Citrus Sinensis ID: 043778

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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-----
Protein Sequence
NLCSPSFSCDSNITRCPDCTVRKASSIRDLQKNLEALPRELQKLVETRNDVRIRVIVAEQQKMKRLEQVEPWFSRVQDAESEVAKLMLERNWELKKLCLGGCCSKSCKSSYKVEGDFQEVAQRLPENPVDARPVALTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFFNESWESKTVQEKAVDIFNILSKKKYEDAWKLFEEKVGRDILDSHPNIPELVETVAKECGAMASRKTHQEWEYAIEVWRNEYTLVYSYDFLPSDVGRFCLLIDIDQLVDFWICEGFLDEYDGIAARNQGYCIVGTLLHACLLEEEEGNRVKMHDVIRDMALWIASTFENKNEKFLVLAGVGLTAAPSVGV
Secondary Structure (PSIPRED)
ccccccccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHccHHHHHHccccccccccccccccccHHHHHHHHHHHHHccccccccEEEcccccHHHHHHHHHHHHHcccccccEEEEEEEcccccHHHHHHHHHHHHccccccccccccHHHHHHHHHHHccccHHHHHHHHHHHHccccccccccHHHHHHHHHHHHccccccccHHHHHHHHHHHHcccccccccccccccccHHcccccHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHcccccccccccEEEcHHHHHHHHHHHcccccccccEEEEccccccccccccc
Secondary Structure Prediction (SSPRO)
cEEEEEEcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHccccccHHHHHHHcccccEEEEcccccccccccccccccEccHHHHHHHHHHHHHccccEEEEEEccccccHHHHHHHHHHHHHcccccccEEEEEEEcccccHHHHHHHHHHHHccccHcHccccHHHcccEcccccccccHHHHHHHHHHHHcHHHHcccccHHHHHHHHHHHHccccccccHHHHHHHHHHHHccccEEEEcccccccHHcHEEEEcHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHccccccEEEHHHHHHHHHHHHHHHcccccccEEEEcccccEccccccc
Coil and Loop (DISEMBL)
nlcspsfscdsnitrcpdctvrkASSIRDLQKNLEALPRELQKLVETRNDVRIRVIVAEQQKMKRLEQVEPWFSRVQDAESEVAKLMLERNWELkklclggccsksckssyKVEGDFQEVAqrlpenpvdarpvALTIVGLESIFDKLWRCLTEEQVGIIGlygmgsvgkTTLLILINnkfldepnyfDVVIWAVASKVVEIEKIQESIAKKIGFfneswesktvQEKAVDIFNILSKKKYEDAWKLFEEKVGrdildshpnipELVETVAKECGAMASRKTHQEWEYAIEVWRNEYTLVYsydflpsdvgrfcLLIDIDQLVDFWICEGFLDEYDGIAARNQGYCIVGTLLHACLleeeegnrvkMHDVIRDMALWIASTFENKNEKFLVLAGVgltaapsvgv
Flexible Loop (DISEMBL)
nlcspsfscdsnitrcpdctvrKASSIRDLQKNLEALPRELqklvetrndvrirVIVAeqqkmkrleqvepwfsrVQDAESEVAKLMLERNWELKKLCLGGCCSKSCKSSYKVEGDFQEVAqrlpenpvdarpVALTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIgffneswesktvqeKAVDIFNILSKKKYEDAWKLFEEKVgrdildshpNIPELVETVAKECGAMASRKTHQEWEYAIEVWRNEYTLVYSYDFLPSDVGRFCLLIDIDQLVDFWICEGFLDEYDGIAARNQGYCIVGTLLHACLLEEEEGNRVKMHDVIRDMALWIASTFENKNEKFLVLAgvgltaapsvgv
Low Complexity Region (SEG)
NLCSPSFSCDSNITRCPDCTVRKASSIRDLQKNLEALPRELQKLVETRNDVRIRVIVAEQQKMKRLEQVEPWFSRVQDAESEVAKLMLERNWElkklclggccsksckssYKVEGDFQEVAQRLPENPVDARPVALTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFFNESWESKTVQEKAVDIFNILSKKKYEDAWKLFEEKVGRDILDSHPNIPELVETVAKECGAMASRKTHQEWEYAIEVWRNEYTLVYSYDFLPSDVGRFCLLIDIDQLVDFWICEGFLDEYDGIAARNQGYCIVGTLLHACLLEEEEGNRVKMHDVIRDMALWIASTFENKNEKFLVLAGVGLTAAPSVGV
Disordered region (IsUnstruct)
************ITRCPDCTVR***********L*ALPRELQKLVETRNDVRIRVIVAEQQKMKRLEQVEPWFSRVQDAESEVAKLMLERNWELKKLCLGGCCSKSCKSSYKVEGDFQEVAQRLPENPVDARPVALTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFFNESWESKTVQEKAVDIFNILSKKKYEDAWKLFEEKVGRDILDSHPNIPELVETVAKECGAMASRKTHQEWEYAIEVWRNEYTLVYSYDFLPSDVGRFCLLIDIDQLVDFWICEGFLDEYDGIAARNQGYCIVGTLLHACL***********HDVIRDMALWIASTFENKNEKFLVLAGVGLT*******
Disordered Region (DISOPRED)
NLCSPSFSCDSNITRCPDCTVRKASSIRDLQKNLEALPRELQKLVETRNDVRIRVIVAEQQKMKRLEQVEPWFSRVQDAESEVAKLMLERNWELKKLCLGGCCSKS**********************************LESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFFNESWESKTVQEKAVDIFNILSKKKYEDAWKLFEEKVGRDILDSHPNIPELVETVAKECG**AS*KTHQEWEYAIEVWRNEYTLVYSYDFLPSDVGRFCLLIDIDQLVDFWICEGFLDEYDGIAARNQGYCIVGTLLHACLLEEEEGNRVKMHDVIRDMALWIASTFENKNEKFLVLAGVGLTAAPS***
Disordered Region (DISEMBL)
********CDSNITRCPDCTVRKASSIRDLQKNLEALPRELQKLVETRNDVRIRVIVAEQQKMKRLEQVEPWFSRVQDAESEVAKLMLERNWELKKLCLGGCCSKSCKSSYKVEGDFQEVAQRLPENPVDARPVALTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFFNESWESKTVQEKAVDIFNILSKKKYEDAWKLFEEKVGRDILDSHPNIPELVETVAKECGAMASRKTHQEWEYAIEVWRNEYTLVYSYDFLPSDVGRFCLLIDIDQLVDFWICEGFLDEYDGIAARNQGYCIVGTLLHACLLEEEEGNRVKMHDVIRDMALWIASTFENKNEKFLVLAGVGLTAAPSVGV
Disordered Region (DISPRO)
NLCSPSFSCDSNITRCPDCTVRKASSIRDLQKNLEALPRELQKLVETRNDVRIRVIVAEQQKMKRLEQVEPWFSRVQDAESEVAKLMLERNWELKKLCLGGCCSKSCKSSYKVEGDFQEVAQRLPENPVDARPVALTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFFNESWESKTVQEKAVDIFNILSKKKYEDAWKLFEEKVGRDILDSHPNIPELVETVAKECGAMASRKTHQEWEYAIEVWRNEYTLVYSYDFLPSDVGRFCLLIDIDQLVDFWICEGFLDEYDGIAARNQGYCIVGTLLHACLLEEEEGNRVKMHDVIRDMALWIASTFENKNEKFLVLAGVGLTAAP****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
NLCSPSFSCDSNITRCPDCTVRKASSxxxxxxxxxxxxxxxxxxxxxRNDVRIRVIVAEQQKMKRLEQVEPWFSRVQDAESEVAKLMLERNWELKKLCLGGCCSKSCKSSYKVEGDFQEVAQRLPENPVDARPVALTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFFNESWESKTVQEKAVDIFNILSKKKYEDAWKLFEEKVGRDILDSHPNIPELVETVAKECGAMASRKTHQEWEYAIEVWRNEYTLVYSYDFLPSDVGRFCLLIDIDQLVDFWICEGFLDEYDGIAARNQGYCIVGTLLHACLLEEEEGNRVKMHDVIRDMALWIASTFENKNEKFLVLAGVGLTAAPSVGV
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	405	2.2.26 [Sep-21-2011]
O82484	892	Putative disease resistan	yes	no	0.982	0.446	0.358	4e-72
O64973	889	Disease resistance protei	no	no	0.985	0.448	0.355	7e-70
Q8RXS5	888	Probable disease resistan	no	no	0.982	0.448	0.343	4e-69
P60838	894	Probable disease resistan	no	no	0.982	0.445	0.342	8e-69
Q8L3R3	885	Disease resistance protei	no	no	0.987	0.451	0.339	3e-68
Q940K0	889	Probable disease resistan	no	no	0.967	0.440	0.362	3e-68
P60839	884	Probable disease resistan	no	no	0.987	0.452	0.343	2e-67
O22727	967	Probable disease resistan	no	no	0.990	0.414	0.352	1e-64
Q9LMP6	851	Probable disease resistan	no	no	0.985	0.468	0.337	2e-64
O64789	925	Probable disease resistan	no	no	0.967	0.423	0.350	3e-63

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

 Score =  272 bits (695), Expect = 4e-72,   Method: Compositional matrix adjust.
 Identities = 182/507 (35%), Positives = 251/507 (49%), Gaps = 109/507 (21%)

Query: 4   SPSFSCDSNITRCPDCTVRKASSIRDLQKNLEALPRELQKLVETRNDVRIRVIVAEQQKM 63
           S   SCD  +TR   C     + I  L+ N+ AL + ++ L  TR+DV  RV + E + +
Sbjct: 6   SLQISCDQVLTRAYSCFFSLGNYIHKLKDNIVALEKAIEDLTATRDDVLRRVQMEEGKGL 65

Query: 64  KRLEQVEPWFSRVQDAESEVAKLMLERNWELKKLCLGGCCSKSCKSSYKV---------- 113
           +RL+QV+ W  RV+   ++   L+  RN E+++LC    CS +  SSY            
Sbjct: 66  ERLQQVQVWLKRVEIIRNQFYDLLSARNIEIQRLCFYSNCSTNLSSSYTYGQRVFLMIKE 125

Query: 114 ------EGDFQEVAQRLPENPVDARPVALTIVGLESIFDKLWRCLTEEQVGIIGLYGMGS 167
                  G F+ VA   P+  ++ RP+  TI+G E+IF + W  L ++ VG +GLYGMG 
Sbjct: 126 VENLNSNGFFEIVAAPAPK--LEMRPIQPTIMGRETIFQRAWNRLMDDGVGTMGLYGMGG 183

Query: 168 VGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFFNESWESKTVQE 227
           VGKTTLL  I+N   D  N  D+VIW V S  ++I KIQE I +K+GF  + W  K   +
Sbjct: 184 VGKTTLLTQIHNTLHDTKNGVDIVIWVVVSSDLQIHKIQEDIGEKLGFIGKEWNKKQESQ 243

Query: 228 KAVDIFNILSKKKY----EDAWK------------------------------------- 246
           KAVDI N LSKK++    +D WK                                     
Sbjct: 244 KAVDILNCLSKKRFVLLLDDIWKKVDLTKIGIPSQTRENKCKVVFTTRSLDVCARMGVHD 303

Query: 247 --------------LFEEKVGRDILDSHPNIPELVETVAKECGA-----------MASRK 281
                         LF+EKVG+  L SHP+I EL + VA +C             MA ++
Sbjct: 304 PMEVQCLSTNDAWELFQEKVGQISLGSHPDILELAKKVAGKCRGLPLALNVIGETMAGKR 363

Query: 282 THQEWEYAIEV---WRNEYT---------LVYSYDFLPSDVGR----FCLLIDID----- 320
             QEW +A++V   +  E++         L YSYD L     R    +C L   D     
Sbjct: 364 AVQEWHHAVDVLTSYAAEFSGMDDHILLILKYSYDNLNDKHVRSCFQYCALYPEDYSIKK 423

Query: 321 -QLVDFWICEGFLDEYDGIA-ARNQGYCIVGTLLHACLLEEEEGNR--VKMHDVIRDMAL 376
            +L+D+WICEGF+D   G   A NQGY I+GTL+ ACLL EE  N+  VKMHDV+R+MAL
Sbjct: 424 YRLIDYWICEGFIDGNIGKERAVNQGYEILGTLVRACLLSEEGKNKLEVKMHDVVREMAL 483

Query: 377 WIASTFENKNEKFLVLAGVGLTAAPSV 403
           W  S      E+ +V AG GL   P V
Sbjct: 484 WTLSDLGKNKERCIVQAGSGLRKVPKV 510

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

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

 Score =  264 bits (675), Expect = 7e-70,   Method: Compositional matrix adjust.
 Identities = 181/509 (35%), Positives = 251/509 (49%), Gaps = 110/509 (21%)

Query: 4   SPSFSCDSNITRCPDCTVRKASSIRDLQKNLEALPRELQKLVETRNDVRIRVIVAEQ--Q 61
           S S  CD  +++       + S I +L KNL +L + ++ L   + DV IR +  E+   
Sbjct: 6   SVSLPCDQVVSQFSQLLCVRGSYIHNLSKNLASLQKAMRMLKARQYDV-IRRLETEEFTG 64

Query: 62  KMKRLEQVEPWFSRVQDAESEVAKLMLERNWELKKLCLGGCCSKSCKSSYKV-------- 113
           + +RL QV+ W + V   +++   L+     EL++LCL G CSK  K SY+         
Sbjct: 65  RQQRLSQVQVWLTSVLIIQNQFNDLLRSNEVELQRLCLCGFCSKDLKLSYRYGKRVIMML 124

Query: 114 --------EGDFQEVAQRLPENPVDARPVALTIVGLESIFDKLWRCLTEEQVGIIGLYGM 165
                   +G F  V++  P   VD  P   TIVG E + +K W  L E+  GI+GLYGM
Sbjct: 125 KEVESLSSQGFFDVVSEATPFADVDEIPFQPTIVGQEIMLEKAWNRLMEDGSGILGLYGM 184

Query: 166 GSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFFNESWESKTV 225
           G VGKTTLL  INNKF    + FDVVIW V S+   + KIQ  IA+K+G     W  K  
Sbjct: 185 GGVGKTTLLTKINNKFSKIDDRFDVVIWVVVSRSSTVRKIQRDIAEKVGLGGMEWSEKND 244

Query: 226 QEKAVDIFNILSKKKY----EDAWK----------------------------------- 246
            + AVDI N+L ++K+    +D W+                                   
Sbjct: 245 NQIAVDIHNVLRRRKFVLLLDDIWEKVNLKAVGVPYPSKDNGCKVAFTTRSRDVCGRMGV 304

Query: 247 ----------------LFEEKVGRDILDSHPNIPELVETVAKECG-----------AMAS 279
                           LF+ KVG++ L SHP+IP L   VA++C            AMA 
Sbjct: 305 DDPMEVSCLQPEESWDLFQMKVGKNTLGSHPDIPGLARKVARKCRGLPLALNVIGEAMAC 364

Query: 280 RKTHQEWEYAIEVWRNE------------YTLVYSYDFLPSDVGRFCL----------LI 317
           ++T  EW +AI+V  +             + L YSYD L  ++ + C           LI
Sbjct: 365 KRTVHEWCHAIDVLTSSAIDFSGMEDEILHVLKYSYDNLNGELMKSCFLYCSLFPEDYLI 424

Query: 318 DIDQLVDFWICEGFLDEYDGIAAR-NQGYCIVGTLLHACLLEEEEGNR--VKMHDVIRDM 374
           D + LVD+WI EGF++E +G     NQGY I+GTL+ ACLL EEE N+  VKMHDV+R+M
Sbjct: 425 DKEGLVDYWISEGFINEKEGRERNINQGYEIIGTLVRACLLLEEERNKSNVKMHDVVREM 484

Query: 375 ALWIASTFENKNEKFLVLAGVGLTAAPSV 403
           ALWI+S    + EK +V AGVGL   P V
Sbjct: 485 ALWISSDLGKQKEKCIVRAGVGLREVPKV 513

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

 Score =  262 bits (669), Expect = 4e-69,   Method: Compositional matrix adjust.
 Identities = 173/504 (34%), Positives = 253/504 (50%), Gaps = 106/504 (21%)

Query: 4   SPSFSCDSNITRCPDCTVRKASSIRDLQKNLEALPRELQKLVETRNDVRIRVIVAEQQKM 63
           S S SCD        C  R    I  L++NL AL R L+++ + R D+  +++  E++ +
Sbjct: 6   SVSISCDQLTKNVCSCLNRNGDYIHGLEENLTALQRALEQIEQRREDLLRKILSEERRGL 65

Query: 64  KRLEQVEPWFSRVQDAESEVAKLMLERNWELKKLCLGGCCSKSCKSSYKV---------- 113
           +RL  V+ W S+V+     V +L+  R+ ++++LCL G CSK+  SSY+           
Sbjct: 66  QRLSVVQGWVSKVEAIVPRVNELVRMRSVQVQRLCLCGFCSKNLVSSYRYGKRVMKMIEE 125

Query: 114 ------EGDFQEVAQRLPENPVDARPVALTIVGLESIFDKLWRCLTEEQVGIIGLYGMGS 167
                 +GDF  VA+R+    V+ RP    +V ++ + +  W  L E+++GI+GL+GMG 
Sbjct: 126 VEVLRYQGDFAVVAERVDAARVEERPTR-PMVAMDPMLESAWNRLMEDEIGILGLHGMGG 184

Query: 168 VGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFFNESWESKTVQE 227
           VGKTTLL  INN+F      FD+VIW V SK ++I++IQ+ I +K+   NE W+ KT   
Sbjct: 185 VGKTTLLSHINNRFSRVGGEFDIVIWIVVSKELQIQRIQDEIWEKLRSDNEKWKQKTEDI 244

Query: 228 KAVDIFNILSKKKY----EDAWK------------------------------------- 246
           KA +I+N+L  K++    +D W                                      
Sbjct: 245 KASNIYNVLKHKRFVLLLDDIWSKVDLTEVGVPFPSRENGCKIVFTTRLKEICGRMGVDS 304

Query: 247 --------------LFEEKVGRDILDSHPNIPELVETVAKECGA-----------MASRK 281
                         LF +KVG   L SHP IP +  TVAK+C             MA ++
Sbjct: 305 DMEVRCLAPDDAWDLFTKKVGEITLGSHPEIPTVARTVAKKCRGLPLALNVIGETMAYKR 364

Query: 282 THQEWEYAIEVWRN---EYT---------LVYSYDFLPSDVGRFCLL----------IDI 319
           T QEW  AI+V  +   E++         L YSYD L S+  + C            I+ 
Sbjct: 365 TVQEWRSAIDVLTSSAAEFSGMEDEILPILKYSYDNLKSEQLKLCFQYCALFPEDHNIEK 424

Query: 320 DQLVDFWICEGFLDEYDGIAARNQGYCIVGTLLHACLLEEEEGNRVKMHDVIRDMALWIA 379
           + LVD+WI EGF+D   G  A NQGY I+G L+ +CLL EE    VKMHDV+R+MALWIA
Sbjct: 425 NDLVDYWIGEGFIDRNKG-KAENQGYEIIGILVRSCLLMEENQETVKMHDVVREMALWIA 483

Query: 380 STFENKNEKFLVLAGVGLTAAPSV 403
           S F  + E F+V AG+     P +
Sbjct: 484 SDFGKQKENFIVQAGLQSRNIPEI 507

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  261 bits (666), Expect = 8e-69,   Method: Compositional matrix adjust.
 Identities = 173/505 (34%), Positives = 255/505 (50%), Gaps = 107/505 (21%)

Query: 6   SFSCDSNITRCPDCTVRKASSIRDLQKNLEALPRELQKLVETRNDVRIRVIVAE-QQKMK 64
           SFSCD  + +           I +L KN+ A+ ++++ L + R+DV+ RV + E  ++ +
Sbjct: 8   SFSCDEVVNQISQGLCINVGYICELSKNVVAMKKDMEVLKKKRDDVKRRVDIEEFTRRRE 67

Query: 65  RLEQVEPWFSRVQDAESEVAKLMLERNWELKKLCLGGCCSKSCKSSY------------- 111
           RL QV+ W + V   E++  +L+   + EL++LCL G CSK+ K SY             
Sbjct: 68  RLSQVQGWLTNVSTVENKFNELLTTNDAELQRLCLFGFCSKNVKMSYLYGKRVVLMLKEI 127

Query: 112 ---KVEGDFQEVAQRLPENPVDARPVALTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSV 168
                +GDF  V    P   ++  P+  TIVG E++ +++W  LTE+   I+GLYGMG V
Sbjct: 128 ESLSSQGDFDTVTLATPIARIEEMPIQPTIVGQETMLERVWTRLTEDGDEIVGLYGMGGV 187

Query: 169 GKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFFNESWESKTVQEK 228
           GKTTLL  INNKF ++ + F VVIW V SK  +I +IQ  I K++    E W++    ++
Sbjct: 188 GKTTLLTRINNKFSEKCSGFGVVIWVVVSKSPDIHRIQGDIGKRLDLGGEEWDNVNENQR 247

Query: 229 AVDIFNILSKKKY----EDAW--------------------------------------- 245
           A+DI+N+L K+K+    +D W                                       
Sbjct: 248 ALDIYNVLGKQKFVLLLDDIWEKVNLEVLGVPYPSRQNGCKVVFTTRSRDVCGRMRVDDP 307

Query: 246 ------------KLFEEKVGRDILDSHPNIPELVETVAKECGA-----------MASRKT 282
                       +LF+ KVG + L  HP+IPEL   VA +C             MA ++ 
Sbjct: 308 MEVSCLEPNEAWELFQMKVGENTLKGHPDIPELARKVAGKCCGLPLALNVIGETMACKRM 367

Query: 283 HQEWEYAIEV---WRNEY--------TLVYSYDFLPSDVGRFCLL----------IDIDQ 321
            QEW  AI+V   +  E+         L YSYD L  +  + C L          ++ ++
Sbjct: 368 VQEWRNAIDVLSSYAAEFPGMEQILPILKYSYDNLNKEQVKPCFLYCSLFPEDYRMEKER 427

Query: 322 LVDFWICEGFLDEYDGIA-ARNQGYCIVGTLLHACLLEEEEGNR--VKMHDVIRDMALWI 378
           L+D+WICEGF+DE +    A +QGY I+G L+ ACLL EE  N+  VKMHDV+R+MALWI
Sbjct: 428 LIDYWICEGFIDENESRERALSQGYEIIGILVRACLLLEEAINKEQVKMHDVVREMALWI 487

Query: 379 ASTFENKNEKFLVLAGVGLTAAPSV 403
           AS      E+ +V  GVGL   P V
Sbjct: 488 ASDLGEHKERCIVQVGVGLREVPKV 512

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  259 bits (661), Expect = 3e-68,   Method: Compositional matrix adjust.
 Identities = 172/507 (33%), Positives = 250/507 (49%), Gaps = 107/507 (21%)

Query: 4   SPSFSCDSNITRCPDCTVRKASSIRDLQKNLEALPRELQKLVETRNDVRIRVIVAE-QQK 62
           S S SCD  + +         S I++L +NL +L + +  L   R+DV+ R+   E    
Sbjct: 6   SVSLSCDREVNQFSQWLCVSGSYIQNLSENLASLQKAMGVLNAKRDDVQGRINREEFTGH 65

Query: 63  MKRLEQVEPWFSRVQDAESEVAKLMLERNWELKKLCLGGCCSKSCKSSY----------- 111
            +RL QV+ W +R+Q  E++   L+   N E+++LCL G CSK+ K SY           
Sbjct: 66  RRRLAQVQVWLTRIQTIENQFNDLLSTCNAEIQRLCLCGFCSKNVKMSYLYGKRVIVLLR 125

Query: 112 -----KVEGDFQEVAQRLPENPVDARPVALTIVGLESIFDKLWRCLTEEQVGIIGLYGMG 166
                  +G F  V +  P   V+  P+  TIVG +S+ DK+W CL E++V I+GLYGMG
Sbjct: 126 EVEGLSSQGVFDIVTEAAPIAEVEELPIQSTIVGQDSMLDKVWNCLMEDKVWIVGLYGMG 185

Query: 167 SVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFFNESWESKTVQ 226
            VGKTTLL  INNKF      FDVVIW V SK   + KIQ+SI +K+G   ++W+ K   
Sbjct: 186 GVGKTTLLTQINNKFSKLGGGFDVVIWVVVSKNATVHKIQKSIGEKLGLVGKNWDEKNKN 245

Query: 227 EKAVDIFNILSKKKY----EDAWK------------------------------------ 246
           ++A+DI N+L +KK+    +D W+                                    
Sbjct: 246 QRALDIHNVLRRKKFVLLLDDIWEKVELKVIGVPYPSGENGCKVAFTTHSKEVCGRMGVD 305

Query: 247 ---------------LFEEKVGRDILDSHPNIPELVETVAKECGA-----------MASR 280
                          L ++KVG + L SHP+IP+L   V+++C             M+ +
Sbjct: 306 NPMEISCLDTGNAWDLLKKKVGENTLGSHPDIPQLARKVSEKCCGLPLALNVIGETMSFK 365

Query: 281 KTHQEWEYAIEVWRNEY-----------TLVYSYDFLPSDVGRFCLL----------IDI 319
           +T QEW +A EV  +              L YSYD L  +  + C L          I  
Sbjct: 366 RTIQEWRHATEVLTSATDFSGMEDEILPILKYSYDSLNGEDAKSCFLYCSLFPEDFEIRK 425

Query: 320 DQLVDFWICEGFLDEYDGI-AARNQGYCIVGTLLHACLLEEEEGNR--VKMHDVIRDMAL 376
           + L+++WICEGF+ E  G   A NQGY I+GTL+ + LL E   ++  V MHD++R+MAL
Sbjct: 426 EMLIEYWICEGFIKEKQGREKAFNQGYDILGTLVRSSLLLEGAKDKDVVSMHDMVREMAL 485

Query: 377 WIASTFENKNEKFLVLAGVGLTAAPSV 403
           WI S      E+ +V AG+GL   P V
Sbjct: 486 WIFSDLGKHKERCIVQAGIGLDELPEV 512

Disease resistance (R) protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  259 bits (661), Expect = 3e-68,   Method: Compositional matrix adjust.
 Identities = 181/499 (36%), Positives = 248/499 (49%), Gaps = 107/499 (21%)

Query: 10  DSNITRCPDCTVRKASSIRDLQKNLEALPRELQKLVETRNDVRIRVIVAEQQKMKRLEQV 69
           D  + R  +C + K S IR L+KNL AL RE++ L   +++V+ +V   E +  +RLE V
Sbjct: 11  DQTLNRIFNCLIGK-SYIRTLEKNLRALQREMEDLRAIQHEVQNKVARDEARHQRRLEAV 69

Query: 70  EPWFSRVQDAESEVAKLMLERNWELKKLCLGGCCSKSCKSSYKV---------------- 113
           + W  RV   + E   L+     EL+KLCL G CSK   SSYK                 
Sbjct: 70  QVWLDRVNSVDIECKDLLSVTPVELQKLCLCGLCSKYVCSSYKYGKKVFLLLEEVKKLNS 129

Query: 114 EGDFQEVAQRLPENPVDARPVALTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTL 173
           EG+F EV+Q  P + V+ RP   TI G E + +K W  L E+ VGI+GL+GMG VGKTTL
Sbjct: 130 EGNFDEVSQPPPRSEVEERPTQPTI-GQEDMLEKAWNRLMEDGVGIMGLHGMGGVGKTTL 188

Query: 174 LILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFFNESWESKTVQEKAVDIF 233
              I+NKF +    FD+VIW V SK V I K+QE IA+K+   ++ W++K   +KA DI 
Sbjct: 189 FKKIHNKFAEIGGTFDIVIWIVVSKGVMISKLQEDIAEKLHLCDDLWKNKNESDKATDIH 248

Query: 234 NILSKKKY----EDAW-------------------------------------------- 245
            +L  K++    +D W                                            
Sbjct: 249 RVLKGKRFVLMLDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRSREVCGEMGDHKPMQVNC 308

Query: 246 -------KLFEEKVGRDILDSHPNIPELVETVAKECGA-----------MASRKTHQEWE 287
                  +LF+ KVG + L S P I EL   VA++C             M+S+   QEWE
Sbjct: 309 LEPEDAWELFKNKVGDNTLSSDPVIVELAREVAQKCRGLPLALNVIGETMSSKTMVQEWE 368

Query: 288 YAIEVWRN---EYT---------LVYSYDFLPSDVGRFCLL----------IDIDQLVDF 325
           +AI V+     E++         L YSYD L  +  + C L          I  ++L+D+
Sbjct: 369 HAIHVFNTSAAEFSDMQNKILPILKYSYDSLGDEHIKSCFLYCALFPEDGEIYNEKLIDY 428

Query: 326 WICEGFLDEYDGIA-ARNQGYCIVGTLLHACLLEEEEGNRVKMHDVIRDMALWIASTFEN 384
           WICEGF+ E   I  ARN+GY ++GTL  A LL +       MHDV+R+MALWIAS F  
Sbjct: 429 WICEGFIGEDQVIKRARNKGYAMLGTLTRANLLTKVGTYYCVMHDVVREMALWIASDFGK 488

Query: 385 KNEKFLVLAGVGLTAAPSV 403
           + E F+V AGVGL   P V
Sbjct: 489 QKENFVVQAGVGLHEIPKV 507

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  256 bits (654), Expect = 2e-67,   Method: Compositional matrix adjust.
 Identities = 175/509 (34%), Positives = 248/509 (48%), Gaps = 109/509 (21%)

Query: 4   SPSFSCDSNITRCPDCTVRKASSIRDLQKNLEALPRELQKLVETRNDVRIRVIVAEQQKM 63
           S   SCD  +     C  RK   I+++++NL +L   ++ L   R+D+  +V  AE+  +
Sbjct: 6   SVQVSCDQLLNHLGRCFCRKLYYIQNIKENLTSLEEAMEDLKALRDDLLRKVQTAEEGGL 65

Query: 64  KRLEQVEPWFSRVQDAESEVAKLMLERNWELKKLCLGGCCSKSCKSSY------------ 111
           +RL Q++ W  RV+  ES+   L   R  EL++LC  G  S++ + SY            
Sbjct: 66  QRLHQIKVWLKRVKTIESQFNDLDSSRTVELQRLCCCGVGSRNLRLSYDYGRRVFLMLNI 125

Query: 112 ----KVEGDFQEVAQRLPENPVDARPVALTIVGLESIFDKLWRCLTEEQVGIIGLYGMGS 167
               K +G F+EVA        + RP+  TIVG E+I +K W  L ++   I+GLYGMG 
Sbjct: 126 VEDLKSKGIFEEVAHPATRAVGEERPLQPTIVGQETILEKAWDHLMDDGTKIMGLYGMGG 185

Query: 168 VGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFFNESWESKTVQE 227
           VGKTTLL  INN+F D  +  ++VIW V S  ++I KIQ+ I +KIGF    W  K+  +
Sbjct: 186 VGKTTLLTQINNRFCDTDDGVEIVIWVVVSGDLQIHKIQKEIGEKIGFIGVEWNQKSENQ 245

Query: 228 KAVDIFNILSKKKY----EDAWK------------------------------------- 246
           KAVDI N LSKK++    +D WK                                     
Sbjct: 246 KAVDILNFLSKKRFVLLLDDIWKRVELTEIGIPNPTSENGCKIAFTTRCQSVCASMGVHD 305

Query: 247 --------------LFEEKVGRDILDSHPNIPELVETVAKECGA-----------MASRK 281
                         LF++KVG   L SHP+IPE+   VA+ C             MA +K
Sbjct: 306 PMEVRCLGADDAWDLFKKKVGDITLSSHPDIPEIARKVAQACCGLPLALNVIGETMACKK 365

Query: 282 THQEWEYAIEVW------------RNEYTLVYSYDFLPSDVGRFCL----------LIDI 319
           T QEW+ A++V             R    L YSYD L S+  + C           LI+ 
Sbjct: 366 TTQEWDRAVDVSTTYAANFGAVKERILPILKYSYDNLESESVKTCFLYCSLFPEDDLIEK 425

Query: 320 DQLVDFWICEGFLD-EYDGIAARNQGYCIVGTLLHACLLEE----EEGNRVKMHDVIRDM 374
           ++L+D+WICEGF+D + +   A  +GY I+GTL+ A LL E       + VKMHDV+R+M
Sbjct: 426 ERLIDYWICEGFIDGDENKKGAVGEGYEILGTLVCASLLVEGGKFNNKSYVKMHDVVREM 485

Query: 375 ALWIASTFENKNEKFLVLAGVGLTAAPSV 403
           ALWIAS      +  +V AG  L   P V
Sbjct: 486 ALWIASDLRKHKDNCIVRAGFRLNEIPKV 514

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 =  247 bits (630), Expect = 1e-64,   Method: Compositional matrix adjust.
 Identities = 180/511 (35%), Positives = 247/511 (48%), Gaps = 110/511 (21%)

Query: 1   NLCSPSFSCDSNITRCPDCTVRKASSIRDLQKNLEALPRELQKLVETRNDVRIRVIVAEQ 60
           N      S D  + R   C   K   IR+L+KNL AL RE++ L  T+++V+ +V   E 
Sbjct: 3   NFVCIEISGDQMLDRIIRCLCGKGY-IRNLEKNLRALQREMEDLRATQHEVQNKVAREES 61

Query: 61  QKMKRLEQVEPWFSRVQDAESEVAKLMLERNWELKKLCLGGCCSKSCKSSYKV------- 113
           +  +RLE V+ W  RV   + E   L+     EL+KLCL G CSK   SSYK        
Sbjct: 62  RHQQRLEAVQVWLDRVNSIDIECKDLLSVSPVELQKLCLCGLCSKYVCSSYKYGKRVFLL 121

Query: 114 ---------EGDFQEVAQRLPENPVDARPVALTIVGLESIFDKLWRCLTEEQVGIIGLYG 164
                    EG+F EV+Q  P + V+ RP   TI G E +  K W  L E+ VGI+GL+G
Sbjct: 122 LEEVTKLKSEGNFDEVSQPPPRSEVEERPTQPTI-GQEEMLKKAWNRLMEDGVGIMGLHG 180

Query: 165 MGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFFNESWESKT 224
           MG VGKTTL   I+NKF +    FD+VIW V S+  ++ K+QE IA+K+   ++ W++K 
Sbjct: 181 MGGVGKTTLFKKIHNKFAETGGTFDIVIWIVVSQGAKLSKLQEDIAEKLHLCDDLWKNKN 240

Query: 225 VQEKAVDIFNILSKKKY----EDAW----------------------------------- 245
             +KA DI  +L  K++    +D W                                   
Sbjct: 241 ESDKATDIHRVLKGKRFVLMLDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRDQKVCGQMG 300

Query: 246 ----------------KLFEEKVGRDILDSHPNIPELVETVAKECGA-----------MA 278
                           +LF+ KVG + L S P I  L   VA++C             MA
Sbjct: 301 DHKPMQVKCLEPEDAWELFKNKVGDNTLRSDPVIVGLAREVAQKCRGLPLALSCIGETMA 360

Query: 279 SRKTHQEWEYAIEVWRN---EYT---------LVYSYDFLPSDVGRFCLL---------- 316
           S+   QEWE+AI+V      E++         L YSYD L  +  + C L          
Sbjct: 361 SKTMVQEWEHAIDVLTRSAAEFSDMQNKILPILKYSYDSLEDEHIKSCFLYCALFPEDDK 420

Query: 317 IDIDQLVDFWICEGFLDEYDGIA-ARNQGYCIVGTLLHACLLEEEEGN---RVKMHDVIR 372
           ID   L++ WICEGF+ E   I  ARN+GY ++GTL+ A LL  + G     V MHDV+R
Sbjct: 421 IDTKTLINKWICEGFIGEDQVIKRARNKGYEMLGTLIRANLLTNDRGFVKWHVVMHDVVR 480

Query: 373 DMALWIASTFENKNEKFLVLAGVGLTAAPSV 403
           +MALWIAS F  + E ++V A VGL   P V
Sbjct: 481 EMALWIASDFGKQKENYVVRARVGLHEIPKV 511

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  246 bits (629), Expect = 2e-64,   Method: Compositional matrix adjust.
 Identities = 171/507 (33%), Positives = 255/507 (50%), Gaps = 108/507 (21%)

Query: 1   NLCSPSFSCDSNITRCPDCTVRKASSIRDLQKNLEALPRELQKLVETRNDVRIRVIVAEQ 60
           N  +   SCD  +     C     + I  ++ NLEAL   +Q+L E R+D+  RV++ E 
Sbjct: 3   NCVALEISCDQTLNHACGCLFGDRNYILKMEANLEALQNTMQELEERRDDLLRRVVIEED 62

Query: 61  QKMKRLEQVEPWFSRVQDAESEVAKLMLERNWELKKLCLGGCCSKSCKS--SYKV----- 113
           + ++RL QV+ W SRV+D  S+V  L+  ++ + ++LCL G CSK+  S  +Y +     
Sbjct: 63  KGLQRLAQVQGWLSRVKDVCSQVNDLLKAKSIQTERLCLCGYCSKNFISGRNYGINVLKK 122

Query: 114 ---------EGDFQEVAQRLPENPVDARPVALTIVGLESIFDKLWRCLTEEQVGIIGLYG 164
                    +G F+ VA+++P   V+ + +  T VGL+++  + W  L +++   +GLYG
Sbjct: 123 LKHVEGLLAKGVFEVVAEKIPAPKVEKKHIQ-TTVGLDAMVGRAWNSLMKDERRTLGLYG 181

Query: 165 MGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFFNESWESKT 224
           MG VGKTTLL  INNKFL+  N FD+VIW V SK ++ E IQE I  ++G  +  W+  T
Sbjct: 182 MGGVGKTTLLASINNKFLEGMNGFDLVIWVVVSKDLQNEGIQEQILGRLG-LHRGWKQVT 240

Query: 225 VQEKAVDIFNILSKKKY----EDAW----------------------------------- 245
            +EKA  I NIL+ KK+    +D W                                   
Sbjct: 241 EKEKASYICNILNVKKFVLLLDDLWSEVDLEKIGVPPLTRENGSKIVFTTRSKDVCRDME 300

Query: 246 ----------------KLFEEKVGRDILDSHPNIPELVETVAKEC-----------GAMA 278
                           +LF++KVG   L SH +IP L   VA++C            AMA
Sbjct: 301 VDGEMKVDCLPPDEAWELFQKKVGPIPLQSHEDIPTLARKVAEKCCGLPLALSVIGKAMA 360

Query: 279 SRKTHQEWEYAIEVWRNEY------------TLVYSYDFLPSDVGRFCLL---------- 316
           SR+T QEW++ I V  +               L +SYD L  +  + C L          
Sbjct: 361 SRETVQEWQHVIHVLNSSSHEFPSMEEKILPVLKFSYDDLKDEKVKLCFLYCSLFPEDYE 420

