIEK  132 (315)
T ss_dssp             CSSSCCCC-SCSHHHHHTTHHHHHHHHCSSEEEEEETGGG
T ss_pred             hhhhcccC-CCccccccCChhhHHHHhCccchhhhccccc
Confidence            00011111 1100011112234444445678999999964

>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=96.87  E-value=0.0012  Score=57.13  Aligned_cols=61  Identities=21%  Similarity=0.238  Sum_probs=38.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCC-CCCHHHHHHHHHHHhCCCCC
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQ-RPDVKKIQGQIADKLGLKFY  230 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~ll~~i~~~l~~~~~  230 (512)
                      ..+.||.++|+.|+||||.+..++.....+.  ..+..|++.. .....+-++...+.++.+..
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKLA~~~~~~g--~kV~lit~Dt~R~ga~eQL~~~a~~l~v~~~   71 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKLAYFYKKKG--FKVGLVGADVYRPAALEQLQQLGQQIGVPVY   71 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHHHHHHHHTT--CCEEEEECCCSSHHHHHHHHHHHHHHTCCEE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCC--CceEEEEeeccccchhHHHHHhccccCccee
Confidence            3568999999999999998888887776432  2466666543 23445566667777777643

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.86  E-value=0.00029  Score=60.45  Aligned_cols=27  Identities=19%  Similarity=0.214  Sum_probs=24.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      ..+|.|+|++|+||||||+.++.....
T Consensus        19 g~vI~L~G~pGSGKTTiAk~La~~l~~   45 (195)
T d1x6va3          19 GCTVWLTGLSGAGKTTVSMALEEYLVC   45 (195)
T ss_dssp             CEEEEEESSCHHHHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            468889999999999999999988763

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=96.82  E-value=0.00033  Score=58.93  Aligned_cols=26  Identities=23%  Similarity=0.236  Sum_probs=23.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .++|.|.|++|+||||+|+.+++...
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l~   28 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVLP   28 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHSS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHcC
Confidence            47899999999999999999998764

>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=96.80  E-value=0.00047  Score=57.64  Aligned_cols=27  Identities=22%  Similarity=0.271  Sum_probs=24.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhc
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKAD  197 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~  197 (512)
                      ++++|+|..|+|||||+.++...++.+
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~L~~~   28 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAAAVRE   28 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHhC
Confidence            689999999999999999999887754

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=96.75  E-value=0.00067  Score=61.49  Aligned_cols=27  Identities=22%  Similarity=0.231  Sum_probs=24.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .++.|.++|++|+||||||+.++....
T Consensus        31 ~P~~ilL~GpPGtGKT~la~~la~~~~   57 (273)
T d1gvnb_          31 SPTAFLLGGQPGSGKTSLRSAIFEETQ   57 (273)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHTT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHhh
Confidence            456789999999999999999998765

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=96.73  E-value=0.001  Score=60.64  Aligned_cols=52  Identities=19%  Similarity=0.271  Sum_probs=39.5

Q ss_pred             HHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCC
Q 010355          158 LNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQR  211 (512)
Q Consensus       158 l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~  211 (512)
                      +..+...+..++.++|.+.|-||+||||++..++.....+.  ..++-|.+...
T Consensus         8 ~~~~~~~~~~~~~~iii~sGKGGVGKTT~a~nLA~~lA~~G--~rVllvD~Dp~   59 (279)
T d1ihua2           8 LSALVDDIARNEHGLIMLMGKGGVGKTTMAAAIAVRLADMG--FDVHLTTSDPA   59 (279)
T ss_dssp             HHHHHHHHHTTSCEEEEEECSTTSSHHHHHHHHHHHHHHTT--CCEEEEESCCC
T ss_pred             HHHHHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHHHHCC--CcEEEEeCCCC
Confidence            55667777788899999999999999999998888776432  34666665533

>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=96.73  E-value=0.0021  Score=59.26  Aligned_cols=70  Identities=13%  Similarity=0.190  Sum_probs=43.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCe
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKK  250 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~  250 (512)
                      .++.++|++|+|||.||+.++.....+..|   +-+..+.-.+               .........+..+++..+  ++
T Consensus       124 g~~l~~G~pG~GKT~la~ala~~~~~~~~~---~~~~~~~~~~---------------~~~G~~e~~~~~~f~~a~--~~  183 (321)
T d1w44a_         124 GMVIVTGKGNSGKTPLVHALGEALGGKDKY---ATVRFGEPLS---------------GYNTDFNVFVDDIARAML--QH  183 (321)
T ss_dssp             EEEEEECSSSSCHHHHHHHHHHHHHTTSCC---EEEEBSCSST---------------TCBCCHHHHHHHHHHHHH--HC
T ss_pred             ceEEEECCCCccHHHHHHHHHHHhcCCCCe---EEEEhhHhhh---------------cccchHHHHHHHHHHHHh--hc
Confidence            566779999999999999999987533223   2234333221               011122334455555554  36


Q ss_pred             EEEEEeCCCC
Q 010355          251 ILVILDDIWT  260 (512)
Q Consensus       251 ~LlVlDdv~~  260 (512)
                      ++|++|.+..
T Consensus       184 ~ilf~DEid~  193 (321)
T d1w44a_         184 RVIVIDSLKN  193 (321)
T ss_dssp             SEEEEECCTT
T ss_pred             cEEEeehhhh
Confidence            7999999964

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=96.70  E-value=0.00044  Score=58.71  Aligned_cols=26  Identities=19%  Similarity=0.307  Sum_probs=23.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      ++|+|.|++|+||||+++.++..+..
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l~~   27 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNLRK   27 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            68999999999999999999988764

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=96.69  E-value=0.00053  Score=57.53  Aligned_cols=27  Identities=26%  Similarity=0.267  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ....|.|.|++|+||||+|+.++....
T Consensus         4 k~~~I~i~G~~GsGKTT~~~~La~~l~   30 (174)
T d1y63a_           4 KGINILITGTPGTGKTSMAEMIAAELD   30 (174)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHhC
Confidence            445789999999999999999998753

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.62  E-value=0.00043  Score=57.89  Aligned_cols=23  Identities=22%  Similarity=0.387  Sum_probs=20.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhhh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      |.+.|++|+||||+++.++....
T Consensus         4 IvliG~~G~GKSTig~~La~~l~   26 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKALG   26 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            45669999999999999998876

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.61  E-value=0.00049  Score=58.04  Aligned_cols=26  Identities=27%  Similarity=0.542  Sum_probs=22.4

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      +...+|.++|++|+||||+|++++..
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~~   37 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLVS   37 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHh
Confidence            45689999999999999999987654

>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=96.60  E-value=0.0006  Score=59.24  Aligned_cols=27  Identities=26%  Similarity=0.357  Sum_probs=23.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      +.+|.++|.+|+||||||++++.....
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~l~~   28 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRYLNF   28 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            357899999999999999999987653

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=96.56  E-value=0.00048  Score=57.87  Aligned_cols=26  Identities=19%  Similarity=0.322  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      +.++|.|.|++|+||||+|+.+....
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            35789999999999999999997654

>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=96.55  E-value=0.00061  Score=56.69  Aligned_cols=23  Identities=30%  Similarity=0.514  Sum_probs=21.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhhh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      |+|.|++|+||||+++.++....
T Consensus         3 I~liG~~GsGKsTi~k~La~~l~   25 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKDLD   25 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            67889999999999999999875

>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=96.54  E-value=0.00056  Score=57.46  Aligned_cols=25  Identities=32%  Similarity=0.337  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      +.|.|.|++|+||||+|+.++....
T Consensus         3 ~~Iil~G~~GsGKSTia~~LA~~Lg   27 (170)
T d1e6ca_           3 EPIFMVGARGCGMTTVGRELARALG   27 (170)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHhC
Confidence            3466889999999999999998876

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=96.49  E-value=0.00087  Score=62.23  Aligned_cols=45  Identities=27%  Similarity=0.305  Sum_probs=33.1

Q ss_pred             cccchHHHHHHHHHhc--------------CCCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          151 FESRMSTLNDVINALK--------------NPDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       151 ~~gR~~~l~~l~~~L~--------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ++|.++.++.|...+.              ....+.+.++|++|+|||.||+.+++...
T Consensus        16 ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~~   74 (309)
T d1ofha_          16 IIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLAN   74 (309)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             ccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhccc
Confidence            5677777766654431              11346788999999999999999998754

>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=96.47  E-value=0.0014  Score=55.72  Aligned_cols=26  Identities=23%  Similarity=0.351  Sum_probs=23.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      ++|+|.|++|+||||+++.++..+..
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~L~~   27 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEILDN   27 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            68999999999999999999988864

>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=96.47  E-value=0.00077  Score=59.07  Aligned_cols=41  Identities=27%  Similarity=0.242  Sum_probs=32.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIAD  223 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~  223 (512)
                      .++|+|.|++|+||||+|+.+++.+.-         .++    +...+++.++.
T Consensus         3 ~piI~I~GppGSGKgT~ak~La~~~gl---------~~i----StGdLlR~~a~   43 (225)
T d1ckea_           3 APVITIDGPSGAGKGTLCKAMAEALQW---------HLL----DSGAIYRVLAL   43 (225)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHHTC---------EEE----EHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCC---------cEE----CHHHHHHHHHH
Confidence            479999999999999999999998862         122    45677777654

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=96.45  E-value=0.0064  Score=54.54  Aligned_cols=89  Identities=22%  Similarity=0.368  Sum_probs=57.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCC-CHHHHHHHHHHHhCCC-------------CCCCCch-
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRP-DVKKIQGQIADKLGLK-------------FYEESES-  235 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~ll~~i~~~l~~~-------------~~~~~~~-  235 (512)
                      +-++|.|.+|+|||+|+..+++.... .+-+.++++-+++.. ...++++.+...--..             ....+.. 
T Consensus        69 Qr~~If~~~g~GKt~l~~~i~~~~~~-~~~~v~V~~~iGer~~ev~~~~~~~~~~~~~~~~~~~~~tvvv~~~s~~~~~~  147 (276)
T d2jdid3          69 GKIGLFGGAGVGKTVLIMELINNVAK-AHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKVALVYGQMNEPPGA  147 (276)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHTT-TCSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSSCCCEEEEEECTTSCHHH
T ss_pred             CEEEeeCCCCCCHHHHHHHHHHHHHh-hCCCeEEEEEeccChHHHHHHHHHHHhcCccccccccceEEEEEECCCCCHHH
Confidence            45899999999999999999887532 234567888888764 4556667666531110             0011111 


Q ss_pred             -----HHHHHHHHHHh-C-CCeEEEEEeCCCC
Q 010355          236 -----GRARKLCERLK-K-EKKILVILDDIWT  260 (512)
Q Consensus       236 -----~~~~~l~~~l~-~-~k~~LlVlDdv~~  260 (512)
                           .....+.+++. . ++++||++||+..
T Consensus       148 r~~~~~~a~~iAEyf~~~~G~~VLv~~Dsltr  179 (276)
T d2jdid3         148 RARVALTGLTVAEYFRDQEGQDVLLFIDNIFR  179 (276)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCSCEEEEEECTHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCeEEEEEcchhH
Confidence                 12335666765 3 8999999999853

>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=96.45  E-value=0.00078  Score=56.73  Aligned_cols=24  Identities=42%  Similarity=0.523  Sum_probs=21.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      |+|+|++|+|||||++.++.....
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~l~~   26 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVERLGK   26 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHGG
T ss_pred             EEEECCCCcHHHHHHHHHHhcCCC
Confidence            789999999999999999987753

>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=96.43  E-value=0.0018  Score=59.39  Aligned_cols=46  Identities=20%  Similarity=0.144  Sum_probs=34.3

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCH
Q 010355          167 NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDV  214 (512)
Q Consensus       167 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  214 (512)
                      ++..++|.+.|-||+||||+|..++.....+  -..+.-|++....++
T Consensus         5 ~~~p~~i~~sGKGGVGKTTvaa~lA~~lA~~--G~rVLlvD~Dp~~~l   50 (296)
T d1ihua1           5 QNIPPYLFFTGKGGVGKTSISCATAIRLAEQ--GKRVLLVSTDPASNV   50 (296)
T ss_dssp             SSCCSEEEEECSTTSSHHHHHHHHHHHHHHT--TCCEEEEECCTTCCH
T ss_pred             CCCCeEEEEECCCcChHHHHHHHHHHHHHHC--CCCEEEEeCCCCCCH
Confidence            4457899999999999999999998887643  235666776544433