Query: 317 IDIDQLVDFWICEGFLD-EYDGIAARNQGYCIVGTLLHACLLEEEE-GNRVKMHDVIRDM 374
           +  ++L+++W+CEGF+D   D   A N+G+ I+G+L+ A LL + E   +VKMHDVIR+M
Sbjct: 421 VRKEELIEYWMCEGFIDGNEDEDGANNKGHDIIGSLVRAHLLMDGELTTKVKMHDVIREM 480

Query: 375 ALWIASTFENKNEKFLVLAGVGLTAAP 401
           ALWIAS F  + E   V  GV L   P
Sbjct: 481 ALWIASNFGKQKETLCVKPGVQLCHIP 507

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 =  242 bits (618), Expect = 3e-63,   Method: Compositional matrix adjust.
 Identities = 179/510 (35%), Positives = 246/510 (48%), Gaps = 118/510 (23%)

Query: 10  DSNITRCPDCTVRKASSIRDLQKNLEALPRELQKLVETRNDVRIRVIVAEQQKMKRLEQV 69
           D  + R  DC + K S IR L+KNL AL RE++ L  T+++V+ +V   E +  +RLE V
Sbjct: 13  DQTMNRIFDCLIGK-SYIRTLEKNLRALQREMEDLRATQHEVQNKVAREESRHQQRLEAV 71

Query: 70  EPWFSRVQDAESEVAKLMLERNWELKKLCLGGCCSKSCKSSYKV---------------- 113
           + W  RV   + E   L+     EL+KLCL G C+K   SSYK                 
Sbjct: 72  QVWLDRVNSIDIECKDLLSVSPVELQKLCLCGLCTKYVCSSYKYGKKVFLLLEEVKILKS 131

Query: 114 EGDFQEVAQRLPENPVDARPVALTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTL 173
           EG+F EV+Q  P + V+ RP   TI G E + +K W  L E+ VGI+GL+GMG VGKTTL
Sbjct: 132 EGNFDEVSQPPPRSEVEERPTQPTI-GQEEMLEKAWNRLMEDGVGIMGLHGMGGVGKTTL 190

Query: 174 LILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFFNESWESKTVQEKAVDIF 233
              I+NKF +    FD+VIW V S+  ++ K+QE IA+K+   ++ W++K   +KA DI 
Sbjct: 191 FKKIHNKFAEIGGTFDIVIWIVVSQGAKLSKLQEDIAEKLHLCDDLWKNKNESDKATDIH 250

Query: 234 NILSKKKY----EDAW-------------------------------------------- 245
            +L  K++    +D W                                            
Sbjct: 251 RVLKGKRFVLMLDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRSREVCGEMGDHKPMQVNC 310

Query: 246 -------KLFEEKVGRDILDSHPNIPELVETVAKECGA-----------MASRKTHQEWE 287
                  +LF+ KVG + L S P I  L   VA++C             MAS+   QEWE
Sbjct: 311 LEPEDAWELFKNKVGDNTLSSDPVIVGLAREVAQKCRGLPLALNVIGETMASKTMVQEWE 370

Query: 288 YAIEVWRN---EYT---------LVYSYDFLPSDVGRFCLL----------IDIDQLVDF 325
           YAI+V      E++         L YSYD L  +  + C L          I  + L+D 
Sbjct: 371 YAIDVLTRSAAEFSGMENKILPILKYSYDSLGDEHIKSCFLYCALFPEDGQIYTETLIDK 430

Query: 326 WICEGFLDEYDGIA-ARNQGYCIVGTLLHACLLEE---EEGNRVK--------MHDVIRD 373
            ICEGF+ E   I  ARN+GY ++GTL  A LL +   E  N +         MHDV+R+
Sbjct: 431 LICEGFIGEDQVIKRARNKGYAMLGTLTRANLLTKVGTELANLLTKVSIYHCVMHDVVRE 490

Query: 374 MALWIASTFENKNEKFLVLAGVGLTAAPSV 403
           MALWIAS F  + E F+V A  GL   P V
Sbjct: 491 MALWIASDFGKQKENFVVQASAGLHEIPEV 520

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	405
24461861	890	NBS-LRR type disease resistance protein	0.995	0.452	0.422	2e-98
24461866	890	NBS-LRR type disease resistance protein	0.970	0.441	0.412	2e-92
24461864	899	NBS-LRR type disease resistance protein	0.992	0.447	0.411	7e-91
225443158	903	PREDICTED: probable disease resistance p	0.995	0.446	0.408	3e-90
24461863	889	NBS-LRR type disease resistance protein	0.943	0.429	0.416	4e-89
359482676	896	PREDICTED: probable disease resistance p	0.985	0.445	0.412	3e-87
224055915	880	cc-nbs-lrr resistance protein [Populus t	0.992	0.456	0.392	5e-83
359483035	897	PREDICTED: probable disease resistance p	0.985	0.444	0.406	3e-81
225462595	897	PREDICTED: probable disease resistance p	0.985	0.444	0.406	2e-80
225470150	897	PREDICTED: probable disease resistance p	0.985	0.444	0.400	2e-80

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

 Score =  365 bits (938), Expect = 2e-98,   Method: Compositional matrix adjust.
 Identities = 215/509 (42%), Positives = 282/509 (55%), Gaps = 106/509 (20%)

Query: 1   NLCSPSFSCDSNI-TRCPDCTVRKASSIRDLQKNLEALPRELQKLVETRNDVRIRVIVAE 59
           N+C  S SCD     RC DC + KA+ I +LQ NL AL  EL+KL+  +ND+  RV  AE
Sbjct: 3   NICQISISCDGAFFNRCLDCFLGKAAYISNLQDNLVALDTELRKLIAAKNDLMRRVNDAE 62

Query: 60  QQKMKRLEQVEPWFSRVQDAESEVAKLMLERNWELKKLCLGGCCSKSCKSSYKV------ 113
           +Q+M+RL+QV+ W SRV+  E+E    + +   E++KLCLGG CSK+CKSSYK       
Sbjct: 63  RQQMRRLDQVQVWVSRVETVETEADAFIGDGTQEIEKLCLGGYCSKNCKSSYKFGKQVAR 122

Query: 114 ----------EGDFQEVAQRLPENPVDARPVALTIVGLESIFDKLWRCLTEEQVGIIGLY 163
                     EG F+ VA ++PE  VD RP   T+VGL+S  +++WRCL EE VGI+GLY
Sbjct: 123 KLRDIKTLMGEGVFEVVADKVPEPAVDERPTEPTVVGLQSQLEEVWRCLVEEPVGIVGLY 182

Query: 164 GMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFFNESWESK 223
           GMG VGKTTLL  INNKFL  P  FD+VI  V SK + +E IQE I +KIG  N++W+S+
Sbjct: 183 GMGGVGKTTLLTHINNKFLGSPTNFDLVILVVVSKDLRLESIQEVIGEKIGLLNDAWKSR 242

Query: 224 TVQEKAVDIFNILSKKKY----EDAWK--------------------------------- 246
            +++KA+DIF IL  K +    +D W+                                 
Sbjct: 243 RIEQKALDIFRILRGKNFVVLLDDIWQRVDLAKVGIPLPNSQTSASKVVFTTRSEEVCGL 302

Query: 247 -------------------LFEEKVGRDILDSHPNIPELVETVAKECG-----------A 276
                              LF +KVG + L+ H +I EL +TV KECG           A
Sbjct: 303 MEAHKKFKVECLSGNDAWELFRQKVGEETLNCHHDILELAQTVTKECGGLPLALITIGRA 362

Query: 277 MASRKTHQEWEYAIEVWRNEYT------------LVYSYDFLPSDVGRFCLL-------- 316
           MA +KT +EW YAI+V R   +            L +SYD LP+D  R CLL        
Sbjct: 363 MACKKTPEEWSYAIQVLRTSSSQFPGLGNEVYPLLKFSYDNLPNDTIRSCLLYCCLYPED 422

Query: 317 --IDIDQLVDFWICEGFLDEYDGIAARNQGYCIVGTLLHACLLEEEEGNRVKMHDVIRDM 374
             I  + LVD WI EG L+    + +  QGY +VG L+H+CLLEE + + VKMHDVIRDM
Sbjct: 423 CCISKENLVDCWIGEGLLNGSVTLGSHEQGYHVVGILVHSCLLEEVDEDEVKMHDVIRDM 482

Query: 375 ALWIASTFENKNEKFLVLAGVGLTAAPSV 403
           ALW+A   E + E +LV AG GL  AP V
Sbjct: 483 ALWLACDAEKEKENYLVYAGAGLREAPDV 511

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  345 bits (886), Expect = 2e-92,   Method: Compositional matrix adjust.
 Identities = 206/500 (41%), Positives = 277/500 (55%), Gaps = 107/500 (21%)

Query: 11  SNI-TRCPDCTVRKASSIRDLQKNLEALPRELQKLVETRNDVRIRVIVAEQQKMKRLEQV 69
           SNI  RC D  + +A  I  L+ NL+ L  +L++L+E ++DV  RV +AE+Q+M RL QV
Sbjct: 12  SNIFPRCLDWILNEAKYISQLEDNLDDLQTKLEQLIEAKDDVMNRVEIAERQQMSRLNQV 71

Query: 70  EPWFSRVQDAESEVAKLMLERNWELKKLCLGGCCSKSCKSSYKV---------------- 113
           + W SRV+  ++E  +L+   + E+++LCL G CSK+CKSSY                  
Sbjct: 72  QGWVSRVEAVKAEADQLIRVGSQEIERLCLWGYCSKNCKSSYDFGKKVTKKLQLVETLMG 131

Query: 114 EGDFQEVAQRLPENPVDARPVALTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTL 173
           EG F+ VA+++P      RP   T++GL+S  +++WRCL EE  GI+GLYGMG VGKTTL
Sbjct: 132 EGIFEVVAEKVPGAAATERPTEPTVIGLQSQLEQVWRCLVEEPAGIVGLYGMGGVGKTTL 191

Query: 174 LILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFFNESWESKTVQEKAVDIF 233
           L  INNKFL+    F+ VIW V SK + +E IQE+I +KIG  N++W+++ +++KA+DIF
Sbjct: 192 LTHINNKFLESTTNFNYVIWVVVSKDLRLENIQETIGEKIGLLNDTWKNRRIEQKALDIF 251

Query: 234 NILSKKKY----EDAWK------------------------------------------- 246
            IL +KK+    +D W+                                           
Sbjct: 252 KILKEKKFVLLLDDLWQRVDLVEVGVPLPGPQSSTSKVVFTSRSEEVCGLMEAHKKFKVA 311

Query: 247 ---------LFEEKVGRDILDSHPNIPELVETVAKECG-----------AMASRKTHQEW 286
                    LF++KVG + L S P+I +L +T AKECG           AMA +KT +EW
Sbjct: 312 CLSDIDAWELFQQKVGEETLKS-PDIRQLAQTAAKECGGLPLALITIGRAMACKKTPEEW 370

Query: 287 EYAIEVWRNEYT------------LVYSYDFLPSDVGRFCLL----------IDIDQLVD 324
            YAIEV R   +            L +SYD LPSD  R CLL          I  + L+D
Sbjct: 371 TYAIEVLRTSSSQFPGLGNEVYPLLKFSYDSLPSDTIRSCLLYCCLYPEDYCISKEILID 430

Query: 325 FWICEGFLDEYDGIAARNQGYCIVGTLLHACLLEEEEGNRVKMHDVIRDMALWIASTFEN 384
            WI EGFL E D    +NQGY I+G LLHACLLEE     VKMHDV+RDMALWIA   E 
Sbjct: 431 CWIGEGFLTERDRFGEQNQGYHILGILLHACLLEEGGDGEVKMHDVVRDMALWIACAIEK 490

Query: 385 KNEKFLVLAGVGLTAAPSVG 404
           + + FLV AGVGL  AP V 
Sbjct: 491 EKDNFLVYAGVGLIEAPDVS 510

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  340 bits (872), Expect = 7e-91,   Method: Compositional matrix adjust.
 Identities = 213/517 (41%), Positives = 277/517 (53%), Gaps = 115/517 (22%)

Query: 1   NLCSPSFSCDSN-ITRCPDCTVRKASSIRDLQKNLEALPRELQKLVETRNDVRIRVIVAE 59
           N+   S SCD     RC DC + KA+ +R+LQKN+EAL  EL KL+  ++DV  RV+ AE
Sbjct: 3   NILQISISCDGTCFNRCLDCFLGKAAYVRNLQKNVEALKNELPKLIAKKDDVMARVVNAE 62

Query: 60  -QQKMKRLEQVEPWFSRVQDAESEVAKLMLERNWELKKLCLGGCCSKSCKSSYK------ 112
            QQ M RL +V+ W SRV    +   +L+   + E++KLCLGG CSK+CKSS K      
Sbjct: 63  RQQMMTRLNEVQLWLSRVDAVTAGADELIRIGSQEIEKLCLGGYCSKNCKSSKKFGKQVD 122

Query: 113 ----------VEGDFQEVAQRLPENPVDARPVALTIVGLESIFDKLWRCLTEEQVGIIGL 162
                      EG F  VAQR PE+  D RP+    VG++S  +++WRCL EE VGI+GL
Sbjct: 123 KKLSDVKILLAEGSFAVVAQRAPESVADERPIE-PAVGIQSQLEQVWRCLVEEPVGIVGL 181

Query: 163 YGMGSVGKTTLLILINNKFLDEPNY-FDVVIWAVASKVVEIEKIQESIAKKIGFFNESWE 221
           YGMG VGKTTLL  +NNKFL + ++ FD +IW V SK ++IEKIQE I KK+G FN+SW 
Sbjct: 182 YGMGGVGKTTLLTHLNNKFLGQRDFHFDFLIWVVVSKDLQIEKIQEIIGKKVGLFNDSWM 241

Query: 222 SKTVQEKAVDIFNILSKKKY----EDAWK------------------------------- 246
            K + E+AVDI+N+L +KK+    +D W+                               
Sbjct: 242 KKNLAERAVDIYNVLKEKKFVLLLDDVWQRVDFATVGVPIPPRDKSASKVVFTTRSTEVC 301

Query: 247 ---------------------LFEEKVGRDILDSHPNIPELVETVAKECG---------- 275
                                LF + VG + L+  P I EL E VAKECG          
Sbjct: 302 GRMGAHKKIEVECLSANDAWELFRQNVGEETLNGQPKILELAERVAKECGCLPLALIVTG 361

Query: 276 -AMASRKTHQEWEYAIEVWRNEYT------------LVYSYDFLPSDVGRFCLL------ 316
            AMA +KT  EW  AI+V +   +            L +SYD LP D  R CLL      
Sbjct: 362 RAMACKKTPAEWRDAIKVLQTSASEFPGLENNVLRVLKFSYDSLPDDTTRSCLLYCCLFP 421

Query: 317 ----IDIDQLVDFWICEGFLDEYDGIAARNQGYCIVGTLLHACLLEEEEGNRVKMHDVIR 372
               I  + L+D WI EGFL        +++G+ I+G ++HACLLEEE  + VKMHDVIR
Sbjct: 422 EDYRIYKENLIDCWIGEGFLKVTGKYELQDRGHTILGNIVHACLLEEEGDDVVKMHDVIR 481

Query: 373 DMALWIA------STFENKNEKFLVLAGVGLTAAPSV 403
           DM LWIA         E K E +LV  G GLT AP+V
Sbjct: 482 DMTLWIACDTEKTEDTEKKKENYLVYEGAGLTEAPNV 518

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  338 bits (866), Expect = 3e-90,   Method: Compositional matrix adjust.
 Identities = 208/509 (40%), Positives = 276/509 (54%), Gaps = 106/509 (20%)

Query: 1   NLCSPSFSCDSNITRCPDCTVRKASSIRDLQKNLEALPRELQKLVETRNDVRIRVIVAEQ 60
           NL S S S   ++  C   T  +A  I + ++N++AL   L+ L + RND++ +V + E 
Sbjct: 3   NLFSVSISMQDSLPGCKGGTALRAKYICEFEENIKALKEALEDLKDFRNDMKRKVEMGEG 62

Query: 61  QKMKRLEQVEPWFSRVQDAESEVAKLMLERNWELKKLCLGGCCSKSCKSSYKV------E 114
           Q M++L+QV+ WFSR +  E EV +L+ +   E +K CLGGCCSK+C SSYK+      +
Sbjct: 63  QPMEQLDQVQRWFSRAEAMELEVDQLIRDGTRETQKFCLGGCCSKNCLSSYKLGRKLVKK 122

Query: 115 GD----------FQEVAQRLPENPVDARPVALTIVGLESIFDKLWRCLTEEQVGIIGLYG 164
            D          F  +A RLP   VD RP   T VG ES  D++W CL EEQV IIGLYG
Sbjct: 123 ADDVATLRSTRLFDGLADRLPPPAVDERPSEPT-VGFESTIDEVWSCLREEQVQIIGLYG 181

Query: 165 MGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFFNESWESKT 224
           MG VGKTTL+  +NN+FL   + FD+VIW V S+    EK+Q+ I KK+GF ++ W+SK+
Sbjct: 182 MGGVGKTTLMTQVNNEFLKTIHQFDIVIWVVVSRDPNPEKVQDEIWKKVGFCDDKWKSKS 241

Query: 225 VQEKAVDIFNILSKKKY----EDAWK---------------------------------- 246
             EKA+ IF IL KKK+    +D W+                                  
Sbjct: 242 QDEKAISIFRILGKKKFVLFLDDVWERFDLLKVGIPLPNQQNNSKLVFTTRSEEVCGRMG 301

Query: 247 -----------------LFEEKVGRDILDSHPNIPELVETVAKEC-----------GAMA 278
                            LF+  VG D L+SHP IP+L ET+ KEC             MA
Sbjct: 302 AHRRIKVECLAWKQAWDLFQNMVGEDTLNSHPEIPQLAETIVKECLGLPLALVTTGRTMA 361

Query: 279 SRKTHQEWEYAIEVWRNEYT------------LVYSYDFLPSDVGRFCLLI--------D 318
            +K  QEW++AI++ ++  +            L +SYD LPSD  R C L         D
Sbjct: 362 CKKAPQEWKFAIKMLQSSSSSFPGMRDEVFSLLKFSYDNLPSDTARSCFLYCSLYPEDND 421

Query: 319 I--DQLVDFWICEGFLDEYDGI-AARNQGYCIVGTLLHACLLEEEEGNRVKMHDVIRDMA 375
           I  + L+D WICEGFLDE+D    ARNQG+ I+G+L+ ACLLEE     VKMHDVIRDMA
Sbjct: 422 IFKEDLIDCWICEGFLDEFDDRDGARNQGFDIIGSLIRACLLEESREYFVKMHDVIRDMA 481

Query: 376 LWIASTFENKNEKFLVLAGVGLTAAPSVG 404
           LWIA       +KFLV AG GLT  P +G
Sbjct: 482 LWIACECGRVKDKFLVQAGAGLTELPEIG 510

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  334 bits (857), Expect = 4e-89,   Method: Compositional matrix adjust.
 Identities = 207/497 (41%), Positives = 270/497 (54%), Gaps = 115/497 (23%)

Query: 13  ITRCPDCTVRKASSIRDLQKNLEALPRELQKLVETRNDVRIRVIVAEQQKM-KRLEQVEP 71
             RC DC + KA+ IR+LQ+N+ AL  EL KL+E +NDV  RV+  E+Q M  RL +V+ 
Sbjct: 14  FNRCMDCFLGKAAYIRNLQENVVALETELGKLIEAKNDVMARVVNTERQPMMTRLNKVQG 73

Query: 72  WFSRVQDAESEVAKLMLERNWELKKLCLGGCCSKSCKSSYK----------------VEG 115
           W S V   ++E  +L+   + E++KLCLGG CSK+ KSSYK                 EG
Sbjct: 74  WLSGVDAVKAEADELIRHGSQEIEKLCLGGYCSKNWKSSYKFGKQVAKKLRDAGTLMAEG 133

Query: 116 DFQEVAQRLPENPVDARPVALTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLI 175
            F+ VA+R PE+           VG++S  + +WRCL EE VGI+GLYGMG VGKTTLL 
Sbjct: 134 VFEVVAERAPESAA---------VGMQSRLEPVWRCLVEEPVGIVGLYGMGGVGKTTLLT 184

Query: 176 LINNKFLDEPNY-FDVVIWAVASKVVEIEKIQESIAKKIGFFNESWESKTVQEKAVDIFN 234
            +NNKFL + ++ FD +IW V SK ++IEKIQE I KK+GFFN+SW  K + E+AVDI+N
Sbjct: 185 HLNNKFLGQRDFHFDFLIWVVVSKDLQIEKIQEIIGKKVGFFNDSWMKKNLAERAVDIYN 244

Query: 235 ILSKKKY----EDAWK-------------------------------------------- 246
           +L +KK+    +D W+                                            
Sbjct: 245 VLKEKKFVLLLDDVWQRVDFATVGVPIPPRDKSASKVVFTTRSAEVCVWMGAHKKFGVGC 304

Query: 247 --------LFEEKVGRDILDSHPNIPELVETVAKECG-----------AMASRKTHQEWE 287
                   LF + VG + L S  +I EL + VA+ECG           AMA +KT +EW 
Sbjct: 305 LSANDAWELFRQNVGEETLTSDHDIAELAQIVAEECGGLPLALITIGQAMAYKKTVEEWR 364

Query: 288 YAIEVWRNEYT-----------LVYSYDFLPSDVGR----FCLLIDID------QLVDFW 326
           +AIEV R   +             +SYD LP D  R    +C L   D       L+D W
Sbjct: 365 HAIEVLRRSASEFPGFDNVLRVFKFSYDSLPDDTTRSCFLYCCLYPKDYGILKWDLIDCW 424

Query: 327 ICEGFLDEYDGIAARNQGYCIVGTLLHACLLEEEEGNRVKMHDVIRDMALWIASTFENKN 386
           I EGFL+E     A NQGYCIVGTL+ ACLLEE E ++VKMHDV+R MALWI    E + 
Sbjct: 425 IGEGFLEESARFVAENQGYCIVGTLVDACLLEEIEDDKVKMHDVVRYMALWIVCEIEEEK 484

Query: 387 EKFLVLAGVGLTAAPSV 403
             FLV AG GL  AP+V
Sbjct: 485 RNFLVRAGAGLEQAPAV 501

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  328 bits (841), Expect = 3e-87,   Method: Compositional matrix adjust.
 Identities = 210/509 (41%), Positives = 273/509 (53%), Gaps = 110/509 (21%)

Query: 1   NLCSPSFSCDSNITRCPDCTVRKASSIRDLQKNLEALPRELQKLVETRNDVRIRVIVAEQ 60
           N+CS S S +    RC DCT  +A+ I  LQ+N   L  ELQKL E RNDV+ +V VAE+
Sbjct: 3   NVCSVSISTEDIAGRCCDCTAARANYICKLQENRVTLRTELQKLRELRNDVKRKVDVAER 62

Query: 61  QKMKRLEQVEPWFSRVQDAESEVAKLMLE--RNWELKKLCLGGCCSKSCKSSYKV----- 113
           Q+MKRL+QV+ W SRV+D E+EV +L+ +   N E K+ C G C  K C SSY +     
Sbjct: 63  QQMKRLDQVQGWLSRVEDMETEVTQLIGDGAENIEEKRFC-GSCYPKHCISSYTLGKKVV 121

Query: 114 -----------EGDFQEVAQRLPENPVDARPVALTIVGLESIFDKLWRCLTEEQVGIIGL 162
                      +G F+ VA  +P   V+  P   T VGLES FD++WRCL EE VG+IGL
Sbjct: 122 RKLQQVAALMSDGRFEVVADIVPPAAVEEIPSG-TTVGLESTFDRVWRCLGEEHVGMIGL 180

Query: 163 YGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFFNESWES 222
           YG+G VGKTTLL  INN FL   + FDVVIW V SK   ++++Q  I +K+GF ++ W+S
Sbjct: 181 YGLGGVGKTTLLTQINNHFLKTSHNFDVVIWVVVSKTPNLDEVQNEIWEKVGFCDDKWKS 240

Query: 223 KTVQEKAVDIFNIL---------------------------------------------- 236
           K+   KA DI+  L                                              
Sbjct: 241 KSRHLKAKDIWKALNEKRFVMLLDDLWEQMNLLEVGIPPPHQQNKSKLIFTTRSLDLCGQ 300

Query: 237 --SKKKYE-------DAWKLFEEKVGRDILDSHPNIPELVETVAKEC-----------GA 276
             ++KK E       D+W LF++ VG D L+S P IPE  E VA+EC            A
Sbjct: 301 MGAQKKIEVKSLAWKDSWDLFQKYVGEDTLNSDPEIPEQAEIVARECCGLPLVIITIGRA 360

Query: 277 MASRKTHQEWEYAIEVWRNEYT------------LVYSYDFLPSDVGRFCLL-------- 316
           MAS+ T Q+W++AI V +   +            L YSYD LP+ + + C L        
Sbjct: 361 MASKVTPQDWKHAIRVLQTSASKFPGMGDPVYPRLKYSYDSLPTKIVQSCFLYCSLFPED 420

Query: 317 --IDIDQLVDFWICEGFLDEYDGI-AARNQGYCIVGTLLHACLLEEE-EGNRVKMHDVIR 372
             ID + L+  WICEGFLDEYD +  A+NQG+ I+ TL+HACLLEE  + N VK+HDVIR
Sbjct: 421 FSIDKEALIWKWICEGFLDEYDDMDGAKNQGFNIISTLIHACLLEEPLDTNSVKLHDVIR 480

Query: 373 DMALWIASTFENKNEKFLVLAGVGLTAAP 401
           DMALWI         KFLV     LT AP
Sbjct: 481 DMALWITGEMGEMKGKFLVQTRADLTQAP 509

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  314 bits (804), Expect = 5e-83,   Method: Compositional matrix adjust.
 Identities = 200/510 (39%), Positives = 272/510 (53%), Gaps = 108/510 (21%)

Query: 1   NLCSPSFSCDSNITRCPDCTVRKASSIRDLQKNLEALPRELQKLVETRNDVRIRVIVAEQ 60
           N CS S SCD  ++ C D T RKA  I  L++N++ L   +++L +  NDV  RV V E+
Sbjct: 3   NFCSISISCDKLLSGCLDFTFRKAVYISKLKENVDGLKIAVEELTDLHNDVTRRVKVDEE 62

Query: 61  QKMKRLEQVEPWFSRVQDAESEVAKLMLERNWELKKLCLGGCCSKSCKSSY--------- 111
           Q++K+L+QV+ W SR + A  +  +L+ E + E+++LCL G CSK+ KSSY         
Sbjct: 63  QQLKQLDQVQRWISRAKAAIDKANELLREDSQEIERLCLRGYCSKNYKSSYRFAKEVDKR 122

Query: 112 -------KVEGDFQEVAQRLPENPVDARPVALTIVGLESIFDKLWRCLTEE-QVGIIGLY 163
                  K  GDF+ VA+++P      RP   T VGLES F+++W CL EE QVGI+GLY
Sbjct: 123 LRDVADLKANGDFKVVAEKVPAASGVPRPSEPT-VGLESTFNQVWTCLREEKQVGIVGLY 181

Query: 164 GMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFFNESWESK 223
           GMG VGKTTLL  INN+ L  P+ FD+VIW V SK +++  +QESI + IG  ++ W++K
Sbjct: 182 GMGGVGKTTLLTQINNESLKTPDDFDIVIWVVVSKDLKLNTVQESIGRNIGCSDDLWKNK 241

Query: 224 TVQEKAVDIFNILSKKKY----EDAWK--------------------------------- 246
           ++ EKAVDIFN L  K++    +D W+                                 
Sbjct: 242 SLDEKAVDIFNALRHKRFVMLLDDIWERVDLKKLGVPLPDMNNGSKVVFTTRSEEICGLM 301

Query: 247 ------------------LFEEKVGRDILDSHPNIPELVETVAKECG-----------AM 277
                             LF++KVG   L  H +IP+L   VAKECG           AM
Sbjct: 302 DAHKTMKVDCLAWDDAWDLFQKKVGDQTLCVHTDIPKLARNVAKECGGLPLALITIGRAM 361

Query: 278 ASRKTHQEWEYAIEVWRNEYT------------LVYSYDFLPSDVGRFC----------L 315
           A +KT QEW +AIEV R   +            L +SYD L     R C           
Sbjct: 362 ACKKTPQEWRHAIEVLRKSASEFSGMGDEVFPLLKFSYDNLSKQKIRTCFLYCSLFPEDF 421

Query: 316 LIDIDQLVDFWICEGFLDEYDGI-AARNQGYCIVGTLLHACLLEEEEGNRVKMHDVIRDM 374
           LI+ + L+D+WI EG  D  DG     N GY ++G LLHACLLE+++ + V+MHDVIRDM
Sbjct: 422 LINKNDLIDYWIGEGIFDGSDGREVVENWGYHVIGCLLHACLLEDKD-DCVRMHDVIRDM 480

Query: 375 ALWIASTFENKNEKFLVLAGVGLTAAPSVG 404
           ALWIAS  E   + F V  G   + A  VG
Sbjct: 481 ALWIASDIERDQQNFFVQTGAQSSKALEVG 510

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  308 bits (789), Expect = 3e-81,   Method: Compositional matrix adjust.
 Identities = 207/509 (40%), Positives = 272/509 (53%), Gaps = 110/509 (21%)

Query: 1   NLCSPSFSCDSNITRCPDCTVRKASSIRDLQKNLEALPRELQKLVETRNDVRIRVIVAEQ 60
           N+ S S S + +I  C DCTV +A+ I  L +N   L  ELQKL E +NDV  +V VAE+
Sbjct: 3   NVFSVSISTN-DIAGCCDCTVARANYIFKLAENRVTLRTELQKLRELKNDVNRKVDVAER 61

Query: 61  QKMKRLEQVEPWFSRVQDAESEVAKLMLERNWELKKLCLGGCCS-KSCKSSYKV------ 113
           Q+MKRL+QV+ W S+V+  E+EV +L+ +    +++  L GCC  K C SSY +      
Sbjct: 62  QQMKRLDQVQGWLSKVEAMETEVGQLIGDGAETIEEKRLRGCCHPKHCISSYTLGKKVAR 121

Query: 114 ----------EG-DFQEVAQRLPENPVDARPVALTIVGLESIFDKLWRCLTEEQVGIIGL 162
                     EG +F+ VA  +P  PV+  P   T VGLES FDK+WR L EE VG+IGL
Sbjct: 122 KLQDTATLMSEGRNFEVVADIVPPAPVEEIPGRPT-VGLESTFDKVWRSLEEEHVGMIGL 180

Query: 163 YGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFFNESWES 222
           YG+G VGKTTLL  INN FL   + FDVVIW V SK   +E++Q  I +K+GF ++ W+S
Sbjct: 181 YGLGGVGKTTLLAQINNHFLRTSHNFDVVIWVVVSKTPNLERVQNEIWEKVGFCDDKWKS 240

Query: 223 KT---------------------------------------VQEKAVDIFNILSKK---- 239
           K+                                        Q K+  IF   S+     
Sbjct: 241 KSRHEKANDIWRALSKKRFVMLLDDMWEQMDLLEVGIPPPDQQNKSRLIFTTRSQDLCGQ 300

Query: 240 ------------KYEDAWKLFEEKVGRDILDSHPNIPELVETVAKEC-----------GA 276
                        ++D+W LF++ VG+D L+S P IPEL E VAKEC            A
Sbjct: 301 MGAHKKIQVKSLAWKDSWDLFQKYVGKDALNSDPEIPELAEMVAKECCGLPLAIITIGRA 360

Query: 277 MASRKTHQEWEYAIEVWRN-----------EYTLV-YSYDFLPSDVGRFCLL-------- 316
           MAS+   Q+W++AI V +             Y L+ YSYD LPS + + C L        
Sbjct: 361 MASKVASQDWKHAIRVLQTCASNFPGMGQRVYPLLKYSYDSLPSKIVQSCFLYCSLFPED 420

Query: 317 --IDIDQLVDFWICEGFLDEYDGI-AARNQGYCIVGTLLHACLLEEEEGNR-VKMHDVIR 372
             I  + L++ WICEGFLDE+D    ARNQG+ I+ TL+HACLLEE   +R VK HDV+R
Sbjct: 421 FFIFKELLINQWICEGFLDEFDDPDGARNQGFNIISTLVHACLLEESSNSRFVKFHDVVR 480

Query: 373 DMALWIASTFENKNEKFLVLAGVGLTAAP 401
           DMALWI S       KFLV    GLT AP
Sbjct: 481 DMALWITSEMGEMKGKFLVQTSAGLTQAP 509

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225462595|ref|XP_002270572.1| PREDICTED: probable disease resistance protein At5g63020-like [Vitis vinifera]

 Score =  306 bits (783), Expect = 2e-80,   Method: Compositional matrix adjust.
 Identities = 207/509 (40%), Positives = 270/509 (53%), Gaps = 110/509 (21%)

Query: 1   NLCSPSFSCDSNITRCPDCTVRKASSIRDLQKNLEALPRELQKLVETRNDVRIRVIVAEQ 60
           N+ S S S + +I  C DCTV +A+ I  L +N   L  ELQKL E +NDV  +V VAE+
Sbjct: 3   NVFSVSISTN-DIAGCCDCTVARANYIFKLAENRVTLRTELQKLRELKNDVNRKVDVAER 61

Query: 61  QKMKRLEQVEPWFSRVQDAESEVAKLMLERNWELKKLCLGGCCS-KSCKSSYKV------ 113
           Q+MKRL+QV+ W SRV+  E+EV +L+ +    +++  L GCC  K C SSY +      
Sbjct: 62  QQMKRLDQVQGWLSRVEAMETEVGQLIGDGAETIEEKRLRGCCHPKHCISSYTLGKKVAR 121

Query: 114 ----------EG-DFQEVAQRLPENPVDARPVALTIVGLESIFDKLWRCLTEEQVGIIGL 162
                     EG +F+ VA  +P  PV+  P   T VGLES FDK+WR L EE VG+IGL
Sbjct: 122 KLQDTATLMSEGRNFEVVADIVPPAPVEEIPGRPT-VGLESTFDKVWRSLEEEHVGMIGL 180

Query: 163 YGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFFNESWES 222
           YG+G VGKTTLL  INN FL   + FDVVIW V SK   +E++Q  I +K+GF ++ W+S
Sbjct: 181 YGLGGVGKTTLLAQINNHFLRTSHNFDVVIWVVVSKTPNLERVQNEIWEKVGFCDDKWKS 240

Query: 223 KT---------------------------------------VQEKAVDIFNILSKK---- 239
           K+                                        Q K+  IF   S+     
Sbjct: 241 KSRHEKANNIWRALSKKRFAMLLDDMWEQMDLLEVGNPPPDQQNKSKLIFTTRSQDLCGQ 300

Query: 240 ------------KYEDAWKLFEEKVGRDILDSHPNIPELVETVAKEC-----------GA 276
                        ++D+W LF++ VG+D L+S P I EL E VAKEC            A
Sbjct: 301 MGAHKKIQVKSLAWKDSWDLFKKYVGKDALNSDPEISELAEMVAKECCGLPLAIITVGRA 360

Query: 277 MASRKTHQEWEYAIEVWRN-----------EYTLV-YSYDFLPSDVGRFCLL-------- 316
           MAS+ T Q+W++AI V +             Y L+ YSYD LPS + + C L        
Sbjct: 361 MASKVTPQDWKHAIRVLQTCASNFPGMGLRVYPLLKYSYDSLPSKIVQSCFLYCSLFPED 420

Query: 317 --IDIDQLVDFWICEGFLDEYDGI-AARNQGYCIVGTLLHACLLEEEEGNR-VKMHDVIR 372
             I  + L+  WICEGFLDE+D    A+NQG+ I+ TL+HACLLEE    R VK HDV+R
Sbjct: 421 FFIIKELLIYQWICEGFLDEFDDTDGAKNQGFNIISTLVHACLLEESSNTRFVKFHDVVR 480

Query: 373 DMALWIASTFENKNEKFLVLAGVGLTAAP 401
           DMALWI S       KFLV    GLT AP
Sbjct: 481 DMALWITSEMGEMKGKFLVQTSAGLTQAP 509

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225470150|ref|XP_002267120.1| PREDICTED: probable disease resistance protein At5g63020-like [Vitis vinifera]

 Score =  306 bits (783), Expect = 2e-80,   Method: Compositional matrix adjust.
 Identities = 204/509 (40%), Positives = 269/509 (52%), Gaps = 110/509 (21%)

Query: 1   NLCSPSFSCDSNITRCPDCTVRKASSIRDLQKNLEALPRELQKLVETRNDVRIRVIVAEQ 60
           N+ S S S + +I  C DCT  +A+ I  L +N   L  ELQKL E +NDV  +V VAE+
Sbjct: 3   NVFSVSISTN-DIAGCCDCTAARANYICKLAENRVTLRTELQKLRELKNDVNRKVDVAER 61

Query: 61  QKMKRLEQVEPWFSRVQDAESEVAKLMLERNWELKKLCLGGCCS-KSCKSSYKV------ 113
           Q+MKRL+QV+ W SRV+  E+EV +L+ +    +++  L GCC  K C SSY +      
Sbjct: 62  QQMKRLDQVQGWLSRVEAMETEVGQLIGDGAETVEEKRLRGCCHPKHCISSYTLGKKVAR 121

Query: 114 ----------EG-DFQEVAQRLPENPVDARPVALTIVGLESIFDKLWRCLTEEQVGIIGL 162
                     EG +F+ VA  +P  PV+  P   + VGLES FDK+WR L EE VG+IG 
Sbjct: 122 KLQDMATLMSEGRNFEVVADIVPPAPVEEIP-GRSTVGLESTFDKVWRSLEEEHVGMIGF 180

Query: 163 YGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFFNESWES 222
           YG+G VGKTTLL  INN FL   + FDVVIW V S+   + ++Q  I +K+GF ++ W+S
Sbjct: 181 YGLGGVGKTTLLTQINNHFLKTSHNFDVVIWVVVSRTPNLGRVQNEIWEKVGFCDDKWKS 240

Query: 223 KTVQEKAVDIFNILSKKKY----EDAWK-------------------------------- 246
           K+  EKA  I+  LSKK++    +D W+                                
Sbjct: 241 KSRHEKAKVIWRALSKKRFVMLLDDMWEHMDLLEVGIPPPDQQNKSKLIFTTRSQDLCGQ 300

Query: 247 -------------------LFEEKVGRDILDSHPNIPELVETVAKEC-----------GA 276
                              LF++ VG+D L+S P IPEL E VAKEC            A
Sbjct: 301 MGAHTKIQVKSLAWKDSWDLFQKYVGKDALNSDPEIPELAEMVAKECCGLPLAIITIGRA 360