>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=96.43  E-value=0.0039  Score=55.11  Aligned_cols=46  Identities=13%  Similarity=0.107  Sum_probs=33.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCC----CCeEEEEEeCCCCCHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKL----FDEVVYAEVSQRPDVK  215 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~----f~~~~wv~~~~~~~~~  215 (512)
                      -+++.|+|.+|+|||+|+.+++........    -..++|++........
T Consensus        34 G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~   83 (251)
T d1szpa2          34 GSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPV   83 (251)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSCCCGG
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeecchHHHH
Confidence            479999999999999999998765432211    2467888877665543

>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=96.39  E-value=0.0045  Score=55.95  Aligned_cols=97  Identities=20%  Similarity=0.263  Sum_probs=53.8

Q ss_pred             HHHHHhc-CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEE-EeCCCCCHHHHHHHHHHHhCC----CCCCCC
Q 010355          160 DVINALK-NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYA-EVSQRPDVKKIQGQIADKLGL----KFYEES  233 (512)
Q Consensus       160 ~l~~~L~-~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv-~~~~~~~~~~ll~~i~~~l~~----~~~~~~  233 (512)
                      ++++.|. -..-+-++|.|.+|+|||+|+..+++..... +-.+++.+ .+.....  ++ ..+......    .....+
T Consensus        32 r~ID~l~PigrGQr~~I~g~~g~GKT~l~~~i~~~~~~~-~~~~v~~~~~iger~~--ev-~~~~~~~~~~vv~~t~d~~  107 (289)
T d1xpua3          32 RVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYN-HPDCVLMVLLIDERPE--EV-TEMQRLVKGEVVASTFDEP  107 (289)
T ss_dssp             HHHHHHSCCBTTCEEEEEECSSSSHHHHHHHHHHHHHHH-CTTSEEEEEEEEECHH--HH-HHHHHHCSSEEEEEETTSC
T ss_pred             eeeeecccccCCCeeeEeCCCCCCHHHHHHHHHHHHhhc-CCCeEEEEEeeceeHH--HH-HhHHhhcceEEEeccCCCc
Confidence            4566665 2334678999999999999999999876543 23333333 3333221  11 222222210    011111


Q ss_pred             ch------HHHHHHHHHHh-CCCeEEEEEeCCCC
Q 010355          234 ES------GRARKLCERLK-KEKKILVILDDIWT  260 (512)
Q Consensus       234 ~~------~~~~~l~~~l~-~~k~~LlVlDdv~~  260 (512)
                      ..      .....+.+++. .++.+||++|++..
T Consensus       108 ~~~r~~~~~~a~~iAEyfrd~G~dVLli~Dsltr  141 (289)
T d1xpua3         108 ASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITR  141 (289)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTTCEEEEEESCHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHhccCceeecCcHHH
Confidence            11      12334555554 47899999999854

>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=96.36  E-value=0.001  Score=56.96  Aligned_cols=26  Identities=15%  Similarity=0.185  Sum_probs=23.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      +.+|.|.|++|+||||+|+.++....
T Consensus         1 p~iI~i~GppGSGKsT~a~~La~~~g   26 (194)
T d1teva_           1 PLVVFVLGGPGAGKGTQCARIVEKYG   26 (194)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            36899999999999999999998764

>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=96.31  E-value=0.0028  Score=58.79  Aligned_cols=55  Identities=22%  Similarity=0.291  Sum_probs=37.4

Q ss_pred             HHHHHHHhc--CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCC
Q 010355          158 LNDVINALK--NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRP  212 (512)
Q Consensus       158 l~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~  212 (512)
                      ...|+..+.  ..+..+|+|.|++|+|||||..++........+=-.++-++.+.++
T Consensus        37 ~~~~~~~~~~~~~~~~~igitG~pGaGKSTli~~l~~~~~~~g~~vaViavDpss~~   93 (323)
T d2qm8a1          37 VRDLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSSTR   93 (323)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECGGGGS
T ss_pred             HHHHHHHhhhccCCceEEeeeCCCCCCHHHHHHHHHHHHhhcCCceeeeecccccHH
Confidence            444555443  5578999999999999999999999876543322344555544443

>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=96.25  E-value=0.0033  Score=58.46  Aligned_cols=62  Identities=18%  Similarity=0.254  Sum_probs=35.2

Q ss_pred             HHHHHHhc--CCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHH
Q 010355          159 NDVINALK--NPDVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQ  220 (512)
Q Consensus       159 ~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~  220 (512)
                      .+++..+.  .++..+|+|+|++|+|||||...+......+.+=-+++-++.+.+.+-..++..
T Consensus        41 ~~ll~~~~~~~~~~~~IgitG~pGaGKSTLi~~l~~~~~~~g~~vavlavDpss~~~ggailgd  104 (327)
T d2p67a1          41 TQLLDAIMPYCGNTLRLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIAVDPSSPVTGGSILGD  104 (327)
T ss_dssp             HHHHHHHGGGCSCSEEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC-----------
T ss_pred             HHHHHHhhhccCCceEEEeeCCCCCCHHHHHHHHHHHHHhcCCceeeecCCCceeeeccccccc
Confidence            34444443  456899999999999999999999887765432223444444444444444443

>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=96.24  E-value=0.0024  Score=55.39  Aligned_cols=31  Identities=29%  Similarity=0.324  Sum_probs=26.2

Q ss_pred             hcCCCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          165 LKNPDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       165 L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      +...+..+|.|.|++|+||||||+.+.....
T Consensus        19 ~~~~kg~vIwltGlsGsGKTTia~~L~~~l~   49 (208)
T d1m7ga_          19 LRNQRGLTIWLTGLSASGKSTLAVELEHQLV   49 (208)
T ss_dssp             HHTSSCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             HhCCCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3445678999999999999999999987764

>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=96.09  E-value=0.0014  Score=55.86  Aligned_cols=26  Identities=12%  Similarity=0.075  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      +..|.|.|++|+||||+|+.+++...
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~~~~   28 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKTKYQ   28 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHC
Confidence            34578999999999999999988774

>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=96.05  E-value=0.0017  Score=55.63  Aligned_cols=27  Identities=19%  Similarity=0.263  Sum_probs=23.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ..++|.|.|++|+||||+|+.++....
T Consensus         7 ~~~iI~l~G~pGSGKsT~a~~La~~~g   33 (194)
T d3adka_           7 KSKIIFVVGGPGSGKGTQCEKIVQKYG   33 (194)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHTC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            358899999999999999999988654

>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=96.05  E-value=0.0038  Score=56.38  Aligned_cols=37  Identities=16%  Similarity=0.326  Sum_probs=29.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeC
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVS  209 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~  209 (512)
                      +.|+|+|-||+||||+|..++......  -..++-|++.
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~~LA~~--G~rVllID~D   38 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTSGLHAM--GKTIMVVGCD   38 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHTT--TCCEEEEEEC
T ss_pred             CEEEEECCCcCCHHHHHHHHHHHHHhC--CCcEEEEecC
Confidence            689999999999999999999888743  2356666664

>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=96.02  E-value=0.0017  Score=54.79  Aligned_cols=23  Identities=17%  Similarity=0.329  Sum_probs=20.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhhh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      |+|.|++|+||||+|+.++....
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~~   25 (182)
T d1zina1           3 LVLMGLPGAGKGTQAEKIVAAYG   25 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHC
Confidence            77999999999999999988764

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=95.99  E-value=0.0023  Score=54.57  Aligned_cols=26  Identities=23%  Similarity=0.337  Sum_probs=21.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      +.++| |.|++|+||||+|+.++....
T Consensus         3 ~~rii-l~G~pGSGKsT~a~~La~~~g   28 (190)
T d1ak2a1           3 GVRAV-LLGPPGAGKGTQAPKLAKNFC   28 (190)
T ss_dssp             CCEEE-EECCTTSSHHHHHHHHHHHHT
T ss_pred             ccEEE-EECCCCCCHHHHHHHHHHHhC
Confidence            45666 689999999999999998764

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.98  E-value=0.0022  Score=55.70  Aligned_cols=27  Identities=19%  Similarity=0.322  Sum_probs=23.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      +-+|+|.|..|+||||||+.+......
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~~l~~   28 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQLLGQ   28 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHTTG
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhch
Confidence            458999999999999999999887653

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=95.97  E-value=0.019  Score=52.43  Aligned_cols=27  Identities=19%  Similarity=0.174  Sum_probs=24.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .+-+|+|.|.+|+||||+|+.+.....
T Consensus        79 ~P~iIGIaG~sgSGKSTla~~L~~lL~  105 (308)
T d1sq5a_          79 IPYIISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEEeCCCCCCCcHHHHHHHHHHh
Confidence            457999999999999999999998775

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.94  E-value=0.0018  Score=55.18  Aligned_cols=25  Identities=28%  Similarity=0.359  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      +.|+|+|++|+|||||++.++....
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~~~~   26 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFAEYP   26 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhCC
Confidence            4578999999999999999988765

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.92  E-value=0.0021  Score=54.34  Aligned_cols=24  Identities=21%  Similarity=0.236  Sum_probs=21.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      -|+|.|++|+||||+|+.++....
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~~g   25 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEKLG   25 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            377889999999999999998874

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.89  E-value=0.0019  Score=55.23  Aligned_cols=24  Identities=25%  Similarity=0.407  Sum_probs=21.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .|+|+|++|+|||||++.++....
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~~   25 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEHS   25 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHhCC
Confidence            477999999999999999988765

>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=95.87  E-value=0.0022  Score=56.02  Aligned_cols=41  Identities=22%  Similarity=0.207  Sum_probs=30.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHH
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADK  224 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~  224 (512)
                      -+|+|-|++|+||||+|+.++..+...       ++      +...+++.++..
T Consensus         4 i~IaIdGp~GsGKgT~ak~La~~lg~~-------~i------stGdl~R~~a~~   44 (223)
T d1q3ta_           4 IQIAIDGPASSGKSTVAKIIAKDFGFT-------YL------DTGAMYRAATYM   44 (223)
T ss_dssp             CEEEEECSSCSSHHHHHHHHHHHHCCE-------EE------EHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCc-------EE------CHHHHHHHHHHH
Confidence            368899999999999999999987621       22      345777776543

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=95.87  E-value=0.0026  Score=54.20  Aligned_cols=26  Identities=15%  Similarity=0.317  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .-.|.|.|++|+||||+|+.++....
T Consensus         6 ~mrIiliG~PGSGKtT~a~~La~~~g   31 (189)
T d2ak3a1           6 LLRAAIMGAPGSGKGTVSSRITKHFE   31 (189)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHBC
T ss_pred             ceeEEEECCCCCCHHHHHHHHHHHHC
Confidence            34566789999999999999998754

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=95.86  E-value=0.0022  Score=54.22  Aligned_cols=24  Identities=21%  Similarity=0.318  Sum_probs=21.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .|+|.|++|+||||+|+.++....
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~g   25 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKYG   25 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            367899999999999999998864

>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=95.84  E-value=0.002  Score=60.45  Aligned_cols=47  Identities=17%  Similarity=0.272  Sum_probs=34.9

Q ss_pred             CccccccchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          147 GYEAFESRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       147 ~~~~~~gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      +...++|.+..+..|.-.+...+.+-|.|.|.+|+|||+||+.+..-
T Consensus         5 ~f~~I~Gq~~~kral~laa~~~~~h~vLl~G~pG~GKT~lar~~~~i   51 (333)
T d1g8pa_           5 PFSAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAAL   51 (333)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHHH
T ss_pred             ChhhccCcHHHHHHHHHHHhccCCCeEEEECCCCccHHHHHHHHHHh
Confidence            45577999877765553333333456899999999999999999864

>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=95.77  E-value=0.0027  Score=53.70  Aligned_cols=25  Identities=20%  Similarity=0.340  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ++|+|+|++|+|||||++.+.....
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~~~~   27 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRERIP   27 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhCC
Confidence            5789999999999999999987653