Query: 277 MASRKTHQEWEYAIEVWRNEYT------------LVYSYDFLPSDVGRFCLL-------- 316
           MAS+ T Q+W++AI V +   +            L YSYD LPS + + C L        
Sbjct: 361 MASKVTPQDWKHAIRVLQTRASNFPGMGHRVYPLLKYSYDSLPSKIVQSCFLYCSLFPED 420

Query: 317 --IDIDQLVDFWICEGFLDEYDGI-AARNQGYCIVGTLLHACLLEEEEGNR-VKMHDVIR 372
             I  + L+  WI EGFLDE+D    ARNQ + I+ TL+HACLLEE    R VK+HDV+R
Sbjct: 421 CFIVKETLIYQWIYEGFLDEFDDTDGARNQVFNIISTLVHACLLEESSNTRCVKLHDVVR 480

Query: 373 DMALWIASTFENKNEKFLVLAGVGLTAAP 401
           DMALWI S       KFLV    GLT AP
Sbjct: 481 DMALWITSEMGEMKGKFLVQTSAGLTQAP 509

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	405
TAIR|locus:2132741	892	AT4G10780 [Arabidopsis thalian	0.612	0.278	0.369	1.2e-67
TAIR|locus:2034765	884	AT1G12290 [Arabidopsis thalian	0.607	0.278	0.357	2.9e-63
TAIR|locus:2031366	898	AT1G63350 "AT1G63350" [Arabido	0.553	0.249	0.337	3.6e-56
TAIR|locus:2201996	889	RPS5 "AT1G12220" [Arabidopsis	0.328	0.149	0.452	3.1e-55
TAIR|locus:2008440	899	AT1G61180 [Arabidopsis thalian	0.703	0.317	0.341	1.4e-54
TAIR|locus:2166320	888	AT5G63020 [Arabidopsis thalian	0.671	0.306	0.333	3.1e-54
TAIR|locus:2203881	893	AT1G62630 [Arabidopsis thalian	0.560	0.254	0.321	1e-53
TAIR|locus:2031356	884	AT1G63360 [Arabidopsis thalian	0.553	0.253	0.308	7.9e-53
TAIR|locus:2008510	967	AT1G61190 "AT1G61190" [Arabido	0.723	0.302	0.334	2.6e-52
TAIR|locus:2036214	851	AT1G15890 [Arabidopsis thalian	0.619	0.294	0.346	1.7e-51

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

 Score = 407 (148.3 bits), Expect = 1.2e-67, Sum P(3) = 1.2e-67
 Identities = 100/271 (36%), Positives = 143/271 (52%)

Query:     4 SPSFSCDSNITRCPDCTVRKASSIRDLQKNLEALPRELQKLVETRNDVRIRVIVAEQQKM 63
             S   SCD  +TR   C     + I  L+ N+ AL + ++ L  TR+DV  RV + E + +
Sbjct:     6 SLQISCDQVLTRAYSCFFSLGNYIHKLKDNIVALEKAIEDLTATRDDVLRRVQMEEGKGL 65

Query:    64 KRLEQVEPWFSRVQDAESEVAKLMLERNWEXXXXXXXXXXXXXXXXXY-----------K 112
             +RL+QV+ W  RV+   ++   L+  RN E                 Y           +
Sbjct:    66 ERLQQVQVWLKRVEIIRNQFYDLLSARNIEIQRLCFYSNCSTNLSSSYTYGQRVFLMIKE 125

Query:   113 VE-----GDFQEVAQRLPENPVDARPVALTIVGLESIFDKLWRCLTEEQVGIIGLYGMGS 167
             VE     G F+ VA   P+  ++ RP+  TI+G E+IF + W  L ++ VG +GLYGMG 
Sbjct:   126 VENLNSNGFFEIVAAPAPK--LEMRPIQPTIMGRETIFQRAWNRLMDDGVGTMGLYGMGG 183

Query:   168 VGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFFNESWESKTVQE 227
             VGKTTLL  I+N   D  N  D+VIW V S  ++I KIQE I +K+GF  + W  K   +
Sbjct:   184 VGKTTLLTQIHNTLHDTKNGVDIVIWVVVSSDLQIHKIQEDIGEKLGFIGKEWNKKQESQ 243

Query:   228 KAVDIFNILSKKKY----EDAWKLFE-EKVG 253
             KAVDI N LSKK++    +D WK  +  K+G
Sbjct:   244 KAVDILNCLSKKRFVLLLDDIWKKVDLTKIG 274

GO:0000166 "nucleotide binding" evidence=IEA

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

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 383 (139.9 bits), Expect = 2.9e-63, Sum P(3) = 2.9e-63
 Identities = 95/266 (35%), Positives = 136/266 (51%)

Query:     4 SPSFSCDSNITRCPDCTVRKASSIRDLQKNLEALPRELQKLVETRNDVRIRVIVAEQQKM 63
             S   SCD  +     C  RK   I+++++NL +L   ++ L   R+D+  +V  AE+  +
Sbjct:     6 SVQVSCDQLLNHLGRCFCRKLYYIQNIKENLTSLEEAMEDLKALRDDLLRKVQTAEEGGL 65

Query:    64 KRLEQVEPWFSRVQDAESEVAKLMLERNWEXXXXXXXXXXXXXXXXXY------------ 111
             +RL Q++ W  RV+  ES+   L   R  E                 Y            
Sbjct:    66 QRLHQIKVWLKRVKTIESQFNDLDSSRTVELQRLCCCGVGSRNLRLSYDYGRRVFLMLNI 125

Query:   112 ----KVEGDFQEVAQRLPENPVDARPVALTIVGLESIFDKLWRCLTEEQVGIIGLYGMGS 167
                 K +G F+EVA        + RP+  TIVG E+I +K W  L ++   I+GLYGMG 
Sbjct:   126 VEDLKSKGIFEEVAHPATRAVGEERPLQPTIVGQETILEKAWDHLMDDGTKIMGLYGMGG 185

Query:   168 VGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFFNESWESKTVQE 227
             VGKTTLL  INN+F D  +  ++VIW V S  ++I KIQ+ I +KIGF    W  K+  +
Sbjct:   186 VGKTTLLTQINNRFCDTDDGVEIVIWVVVSGDLQIHKIQKEIGEKIGFIGVEWNQKSENQ 245

Query:   228 KAVDIFNILSKKKY----EDAWKLFE 249
             KAVDI N LSKK++    +D WK  E
Sbjct:   246 KAVDILNFLSKKRFVLLLDDIWKRVE 271

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

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

TAIR|locus:2031366 AT1G63350 "AT1G63350" [Arabidopsis thaliana (taxid:3702)]

 Score = 324 (119.1 bits), Expect = 3.6e-56, Sum P(3) = 3.6e-56
 Identities = 82/243 (33%), Positives = 126/243 (51%)

Query:    23 KASSIRDLQKNLEALPRELQKLVETRNDVRIRVIVAEQQKMKRLEQVEPWFSRVQDAESE 82
             K S   +L+KNL AL   +++L   R+D+  ++   E + ++ L +++ W +RV+  ES 
Sbjct:    23 KVSYTHNLEKNLVALETTMEELKAKRDDLLRKLKREEDRGLQTLGEIKVWLNRVETIESR 82

Query:    83 VAKLMLERNWEXXXXXXXXXXXXXXXXXY--------------KVEGD-FQEVAQRLPEN 127
             V  L+  RN E                 Y              K+E   F+ ++ +   +
Sbjct:    83 VNDLLNARNAELQRLCLCGFCSKSLTTSYRYGKSVFLKLREVEKLERRVFEVISDQASTS 142

Query:   128 PVDARPVALTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKFLDEPNY 187
              V+ + +  TIVG E++ D  W  L E+ VGI+GLYGMG VGKTTLL  INNKF      
Sbjct:   143 EVEEQQLQPTIVGQETMLDNAWNHLMEDGVGIMGLYGMGGVGKTTLLTQINNKFSKYMCG 202

Query:   188 FDVVIWAVASKVVEIEKIQESIAKKIGFFNESWESKTVQEKAVDIFNILSKKKY----ED 243
             FD VIW V SK V +E I + IA+K+    E W++K   +K V ++N L K ++    +D
Sbjct:   203 FDSVIWVVVSKEVNVENILDEIAQKVHISGEKWDTKYKYQKGVYLYNFLRKMRFVLFLDD 262

Query:   244 AWK 246
              W+
Sbjct:   263 IWE 265

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 291 (107.5 bits), Expect = 3.1e-55, Sum P(3) = 3.1e-55
 Identities = 62/137 (45%), Positives = 81/137 (59%)

Query:   114 EGDFQEVAQRLPENPVDARPVALTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTL 173
             +G F  V++  P   VD  P   TIVG E + +K W  L E+  GI+GLYGMG VGKTTL
Sbjct:   133 QGFFDVVSEATPFADVDEIPFQPTIVGQEIMLEKAWNRLMEDGSGILGLYGMGGVGKTTL 192

Query:   174 LILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFFNESWESKTVQEKAVDIF 233
             L  INNKF    + FDVVIW V S+   + KIQ  IA+K+G     W  K   + AVDI 
Sbjct:   193 LTKINNKFSKIDDRFDVVIWVVVSRSSTVRKIQRDIAEKVGLGGMEWSEKNDNQIAVDIH 252

Query:   234 NILSKKKY----EDAWK 246
             N+L ++K+    +D W+
Sbjct:   253 NVLRRRKFVLLLDDIWE 269

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:2008440 AT1G61180 [Arabidopsis thaliana (taxid:3702)]

 Score = 383 (139.9 bits), Expect = 1.4e-54, Sum P(2) = 1.4e-54
 Identities = 107/313 (34%), Positives = 156/313 (49%)

Query:    10 DSNITRCPDCTVRKASSIRDLQKNLEALPRELQKLVETRNDVRIRVIVAEQQKMKRLEQV 69
             D  + R  +C + K S IR L+KNL AL RE++ L   +++V+ +V   E +  +RLE V
Sbjct:    11 DQTLNRIFNCLIGK-SYIRTLEKNLRALQREMEDLRAIQHEVQNKVARDEARHQRRLEAV 69

Query:    70 EPWFSRVQDAESEVAKLMLERNWEXXXXXXXXXXXXXXXXXYKV---------------- 113
             + W  RV   + E   L+     E                 YK                 
Sbjct:    70 QVWLDRVNSVDIECKDLLSVTPVELQKLCLCGLCSKYVCSSYKYGKKVFLLLEEVKKLNS 129

Query:   114 EGDFQEVAQRLPENPVDARPVALTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTL 173
             EG+F EV+Q  P + V+ RP   TI G E + +K W  L E+ VGI+GL+GMG VGKTTL
Sbjct:   130 EGNFDEVSQPPPRSEVEERPTQPTI-GQEDMLEKAWNRLMEDGVGIMGLHGMGGVGKTTL 188

Query:   174 LILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFFNESWESKTVQEKAVDIF 233
                I+NKF +    FD+VIW V SK V I K+QE IA+K+   ++ W++K   +KA DI 
Sbjct:   189 FKKIHNKFAEIGGTFDIVIWIVVSKGVMISKLQEDIAEKLHLCDDLWKNKNESDKATDIH 248

Query:   234 NILSKKKY----EDAWKLFE-EKVGRDILDSHPNIPELVETVAKE-CGAMASRKTHQ--- 284
              +L  K++    +D W+  + E +G               T ++E CG M   K  Q   
Sbjct:   249 RVLKGKRFVLMLDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRSREVCGEMGDHKPMQVNC 308

Query:   285 -EWEYAIEVWRNE 296
              E E A E+++N+
Sbjct:   309 LEPEDAWELFKNK 321

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

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 363 (132.8 bits), Expect = 3.1e-54, Sum P(2) = 3.1e-54
 Identities = 99/297 (33%), Positives = 154/297 (51%)

Query:     4 SPSFSCDSNITRCPDCTVRKASSIRDLQKNLEALPRELQKLVETRNDVRIRVIVAEQQKM 63
             S S SCD        C  R    I  L++NL AL R L+++ + R D+  +++  E++ +
Sbjct:     6 SVSISCDQLTKNVCSCLNRNGDYIHGLEENLTALQRALEQIEQRREDLLRKILSEERRGL 65

Query:    64 KRLEQVEPWFSRVQDAESEVAKLMLERNWEXXXXXXXXXXXXXXXXXYK----------- 112
             +RL  V+ W S+V+     V +L+  R+ +                 Y+           
Sbjct:    66 QRLSVVQGWVSKVEAIVPRVNELVRMRSVQVQRLCLCGFCSKNLVSSYRYGKRVMKMIEE 125

Query:   113 VE-----GDFQEVAQRLPENPVDARPVALTIVGLESIFDKLWRCLTEEQVGIIGLYGMGS 167
             VE     GDF  VA+R+    V+ RP    +V ++ + +  W  L E+++GI+GL+GMG 
Sbjct:   126 VEVLRYQGDFAVVAERVDAARVEERPTR-PMVAMDPMLESAWNRLMEDEIGILGLHGMGG 184

Query:   168 VGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFFNESWESKTVQE 227
             VGKTTLL  INN+F      FD+VIW V SK ++I++IQ+ I +K+   NE W+ KT   
Sbjct:   185 VGKTTLLSHINNRFSRVGGEFDIVIWIVVSKELQIQRIQDEIWEKLRSDNEKWKQKTEDI 244

Query:   228 KAVDIFNILSKKKY----EDAW-KLFEEKVGRDILDSHPNIPELVETVA-KE-CGAM 277
             KA +I+N+L  K++    +D W K+   +VG     S  N  ++V T   KE CG M
Sbjct:   245 KASNIYNVLKHKRFVLLLDDIWSKVDLTEVGVPF-PSRENGCKIVFTTRLKEICGRM 300

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2203881 AT1G62630 [Arabidopsis thaliana (taxid:3702)]

 Score = 333 (122.3 bits), Expect = 1.0e-53, Sum P(3) = 1.0e-53
 Identities = 79/246 (32%), Positives = 126/246 (51%)

Query:    23 KASSIRDLQKNLEALPRELQKLVETRNDVRIRVIVAEQQKMKRLEQVEPWFSRVQDAESE 82
             K S   +L+KNL AL   +++L   R+D+  R+   E + ++RL + + W +RV   E  
Sbjct:    23 KGSYTHNLEKNLVALETTMEELKAKRDDLLRRLKREEDRGLQRLSEFQVWLNRVATVEDI 82

Query:    83 VAKLMLERNWEXXXXXXXXXXXXXXXXXY--------------KVEGD-FQEVAQRLPEN 127
             +  L+ +R+ E                 Y              K++G+ F  + ++   +
Sbjct:    83 IITLLRDRDVEIQRLCLCRFCSKNLTTSYRYGKSVFLRLREVEKLKGEVFGVITEQASTS 142

Query:   128 PVDARPVALTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKFLDEPNY 187
               + RP+  TIVG + + DK W+ L E+  GI+G+YGMG VGKTTLL  + N F  +   
Sbjct:   143 AFEERPLQPTIVGQKKMLDKAWKHLMEDGTGIMGMYGMGGVGKTTLLTQLFNMFNKDKCG 202

Query:   188 FDVVIWAVASKVVEIEKIQESIAKKIGFFNESWESKTVQEKAVDIFNILSKKKY----ED 243
             FD+ IW V S+ V +EKIQ+ IA+K+G     W  + + +K V +FN L  KK+    +D
Sbjct:   203 FDIGIWVVVSQEVNVEKIQDEIAQKLGLGGHEWTQRDISQKGVHLFNFLKNKKFVLFLDD 262

Query:   244 AWKLFE 249
              W   E
Sbjct:   263 LWDKVE 268

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2031356 AT1G63360 [Arabidopsis thaliana (taxid:3702)]

 Score = 316 (116.3 bits), Expect = 7.9e-53, Sum P(3) = 7.9e-53
 Identities = 75/243 (30%), Positives = 126/243 (51%)

Query:    23 KASSIRDLQKNLEALPRELQKLVETRNDVRIRVIVAEQQKMKRLEQVEPWFSRVQDAESE 82
             K S   +L+KNL AL + +++L   R+D+  R+   E + ++RL + + W   V   E  
Sbjct:    23 KVSYTHNLEKNLAALEKTMKELKAKRDDLERRLKREEARGLQRLSEFQVWLDSVATVEDI 82

Query:    83 VAKLMLERNWEXXXXXXXXXXXXXXXXXY--------------KVEGD-FQEVAQRLPEN 127
             +  L+ +RN E                 Y              K++G+ F  + ++   +
Sbjct:    83 IITLLRDRNVEIQRLCLCRFCSKSLTRSYRYGKSVFLRLREVEKLKGEVFGVITEQASTS 142

Query:   128 PVDARPVALTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKFLDEPNY 187
               + RP+  TIVG +++ DK  + L E+ VGI+G+YGMG VGKTTLL  + N F  +   
Sbjct:   143 AFEERPLQPTIVGQDTMLDKAGKHLMEDGVGIMGMYGMGGVGKTTLLTQLYNMFNKDKCG 202

Query:   188 FDVVIWAVASKVVEIEKIQESIAKKIGFFNESWESKTVQEKAVDIFNILSKKKY----ED 243
             FD+ IW V S+   +EK+Q+ IA+K+G   + W  K   +K + ++NIL +K +    +D
Sbjct:   203 FDIGIWVVVSQEFHVEKVQDEIAQKLGLGGDEWTQKDKSQKGICLYNILREKSFVLFLDD 262

Query:   244 AWK 246
              W+
Sbjct:   263 IWE 265

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 373 (136.4 bits), Expect = 2.6e-52, Sum P(2) = 2.6e-52
 Identities = 108/323 (33%), Positives = 158/323 (48%)

Query:     1 NLCSPSFSCDSNITRCPDCTVRKASSIRDLQKNLEALPRELQKLVETRNDVRIRVIVAEQ 60
             N      S D  + R   C   K   IR+L+KNL AL RE++ L  T+++V+ +V   E 
Sbjct:     3 NFVCIEISGDQMLDRIIRCLCGKGY-IRNLEKNLRALQREMEDLRATQHEVQNKVAREES 61

Query:    61 QKMKRLEQVEPWFSRVQDAESEVAKLMLERNWEXXXXXXXXXXXXXXXXXYKV------- 113
             +  +RLE V+ W  RV   + E   L+     E                 YK        
Sbjct:    62 RHQQRLEAVQVWLDRVNSIDIECKDLLSVSPVELQKLCLCGLCSKYVCSSYKYGKRVFLL 121

Query:   114 ---------EGDFQEVAQRLPENPVDARPVALTIVGLESIFDKLWRCLTEEQVGIIGLYG 164
                      EG+F EV+Q  P + V+ RP   TI G E +  K W  L E+ VGI+GL+G
Sbjct:   122 LEEVTKLKSEGNFDEVSQPPPRSEVEERPTQPTI-GQEEMLKKAWNRLMEDGVGIMGLHG 180

Query:   165 MGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFFNESWESKT 224
             MG VGKTTL   I+NKF +    FD+VIW V S+  ++ K+QE IA+K+   ++ W++K 
Sbjct:   181 MGGVGKTTLFKKIHNKFAETGGTFDIVIWIVVSQGAKLSKLQEDIAEKLHLCDDLWKNKN 240

Query:   225 VQEKAVDIFNILSKKKY----EDAWKLFE-EKVGRDILDSHPNIPELVETVA--KECGAM 277
               +KA DI  +L  K++    +D W+  + E +G     S  N  ++  T    K CG M
Sbjct:   241 ESDKATDIHRVLKGKRFVLMLDDIWEKVDLEAIGIPY-PSEVNKCKVAFTTRDQKVCGQM 299

Query:   278 ASRKTHQ----EWEYAIEVWRNE 296
                K  Q    E E A E+++N+
Sbjct:   300 GDHKPMQVKCLEPEDAWELFKNK 322

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 373 (136.4 bits), Expect = 1.7e-51, Sum P(2) = 1.7e-51
 Identities = 95/274 (34%), Positives = 146/274 (53%)

Query:     1 NLCSPSFSCDSNITRCPDCTVRKASSIRDLQKNLEALPRELQKLVETRNDVRIRVIVAEQ 60
             N  +   SCD  +     C     + I  ++ NLEAL   +Q+L E R+D+  RV++ E 
Sbjct:     3 NCVALEISCDQTLNHACGCLFGDRNYILKMEANLEALQNTMQELEERRDDLLRRVVIEED 62

Query:    61 QKMKRLEQVEPWFSRVQDAESEVAKLMLERN--WEXXXXXXXXXXXXXXXXXYKV----- 113
             + ++RL QV+ W SRV+D  S+V  L+  ++   E                 Y +     
Sbjct:    63 KGLQRLAQVQGWLSRVKDVCSQVNDLLKAKSIQTERLCLCGYCSKNFISGRNYGINVLKK 122

Query:   114 ---------EGDFQEVAQRLPENPVDARPVALTIVGLESIFDKLWRCLTEEQVGIIGLYG 164
                      +G F+ VA+++P   V+ + +  T VGL+++  + W  L +++   +GLYG
Sbjct:   123 LKHVEGLLAKGVFEVVAEKIPAPKVEKKHIQTT-VGLDAMVGRAWNSLMKDERRTLGLYG 181

Query:   165 MGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFFNESWESKT 224
             MG VGKTTLL  INNKFL+  N FD+VIW V SK ++ E IQE I  ++G  +  W+  T
Sbjct:   182 MGGVGKTTLLASINNKFLEGMNGFDLVIWVVVSKDLQNEGIQEQILGRLGL-HRGWKQVT 240

Query:   225 VQEKAVDIFNILSKKKY----EDAWKLFE-EKVG 253
              +EKA  I NIL+ KK+    +D W   + EK+G
Sbjct:   241 EKEKASYICNILNVKKFVLLLDDLWSEVDLEKIG 274

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: GSVIVG00034584001 SubName- Full=Chromosome chr9 scaffold_7, whole genome shotgun sequence; (898 aa) (Vitis vinifera)

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	405
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	3e-26

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

 Score =  106 bits (267), Expect = 3e-26
 Identities = 69/286 (24%), Positives = 107/286 (37%), Gaps = 92/286 (32%)

Query: 142 ESIFDKLWRCLTE--EQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKV 199
           E + + L   L E  + +G++G+ GMG VGKTTL   I N       +FD V W V SK 
Sbjct: 2   EDMIEALIEKLLEMSDNLGVVGIVGMGGVGKTTLAKQIYNDDSVG-GHFDSVAWVVVSKT 60

Query: 200 VEIEKIQESIAKKIGFFNESWESKTVQEKAVDIFNILSKKKY----EDAWK--------- 246
               ++Q+ I +++G  +  W  K   E AV I   L +K++    +D W+         
Sbjct: 61  YTEFRLQKDILQELGLDDSDWVEKNESELAVKIKEALLRKRFLLVLDDVWEKNDWDKIGV 120

Query: 247 ----------------------------------LFEEKVGRDILDSH---------PNI 263
                                               E +   ++  +          P +
Sbjct: 121 PFPDGENGSRVIVTTRSESVAGRMGGTSKPHEVESLEPEESWELFSNKVFEKELPPCPEL 180

Query: 264 PELVETVAKEC-----------GAMASRKTHQEWEYAIEVWRNEY-----------TLVY 301
            E+ + + ++C           G +A + T QEWE+ +E   NE             L  
Sbjct: 181 EEVAKEIVEKCKGLPLALKVLGGLLAFKSTVQEWEHVLEQLNNELAGRDGLNEVLSILSL 240

Query: 302 SYDFLPSDVGRFCLL----------IDIDQLVDFWICEGFLDEYDG 337
           SYD LP  + R C L          I  +QL+  WI EGF+   D 
Sbjct: 241 SYDNLPMHLKR-CFLYLALFPEDYNIRKEQLIKLWIAEGFVIPSDI 285

Length = 285

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	405
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	99.94
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.94
PRK00411	394	cdc6 cell division control protein 6; Reviewed	98.4
PTZ00202	550	tuzin; Provisional	98.27
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	98.11
cd01128	249	rho_factor Transcription termination factor rho is	98.1
PRK09376	416	rho transcription termination factor Rho; Provisio	98.08
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	97.91
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	97.81
PRK08118	167	topology modulation protein; Reviewed	97.8
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	97.77
TIGR00767	415	rho transcription termination factor Rho. Members	97.76
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	97.72
PRK04841	903	transcriptional regulator MalT; Provisional	97.65
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	97.64
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	97.62
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	97.4
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	97.38
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	97.35
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.33
KOG2028	554	consensus ATPase related to the helicase subunit o	97.29
PRK07261	171	topology modulation protein; Provisional	97.28
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	97.27
COG2256	436	MGS1 ATPase related to the helicase subunit of the	97.25
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	97.24
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	97.16
PRK13342	413	recombination factor protein RarA; Reviewed	97.15
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	97.1
PRK06696	223	uridine kinase; Validated	97.02
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	96.98
PF05729	166	NACHT: NACHT domain	96.94
PRK12402	337	replication factor C small subunit 2; Reviewed	96.92
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	96.9
PRK06547	172	hypothetical protein; Provisional	96.87
PRK00440	319	rfc replication factor C small subunit; Reviewed	96.83
PLN03025	319	replication factor C subunit; Provisional	96.81
CHL00095	821	clpC Clp protease ATP binding subunit	96.78
PTZ00112	1164	origin recognition complex 1 protein; Provisional	96.76
PRK15455	644	PrkA family serine protein kinase; Provisional	96.74
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	96.73
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	96.71
PTZ00301	210	uridine kinase; Provisional	96.7
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	96.69
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	96.68
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	96.66
PRK08233	182	hypothetical protein; Provisional	96.63
PRK04195	482	replication factor C large subunit; Provisional	96.63
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	96.63
PHA00729	226	NTP-binding motif containing protein	96.62
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	96.6
PRK05480	209	uridine/cytidine kinase; Provisional	96.59
PRK13341	725	recombination factor protein RarA/unknown domain f	96.59
PRK10865	857	protein disaggregation chaperone; Provisional	96.59
PF13173	128	AAA_14: AAA domain	96.59
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	96.54
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	96.52
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	96.51
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	96.5
PRK05541	176	adenylylsulfate kinase; Provisional	96.5
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	96.47
PRK03992	389	proteasome-activating nucleotidase; Provisional	96.46
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	96.46
TIGR00235	207	udk uridine kinase. Model contains a number of lon	96.46
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.45
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	96.45
PHA02544	316	44 clamp loader, small subunit; Provisional	96.43
PRK07667	193	uridine kinase; Provisional	96.43
PRK06762	166	hypothetical protein; Provisional	96.42
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	96.4
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	96.39
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	96.39
PF00004	132	AAA: ATPase family associated with various cellula	96.37
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	96.36
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	96.35
smart00382	148	AAA ATPases associated with a variety of cellular	96.35
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	96.33
TIGR02237	209	recomb_radB DNA repair and recombination protein R	96.32
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	96.3
PRK03839	180	putative kinase; Provisional	96.25
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	96.24
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	96.22
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	96.22
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	96.21
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	96.21
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	96.2
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	96.19
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	96.18
PRK08727	233	hypothetical protein; Validated	96.17
PRK08903	227	DnaA regulatory inactivator Hda; Validated	96.15
PRK08084	235	DNA replication initiation factor; Provisional	96.14
PRK05564	313	DNA polymerase III subunit delta'; Validated	96.12
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	96.11
PRK05439	311	pantothenate kinase; Provisional	96.1
PRK04040	188	adenylate kinase; Provisional	96.07
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	96.07
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	96.06
PRK06893	229	DNA replication initiation factor; Validated	96.06
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	96.05
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	96.03
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	96.03
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	96.01
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	96.01
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	96.0
PRK13531	498	regulatory ATPase RavA; Provisional	95.98
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	95.93
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	95.92
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	95.92
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	95.9
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	95.9
PF12061	402	DUF3542: Protein of unknown function (DUF3542); In	95.9
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	95.9
PRK00625	173	shikimate kinase; Provisional	95.89
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	95.88
cd01394	218	radB RadB. The archaeal protein radB shares simila	95.88
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	95.86
PRK06217	183	hypothetical protein; Validated	95.85
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	95.83
PRK00131	175	aroK shikimate kinase; Reviewed	95.83
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	95.81
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	95.8
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	95.78
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	95.78
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	95.78
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	95.78
PRK00300	205	gmk guanylate kinase; Provisional	95.76
PRK00889	175	adenylylsulfate kinase; Provisional	95.76
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	95.75
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	95.74
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	95.73
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	95.72
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	95.71
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	95.71
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	95.71
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	95.7
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	95.68
PRK10536	262	hypothetical protein; Provisional	95.66
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	95.65
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	95.65
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	95.64
CHL00181	287	cbbX CbbX; Provisional	95.64
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	95.62
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	95.61
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	95.6
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	95.6
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	95.6
PRK14527	191	adenylate kinase; Provisional	95.6
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	95.59
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	95.59
PRK13947	171	shikimate kinase; Provisional	95.57
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	95.57
PRK14530	215	adenylate kinase; Provisional	95.57
PRK03846	198	adenylylsulfate kinase; Provisional	95.56
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	95.56
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	95.55
PRK00771	437	signal recognition particle protein Srp54; Provisi	95.55
PRK13949	169	shikimate kinase; Provisional	95.55
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	95.54
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	95.53
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	95.52
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	95.51
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	95.5
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	95.49
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	95.48
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	95.48
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	95.47
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	95.46
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	95.44
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	95.44
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	95.43
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	95.43
TIGR02236	310	recomb_radA DNA repair and recombination protein R	95.43
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	95.41
PRK09087	226	hypothetical protein; Validated	95.41
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	95.41
TIGR01287	275	nifH nitrogenase iron protein. This model describe	95.4
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	95.4
PRK09112	351	DNA polymerase III subunit delta'; Validated	95.4
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	95.39
PF07726	131	AAA_3: ATPase family associated with various cellu	95.39
PRK04301	317	radA DNA repair and recombination protein RadA; Va	95.37
PRK13975	196	thymidylate kinase; Provisional	95.36
PRK14737	186	gmk guanylate kinase; Provisional	95.35
PRK13765	637	ATP-dependent protease Lon; Provisional	95.33
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	95.33
PRK05057	172	aroK shikimate kinase I; Reviewed	95.32
PRK07940	394	DNA polymerase III subunit delta'; Validated	95.3
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	95.29
PRK12339	197	2-phosphoglycerate kinase; Provisional	95.28
PRK06620	214	hypothetical protein; Validated	95.27
PRK14738	206	gmk guanylate kinase; Provisional	95.27
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	95.27
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	95.26
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	95.24
PRK12608	380	transcription termination factor Rho; Provisional	95.23
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	95.22
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	95.22
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	95.21
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	95.19
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	95.17
PLN02200	234	adenylate kinase family protein	95.16
cd02117	212	NifH_like This family contains the NifH (iron prot	95.15
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	95.15
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	95.15
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	95.13
PRK09825	176	idnK D-gluconate kinase; Provisional	95.13
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	95.12
PF00005	137	ABC_tran: ABC transporter This structure is on hol	95.12
PRK05642	234	DNA replication initiation factor; Validated	95.12
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	95.11
PRK04182	180	cytidylate kinase; Provisional	95.1
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	95.1
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	95.07
) 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	95.06
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	95.04
PRK13232	273	nifH nitrogenase reductase; Reviewed	95.02
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	95.01
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	95.0
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	95.0
PRK13948	182	shikimate kinase; Provisional	95.0
PRK13230	279	nitrogenase reductase-like protein; Reviewed	94.99
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	94.99
PLN02348	395	phosphoribulokinase	94.97
PRK06761	282	hypothetical protein; Provisional	94.96
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	94.95
PRK13946	184	shikimate kinase; Provisional	94.95
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	94.93
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	94.93
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	94.92
TIGR02173	171	cyt_kin_arch cytidylate kinase, putative. Proteins	94.92
PRK09435	332	membrane ATPase/protein kinase; Provisional	94.9
cd02040	270	NifH NifH gene encodes component II (iron protein)	94.89
PRK14532	188	adenylate kinase; Provisional	94.89
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	94.89
cd02029	277	PRK_like Phosphoribulokinase-like (PRK-like) is a	94.89
PRK13236	296	nitrogenase reductase; Reviewed	94.89
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	94.88
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	94.88
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	94.87
COG3899	849	Predicted ATPase [General function prediction only	94.87
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	94.83
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	94.82
PRK07471	365	DNA polymerase III subunit delta'; Validated	94.82
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	94.82
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	94.82
PRK08356	195	hypothetical protein; Provisional	94.81
PLN02796	347	D-glycerate 3-kinase	94.8
PF13245	76	AAA_19: Part of AAA domain	94.8
COG1763	161	MobB Molybdopterin-guanine dinucleotide biosynthes	94.79
COG0237	201	CoaE Dephospho-CoA kinase [Coenzyme metabolism]	94.79
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	94.78
COG0003	322	ArsA Predicted ATPase involved in chromosome parti	94.78
PRK12377	248	putative replication protein; Provisional	94.77
PRK14531	183	adenylate kinase; Provisional	94.73
cd02022	179	DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.2	94.73
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	94.72
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	94.72
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	94.72
PTZ00088	229	adenylate kinase 1; Provisional	94.71
cd03269	210	ABC_putative_ATPase This subfamily is involved in	94.71
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	94.71
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	94.71
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	94.69
PLN02165	334	adenylate isopentenyltransferase	94.69
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	94.68
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	94.68
PRK06067	234	flagellar accessory protein FlaH; Validated	94.68
cd03116	159	MobB Molybdenum is an essential trace element in t	94.68
PRK13695	174	putative NTPase; Provisional	94.67
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	94.67
PRK01184	184	hypothetical protein; Provisional	94.66
PLN02318	656	phosphoribulokinase/uridine kinase	94.66
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	94.65
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	94.63
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	94.61
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	94.6
COG2019	189	AdkA Archaeal adenylate kinase [Nucleotide transpo	94.59
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	94.59
TIGR00064	272	ftsY signal recognition particle-docking protein F	94.59
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	94.58
PRK03731	171	aroL shikimate kinase II; Reviewed	94.58
COG1100	219	GTPase SAR1 and related small G proteins [General	94.58
PRK13235	274	nifH nitrogenase reductase; Reviewed	94.58
cd02026	273	PRK Phosphoribulokinase (PRK) is an enzyme involve	94.57
PRK15453	290	phosphoribulokinase; Provisional	94.57
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	94.56
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	94.56
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	94.56
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	94.54
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	94.54
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	94.54
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	94.54
PRK13233	275	nifH nitrogenase reductase; Reviewed	94.53
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	94.52
smart00072	184	GuKc Guanylate kinase homologues. Active enzymes c	94.51
KOG1969	877	consensus DNA replication checkpoint protein CHL12	94.5
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	94.49
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	94.49
PRK08099	399	bifunctional DNA-binding transcriptional repressor	94.49
PHA02530	300	pseT polynucleotide kinase; Provisional	94.49
PRK14493	274	putative bifunctional molybdopterin-guanine dinucl	94.48
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	94.47
PRK05973	237	replicative DNA helicase; Provisional	94.46
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	94.45
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	94.45
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	94.45
TIGR00017	217	cmk cytidylate kinase. This family consists of cyt	94.43
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	94.41
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	94.4
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	94.39
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	94.39
PRK13231	264	nitrogenase reductase-like protein; Reviewed	94.38
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	94.38
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	94.38
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	94.37
PF02374	305	ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_	94.37
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	94.37
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	94.37
PRK02496	184	adk adenylate kinase; Provisional	94.36
PRK10416	318	signal recognition particle-docking protein FtsY;	94.36
PRK00698	205	tmk thymidylate kinase; Validated	94.36
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	94.36
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	94.36
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	94.35
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	94.35
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	94.35
PRK13768	253	GTPase; Provisional	94.35
cd03115	173	SRP The signal recognition particle (SRP) mediates	94.34
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	94.32
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	94.32
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	94.32
TIGR01281	268	DPOR_bchL light-independent protochlorophyllide re	94.32
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	94.31
PTZ00035	337	Rad51 protein; Provisional	94.3
PRK04328	249	hypothetical protein; Provisional	94.29
cd03256	241	ABC_PhnC_transporter ABC-type phosphate/phosphonat	94.29
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	94.28
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	94.28
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	94.27
cd03297	214	ABC_ModC_molybdenum_transporter ModC is an ABC-typ	94.27
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	94.27
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	94.27
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	94.27
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	94.27
TIGR02016	296	BchX chlorophyllide reductase iron protein subunit	94.26
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	94.26
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	94.26
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	94.26
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	94.25
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	94.25
PRK14528	186	adenylate kinase; Provisional	94.25
cd03260	227	ABC_PstB_phosphate_transporter Phosphate uptake is	94.25
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	94.25
cd02032	267	Bchl_like This family of proteins contains bchL an	94.25
COG3638	258	ABC-type phosphate/phosphonate transport system, A	94.25
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	94.24
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	94.24
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	94.23
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	94.23
PRK00279	215	adk adenylate kinase; Reviewed	94.22
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	94.22
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	94.21
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	94.18
PRK10584	228	putative ABC transporter ATP-binding protein YbbA;	94.18
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	94.18
PRK13540	200	cytochrome c biogenesis protein CcmA; Provisional	94.18
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	94.17
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	94.17
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	94.16
cd03114	148	ArgK-like The function of this protein family is u	94.16
PRK09183	259	transposase/IS protein; Provisional	94.15
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	94.15
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	94.14
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	94.14
COG4778	235	PhnL ABC-type phosphonate transport system, ATPase	94.14
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	94.13
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	94.13
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	94.12
PRK15177	213	Vi polysaccharide export ATP-binding protein VexC;	94.12
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	94.11
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	94.09
PRK08116	268	hypothetical protein; Validated	94.09
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	94.08
COG0541	451	Ffh Signal recognition particle GTPase [Intracellu	94.07
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	94.04
PRK13185	270	chlL protochlorophyllide reductase iron-sulfur ATP	94.04
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	94.02
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	94.02
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	94.01
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	94.01
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	94.0
PRK14730	195	coaE dephospho-CoA kinase; Provisional	93.99
cd00983	325	recA RecA is a bacterial enzyme which has roles in	93.98
PRK11629	233	lolD lipoprotein transporter ATP-binding subunit;	93.98
cd03257	228	ABC_NikE_OppD_transporters The ABC transporter sub	93.97
TIGR01184	230	ntrCD nitrate transport ATP-binding subunits C and	93.97
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	93.96
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	93.96
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	93.95
PRK13538	204	cytochrome c biogenesis protein CcmA; Provisional	93.95
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	93.95
PF00142	273	Fer4_NifH: 4Fe-4S iron sulfur cluster binding prot	93.94
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	93.94
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	93.94
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	93.94
PRK08533	230	flagellar accessory protein FlaH; Reviewed	93.94
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	93.93
cd01673	193	dNK Deoxyribonucleoside kinase (dNK) catalyzes the	93.93
PF12780	268	AAA_8: P-loop containing dynein motor region D4; I	93.93
PRK10247	225	putative ABC transporter ATP-binding protein YbbL;	93.92
PRK06526	254	transposase; Provisional	93.92
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	93.9
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	93.9
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	93.89
PRK07952	244	DNA replication protein DnaC; Validated	93.88
PRK11608	326	pspF phage shock protein operon transcriptional ac	93.88
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	93.88
PLN03046	460	D-glycerate 3-kinase; Provisional	93.87
TIGR00959	428	ffh signal recognition particle protein. This mode	93.87
cd03219	236	ABC_Mj1267_LivG_branched The Mj1267/LivG ABC trans	93.87
PRK07429	327	phosphoribulokinase; Provisional	93.86
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	93.86
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	93.84
PRK12338	319	hypothetical protein; Provisional	93.83
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	93.83
cd03246	173	ABCC_Protease_Secretion This family represents the	93.83
PRK11124	242	artP arginine transporter ATP-binding subunit; Pro	93.83
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	93.82
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	93.81
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	93.81
PRK08154	309	anaerobic benzoate catabolism transcriptional regu	93.79
PRK10908	222	cell division protein FtsE; Provisional	93.78
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	93.77
cd02034	116	CooC The accessory protein CooC, which contains a	93.77
COG1123	539	ATPase components of various ABC-type transport sy	93.76
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	93.76
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	93.75
TIGR01189	198	ccmA heme ABC exporter, ATP-binding protein CcmA.	93.75
COG0714	329	MoxR-like ATPases [General function prediction onl	93.74
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	93.74
cd03268	208	ABC_BcrA_bacitracin_resist The BcrA subfamily repr	93.74
cd03278	197	ABC_SMC_barmotin Barmotin is a tight junction-asso	93.74
TIGR01978	243	sufC FeS assembly ATPase SufC. SufC is part of the	93.74
TIGR02770	230	nickel_nikD nickel import ATP-binding protein NikD	93.73
PRK04220	301	2-phosphoglycerate kinase; Provisional	93.73
PRK09354	349	recA recombinase A; Provisional	93.72
TIGR00101	199	ureG urease accessory protein UreG. This model rep	93.72
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	93.72
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	93.72
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	93.71
PRK11022	326	dppD dipeptide transporter ATP-binding subunit; Pr	93.7
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	93.7
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	93.69
cd03295	242	ABC_OpuCA_Osmoprotection OpuCA is a the ATP bindin	93.69
PF13555	62	AAA_29: P-loop containing region of AAA domain	93.69
PRK14974	336	cell division protein FtsY; Provisional	93.69
PRK14250	241	phosphate ABC transporter ATP-binding protein; Pro	93.69
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	93.68
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	93.68
TIGR02324	224	CP_lyasePhnL phosphonate C-P lyase system protein	93.68
PRK14247	250	phosphate ABC transporter ATP-binding protein; Pro	93.68
PHA02575	227	1 deoxynucleoside monophosphate kinase; Provisiona	93.67
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	93.65
TIGR01277	213	thiQ thiamine ABC transporter, ATP-binding protein	93.65
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	93.65
cd03216	163	ABC_Carb_Monos_I This family represents the domain	93.64
PRK14242	253	phosphate transporter ATP-binding protein; Provisi	93.64
PRK11247	257	ssuB aliphatic sulfonates transport ATP-binding su	93.63
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	93.62
PRK13648	269	cbiO cobalt transporter ATP-binding subunit; Provi	93.61
PRK10865	857	protein disaggregation chaperone; Provisional	93.61
PRK14245	250	phosphate ABC transporter ATP-binding protein; Pro	93.61
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	93.6
cd03252	237	ABCC_Hemolysin The ABC-transporter hemolysin B is	93.6
COG1484	254	DnaC DNA replication protein [DNA replication, rec	93.59
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	93.59
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	93.57
PRK14241	258	phosphate transporter ATP-binding protein; Provisi	93.56
PRK09544	251	znuC high-affinity zinc transporter ATPase; Review	93.56
cd03273	251	ABC_SMC2_euk Eukaryotic SMC2 proteins; SMC protein	93.55
TIGR00972	247	3a0107s01c2 phosphate ABC transporter, ATP-binding	93.55
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	93.54
COG4136	213	ABC-type uncharacterized transport system, ATPase	93.54
cd03254	229	ABCC_Glucan_exporter_like Glucan exporter ATP-bind	93.54
PRK06851	367	hypothetical protein; Provisional	93.53
cd03215	182	ABC_Carb_Monos_II This family represents domain II	93.52
cd03233	202	ABC_PDR_domain1 The pleiotropic drug resistance (P	93.52
PRK10867	433	signal recognition particle protein; Provisional	93.51
PRK11264	250	putative amino-acid ABC transporter ATP-binding pr	93.49
PRK14274	259	phosphate ABC transporter ATP-binding protein; Pro	93.49
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	93.48
cd03267	236	ABC_NatA_like Similar in sequence to NatA, this is	93.48
TIGR03740	223	galliderm_ABC gallidermin-class lantibiotic protec	93.47
COG4619	223	ABC-type uncharacterized transport system, ATPase	93.46
TIGR03410	230	urea_trans_UrtE urea ABC transporter, ATP-binding	93.46
PRK10744	260	pstB phosphate transporter ATP-binding protein; Pr	93.46
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	93.45
PRK00023	225	cmk cytidylate kinase; Provisional	93.45
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	93.45
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	93.45

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=1.9e-53  Score=444.51  Aligned_cols=387  Identities=40%  Similarity=0.697  Sum_probs=326.3

Q ss_pred             cccchhhhhhhHhhhhhhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhChhhHHHHHHHHHHHHHHHHHHH
Q 043778            8 SCDSNITRCPDCTVRKASSIRDLQKNLEALPRELQKLVETRNDVRIRVIVAEQQKMKRLEQVEPWFSRVQDAESEVAKLM   87 (405)
Q Consensus         8 ~~~~~~~~l~~~l~~e~~~~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~ae~~~~~~~~~~~~Wl~~l~~~ayd~eD~l   87 (405)
                      .++..++++.+++.++...+.+.++++..|+++|..|+.++.|       ++.++.+ ...+..|...++++.|+++|.+
T Consensus         4 ~~s~~~~~~~~~l~~~~~~~~~~~~~i~~Lk~~L~~l~~~l~d-------~~a~~~~-~~~~~~~~e~~~~~~~~~e~~~   75 (889)
T KOG4658|consen    4 CVSFGVEKLDQLLNRESECLDGKDNYILELKENLKALQSALED-------LDAKRDD-LERRVNWEEDVGDLVYLAEDII   75 (889)
T ss_pred             EEEEehhhHHHHHHHHHHHHhchHHHHHHHHHHHHHHHHHHHH-------HHhhcch-HHHHHHHHHHHHHHHHHHHHHH
Confidence            3556778899999999999999999999999999999999999       5555544 4778899999999999999999


Q ss_pred             HHHHHHhhh----------------hhcCCcCCCCccchhhh----------------ccccccccc-cCCCCCCcCCCC
Q 043778           88 LERNWELKK----------------LCLGGCCSKSCKSSYKV----------------EGDFQEVAQ-RLPENPVDARPV  134 (405)
Q Consensus        88 d~~~~~~~~----------------~~~~~~~~~~~~~~~~~----------------~~~~~~~~~-~~~~~~~~~~~~  134 (405)
                      +.+......                .|+.+.|..+....+.+                ++.++.+.. ..+......+|.
T Consensus        76 ~~~~v~~~~~~~~~~l~~~~~~~~~~c~~~~~~~~~~~~~~~~~rv~~~l~~ve~l~~~~~~~~~~~~~~~~~~~e~~~~  155 (889)
T KOG4658|consen   76 WLFLVEEIERKANDLLSTRSVERQRLCLCGFCSKNVSDSYKYGKRVSKVLREVESLGSKGVFEVVGESLDPREKVETRPI  155 (889)
T ss_pred             HHHHHHHHHHHHhHHhhhhHHHHHHHhhhhhHhHhhhhhHhHHHHHHHHHHHHHHhccccceecccccccchhhcccCCC
Confidence            998765421                23334444444433332                333444443 122222333443


Q ss_pred             cccc-ccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhccC-CCCCCCEEEEEEeCCCCCHHHHHHHHHHH
Q 043778          135 ALTI-VGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKFLD-EPNYFDVVIWAVASKVVEIEKIQESIAKK  212 (405)
Q Consensus       135 ~~~~-vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~~~-~~~~F~~~~wv~vs~~~~~~~l~~~i~~~  212 (405)
                      .+.. ||.+..++++.+.|.+++..+++|+||||+||||||+.++|+. . ++.+|+.++||+||+.|+...++.+|+..
T Consensus       156 ~~~~~VG~e~~~~kl~~~L~~d~~~iv~i~GMGGvGKTTL~~qi~N~~-~~v~~~Fd~~iWV~VSk~f~~~~iq~~Il~~  234 (889)
T KOG4658|consen  156 QSESDVGLETMLEKLWNRLMEDDVGIVGIYGMGGVGKTTLARQIFNKF-DEVGNHFDGVIWVVVSKEFTTRKIQQTILER  234 (889)
T ss_pred             CccccccHHHHHHHHHHHhccCCCCEEEEECCCcccHHHHHHHHhccc-chhcccCceEEEEEEcccccHHhHHHHHHHH
Confidence            3333 9999999999999999888999999999999999999999999 6 99999999999999999999999999999


Q ss_pred             hCCCCCCCCcccHHHHHHHHHHHHcccch---------------------------------------------------
Q 043778          213 IGFFNESWESKTVQEKAVDIFNILSKKKY---------------------------------------------------  241 (405)
Q Consensus       213 l~~~~~~~~~~~~~~~~~~l~~~L~~kr~---------------------------------------------------  241 (405)
                      ++..+..+......+.+..|.+.|+.|||                                                   
T Consensus       235 l~~~~~~~~~~~~~~~~~~i~~~L~~krfllvLDDIW~~~dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m~~~~~~~v  314 (889)
T KOG4658|consen  235 LGLLDEEWEDKEEDELASKLLNLLEGKRFLLVLDDIWEEVDWDKIGVPFPSRENGSKVVLTTRSEEVCGRAMGVDYPIEV  314 (889)
T ss_pred             hccCCcccchhhHHHHHHHHHHHhccCceEEEEecccccccHHhcCCCCCCccCCeEEEEEeccHhhhhccccCCccccc
Confidence            98766656666678999999999999999                                                   


Q ss_pred             -----HHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHh-----------hhhCCCCHHHHHHHHHHHhhh---------
Q 043778          242 -----EDAWKLFEEKVGRDILDSHPNIPELVETVAKECG-----------AMASRKTHQEWEYAIEVWRNE---------  296 (405)
Q Consensus       242 -----~ds~~Lf~~~~~~~~~~~~~~l~~~~~~Iv~~C~-----------~l~~~~~~~~W~~~l~~l~~~---------  296 (405)
                           +|||.||++.+|.....+++.+.++|++|+++|+           +|+.+.+.++|+++.+.+.+.         
T Consensus       315 ~~L~~~eaW~LF~~~v~~~~~~~~~~i~~lak~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~~l~s~~~~~~~~~~  394 (889)
T KOG4658|consen  315 ECLTPEEAWDLFQKKVGPNTLGSHPDIEELAKEVAEKCGGLPLALNVLGGLLACKKTVQEWRRALNVLKSSLAADFSGME  394 (889)
T ss_pred             cccCccccHHHHHHhhccccccccccHHHHHHHHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHccccccccCCCCchh
Confidence                 9999999999998866777779999999999998           678999999999999988665         


Q ss_pred             --c--cHhhhhccCCCCccccccc----------eeHHHHHHHHHHhCCCCCCC-chhHHHHHHHHHHHHHHcCccccc-
Q 043778          297 --Y--TLVYSYDFLPSDVGRFCLL----------IDIDQLVDFWICEGFLDEYD-GIAARNQGYCIVGTLLHACLLEEE-  360 (405)
Q Consensus       297 --~--~l~~sy~~Lp~~~~k~cfl----------i~~~~Li~~Wiaeg~~~~~~-~~~~e~~a~~~~~~Lv~r~ll~~~-  360 (405)
                        +  +|++||++||+ ++|+||+          |+++.|+.+|+||||+.... +..+++.|++|+++|+++||++.+ 
T Consensus       395 ~~i~~iLklSyd~L~~-~lK~CFLycalFPED~~I~~e~Li~yWiaEGfi~~~~~~~~~~d~G~~~i~~LV~~~Ll~~~~  473 (889)
T KOG4658|consen  395 ESILPILKLSYDNLPE-ELKSCFLYCALFPEDYEIKKEKLIEYWIAEGFIDPLDGGETAEDVGYDYIEELVRASLLIEER  473 (889)
T ss_pred             hhhHHhhhccHhhhhH-HHHHHHHhhccCCcccccchHHHHHHHHhccCcCccccccchhcchHHHHHHHHHHHHHhhcc
Confidence              1  99999999996 7999999          99999999999999999955 448999999999999999999985 


Q ss_pred             ---CCCeEEeChhHHHHHHHHHcccccccccEEEecCCCCccCCCCC
Q 043778          361 ---EGNRVKMHDVIRDMALWIASTFENKNEKFLVLAGVGLTAAPSVG  404 (405)
Q Consensus       361 ---~~~~~~~Hdlvrd~a~~~~~~~~~~~~~~~~~~g~~~~~~p~~~  404 (405)
                         +..+|+|||+||++|.++|++.|.+++.+++.+|.+..+.|.++
T Consensus       474 ~~~~~~~~kmHDvvRe~al~ias~~~~~~e~~iv~~~~~~~~~~~~~  520 (889)
T KOG4658|consen  474 DEGRKETVKMHDVVREMALWIASDFGKQEENQIVSDGVGLSEIPQVK  520 (889)
T ss_pred             cccceeEEEeeHHHHHHHHHHhccccccccceEEECCcCcccccccc
Confidence               34799999999999999999999888889999988888888753

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

Probab=99.94  E-value=2.2e-27  Score=223.12  Aligned_cols=194  Identities=32%  Similarity=0.579  Sum_probs=160.2

Q ss_pred             chHHHHHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCC
Q 043778          141 LESIFDKLWRCLTE--EQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFFNE  218 (405)
Q Consensus       141 r~~~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i~~~l~~~~~  218 (405)
                      ||.++++|.+.|..  ++.++|+|+||||+||||||..++++. .++.+|+.++|+.++...+...++..|+.+++....
T Consensus         1 re~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~-~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~   79 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDL-RIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDS   79 (287)
T ss_dssp             -HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHH-HHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-S
T ss_pred             CHHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeeccccc-cccccccccccccccccccccccccccccccccccc
Confidence            68899999999988  689999999999999999999999986 578999999999999999999999999999987644


Q ss_pred             CC-CcccHHHHHHHHHHHHcccch--------------------------------------------------------
Q 043778          219 SW-ESKTVQEKAVDIFNILSKKKY--------------------------------------------------------  241 (405)
Q Consensus       219 ~~-~~~~~~~~~~~l~~~L~~kr~--------------------------------------------------------  241 (405)
                      .. ...+.......+++.|.++++                                                        
T Consensus        80 ~~~~~~~~~~~~~~l~~~L~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~~l~~L~~  159 (287)
T PF00931_consen   80 SISDPKDIEELQDQLRELLKDKRCLLVLDDVWDEEDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVIELEPLSE  159 (287)
T ss_dssp             TSSCCSSHHHHHHHHHHHHCCTSEEEEEEEE-SHHHH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEEECSS--H
T ss_pred             ccccccccccccccchhhhccccceeeeeeeccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            33 456778899999999999988                                                        


Q ss_pred             HHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHh-----------hhhCCCCHHHHHHHHHHHhhh----------c--c
Q 043778          242 EDAWKLFEEKVGRDILDSHPNIPELVETVAKECG-----------AMASRKTHQEWEYAIEVWRNE----------Y--T  298 (405)
Q Consensus       242 ~ds~~Lf~~~~~~~~~~~~~~l~~~~~~Iv~~C~-----------~l~~~~~~~~W~~~l~~l~~~----------~--~  298 (405)
                      +||++||.+.++.......+.+.+.+++|+++|+           .|+.+.+..+|..+++.+...          +  +
T Consensus       160 ~ea~~L~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~~~~~~~~~~~~~~~  239 (287)
T PF00931_consen  160 EEALELFKKRAGRKESESPEDLEDLAKEIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELENSLRESRDYDRSVFSA  239 (287)
T ss_dssp             HHHHHHHHHHHTSHS----TTSCTHHHHHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHCHTCSSGSCHHHHHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            9999999999976652334556688999999999           232334678999998877654          1  8


Q ss_pred             HhhhhccCCCCccccccc----------eeHHHHHHHHHHhCCCCCCC
Q 043778          299 LVYSYDFLPSDVGRFCLL----------IDIDQLVDFWICEGFLDEYD  336 (405)
Q Consensus       299 l~~sy~~Lp~~~~k~cfl----------i~~~~Li~~Wiaeg~~~~~~  336 (405)
                      +.+||+.||+ ++|+||+          |+++.|+++|++|||++.++
T Consensus       240 l~~s~~~L~~-~~~~~f~~L~~f~~~~~i~~~~li~lW~~e~~i~~~~  286 (287)
T PF00931_consen  240 LELSYDSLPD-ELRRCFLYLSIFPEGVPIPRERLIRLWVAEGFISSKH  286 (287)
T ss_dssp             HHHHHHSSHT-CCHHHHHHGGGSGTTS-EEHHHHHHHHTT-HHTC---
T ss_pred             ceechhcCCc-cHHHHHhhCcCCCCCceECHHHHHHHHHHCCCCcccC
Confidence            9999999999 6999998          99999999999999998753

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=99.94  E-value=1.2e-25  Score=246.38  Aligned_cols=238  Identities=21%  Similarity=0.258  Sum_probs=170.5

Q ss_pred             cccccchHHHHHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEe---CCC-----------
Q 043778          136 LTIVGLESIFDKLWRCLTE--EQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVA---SKV-----------  199 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~v---s~~-----------  199 (405)
                      +.+||++..++++..+|.-  ++.++|+||||||+||||||+.+|+   ++..+|++.+|+.-   +..           
T Consensus       184 ~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~---~l~~~F~g~vfv~~~~v~~~~~~~~~~~~~~  260 (1153)
T PLN03210        184 EDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFS---RLSRQFQSSVFIDRAFISKSMEIYSSANPDD  260 (1153)
T ss_pred             ccccchHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHH---HHhhcCCeEEEeeccccccchhhcccccccc
Confidence            5689999999999988853  4789999999999999999999999   44789999888741   211           


Q ss_pred             CC-HHHHHHHHHHHhCCCCCCCCcccHHHHHHHHHHHHcccch-------------------------------------
Q 043778          200 VE-IEKIQESIAKKIGFFNESWESKTVQEKAVDIFNILSKKKY-------------------------------------  241 (405)
Q Consensus       200 ~~-~~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~~kr~-------------------------------------  241 (405)
                      ++ ...++..++..+..... ......    ..+++.|.++|+                                     
T Consensus       261 ~~~~~~l~~~~l~~il~~~~-~~~~~~----~~~~~~L~~krvLLVLDdv~~~~~l~~L~~~~~~~~~GsrIIiTTrd~~  335 (1153)
T PLN03210        261 YNMKLHLQRAFLSEILDKKD-IKIYHL----GAMEERLKHRKVLIFIDDLDDQDVLDALAGQTQWFGSGSRIIVITKDKH  335 (1153)
T ss_pred             cchhHHHHHHHHHHHhCCCC-cccCCH----HHHHHHHhCCeEEEEEeCCCCHHHHHHHHhhCccCCCCcEEEEEeCcHH
Confidence            11 12344455444421110 000000    223344444443                                     


Q ss_pred             ------------------HHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHh----------hhhCCCCHHHHHHHHHHH
Q 043778          242 ------------------EDAWKLFEEKVGRDILDSHPNIPELVETVAKECG----------AMASRKTHQEWEYAIEVW  293 (405)
Q Consensus       242 ------------------~ds~~Lf~~~~~~~~~~~~~~l~~~~~~Iv~~C~----------~l~~~~~~~~W~~~l~~l  293 (405)
                                        ++||+||+..||... ..+.++.+++++|+++|+          .....++..+|..++++|
T Consensus       336 vl~~~~~~~~~~v~~l~~~ea~~LF~~~Af~~~-~~~~~~~~l~~~iv~~c~GLPLAl~vlgs~L~~k~~~~W~~~l~~L  414 (1153)
T PLN03210        336 FLRAHGIDHIYEVCLPSNELALEMFCRSAFKKN-SPPDGFMELASEVALRAGNLPLGLNVLGSYLRGRDKEDWMDMLPRL  414 (1153)
T ss_pred             HHHhcCCCeEEEecCCCHHHHHHHHHHHhcCCC-CCcHHHHHHHHHHHHHhCCCcHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence                              899999999998765 345568899999999999          223457899999999999


Q ss_pred             hhh----c--cHhhhhccCCCCccccccc----e---eHHHHHHHHHHhCCCCCCCchhHHHHHHHHHHHHHHcCccccc
Q 043778          294 RNE----Y--TLVYSYDFLPSDVGRFCLL----I---DIDQLVDFWICEGFLDEYDGIAARNQGYCIVGTLLHACLLEEE  360 (405)
Q Consensus       294 ~~~----~--~l~~sy~~Lp~~~~k~cfl----i---~~~~Li~~Wiaeg~~~~~~~~~~e~~a~~~~~~Lv~r~ll~~~  360 (405)
                      ...    +  +|++||++||++..|.||+    +   .....+..|++++....          +..++.|+++||++..
T Consensus       415 ~~~~~~~I~~~L~~SYd~L~~~~~k~~Fl~ia~ff~~~~~~~v~~~l~~~~~~~----------~~~l~~L~~ksLi~~~  484 (1153)
T PLN03210        415 RNGLDGKIEKTLRVSYDGLNNKKDKAIFRHIACLFNGEKVNDIKLLLANSDLDV----------NIGLKNLVDKSLIHVR  484 (1153)
T ss_pred             HhCccHHHHHHHHHhhhccCccchhhhhheehhhcCCCCHHHHHHHHHhcCCCc----------hhChHHHHhcCCEEEc
Confidence            875    3  9999999998744899999    1   12345778888765543          1238899999999875


Q ss_pred             CCCeEEeChhHHHHHHHHHcccc--cccccEEEec
Q 043778          361 EGNRVKMHDVIRDMALWIASTFE--NKNEKFLVLA  393 (405)
Q Consensus       361 ~~~~~~~Hdlvrd~a~~~~~~~~--~~~~~~~~~~  393 (405)
                       .+.++|||++|+||+.++.++.  +.+..+++.+
T Consensus       485 -~~~~~MHdLl~~~~r~i~~~~~~~~~~r~~l~~~  518 (1153)
T PLN03210        485 -EDIVEMHSLLQEMGKEIVRAQSNEPGEREFLVDA  518 (1153)
T ss_pred             -CCeEEhhhHHHHHHHHHHHhhcCCCCcceeEeCH
Confidence             4679999999999999997753  2344555543

syringae 6; Provisional

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=98.40  E-value=2.4e-06  Score=84.08  Aligned_cols=104  Identities=16%  Similarity=0.075  Sum_probs=73.1

Q ss_pred             ccccccchHHHHHHHHHhhc----CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHHHHH
Q 043778          135 ALTIVGLESIFDKLWRCLTE----EQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIA  210 (405)
Q Consensus       135 ~~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i~  210 (405)
                      ++.++||++++++|...|..    .....+.|+|++|+|||++++.++++. ......-..+++......+...++..|+
T Consensus        29 P~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l-~~~~~~~~~v~in~~~~~~~~~~~~~i~  107 (394)
T PRK00411         29 PENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEEL-EEIAVKVVYVYINCQIDRTRYAIFSEIA  107 (394)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHH-HHhcCCcEEEEEECCcCCCHHHHHHHHH
Confidence            46789999999999988743    245567899999999999999999876 3222223456666666667888999999


Q ss_pred             HHhCCCCCCCCcccHHHHHHHHHHHHccc
Q 043778          211 KKIGFFNESWESKTVQEKAVDIFNILSKK  239 (405)
Q Consensus       211 ~~l~~~~~~~~~~~~~~~~~~l~~~L~~k  239 (405)
                      .++.....+....+..+....+.+.+..+
T Consensus       108 ~~l~~~~~~~~~~~~~~~~~~~~~~l~~~  136 (394)
T PRK00411        108 RQLFGHPPPSSGLSFDELFDKIAEYLDER  136 (394)
T ss_pred             HHhcCCCCCCCCCCHHHHHHHHHHHHHhc
Confidence            99865221112234556666677776543

>PTZ00202 tuzin; Provisional

Probab=98.27  E-value=1.1e-05  Score=77.95  Aligned_cols=73  Identities=18%  Similarity=0.148  Sum_probs=57.7

Q ss_pred             ccccccchHHHHHHHHHhhcC---CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHHHHHH
Q 043778          135 ALTIVGLESIFDKLWRCLTEE---QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAK  211 (405)
Q Consensus       135 ~~~~vGr~~~~~~l~~~L~~~---~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i~~  211 (405)
                      ...|+||+.+...|...|.+.   ..+++.|.|++|+|||||++.+....   .  + ..+++...   +..+++..|+.
T Consensus       261 ~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l---~--~-~qL~vNpr---g~eElLr~LL~  331 (550)
T PTZ00202        261 IRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKE---G--M-PAVFVDVR---GTEDTLRSVVK  331 (550)
T ss_pred             ccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcC---C--c-eEEEECCC---CHHHHHHHHHH
Confidence            477999999999999888642   35699999999999999999999844   2  2 23333322   67999999999


Q ss_pred             HhCCC
Q 043778          212 KIGFF  216 (405)
Q Consensus       212 ~l~~~  216 (405)
                      +||.+
T Consensus       332 ALGV~  336 (550)
T PTZ00202        332 ALGVP  336 (550)
T ss_pred             HcCCC
Confidence            99974

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=98.11  E-value=2.6e-05  Score=75.86  Aligned_cols=79  Identities=14%  Similarity=0.204  Sum_probs=59.5

Q ss_pred             cccccchHHHHHHHHHhhc----CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCC---CEEEEEEeCCCCCHHHHHHH
Q 043778          136 LTIVGLESIFDKLWRCLTE----EQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYF---DVVIWAVASKVVEIEKIQES  208 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F---~~~~wv~vs~~~~~~~l~~~  208 (405)
                      +.++||+.++++|...|..    .....+.|+|++|+|||++++.++++..+.....   -..+|+......+...++..
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            5789999999999998863    3456799999999999999999998641111111   14566766666677888999


Q ss_pred             HHHHhC
Q 043778          209 IAKKIG  214 (405)
Q Consensus       209 i~~~l~  214 (405)
                      |+.++.
T Consensus        95 i~~~l~  100 (365)
T TIGR02928        95 LANQLR  100 (365)
T ss_pred             HHHHHh
Confidence            999883

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.

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

Probab=98.10  E-value=7e-06  Score=74.93  Aligned_cols=55  Identities=22%  Similarity=0.152  Sum_probs=46.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCC--CCHHHHHHHHHHH
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKV--VEIEKIQESIAKK  212 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~--~~~~~l~~~i~~~  212 (405)
                      .-..++|+|++|+|||||++.++++. ... +|+.++|+.++..  ++..++++.+...
T Consensus        15 ~Gqr~~I~G~~G~GKTTLlr~I~n~l-~~~-~fdv~~~v~vI~er~~ev~el~~~I~~~   71 (249)
T cd01128          15 KGQRGLIVAPPKAGKTTLLQSIANAI-TKN-HPEVYLIVLLIDERPEEVTDMQRSVKGE   71 (249)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcc-ccc-cCCeEEEEEEccCCCccHHHHHHHhccE
Confidence            45689999999999999999999976 433 8999999997776  7899999999433

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.

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=98.08  E-value=4.8e-06  Score=79.65  Aligned_cols=54  Identities=22%  Similarity=0.145  Sum_probs=46.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCC--CHHHHHHHHHH
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVV--EIEKIQESIAK  211 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~--~~~~l~~~i~~  211 (405)
                      .-...+|+|++|+||||||+.||++. .. ++|+.++||.+++..  ...++++.|..
T Consensus       168 kGQR~lIvgppGvGKTTLaK~Ian~I-~~-nhFDv~~~VvLIgER~~EVtdiqrsIlg  223 (416)
T PRK09376        168 KGQRGLIVAPPKAGKTVLLQNIANSI-TT-NHPEVHLIVLLIDERPEEVTDMQRSVKG  223 (416)
T ss_pred             cCceEEEeCCCCCChhHHHHHHHHHH-Hh-hcCCeEEEEEEeCCchhHHHHHHHHhcC
Confidence            55789999999999999999999977 43 389999999998887  77888888863

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

Probab=97.91  E-value=1.5e-05  Score=69.36  Aligned_cols=44  Identities=27%  Similarity=0.340  Sum_probs=32.0

Q ss_pred             cccchHHHHHHHHHhh---cCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          138 IVGLESIFDKLWRCLT---EEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       138 ~vGr~~~~~~l~~~L~---~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      |+||+++++++...|.   ....+.+.|+|.+|+|||+|.+.++...
T Consensus         2 fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~   48 (185)
T PF13191_consen    2 FVGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRL   48 (185)
T ss_dssp             -TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            7999999999999993   2367899999999999999999998866

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

Probab=97.81  E-value=3.7e-05  Score=62.90  Aligned_cols=90  Identities=21%  Similarity=0.266  Sum_probs=60.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCC--CCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCcccHHHHHHHHHH
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKFLDE--PNYFDVVIWAVASKVVEIEKIQESIAKKIGFFNESWESKTVQEKAVDIFN  234 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~~~~--~~~F~~~~wv~vs~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  234 (405)
                      -+++.|+|.+|+|||+++..+.++....  ...-..++|+..+...+...+...|+.+++.....  ..+..++...+.+
T Consensus         4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~--~~~~~~l~~~~~~   81 (131)
T PF13401_consen    4 QRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKS--RQTSDELRSLLID   81 (131)
T ss_dssp             ---EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSS--TS-HHHHHHHHHH
T ss_pred             CcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccc--cCCHHHHHHHHHH
Confidence            4688999999999999999999854100  00034667999888789999999999999876432  3456666677777


Q ss_pred             HHcccch-----HHHHHHH
Q 043778          235 ILSKKKY-----EDAWKLF  248 (405)
Q Consensus       235 ~L~~kr~-----~ds~~Lf  248 (405)
                      .+...+.     ||+-.|+
T Consensus        82 ~l~~~~~~~lviDe~~~l~  100 (131)
T PF13401_consen   82 ALDRRRVVLLVIDEADHLF  100 (131)
T ss_dssp             HHHHCTEEEEEEETTHHHH
T ss_pred             HHHhcCCeEEEEeChHhcC
Confidence            7766654     5555543

>PRK08118 topology modulation protein; Reviewed

Probab=97.80  E-value=1.3e-05  Score=68.80  Aligned_cols=35  Identities=34%  Similarity=0.597  Sum_probs=28.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhccCCC-CCCCEEEE
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKFLDEP-NYFDVVIW  193 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~~~~~-~~F~~~~w  193 (405)
                      +.|.|+|++|+||||||+.+++.. ... -+||..+|
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~l-~~~~~~lD~l~~   37 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEKL-NIPVHHLDALFW   37 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh-CCCceecchhhc
Confidence            358999999999999999999976 443 46777775

>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=97.77  E-value=2.5e-05  Score=70.50  Aligned_cols=44  Identities=34%  Similarity=0.371  Sum_probs=37.0

Q ss_pred             cccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          138 IVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       138 ~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      |+||+.++++|.+.+..+..+.+.|+|+.|+|||+|++.+.+..
T Consensus         1 F~gR~~el~~l~~~l~~~~~~~~~l~G~rg~GKTsLl~~~~~~~   44 (234)
T PF01637_consen    1 FFGREKELEKLKELLESGPSQHILLYGPRGSGKTSLLKEFINEL   44 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH--SSEEEEEESTTSSHHHHHHHHHHHC
T ss_pred             CCCHHHHHHHHHHHHHhhcCcEEEEEcCCcCCHHHHHHHHHHHh
Confidence            68999999999999987767899999999999999999999854

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

>TIGR00767 rho transcription termination factor Rho

Probab=97.76  E-value=8.5e-05  Score=71.54  Aligned_cols=56  Identities=20%  Similarity=0.145  Sum_probs=47.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCC--CCHHHHHHHHHHHh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKV--VEIEKIQESIAKKI  213 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~--~~~~~l~~~i~~~l  213 (405)
                      .-..++|+|++|+|||||++.+++.. . .++|+..+|+.+.+.  ..+.++++.++..+
T Consensus       167 ~Gq~~~IvG~~g~GKTtL~~~i~~~I-~-~nhfdv~v~VlLIgER~~EVtDLqrsIlg~V  224 (415)
T TIGR00767       167 KGQRGLIVAPPKAGKTVLLQKIAQAI-T-RNHPEVELIVLLIDERPEEVTDMQRSVKGEV  224 (415)
T ss_pred             CCCEEEEECCCCCChhHHHHHHHHhh-c-ccCCceEEEEEEcCCCCccHHHHHHHhhceE
Confidence            55789999999999999999999966 3 347999999998865  78999999995544

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

>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=97.72  E-value=0.00012  Score=60.44  Aligned_cols=58  Identities=29%  Similarity=0.269  Sum_probs=43.8

Q ss_pred             ccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCC
Q 043778          139 VGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKV  199 (405)
Q Consensus       139 vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~  199 (405)
                      +|++..+..+...+.......+.|+|++|+|||+|++.+++.. .  ..-..++++..+..
T Consensus         1 ~~~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~-~--~~~~~v~~~~~~~~   58 (151)
T cd00009           1 VGQEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANEL-F--RPGAPFLYLNASDL   58 (151)
T ss_pred             CchHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHh-h--cCCCCeEEEehhhh
Confidence            3678888888888877667789999999999999999999965 2  22234556655443

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.

>PRK04841 transcriptional regulator MalT; Provisional

Probab=97.65  E-value=0.00099  Score=72.74  Aligned_cols=68  Identities=15%  Similarity=0.120  Sum_probs=48.2

Q ss_pred             cccccchHHHHHHHHHhhc-CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCC-CCCHHHHHHHHHHHh
Q 043778          136 LTIVGLESIFDKLWRCLTE-EQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASK-VVEIEKIQESIAKKI  213 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~-~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~-~~~~~~l~~~i~~~l  213 (405)
                      +.++-|..-    .+.|.. ...+++.|.|++|.||||++....+..       +.++|+++.. +-++..++..++..+
T Consensus        14 ~~~~~R~rl----~~~l~~~~~~~~~~v~apaG~GKTtl~~~~~~~~-------~~~~w~~l~~~d~~~~~f~~~l~~~l   82 (903)
T PRK04841         14 HNTVVRERL----LAKLSGANNYRLVLVTSPAGYGKTTLISQWAAGK-------NNLGWYSLDESDNQPERFASYLIAAL   82 (903)
T ss_pred             cccCcchHH----HHHHhcccCCCeEEEECCCCCCHHHHHHHHHHhC-------CCeEEEecCcccCCHHHHHHHHHHHH
Confidence            445666644    444433 357899999999999999999987622       2689999864 446666777777777


Q ss_pred             C
Q 043778          214 G  214 (405)
Q Consensus       214 ~  214 (405)
                      +
T Consensus        83 ~   83 (903)
T PRK04841         83 Q   83 (903)
T ss_pred             H
Confidence            4

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

Probab=97.64  E-value=0.00033  Score=68.58  Aligned_cols=69  Identities=17%  Similarity=0.062  Sum_probs=56.2

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHH
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQE  207 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~  207 (405)
                      .++++.+...+.+...|...  +.|.+.|++|+|||++|+.+++.. .....|+.+.||.++..++..++..
T Consensus       175 ~d~~i~e~~le~l~~~L~~~--~~iil~GppGtGKT~lA~~la~~l-~~~~~~~~v~~VtFHpsySYeDFI~  243 (459)
T PRK11331        175 NDLFIPETTIETILKRLTIK--KNIILQGPPGVGKTFVARRLAYLL-TGEKAPQRVNMVQFHQSYSYEDFIQ  243 (459)
T ss_pred             hcccCCHHHHHHHHHHHhcC--CCEEEECCCCCCHHHHHHHHHHHh-cCCcccceeeEEeecccccHHHHhc
Confidence            45678888999999888753  467789999999999999999876 4456788899999998888776554

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

Probab=97.62  E-value=0.00097  Score=61.84  Aligned_cols=58  Identities=24%  Similarity=0.325  Sum_probs=42.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCC
Q 043778          155 EQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFF  216 (405)
Q Consensus       155 ~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i~~~l~~~  216 (405)
                      .+..++.|+|++|+|||||++.+++.. .. ... ..+|+ +....+..+++..|+..++.+
T Consensus        41 ~~~~~~~l~G~~G~GKTtl~~~l~~~l-~~-~~~-~~~~~-~~~~~~~~~~l~~i~~~lG~~   98 (269)
T TIGR03015        41 QREGFILITGEVGAGKTTLIRNLLKRL-DQ-ERV-VAAKL-VNTRVDAEDLLRMVAADFGLE   98 (269)
T ss_pred             cCCCEEEEEcCCCCCHHHHHHHHHHhc-CC-CCe-EEeee-eCCCCCHHHHHHHHHHHcCCC
Confidence            355689999999999999999999865 32 111 22333 233467788999999998765

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.

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=97.40  E-value=0.00019  Score=67.95  Aligned_cols=46  Identities=30%  Similarity=0.458  Sum_probs=38.9

Q ss_pred             cccccchHHHHHHHHHhhc-----CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE-----EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+|+|++..++.|..++..     .....+.++|++|+|||+||+.+.+..
T Consensus         4 ~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~   54 (305)
T TIGR00635         4 AEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEM   54 (305)
T ss_pred             HHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999888862     345668899999999999999999865

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.