>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=95.64  E-value=0.003  Score=53.26  Aligned_cols=23  Identities=17%  Similarity=0.251  Sum_probs=19.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhhh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      |+|.|++|+||||+|+.++....
T Consensus         5 Ivl~G~pGSGKtT~a~~La~~~g   27 (180)
T d1akya1           5 MVLIGPPGAGKGTQAPNLQERFH   27 (180)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            45779999999999999998764

>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=95.62  E-value=0.012  Score=52.00  Aligned_cols=48  Identities=21%  Similarity=0.307  Sum_probs=35.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhc----CCCCeEEEEEeCCCCCHHHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKAD----KLFDEVVYAEVSQRPDVKKI  217 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~----~~f~~~~wv~~~~~~~~~~l  217 (512)
                      -+++.|+|++|+|||+||.+++......    .....++|+..........+
T Consensus        36 G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (254)
T d1pzna2          36 QAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERI   87 (254)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHhhchHHhcCCCceEEEEeccchhHHHHH
Confidence            4799999999999999999998765422    12356788887776665433

>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=95.58  E-value=0.0035  Score=52.81  Aligned_cols=25  Identities=16%  Similarity=0.320  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      +.|+|+|++|+|||||++.+.....
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~~~   28 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITKHP   28 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhCC
Confidence            6789999999999999999987654

>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=95.56  E-value=0.018  Score=52.00  Aligned_cols=80  Identities=10%  Similarity=0.025  Sum_probs=46.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCC-CeEEEEEeCCCCCHHHHHHHHHHHhCCC-------CCCCCchHHHHH
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLF-DEVVYAEVSQRPDVKKIQGQIADKLGLK-------FYEESESGRARK  240 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f-~~~~wv~~~~~~~~~~ll~~i~~~l~~~-------~~~~~~~~~~~~  240 (512)
                      .+-+|+|.|..|+|||||+..+.........+ ..++-++...-+-...-...+.......       .+..-+...+..
T Consensus        26 ~P~iIGi~G~qGSGKSTl~~~l~~~L~~~~~~~~~v~~iS~DdfY~t~~~r~~L~~~~~~~pl~~~RG~PgThD~~ll~~  105 (286)
T d1odfa_          26 CPLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDFYLTHEDQLKLNEQFKNNKLLQGRGLPGTHDMKLLQE  105 (286)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGGBCCHHHHHHHHHHTTTCGGGSSSCSTTSBCHHHHHH
T ss_pred             CCEEEEeECCCCCCHHHHHHHHHHHHHHHhCCCcceEeeccCCCCCCHHHHHHHhhhccccccceecCCCcchhHHHHHH
Confidence            34588999999999999999888776433222 2455556544433233233444443211       123334566667


Q ss_pred             HHHHHhCC
Q 010355          241 LCERLKKE  248 (512)
Q Consensus       241 l~~~l~~~  248 (512)
                      .+..|.++
T Consensus       106 ~l~~l~~~  113 (286)
T d1odfa_         106 VLNTIFNN  113 (286)
T ss_dssp             HHHHHTC-
T ss_pred             HHHHHHhh
Confidence            77777643

>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=95.51  E-value=0.0034  Score=52.78  Aligned_cols=23  Identities=17%  Similarity=0.096  Sum_probs=20.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhhh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      |+|.|++|+||||+|+.++....
T Consensus         3 I~i~G~pGSGKsT~~~~La~~~~   25 (179)
T d1e4va1           3 IILLGAPVAGKGTQAQFIMEKYG   25 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            67899999999999999998764

>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=95.51  E-value=0.0071  Score=55.15  Aligned_cols=40  Identities=15%  Similarity=0.288  Sum_probs=30.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCC
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQR  211 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~  211 (512)
                      .+.|+|+|-||+||||+|..++......  -..++-|++...
T Consensus         2 Mr~IaisgKGGVGKTT~a~NLA~~LA~~--G~rVLlID~DpQ   41 (289)
T d2afhe1           2 MRQCAIYGKGGIGKSTTTQNLVAALAEM--GKKVMIVGCDPK   41 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHHHT--TCCEEEEEECSS
T ss_pred             ccEEEEECCCCCCHHHHHHHHHHHHHHC--CCCEEEEecCCC
Confidence            4678899999999999999998877643  235777777543

>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=95.24  E-value=0.006  Score=53.82  Aligned_cols=24  Identities=38%  Similarity=0.483  Sum_probs=21.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ||+|.|+.|+|||||...+.+...
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~~   25 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYLE   25 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHHh
Confidence            789999999999999999987654

>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=95.24  E-value=0.011  Score=50.94  Aligned_cols=27  Identities=19%  Similarity=0.224  Sum_probs=24.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhc
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKAD  197 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~  197 (512)
                      ..|+|.|+.|+||||+++.+++....+
T Consensus         4 ~lI~ieG~dGsGKsT~~~~L~~~L~~~   30 (209)
T d1nn5a_           4 ALIVLEGVDRAGKSTQSRKLVEALCAA   30 (209)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            578999999999999999999987653

>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=95.19  E-value=0.011  Score=52.46  Aligned_cols=46  Identities=13%  Similarity=0.294  Sum_probs=34.4

Q ss_pred             ccccchHHHHHHHHHhc--CCCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          150 AFESRMSTLNDVINALK--NPDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       150 ~~~gR~~~l~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .|||....++++.+.+.  ......|.|+|..|+|||++|+.+.....
T Consensus         1 ~~v~~S~~~~~~~~~~~~~a~~~~pvlI~Ge~GtGK~~~A~~ih~~s~   48 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIKKISCAECPVLITGESGVGKEVVARLIHKLSD   48 (247)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHHST
T ss_pred             CeEecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhcC
Confidence            37788777877777665  22233468999999999999999986543

>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=95.13  E-value=0.012  Score=51.51  Aligned_cols=38  Identities=18%  Similarity=0.217  Sum_probs=30.5

Q ss_pred             eEEEEE-cCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCC
Q 010355          171 HMIGAY-GMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQ  210 (512)
Q Consensus       171 ~vi~I~-G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~  210 (512)
                      ++|+|+ |-||+||||+|..++......  -..++.|.+..
T Consensus         2 kvIav~s~KGGvGKTtia~nlA~~la~~--g~~VlliD~D~   40 (232)
T d1hyqa_           2 RTITVASGKGGTGKTTITANLGVALAQL--GHDVTIVDADI   40 (232)
T ss_dssp             EEEEEEESSSCSCHHHHHHHHHHHHHHT--TCCEEEEECCC
T ss_pred             EEEEEECCCCCChHHHHHHHHHHHHHhC--CCCEEEEeCCC
Confidence            678877 899999999999999888743  34688887753

>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=95.13  E-value=0.021  Score=49.67  Aligned_cols=41  Identities=15%  Similarity=0.162  Sum_probs=27.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCC
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQ  210 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~  210 (512)
                      .-.++.|+|.+|+|||+||.+++...... .-..++|++...
T Consensus        25 ~G~~~~I~G~~G~GKT~la~~~~~~~~~~-~~~~~~~~s~e~   65 (242)
T d1tf7a1          25 IGRSTLVSGTSGTGKTLFSIQFLYNGIIE-FDEPGVFVTFEE   65 (242)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHH-HCCCEEEEESSS
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHHh-cCCCcccccccC
Confidence            34789999999999999998876543221 122456665543

>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=95.10  E-value=0.0056  Score=51.99  Aligned_cols=22  Identities=27%  Similarity=0.398  Sum_probs=19.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVA  191 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~  191 (512)
                      +-+|+|+|..|+||||+|..+.
T Consensus         3 p~IIgitG~~gSGKstva~~l~   24 (191)
T d1uf9a_           3 PIIIGITGNIGSGKSTVAALLR   24 (191)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
Confidence            4689999999999999999773

>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=95.08  E-value=0.0068  Score=52.23  Aligned_cols=25  Identities=16%  Similarity=0.300  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .+|+|+|++|+|||||.+.+.....
T Consensus         3 ~livi~GPSG~GK~tl~~~L~~~~p   27 (205)
T d1s96a_           3 TLYIVSAPSGAGKSSLIQALLKTQP   27 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhCC
Confidence            6789999999999999999987653

>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=95.07  E-value=0.057  Score=48.31  Aligned_cols=52  Identities=19%  Similarity=0.169  Sum_probs=35.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKL  225 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l  225 (512)
                      .++.|.|.+|+|||+++.+++........ ..+++++..  .+...+...++...
T Consensus        36 ~l~vi~G~~G~GKT~~~~~la~~~a~~~g-~~v~~~s~E--~~~~~~~~r~~~~~   87 (277)
T d1cr2a_          36 EVIMVTSGSGMGKSTFVRQQALQWGTAMG-KKVGLAMLE--ESVEETAEDLIGLH   87 (277)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHHTSC-CCEEEEESS--SCHHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhhhhhcc-cceeEeeec--cchhhHHhHHHHHh
Confidence            57889999999999999999876543222 245555544  45666666665543

>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=94.98  E-value=0.0047  Score=52.75  Aligned_cols=27  Identities=19%  Similarity=0.228  Sum_probs=22.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .+.-+|+|-|.-|+||||+++.+.+..
T Consensus         7 ~kp~~I~ieG~~GsGKTTl~~~L~~~l   33 (197)
T d2vp4a1           7 TQPFTVLIEGNIGSGKTTYLNHFEKYK   33 (197)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGGGT
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            345689999999999999999987654

>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=94.97  E-value=0.021  Score=49.02  Aligned_cols=51  Identities=16%  Similarity=0.186  Sum_probs=33.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHH
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIA  222 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~  222 (512)
                      +.|+|-|+.|+||||+++.+....... .+..+++..-+......+.++...
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~~L~~~-g~~~~~~~~ep~~~~~g~~i~~~~   53 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVETLEQL-GIRDMVFTREPGGTQLAEKLRSLL   53 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHHT-TCCCEEEEESSCSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHhC-CCCeEEEecCCCCccchhhhHHHH
Confidence            578999999999999999999887643 244455544333333444444444

>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=94.96  E-value=0.013  Score=55.14  Aligned_cols=29  Identities=21%  Similarity=0.118  Sum_probs=25.5

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          167 NPDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       167 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .+..+.+.++|++|+|||++|..+++...
T Consensus       151 ~~~~~~~~~~g~~~~gk~~~~~~~~~~~~  179 (362)
T d1svma_         151 IPKKRYWLFKGPIDSGKTTLAAALLELCG  179 (362)
T ss_dssp             CTTCCEEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CCCcCeEEEECCCCCCHHHHHHHHHHHcC
Confidence            34567999999999999999999999876

>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=94.91  E-value=0.029  Score=50.20  Aligned_cols=88  Identities=17%  Similarity=0.231  Sum_probs=52.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCC-CHHHHHHHHHHHhCCC-------CCCCCc------hH
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRP-DVKKIQGQIADKLGLK-------FYEESE------SG  236 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~ll~~i~~~l~~~-------~~~~~~------~~  236 (512)
                      .-++|.|.+|+|||+|+........  .+...++++-++... ...++...+...-...       ....+.      ..
T Consensus        68 Qr~~Ifg~~g~GKt~l~~~~~~~~~--~~~~v~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~tsd~p~~~r~~a~~  145 (276)
T d1fx0a3          68 QRELIIGDRQTGKTAVATDTILNQQ--GQNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYLAPY  145 (276)
T ss_dssp             CBCBEEESSSSSHHHHHHHHHHTCC--TTTCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGTTHHHH
T ss_pred             ceEeeccCCCCChHHHHHHHHhhhc--ccCceeeeeeecchhHHHHHHHHhhccCCcceeeeecccccCccHHHHHHHHH
Confidence            4478899999999999988765544  334567777777654 3334444433221110       001111      12


Q ss_pred             HHHHHHHHHh-CCCeEEEEEeCCCC
Q 010355          237 RARKLCERLK-KEKKILVILDDIWT  260 (512)
Q Consensus       237 ~~~~l~~~l~-~~k~~LlVlDdv~~  260 (512)
                      ....+.++++ ++++.||++||+..
T Consensus       146 ~a~tiAEyfrd~G~~Vlll~Dsltr  170 (276)
T d1fx0a3         146 TGAALAEYFMYRERHTLIIYDDLSK  170 (276)
T ss_dssp             HHHHHHHHHHHTTCEEEEEEECHHH
T ss_pred             HHHHHHHHHHHcCCceeEEeeccHH
Confidence            3345555654 47899999999853