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

Probab=97.38  E-value=0.0015  Score=63.15  Aligned_cols=100  Identities=18%  Similarity=0.232  Sum_probs=72.4

Q ss_pred             cccccchHHHHHHHHHhhc----CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHHHHHH
Q 043778          136 LTIVGLESIFDKLWRCLTE----EQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAK  211 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i~~  211 (405)
                      +.+.+|+++++++...|..    +.+.-+.|+|.+|+|||+.++.+...........+ +++|..-...++..++..|++
T Consensus        17 ~~l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~-~~yINc~~~~t~~~i~~~i~~   95 (366)
T COG1474          17 EELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVE-VVYINCLELRTPYQVLSKILN   95 (366)
T ss_pred             ccccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCc-eEEEeeeeCCCHHHHHHHHHH
Confidence            4589999999999987753    34445999999999999999999996622112222 788888888899999999999


Q ss_pred             HhCCCCCCCCcccHHHHHHHHHHHHcc
Q 043778          212 KIGFFNESWESKTVQEKAVDIFNILSK  238 (405)
Q Consensus       212 ~l~~~~~~~~~~~~~~~~~~l~~~L~~  238 (405)
                      +++...  ....+..+.-..+.+.+..
T Consensus        96 ~~~~~p--~~g~~~~~~~~~l~~~~~~  120 (366)
T COG1474          96 KLGKVP--LTGDSSLEILKRLYDNLSK  120 (366)
T ss_pred             HcCCCC--CCCCchHHHHHHHHHHHHh
Confidence            996321  2234455555666666655

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

Probab=97.35  E-value=0.00028  Score=62.49  Aligned_cols=50  Identities=28%  Similarity=0.358  Sum_probs=32.8

Q ss_pred             cccccchHHHHHHHHHhh-----cCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCC
Q 043778          136 LTIVGLESIFDKLWRCLT-----EEQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYF  188 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~-----~~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F  188 (405)
                      +++||-+.-+.++.-.+.     ++.+.-+.+||++|+||||||..+.+..   ...|
T Consensus        24 ~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~---~~~~   78 (233)
T PF05496_consen   24 DEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANEL---GVNF   78 (233)
T ss_dssp             CCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHC---T--E
T ss_pred             HHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhcc---CCCe
Confidence            557887777666544433     2356778899999999999999999965   4555

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.

>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=97.33  E-value=0.00019  Score=57.89  Aligned_cols=23  Identities=26%  Similarity=0.368  Sum_probs=21.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +|.|.|++|+||||+|+.+.+..
T Consensus         1 vI~I~G~~gsGKST~a~~La~~~   23 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAERL   23 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            68999999999999999999854

...

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

Probab=97.29  E-value=0.00069  Score=63.57  Aligned_cols=59  Identities=22%  Similarity=0.243  Sum_probs=39.3

Q ss_pred             CCccccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCC
Q 043778          133 PVALTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKV  199 (405)
Q Consensus       133 ~~~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~  199 (405)
                      ..+..++|-+..   |.+.+..+.+..+.+||++|+||||||+.+.+..   +.+  ..-||.+|..
T Consensus       141 vGQ~hlv~q~gl---lrs~ieq~~ipSmIlWGppG~GKTtlArlia~ts---k~~--SyrfvelSAt  199 (554)
T KOG2028|consen  141 VGQSHLVGQDGL---LRSLIEQNRIPSMILWGPPGTGKTTLARLIASTS---KKH--SYRFVELSAT  199 (554)
T ss_pred             cchhhhcCcchH---HHHHHHcCCCCceEEecCCCCchHHHHHHHHhhc---CCC--ceEEEEEecc
Confidence            334555555333   3344455677888899999999999999999855   333  2445665543

>PRK07261 topology modulation protein; Provisional

Probab=97.28  E-value=0.00058  Score=58.88  Aligned_cols=35  Identities=23%  Similarity=0.422  Sum_probs=25.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhccCCC-CCCCEEEEE
Q 043778          159 IIGLYGMGSVGKTTLLILINNKFLDEP-NYFDVVIWA  194 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~~~~~-~~F~~~~wv  194 (405)
                      .|.|+|++|+||||||+.+.... ... -+.|...|-
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~-~~~~i~~D~~~~~   37 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHY-NCPVLHLDTLHFQ   37 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHh-CCCeEecCCEEec
Confidence            58999999999999999998754 322 234555553

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=97.27  E-value=0.01  Score=61.78  Aligned_cols=65  Identities=17%  Similarity=0.158  Sum_probs=49.2

Q ss_pred             HHHHHHhhcC-CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCC-CCHHHHHHHHHHHhC
Q 043778          146 DKLWRCLTEE-QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKV-VEIEKIQESIAKKIG  214 (405)
Q Consensus       146 ~~l~~~L~~~-~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~-~~~~~l~~~i~~~l~  214 (405)
                      ..|.+.|.+. +.+.+.|.-|+|.|||||+-......    ..=.-+.|.+.++. -++......++..++
T Consensus        25 ~rL~~~L~~~~~~RL~li~APAGfGKttl~aq~~~~~----~~~~~v~Wlslde~dndp~rF~~yLi~al~   91 (894)
T COG2909          25 PRLLDRLRRANDYRLILISAPAGFGKTTLLAQWRELA----ADGAAVAWLSLDESDNDPARFLSYLIAALQ   91 (894)
T ss_pred             HHHHHHHhcCCCceEEEEeCCCCCcHHHHHHHHHHhc----CcccceeEeecCCccCCHHHHHHHHHHHHH
Confidence            4566667665 78999999999999999998887522    12246899998764 567778888888775

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

Probab=97.25  E-value=0.00058  Score=65.02  Aligned_cols=60  Identities=25%  Similarity=0.286  Sum_probs=41.1

Q ss_pred             cCCCCCCcCCCCccccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCC
Q 043778          123 RLPENPVDARPVALTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYF  188 (405)
Q Consensus       123 ~~~~~~~~~~~~~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F  188 (405)
                      +.-|..+++...+.+++|-+..+.   +++..+.+.-...||++|+||||||+.+....   ...|
T Consensus        17 rmRP~~lde~vGQ~HLlg~~~~lr---r~v~~~~l~SmIl~GPPG~GKTTlA~liA~~~---~~~f   76 (436)
T COG2256          17 RLRPKSLDEVVGQEHLLGEGKPLR---RAVEAGHLHSMILWGPPGTGKTTLARLIAGTT---NAAF   76 (436)
T ss_pred             HhCCCCHHHhcChHhhhCCCchHH---HHHhcCCCceeEEECCCCCCHHHHHHHHHHhh---CCce
Confidence            333444555445566666654444   34455677788899999999999999999843   5555

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=97.24  E-value=0.004  Score=64.59  Aligned_cols=46  Identities=33%  Similarity=0.263  Sum_probs=40.0

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.++|.+.....+.+.+.......+.|+|++|+||||||+.+++..
T Consensus       154 ~~iiGqs~~~~~l~~~ia~~~~~~vlL~Gp~GtGKTTLAr~i~~~~  199 (615)
T TIGR02903       154 SEIVGQERAIKALLAKVASPFPQHIILYGPPGVGKTTAARLALEEA  199 (615)
T ss_pred             HhceeCcHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHhh
Confidence            4579999999988888876667789999999999999999998865

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.

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=97.16  E-value=0.0005  Score=65.89  Aligned_cols=46  Identities=30%  Similarity=0.424  Sum_probs=38.7

Q ss_pred             cccccchHHHHHHHHHhhc-----CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE-----EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|++..++.+...+..     .....+.|+|++|+|||+||+.+.+..
T Consensus        25 ~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l   75 (328)
T PRK00080         25 DEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEM   75 (328)
T ss_pred             HHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHh
Confidence            5689999999988877752     245678899999999999999999965

>PRK13342 recombination factor protein RarA; Reviewed

Probab=97.15  E-value=0.0011  Score=65.72  Aligned_cols=46  Identities=28%  Similarity=0.390  Sum_probs=37.1

Q ss_pred             cccccchHHHHH---HHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDK---LWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~---l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++++|.+..+..   +.+++..+....+.++|++|+||||||+.+.+..
T Consensus        12 ~d~vGq~~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKTtLA~~ia~~~   60 (413)
T PRK13342         12 DEVVGQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLARIIAGAT   60 (413)
T ss_pred             HHhcCcHHHhCcchHHHHHHHcCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            457887776555   7777777777788899999999999999999854

>smart00763 AAA_PrkA PrkA AAA domain

Probab=97.10  E-value=0.00079  Score=64.22  Aligned_cols=46  Identities=20%  Similarity=0.334  Sum_probs=40.1

Q ss_pred             cccccchHHHHHHHHHhhc------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|.++.++++++++..      ..-+++.++|++|+||||||..+.+..
T Consensus        51 ~~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l  102 (361)
T smart00763       51 HDFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGL  102 (361)
T ss_pred             hhccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            4789999999999998864      245789999999999999999999866

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

>PRK06696 uridine kinase; Validated

Probab=97.02  E-value=0.0011  Score=59.82  Aligned_cols=41  Identities=15%  Similarity=0.203  Sum_probs=33.7

Q ss_pred             chHHHHHHHHHhhc---CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          141 LESIFDKLWRCLTE---EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       141 r~~~~~~l~~~L~~---~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      |..-+++|.+.+..   +...+|+|.|.+|+||||||+.+....
T Consensus         3 ~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~~l   46 (223)
T PRK06696          3 RKQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAEEI   46 (223)
T ss_pred             HHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHHHH
Confidence            55667777777753   467899999999999999999999855

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

Probab=96.98  E-value=0.042  Score=51.15  Aligned_cols=81  Identities=14%  Similarity=0.108  Sum_probs=57.9

Q ss_pred             cccccch---HHHHHHHHHhhcC---CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCC----CEEEEEEeCCCCCHHHH
Q 043778          136 LTIVGLE---SIFDKLWRCLTEE---QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYF----DVVIWAVASKVVEIEKI  205 (405)
Q Consensus       136 ~~~vGr~---~~~~~l~~~L~~~---~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F----~~~~wv~vs~~~~~~~l  205 (405)
                      +..||..   ..+++|.++|..+   ...-+.|||.+|.|||+++++..... -....=    -.++.|.+...++...+
T Consensus        34 ~rWIgY~~A~~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~h-p~~~d~~~~~~PVv~vq~P~~p~~~~~  112 (302)
T PF05621_consen   34 DRWIGYPRAKEALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLH-PPQSDEDAERIPVVYVQMPPEPDERRF  112 (302)
T ss_pred             CCeecCHHHHHHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHC-CCCCCCCCccccEEEEecCCCCChHHH
Confidence            3445543   3455666666554   34569999999999999999998644 211111    14677788889999999


Q ss_pred             HHHHHHHhCCCC
Q 043778          206 QESIAKKIGFFN  217 (405)
Q Consensus       206 ~~~i~~~l~~~~  217 (405)
                      ...|+.+++.+-
T Consensus       113 Y~~IL~~lgaP~  124 (302)
T PF05621_consen  113 YSAILEALGAPY  124 (302)
T ss_pred             HHHHHHHhCccc
Confidence            999999998764

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

>PF05729 NACHT: NACHT domain

Probab=96.94  E-value=0.0014  Score=55.56  Aligned_cols=41  Identities=20%  Similarity=0.292  Sum_probs=30.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhccCCCCC----CCEEEEEEeCCC
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKFLDEPNY----FDVVIWAVASKV  199 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~----F~~~~wv~vs~~  199 (405)
                      +++.|+|.+|+||||+++.+.... .....    +...+|+.....
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~-~~~~~~~~~~~~~~~~~~~~~   45 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQL-AEEEPPPSKFPYPFFFSLRDI   45 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHH-HhcCcccccceEEEEEeehhh
Confidence            578999999999999999998866 33332    345666665543

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=96.92  E-value=0.0012  Score=63.32  Aligned_cols=46  Identities=17%  Similarity=0.306  Sum_probs=39.9

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|++..++.+.+++..+....+.++|++|+||||+|+.+.+..
T Consensus        15 ~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l   60 (337)
T PRK12402         15 EDILGQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALAREL   60 (337)
T ss_pred             HHhcCCHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            5679999999999998887766678899999999999999998854

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=96.90  E-value=0.0016  Score=58.63  Aligned_cols=54  Identities=15%  Similarity=0.121  Sum_probs=39.4

Q ss_pred             chHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeC
Q 043778          141 LESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVAS  197 (405)
Q Consensus       141 r~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs  197 (405)
                      .+..++.+.+++.......+.|+|++|+|||+||+.+++..   .......++++.+
T Consensus        22 ~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~---~~~~~~~~~i~~~   75 (226)
T TIGR03420        22 NAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAA---EERGKSAIYLPLA   75 (226)
T ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHH---HhcCCcEEEEeHH
Confidence            45567777777655567789999999999999999999865   2233345666543

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.

>PRK06547 hypothetical protein; Provisional

Probab=96.87  E-value=0.0017  Score=55.96  Aligned_cols=35  Identities=20%  Similarity=0.095  Sum_probs=28.3

Q ss_pred             HHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          147 KLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       147 ~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+...+......+|+|.|++|+||||||..+....
T Consensus         5 ~~~~~~~~~~~~~i~i~G~~GsGKTt~a~~l~~~~   39 (172)
T PRK06547          5 LIAARLCGGGMITVLIDGRSGSGKTTLAGALAART   39 (172)
T ss_pred             HHHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            34444555678899999999999999999998854

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=96.83  E-value=0.005  Score=58.55  Aligned_cols=46  Identities=26%  Similarity=0.348  Sum_probs=40.2

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|++..++.+..++..+....+.++|++|+||||+|+.+.+..
T Consensus        17 ~~~~g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l   62 (319)
T PRK00440         17 DEIVGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALAREL   62 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            4588999999999999987766668999999999999999998854

>PLN03025 replication factor C subunit; Provisional

Probab=96.81  E-value=0.0039  Score=59.45  Aligned_cols=46  Identities=24%  Similarity=0.274  Sum_probs=38.3

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|.+..++.|..++..++..-+.++|++|+||||+|..+.+..
T Consensus        13 ~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l   58 (319)
T PLN03025         13 DDIVGNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHEL   58 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            4578988888888888777666667799999999999999998854

>CHL00095 clpC Clp protease ATP binding subunit

Probab=96.78  E-value=0.0015  Score=70.19  Aligned_cols=46  Identities=20%  Similarity=0.229  Sum_probs=39.5

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++||+.+++.+++.|......-+.++|++|+|||++|..+....
T Consensus       179 ~~~igr~~ei~~~~~~L~r~~~~n~lL~G~pGvGKTal~~~la~~i  224 (821)
T CHL00095        179 DPVIGREKEIERVIQILGRRTKNNPILIGEPGVGKTAIAEGLAQRI  224 (821)
T ss_pred             CCCCCcHHHHHHHHHHHcccccCCeEEECCCCCCHHHHHHHHHHHH
Confidence            4579999999999999987655566799999999999999988754

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=96.76  E-value=0.0098  Score=62.61  Aligned_cols=80  Identities=15%  Similarity=0.102  Sum_probs=57.3

Q ss_pred             ccccccchHHHHHHHHHhhc----CC-ceEEEEEcCCCCcHHHHHHHHHhhccCC--CCCCC--EEEEEEeCCCCCHHHH
Q 043778          135 ALTIVGLESIFDKLWRCLTE----EQ-VGIIGLYGMGSVGKTTLLILINNKFLDE--PNYFD--VVIWAVASKVVEIEKI  205 (405)
Q Consensus       135 ~~~~vGr~~~~~~l~~~L~~----~~-~~vi~I~G~~GiGKTtLA~~v~~~~~~~--~~~F~--~~~wv~vs~~~~~~~l  205 (405)
                      ++.++||+++.++|...|..    .+ ..++-|.|++|.|||+.++.|.+.....  .....  .+++|....-.+...+
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            46789999999999988753    23 3567899999999999999998754111  11122  3456655555677788


Q ss_pred             HHHHHHHhC
Q 043778          206 QESIAKKIG  214 (405)
Q Consensus       206 ~~~i~~~l~  214 (405)
                      +..|..+|.
T Consensus       834 YqvI~qqL~  842 (1164)
T PTZ00112        834 YQVLYKQLF  842 (1164)
T ss_pred             HHHHHHHHc
Confidence            888888884

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=96.74  E-value=0.002  Score=64.77  Aligned_cols=46  Identities=22%  Similarity=0.301  Sum_probs=40.0

Q ss_pred             cccccchHHHHHHHHHhh------cCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLT------EEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~------~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|.++.++++++.|.      +..-+++.++|++|+||||||+.+.+-.
T Consensus        76 ~d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~l  127 (644)
T PRK15455         76 EEFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSLM  127 (644)
T ss_pred             hcccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHHH
Confidence            457999999999999883      3456799999999999999999999855

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=96.73  E-value=0.0018  Score=69.51  Aligned_cols=46  Identities=17%  Similarity=0.185  Sum_probs=40.0

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.++||+.++.+++..|......-+.++|++|+||||+|..+.+..
T Consensus       187 d~~iGr~~ei~~~i~~l~r~~~~n~lLvG~pGvGKTal~~~La~~i  232 (852)
T TIGR03345       187 DPVLGRDDEIRQMIDILLRRRQNNPILTGEAGVGKTAVVEGLALRI  232 (852)
T ss_pred             CcccCCHHHHHHHHHHHhcCCcCceeEECCCCCCHHHHHHHHHHHH
Confidence            4589999999999999987766667799999999999999998743

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.

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=96.71  E-value=0.0014  Score=57.78  Aligned_cols=23  Identities=39%  Similarity=0.517  Sum_probs=21.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ||+|.|++|+||||||+.+....
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~L   23 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQIL   23 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            79999999999999999999866

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 ....

>PTZ00301 uridine kinase; Provisional

Probab=96.70  E-value=0.0021  Score=57.22  Aligned_cols=25  Identities=28%  Similarity=0.484  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..+|+|.|.+|+||||||+.+.+..
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~~l   27 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVSEL   27 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHHHH
Confidence            4689999999999999999998744

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.69  E-value=0.048  Score=54.79  Aligned_cols=26  Identities=35%  Similarity=0.580  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|+|+|++|+||||++..+....
T Consensus       349 ~G~vIaLVGPtGvGKTTtaakLAa~l  374 (559)
T PRK12727        349 RGGVIALVGPTGAGKTTTIAKLAQRF  374 (559)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHH
Confidence            35799999999999999998887644

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

Probab=96.68  E-value=0.002  Score=65.65  Aligned_cols=50  Identities=28%  Similarity=0.332  Sum_probs=41.6

Q ss_pred             cccccchHHHHHHHHHhhc----C--CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCC
Q 043778          136 LTIVGLESIFDKLWRCLTE----E--QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYF  188 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~----~--~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F  188 (405)
                      .+.+|.+...++|++.|.-    +  +-.++++||++|+|||.|++.|....   .+.|
T Consensus       323 ~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al---~Rkf  378 (782)
T COG0466         323 KDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKAL---GRKF  378 (782)
T ss_pred             ccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHh---CCCE
Confidence            5679999999999998741    2  45799999999999999999999854   5666

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

Probab=96.66  E-value=0.015  Score=55.26  Aligned_cols=74  Identities=22%  Similarity=0.256  Sum_probs=62.8

Q ss_pred             ccccccchHHHHHHHHHhhcCC---ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHHHHHH
Q 043778          135 ALTIVGLESIFDKLWRCLTEEQ---VGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAK  211 (405)
Q Consensus       135 ~~~~vGr~~~~~~l~~~L~~~~---~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i~~  211 (405)
                      .+.+.+|+..+..+..++-+..   +..|-|.|-+|.|||.+.+.+++..   .   -..+|++.-..++...++..|+.
T Consensus         5 ~~~v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~---n---~~~vw~n~~ecft~~~lle~IL~   78 (438)
T KOG2543|consen    5 EPNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKL---N---LENVWLNCVECFTYAILLEKILN   78 (438)
T ss_pred             ccCccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhc---C---CcceeeehHHhccHHHHHHHHHH
Confidence            3678899999999998887642   4566899999999999999999855   2   24689999999999999999999


Q ss_pred             HhC
Q 043778          212 KIG  214 (405)
Q Consensus       212 ~l~  214 (405)
                      +++
T Consensus        79 ~~~   81 (438)
T KOG2543|consen   79 KSQ   81 (438)
T ss_pred             Hhc
Confidence            985

>PRK08233 hypothetical protein; Provisional

Probab=96.63  E-value=0.0018  Score=56.15  Aligned_cols=25  Identities=32%  Similarity=0.379  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..+|+|.|.+|+||||||..+....
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~l   27 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHKL   27 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhC
Confidence            4689999999999999999999854

>PRK04195 replication factor C large subunit; Provisional

Probab=96.63  E-value=0.0019  Score=65.27  Aligned_cols=46  Identities=28%  Similarity=0.390  Sum_probs=39.6

Q ss_pred             cccccchHHHHHHHHHhhc---C-CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE---E-QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~---~-~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|.+...+.+.+|+..   + ..+.+.|+|++|+||||+|+.+.++.
T Consensus        14 ~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el   63 (482)
T PRK04195         14 SDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDY   63 (482)
T ss_pred             HHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHc
Confidence            5689999999999998864   2 26789999999999999999999855

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

Probab=96.63  E-value=0.0025  Score=67.73  Aligned_cols=46  Identities=20%  Similarity=0.209  Sum_probs=39.6

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.++||+.++..+++.|......-+.++|++|+|||++|+.+.+..
T Consensus       182 ~~~igr~~ei~~~~~~L~~~~~~n~lL~G~pG~GKT~l~~~la~~~  227 (731)
T TIGR02639       182 DPLIGREDELERTIQVLCRRKKNNPLLVGEPGVGKTAIAEGLALRI  227 (731)
T ss_pred             CcccCcHHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999887655567799999999999999998753

>PHA00729 NTP-binding motif containing protein

Probab=96.62  E-value=0.003  Score=56.46  Aligned_cols=35  Identities=17%  Similarity=0.244  Sum_probs=28.1

Q ss_pred             HHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          147 KLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       147 ~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++++.+...+...|.|.|.+|+||||||..+.+..
T Consensus         7 ~~~~~l~~~~f~nIlItG~pGvGKT~LA~aLa~~l   41 (226)
T PHA00729          7 KIVSAYNNNGFVSAVIFGKQGSGKTTYALKVARDV   41 (226)
T ss_pred             HHHHHHhcCCeEEEEEECCCCCCHHHHHHHHHHHH
Confidence            34555555566789999999999999999998853

>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=96.60  E-value=0.0018  Score=52.43  Aligned_cols=21  Identities=33%  Similarity=0.572  Sum_probs=19.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 043778          160 IGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~  180 (405)
                      |.|.|++|+||||+|+.+...
T Consensus         1 I~i~G~~GsGKtTia~~L~~~   21 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAER   21 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHH
Confidence            789999999999999999984

...

>PRK05480 uridine/cytidine kinase; Provisional

Probab=96.59  E-value=0.002  Score=57.45  Aligned_cols=26  Identities=35%  Similarity=0.415  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +..+|+|.|.+|+|||||++.+....
T Consensus         5 ~~~iI~I~G~sGsGKTTl~~~l~~~l   30 (209)
T PRK05480          5 KPIIIGIAGGSGSGKTTVASTIYEEL   30 (209)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            56799999999999999999999844

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

Probab=96.59  E-value=0.0027  Score=66.73  Aligned_cols=46  Identities=39%  Similarity=0.554  Sum_probs=35.7

Q ss_pred             cccccchHHHH---HHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFD---KLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~---~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++++|.+..+.   .+.+.+..+....+.++|++|+||||||+.+++..
T Consensus        28 dd~vGQe~ii~~~~~L~~~i~~~~~~slLL~GPpGtGKTTLA~aIA~~~   76 (725)
T PRK13341         28 EEFVGQDHILGEGRLLRRAIKADRVGSLILYGPPGVGKTTLARIIANHT   76 (725)
T ss_pred             HHhcCcHHHhhhhHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            45788776653   45566666667778899999999999999999854

>PRK10865 protein disaggregation chaperone; Provisional

Probab=96.59  E-value=0.0026  Score=68.48  Aligned_cols=46  Identities=17%  Similarity=0.226  Sum_probs=39.9

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.++||+.++.++++.|......-+.++|++|+|||+||..+....
T Consensus       178 ~~vigr~~ei~~~i~iL~r~~~~n~lL~G~pGvGKT~l~~~la~~i  223 (857)
T PRK10865        178 DPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRI  223 (857)
T ss_pred             CcCCCCHHHHHHHHHHHhcCCcCceEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999999999987666667799999999999999998844

>PF13173 AAA_14: AAA domain

Probab=96.59  E-value=0.003  Score=51.57  Aligned_cols=39  Identities=28%  Similarity=0.240  Sum_probs=30.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCC
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKV  199 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~  199 (405)
                      -+++.|.|+.|+|||||+++++.+. .   ....++|++..+.
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~-~---~~~~~~yi~~~~~   40 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDL-L---PPENILYINFDDP   40 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHh-c---ccccceeeccCCH
Confidence            4689999999999999999999865 2   3355677766554

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.54  E-value=0.0027  Score=52.98  Aligned_cols=25  Identities=40%  Similarity=0.433  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..-|.|.|++|+|||||++.+.+..
T Consensus         5 ~mki~ITG~PGvGKtTl~~ki~e~L   29 (179)
T COG1618           5 AMKIFITGRPGVGKTTLVLKIAEKL   29 (179)
T ss_pred             ceEEEEeCCCCccHHHHHHHHHHHH
Confidence            3468999999999999999999876

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=96.52  E-value=0.089  Score=55.03  Aligned_cols=46  Identities=26%  Similarity=0.311  Sum_probs=39.1

Q ss_pred             cccccchHHHHHHHHHhhcCC-ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQ-VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +++||.+..++.|.+++..+. .+.+.++|..|+||||+|+.+.+..
T Consensus        16 dEVIGQe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAriLAKaL   62 (830)
T PRK07003         16 ASLVGQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKAL   62 (830)
T ss_pred             HHHcCcHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            568999999999999998765 4567899999999999999887744

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=96.51  E-value=0.0033  Score=61.10  Aligned_cols=46  Identities=26%  Similarity=0.265  Sum_probs=37.5

Q ss_pred             cccccchHHHHHHHHHhhc-------------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE-------------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +++.|++..+++|.+.+..             ...+-+.++|++|+|||+||+.+++..
T Consensus       122 ~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l  180 (364)
T TIGR01242       122 EDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHET  180 (364)
T ss_pred             HHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhC
Confidence            4678999999998887642             124569999999999999999999955

Many proteins may score above the trusted cutoff because an internal

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

Probab=96.50  E-value=0.03  Score=57.30  Aligned_cols=47  Identities=21%  Similarity=0.299  Sum_probs=40.1

Q ss_pred             ccccccchHHHHHHHHHhhc----C--CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          135 ALTIVGLESIFDKLWRCLTE----E--QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       135 ~~~~vGr~~~~~~l~~~L~~----~--~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .++.+|+++-++++++.+--    +  +-.+++.+|++|||||.+|+.|....
T Consensus       410 deDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~AL  462 (906)
T KOG2004|consen  410 DEDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARAL  462 (906)
T ss_pred             cccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHh
Confidence            35679999999999998742    2  67899999999999999999999855

>PRK05541 adenylylsulfate kinase; Provisional

Probab=96.50  E-value=0.0033  Score=54.30  Aligned_cols=36  Identities=22%  Similarity=0.324  Sum_probs=28.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      ...+|.+.|++|+||||+|+.+++..   ...+...+++
T Consensus         6 ~~~~I~i~G~~GsGKst~a~~l~~~l---~~~~~~~~~~   41 (176)
T PRK05541          6 NGYVIWITGLAGSGKTTIAKALYERL---KLKYSNVIYL   41 (176)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHH---HHcCCcEEEE
Confidence            45699999999999999999999865   4455555555

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=96.47  E-value=0.009  Score=52.87  Aligned_cols=26  Identities=35%  Similarity=0.477  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+.+|||.|.+|+||||+|+.+....
T Consensus         7 ~~iiIgIaG~SgSGKTTva~~l~~~~   32 (218)
T COG0572           7 KVIIIGIAGGSGSGKTTVAKELSEQL   32 (218)
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            35799999999999999999999955

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=96.46  E-value=0.0034  Score=61.54  Aligned_cols=46  Identities=26%  Similarity=0.258  Sum_probs=37.5

Q ss_pred             cccccchHHHHHHHHHhhc-------------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE-------------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +++.|++..++++.+.+..             ..++-|.++|++|+|||++|+.+++..
T Consensus       131 ~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~  189 (389)
T PRK03992        131 EDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHET  189 (389)
T ss_pred             HHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHh
Confidence            4578999999988876632             135678999999999999999999855

>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=96.46  E-value=0.0027  Score=52.61  Aligned_cols=23  Identities=30%  Similarity=0.408  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +|.+.|++|+||||+|+.+....
T Consensus         1 lii~~G~pgsGKSt~a~~l~~~~   23 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLAKRL   23 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHS
T ss_pred             CEEEECCCCCCHHHHHHHHHHHC
Confidence            68899999999999999999754

...

>TIGR00235 udk uridine kinase

Probab=96.46  E-value=0.0025  Score=56.72  Aligned_cols=26  Identities=35%  Similarity=0.359  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|+|+|++|+|||||++.+....
T Consensus         5 ~g~vi~I~G~sGsGKSTl~~~l~~~l   30 (207)
T TIGR00235         5 KGIIIGIGGGSGSGKTTVARKIYEQL   30 (207)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHHh
Confidence            45799999999999999999999855

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>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=96.45  E-value=0.0026  Score=45.75  Aligned_cols=22  Identities=27%  Similarity=0.416  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 043778          159 IIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      +|+|.|.+|+||||+++.+.+.
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~   22 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQ   22 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5789999999999999999985

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.

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.45  E-value=0.0043  Score=62.17  Aligned_cols=46  Identities=17%  Similarity=0.281  Sum_probs=38.4

Q ss_pred             cccccchHHHHHHHHHhhcCCc-eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQV-GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++++|.+.....|.+.+..+.+ +.+.++|++|+||||+|+.+.+..
T Consensus        14 ~divGq~~i~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~~lA~~l   60 (472)
T PRK14962         14 SEVVGQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVARILAKSL   60 (472)
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            5689988888888888877655 568999999999999999998754

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=96.43  E-value=0.0043  Score=59.01  Aligned_cols=46  Identities=11%  Similarity=-0.007  Sum_probs=39.4

Q ss_pred             cccccchHHHHHHHHHhhcCC-ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQ-VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|.+...+.+..++..+. ..++.++|++|+||||+|+.+++..
T Consensus        21 ~~~~~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~   67 (316)
T PHA02544         21 DECILPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEV   67 (316)
T ss_pred             HHhcCcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHh
Confidence            567999999999999987764 5677789999999999999999854

>PRK07667 uridine kinase; Provisional

Probab=96.43  E-value=0.0043  Score=54.57  Aligned_cols=37  Identities=24%  Similarity=0.429  Sum_probs=28.7

Q ss_pred             HHHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          145 FDKLWRCLTE--EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       145 ~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+.+.+.+..  +...+|+|-|.+|+||||+|..+....
T Consensus         3 ~~~~~~~~~~~~~~~~iIgI~G~~gsGKStla~~L~~~l   41 (193)
T PRK07667          3 TNELINIMKKHKENRFILGIDGLSRSGKTTFVANLKENM   41 (193)
T ss_pred             HHHHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            3455555543  345799999999999999999999855

>PRK06762 hypothetical protein; Provisional

Probab=96.42  E-value=0.0029  Score=54.06  Aligned_cols=25  Identities=24%  Similarity=0.377  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..+|.|.|++|+||||+|+.+....
T Consensus         2 ~~li~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          2 TTLIIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999999843

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=96.40  E-value=0.0058  Score=55.33  Aligned_cols=27  Identities=26%  Similarity=0.454  Sum_probs=24.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          155 EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       155 ~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +...+|+|.|++|+|||||++.+....
T Consensus        31 ~~~~iigi~G~~GsGKTTl~~~L~~~l   57 (229)
T PRK09270         31 QRRTIVGIAGPPGAGKSTLAEFLEALL   57 (229)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            367899999999999999999999855

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.39  E-value=0.0052  Score=59.70  Aligned_cols=46  Identities=26%  Similarity=0.289  Sum_probs=39.5

Q ss_pred             cccccchHHHHHHHHHhhcCC-ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQ-VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|-+..++.+.+.+..+. .+.+.++|+.|+||||+|+.+.+..
T Consensus        16 ~~iiGq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~la~~l   62 (363)
T PRK14961         16 RDIIGQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSL   62 (363)
T ss_pred             hhccChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHHHHHHHh
Confidence            568999999999998887764 4678999999999999999998754

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=96.39  E-value=0.0055  Score=56.67  Aligned_cols=45  Identities=27%  Similarity=0.358  Sum_probs=32.1

Q ss_pred             ccccchHHHHHHHH---Hhh-------c-----CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          137 TIVGLESIFDKLWR---CLT-------E-----EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       137 ~~vGr~~~~~~l~~---~L~-------~-----~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .++|.+..++.|.+   ++.       .     +...-+.++|++|+||||+|+.+++..
T Consensus         7 ~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l   66 (261)
T TIGR02881         7 RMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLF   66 (261)
T ss_pred             HhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHH
Confidence            47888776665543   321       0     134567899999999999999998753

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.

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

Probab=96.37  E-value=0.0031  Score=51.24  Aligned_cols=22  Identities=36%  Similarity=0.327  Sum_probs=20.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043778          160 IGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      |.|+|++|+||||+|+.+.+..
T Consensus         1 ill~G~~G~GKT~l~~~la~~l   22 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYL   22 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHT
T ss_pred             CEEECcCCCCeeHHHHHHHhhc
Confidence            5789999999999999999965

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 ....

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=96.36  E-value=0.017  Score=52.38  Aligned_cols=61  Identities=21%  Similarity=0.214  Sum_probs=37.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEE--e-----CCCCCHHHH--HHHHHHHhCCCC
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAV--A-----SKVVEIEKI--QESIAKKIGFFN  217 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~--v-----s~~~~~~~l--~~~i~~~l~~~~  217 (405)
                      .+.+|.++||+|+||||+.+.++.+. ..+..-..++=..  |     .-+.++++.  .+....+.+..+
T Consensus        18 ~p~~ilVvGMAGSGKTTF~QrL~~hl-~~~~~ppYviNLDPAv~~vpy~aniDIRDtVkYkEvMkqY~LGP   87 (366)
T KOG1532|consen   18 RPVIILVVGMAGSGKTTFMQRLNSHL-HAKKTPPYVINLDPAVRNVPYPANIDIRDTVKYKEVMKQYQLGP   87 (366)
T ss_pred             CCcEEEEEecCCCCchhHHHHHHHHH-hhccCCCeEEeCCHHHhcCCCccCCchhhhhhHHHHHHHhCCCC
Confidence            46789999999999999999999876 3222212222111  1     123345543  667777765543

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=96.35  E-value=0.026  Score=52.74  Aligned_cols=27  Identities=26%  Similarity=0.294  Sum_probs=22.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          155 EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       155 ~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..+.+|+|.|..|+||||||+.+..-.
T Consensus        60 ~~p~IIGIaG~~GSGKSTlar~L~~ll   86 (290)
T TIGR00554        60 KIPYIISIAGSVAVGKSTTARILQALL   86 (290)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            357899999999999999998876533

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.

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=96.35  E-value=0.0053  Score=49.92  Aligned_cols=38  Identities=24%  Similarity=0.183  Sum_probs=27.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCC
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASK  198 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~  198 (405)
                      ..+.|+|++|+||||+++.+....   .......+++..+.
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~---~~~~~~~~~~~~~~   40 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALAREL---GPPGGGVIYIDGED   40 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhcc---CCCCCCEEEECCEE
Confidence            578999999999999999999855   22222455554433

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.

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=96.33  E-value=0.0048  Score=66.65  Aligned_cols=46  Identities=17%  Similarity=0.237  Sum_probs=39.4

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.++||+.++.+++..|......-+.++|++|+|||++|..+....
T Consensus       173 ~~~igr~~ei~~~~~~l~r~~~~n~lL~G~pGvGKT~l~~~la~~i  218 (852)
T TIGR03346       173 DPVIGRDEEIRRTIQVLSRRTKNNPVLIGEPGVGKTAIVEGLAQRI  218 (852)
T ss_pred             CcCCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHH
Confidence            4589999999999999987655666789999999999999988743

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.

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=96.32  E-value=0.01  Score=52.82  Aligned_cols=48  Identities=17%  Similarity=0.274  Sum_probs=36.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHH
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQE  207 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~  207 (405)
                      .-+++.|+|++|+|||+|+.++....   ...-..++|++... ++...+.+
T Consensus        11 ~g~i~~i~G~~GsGKT~l~~~~~~~~---~~~g~~v~yi~~e~-~~~~rl~~   58 (209)
T TIGR02237        11 RGTITQIYGPPGSGKTNICMILAVNA---ARQGKKVVYIDTEG-LSPERFKQ   58 (209)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH---HhCCCeEEEEECCC-CCHHHHHH
Confidence            46799999999999999999987654   23346889998865 66655544

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

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

Probab=96.30  E-value=0.0069  Score=55.29  Aligned_cols=46  Identities=28%  Similarity=0.424  Sum_probs=37.7

Q ss_pred             cccccchHHHHHHHHHhhc-----CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE-----EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|-+.-+++|.=.+..     +.+--+.++|++|.||||||.-+.+..
T Consensus        26 ~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Em   76 (332)
T COG2255          26 DEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANEL   76 (332)
T ss_pred             HHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHh
Confidence            4689988887777666642     367789999999999999999999965

>PRK03839 putative kinase; Provisional

Probab=96.25  E-value=0.0038  Score=54.17  Aligned_cols=23  Identities=43%  Similarity=0.618  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .|.|.|++|+||||+++.+.+..
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~   24 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKL   24 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58899999999999999999854

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=96.24  E-value=0.0041  Score=54.18  Aligned_cols=26  Identities=31%  Similarity=0.259  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +..+|.|+|++|+||||+|+.+....
T Consensus         2 ~~~ii~i~G~~GsGKsTl~~~l~~~~   27 (188)
T TIGR01360         2 KCKIIFIVGGPGSGKGTQCEKIVEKY   27 (188)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            35789999999999999999998743

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.

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

Probab=96.22  E-value=0.0072  Score=53.54  Aligned_cols=69  Identities=23%  Similarity=0.245  Sum_probs=50.3

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHH
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKI  205 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l  205 (405)
                      .++||-++.++.+.-...+++..-+.|.||+|+||||-+..+.+.. --...-+.++-...|+...+.-+
T Consensus        27 ~dIVGNe~tv~rl~via~~gnmP~liisGpPG~GKTTsi~~LAr~L-LG~~~ke~vLELNASdeRGIDvV   95 (333)
T KOG0991|consen   27 QDIVGNEDTVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLAREL-LGDSYKEAVLELNASDERGIDVV   95 (333)
T ss_pred             HHhhCCHHHHHHHHHHHHcCCCCceEeeCCCCCchhhHHHHHHHHH-hChhhhhHhhhccCccccccHHH
Confidence            4689999999988887788888889999999999999777777644 11223356666666666554433

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

Probab=96.22  E-value=0.0057  Score=64.67  Aligned_cols=45  Identities=20%  Similarity=0.214  Sum_probs=38.4

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      +.++||+.++.++++.|......-+.++|++|+|||++|+.+.+.
T Consensus       186 ~~liGR~~ei~~~i~iL~r~~~~n~LLvGppGvGKT~lae~la~~  230 (758)
T PRK11034        186 DPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWR  230 (758)
T ss_pred             CcCcCCCHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHH
Confidence            458999999999999988754445568999999999999999874

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=96.21  E-value=0.0034  Score=55.40  Aligned_cols=22  Identities=41%  Similarity=0.480  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 043778          159 IIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      +|+|.|++|+||||||+.+...
T Consensus         1 iigi~G~~GsGKSTl~~~l~~~   22 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIEQ   22 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999999874

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.