>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=94.82  E-value=0.0078  Score=48.98  Aligned_cols=22  Identities=23%  Similarity=0.321  Sum_probs=19.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      |+|+|.+|+|||||...+....
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            6799999999999999987653

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.82  E-value=0.033  Score=49.01  Aligned_cols=46  Identities=15%  Similarity=0.205  Sum_probs=34.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhc----CCCCeEEEEEeCCCCCHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKAD----KLFDEVVYAEVSQRPDVK  215 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~----~~f~~~~wv~~~~~~~~~  215 (512)
                      -+++.|+|.+|+|||+||.+++......    ..+..+.|+.........
T Consensus        37 G~~~~i~G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (258)
T d1v5wa_          37 MAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPD   86 (258)
T ss_dssp             SEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHhhhhcccccceEEEechHHHHHHH
Confidence            4799999999999999999998764321    234568888877766543

>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=94.74  E-value=0.009  Score=52.70  Aligned_cols=27  Identities=22%  Similarity=0.288  Sum_probs=24.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      +++.|+|-|+-|+||||+++.+.....
T Consensus         1 ~pk~IviEG~~GsGKST~~~~L~~~l~   27 (241)
T d2ocpa1           1 GPRRLSIEGNIAVGKSTFVKLLTKTYP   27 (241)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHCT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHh
Confidence            468899999999999999999998764

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.73  E-value=0.0071  Score=52.18  Aligned_cols=46  Identities=13%  Similarity=0.127  Sum_probs=31.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCC----CCeEEEEEeCCCCCHH
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKL----FDEVVYAEVSQRPDVK  215 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~----f~~~~wv~~~~~~~~~  215 (512)
                      -.++.|.|++|+|||+||.+++........    +....++.........
T Consensus        23 G~v~~i~G~~GsGKT~l~l~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~   72 (242)
T d1n0wa_          23 GSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPE   72 (242)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHH
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHHHHHhhccccccceehhhhhhhhhHHH
Confidence            479999999999999999999876543322    2344555555444443

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=94.63  E-value=0.0051  Score=55.59  Aligned_cols=28  Identities=14%  Similarity=0.274  Sum_probs=21.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      +.++|+|.|.+|+||||+++.+.+.++.
T Consensus         3 k~pIIgIaG~SGSGKTTva~~l~~i~~~   30 (288)
T d1a7ja_           3 KHPIISVTGSSGAGTSTVKHTFDQIFRR   30 (288)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHHhh
Confidence            4579999999999999999999887754

>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=94.62  E-value=0.024  Score=48.99  Aligned_cols=27  Identities=19%  Similarity=0.203  Sum_probs=23.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      +.+.|+|-|+-|+||||+++.++....
T Consensus         2 kGk~I~iEG~DGsGKST~~~~L~~~L~   28 (214)
T d1tmka_           2 RGKLILIEGLDRTGKTTQCNILYKKLQ   28 (214)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             CeEEEEEECCCCCcHHHHHHHHHHHHH
Confidence            346899999999999999999998875

>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=94.61  E-value=0.014  Score=49.95  Aligned_cols=26  Identities=31%  Similarity=0.532  Sum_probs=22.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhhhc
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQAKAD  197 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~~~~  197 (512)
                      .|+|-|.-|+||||+++.+......+
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l~~~   27 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAFRAA   27 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            58899999999999999999887643

>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=94.61  E-value=0.03  Score=45.49  Aligned_cols=30  Identities=23%  Similarity=0.274  Sum_probs=25.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhhc
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQAKAD  197 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~  197 (512)
                      ...-+|.+.|.=|+||||+++.+++.....
T Consensus        31 ~~g~ii~L~G~LGaGKTtfvr~~~~~lg~~   60 (158)
T d1htwa_          31 EKAIMVYLNGDLGAGKTTLTRGMLQGIGHQ   60 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHTTCC
T ss_pred             CCCeEEEEecCCCccHHHHHHHHHhhcccc
Confidence            344689999999999999999999987654

>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=94.42  E-value=0.014  Score=48.70  Aligned_cols=31  Identities=19%  Similarity=0.258  Sum_probs=22.6

Q ss_pred             HHHhc-CCCceEEEEEcCCCCcHHHHHHHHHH
Q 010355          162 INALK-NPDVHMIGAYGMAGVGKTMLVKEVAR  192 (512)
Q Consensus       162 ~~~L~-~~~~~vi~I~G~gGiGKTtLa~~v~~  192 (512)
                      ++.+. ..+..-|+|+|.+|+|||||..++..
T Consensus         4 ~~~~~~~~k~~kI~lvG~~~vGKTsLl~~l~~   35 (186)
T d1f6ba_           4 LQFLGLYKKTGKLVFLGLDNAGKTTLLHMLKD   35 (186)
T ss_dssp             HHHHTCTTCCEEEEEEEETTSSHHHHHHHHSC
T ss_pred             HHhccccCCCCEEEEECCCCCCHHHHHHHHhC
Confidence            34444 23345577999999999999988754

>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=94.41  E-value=0.01  Score=48.72  Aligned_cols=22  Identities=27%  Similarity=0.422  Sum_probs=19.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      |+|+|.+|+|||||...+....
T Consensus         8 I~ivG~~~vGKSSLi~~~~~~~   29 (169)
T d1upta_           8 ILILGLDGAGKTTILYRLQVGE   29 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            7799999999999999987753

>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=94.40  E-value=0.018  Score=47.66  Aligned_cols=34  Identities=12%  Similarity=0.277  Sum_probs=25.5

Q ss_pred             HHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          159 NDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       159 ~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      ..+..++.+...+ |+|+|.+|+|||||+.++...
T Consensus         5 ~~~~~~~~~k~~k-I~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1           5 TRIWRLFNHQEHK-VIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             HHHHHHHTTSCEE-EEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHHHhCCCeEE-EEEECCCCCCHHHHHHHHhcC
Confidence            4556555555544 669999999999999988654

>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=94.40  E-value=0.025  Score=49.53  Aligned_cols=55  Identities=16%  Similarity=0.193  Sum_probs=36.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCC--------------CCeEEEEEeCCCCCHHHHHHHHHHHh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKL--------------FDEVVYAEVSQRPDVKKIQGQIADKL  225 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~--------------f~~~~wv~~~~~~~~~~ll~~i~~~l  225 (512)
                      -.++.|.|.+|+|||++|.+++........              ...++|++........ ....+...+
T Consensus        34 G~l~~i~G~~G~GKT~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~e~~~~~~-~~~~~~~~~  102 (258)
T d2i1qa2          34 QSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPE-RIMQMAEHA  102 (258)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHH-HHHHHHHHH
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHhcCCCceEEeecccchhcCceEEEEEecCCcCHH-HHHHHHhhc
Confidence            479999999999999999999876543211              1246788776555433 333444444

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=94.40  E-value=0.017  Score=54.34  Aligned_cols=26  Identities=27%  Similarity=0.396  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ....+.+.|+.|+|||.||+.++...
T Consensus        67 p~~niLfiGPTGvGKTElAk~LA~~~   92 (364)
T d1um8a_          67 SKSNILLIGPTGSGKTLMAQTLAKHL   92 (364)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCcceeeeCCCCccHHHHHHHHHhhc
Confidence            35668899999999999999998765

>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=94.38  E-value=0.025  Score=49.29  Aligned_cols=37  Identities=19%  Similarity=0.258  Sum_probs=29.6

Q ss_pred             eEEEEE-cCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeC
Q 010355          171 HMIGAY-GMAGVGKTMLVKEVARQAKADKLFDEVVYAEVS  209 (512)
Q Consensus       171 ~vi~I~-G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~  209 (512)
                      ++|+|+ +-||+||||+|..++......  -..++.++..
T Consensus         3 ~vIav~~~kGGvGKTtia~nLA~~la~~--g~~VlliD~D   40 (237)
T d1g3qa_           3 RIISIVSGKGGTGKTTVTANLSVALGDR--GRKVLAVDGD   40 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHHHHT--TCCEEEEECC
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHHHHhC--CCCEEEEeCC
Confidence            688888 789999999999999888743  3457777764

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=94.28  E-value=0.0099  Score=51.91  Aligned_cols=25  Identities=16%  Similarity=0.335  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      -.+++|+|+.|+|||||.+.++.-.
T Consensus        31 Ge~~~iiG~sGsGKSTLl~~i~gl~   55 (230)
T d1l2ta_          31 GEFVSIMGPSGSGKSTMLNIIGCLD   55 (230)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCcchhhHhccCCC
Confidence            4689999999999999999876643

>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=94.28  E-value=0.012  Score=51.73  Aligned_cols=25  Identities=24%  Similarity=0.311  Sum_probs=22.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      -.+++|+|+.|+|||||++.++.-.
T Consensus        29 Ge~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          29 GEFMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCChHHHHHHHHhcCC
Confidence            3689999999999999999998654

>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=94.27  E-value=0.012  Score=51.43  Aligned_cols=25  Identities=24%  Similarity=0.363  Sum_probs=21.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      -.+++|.|+.|+|||||.+.++--.
T Consensus        26 Gei~~liGpsGsGKSTLl~~i~Gl~   50 (232)
T d2awna2          26 GEFVVFVGPSGCGKSTLLRMIAGLE   50 (232)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCChHHHHHHHHhcCC
Confidence            4689999999999999999887654

>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=94.20  E-value=0.013  Score=48.27  Aligned_cols=21  Identities=19%  Similarity=0.411  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~  193 (512)
                      |+++|.+|+|||||+.++.+.
T Consensus         5 v~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999998864

>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=94.14  E-value=0.013  Score=48.67  Aligned_cols=21  Identities=29%  Similarity=0.401  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~  193 (512)
                      |+|+|.+|+|||||+.++.+.
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            678999999999999998765

>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=94.14  E-value=0.009  Score=51.18  Aligned_cols=26  Identities=31%  Similarity=0.475  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      -.+++|+|+.|+|||||.+.++...+
T Consensus        27 Gei~~l~G~NGsGKSTLl~~i~gl~~   52 (200)
T d1sgwa_          27 GNVVNFHGPNGIGKTTLLKTISTYLK   52 (200)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCChHHHHHHHHhcccc
Confidence            36899999999999999999987543

>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=94.12  E-value=0.013  Score=48.23  Aligned_cols=21  Identities=29%  Similarity=0.434  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~  193 (512)
                      |+|+|.+|+|||+|+.++.+.
T Consensus         7 ivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           7 YIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999998865

>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=94.12  E-value=0.014  Score=49.50  Aligned_cols=25  Identities=20%  Similarity=0.340  Sum_probs=21.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHH
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVAR  192 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~  192 (512)
                      .+.+.|+|+|.+|+|||||...+.+
T Consensus        21 ~~~~~I~lvG~~n~GKSTLin~L~g   45 (195)
T d1svia_          21 GGLPEIALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             SCCCEEEEEEBTTSSHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHhcC
Confidence            3456899999999999999999975

>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=94.12  E-value=0.012  Score=51.36  Aligned_cols=25  Identities=24%  Similarity=0.445  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      ..++..|.|+-|+|||||.+++...
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhc
Confidence            5789999999999999999998875

>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=94.09  E-value=0.014  Score=48.05  Aligned_cols=21  Identities=33%  Similarity=0.320  Sum_probs=19.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHHh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~  193 (512)
                      |+|+|.+|+|||||+.++.+.
T Consensus         5 v~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999999875

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=94.03  E-value=0.014  Score=51.15  Aligned_cols=26  Identities=23%  Similarity=0.334  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      -.+++|+|+.|+|||||.+.+..-.+
T Consensus        32 Ge~~~liGpsGaGKSTLl~~i~Gl~~   57 (239)
T d1v43a3          32 GEFLVLLGPSGCGKTTTLRMIAGLEE   57 (239)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             CCEEEEECCCCChHHHHHHHHHcCCC
Confidence            46899999999999999999887543

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=94.01  E-value=0.011  Score=51.87  Aligned_cols=26  Identities=27%  Similarity=0.500  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      -.+++|.|+.|+|||||++.++--.+
T Consensus        31 Ge~~~iiG~sGsGKSTLl~~i~Gl~~   56 (240)
T d3dhwc1          31 GQIYGVIGASGAGKSTLIRCVNLLER   56 (240)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCCcc
Confidence            36899999999999999999876543