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=96.21  E-value=0.017  Score=52.33  Aligned_cols=51  Identities=16%  Similarity=0.153  Sum_probs=37.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCC----CCEEEEEEeCCCCCHHHHHH
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNY----FDVVIWAVASKVVEIEKIQE  207 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~----F~~~~wv~vs~~~~~~~l~~  207 (405)
                      .-.++.|+|.+|+|||+||.++.-.. .....    ...++|++....++...+..
T Consensus        18 ~g~i~~i~G~~GsGKT~l~~~l~~~~-~~~~~~~g~~~~viyi~~e~~~~~~rl~~   72 (235)
T cd01123          18 TGSITEIFGEFGSGKTQLCHQLAVTV-QLPIELGGLEGKAVYIDTEGTFRPERLVQ   72 (235)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHe-eCccccCCCCccEEEEeCCCCcCHHHHHH
Confidence            45799999999999999999997533 21221    36889999877777655443

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 .

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.20  E-value=0.0055  Score=61.88  Aligned_cols=46  Identities=28%  Similarity=0.238  Sum_probs=39.1

Q ss_pred             cccccchHHHHHHHHHhhcCC-ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQ-VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++++|-+...+.|.+.+..+. .+.+.++|++|+||||+|+.+.+..
T Consensus        14 ~dvvGq~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~lA~~l   60 (504)
T PRK14963         14 DEVVGQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAV   60 (504)
T ss_pred             HHhcChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            468999988888888887764 4577999999999999999998765

>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=96.19  E-value=0.017  Score=50.81  Aligned_cols=57  Identities=21%  Similarity=0.195  Sum_probs=37.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCC-CCCHHHHHHHHHHHhCCC
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASK-VVEIEKIQESIAKKIGFF  216 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~-~~~~~~l~~~i~~~l~~~  216 (405)
                      +++|.++|+.|+||||.+-.+.... ..+  -..+..++... .....+=++...+.++.+
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~-~~~--~~~v~lis~D~~R~ga~eQL~~~a~~l~vp   58 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARL-KLK--GKKVALISADTYRIGAVEQLKTYAEILGVP   58 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHH-HHT--T--EEEEEESTSSTHHHHHHHHHHHHHTEE
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHH-hhc--cccceeecCCCCCccHHHHHHHHHHHhccc
Confidence            4799999999999999666665544 222  33566666543 234555677788888754

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 ....

>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=96.18  E-value=0.0035  Score=56.39  Aligned_cols=23  Identities=35%  Similarity=0.514  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +|+|.|.+|+||||||+.+....
T Consensus         1 IigI~G~sGSGKTTla~~L~~~l   23 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQALL   23 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHHH
Confidence            58999999999999999999855

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>PRK08727 hypothetical protein; Validated

Probab=96.17  E-value=0.013  Score=53.15  Aligned_cols=56  Identities=13%  Similarity=0.108  Sum_probs=35.7

Q ss_pred             ccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeC
Q 043778          139 VGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVAS  197 (405)
Q Consensus       139 vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs  197 (405)
                      +|-......+.....+.....+.|+|.+|+|||.|++.+.+.. .  .....+.|+++.
T Consensus        23 ~~~~n~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~a~~~~~-~--~~~~~~~y~~~~   78 (233)
T PRK08727         23 AAPDGLLAQLQALAAGQSSDWLYLSGPAGTGKTHLALALCAAA-E--QAGRSSAYLPLQ   78 (233)
T ss_pred             CCcHHHHHHHHHHHhccCCCeEEEECCCCCCHHHHHHHHHHHH-H--HcCCcEEEEeHH
Confidence            3333344444333333344569999999999999999998865 2  223355677643

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=96.15  E-value=0.011  Score=53.29  Aligned_cols=43  Identities=16%  Similarity=0.189  Sum_probs=29.6

Q ss_pred             ccchHH-HHHHHHHhhc-CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          139 VGLESI-FDKLWRCLTE-EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       139 vGr~~~-~~~l~~~L~~-~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .|.+.. ...+.++... .....+.|+|.+|+|||+||+.+++..
T Consensus        22 ~~~~~~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~La~ai~~~~   66 (227)
T PRK08903         22 AGENAELVARLRELAAGPVADRFFYLWGEAGSGRSHLLQALVADA   66 (227)
T ss_pred             cCCcHHHHHHHHHHHhccCCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            354433 3344444332 345678899999999999999999854

>PRK08084 DNA replication initiation factor; Provisional

Probab=96.14  E-value=0.017  Score=52.57  Aligned_cols=60  Identities=20%  Similarity=0.215  Sum_probs=38.6

Q ss_pred             cccccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCC
Q 043778          136 LTIVGLES-IFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASK  198 (405)
Q Consensus       136 ~~~vGr~~-~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~  198 (405)
                      +.++|.+. ....+.++....+...+.|+|++|+|||+|++.+.+.. .  ..-..+.|+++..
T Consensus        23 ~f~~~~n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~-~--~~~~~v~y~~~~~   83 (235)
T PRK08084         23 SFYPGDNDSLLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAEL-S--QRGRAVGYVPLDK   83 (235)
T ss_pred             ccccCccHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHH-H--hCCCeEEEEEHHH
Confidence            44456333 34444444444455688999999999999999999865 2  2223556776543

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=96.12  E-value=0.026  Score=53.62  Aligned_cols=69  Identities=22%  Similarity=0.364  Sum_probs=49.7

Q ss_pred             cccccchHHHHHHHHHhhcCC-ceEEEEEcCCCCcHHHHHHHHHhhcc---CCCCCCCEEEEEEe-CCCCCHHH
Q 043778          136 LTIVGLESIFDKLWRCLTEEQ-VGIIGLYGMGSVGKTTLLILINNKFL---DEPNYFDVVIWAVA-SKVVEIEK  204 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLA~~v~~~~~---~~~~~F~~~~wv~v-s~~~~~~~  204 (405)
                      .+++|-+...+.+.+.+..+. .+.+.++|+.|+||||+|+.++....   ....|+|...|... +......+
T Consensus         4 ~~i~g~~~~~~~l~~~~~~~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~   77 (313)
T PRK05564          4 HTIIGHENIKNRIKNSIIKNRFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDD   77 (313)
T ss_pred             hhccCcHHHHHHHHHHHHcCCCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHH
Confidence            457898888999999997764 56889999999999999999987431   12456676666542 33344444

>TIGR00763 lon ATP-dependent protease La

Probab=96.11  E-value=0.026  Score=60.48  Aligned_cols=46  Identities=26%  Similarity=0.289  Sum_probs=36.9

Q ss_pred             cccccchHHHHHHHHHhhc------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|.+..++.+.+++..      ....++.++|++|+|||++|+.+.+..
T Consensus       320 ~~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~l  371 (775)
T TIGR00763       320 EDHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKAL  371 (775)
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            4578988888888876541      134589999999999999999999854

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.

>PRK05439 pantothenate kinase; Provisional

Probab=96.10  E-value=0.052  Score=51.18  Aligned_cols=26  Identities=35%  Similarity=0.374  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..-+|+|.|.+|+||||+|+.+....
T Consensus        85 ~~~iIgIaG~~gsGKSTla~~L~~~l  110 (311)
T PRK05439         85 VPFIIGIAGSVAVGKSTTARLLQALL  110 (311)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            57799999999999999999988744

>PRK04040 adenylate kinase; Provisional

Probab=96.07  E-value=0.0056  Score=53.56  Aligned_cols=25  Identities=32%  Similarity=0.424  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..+|+|+|++|+||||+++.+....
T Consensus         2 ~~~i~v~G~pG~GKtt~~~~l~~~l   26 (188)
T PRK04040          2 MKVVVVTGVPGVGKTTVLNKALEKL   26 (188)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHh
Confidence            3689999999999999999999854

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.07  E-value=0.0087  Score=60.79  Aligned_cols=46  Identities=24%  Similarity=0.288  Sum_probs=39.0

Q ss_pred             cccccchHHHHHHHHHhhcCC-ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQ-VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|-+..++.|.+.+..+. .+.+.++|+.|+||||+|+.+.+..
T Consensus        16 ~diiGq~~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L   62 (546)
T PRK14957         16 AEVAGQQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKCL   62 (546)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            468999999999999888764 4568899999999999999998744

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

Probab=96.06  E-value=0.0045  Score=53.97  Aligned_cols=23  Identities=39%  Similarity=0.650  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +|+|.|.+|+||||||+.+....
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~~   23 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRIL   23 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            58999999999999999999853

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.

>PRK06893 DNA replication initiation factor; Validated

Probab=96.06  E-value=0.016  Score=52.42  Aligned_cols=39  Identities=26%  Similarity=0.291  Sum_probs=29.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeC
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVAS  197 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs  197 (405)
                      ....+.++|++|+|||+|++.+.+..   ......+.|+++.
T Consensus        38 ~~~~l~l~G~~G~GKThL~~ai~~~~---~~~~~~~~y~~~~   76 (229)
T PRK06893         38 QQPFFYIWGGKSSGKSHLLKAVSNHY---LLNQRTAIYIPLS   76 (229)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHH---HHcCCCeEEeeHH
Confidence            34578999999999999999999965   2223355677654

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=96.05  E-value=0.0089  Score=61.05  Aligned_cols=46  Identities=20%  Similarity=0.257  Sum_probs=39.5

Q ss_pred             cccccchHHHHHHHHHhhcCC-ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQ-VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|.+..++.+.+.+..+. .+.+.++|+.|+||||+|+.+.+..
T Consensus        16 ~dIIGQe~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lAk~L   62 (605)
T PRK05896         16 KQIIGQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAI   62 (605)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            568999999999999887654 5678899999999999999998754

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.03  E-value=0.009  Score=59.36  Aligned_cols=46  Identities=17%  Similarity=0.314  Sum_probs=39.6

Q ss_pred             cccccchHHHHHHHHHhhcCCc-eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQV-GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|-+..+..|..++..+.+ +.+.++|+.|+||||+|+.+.+..
T Consensus        18 ~dvVGQe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~L   64 (484)
T PRK14956         18 RDVIHQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRL   64 (484)
T ss_pred             HHHhChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            4689999899999999887764 468999999999999999998854

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.03  E-value=0.0091  Score=58.75  Aligned_cols=46  Identities=24%  Similarity=0.200  Sum_probs=38.8

Q ss_pred             cccccchHHHHHHHHHhhcCCc-eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQV-GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|.+...+.|.+.+..+.+ +.+.++|+.|+||||+|..+.+..
T Consensus        16 ~eiiGq~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~l   62 (397)
T PRK14955         16 ADITAQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAV   62 (397)
T ss_pred             hhccChHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999888888888887654 468899999999999999988755

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=96.01  E-value=0.0051  Score=53.45  Aligned_cols=23  Identities=26%  Similarity=0.283  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ||.|+|++|+||||+|+.+....
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~~   23 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVENF   23 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            58899999999999999998844

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.

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=96.01  E-value=0.0059  Score=52.88  Aligned_cols=24  Identities=29%  Similarity=0.390  Sum_probs=21.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .++.|+|++|+|||||++.+....
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~~   25 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARARL   25 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            478999999999999999998754

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.

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

Probab=96.00  E-value=0.029  Score=50.46  Aligned_cols=48  Identities=17%  Similarity=0.136  Sum_probs=36.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCC------CEEEEEEeCCCCCHHHHH
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYF------DVVIWAVASKVVEIEKIQ  206 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F------~~~~wv~vs~~~~~~~l~  206 (405)
                      .-.++.|+|.+|+|||+||..+....   ...-      ..++|++....++...+.
T Consensus        18 ~g~v~~I~G~~GsGKT~l~~~ia~~~---~~~~~~~g~~~~v~yi~~e~~~~~~rl~   71 (226)
T cd01393          18 TGRITEIFGEFGSGKTQLCLQLAVEA---QLPGELGGLEGKVVYIDTEGAFRPERLV   71 (226)
T ss_pred             CCcEEEEeCCCCCChhHHHHHHHHHh---hcccccCCCcceEEEEecCCCCCHHHHH
Confidence            45799999999999999999987643   2222      567899887777765543

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.

>PRK13531 regulatory ATPase RavA; Provisional

Probab=95.98  E-value=0.012  Score=58.33  Aligned_cols=44  Identities=9%  Similarity=0.019  Sum_probs=37.3

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|+++.++.+...+..++  -|.|.|++|+|||+||+.+....
T Consensus        20 ~~i~gre~vI~lll~aalag~--hVLL~GpPGTGKT~LAraLa~~~   63 (498)
T PRK13531         20 KGLYERSHAIRLCLLAALSGE--SVFLLGPPGIAKSLIARRLKFAF   63 (498)
T ss_pred             hhccCcHHHHHHHHHHHccCC--CEEEECCCChhHHHHHHHHHHHh
Confidence            568999999999888887543  57789999999999999999854

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=95.93  E-value=0.024  Score=51.03  Aligned_cols=46  Identities=20%  Similarity=0.233  Sum_probs=34.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHH
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKI  205 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l  205 (405)
                      .-.++.|+|.+|+|||+||.++....   ...-..++|++.. .++...+
T Consensus        22 ~g~i~~i~G~~GsGKT~l~~~la~~~---~~~~~~v~yi~~e-~~~~~r~   67 (225)
T PRK09361         22 RGTITQIYGPPGSGKTNICLQLAVEA---AKNGKKVIYIDTE-GLSPERF   67 (225)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH---HHCCCeEEEEECC-CCCHHHH
Confidence            45799999999999999999988754   2234678899876 5555443

>TIGR03263 guanyl_kin guanylate kinase

Probab=95.92  E-value=0.0062  Score=52.73  Aligned_cols=23  Identities=30%  Similarity=0.387  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ++|+|+|+.|+|||||++.+.+.
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~~   24 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLEE   24 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHcc
Confidence            58999999999999999999983

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.

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=95.92  E-value=0.011  Score=56.90  Aligned_cols=72  Identities=25%  Similarity=0.182  Sum_probs=40.9

Q ss_pred             hHHHHHHHHHhhcC----CceEEEEEcCCCCcHHH-HHHHHHhhccCCCCCCCEEEEEEeCCCCC--HHHHHHHHHHHhC
Q 043778          142 ESIFDKLWRCLTEE----QVGIIGLYGMGSVGKTT-LLILINNKFLDEPNYFDVVIWAVASKVVE--IEKIQESIAKKIG  214 (405)
Q Consensus       142 ~~~~~~l~~~L~~~----~~~vi~I~G~~GiGKTt-LA~~v~~~~~~~~~~F~~~~wv~vs~~~~--~~~l~~~i~~~l~  214 (405)
                      .+....+..++..+    +.++|++||+.|||||| ||+..+.-. . ...-.-+..++.. .+.  ..+=++....-++
T Consensus       184 ~~~l~~~~~~~~~~~~~~~~~vi~LVGPTGVGKTTTlAKLAar~~-~-~~~~~kVaiITtD-tYRIGA~EQLk~Ya~im~  260 (407)
T COG1419         184 SEKLRKLLLSLIENLIVEQKRVIALVGPTGVGKTTTLAKLAARYV-M-LKKKKKVAIITTD-TYRIGAVEQLKTYADIMG  260 (407)
T ss_pred             HHHHHHHHHhhccccccccCcEEEEECCCCCcHHHHHHHHHHHHH-h-hccCcceEEEEec-cchhhHHHHHHHHHHHhC
Confidence            33445555555544    47899999999999998 888776532 1 1222345566543 232  2222444444444


Q ss_pred             CC
Q 043778          215 FF  216 (405)
Q Consensus       215 ~~  216 (405)
                      .+
T Consensus       261 vp  262 (407)
T COG1419         261 VP  262 (407)
T ss_pred             Cc
Confidence            43

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=95.90  E-value=0.0071  Score=52.92  Aligned_cols=25  Identities=28%  Similarity=0.360  Sum_probs=23.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..+|+|-||=|+||||||+.+.++.
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~l   28 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEHL   28 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHHh
Confidence            4689999999999999999999976

>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=95.90  E-value=0.0061  Score=52.93  Aligned_cols=23  Identities=30%  Similarity=0.577  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +|+|.|.+|+||||||..+....
T Consensus         1 ii~i~G~sgsGKttla~~l~~~l   23 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQL   23 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            58999999999999999999865

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>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=95.90  E-value=0.011  Score=54.32  Aligned_cols=76  Identities=18%  Similarity=0.142  Sum_probs=65.3

Q ss_pred             ccchhhhhhhHhhhhhhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhChhhHHHHHHHHHHHHHHHHHHHH
Q 043778            9 CDSNITRCPDCTVRKASSIRDLQKNLEALPRELQKLVETRNDVRIRVIVAEQQKMKRLEQVEPWFSRVQDAESEVAKLML   88 (405)
Q Consensus         9 ~~~~~~~l~~~l~~e~~~~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~ae~~~~~~~~~~~~Wl~~l~~~ayd~eD~ld   88 (405)
                      ++.+++.|.+...+....+.-++.+++-++.+++.|+.||+.+      ++++..+++. ....+.++...||++|.++|
T Consensus       298 VdFlL~NLkdfq~rysdSlaflKnQiqvIQ~elesLqpFLk~V------~ee~~nkh~~-~ed~a~~ii~kAyevEYVVD  370 (402)
T PF12061_consen  298 VDFLLKNLKDFQGRYSDSLAFLKNQIQVIQTELESLQPFLKHV------VEEPHNKHDT-NEDCATQIIRKAYEVEYVVD  370 (402)
T ss_pred             HHHHHhhHHHHhccccchHHHHHHHHHHHHHHHHHhhHHHHHH------Hhccchhhhh-hhhHHHHHHHHHhheeeeee
Confidence            5667778888888888888889999999999999999999997      6665556544 99999999999999999999


Q ss_pred             HHH
Q 043778           89 ERN   91 (405)
Q Consensus        89 ~~~   91 (405)
                      .+-
T Consensus       371 aCi  373 (402)
T PF12061_consen  371 ACI  373 (402)
T ss_pred             hhh
Confidence            864

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.

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=95.90  E-value=0.013  Score=51.09  Aligned_cols=36  Identities=31%  Similarity=0.357  Sum_probs=29.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEE
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAV  195 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~  195 (405)
                      .++|.|+|+.|+|||||+..+....   ...|...+..+
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~~~---~~~~~~~v~~T   37 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQEF---PDKFGRVVSHT   37 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHHHS---TTTEEEEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhc---ccccccceeec
Confidence            4789999999999999999999855   67785544444

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=95.89  E-value=0.0068  Score=52.25  Aligned_cols=23  Identities=30%  Similarity=0.337  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .|.++||+|+||||+++.+.+..
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l   24 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFL   24 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48899999999999999998854

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.88  E-value=0.012  Score=60.54  Aligned_cols=46  Identities=22%  Similarity=0.243  Sum_probs=39.9

Q ss_pred             cccccchHHHHHHHHHhhcCC-ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQ-VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|.+...+.|.+++..+. .+.+.++|+.|+||||+|+.+.+..
T Consensus        15 ddVIGQe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~L   61 (702)
T PRK14960         15 NELVGQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCL   61 (702)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            568999999999999998765 5688999999999999999988754

>cd01394 radB RadB

Probab=95.88  E-value=0.032  Score=49.94  Aligned_cols=43  Identities=16%  Similarity=0.185  Sum_probs=32.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCC
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVE  201 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~  201 (405)
                      .-.++.|.|.+|+||||||.++....   ...=..++|++....+.
T Consensus        18 ~g~i~~i~G~~GsGKT~l~~~~a~~~---~~~g~~v~yi~~e~~~~   60 (218)
T cd01394          18 RGTVTQVYGPPGTGKTNIAIQLAVET---AGQGKKVAYIDTEGLSS   60 (218)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH---HhcCCeEEEEECCCCCH
Confidence            46799999999999999999988754   22234677887655543

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>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=95.86  E-value=0.0065  Score=50.47  Aligned_cols=23  Identities=35%  Similarity=0.543  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +|.|.|++|+||||+|+.+....
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~~   23 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKKL   23 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999999854

>PRK06217 hypothetical protein; Validated

Probab=95.85  E-value=0.0078  Score=52.42  Aligned_cols=23  Identities=26%  Similarity=0.352  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .|.|.|++|+||||||+.+....
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l   25 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERL   25 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            58999999999999999999865

>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=95.83  E-value=0.015  Score=49.93  Aligned_cols=44  Identities=18%  Similarity=0.173  Sum_probs=32.2

Q ss_pred             cccchHHHHHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          138 IVGLESIFDKLWRCLTE--EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       138 ~vGr~~~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++|....+.++.+.+..  ....-|.|+|..|+||+.+|+.|++..
T Consensus         1 liG~s~~m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~lA~~IH~~s   46 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAASSDLPVLITGETGTGKELLARAIHNNS   46 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTTSTS-EEEECSTTSSHHHHHHHHHHCS
T ss_pred             CEeCCHHHHHHHHHHHHHhCCCCCEEEEcCCCCcHHHHHHHHHHhh
Confidence            46777777877777653  333566799999999999999999954

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 ....

>PRK00131 aroK shikimate kinase; Reviewed

Probab=95.83  E-value=0.0082  Score=51.46  Aligned_cols=25  Identities=28%  Similarity=0.312  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...|.++|++|+||||+|+.+....
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~~l   28 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAKRL   28 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHh
Confidence            4589999999999999999999854

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=95.81  E-value=0.031  Score=54.55  Aligned_cols=46  Identities=20%  Similarity=0.151  Sum_probs=36.5

Q ss_pred             cccccchHHHHHHHHHhhcC--------------CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEE--------------QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~--------------~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|.+..++.+.-.+...              ..+-|.++|++|+|||++|+.+....
T Consensus        12 ~~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l   71 (441)
T TIGR00390        12 KYIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLA   71 (441)
T ss_pred             hhccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            45789888888876555431              24688999999999999999999855

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.

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=95.80  E-value=0.017  Score=47.24  Aligned_cols=38  Identities=24%  Similarity=0.252  Sum_probs=28.2

Q ss_pred             HHHHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          144 IFDKLWRCLTE--EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       144 ~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +..++.+.|..  ..-.+|.+.|.-|+|||||++.+.+..
T Consensus         7 ~t~~l~~~l~~~l~~~~~i~l~G~lGaGKTtl~~~l~~~l   46 (133)
T TIGR00150         7 AMDKFGKAFAKPLDFGTVVLLKGDLGAGKTTLVQGLLQGL   46 (133)
T ss_pred             HHHHHHHHHHHhCCCCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            34444444432  244689999999999999999999865

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.

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=95.78  E-value=0.013  Score=56.16  Aligned_cols=46  Identities=22%  Similarity=0.278  Sum_probs=39.9

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.+||-+..+..|...+.++++.-|.|.|..|+||||+|+.+++-.
T Consensus        17 ~~ivGq~~~k~al~~~~~~p~~~~vli~G~~GtGKs~~ar~~~~~l   62 (350)
T CHL00081         17 TAIVGQEEMKLALILNVIDPKIGGVMIMGDRGTGKSTTIRALVDLL   62 (350)
T ss_pred             HHHhChHHHHHHHHHhccCCCCCeEEEEcCCCCCHHHHHHHHHHHH
Confidence            5689999888888888888877778899999999999999997643

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

Probab=95.78  E-value=0.012  Score=54.27  Aligned_cols=63  Identities=22%  Similarity=0.237  Sum_probs=43.8

Q ss_pred             HHHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHHH
Q 043778          145 FDKLWRCLTE--EQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQES  208 (405)
Q Consensus       145 ~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~  208 (405)
                      -.+|+..+..  ++..+|+|.|.||+|||||.-.+-... ....|=-.++=|+-|.+++--.|+.+
T Consensus        37 a~~ll~~l~p~tG~a~viGITG~PGaGKSTli~~L~~~l-~~~G~rVaVlAVDPSSp~TGGsiLGD  101 (323)
T COG1703          37 ARELLRALYPRTGNAHVIGITGVPGAGKSTLIEALGREL-RERGHRVAVLAVDPSSPFTGGSILGD  101 (323)
T ss_pred             HHHHHHHHhhcCCCCcEEEecCCCCCchHHHHHHHHHHH-HHCCcEEEEEEECCCCCCCCcccccc
Confidence            3456666543  578899999999999999998888766 44454445555556667765555443

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=95.78  E-value=0.0076  Score=50.36  Aligned_cols=44  Identities=23%  Similarity=0.329  Sum_probs=31.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCC
Q 043778          159 IIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFF  216 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i~~~l~~~  216 (405)
                      +|.|-|++|+||||+|+.+.++. .  -.|           .+.-.++++|+...+.+
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~-g--l~~-----------vsaG~iFR~~A~e~gms   45 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHL-G--LKL-----------VSAGTIFREMARERGMS   45 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHh-C--Cce-----------eeccHHHHHHHHHcCCC
Confidence            78999999999999999999866 2  111           12335667777766543

>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=95.78  E-value=0.011  Score=53.68  Aligned_cols=62  Identities=19%  Similarity=0.154  Sum_probs=37.5

Q ss_pred             HHHHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHH
Q 043778          144 IFDKLWRCLTE--EQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQ  206 (405)
Q Consensus       144 ~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~  206 (405)
                      ...++++.+..  ++..+|+|.|+||+|||||.-.+.... +.+.+=-.++=|+-|.+++--.|+
T Consensus        14 ~~~~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~~~~-~~~g~~VaVlAVDPSSp~tGGAlL   77 (266)
T PF03308_consen   14 EARELLKRLYPHTGRAHVIGITGPPGAGKSTLIDALIREL-RERGKRVAVLAVDPSSPFTGGALL   77 (266)
T ss_dssp             HHHHHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHHHHHH-HHTT--EEEEEE-GGGGCC---SS
T ss_pred             HHHHHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHHHHHH-hhcCCceEEEEECCCCCCCCCccc
Confidence            45566666653  478899999999999999999988766 433333345555555566554444

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.

>PRK00300 gmk guanylate kinase; Provisional

Probab=95.76  E-value=0.0082  Score=53.21  Aligned_cols=25  Identities=28%  Similarity=0.244  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..+|+|+|++|+|||||++.+....
T Consensus         5 g~~i~i~G~sGsGKstl~~~l~~~~   29 (205)
T PRK00300          5 GLLIVLSGPSGAGKSTLVKALLERD   29 (205)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            4689999999999999999999854

>PRK00889 adenylylsulfate kinase; Provisional

Probab=95.76  E-value=0.0099  Score=51.28  Aligned_cols=25  Identities=24%  Similarity=0.317  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..+|.|+|++|+||||+|+.+....
T Consensus         4 g~~i~~~G~~GsGKST~a~~la~~l   28 (175)
T PRK00889          4 GVTVWFTGLSGAGKTTIARALAEKL   28 (175)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4699999999999999999999865

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=95.75  E-value=0.0076  Score=50.49  Aligned_cols=22  Identities=27%  Similarity=0.430  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 043778          159 IIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      +|.|.|++|+||||+|+.+...
T Consensus         1 li~l~G~~GsGKST~a~~l~~~   22 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAER   22 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhh
Confidence            4789999999999999999874

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=95.74  E-value=0.0099  Score=51.02  Aligned_cols=26  Identities=23%  Similarity=0.345  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+++|+|..|+|||||+..+....
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~l   30 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPAL   30 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHHH
Confidence            45699999999999999999999755

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

Probab=95.73  E-value=0.011  Score=49.80  Aligned_cols=36  Identities=25%  Similarity=0.087  Sum_probs=26.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEE
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAV  195 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~  195 (405)
                      ..+|-|.|.+|+||||||+.+.+.. .  ..-..+.++.
T Consensus         2 g~vIwltGlsGsGKtTlA~~L~~~L-~--~~g~~~~~LD   37 (156)
T PF01583_consen    2 GFVIWLTGLSGSGKTTLARALERRL-F--ARGIKVYLLD   37 (156)
T ss_dssp             -EEEEEESSTTSSHHHHHHHHHHHH-H--HTTS-EEEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHH-H--HcCCcEEEec
Confidence            4689999999999999999999866 2  2223455553

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 ....

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

Probab=95.72  E-value=0.026  Score=60.17  Aligned_cols=47  Identities=30%  Similarity=0.287  Sum_probs=39.0

Q ss_pred             ccccccchHHHHHHHHHhhc------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          135 ALTIVGLESIFDKLWRCLTE------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       135 ~~~~vGr~~~~~~l~~~L~~------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..+++|.+..++.++++|..      ....++.++|++|+||||+|+.+....
T Consensus       321 ~~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~l  373 (784)
T PRK10787        321 DTDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKAT  373 (784)
T ss_pred             hhhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            35689999999999988752      245689999999999999999999844

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.71  E-value=0.015  Score=58.33  Aligned_cols=44  Identities=30%  Similarity=0.349  Sum_probs=37.7

Q ss_pred             cccccchHHHHHHHHHhhcCCc-eEEEEEcCCCCcHHHHHHHHHh
Q 043778          136 LTIVGLESIFDKLWRCLTEEQV-GIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      .++||-+..++.|.+.+..+.+ +.+.++|+.|+||||+|+.+..
T Consensus        13 ~dliGQe~vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk   57 (491)
T PRK14964         13 KDLVGQDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARIISL   57 (491)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCccHHHHHHHHHH
Confidence            5689999888888888877654 4899999999999999999876

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=95.71  E-value=0.01  Score=51.24  Aligned_cols=24  Identities=29%  Similarity=0.368  Sum_probs=21.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++|.+.|++|+||||+|+.+....
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~~   26 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSVL   26 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhh
Confidence            589999999999999999998743

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=95.71  E-value=0.01  Score=49.22  Aligned_cols=39  Identities=21%  Similarity=0.311  Sum_probs=26.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCC
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASK  198 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~  198 (405)
                      .+|.|+|..|+|||||++.+.+.. . +..+...+..+...
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l-~-~~g~~v~~ik~~~~   39 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINEL-K-RRGYRVAVIKHTDH   39 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHH-H-HTT--EEEEEE-ST
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH-h-HcCCceEEEEEccC
Confidence            489999999999999999999876 3 13344444454443

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=95.70  E-value=0.0091  Score=51.69  Aligned_cols=23  Identities=30%  Similarity=0.349  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .|.|.|++|+||||+|+.+.+..
T Consensus         2 riiilG~pGaGK~T~A~~La~~~   24 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKL   24 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999999853

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

Probab=95.68  E-value=0.0085  Score=50.71  Aligned_cols=20  Identities=40%  Similarity=0.609  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q 043778          159 IIGLYGMGSVGKTTLLILIN  178 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~  178 (405)
                      .|+|.|.||+||||++..+.
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            68999999999999999987

>PRK10536 hypothetical protein; Provisional

Probab=95.66  E-value=0.028  Score=51.20  Aligned_cols=42  Identities=14%  Similarity=0.143  Sum_probs=34.6

Q ss_pred             ccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          137 TIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       137 ~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .+.++......++..|.+.  .++.+.|++|+|||+||..+..+
T Consensus        56 ~i~p~n~~Q~~~l~al~~~--~lV~i~G~aGTGKT~La~a~a~~   97 (262)
T PRK10536         56 PILARNEAQAHYLKAIESK--QLIFATGEAGCGKTWISAAKAAE   97 (262)
T ss_pred             cccCCCHHHHHHHHHHhcC--CeEEEECCCCCCHHHHHHHHHHH
Confidence            3566777788888888663  49999999999999999998875

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

Probab=95.65  E-value=0.01  Score=49.03  Aligned_cols=43  Identities=28%  Similarity=0.175  Sum_probs=30.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHHH
Q 043778          160 IGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQES  208 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~  208 (405)
                      |.++|++|+|||+||+.+....   ..   ...-+.++...+..++...
T Consensus         2 vlL~G~~G~GKt~l~~~la~~~---~~---~~~~i~~~~~~~~~dl~g~   44 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAALL---GR---PVIRINCSSDTTEEDLIGS   44 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHH---TC---EEEEEE-TTTSTHHHHHCE
T ss_pred             EEEECCCCCCHHHHHHHHHHHh---hc---ceEEEEeccccccccceee
Confidence            6789999999999999999844   11   2334566777777766543

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.

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

Probab=95.65  E-value=0.016  Score=56.84  Aligned_cols=46  Identities=22%  Similarity=0.220  Sum_probs=36.2

Q ss_pred             cccccchHHHHHHHHHhh----c---------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLT----E---------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~----~---------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .++.|.+..+++|.+.+.    .         ..++-+.++|++|+|||+||+.+.+..
T Consensus       145 ~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l  203 (398)
T PTZ00454        145 SDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHT  203 (398)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhc
Confidence            457788888887776553    1         135779999999999999999999854

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=95.64  E-value=0.014  Score=49.06  Aligned_cols=39  Identities=21%  Similarity=0.287  Sum_probs=29.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCC
Q 043778          159 IIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVV  200 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~  200 (405)
                      ++.|.|++|+||||++..+....   ...-..++|++....+
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~---~~~~~~v~~~~~e~~~   39 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNI---ATKGGKVVYVDIEEEI   39 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHH---HhcCCEEEEEECCcch
Confidence            47899999999999999998855   2233577788766544

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.

>CHL00181 cbbX CbbX; Provisional

Probab=95.64  E-value=0.019  Score=53.81  Aligned_cols=46  Identities=17%  Similarity=0.250  Sum_probs=31.7

Q ss_pred             cccccchHHHHHHHHHh---h-----c-------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCL---T-----E-------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L---~-----~-------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.++|.+..+++|.+..   .     .       .....+.++|++|+||||+|+.+++..
T Consensus        23 ~~l~Gl~~vK~~i~e~~~~~~~~~~~~~~g~~~~~~~~~ill~G~pGtGKT~lAr~la~~~   83 (287)
T CHL00181         23 EELVGLAPVKTRIREIAALLLIDRLRKNLGLTSSNPGLHMSFTGSPGTGKTTVALKMADIL   83 (287)
T ss_pred             HhcCCcHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            35788877666554432   1     0       122347889999999999999997743

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=95.62  E-value=0.0098  Score=51.94  Aligned_cols=24  Identities=29%  Similarity=0.409  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .++.|+|++|+|||||++.+....
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~~   26 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQRE   26 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhccC
Confidence            478999999999999999998743

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=95.61  E-value=0.0094  Score=49.29  Aligned_cols=22  Identities=41%  Similarity=0.507  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 043778          159 IIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .|+|+|+.|+|||||++.+...
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~~   22 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLEE   22 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHhc
Confidence            3789999999999999999984

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.

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

Probab=95.60  E-value=0.0091  Score=47.05  Aligned_cols=22  Identities=32%  Similarity=0.519  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043778          160 IGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      |-|+|.+|+|||+||..+..+.
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l   22 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDL   22 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHH
Confidence            4589999999999999977644

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

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=95.60  E-value=0.014  Score=51.93  Aligned_cols=31  Identities=19%  Similarity=0.298  Sum_probs=26.6

Q ss_pred             HhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          151 CLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       151 ~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+...++++|+++|..|+|||||..++.+..
T Consensus        16 ~~~~~~~~~i~~~G~~gsGKTTli~~l~~~~   46 (207)
T TIGR00073        16 RLDKHGLVVLNFMSSPGSGKTTLIEKLIDNL   46 (207)
T ss_pred             HhhhcCcEEEEEECCCCCCHHHHHHHHHHHH
Confidence            3445689999999999999999999998854

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

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

Probab=95.60  E-value=0.016  Score=51.77  Aligned_cols=25  Identities=28%  Similarity=0.419  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .-.+++|+|.+|+|||||++.+..-
T Consensus        32 ~Ge~lgivGeSGsGKSTL~r~l~Gl   56 (252)
T COG1124          32 RGETLGIVGESGSGKSTLARLLAGL   56 (252)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhcc
Confidence            4468999999999999999999863

>PRK14527 adenylate kinase; Provisional

Probab=95.60  E-value=0.012  Score=51.59  Aligned_cols=26  Identities=15%  Similarity=0.193  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|.|+|++|+||||+|+.+....
T Consensus         5 ~~~~i~i~G~pGsGKsT~a~~La~~~   30 (191)
T PRK14527          5 KNKVVIFLGPPGAGKGTQAERLAQEL   30 (191)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            45789999999999999999998754

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.59  E-value=0.016  Score=61.44  Aligned_cols=46  Identities=26%  Similarity=0.363  Sum_probs=39.5

Q ss_pred             cccccchHHHHHHHHHhhcCCc-eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQV-GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|-+..++.|.+.+..+.+ +.+.++|+.|+||||+|+.+.+..
T Consensus        16 ddIIGQe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLARiLAk~L   62 (944)
T PRK14949         16 EQMVGQSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARLFAKGL   62 (944)
T ss_pred             HHhcCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            5689999999999999887654 456899999999999999999855

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=95.59  E-value=0.014  Score=53.82  Aligned_cols=51  Identities=14%  Similarity=0.141  Sum_probs=39.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHHHHHH
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAK  211 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i~~  211 (405)
                      .-+++.|.|.+|+|||+++.+.....   ......++||+..+.  ..++.+.+.+
T Consensus        22 ~g~~~lI~G~pGsGKT~f~~qfl~~~---~~~ge~vlyvs~~e~--~~~l~~~~~~   72 (260)
T COG0467          22 RGSVVLITGPPGTGKTIFALQFLYEG---AREGEPVLYVSTEES--PEELLENARS   72 (260)
T ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHH---HhcCCcEEEEEecCC--HHHHHHHHHH
Confidence            56799999999999999999988754   455788999988764  4455555443

>PRK13947 shikimate kinase; Provisional

Probab=95.57  E-value=0.01  Score=50.87  Aligned_cols=23  Identities=30%  Similarity=0.286  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      -|.|+|++|+||||+|+.+.+..
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~l   25 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTL   25 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHh
Confidence            48899999999999999999854

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=95.57  E-value=0.02  Score=55.31  Aligned_cols=46  Identities=17%  Similarity=0.278  Sum_probs=39.0

Q ss_pred             cccccchHHHHHHHHHhhcCC-ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQ-VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|.+..++.+.+.+..+. .+.+.++|++|+||||+|+.+....
T Consensus        14 ~~iig~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l   60 (355)
T TIGR02397        14 EDVIGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKAL   60 (355)
T ss_pred             hhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            457999999999999987764 4578899999999999999887653

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.