>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=94.00  E-value=0.014  Score=51.51  Aligned_cols=26  Identities=35%  Similarity=0.447  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      -..++|+|..|+|||||++.+.....
T Consensus        29 Ge~vaIvG~sGsGKSTLl~ll~gl~~   54 (241)
T d2pmka1          29 GEVIGIVGRSGSGKSTLTKLIQRFYI   54 (241)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            36899999999999999999887543

>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=93.98  E-value=0.093  Score=46.99  Aligned_cols=91  Identities=18%  Similarity=0.170  Sum_probs=51.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCC------CCeEEEEEeCCCC-CHHHHHHHHHHHhCCC-------CCCCCch
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKADKL------FDEVVYAEVSQRP-DVKKIQGQIADKLGLK-------FYEESES  235 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~------f~~~~wv~~~~~~-~~~~ll~~i~~~l~~~-------~~~~~~~  235 (512)
                      -.-++|.|.+|+|||+|+..+.......+.      -..++++-++... ...++...+...-...       ....+..
T Consensus        68 GQr~~If~~~g~GKt~ll~~~~~~~~~~~~~~~~~~~~~~v~~~IGer~~E~~e~~~~~~~~~~~~~tvvv~~ts~~~~~  147 (285)
T d2jdia3          68 GQRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAP  147 (285)
T ss_dssp             TCBCEEEESTTSSHHHHHHHHHHHTHHHHTSSCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTCGGGEEEEEECTTSCHH
T ss_pred             CCEEEeecCCCCChHHHHHHHHHhHHhhccccccccceEEEEeeeCccHHHHHHHHHHhcccccccceEEEEECCCCCHH
Confidence            355789999999999999888765432111      1135666666654 3345555544332211       0111111


Q ss_pred             H------HHHHHHHHHh-CCCeEEEEEeCCCC
Q 010355          236 G------RARKLCERLK-KEKKILVILDDIWT  260 (512)
Q Consensus       236 ~------~~~~l~~~l~-~~k~~LlVlDdv~~  260 (512)
                      .      ....+.+++. ++|++|+++||+..
T Consensus       148 ~r~~~~~~a~tiAEyfrd~G~~VLll~Dsltr  179 (285)
T d2jdia3         148 LQYLAPYSGCSMGEYFRDNGKHALIIYDDLSK  179 (285)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCEEEEEEETHHH
T ss_pred             HHHHHHHHHHHHHHHHHHcCCcEEEEEcChHH
Confidence            1      1223444443 57999999999843

>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=93.93  E-value=0.0081  Score=52.86  Aligned_cols=26  Identities=19%  Similarity=0.317  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .+.|+|-|+-|+||||+++.+.....
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~~l~   27 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQLCE   27 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGGCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHh
Confidence            47899999999999999999887653

>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=93.91  E-value=0.015  Score=50.86  Aligned_cols=25  Identities=24%  Similarity=0.363  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .+++|.|+.|+|||||.+.++.-..
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl~~   49 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGIVK   49 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEEEEECCCCChHHHHHHHHHcCCC
Confidence            4788999999999999999987654

>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=93.90  E-value=0.012  Score=52.35  Aligned_cols=26  Identities=19%  Similarity=0.317  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      -..++|+|+.|+|||||++.+..-..
T Consensus        41 Ge~iaivG~sGsGKSTLl~ll~gl~~   66 (253)
T d3b60a1          41 GKTVALVGRSGSGKSTIASLITRFYD   66 (253)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHTTTTC
T ss_pred             CCEEEEECCCCChHHHHHHHHhcccC
Confidence            46899999999999999999876543

>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=93.90  E-value=0.016  Score=49.52  Aligned_cols=23  Identities=26%  Similarity=0.212  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      +.|+|+|.+|+|||||...+...
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            57899999999999999999865

>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=93.83  E-value=0.016  Score=47.84  Aligned_cols=21  Identities=33%  Similarity=0.336  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~  193 (512)
                      |+|+|.+|+|||||+..+...
T Consensus         8 i~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            789999999999999998764

>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=93.82  E-value=0.015  Score=47.87  Aligned_cols=21  Identities=29%  Similarity=0.465  Sum_probs=19.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHHh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~  193 (512)
                      |+|+|.+|+|||+|+.++...
T Consensus         6 i~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           6 VVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999999875

>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=93.80  E-value=0.017  Score=47.67  Aligned_cols=21  Identities=33%  Similarity=0.354  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~  193 (512)
                      |+|+|.+|+|||+|+.++...
T Consensus         6 ivlvG~~~vGKTsLi~r~~~~   26 (167)
T d1z08a1           6 VVLLGEGCVGKTSLVLRYCEN   26 (167)
T ss_dssp             EEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999998764

>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=93.80  E-value=0.016  Score=48.05  Aligned_cols=21  Identities=48%  Similarity=0.615  Sum_probs=19.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHHh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~  193 (512)
                      |+|+|.+|+|||||++.+.+.
T Consensus         8 i~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           8 IVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            779999999999999998874

>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=93.76  E-value=0.015  Score=51.34  Aligned_cols=26  Identities=23%  Similarity=0.266  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .-..++|+|+.|+|||||++.+..-.
T Consensus        27 ~Ge~vaivG~sGsGKSTLl~ll~gl~   52 (242)
T d1mv5a_          27 PNSIIAFAGPSGGGKSTIFSLLERFY   52 (242)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            34789999999999999999987654

>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=93.74  E-value=0.017  Score=47.67  Aligned_cols=22  Identities=36%  Similarity=0.625  Sum_probs=19.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      |+|+|.+|+|||+|...+.+..
T Consensus         5 i~lvG~~~vGKTsli~r~~~~~   26 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTKR   26 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            5789999999999999998753

>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=93.74  E-value=0.016  Score=47.48  Aligned_cols=21  Identities=29%  Similarity=0.357  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~  193 (512)
                      |+|+|.+|+|||+|+.++.+.
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~   23 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYD   23 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999998864

>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=93.74  E-value=0.014  Score=50.86  Aligned_cols=27  Identities=22%  Similarity=0.279  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .-.+++|.|+.|+|||||.+.++--..
T Consensus        25 ~Ge~~~liGpsGaGKSTll~~l~Gl~~   51 (229)
T d3d31a2          25 SGEYFVILGPTGAGKTLFLELIAGFHV   51 (229)
T ss_dssp             TTCEEEEECCCTHHHHHHHHHHHTSSC
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCcC
Confidence            346899999999999999999987543

>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=93.73  E-value=0.014  Score=51.94  Aligned_cols=26  Identities=19%  Similarity=0.327  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .-.+++|+|+.|+|||||++.++--.
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            34689999999999999999987644

>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=93.73  E-value=0.016  Score=51.39  Aligned_cols=27  Identities=15%  Similarity=0.176  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .-..++|+|+.|+|||||++.+..-..
T Consensus        39 ~Ge~vaivG~sGsGKSTLl~li~gl~~   65 (251)
T d1jj7a_          39 PGEVTALVGPNGSGKSTVAALLQNLYQ   65 (251)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcccC
Confidence            347899999999999999999876543

>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=93.70  E-value=0.018  Score=47.64  Aligned_cols=22  Identities=27%  Similarity=0.383  Sum_probs=19.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      |+|+|.+|+|||||+.++....
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~~   30 (170)
T d1r2qa_           9 LVLLGESAVGKSSLVLRFVKGQ   30 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6799999999999999988653

>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=93.68  E-value=0.018  Score=47.45  Aligned_cols=22  Identities=23%  Similarity=0.424  Sum_probs=19.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      |+|+|.+|+|||||+.++.+..
T Consensus         7 i~lvG~~~vGKTsli~rl~~~~   28 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVEDS   28 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6788999999999999988753

>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=93.65  E-value=0.017  Score=52.24  Aligned_cols=27  Identities=26%  Similarity=0.359  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .-.+++|+|+.|+|||||++.++....
T Consensus        61 ~Ge~vaivG~nGsGKSTLl~~i~Gl~~   87 (281)
T d1r0wa_          61 KGEMLAITGSTGSGKTSLLMLILGELE   87 (281)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTSSC
T ss_pred             CCCEEEEECCCCChHHHHHHHHhCCCc
Confidence            347899999999999999999986553

>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=93.63  E-value=0.017  Score=47.49  Aligned_cols=21  Identities=24%  Similarity=0.453  Sum_probs=18.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHHh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~  193 (512)
                      |+|+|.+|+|||||...+...
T Consensus         5 i~ivG~~~~GKTsLi~~l~~~   25 (165)
T d1ksha_           5 LLMLGLDNAGKTTILKKFNGE   25 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHcCC
Confidence            679999999999999998653

>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=93.58  E-value=0.018  Score=49.56  Aligned_cols=20  Identities=25%  Similarity=0.448  Sum_probs=18.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q 010355          172 MIGAYGMAGVGKTMLVKEVA  191 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~  191 (512)
                      +|+|+|..|+||||+|+.+.
T Consensus         5 iIgitG~igSGKStv~~~l~   24 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAFA   24 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHHH
Confidence            89999999999999998653

>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=93.57  E-value=0.018  Score=47.61  Aligned_cols=21  Identities=33%  Similarity=0.678  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~  193 (512)
                      |+|+|.+|+|||||+.++...
T Consensus         5 i~viG~~~vGKTsLi~r~~~~   25 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKG   25 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            578999999999999998764

>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=93.55  E-value=0.019  Score=47.59  Aligned_cols=21  Identities=33%  Similarity=0.480  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~  193 (512)
                      |+|+|.+|+|||||+..+...
T Consensus         5 i~~vG~~~vGKSsLi~~~~~~   25 (175)
T d1ky3a_           5 VIILGDSGVGKTSLMHRYVND   25 (175)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            789999999999999998764

>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=93.55  E-value=0.018  Score=47.78  Aligned_cols=22  Identities=27%  Similarity=0.394  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      -|+|+|.+|+|||+|+..+.+.
T Consensus         8 Kv~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4779999999999999998864

>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=93.55  E-value=0.018  Score=47.29  Aligned_cols=21  Identities=33%  Similarity=0.458  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~  193 (512)
                      |+|+|.+|+|||||+.++...
T Consensus         5 i~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999998764

>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=93.48  E-value=0.021  Score=48.82  Aligned_cols=23  Identities=22%  Similarity=0.313  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      +.|+|+|.+|+|||||..++...
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~   23 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTG   23 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHHcC
Confidence            46899999999999999998874

>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=93.47  E-value=0.019  Score=47.49  Aligned_cols=21  Identities=29%  Similarity=0.434  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~  193 (512)
                      |+|+|.+|+|||+|..++...
T Consensus         8 i~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           8 LVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            788999999999999998875

>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=93.46  E-value=0.021  Score=47.04  Aligned_cols=22  Identities=27%  Similarity=0.453  Sum_probs=19.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      |+|+|.+|+|||+|+.++....
T Consensus         6 ivvvG~~~vGKTsli~r~~~~~   27 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            6789999999999999988753

>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=93.42  E-value=0.021  Score=46.27  Aligned_cols=22  Identities=23%  Similarity=0.350  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      -|+|+|.+|+|||||+..+...
T Consensus         2 KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3789999999999999998764

>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=93.40  E-value=0.022  Score=47.09  Aligned_cols=21  Identities=24%  Similarity=0.423  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 010355          172 MIGAYGMAGVGKTMLVKEVAR  192 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~  192 (512)
                      .|+|.|.+|+|||||+.++..
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~   22 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVK   22 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            589999999999999999874

>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=93.37  E-value=0.018  Score=47.53  Aligned_cols=21  Identities=29%  Similarity=0.422  Sum_probs=18.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~  193 (512)
                      |+|+|.+|+|||+|++.+...
T Consensus         4 i~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCcCHHHHHHHHhCC
Confidence            678999999999999988653

>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=93.37  E-value=0.02  Score=49.02  Aligned_cols=20  Identities=30%  Similarity=0.459  Sum_probs=18.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHH
Q 010355          171 HMIGAYGMAGVGKTMLVKEV  190 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v  190 (512)
                      -+|+|+|..|+||||+|+.+
T Consensus         3 ~iIgITG~igSGKStv~~~l   22 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLF   22 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH
Confidence            47999999999999999866