>PRK14530 adenylate kinase; Provisional

Probab=95.57  E-value=0.011  Score=52.97  Aligned_cols=23  Identities=30%  Similarity=0.296  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .|.|+|++|+||||+|+.+....
T Consensus         5 ~I~i~G~pGsGKsT~~~~La~~~   27 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLAEEF   27 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            68999999999999999998754

>PRK03846 adenylylsulfate kinase; Provisional

Probab=95.56  E-value=0.013  Score=51.77  Aligned_cols=27  Identities=15%  Similarity=0.266  Sum_probs=23.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          155 EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       155 ~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ....+|.|+|++|+||||||+.+....
T Consensus        22 ~~~~~i~i~G~~GsGKSTla~~l~~~l   48 (198)
T PRK03846         22 HKGVVLWFTGLSGSGKSTVAGALEEAL   48 (198)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            467899999999999999999998844

>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=95.56  E-value=0.012  Score=46.92  Aligned_cols=22  Identities=32%  Similarity=0.345  Sum_probs=20.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043778          160 IGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      |.|+|..|+|||||.+.+.+..
T Consensus         2 I~V~G~~g~GKTsLi~~l~~~~   23 (119)
T PF08477_consen    2 IVVLGDSGVGKTSLIRRLCGGE   23 (119)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEECcCCCCHHHHHHHHhcCC
Confidence            7899999999999999999755

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.

>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=95.55  E-value=0.012  Score=46.12  Aligned_cols=22  Identities=23%  Similarity=0.193  Sum_probs=19.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHH
Q 043778          157 VGIIGLYGMGSVGKTTLLILIN  178 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~  178 (405)
                      -..++|+|++|+|||||+..+.
T Consensus        15 ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          15 KVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             CEEEEEEcCCCCCHHHHHHHhh
Confidence            3689999999999999999976

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

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=95.55  E-value=0.21  Score=49.52  Aligned_cols=57  Identities=25%  Similarity=0.211  Sum_probs=37.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCC--HHHHHHHHHHHhCCC
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVE--IEKIQESIAKKIGFF  216 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~--~~~l~~~i~~~l~~~  216 (405)
                      .+.+|.++|.+|+||||++..+.... ... .+ .++.|+. +.+.  ..+-+..+...++.+
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L-~~~-g~-kV~lV~~-D~~R~aa~eQL~~la~~~gvp  152 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYF-KKK-GL-KVGLVAA-DTYRPAAYDQLKQLAEKIGVP  152 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH-HHc-CC-eEEEecC-CCCCHHHHHHHHHHHHHcCCc
Confidence            46899999999999999999998766 322 22 3344443 2233  344566667776554

>PRK13949 shikimate kinase; Provisional

Probab=95.55  E-value=0.011  Score=50.78  Aligned_cols=23  Identities=35%  Similarity=0.288  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      -|.|+|++|+||||+++.+.+..
T Consensus         3 ~I~liG~~GsGKstl~~~La~~l   25 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALAREL   25 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            58999999999999999999855

>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=95.54  E-value=0.019  Score=51.89  Aligned_cols=36  Identities=22%  Similarity=0.216  Sum_probs=29.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEE
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAV  195 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~  195 (405)
                      .-.++|+|.+|+|||||...+....   ...|..+.+++
T Consensus        13 ~fr~viIG~sGSGKT~li~~lL~~~---~~~f~~I~l~t   48 (241)
T PF04665_consen   13 PFRMVIIGKSGSGKTTLIKSLLYYL---RHKFDHIFLIT   48 (241)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHhh---cccCCEEEEEe
Confidence            3468899999999999999999854   77887776664

This is thought to be an ATPase involved in viral DNA packaging [].

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.53  E-value=0.019  Score=58.23  Aligned_cols=46  Identities=20%  Similarity=0.301  Sum_probs=39.4

Q ss_pred             cccccchHHHHHHHHHhhcCCc-eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQV-GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .++||-+..++.|.+++..+.+ +.+.++|+.|+||||+|+.+.+..
T Consensus        16 ~divGq~~v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l   62 (509)
T PRK14958         16 QEVIGQAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRILAKCL   62 (509)
T ss_pred             HHhcCCHHHHHHHHHHHHhCCCCeeEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999987654 467899999999999999988754

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.52  E-value=0.019  Score=59.15  Aligned_cols=46  Identities=26%  Similarity=0.380  Sum_probs=38.8

Q ss_pred             cccccchHHHHHHHHHhhcCCc-eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQV-GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +++||-+..++.|.+.+..+.+ +.+.++|+.|+||||+|+.+.+..
T Consensus        16 ~dviGQe~vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~lAk~L   62 (618)
T PRK14951         16 SEMVGQEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRILAKSL   62 (618)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            5689988888899999887654 678999999999999999996643

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=95.51  E-value=0.022  Score=54.49  Aligned_cols=45  Identities=20%  Similarity=0.253  Sum_probs=38.0

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ..+||-+..+..|+-.+.+++..-+.|.|.+|+|||||++.+..-
T Consensus         4 ~~ivgq~~~~~al~~~~~~~~~g~vli~G~~G~gKttl~r~~~~~   48 (337)
T TIGR02030         4 TAIVGQDEMKLALLLNVIDPKIGGVMVMGDRGTGKSTAVRALAAL   48 (337)
T ss_pred             cccccHHHHHHHHHHHhcCCCCCeEEEEcCCCCCHHHHHHHHHHh
Confidence            457999988888877777776677889999999999999999753

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.

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.50  E-value=0.021  Score=55.56  Aligned_cols=46  Identities=24%  Similarity=0.335  Sum_probs=39.5

Q ss_pred             cccccchHHHHHHHHHhhcCC-ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQ-VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|.+...+.+.+.+..+. .+.+.++|++|+||||+|..+.+..
T Consensus        17 ~~iig~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~l   63 (367)
T PRK14970         17 DDVVGQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKI   63 (367)
T ss_pred             HhcCCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            457999999999999998764 4588999999999999999998754

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=95.49  E-value=0.22  Score=49.42  Aligned_cols=39  Identities=26%  Similarity=0.250  Sum_probs=26.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEe
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVA  196 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~v  196 (405)
                      .++++++|++|+||||++..+.... .....-..+..|+.
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~-~~~~~g~~V~li~~  259 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARY-ALLYGKKKVALITL  259 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH-HHhcCCCeEEEEEC
Confidence            4699999999999999888877644 20112234556654

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=95.48  E-value=0.027  Score=50.13  Aligned_cols=43  Identities=28%  Similarity=0.384  Sum_probs=27.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHH
Q 043778          159 IIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIE  203 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~  203 (405)
                      .|+|.|.||+||||+|..+.....+ ++-| .++-|+...++++.
T Consensus         2 kIaI~GKGG~GKTtiaalll~~l~~-~~~~-~VLvVDaDpd~nL~   44 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLKRLLS-KGGY-NVLVVDADPDSNLP   44 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHHHHHh-cCCc-eEEEEeCCCCCChH
Confidence            6899999999999999995553312 2212 34445555555443

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

Probab=95.48  E-value=0.023  Score=53.66  Aligned_cols=44  Identities=25%  Similarity=0.339  Sum_probs=34.7

Q ss_pred             cccchHHHHHHHHHhh----c---------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          138 IVGLESIFDKLWRCLT----E---------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       138 ~vGr~~~~~~l~~~L~----~---------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +=|.+..+++|.+...    +         +.++-|.++|++|.|||-||++|.|+-
T Consensus       153 IGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T  209 (406)
T COG1222         153 IGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQT  209 (406)
T ss_pred             ccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhcc
Confidence            3457888888777654    1         257789999999999999999999943

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=95.47  E-value=0.025  Score=52.56  Aligned_cols=31  Identities=23%  Similarity=0.224  Sum_probs=26.5

Q ss_pred             HhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          151 CLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       151 ~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++...+..+|.|+|.+|+|||||...+.+..
T Consensus        98 ~~~~~~~~~v~l~G~pGsGKTTLl~~l~~~l  128 (290)
T PRK10463         98 RFAARKQLVLNLVSSPGSGKTTLLTETLMRL  128 (290)
T ss_pred             HHHhcCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3444588999999999999999999999854

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=95.46  E-value=0.019  Score=58.59  Aligned_cols=45  Identities=27%  Similarity=0.273  Sum_probs=38.1

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ++++|.+..++.+...+......-+.|+|++|+|||++|+.+++.
T Consensus        65 ~~iiGqs~~i~~l~~al~~~~~~~vLi~Ge~GtGKt~lAr~i~~~  109 (531)
T TIGR02902        65 DEIIGQEEGIKALKAALCGPNPQHVIIYGPPGVGKTAAARLVLEE  109 (531)
T ss_pred             HHeeCcHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            458999989998888777665566789999999999999999864

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.

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=95.44  E-value=0.055  Score=56.13  Aligned_cols=75  Identities=12%  Similarity=0.090  Sum_probs=50.2

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHHHHHHHhCC
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGF  215 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i~~~l~~  215 (405)
                      +.++|.+.....+...+....  -+.++|++|+||||||+.+.+.. . ...|...+++.-+ ..+..+++..++..++.
T Consensus        18 ~~viG~~~a~~~l~~a~~~~~--~~ll~G~pG~GKT~la~~la~~l-~-~~~~~~~~~~~n~-~~~~~~~~~~v~~~~g~   92 (608)
T TIGR00764        18 DQVIGQEEAVEIIKKAAKQKR--NVLLIGEPGVGKSMLAKAMAELL-P-DEELEDILVYPNP-EDPNMPRIVEVPAGEGR   92 (608)
T ss_pred             hhccCHHHHHHHHHHHHHcCC--CEEEECCCCCCHHHHHHHHHHHc-C-chhheeEEEEeCC-CCCchHHHHHHHHhhch
Confidence            567898888777776666543  45599999999999999999854 2 2234444444322 23455667777777653

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

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.44  E-value=0.021  Score=58.66  Aligned_cols=46  Identities=28%  Similarity=0.369  Sum_probs=39.7

Q ss_pred             cccccchHHHHHHHHHhhcCC-ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQ-VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .++||-+..++.|.+.+..+. .+.+.++|..|+||||+|+.+.+..
T Consensus        16 ddVIGQe~vv~~L~~al~~gRLpHA~LFtGP~GvGKTTLAriLAkaL   62 (700)
T PRK12323         16 TTLVGQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSL   62 (700)
T ss_pred             HHHcCcHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            568999999999999998775 4567999999999999999998755

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=95.43  E-value=0.16  Score=50.02  Aligned_cols=26  Identities=23%  Similarity=0.336  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+.+|.++|..|+||||++..+....
T Consensus        99 ~~~vi~lvG~~GvGKTTtaaKLA~~l  124 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTCTKLAYYY  124 (429)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            46899999999999999998887655

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.

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=95.43  E-value=0.021  Score=59.20  Aligned_cols=46  Identities=28%  Similarity=0.370  Sum_probs=39.6

Q ss_pred             cccccchHHHHHHHHHhhcCC-ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQ-VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|.+..++.|.+++..+. .+.+.++|+.|+||||+|+.+.+..
T Consensus        16 ddIIGQe~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriLAk~L   62 (709)
T PRK08691         16 ADLVGQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSL   62 (709)
T ss_pred             HHHcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHh
Confidence            568999999999999998765 4578999999999999999987743

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=95.43  E-value=0.069  Score=50.69  Aligned_cols=57  Identities=18%  Similarity=0.248  Sum_probs=41.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCC----CCCEEEEEEeCCCCCHHHHHHHHHHHhC
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPN----YFDVVIWAVASKVVEIEKIQESIAKKIG  214 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~----~F~~~~wv~vs~~~~~~~l~~~i~~~l~  214 (405)
                      .-.++-|+|.+|+|||+|+.++.-.. ....    .=..++||+....|+...+.+ ++..++
T Consensus        94 ~g~i~ei~G~~g~GKT~l~~~~~~~~-~~~~~~g~~~~~~~yi~te~~f~~~rl~~-~~~~~g  154 (310)
T TIGR02236        94 TQAITEVFGEFGSGKTQICHQLAVNV-QLPEEKGGLGGKAVYIDTENTFRPERIMQ-MAEARG  154 (310)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh-cCCcccCCCcceEEEEECCCCCCHHHHHH-HHHHcC
Confidence            46789999999999999999987654 2111    113789999888888877653 444544

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.

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

Probab=95.41  E-value=0.046  Score=53.36  Aligned_cols=46  Identities=20%  Similarity=0.139  Sum_probs=37.2

Q ss_pred             cccccchHHHHHHHHHhhcC--------------CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEE--------------QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~--------------~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|.+..++.+...+.+.              ..+-|.++|++|+|||+||+.+....
T Consensus        15 ~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l   74 (443)
T PRK05201         15 KYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLA   74 (443)
T ss_pred             cccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            55899998888888776430              24678999999999999999998854

>PRK09087 hypothetical protein; Validated

Probab=95.41  E-value=0.036  Score=50.01  Aligned_cols=26  Identities=27%  Similarity=0.230  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ....+.|+|++|+|||+|++.+.+..
T Consensus        43 ~~~~l~l~G~~GsGKThLl~~~~~~~   68 (226)
T PRK09087         43 PSPVVVLAGPVGSGKTHLASIWREKS   68 (226)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHhc
Confidence            34578999999999999999988743

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=95.41  E-value=0.011  Score=50.40  Aligned_cols=22  Identities=23%  Similarity=0.462  Sum_probs=19.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043778          160 IGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      |.|+|++|+||||+|+.+.+..
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l   22 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRL   22 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999999844

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.

>TIGR01287 nifH nitrogenase iron protein

Probab=95.40  E-value=0.012  Score=54.92  Aligned_cols=24  Identities=33%  Similarity=0.540  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.|+|+|.||+||||++..+....
T Consensus         1 ~~ia~~gKGGVGKTT~a~nLA~~L   24 (275)
T TIGR01287         1 RQIAIYGKGGIGKSTTTQNIAAAL   24 (275)
T ss_pred             CeeEEeCCCcCcHHHHHHHHHHHH
Confidence            479999999999999998887655

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.

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

Probab=95.40  E-value=0.02  Score=56.68  Aligned_cols=46  Identities=26%  Similarity=0.272  Sum_probs=35.9

Q ss_pred             cccccchHHHHHHHHHhhc-------------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE-------------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .++.|.+..+++|.+.+.-             ....-+.++|++|+|||+||+.+.+..
T Consensus       183 ~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el  241 (438)
T PTZ00361        183 ADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANET  241 (438)
T ss_pred             HHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhh
Confidence            3567888888888776531             134568899999999999999999954

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=95.40  E-value=0.029  Score=54.05  Aligned_cols=46  Identities=22%  Similarity=0.228  Sum_probs=40.0

Q ss_pred             cccccchHHHHHHHHHhhcCC-ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQ-VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|.+...+.+...+..+. .+.+.|+|+.|+||||||..+.+..
T Consensus        23 ~~l~Gh~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~L   69 (351)
T PRK09112         23 TRLFGHEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHI   69 (351)
T ss_pred             hhccCcHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHH
Confidence            568999999999999998764 5679999999999999999988755

>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=95.39  E-value=0.013  Score=49.10  Aligned_cols=22  Identities=41%  Similarity=0.465  Sum_probs=19.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043778          160 IGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      |.|+|++|+||||+|+.+....
T Consensus         2 i~l~G~~GsGKstla~~la~~l   23 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKAL   23 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHh
Confidence            7899999999999999998744

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.

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

Probab=95.39  E-value=0.0084  Score=48.44  Aligned_cols=27  Identities=33%  Similarity=0.379  Sum_probs=18.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhccCCCCCCC
Q 043778          160 IGLYGMGSVGKTTLLILINNKFLDEPNYFD  189 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~~~~~~~~F~  189 (405)
                      |.|+|.+|+||||+|+.+....   ...|.
T Consensus         2 vLleg~PG~GKT~la~~lA~~~---~~~f~   28 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALARSL---GLSFK   28 (131)
T ss_dssp             EEEES---HHHHHHHHHHHHHT---T--EE
T ss_pred             EeeECCCccHHHHHHHHHHHHc---CCcee
Confidence            5789999999999999999844   56664

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.

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=95.37  E-value=0.066  Score=50.99  Aligned_cols=57  Identities=19%  Similarity=0.272  Sum_probs=41.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCC----CEEEEEEeCCCCCHHHHHHHHHHHhC
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYF----DVVIWAVASKVVEIEKIQESIAKKIG  214 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F----~~~~wv~vs~~~~~~~l~~~i~~~l~  214 (405)
                      ...++-|+|++|+|||+|+.++.-.. .....+    ..++|++....|++..+.+. ++.++
T Consensus       101 ~g~vtei~G~~GsGKT~l~~~~~~~~-~~~~~~gg~~~~~~yi~te~~f~~~rl~~~-~~~~g  161 (317)
T PRK04301        101 TQSITEFYGEFGSGKTQICHQLAVNV-QLPEEKGGLEGKAVYIDTEGTFRPERIEQM-AEALG  161 (317)
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHHh-ccccccCCCCceEEEEeCCCCcCHHHHHHH-HHHcC
Confidence            46789999999999999999987643 211111    47899999888888776543 44444

>PRK13975 thymidylate kinase; Provisional

Probab=95.36  E-value=0.015  Score=51.07  Aligned_cols=24  Identities=33%  Similarity=0.432  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+|.|.|+.|+||||+|+.+....
T Consensus         3 ~~I~ieG~~GsGKtT~~~~L~~~l   26 (196)
T PRK13975          3 KFIVFEGIDGSGKTTQAKLLAEKL   26 (196)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            579999999999999999999966

>PRK14737 gmk guanylate kinase; Provisional

Probab=95.35  E-value=0.017  Score=50.51  Aligned_cols=25  Identities=12%  Similarity=0.206  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      +..+|.|+|++|+|||||++.+...
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~~   27 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLEE   27 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhc
Confidence            4578999999999999999999874

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=95.33  E-value=0.039  Score=57.19  Aligned_cols=74  Identities=9%  Similarity=0.101  Sum_probs=54.9

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHHHHHHHhC
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIG  214 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i~~~l~  214 (405)
                      +.++|.+..++.|...+...  +.+.++|++|+||||+|+.+.+.. - ..+|+..+|..- ...+...+++.++..+|
T Consensus        31 ~~vigq~~a~~~L~~~~~~~--~~~l~~G~~G~GKttla~~l~~~l-~-~~~~~~~~~~~n-p~~~~~~~~~~v~~~~G  104 (637)
T PRK13765         31 DQVIGQEHAVEVIKKAAKQR--RHVMMIGSPGTGKSMLAKAMAELL-P-KEELQDILVYPN-PEDPNNPKIRTVPAGKG  104 (637)
T ss_pred             HHcCChHHHHHHHHHHHHhC--CeEEEECCCCCcHHHHHHHHHHHc-C-hHhHHHheEeeC-CCcchHHHHHHHHHhcC
Confidence            56889888888877766654  468899999999999999998754 2 234577777654 33467777888877665

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.33  E-value=0.023  Score=58.71  Aligned_cols=46  Identities=24%  Similarity=0.230  Sum_probs=38.7

Q ss_pred             cccccchHHHHHHHHHhhcCCc-eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQV-GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|-+..+..|.+.+..+.+ +.+.++|+.|+||||+|+.+.+..
T Consensus        16 ~eivGQe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~lAk~L   62 (620)
T PRK14954         16 ADITAQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKAV   62 (620)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHh
Confidence            5689999888988888877654 568999999999999999888754

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=95.32  E-value=0.017  Score=49.82  Aligned_cols=25  Identities=24%  Similarity=0.166  Sum_probs=22.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...|.|+|+.|+|||||++.+.+..
T Consensus         4 ~~~I~liG~~GaGKStl~~~La~~l   28 (172)
T PRK05057          4 KRNIFLVGPMGAGKSTIGRQLAQQL   28 (172)
T ss_pred             CCEEEEECCCCcCHHHHHHHHHHHc
Confidence            3469999999999999999999854

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=95.30  E-value=0.027  Score=55.09  Aligned_cols=45  Identities=13%  Similarity=0.127  Sum_probs=37.8

Q ss_pred             cccccchHHHHHHHHHhhcCC----------ceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          136 LTIVGLESIFDKLWRCLTEEQ----------VGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~----------~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ++++|-+..++.|.+.+..+.          .+-+.++|++|+|||++|..+...
T Consensus         5 ~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~   59 (394)
T PRK07940          5 DDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAA   59 (394)
T ss_pred             hhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHH
Confidence            457898988999998887652          567889999999999999998764

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=95.29  E-value=0.025  Score=57.09  Aligned_cols=46  Identities=26%  Similarity=0.302  Sum_probs=38.7

Q ss_pred             cccccchHHHHHHHHHhhcCC-ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQ-VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|-+..+..|...+..+. .+.+.++|+.|+||||+|+.+++..
T Consensus        21 ~dliGq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~ArilAk~L   67 (507)
T PRK06645         21 AELQGQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAV   67 (507)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            457999988888888777664 4688999999999999999998754

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=95.28  E-value=0.018  Score=50.71  Aligned_cols=25  Identities=28%  Similarity=0.215  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..+|.|.|.+|+||||+|+.+....
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~~   27 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARHR   27 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999999999843

>PRK06620 hypothetical protein; Validated

Probab=95.27  E-value=0.042  Score=49.12  Aligned_cols=24  Identities=29%  Similarity=0.151  Sum_probs=21.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..+-|+|++|+|||+|++.+.+..
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~   68 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLS   68 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhcc
Confidence            568999999999999999988754

>PRK14738 gmk guanylate kinase; Provisional

Probab=95.27  E-value=0.017  Score=51.29  Aligned_cols=24  Identities=21%  Similarity=0.336  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      ..+.|.|+|++|+|||||+..+..
T Consensus        12 ~~~~ivi~GpsG~GK~tl~~~L~~   35 (206)
T PRK14738         12 KPLLVVISGPSGVGKDAVLARMRE   35 (206)
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHh
Confidence            567899999999999999999975

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=95.27  E-value=0.026  Score=49.69  Aligned_cols=36  Identities=22%  Similarity=0.134  Sum_probs=28.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAV  195 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~  195 (405)
                      .-.|++|.|++|+|||||.+-+..-. .   .=.+.+|+.
T Consensus        27 ~Gevv~iiGpSGSGKSTlLRclN~LE-~---~~~G~I~i~   62 (240)
T COG1126          27 KGEVVVIIGPSGSGKSTLLRCLNGLE-E---PDSGSITVD   62 (240)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCc-C---CCCceEEEC
Confidence            44699999999999999999998733 2   224778875

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

Probab=95.26  E-value=0.015  Score=48.90  Aligned_cols=23  Identities=30%  Similarity=0.522  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +|.|+|.+|+||||||+.+....
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~l   23 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEKL   23 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHH
Confidence            57899999999999999998754

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.24  E-value=0.028  Score=57.35  Aligned_cols=46  Identities=26%  Similarity=0.377  Sum_probs=39.0

Q ss_pred             cccccchHHHHHHHHHhhcCCc-eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQV-GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|-+..++.|.+++..+.+ +.+.++|+.|+||||+|+.+.+..
T Consensus        16 ~divGq~~v~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l   62 (527)
T PRK14969         16 SELVGQEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLARILAKSL   62 (527)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            5689999999999999887654 567899999999999999997754

>PRK12608 transcription termination factor Rho; Provisional

Probab=95.23  E-value=0.092  Score=50.57  Aligned_cols=70  Identities=14%  Similarity=0.064  Sum_probs=49.1

Q ss_pred             HHHHHHHhhc-CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCE-EEEEEeCCC-CCHHHHHHHHHHHhCCC
Q 043778          145 FDKLWRCLTE-EQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDV-VIWAVASKV-VEIEKIQESIAKKIGFF  216 (405)
Q Consensus       145 ~~~l~~~L~~-~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~-~~wv~vs~~-~~~~~l~~~i~~~l~~~  216 (405)
                      ..++++.+.- +.-..+.|+|.+|+|||||++.+.+.. . .++-+. ++|+.+.+. -.+.+++..+...+...
T Consensus       120 ~~RvID~l~PiGkGQR~LIvG~pGtGKTTLl~~la~~i-~-~~~~dv~~vv~lIgER~~EV~df~~~i~~~Vvas  192 (380)
T PRK12608        120 SMRVVDLVAPIGKGQRGLIVAPPRAGKTVLLQQIAAAV-A-ANHPEVHLMVLLIDERPEEVTDMRRSVKGEVYAS  192 (380)
T ss_pred             hHhhhhheeecCCCceEEEECCCCCCHHHHHHHHHHHH-H-hcCCCceEEEEEecCCCCCHHHHHHHHhhhEEee
Confidence            3346666653 345678999999999999999988854 2 122233 467677765 46788999988877643

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

Probab=95.22  E-value=0.5  Score=46.43  Aligned_cols=104  Identities=16%  Similarity=0.133  Sum_probs=66.1

Q ss_pred             ccccccchHHHHHHHHHhhc----CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHHHHH
Q 043778          135 ALTIVGLESIFDKLWRCLTE----EQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIA  210 (405)
Q Consensus       135 ~~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i~  210 (405)
                      +..++||+.+.+.+.+++..    ....-+-|.|.+|.|||.+...++.+. .....=-.++++.-..--....++..|.
T Consensus       149 p~~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~-~~~~~~~~~v~inc~sl~~~~aiF~kI~  227 (529)
T KOG2227|consen  149 PGTLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSL-SKSSKSPVTVYINCTSLTEASAIFKKIF  227 (529)
T ss_pred             CCCccchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhh-hhhcccceeEEEeeccccchHHHHHHHH
Confidence            35689999999999998864    357788999999999999999999866 2211112446665433345666777777


Q ss_pred             HHhCCCCCCCCcccHHHHHHHHHHHHcccch
Q 043778          211 KKIGFFNESWESKTVQEKAVDIFNILSKKKY  241 (405)
Q Consensus       211 ~~l~~~~~~~~~~~~~~~~~~l~~~L~~kr~  241 (405)
                      ..+.....  ......+....+.++....++
T Consensus       228 ~~~~q~~~--s~~~~~~~~~~~~~h~~q~k~  256 (529)
T KOG2227|consen  228 SSLLQDLV--SPGTGMQHLEKFEKHTKQSKF  256 (529)
T ss_pred             HHHHHHhc--CCchhHHHHHHHHHHHhcccc
Confidence            77621110  111123444555555555553

>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=95.22  E-value=0.078  Score=51.63  Aligned_cols=68  Identities=19%  Similarity=0.222  Sum_probs=50.0

Q ss_pred             chHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHH-HHHHhhccCCCCCCCEEEEEEeC---CCCCHHHHHHHHHHHhCC
Q 043778          141 LESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLL-ILINNKFLDEPNYFDVVIWAVAS---KVVEIEKIQESIAKKIGF  215 (405)
Q Consensus       141 r~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA-~~v~~~~~~~~~~F~~~~wv~vs---~~~~~~~l~~~i~~~l~~  215 (405)
                      |.+..++|..||.+..-..|.|.||.|+||+.|+ .++.++. +  +    ++.++..   +.-+-..+++.++.++|-
T Consensus         1 R~e~~~~L~~wL~e~~~TFIvV~GPrGSGK~elV~d~~L~~r-~--~----vL~IDC~~i~~ar~D~~~I~~lA~qvGY   72 (431)
T PF10443_consen    1 RKEAIEQLKSWLNENPNTFIVVQGPRGSGKRELVMDHVLKDR-K--N----VLVIDCDQIVKARGDAAFIKNLASQVGY   72 (431)
T ss_pred             CchHHHHHHHHHhcCCCeEEEEECCCCCCccHHHHHHHHhCC-C--C----EEEEEChHhhhccChHHHHHHHHHhcCC
Confidence            4567899999999887789999999999999999 7777643 1  2    5556432   234455677777777753

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 [].

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=95.21  E-value=0.028  Score=58.22  Aligned_cols=46  Identities=26%  Similarity=0.342  Sum_probs=39.1

Q ss_pred             cccccchHHHHHHHHHhhcCCc-eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQV-GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .++||-+..++.|.+.+..+.+ +.+.++|+.|+||||+|+.+.+..
T Consensus        16 ~divGQe~vv~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~lAk~L   62 (647)
T PRK07994         16 AEVVGQEHVLTALANALDLGRLHHAYLFSGTRGVGKTTIARLLAKGL   62 (647)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhh
Confidence            5689999999999998887654 557899999999999999998754

>TIGR03689 pup_AAA proteasome ATPase

Probab=95.19  E-value=0.021  Score=57.55  Aligned_cols=46  Identities=24%  Similarity=0.318  Sum_probs=36.2

Q ss_pred             cccccchHHHHHHHHHhhc-------------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE-------------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .++.|.+..++++.+.+.-             ...+-+.++|++|+|||++|+.+++..
T Consensus       182 ~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL  240 (512)
T TIGR03689       182 ADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSL  240 (512)
T ss_pred             HHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhh
Confidence            3466788888888776531             135668999999999999999999965

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.

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=95.17  E-value=0.016  Score=48.97  Aligned_cols=23  Identities=26%  Similarity=0.426  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ||+|+|+.|+|||||+..+....
T Consensus         1 vi~i~G~~gsGKTtl~~~l~~~l   23 (155)
T TIGR00176         1 VLQIVGPKNSGKTTLIERLVKAL   23 (155)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            58999999999999999999865

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.

>PLN02200 adenylate kinase family protein

Probab=95.16  E-value=0.02  Score=51.90  Aligned_cols=26  Identities=27%  Similarity=0.092  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+.+|.|.|++|+||||+|+.+....
T Consensus        42 ~~~ii~I~G~PGSGKsT~a~~La~~~   67 (234)
T PLN02200         42 TPFITFVLGGPGSGKGTQCEKIVETF   67 (234)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            45789999999999999999998744

>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=95.15  E-value=0.017  Score=51.50  Aligned_cols=24  Identities=29%  Similarity=0.528  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++|+|.|.||+||||++..+....
T Consensus         1 ~~iav~gKGGvGKTt~~~nLA~~l   24 (212)
T cd02117           1 RQIAIYGKGGIGKSTTSQNLSAAL   24 (212)
T ss_pred             CEEEEECCCcCcHHHHHHHHHHHH
Confidence            479999999999999888887755

Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=95.15  E-value=0.021  Score=49.10  Aligned_cols=24  Identities=33%  Similarity=0.332  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ..++.|.|++|+|||||++.++.+
T Consensus         4 G~l~vlsgPSG~GKsTl~k~L~~~   27 (191)
T COG0194           4 GLLIVLSGPSGVGKSTLVKALLED   27 (191)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhh
Confidence            358899999999999999999983

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=95.15  E-value=0.078  Score=48.21  Aligned_cols=49  Identities=10%  Similarity=0.056  Sum_probs=34.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHHHH
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESI  209 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i  209 (405)
                      .-+++.|.|.+|+|||+||.++....   ...-..++|++...  ++.++.+.+
T Consensus        20 ~gs~~lI~G~pGsGKT~la~~~l~~~---~~~ge~~lyvs~ee--~~~~i~~~~   68 (237)
T TIGR03877        20 ERNVVLLSGGPGTGKSIFSQQFLWNG---LQMGEPGIYVALEE--HPVQVRRNM   68 (237)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHH---HHcCCcEEEEEeeC--CHHHHHHHH
Confidence            56799999999999999999865432   12235788888765  455555553

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.

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=95.13  E-value=0.016  Score=49.29  Aligned_cols=20  Identities=40%  Similarity=0.421  Sum_probs=17.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q 043778          160 IGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~  179 (405)
                      |+|.|..|+|||||+..+..
T Consensus         2 I~i~G~~stGKTTL~~~L~~   21 (163)
T PF13521_consen    2 IVITGGPSTGKTTLIEALAA   21 (163)
T ss_dssp             EEEE--TTSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999999997

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=95.13  E-value=0.019  Score=49.65  Aligned_cols=24  Identities=25%  Similarity=0.235  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|+|++|+|||||++.+....
T Consensus         4 e~i~l~G~sGsGKSTl~~~la~~l   27 (176)
T PRK09825          4 ESYILMGVSGSGKSLIGSKIAALF   27 (176)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhc
Confidence            489999999999999999999855

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=95.12  E-value=0.029  Score=53.54  Aligned_cols=44  Identities=20%  Similarity=0.290  Sum_probs=35.8

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHh
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      +.++|.+..++.+.-.+.+.+..-+.+.|.+|+||||+|+.+.+
T Consensus         8 ~~i~Gq~~~~~~l~~~~~~~~~~~vLl~G~pG~gKT~lar~la~   51 (334)
T PRK13407          8 SAIVGQEEMKQAMVLTAIDPGIGGVLVFGDRGTGKSTAVRALAA   51 (334)
T ss_pred             HHhCCHHHHHHHHHHHHhccCCCcEEEEcCCCCCHHHHHHHHHH
Confidence            56799998888877666545555688999999999999999865

>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems

Probab=95.12  E-value=0.018  Score=47.29  Aligned_cols=35  Identities=23%  Similarity=0.178  Sum_probs=26.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEE
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAV  195 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~  195 (405)
                      -.+++|+|..|+|||||.+.+....    ....+.+++.
T Consensus        11 g~~~~i~G~nGsGKStLl~~l~g~~----~~~~G~i~~~   45 (137)
T PF00005_consen   11 GEIVAIVGPNGSGKSTLLKALAGLL----PPDSGSILIN   45 (137)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHTTSS----HESEEEEEET
T ss_pred             CCEEEEEccCCCccccceeeecccc----cccccccccc
Confidence            3589999999999999999998743    2245666553

ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....

>PRK05642 DNA replication initiation factor; Validated

Probab=95.12  E-value=0.069  Score=48.47  Aligned_cols=38  Identities=21%  Similarity=0.348  Sum_probs=28.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeC
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVAS  197 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs  197 (405)
                      ...+.|+|.+|+|||.|++.+.+.. .  ..-..++|++..
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~~-~--~~~~~v~y~~~~   82 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLRF-E--QRGEPAVYLPLA   82 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH-H--hCCCcEEEeeHH
Confidence            3578999999999999999998854 2  112356777653

>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=95.11  E-value=0.018  Score=49.31  Aligned_cols=22  Identities=41%  Similarity=0.442  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043778          160 IGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      |.|.|.+|+|||||.+.+.+..
T Consensus         2 i~iTG~pG~GKTTll~k~i~~l   23 (168)
T PF03266_consen    2 IFITGPPGVGKTTLLKKVIEEL   23 (168)
T ss_dssp             EEEES-TTSSHHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHHh
Confidence            6799999999999999998865

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.

>PRK04182 cytidylate kinase; Provisional

Probab=95.10  E-value=0.02  Score=49.35  Aligned_cols=23  Identities=39%  Similarity=0.514  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +|.|.|+.|+||||+|+.+....
T Consensus         2 ~I~i~G~~GsGKstia~~la~~l   24 (180)
T PRK04182          2 IITISGPPGSGKTTVARLLAEKL   24 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            79999999999999999999854

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=95.10  E-value=0.036  Score=51.87  Aligned_cols=45  Identities=16%  Similarity=0.268  Sum_probs=30.8

Q ss_pred             ccccchHHHHHHHHHhh---c-------C-----CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          137 TIVGLESIFDKLWRCLT---E-------E-----QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       137 ~~vGr~~~~~~l~~~L~---~-------~-----~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .++|.++.+++|.+...   .       +     ...-+.++|++|+|||++|+.+....
T Consensus        23 ~l~Gl~~vk~~i~e~~~~~~~~~~r~~~g~~~~~~~~~vll~G~pGTGKT~lA~~ia~~l   82 (284)
T TIGR02880        23 ELIGLKPVKTRIREIAALLLVERLRQRLGLASAAPTLHMSFTGNPGTGKTTVALRMAQIL   82 (284)
T ss_pred             hccCHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCCCceEEEEcCCCCCHHHHHHHHHHHH
Confidence            57888777666554321   1       0     12258899999999999998776644

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.

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

Probab=95.07  E-value=0.029  Score=46.38  Aligned_cols=43  Identities=21%  Similarity=0.238  Sum_probs=31.4

Q ss_pred             ccchHHHHHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          139 VGLESIFDKLWRCLTE--EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       139 vGr~~~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ||.....+++.+.+..  ....-|.|.|..|+||+++|+.+++..
T Consensus         1 vG~S~~~~~l~~~l~~~a~~~~pvli~GE~GtGK~~~A~~lh~~~   45 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLAKSSSPVLITGEPGTGKSLLARALHRYS   45 (138)
T ss_dssp             --SCHHHHHHHHHHHHHHCSSS-EEEECCTTSSHHHHHHCCHHTT
T ss_pred             CCCCHHHHHHHHHHHHHhCCCCcEEEEcCCCCCHHHHHHHHHhhc
Confidence            4666667777766653  344567899999999999999999865

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

Probab=95.06  E-value=0.041  Score=44.33  Aligned_cols=45  Identities=13%  Similarity=0.223  Sum_probs=33.1

Q ss_pred             cccccchHHHHHHHHHhh----c---CCceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          136 LTIVGLESIFDKLWRCLT----E---EQVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~----~---~~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ..++|-.-..+.+++.+.    +   +++-|++.+|.+|+|||.+++.|.+.
T Consensus        25 ~~l~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~   76 (127)
T PF06309_consen   25 RNLFGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEH   76 (127)
T ss_pred             HHccCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHH
Confidence            456776655555555554    3   26779999999999999988887765

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

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=95.04  E-value=0.033  Score=57.50  Aligned_cols=46  Identities=22%  Similarity=0.319  Sum_probs=39.6

Q ss_pred             cccccchHHHHHHHHHhhcCC-ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQ-VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|.+..++.|.+.+..+. .+-+.++|+.|+||||+|+.+.+..
T Consensus        24 ~dliGq~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L   70 (598)
T PRK09111         24 DDLIGQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARAL   70 (598)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhh
Confidence            568999999999999998765 4578999999999999999998744

>PRK13232 nifH nitrogenase reductase; Reviewed

Probab=95.02  E-value=0.019  Score=53.47  Aligned_cols=24  Identities=29%  Similarity=0.534  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++|+|+|.|||||||++..+..-.
T Consensus         2 ~~iav~gKGGVGKTT~a~nLA~~L   25 (273)
T PRK13232          2 RQIAIYGKGGIGKSTTTQNLTAAL   25 (273)
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHH
Confidence            578899999999999998887644

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.01  E-value=0.035  Score=56.99  Aligned_cols=46  Identities=20%  Similarity=0.236  Sum_probs=39.3

Q ss_pred             cccccchHHHHHHHHHhhcCC-ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQ-VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|.+..++.|.+++..+. .+.+.++|+.|+||||+|+.+.+..
T Consensus        13 ~eivGq~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l   59 (584)
T PRK14952         13 AEVVGQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARSL   59 (584)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            568999999999999998765 4567899999999999999988754

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

Probab=95.00  E-value=0.056  Score=51.05  Aligned_cols=52  Identities=23%  Similarity=0.218  Sum_probs=39.4

Q ss_pred             cccccchHHHH---HHHHHhhcC--CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCC
Q 043778          136 LTIVGLESIFD---KLWRCLTEE--QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYF  188 (405)
Q Consensus       136 ~~~vGr~~~~~---~l~~~L~~~--~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F  188 (405)
                      ..+||-....+   -+++++.++  .-+.|.|+|++|.|||+||..+.+.. -...+|
T Consensus        39 dG~VGQ~~AReAaGvIv~mik~gk~aGrgiLi~GppgTGKTAlA~gIa~eL-G~dvPF   95 (450)
T COG1224          39 DGLVGQEEAREAAGVIVKMIKQGKMAGRGILIVGPPGTGKTALAMGIAREL-GEDVPF   95 (450)
T ss_pred             CcccchHHHHHhhhHHHHHHHhCcccccEEEEECCCCCcHHHHHHHHHHHh-CCCCCc
Confidence            56888655444   355666555  56799999999999999999999977 555666

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

Probab=95.00  E-value=0.038  Score=50.99  Aligned_cols=53  Identities=23%  Similarity=0.371  Sum_probs=39.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCC-CEEEEEEeCCCCC-HHHHHHHHHH
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYF-DVVIWAVASKVVE-IEKIQESIAK  211 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F-~~~~wv~vs~~~~-~~~l~~~i~~  211 (405)
                      .-+.++|.|.+|+|||||++.+++..   +.+| +.++++-+++... ..++...+..
T Consensus        68 ~GQr~~If~~~G~GKTtLa~~i~~~i---~~~~~~~~V~~~iGer~~Ev~e~~~~~~~  122 (274)
T cd01133          68 KGGKIGLFGGAGVGKTVLIMELINNI---AKAHGGYSVFAGVGERTREGNDLYHEMKE  122 (274)
T ss_pred             cCCEEEEecCCCCChhHHHHHHHHHH---HhcCCCEEEEEEeccCcHHHHHHHHHHHh
Confidence            45689999999999999999999965   4455 4566667777654 4666666654

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.