>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=93.34  E-value=0.021  Score=47.38  Aligned_cols=21  Identities=29%  Similarity=0.463  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~  193 (512)
                      |+|+|.+|+|||||+.++...
T Consensus         8 I~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998764

>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=93.33  E-value=0.021  Score=46.99  Aligned_cols=23  Identities=26%  Similarity=0.372  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      .-|+|+|.+|+|||||+.++.+.
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            45778999999999999998764

>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=93.30  E-value=0.021  Score=47.50  Aligned_cols=23  Identities=22%  Similarity=0.238  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      -|+|+|.+|+|||+|+.++....
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~~   26 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKDQ   26 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36788999999999999988753

>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=93.29  E-value=0.023  Score=47.22  Aligned_cols=21  Identities=33%  Similarity=0.542  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~  193 (512)
                      |+|+|..|+|||||+.++...
T Consensus         7 i~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           7 VVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998764

>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=93.28  E-value=0.14  Score=44.54  Aligned_cols=25  Identities=20%  Similarity=0.155  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      +.+++.|+|+...||||+.+.+.-.
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            4578999999999999999988754

>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=93.23  E-value=0.022  Score=47.84  Aligned_cols=21  Identities=33%  Similarity=0.464  Sum_probs=18.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHHh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~  193 (512)
                      |+|+|.+|+|||||+..+.+.
T Consensus         8 i~ivG~~~vGKTsLi~~l~~~   28 (186)
T d2f7sa1           8 LLALGDSGVGKTTFLYRYTDN   28 (186)
T ss_dssp             EEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            678999999999999988753

>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=93.23  E-value=0.024  Score=46.81  Aligned_cols=22  Identities=27%  Similarity=0.365  Sum_probs=19.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      |+|+|.+|+|||+|+.++....
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~~   27 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6789999999999999988753

>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=93.21  E-value=0.023  Score=46.75  Aligned_cols=21  Identities=29%  Similarity=0.514  Sum_probs=19.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHHh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~  193 (512)
                      |+|+|.+|+|||||+.++...
T Consensus         6 i~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            778999999999999998875

>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=93.18  E-value=0.026  Score=46.95  Aligned_cols=24  Identities=21%  Similarity=0.369  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      .+.|+|+|.+|+|||||+..+...
T Consensus         5 ~~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           5 SGFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999864

>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=93.17  E-value=0.038  Score=47.69  Aligned_cols=33  Identities=24%  Similarity=0.482  Sum_probs=25.4

Q ss_pred             HHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          158 LNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       158 l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      ++.|..+|.+   +..+++|.+|+|||||...+...
T Consensus        86 ~~~L~~~l~~---kt~~~~G~SGVGKSTLiN~L~~~  118 (225)
T d1u0la2          86 IEELKEYLKG---KISTMAGLSGVGKSSLLNAINPG  118 (225)
T ss_dssp             HHHHHHHHSS---SEEEEECSTTSSHHHHHHHHSTT
T ss_pred             HhhHHHHhcC---CeEEEECCCCCCHHHHHHhhcch
Confidence            4566666643   57789999999999999987543

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=93.17  E-value=0.016  Score=50.87  Aligned_cols=25  Identities=28%  Similarity=0.429  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      -.+++|.|+.|+|||||++.+..-.
T Consensus        31 Ge~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          31 GERFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             TCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHHcCc
Confidence            3689999999999999999998754

>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=93.17  E-value=0.024  Score=47.44  Aligned_cols=23  Identities=30%  Similarity=0.275  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      -|+|+|.+|+|||+|+.++....
T Consensus         7 KivviG~~~vGKTsli~~~~~~~   29 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTNA   29 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47899999999999999988653

>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=93.15  E-value=0.045  Score=52.68  Aligned_cols=25  Identities=36%  Similarity=0.484  Sum_probs=22.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      +-|.++|+.|+|||.||+.++....
T Consensus        50 sNILliGPTGvGKTlLAr~LAk~l~   74 (443)
T d1g41a_          50 KNILMIGPTGVGKTEIARRLAKLAN   74 (443)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             ccEEEECCCCCCHHHHHHHHHHHhC
Confidence            4688999999999999999998765

>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=93.14  E-value=0.025  Score=46.69  Aligned_cols=21  Identities=33%  Similarity=0.418  Sum_probs=19.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHHh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~  193 (512)
                      |+|+|.+|+|||+|+.++...
T Consensus         9 i~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           9 VMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998764

>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=93.06  E-value=0.026  Score=47.38  Aligned_cols=22  Identities=23%  Similarity=0.300  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      |+++|.+|+|||+|+.++....
T Consensus         5 ivllG~~~vGKTsl~~r~~~~~   26 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKIIH   26 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhhCC
Confidence            6799999999999999886543

>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=93.02  E-value=0.03  Score=49.17  Aligned_cols=24  Identities=17%  Similarity=0.144  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .+|+|+|..|+||||+|+.+.+..
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e~~   25 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMSNY   25 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            689999999999999999987654

>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=93.01  E-value=0.025  Score=46.91  Aligned_cols=24  Identities=29%  Similarity=0.454  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      ...|+|+|.+|+|||||..++.+.
T Consensus         5 ~~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           5 CGFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCC
Confidence            467899999999999999999864

>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=92.98  E-value=0.026  Score=47.20  Aligned_cols=21  Identities=33%  Similarity=0.514  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~  193 (512)
                      |+|+|.+|+|||||+..+.+.
T Consensus         5 v~vvG~~~vGKSSLi~~l~~~   25 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVNK   25 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999998864

>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=92.97  E-value=0.033  Score=47.86  Aligned_cols=27  Identities=30%  Similarity=0.224  Sum_probs=23.8

Q ss_pred             eEEEEEcCC-CCcHHHHHHHHHHhhhhc
Q 010355          171 HMIGAYGMA-GVGKTMLVKEVARQAKAD  197 (512)
Q Consensus       171 ~vi~I~G~g-GiGKTtLa~~v~~~~~~~  197 (512)
                      +.+.|.|-| |+||||++..++.....+
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aLa~~   29 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAAKAA   29 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHHT
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHHHHC
Confidence            568899998 999999999999988754

>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=92.97  E-value=0.028  Score=46.09  Aligned_cols=21  Identities=29%  Similarity=0.381  Sum_probs=18.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHHh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~  193 (512)
                      |+|+|.+|+|||||..++...
T Consensus         5 i~i~G~~~~GKTsLl~~l~~~   25 (164)
T d1zd9a1           5 LTLVGLQYSGKTTFVNVIASG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            668899999999999988764

>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=92.96  E-value=0.023  Score=47.15  Aligned_cols=22  Identities=36%  Similarity=0.466  Sum_probs=19.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHH
Q 010355          171 HMIGAYGMAGVGKTMLVKEVAR  192 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~  192 (512)
                      --|+|+|.+|+|||||..++..
T Consensus        17 ~kI~vvG~~~vGKSsLi~~l~~   38 (176)
T d1fzqa_          17 VRILLLGLDNAGKTTLLKQLAS   38 (176)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            4578999999999999998754

>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=92.93  E-value=0.026  Score=47.83  Aligned_cols=22  Identities=27%  Similarity=0.439  Sum_probs=19.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      |+|+|.+|+|||||+..+....
T Consensus         9 ivvvG~~~vGKTsli~~l~~~~   30 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFSDDT   30 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCcCHHHHHHHHhhCC
Confidence            6799999999999999988653

>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=92.85  E-value=0.029  Score=46.50  Aligned_cols=21  Identities=29%  Similarity=0.441  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~  193 (512)
                      |+|+|.+|+|||||+.++.+.
T Consensus         9 I~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999988764

>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=92.84  E-value=0.027  Score=47.29  Aligned_cols=22  Identities=36%  Similarity=0.357  Sum_probs=19.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      |+|+|.+|+|||+|+.++.+..
T Consensus        12 i~lvG~~~vGKTsLi~r~~~~~   33 (185)
T d2atxa1          12 CVVVGDGAVGKTCLLMSYANDA   33 (185)
T ss_dssp             EEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHhhCC
Confidence            7899999999999999987653

>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=92.78  E-value=0.03  Score=46.11  Aligned_cols=23  Identities=30%  Similarity=0.433  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      .-|+|+|.+|+|||||+.++...
T Consensus         5 ~KivlvG~~~vGKTsli~~~~~~   27 (168)
T d1u8za_           5 HKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            34789999999999999998764

>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=92.78  E-value=0.035  Score=45.96  Aligned_cols=23  Identities=26%  Similarity=0.289  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      +-|.|.|.+|+||||||..+..+
T Consensus        15 ~gvl~~G~sG~GKStlal~l~~~   37 (176)
T d1kkma_          15 LGVLITGDSGVGKSETALELVQR   37 (176)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHc
Confidence            56889999999999999988765

>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=92.77  E-value=0.025  Score=49.74  Aligned_cols=26  Identities=23%  Similarity=0.396  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      -.+++|.|+.|.|||||.+.++-..+
T Consensus        32 Gei~~liGpnGaGKSTl~~~i~Gl~~   57 (240)
T d1ji0a_          32 GQIVTLIGANGAGKTTTLSAIAGLVR   57 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCC
Confidence            36899999999999999999876543

>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=92.76  E-value=0.028  Score=46.50  Aligned_cols=21  Identities=33%  Similarity=0.401  Sum_probs=18.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHHh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~  193 (512)
                      |+|+|.+|+|||+|+..+...
T Consensus         6 v~lvG~~~vGKTsLi~~~~~~   26 (172)
T d2g3ya1           6 VVLIGEQGVGKSTLANIFAGV   26 (172)
T ss_dssp             EEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999988653

>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=92.67  E-value=0.03  Score=46.76  Aligned_cols=22  Identities=32%  Similarity=0.397  Sum_probs=19.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      |+|+|..|+|||+|+..+.+..
T Consensus         5 ivliG~~~vGKTsli~r~~~~~   26 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKDC   26 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6789999999999999988753

>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=92.64  E-value=0.032  Score=46.36  Aligned_cols=21  Identities=33%  Similarity=0.463  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~  193 (512)
                      |+|+|.+|+|||||+.++.+.
T Consensus        10 i~vvG~~~vGKTsli~~l~~~   30 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDD   30 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998764

>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=92.61  E-value=0.028  Score=47.54  Aligned_cols=19  Identities=26%  Similarity=0.398  Sum_probs=17.3

Q ss_pred             EEEEEcCCCCcHHHHHHHH
Q 010355          172 MIGAYGMAGVGKTMLVKEV  190 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v  190 (512)
                      -|.|+|.+|+|||||+.++
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            3679999999999999998

>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=92.60  E-value=0.027  Score=49.42  Aligned_cols=26  Identities=27%  Similarity=0.423  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      -.+++|+|+.|+|||||.+.++....
T Consensus        28 Gei~glvG~nGaGKSTLl~~l~G~~~   53 (238)
T d1vpla_          28 GEIFGLIGPNGAGKTTTLRIISTLIK   53 (238)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            46899999999999999999876543

>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=92.58  E-value=0.038  Score=49.40  Aligned_cols=26  Identities=27%  Similarity=0.323  Sum_probs=22.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      .+..|+|.+|+|||||+.+++.....
T Consensus        30 ~~~~i~G~~G~GKS~l~l~la~~ia~   55 (274)
T d1nlfa_          30 TVGALVSPGGAGKSMLALQLAAQIAG   55 (274)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHHT
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHc
Confidence            57889999999999999998876543

>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=92.50  E-value=0.036  Score=45.80  Aligned_cols=26  Identities=23%  Similarity=0.390  Sum_probs=20.6

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          167 NPDVHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       167 ~~~~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      ....+ |.|+|.+|+|||||..++.+.
T Consensus        10 ~k~~k-IvlvG~~~vGKTSli~rl~~~   35 (173)
T d1e0sa_          10 NKEMR-ILMLGLDAAGKTTILYKLKLG   35 (173)
T ss_dssp             TCCEE-EEEEEETTSSHHHHHHHTTCC
T ss_pred             CCeEE-EEEECCCCCCHHHHHHHHhcC
Confidence            33445 668999999999999988653

>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=92.47  E-value=0.029  Score=49.83  Aligned_cols=26  Identities=23%  Similarity=0.264  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      -.+++|.|+.|+|||||++.++-..+
T Consensus        30 Gei~~liG~nGaGKSTLl~~i~Gl~~   55 (254)
T d1g6ha_          30 GDVTLIIGPNGSGKSTLINVITGFLK   55 (254)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCcHHHHHHHHHCCCc
Confidence            36899999999999999999887654

>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=92.44  E-value=0.035  Score=45.72  Aligned_cols=22  Identities=27%  Similarity=0.407  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      |+++|.+|+|||||+..+++..
T Consensus         7 i~lvG~~~vGKTsll~~~~~~~   28 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQKI   28 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            5678999999999999998753

>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=92.40  E-value=0.034  Score=46.84  Aligned_cols=21  Identities=19%  Similarity=0.308  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~  193 (512)
                      |.|+|.+|+|||+|..++...
T Consensus         5 iv~lG~~~vGKTsll~r~~~~   25 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRII   25 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            679999999999999998654

>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=92.37  E-value=0.064  Score=50.09  Aligned_cols=63  Identities=13%  Similarity=0.002  Sum_probs=38.4

Q ss_pred             HHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhhhc-CCCCeEEEEEeCCCCCHHHHHHHH
Q 010355          156 STLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAKAD-KLFDEVVYAEVSQRPDVKKIQGQI  221 (512)
Q Consensus       156 ~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~-~~f~~~~wv~~~~~~~~~~ll~~i  221 (512)
                      .....+...+.   .++..|.|++|+||||++..+....... ..-...+.+..+.......+...+
T Consensus       152 ~Q~~A~~~al~---~~~~vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~~I~l~ApTgkAA~~L~e~~  215 (359)
T d1w36d1         152 WQKVAAAVALT---RRISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAAPTGKAAARLTESL  215 (359)
T ss_dssp             HHHHHHHHHHT---BSEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEBSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHc---CCeEEEEcCCCCCceehHHHHHHHHHHHHhccCCeEEEecCcHHHHHHHHHHH
Confidence            34445555553   3789999999999999987665443221 112345677766655454444444

>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=92.34  E-value=0.034  Score=46.84  Aligned_cols=22  Identities=27%  Similarity=0.267  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      |+|+|.+|+|||+|+.++....
T Consensus         6 vvllG~~~vGKTSli~r~~~~~   27 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTNK   27 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6788999999999999987653

>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=92.21  E-value=0.027  Score=46.94  Aligned_cols=20  Identities=30%  Similarity=0.614  Sum_probs=18.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHH
Q 010355          173 IGAYGMAGVGKTMLVKEVAR  192 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~  192 (512)
                      |+|+|.+|+|||||+..+..
T Consensus         4 VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCS
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            89999999999999999864

>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=92.20  E-value=0.033  Score=46.37  Aligned_cols=22  Identities=27%  Similarity=0.353  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      .|+|+|.+|+|||||...+...
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999998753

>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=92.13  E-value=0.04  Score=45.74  Aligned_cols=23  Identities=26%  Similarity=0.416  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      -|+|+|.+|+|||||+.++.+..
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~~   29 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTGS   29 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            46799999999999999988753

>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=92.13  E-value=0.036  Score=44.99  Aligned_cols=21  Identities=24%  Similarity=0.378  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~  193 (512)
                      |+|+|.+|+|||||..++...
T Consensus         4 I~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           4 VVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            679999999999999998754

>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=92.12  E-value=0.029  Score=48.99  Aligned_cols=24  Identities=25%  Similarity=0.387  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      -.+++|.|+.|+|||||.+.++..
T Consensus        25 Gei~~iiG~nGaGKSTLl~~l~Gl   48 (231)
T d1l7vc_          25 GEILHLVGPNGAGKSTLLARMAGM   48 (231)
T ss_dssp             TCEEECBCCTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCC
Confidence            368999999999999999988763

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=92.12  E-value=0.022  Score=50.50  Aligned_cols=26  Identities=27%  Similarity=0.406  Sum_probs=21.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .-..++|+|..|+|||||++.+....
T Consensus        43 ~Ge~vaivG~sGsGKSTLl~ll~gl~   68 (255)
T d2hyda1          43 KGETVAFVGMSGGGKSTLINLIPRFY   68 (255)
T ss_dssp             TTCEEEEECSTTSSHHHHHTTTTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHhcC
Confidence            34689999999999999999876544

>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=92.06  E-value=0.019  Score=47.46  Aligned_cols=21  Identities=33%  Similarity=0.385  Sum_probs=17.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~  193 (512)
                      |+|+|.+|+|||+|+.++.+.
T Consensus         6 i~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC--
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678899999999999887654

>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=92.06  E-value=0.94  Score=38.84  Aligned_cols=43  Identities=23%  Similarity=0.220  Sum_probs=35.7

Q ss_pred             cchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          153 SRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       153 gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ......+.|...+..+......|+|..|+|||.++...+...-
T Consensus        59 ~Q~~~~~~i~~~~~~~~~~~~LL~GdvGsGKT~V~~~a~~~~~  101 (233)
T d2eyqa3          59 DQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAV  101 (233)
T ss_dssp             HHHHHHHHHHHHHHSSSCCEEEEECCCCTTTHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhccCccCeEEEcCCCCCcHHHHHHHHHHHH
Confidence            4566777888888888888899999999999999888776654

>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=92.01  E-value=0.039  Score=45.70  Aligned_cols=23  Identities=17%  Similarity=0.250  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      .-|.|.|.+|+||||||..+..+
T Consensus        16 ~gvli~G~sG~GKS~lal~l~~~   38 (177)
T d1knxa2          16 VGVLLTGRSGIGKSECALDLINK   38 (177)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHTT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHc
Confidence            56889999999999999988754

>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=91.91  E-value=0.05  Score=44.75  Aligned_cols=23  Identities=22%  Similarity=0.287  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      .-|.|.|.+|+||||||..+..+
T Consensus        16 ~gvli~G~sg~GKS~la~~l~~~   38 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALELIKR   38 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHc
Confidence            56889999999999999888776

>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=91.90  E-value=0.031  Score=46.77  Aligned_cols=21  Identities=33%  Similarity=0.567  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 010355          172 MIGAYGMAGVGKTMLVKEVAR  192 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~  192 (512)
                      -|+|+|.+|+|||||...+..
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEE
T ss_pred             eEEEECCCCCCHHHHHHHHhC
Confidence            489999999999999998754

>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=91.59  E-value=0.03  Score=46.69  Aligned_cols=24  Identities=25%  Similarity=0.326  Sum_probs=19.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHH
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVAR  192 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~  192 (512)
                      ..--|+|+|.+|+|||||..++..
T Consensus        16 k~~KI~lvG~~~vGKTsLi~~l~~   39 (182)
T d1moza_          16 KELRILILGLDGAGKTTILYRLQI   39 (182)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhc
Confidence            334566999999999999998753

>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=91.47  E-value=0.029  Score=46.48  Aligned_cols=21  Identities=29%  Similarity=0.411  Sum_probs=8.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHHh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~  193 (512)
                      |+|+|.+|+|||||+..+...
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEECCCCC------------
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678899999999999887753

>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=91.46  E-value=0.048  Score=47.17  Aligned_cols=22  Identities=27%  Similarity=0.403  Sum_probs=18.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHH
Q 010355          171 HMIGAYGMAGVGKTMLVKEVAR  192 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~  192 (512)
                      .-|.|.|.+|+|||||+.++..
T Consensus         7 ~KilllG~~~vGKTsll~~~~~   28 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRI   28 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            4578999999999999998854

>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=91.11  E-value=0.056  Score=45.02  Aligned_cols=22  Identities=23%  Similarity=0.434  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      -|+|+|.+|+|||||...+...
T Consensus        10 kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            4789999999999999998754

>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=90.97  E-value=0.041  Score=45.74  Aligned_cols=25  Identities=12%  Similarity=0.153  Sum_probs=20.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHH
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVAR  192 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~  192 (512)
                      .+..-|+|+|.+++|||||.+++..
T Consensus        14 ~~~~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          14 DTGIEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHhC
Confidence            3457799999999999999987743

>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=90.88  E-value=0.12  Score=46.56  Aligned_cols=55  Identities=15%  Similarity=0.248  Sum_probs=29.2

Q ss_pred             eEEEEEcCCCCcHHHHH-HHHHHhhhhc-CCCCeEEEEEeCCCCCHHHHHHHHHHHhC
Q 010355          171 HMIGAYGMAGVGKTMLV-KEVARQAKAD-KLFDEVVYAEVSQRPDVKKIQGQIADKLG  226 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa-~~v~~~~~~~-~~f~~~~wv~~~~~~~~~~ll~~i~~~l~  226 (512)
                      ..+.|.|.+|+||||++ ..+.+..... .....+..++.+.. ....+...+....+
T Consensus        15 ~~~lI~g~aGTGKTt~l~~rv~~ll~~~~~~~~~ILvlt~tn~-a~~~i~~~~~~~~~   71 (306)
T d1uaaa1          15 GPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNK-AAREMKERVGQTLG   71 (306)
T ss_dssp             SEEEECCCTTSCHHHHHHHHHHHHHHHHCCCGGGEEEEESSHH-HHHHHHHHHHHHSC
T ss_pred             CCEEEEeeCCccHHHHHHHHHHHHHHhcCCChhHEEEEeCcHH-HHHHHHHHHHHhcC
Confidence            44778899999999764 4444433221 12235666654432 33344444444333

>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=90.65  E-value=0.11  Score=43.76  Aligned_cols=38  Identities=21%  Similarity=0.239  Sum_probs=30.1

Q ss_pred             HHHHHHHhc-CCCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          158 LNDVINALK-NPDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       158 l~~l~~~L~-~~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      +..+..+|. .+....+.|+|+++.|||++|..+++-..
T Consensus        40 l~~l~~~l~~~PKkn~i~~~GP~~TGKS~f~~sl~~~l~   78 (205)
T d1tuea_          40 LGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFIQ   78 (205)
T ss_dssp             HHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCCCCceEEEEECCCCccHHHHHHHHHHHhC
Confidence            555666665 45568999999999999999999887754

>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=90.52  E-value=0.1  Score=47.49  Aligned_cols=53  Identities=13%  Similarity=0.157  Sum_probs=27.7

Q ss_pred             EEEEEcCCCCcHHHHHHH-HHHhhhhcC-CCCeEEEEEeCCCCCHHHHHHHHHHHh
Q 010355          172 MIGAYGMAGVGKTMLVKE-VARQAKADK-LFDEVVYAEVSQRPDVKKIQGQIADKL  225 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~-v~~~~~~~~-~f~~~~wv~~~~~~~~~~ll~~i~~~l  225 (512)
                      .+.|.|.+|+||||.+.+ +++...... ....++.++.+. .....+...+...+
T Consensus        26 ~~lV~g~aGSGKTt~l~~ri~~ll~~~~~~p~~il~lt~t~-~aa~~~~~~~~~~~   80 (318)
T d1pjra1          26 PLLIMAGAGSGKTRVLTHRIAYLMAEKHVAPWNILAITFTN-KAAREMRERVQSLL   80 (318)
T ss_dssp             CEEEEECTTSCHHHHHHHHHHHHHHTTCCCGGGEEEEESSH-HHHHHHHHHHHHHH
T ss_pred             CEEEEecCCccHHHHHHHHHHHHHHcCCCCHHHeEeEeccH-HHHHHHHHHHHhhc
Confidence            367889999999976543 444333211 123455554433 23334444444433

>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=90.39  E-value=0.14  Score=45.23  Aligned_cols=37  Identities=27%  Similarity=0.416  Sum_probs=26.6

Q ss_pred             HHHHHHHHhc--CCCceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          157 TLNDVINALK--NPDVHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       157 ~l~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      .+.++...+.  ....-.|+|+|.+|+|||||...++..
T Consensus        17 ~l~e~~~~l~~~~~~~l~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          17 KLLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             HHHHHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             HHHHHHHHHhhcCCCCcEEEEECCCCCcHHHHHHHHhCC
Confidence            3444454444  224456789999999999999999865

>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=90.00  E-value=0.15  Score=46.77  Aligned_cols=103  Identities=16%  Similarity=0.192  Sum_probs=51.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHhCCCe
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKLGLKFYEESESGRARKLCERLKKEKK  250 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~  250 (512)
                      +.|.|.|..|+||||+.+.++......   ..++-+.-.....+.. ...+   ..  ............+...|+ ..+
T Consensus       167 ~nili~G~tgSGKTT~l~al~~~i~~~---~rivtiEd~~El~l~~-~~~~---~~--~~~~~~~~~~~ll~~~lR-~~p  236 (323)
T d1g6oa_         167 KNVIVCGGTGSGKTTYIKSIMEFIPKE---ERIISIEDTEEIVFKH-HKNY---TQ--LFFGGNITSADCLKSCLR-MRP  236 (323)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGGSCTT---CCEEEEESSCCCCCSS-CSSE---EE--EECBTTBCHHHHHHHHTT-SCC
T ss_pred             CCEEEEeeccccchHHHHHHhhhcccc---cceeeccchhhhhccc-cccc---ce--eccccchhHHHHHHHHhc-cCC
Confidence            347899999999999999988765421   1222221111110000 0000   00  000111122334444555 466


Q ss_pred             EEEEEeCCCChhhhhhhCCCCCCCCeE-EEEEeCCc
Q 010355          251 ILVILDDIWTNLDLENVGIPFGVRGCR-VLMTARSQ  285 (512)
Q Consensus       251 ~LlVlDdv~~~~~~~~l~~~~~~~gs~-iivTtR~~  285 (512)
                      =.||+..+...+.+..+....  .|.. ++.|....
T Consensus       237 d~iivgEiR~~ea~~~l~a~~--tGh~g~~tT~Ha~  270 (323)
T d1g6oa_         237 DRIILGELRSSEAYDFYNVLC--SGHKGTLTTLHAG  270 (323)
T ss_dssp             SEEEESCCCSTHHHHHHHHHH--TTCSCEEEEECCS
T ss_pred             CcccCCccCchhHHHHHHHHH--hcCCcEEEEECCC
Confidence            778999998777766553321  2222 45555544

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=89.80  E-value=0.03  Score=45.45  Aligned_cols=22  Identities=23%  Similarity=0.404  Sum_probs=19.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 010355          173 IGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       173 i~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      |+|+|.+|+|||||+..+....
T Consensus         3 I~liG~~n~GKSSLin~l~g~~   24 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLLNED   24 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            7899999999999999988653

>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=89.73  E-value=0.11  Score=46.40  Aligned_cols=27  Identities=19%  Similarity=0.199  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      +.|-|+|+|.+|.|||||+.++.....
T Consensus         5 ~iRni~i~gh~~~GKTtL~e~ll~~~g   31 (276)
T d2bv3a2           5 RLRNIGIAAHIDAGKTTTTERILYYTG   31 (276)
T ss_dssp             GEEEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             hceEEEEEeCCCCCHHHHHHHHHHhcC
Confidence            568899999999999999999876543

>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=89.00  E-value=0.26  Score=46.59  Aligned_cols=39  Identities=15%  Similarity=0.144  Sum_probs=29.2

Q ss_pred             HHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          156 STLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       156 ~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ..+..+.. +.....+.|.|.|+.|+||||+...+.+...
T Consensus       145 ~~~~~l~~-l~~~~~GliLvtGpTGSGKSTTl~~~l~~~~  183 (401)
T d1p9ra_         145 HNHDNFRR-LIKRPHGIILVTGPTGSGKSTTLYAGLQELN  183 (401)
T ss_dssp             HHHHHHHH-HHTSSSEEEEEECSTTSCHHHHHHHHHHHHC
T ss_pred             HHHHHHHH-HHhhhhceEEEEcCCCCCccHHHHHHhhhhc
Confidence            33444444 4445668999999999999999999888653

>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=88.47  E-value=0.14  Score=45.44  Aligned_cols=24  Identities=29%  Similarity=0.486  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      .|.|+|+|..|.|||||+.++...
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            478999999999999999988654

>d1ewqa2 c.37.1.12 (A:542-765) DNA repair protein MutS, the C-terminal domain {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Thermus aquaticus [TaxId: 271]

Probab=88.27  E-value=0.35  Score=41.47  Aligned_cols=23  Identities=17%  Similarity=0.247  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQ  193 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~  193 (512)
                      +++.|+|+...||||+.+.+.-.
T Consensus        36 ~~~iiTGpN~~GKSt~lk~i~l~   58 (224)
T d1ewqa2          36 ELVLITGPNMAGKSTFLRQTALI   58 (224)
T ss_dssp             CEEEEESCSSSSHHHHHHHHHHH
T ss_pred             cEEEEECCCccccchhhhhhHHH
Confidence            47899999999999999987654

>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=87.99  E-value=0.16  Score=43.89  Aligned_cols=25  Identities=24%  Similarity=0.401  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .++|+|.|-.+.|||||+..+....
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            3679999999999999999887653

>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=87.96  E-value=0.22  Score=45.61  Aligned_cols=27  Identities=26%  Similarity=0.305  Sum_probs=23.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAKA  196 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~~  196 (512)
                      +-.|.|-|.-|+||||+++.+.+....
T Consensus         6 ~~rI~iEG~iGsGKSTl~~~L~~~l~~   32 (333)
T d1p6xa_           6 IVRIYLDGVYGIGKSTTGRVMASAASG   32 (333)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHSGGGC
T ss_pred             eEEEEEECCccCCHHHHHHHHHHHhcc
Confidence            456788999999999999999988753

>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=87.80  E-value=0.067  Score=46.27  Aligned_cols=22  Identities=27%  Similarity=0.427  Sum_probs=18.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHH
Q 010355          171 HMIGAYGMAGVGKTMLVKEVAR  192 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~  192 (512)
                      +..++.|.+|+|||||...+..
T Consensus        98 ~~~vl~G~SGVGKSSLiN~L~~  119 (231)
T d1t9ha2          98 KTTVFAGQSGVGKSSLLNAISP  119 (231)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC
T ss_pred             ceEEEECCCCccHHHHHHhhcc
Confidence            4556889999999999998753

>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=86.22  E-value=0.41  Score=37.19  Aligned_cols=51  Identities=10%  Similarity=0.006  Sum_probs=32.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCeEEEEEeCCCCCHHHHHHHHHHHh
Q 010355          169 DVHMIGAYGMAGVGKTMLVKEVARQAKADKLFDEVVYAEVSQRPDVKKIQGQIADKL  225 (512)
Q Consensus       169 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~ll~~i~~~l  225 (512)
                      ..++..|+++.|+|||+++..++...      ...+.+.+....-..+....+...+
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            45788999999999999887665432      2345555555444444444444444

>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=86.19  E-value=0.4  Score=42.38  Aligned_cols=38  Identities=18%  Similarity=0.169  Sum_probs=29.4

Q ss_pred             HHHHHHHhc--CCCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          158 LNDVINALK--NPDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       158 l~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      +..+..+|.  .+....+.++|+|+.|||+++..+.+-..
T Consensus        90 ~~~l~~~L~~~~~k~n~~~l~G~~~tGKS~f~~~i~~~lg  129 (267)
T d1u0ja_          90 ASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTVP  129 (267)
T ss_dssp             HHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHSS
T ss_pred             HHHHHHHHcCCCCccEEEEEEcCCCCCHHHHHHHHHHHhc
Confidence            445556664  24567889999999999999999887653

>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=85.59  E-value=0.22  Score=45.57  Aligned_cols=25  Identities=28%  Similarity=0.258  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      -.|+|-|.-|+||||+++.+.+...
T Consensus         6 lrI~IEG~iGsGKSTl~~~L~~~l~   30 (331)
T d1osna_           6 LRIYLDGAYGIGKTTAAEEFLHHFA   30 (331)
T ss_dssp             EEEEEEESSSSCTTHHHHHHHHTTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHh
Confidence            3578899999999999999998765

>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=85.25  E-value=0.22  Score=41.06  Aligned_cols=21  Identities=33%  Similarity=0.523  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 010355          172 MIGAYGMAGVGKTMLVKEVAR  192 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~  192 (512)
                      .|+|+|.+++|||||..++..
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            589999999999999999874

>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=83.68  E-value=0.25  Score=45.12  Aligned_cols=26  Identities=19%  Similarity=0.190  Sum_probs=20.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          170 VHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       170 ~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      ...|+|-|.-|+||||+++.+.+...
T Consensus         4 ~lrI~IEG~iGsGKTTl~~~La~~l~   29 (329)
T d1e2ka_           4 LLRVYIDGPHGMGKTTTTQLLVALGS   29 (329)
T ss_dssp             EEEEEECSCTTSSHHHHHHHHTC---
T ss_pred             ceEEEEECCcCCCHHHHHHHHHHHhC
Confidence            34588999999999999999876543

>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=82.55  E-value=0.42  Score=42.47  Aligned_cols=28  Identities=18%  Similarity=0.379  Sum_probs=24.2

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          167 NPDVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       167 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ...+.||+|+|+-+.|||+|+..++...
T Consensus        29 ~~~v~vvsi~G~~~sGKS~llN~l~~~~   56 (277)
T d1f5na2          29 TQPMVVVAIVGLYRTGKSYLMNKLAGKK   56 (277)
T ss_dssp             CSBEEEEEEEEBTTSSHHHHHHHHTTCS
T ss_pred             CCCEEEEEEECCCCCCHHHHHHHHcCCC
Confidence            4568899999999999999999987643

>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=82.09  E-value=0.14  Score=42.84  Aligned_cols=24  Identities=17%  Similarity=0.191  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          171 HMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      ++.+|+|+.|+|||||..++..-.
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            455688999999999999987654

>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=81.29  E-value=0.46  Score=40.02  Aligned_cols=23  Identities=30%  Similarity=0.403  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 010355          172 MIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       172 vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      -|+|.|-.+.|||||+.++....
T Consensus         5 ni~iiGhvd~GKSTL~~~Ll~~~   27 (204)
T d2c78a3           5 NVGTIGHVDHGKTTLTAALTYVA   27 (204)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEEeCCCCcHHHHHHHHHHHh
Confidence            38899999999999999986543

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=81.23  E-value=0.47  Score=43.48  Aligned_cols=27  Identities=19%  Similarity=0.329  Sum_probs=23.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 010355          168 PDVHMIGAYGMAGVGKTMLVKEVARQA  194 (512)
Q Consensus       168 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  194 (512)
                      .+.|-|+|+|..|.|||||+-.+....
T Consensus        15 ~~IRNI~iiGhvd~GKTTL~d~Ll~~~   41 (341)
T d1n0ua2          15 TNVRNMSVIAHVDHGKSTLTDSLVQRA   41 (341)
T ss_dssp             GGEEEEEEECCGGGTHHHHHHHHHHHH
T ss_pred             ccCcEEEEEeCCCCcHHHHHHHHHHHC
Confidence            467889999999999999999887543

>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=81.21  E-value=3.6  Score=35.68  Aligned_cols=43  Identities=14%  Similarity=0.105  Sum_probs=33.8

Q ss_pred             cchHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHHhhh
Q 010355          153 SRMSTLNDVINALKNPDVHMIGAYGMAGVGKTMLVKEVARQAK  195 (512)
Q Consensus       153 gR~~~l~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~  195 (512)
                      .....+++|..-+..+......|.|.-|+|||.+|...+...-
T Consensus        87 ~Q~~ai~ei~~d~~~~~~m~rLL~GdvGSGKT~Va~~a~~~~~  129 (264)
T d1gm5a3          87 AQKRAHQEIRNDMISEKPMNRLLQGDVGSGKTVVAQLAILDNY  129 (264)
T ss_dssp             HHHHHHHHHHHHHHSSSCCCCEEECCSSSSHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHhhccCcceeeeeccccccccHHHHHHHHHHH
Confidence            4556677888878777777788999999999999887776543

>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=81.07  E-value=0.49  Score=44.50  Aligned_cols=22  Identities=18%  Similarity=0.371  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHH
Q 010355          171 HMIGAYGMAGVGKTMLVKEVAR  192 (512)
Q Consensus       171 ~vi~I~G~gGiGKTtLa~~v~~  192 (512)
                      --|+|+|.+|+|||||...+..
T Consensus        57 l~Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          57 LNVAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHhC
Confidence            4589999999999999999874