>PRK13948 shikimate kinase; Provisional

Probab=95.00  E-value=0.024  Score=49.22  Aligned_cols=26  Identities=19%  Similarity=0.275  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..+.|.++|+.|+||||+++.+.+..
T Consensus         9 ~~~~I~LiG~~GsGKSTvg~~La~~l   34 (182)
T PRK13948          9 PVTWVALAGFMGTGKSRIGWELSRAL   34 (182)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHc
Confidence            45789999999999999999999854

>PRK13230 nitrogenase reductase-like protein; Reviewed

Probab=94.99  E-value=0.02  Score=53.47  Aligned_cols=24  Identities=29%  Similarity=0.504  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++|+|+|.||+||||+|..+....
T Consensus         2 ~~i~~~gKGGVGKTT~a~nLA~~L   25 (279)
T PRK13230          2 RKFCFYGKGGIGKSTTVCNIAAAL   25 (279)
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHH
Confidence            578999999999999998887655

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

Probab=94.99  E-value=0.044  Score=49.42  Aligned_cols=46  Identities=22%  Similarity=0.348  Sum_probs=37.5

Q ss_pred             cccccchHHHHHHHHH----hhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRC----LTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~----L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.++|.+..++.|++-    +.+....-+.+||..|.|||+|++.+.+..
T Consensus        27 ~~L~Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y   76 (249)
T PF05673_consen   27 DDLIGIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEY   76 (249)
T ss_pred             HHhcCHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHH
Confidence            6789999888877753    334456678889999999999999999866

>PLN02348 phosphoribulokinase

Probab=94.97  E-value=0.034  Score=53.80  Aligned_cols=27  Identities=26%  Similarity=0.442  Sum_probs=24.2

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          155 EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       155 ~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +..-+|+|.|.+|+||||||+.+.+..
T Consensus        47 ~~p~IIGIaG~SGSGKSTfA~~L~~~L   73 (395)
T PLN02348         47 DGTVVIGLAADSGCGKSTFMRRLTSVF   73 (395)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            367899999999999999999999865

>PRK06761 hypothetical protein; Provisional

Probab=94.96  E-value=0.052  Score=50.47  Aligned_cols=24  Identities=25%  Similarity=0.422  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++|.|.|++|+||||+++.+.+..
T Consensus         4 ~lIvI~G~~GsGKTTla~~L~~~L   27 (282)
T PRK06761          4 KLIIIEGLPGFGKSTTAKMLNDIL   27 (282)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhc
Confidence            589999999999999999999865

>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=94.95  E-value=0.042  Score=46.53  Aligned_cols=36  Identities=22%  Similarity=0.221  Sum_probs=29.6

Q ss_pred             HHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          143 SIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       143 ~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..+++|...|.+   +++.++|.+|+|||||...+....
T Consensus        24 ~g~~~l~~~l~~---k~~vl~G~SGvGKSSLiN~L~~~~   59 (161)
T PF03193_consen   24 EGIEELKELLKG---KTSVLLGQSGVGKSSLINALLPEA   59 (161)
T ss_dssp             TTHHHHHHHHTT---SEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             cCHHHHHHHhcC---CEEEEECCCCCCHHHHHHHHHhhc
Confidence            346677777754   799999999999999999998853

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.

>PRK13946 shikimate kinase; Provisional

Probab=94.95  E-value=0.024  Score=49.35  Aligned_cols=25  Identities=20%  Similarity=0.215  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+.|.++|++|+||||+++.+.+..
T Consensus        10 ~~~I~l~G~~GsGKsti~~~LA~~L   34 (184)
T PRK13946         10 KRTVVLVGLMGAGKSTVGRRLATML   34 (184)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHc
Confidence            4579999999999999999999854

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=94.93  E-value=0.036  Score=56.22  Aligned_cols=46  Identities=17%  Similarity=0.200  Sum_probs=33.3

Q ss_pred             cccccchHHHHHHHHHh---hc---------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCL---TE---------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L---~~---------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++++|.+..++++.+.+   ..         ...+-+.++|++|+|||+||+.+.+..
T Consensus        55 ~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~  112 (495)
T TIGR01241        55 KDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEA  112 (495)
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHc
Confidence            45788777665555433   22         134468899999999999999999854

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.

>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=94.93  E-value=0.022  Score=49.82  Aligned_cols=23  Identities=35%  Similarity=0.605  Sum_probs=21.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +|+|.|+.|+||||+++.+.+..
T Consensus         2 ~I~ieG~~GsGKtT~~~~L~~~l   24 (200)
T cd01672           2 FIVFEGIDGAGKTTLIELLAERL   24 (200)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68999999999999999999865

TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).

>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=94.92  E-value=0.031  Score=50.82  Aligned_cols=20  Identities=25%  Similarity=0.287  Sum_probs=18.0

Q ss_pred             EEcCCCCcHHHHHHHHHhhc
Q 043778          162 LYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       162 I~G~~GiGKTtLA~~v~~~~  181 (405)
                      |+||+|+||||+++.+.+..
T Consensus         1 ViGpaGSGKTT~~~~~~~~~   20 (238)
T PF03029_consen    1 VIGPAGSGKTTFCKGLSEWL   20 (238)
T ss_dssp             -EESTTSSHHHHHHHHHHHH
T ss_pred             CCCCCCCCHHHHHHHHHHHH
Confidence            68999999999999999877

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>TIGR02173 cyt_kin_arch cytidylate kinase, putative

Probab=94.92  E-value=0.024  Score=48.45  Aligned_cols=23  Identities=35%  Similarity=0.501  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +|.|.|+.|+||||+|+.+.+..
T Consensus         2 iI~i~G~~GSGKstia~~la~~l   24 (171)
T TIGR02173         2 IITISGPPGSGKTTVAKILAEKL   24 (171)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            79999999999999999998743

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.

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=94.90  E-value=0.064  Score=51.12  Aligned_cols=37  Identities=24%  Similarity=0.355  Sum_probs=28.8

Q ss_pred             HHHHHHHhh--cCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          145 FDKLWRCLT--EEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       145 ~~~l~~~L~--~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+.+.+.  .++..+|+|.|.+|+|||||+..+....
T Consensus        42 ~~~l~~~~~~~~~~~~~igi~G~~GaGKSTl~~~l~~~l   80 (332)
T PRK09435         42 AQELLDALLPHTGNALRIGITGVPGVGKSTFIEALGMHL   80 (332)
T ss_pred             HHHHHHHHhhcCCCcEEEEEECCCCCCHHHHHHHHHHHH
Confidence            345555554  2467899999999999999999987755

>cd02040 NifH NifH gene encodes component II (iron protein) of nitrogenase

Probab=94.89  E-value=0.022  Score=52.81  Aligned_cols=24  Identities=29%  Similarity=0.540  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++|+|.|.||+||||++..+....
T Consensus         2 ~~iav~~KGGvGKTT~~~nLA~~L   25 (270)
T cd02040           2 RQIAIYGKGGIGKSTTTQNLSAAL   25 (270)
T ss_pred             cEEEEEeCCcCCHHHHHHHHHHHH
Confidence            478888999999999999987755

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.

>PRK14532 adenylate kinase; Provisional

Probab=94.89  E-value=0.023  Score=49.64  Aligned_cols=22  Identities=23%  Similarity=0.226  Sum_probs=19.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043778          160 IGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      |.|.|++|+||||+|+.+....
T Consensus         3 i~~~G~pGsGKsT~a~~la~~~   24 (188)
T PRK14532          3 LILFGPPAAGKGTQAKRLVEER   24 (188)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            7789999999999999998744

>cd01131 PilT Pilus retraction ATPase PilT

Probab=94.89  E-value=0.033  Score=49.14  Aligned_cols=24  Identities=25%  Similarity=0.360  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+|.|+|+.|+||||++..+.+..
T Consensus         2 GlilI~GptGSGKTTll~~ll~~~   25 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDYI   25 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            478999999999999999887744

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.

>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=94.89  E-value=0.13  Score=47.19  Aligned_cols=80  Identities=13%  Similarity=0.008  Sum_probs=42.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCC--CCHHHHHHHHHHHhC--CCCCC--CCcccHHHHHHHH
Q 043778          159 IIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKV--VEIEKIQESIAKKIG--FFNES--WESKTVQEKAVDI  232 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~--~~~~~l~~~i~~~l~--~~~~~--~~~~~~~~~~~~l  232 (405)
                      +|+|.|.+|+||||++..+.+.. +...  .....++...-  ++-...-..+.....  .+=+.  ....+.+.+...+
T Consensus         1 IIgItG~SGSGKTTv~~~l~~~l-~~~g--~~v~vI~~D~yyr~~r~~~~~~~~~a~~~~~nfdHf~PeAnd~dlL~~~l   77 (277)
T cd02029           1 VIAVTGSSGAGTTTVKRAFEHIF-AREG--IHPAVVEGDSFHRYERMEMKMAIAEALDAGRNFSHFGPEANLFDLLEELF   77 (277)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH-HhcC--CceEEEeccccccCCchhHHHHHHHHhhcCCCCCCCCcccccHHHHHHHH
Confidence            58999999999999999888754 2111  12333433221  222233222222221  11111  2345666777777


Q ss_pred             HHHHcccch
Q 043778          233 FNILSKKKY  241 (405)
Q Consensus       233 ~~~L~~kr~  241 (405)
                      +...+++..
T Consensus        78 ~~L~~g~~i   86 (277)
T cd02029          78 RTYGETGRG   86 (277)
T ss_pred             HHHHcCCCc
Confidence            776665543

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.

>PRK13236 nitrogenase reductase; Reviewed

Probab=94.89  E-value=0.024  Score=53.41  Aligned_cols=28  Identities=29%  Similarity=0.472  Sum_probs=23.3

Q ss_pred             cCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          154 EEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       154 ~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +++.++|++.|.|||||||+|..+..-.
T Consensus         3 ~~~~~~~~~~GKGGVGKTt~a~NLA~~L   30 (296)
T PRK13236          3 DENIRQIAFYGKGGIGKSTTSQNTLAAM   30 (296)
T ss_pred             CcCceEEEEECCCcCCHHHHHHHHHHHH
Confidence            4567999999999999999888876544

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=94.88  E-value=0.13  Score=46.35  Aligned_cols=53  Identities=23%  Similarity=0.202  Sum_probs=34.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHHHHHHHhC
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIG  214 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i~~~l~  214 (405)
                      .-.++.|.|.+|+||||||..+....   ...-..++|++...+  ...+... +.+++
T Consensus        19 ~G~~~~i~G~~G~GKT~l~~~~~~~~---~~~g~~~~~is~e~~--~~~i~~~-~~~~g   71 (229)
T TIGR03881        19 RGFFVAVTGEPGTGKTIFCLHFAYKG---LRDGDPVIYVTTEES--RESIIRQ-AAQFG   71 (229)
T ss_pred             CCeEEEEECCCCCChHHHHHHHHHHH---HhcCCeEEEEEccCC--HHHHHHH-HHHhC
Confidence            45799999999999999999876433   112346788876443  3444433 34443

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.

>PF08298 AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 This is entry is found at the N terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length

Probab=94.88  E-value=0.05  Score=51.69  Aligned_cols=46  Identities=24%  Similarity=0.341  Sum_probs=40.5

Q ss_pred             cccccchHHHHHHHHHhhc------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|.++.++++++.+..      ..-+|+-++|+.|.||||||..+.+-.
T Consensus        61 ~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~~l  112 (358)
T PF08298_consen   61 DEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKRGL  112 (358)
T ss_pred             ccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHHHh
Confidence            5789999999999998863      256899999999999999999999855

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51

Probab=94.87  E-value=0.1  Score=48.00  Aligned_cols=56  Identities=21%  Similarity=0.302  Sum_probs=40.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCC----CCCEEEEEEeCCCCCHHHHHHHHHHHh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPN----YFDVVIWAVASKVVEIEKIQESIAKKI  213 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~----~F~~~~wv~vs~~~~~~~l~~~i~~~l  213 (405)
                      .-.++=|+|.+|+|||.|+..+.-.. ....    .=..++|++-...|+...+. +|++..
T Consensus        37 ~g~itEi~G~~gsGKTql~l~l~~~~-~l~~~~~g~~~~vvyidTe~~f~~~Rl~-~i~~~~   96 (256)
T PF08423_consen   37 TGSITEIVGESGSGKTQLCLQLAVNV-QLPEEIGGLGGKVVYIDTEGTFSPERLQ-QIAERF   96 (256)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHT-TSGGCTTSSSSEEEEEESSSSS-HHHHH-HHHHHT
T ss_pred             CCcEEEEEEecccccchHHHHHHHHh-hcccccccCCCceEEEeCCCCCCHHHHH-HHhhcc
Confidence            45699999999999999998887543 2221    12468999988889887765 455554

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 ....

>COG3899 Predicted ATPase [General function prediction only]

Probab=94.87  E-value=0.083  Score=57.00  Aligned_cols=44  Identities=16%  Similarity=0.315  Sum_probs=38.6

Q ss_pred             cccchHHHHHHHHHhhc---CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          138 IVGLESIFDKLWRCLTE---EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       138 ~vGr~~~~~~l~~~L~~---~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++||+.+++.|...+.+   +...++.+.|.+|||||+|+..|..-.
T Consensus         2 l~GRe~ev~~Ll~~f~~v~~g~~~~~lv~G~sGIGKsalv~ev~~~i   48 (849)
T COG3899           2 LYGRETELAQLLAAFDRVSKGRGEVVLVAGESGIGKSALVNEVHKPI   48 (849)
T ss_pred             CCchHhHHHHHHHHHHHHhCCCeEEEEEeecCCCcHHHHHHHHHHHH
Confidence            68999999999988864   456799999999999999999999844

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=94.83  E-value=0.04  Score=45.56  Aligned_cols=24  Identities=38%  Similarity=0.322  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.|.++|..|+|||||++.+....
T Consensus         2 krimliG~~g~GKTTL~q~L~~~~   25 (143)
T PF10662_consen    2 KRIMLIGPSGSGKTTLAQALNGEE   25 (143)
T ss_pred             ceEEEECCCCCCHHHHHHHHcCCC
Confidence            468899999999999999998854

Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=94.82  E-value=0.044  Score=54.76  Aligned_cols=46  Identities=22%  Similarity=0.289  Sum_probs=39.1

Q ss_pred             cccccchHHHHHHHHHhhcCCc-eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQV-GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|.+..+..|.+.+..+.. +.+.++|+.|+||||+|+.+.+..
T Consensus        17 ~diiGq~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l   63 (451)
T PRK06305         17 SEILGQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKAL   63 (451)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHHHHHHh
Confidence            5689999999999999887654 678899999999999999987744

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=94.82  E-value=0.044  Score=53.12  Aligned_cols=46  Identities=15%  Similarity=0.117  Sum_probs=39.1

Q ss_pred             cccccchHHHHHHHHHhhcCC-ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQ-VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|.+...+.|.+.+..+. .+.+.++|+.|+||+|+|..+.+..
T Consensus        19 ~~iiGq~~~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~~A~~L   65 (365)
T PRK07471         19 TALFGHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFL   65 (365)
T ss_pred             hhccChHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            568999999999999988775 4579999999999999998877643

>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=94.82  E-value=0.024  Score=49.57  Aligned_cols=22  Identities=32%  Similarity=0.315  Sum_probs=20.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043778          160 IGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      |.|.|++|+||||+|+.+....
T Consensus         2 I~i~G~pGsGKst~a~~La~~~   23 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAKKY   23 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            7899999999999999999843

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

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

Probab=94.82  E-value=0.025  Score=50.93  Aligned_cols=24  Identities=33%  Similarity=0.519  Sum_probs=21.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      .-..|+|+|++|+|||||-+.|..
T Consensus        28 ~GEfvsilGpSGcGKSTLLriiAG   51 (248)
T COG1116          28 KGEFVAILGPSGCGKSTLLRLIAG   51 (248)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            346899999999999999999986

>PRK08356 hypothetical protein; Provisional

Probab=94.81  E-value=0.027  Score=49.59  Aligned_cols=22  Identities=32%  Similarity=0.430  Sum_probs=19.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHH
Q 043778          157 VGIIGLYGMGSVGKTTLLILIN  178 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~  178 (405)
                      ..+|+|.|++|+||||+|+.+-
T Consensus         5 ~~~i~~~G~~gsGK~t~a~~l~   26 (195)
T PRK08356          5 KMIVGVVGKIAAGKTTVAKFFE   26 (195)
T ss_pred             cEEEEEECCCCCCHHHHHHHHH
Confidence            3579999999999999999993

>PLN02796 D-glycerate 3-kinase

Probab=94.80  E-value=0.028  Score=53.52  Aligned_cols=26  Identities=31%  Similarity=0.388  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+-+|+|.|..|+|||||++.+....
T Consensus        99 ~pliIGI~G~sGSGKSTLa~~L~~lL  124 (347)
T PLN02796         99 PPLVIGISAPQGCGKTTLVFALVYLF  124 (347)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHh
Confidence            45689999999999999999999855

>PF13245 AAA_19: Part of AAA domain

Probab=94.80  E-value=0.033  Score=40.85  Aligned_cols=24  Identities=25%  Similarity=0.195  Sum_probs=17.5

Q ss_pred             CceEEEEEcCCCCcHHHH-HHHHHh
Q 043778          156 QVGIIGLYGMGSVGKTTL-LILINN  179 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtL-A~~v~~  179 (405)
                      +.++..|.|++|.|||++ +..+..
T Consensus         9 ~~~~~vv~g~pGtGKT~~~~~~i~~   33 (76)
T PF13245_consen    9 GSPLFVVQGPPGTGKTTTLAARIAE   33 (76)
T ss_pred             hCCeEEEECCCCCCHHHHHHHHHHH
Confidence            346788899999999954 444444

>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]

Probab=94.79  E-value=0.024  Score=47.98  Aligned_cols=25  Identities=36%  Similarity=0.583  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+|++|+|..|+|||||...+....
T Consensus         2 ~~Il~ivG~k~SGKTTLie~lv~~L   26 (161)
T COG1763           2 MKILGIVGYKNSGKTTLIEKLVRKL   26 (161)
T ss_pred             CcEEEEEecCCCChhhHHHHHHHHH
Confidence            4699999999999999999998755

>COG0237 CoaE Dephospho-CoA kinase [Coenzyme metabolism]

Probab=94.79  E-value=0.027  Score=49.70  Aligned_cols=23  Identities=35%  Similarity=0.442  Sum_probs=20.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      ..+|+|+|+.|+||||+|+.+-+
T Consensus         2 ~~iIglTG~igsGKStva~~~~~   24 (201)
T COG0237           2 MLIIGLTGGIGSGKSTVAKILAE   24 (201)
T ss_pred             ceEEEEecCCCCCHHHHHHHHHH
Confidence            35899999999999999998876

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=94.78  E-value=0.32  Score=49.66  Aligned_cols=46  Identities=28%  Similarity=0.285  Sum_probs=34.0

Q ss_pred             cchHHHHHHHHHhhc-------------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCC
Q 043778          140 GLESIFDKLWRCLTE-------------EQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYF  188 (405)
Q Consensus       140 Gr~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F  188 (405)
                      |.++-+.+|.+.+.-             ..++-|..+|++|.|||++|+.+.+..   +..|
T Consensus       438 GlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne~---~~nF  496 (693)
T KOG0730|consen  438 GLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANEA---GMNF  496 (693)
T ss_pred             CHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhhh---cCCe
Confidence            466555555544431             257789999999999999999999955   5666

>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=94.78  E-value=0.053  Score=51.39  Aligned_cols=48  Identities=21%  Similarity=0.245  Sum_probs=30.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHH
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQE  207 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~  207 (405)
                      .+++.+.|.|||||||+|-...-..   ......++-|+.....+..+++.
T Consensus         2 ~riv~f~GKGGVGKTT~aaA~A~~l---A~~g~kvLlvStDPAhsL~d~f~   49 (322)
T COG0003           2 TRIVFFTGKGGVGKTTIAAATAVKL---AESGKKVLLVSTDPAHSLGDVFD   49 (322)
T ss_pred             cEEEEEecCCcccHHHHHHHHHHHH---HHcCCcEEEEEeCCCCchHhhhc
Confidence            4789999999999999988854433   12223366666555545544443

>PRK12377 putative replication protein; Provisional

Probab=94.77  E-value=0.022  Score=52.09  Aligned_cols=38  Identities=21%  Similarity=0.128  Sum_probs=29.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEe
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVA  196 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~v  196 (405)
                      +...+.++|.+|+|||.||..+.+..   ......++++++
T Consensus       100 ~~~~l~l~G~~GtGKThLa~AIa~~l---~~~g~~v~~i~~  137 (248)
T PRK12377        100 GCTNFVFSGKPGTGKNHLAAAIGNRL---LAKGRSVIVVTV  137 (248)
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHHHH---HHcCCCeEEEEH
Confidence            34678999999999999999999976   233334566654

>PRK14531 adenylate kinase; Provisional

Probab=94.73  E-value=0.029  Score=48.86  Aligned_cols=24  Identities=17%  Similarity=0.081  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..|.|.|++|+||||+++.+....
T Consensus         3 ~~i~i~G~pGsGKsT~~~~la~~~   26 (183)
T PRK14531          3 QRLLFLGPPGAGKGTQAARLCAAH   26 (183)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            368899999999999999998854

>cd02022 DPCK Dephospho-coenzyme A kinase (DPCK, EC 2

Probab=94.73  E-value=0.024  Score=49.13  Aligned_cols=21  Identities=43%  Similarity=0.564  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q 043778          159 IIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      +|+|+|+.|+||||+++.+.+
T Consensus         1 ii~itG~~gsGKst~~~~l~~   21 (179)
T cd02022           1 IIGLTGGIGSGKSTVAKLLKE   21 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999886

7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis.

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=94.72  E-value=0.029  Score=52.47  Aligned_cols=26  Identities=46%  Similarity=0.640  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|+|+|+.|+||||++..+....
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~~~  218 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAARF  218 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            45799999999999999999887754

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

Probab=94.72  E-value=0.056  Score=47.59  Aligned_cols=42  Identities=26%  Similarity=0.131  Sum_probs=30.5

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHh
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      .+++|-+..+..+.-...+  .+-+.++|++|+|||+||+.+-.
T Consensus         3 ~dI~GQe~aKrAL~iAAaG--~h~lLl~GppGtGKTmlA~~l~~   44 (206)
T PF01078_consen    3 SDIVGQEEAKRALEIAAAG--GHHLLLIGPPGTGKTMLARRLPS   44 (206)
T ss_dssp             CCSSSTHHHHHHHHHHHHC--C--EEEES-CCCTHHHHHHHHHH
T ss_pred             hhhcCcHHHHHHHHHHHcC--CCCeEEECCCCCCHHHHHHHHHH
Confidence            4578877777666655554  36888999999999999999875

This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.

>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=94.72  E-value=0.037  Score=48.00  Aligned_cols=45  Identities=20%  Similarity=0.108  Sum_probs=30.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHHH
Q 043778          159 IIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQES  208 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~  208 (405)
                      ++.|.|++|+|||+||..+.....+   .=..++|++...  +...+.+.
T Consensus         1 ~~li~G~~G~GKT~l~~~~~~~~~~---~g~~v~~~s~e~--~~~~~~~~   45 (187)
T cd01124           1 STLLSGGPGTGKTTFALQFLYAGLA---RGEPGLYVTLEE--SPEELIEN   45 (187)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHHH---CCCcEEEEECCC--CHHHHHHH
Confidence            3678999999999999998664411   114577887654  34444444

A related protein is found in archaea.

>PTZ00088 adenylate kinase 1; Provisional

Probab=94.71  E-value=0.026  Score=50.99  Aligned_cols=23  Identities=35%  Similarity=0.460  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .|.|.|++|+||||+|+.+....
T Consensus         8 rIvl~G~PGsGK~T~a~~La~~~   30 (229)
T PTZ00088          8 KIVLFGAPGVGKGTFAEILSKKE   30 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999998854

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=94.71  E-value=0.044  Score=48.72  Aligned_cols=36  Identities=25%  Similarity=0.159  Sum_probs=28.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAV  195 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~  195 (405)
                      .-.+++|+|..|+|||||++.+....    ....+.+++.
T Consensus        25 ~G~~~~i~G~nGsGKSTLl~~l~G~~----~~~~G~i~~~   60 (210)
T cd03269          25 KGEIFGLLGPNGAGKTTTIRMILGII----LPDSGEVLFD   60 (210)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC----CCCceEEEEC
Confidence            44689999999999999999999743    2345666653

In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=94.71  E-value=0.023  Score=52.07  Aligned_cols=23  Identities=35%  Similarity=0.483  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .|.+.|++|+||||+|+.+....
T Consensus         1 LIvl~G~pGSGKST~a~~La~~l   23 (249)
T TIGR03574         1 LIILTGLPGVGKSTFSKELAKKL   23 (249)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHH
Confidence            37899999999999999998755

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.

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

Probab=94.71  E-value=0.075  Score=47.56  Aligned_cols=53  Identities=26%  Similarity=0.269  Sum_probs=29.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhccC----CCCCCCEEEEEEeCCCCCHHHHHHHHHH
Q 043778          159 IIGLYGMGSVGKTTLLILINNKFLD----EPNYFDVVIWAVASKVVEIEKIQESIAK  211 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~~~----~~~~F~~~~wv~vs~~~~~~~l~~~i~~  211 (405)
                      +..|+|++|.||||++..+.....+    ....-...+-++...+.....++..+..
T Consensus        19 ~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~   75 (236)
T PF13086_consen   19 ITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKK   75 (236)
T ss_dssp             -EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC
T ss_pred             CEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHh
Confidence            7899999999999866555543201    0123344454554555556666666655

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.69  E-value=0.046  Score=56.59  Aligned_cols=46  Identities=22%  Similarity=0.313  Sum_probs=38.9

Q ss_pred             cccccchHHHHHHHHHhhcCC-ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQ-VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|-+..++.|.+.+..+. .+.+.++|+.|+||||+|+.+.+..
T Consensus        16 ~eiiGq~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l   62 (585)
T PRK14950         16 AELVGQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAV   62 (585)
T ss_pred             HHhcCCHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            568999999999988887764 4567899999999999999998754

>PLN02165 adenylate isopentenyltransferase

Probab=94.69  E-value=0.019  Score=54.34  Aligned_cols=30  Identities=17%  Similarity=0.303  Sum_probs=25.2

Q ss_pred             hhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          152 LTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       152 L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.+....+|+|+|+.|+||||||..+....
T Consensus        38 ~~~~~g~iivIiGPTGSGKStLA~~LA~~l   67 (334)
T PLN02165         38 EQNCKDKVVVIMGATGSGKSRLSVDLATRF   67 (334)
T ss_pred             ccCCCCCEEEEECCCCCcHHHHHHHHHHHc
Confidence            345556699999999999999999998854

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

Probab=94.68  E-value=0.049  Score=49.24  Aligned_cols=46  Identities=22%  Similarity=0.267  Sum_probs=36.2

Q ss_pred             cccccchHHHHH---HHHHhhcC------CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDK---LWRCLTEE------QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~---l~~~L~~~------~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +++||-+....+   |++.|.++      .++-|..+|++|.|||-+|+.+.+..
T Consensus       121 ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~  175 (368)
T COG1223         121 DDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEA  175 (368)
T ss_pred             hhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhccc
Confidence            567897766543   45666654      57899999999999999999999955

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=94.68  E-value=0.081  Score=51.22  Aligned_cols=60  Identities=18%  Similarity=0.112  Sum_probs=37.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCC-CCCHHHHHHHHHHHhCCC
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASK-VVEIEKIQESIAKKIGFF  216 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~-~~~~~~l~~~i~~~l~~~  216 (405)
                      ...+++++|+.|+||||++..+.... ........+..++... .....+-++...+.++.+
T Consensus       136 ~g~ii~lvGptGvGKTTtiakLA~~~-~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~  196 (374)
T PRK14722        136 RGGVFALMGPTGVGKTTTTAKLAARC-VMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVP  196 (374)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH-HHhcCCCeEEEEecccccccHHHHHHHHHHHcCCc
Confidence            34699999999999999999998754 1111112455555322 223445555556666543

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=94.68  E-value=0.1  Score=47.25  Aligned_cols=53  Identities=11%  Similarity=-0.006  Sum_probs=36.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHHHHHHHhC
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIG  214 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i~~~l~  214 (405)
                      .-+++.|+|.+|+|||+|+.++....  .+ .=..++|++..+.  +.++.+.+ .+++
T Consensus        24 ~g~~~~i~G~~GsGKt~l~~~~~~~~--~~-~g~~~~y~~~e~~--~~~~~~~~-~~~g   76 (234)
T PRK06067         24 FPSLILIEGDHGTGKSVLSQQFVYGA--LK-QGKKVYVITTENT--SKSYLKQM-ESVK   76 (234)
T ss_pred             CCcEEEEECCCCCChHHHHHHHHHHH--Hh-CCCEEEEEEcCCC--HHHHHHHH-HHCC
Confidence            46799999999999999999985432  11 2247888887654  45555553 3343

>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=94.68  E-value=0.032  Score=47.32  Aligned_cols=24  Identities=38%  Similarity=0.534  Sum_probs=22.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++|+|+|..|+|||||+..+....
T Consensus         2 ~vi~i~G~~gsGKTTli~~L~~~l   25 (159)
T cd03116           2 KVIGFVGYSGSGKTTLLEKLIPAL   25 (159)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            589999999999999999999865

In E. coli, the synthesis of Moco involves genes from several loci: moa, mob, mod, moe and mog. The mob locus contains mobA and mobB genes. MobB catalyzes the attachment of the guanine dinucleotide to molybdopterin.

>PRK13695 putative NTPase; Provisional

Probab=94.67  E-value=0.037  Score=47.65  Aligned_cols=23  Identities=43%  Similarity=0.603  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .|+|+|.+|+|||||++.+++..
T Consensus         2 ~i~ltG~~G~GKTTll~~i~~~l   24 (174)
T PRK13695          2 KIGITGPPGVGKTTLVLKIAELL   24 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            47899999999999999998865

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=94.67  E-value=0.027  Score=47.36  Aligned_cols=23  Identities=26%  Similarity=0.339  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      -|+++|.+|+|||||+..+.+..
T Consensus         2 ki~~~G~~~~GKTsl~~~l~~~~   24 (164)
T cd04139           2 KVIVVGAGGVGKSALTLQFMYDE   24 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47899999999999999998643

The Ral (Ras-like) subfamily consists of the highly homologous RalA and RalB. Ral proteins are believed to play a crucial role in tumorigenesis, metastasis, endocytosis, and actin cytoskeleton dynamics. Despite their high sequence similarity (80% sequence identity), nonoverlapping and opposing functions have been assigned to RalA and RalBs in tumor migration. In human bladder and prostate cancer cells, RalB promotes migration while RalA inhibits it. A Ral-specific set of GEFs has been identified that are activated by Ras binding. This RalGEF activity is enhanced by Ras binding to another of its target proteins, phosphatidylinositol 3-kinase (PI3K). Ral effectors include RLIP76/RalBP1, a Rac/cdc42 GAP, and the exocyst (Sec6/8) complex, a heterooctomeric protein complex that is involved in tethering vesicles to specific sites on the plasma membrane prior to exocytosis. In rat kidney cells, RalB is required for functional assembly of the exo

>PRK01184 hypothetical protein; Provisional

Probab=94.66  E-value=0.027  Score=48.94  Aligned_cols=21  Identities=38%  Similarity=0.529  Sum_probs=18.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q 043778          158 GIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      .+|+|+|++|+||||+|+ +..
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

>PLN02318 phosphoribulokinase/uridine kinase

Probab=94.66  E-value=0.039  Score=56.04  Aligned_cols=26  Identities=23%  Similarity=0.339  Sum_probs=23.4

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          155 EQVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       155 ~~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ++..+|+|.|++|+||||||+.+...
T Consensus        63 ~~riIIGIaGpSGSGKTTLAk~Lagl   88 (656)
T PLN02318         63 DGIILVGVAGPSGAGKTVFTEKVLNF   88 (656)
T ss_pred             CCeEEEEEECCCCCcHHHHHHHHHhh
Confidence            36789999999999999999999874

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=94.65  E-value=0.028  Score=50.01  Aligned_cols=26  Identities=31%  Similarity=0.425  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.+++|+|+.|+|||||++.+....
T Consensus        26 ~G~~~~l~G~nGsGKSTLl~~l~G~~   51 (211)
T cd03225          26 KGEFVLIVGPNGSGKSTLLRLLNGLL   51 (211)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            34699999999999999999999743

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

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

Probab=94.63  E-value=0.027  Score=46.49  Aligned_cols=22  Identities=27%  Similarity=0.229  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q 043778          158 GIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      .-|.|.|.+|+|||||+..+..
T Consensus         8 PNILvtGTPG~GKstl~~~lae   29 (176)
T KOG3347|consen    8 PNILVTGTPGTGKSTLAERLAE   29 (176)
T ss_pred             CCEEEeCCCCCCchhHHHHHHH
Confidence            3578999999999999999986

>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE)

Probab=94.61  E-value=0.029  Score=50.24  Aligned_cols=35  Identities=17%  Similarity=0.177  Sum_probs=27.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||++.+..-.    ....+.+++
T Consensus        29 ~G~~~~l~G~nGsGKSTLl~~i~Gl~----~~~~G~i~~   63 (218)
T cd03255          29 KGEFVAIVGPSGSGKSTLLNILGGLD----RPTSGEVRV   63 (218)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCc----CCCceeEEE
Confidence            34699999999999999999999743    223455555

They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.

>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=94.60  E-value=0.04  Score=48.69  Aligned_cols=52  Identities=15%  Similarity=0.121  Sum_probs=33.7

Q ss_pred             chHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEE
Q 043778          141 LESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAV  195 (405)
Q Consensus       141 r~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~  195 (405)
                      +...-...++.|.  ...++.+.|++|.|||.||....-+. -....|+..+++.
T Consensus         5 ~~~~Q~~~~~al~--~~~~v~~~G~AGTGKT~LA~a~Al~~-v~~g~~~kiii~R   56 (205)
T PF02562_consen    5 KNEEQKFALDALL--NNDLVIVNGPAGTGKTFLALAAALEL-VKEGEYDKIIITR   56 (205)
T ss_dssp             -SHHHHHHHHHHH--H-SEEEEE--TTSSTTHHHHHHHHHH-HHTTS-SEEEEEE
T ss_pred             CCHHHHHHHHHHH--hCCeEEEECCCCCcHHHHHHHHHHHH-HHhCCCcEEEEEe
Confidence            3444455566666  45699999999999999999887654 2347788777764

; GO: 0005524 ATP binding; PDB: 3B85_A.

>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]

Probab=94.59  E-value=0.033  Score=46.87  Aligned_cols=23  Identities=30%  Similarity=0.427  Sum_probs=20.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      .+++.|+|-+|+||||+.+.+-.
T Consensus         4 ~kvvvitGVpGvGKTTVl~~~~~   26 (189)
T COG2019           4 RKVVVITGVPGVGKTTVLKIALK   26 (189)
T ss_pred             ceEEEEEcCCCCChHHHHHHHHH
Confidence            57999999999999999887776

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

Probab=94.59  E-value=0.062  Score=47.36  Aligned_cols=35  Identities=26%  Similarity=0.280  Sum_probs=26.8

Q ss_pred             HHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          147 KLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       147 ~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.+..+..++-++..|.|++|.||||++..+....
T Consensus         8 ~a~~~~l~~~~~~~~l~G~aGtGKT~~l~~~~~~~   42 (196)
T PF13604_consen    8 EAVRAILTSGDRVSVLQGPAGTGKTTLLKALAEAL   42 (196)
T ss_dssp             HHHHHHHHCTCSEEEEEESTTSTHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCeEEEEEECCCCCHHHHHHHHHHHH
Confidence            34444544555789999999999999999987755

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=94.59  E-value=0.053  Score=50.39  Aligned_cols=26  Identities=35%  Similarity=0.526  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.++|+++|++|+||||++..+....
T Consensus        71 ~~~vi~l~G~~G~GKTTt~akLA~~l   96 (272)
T TIGR00064        71 KPNVILFVGVNGVGKTTTIAKLANKL   96 (272)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            56899999999999999888887755

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

>TIGR00750 lao LAO/AO transport system ATPase

Probab=94.58  E-value=0.065  Score=50.59  Aligned_cols=37  Identities=22%  Similarity=0.326  Sum_probs=28.2

Q ss_pred             HHHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          145 FDKLWRCLTE--EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       145 ~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+++.+..  +...+|+|+|++|+|||||+..+....
T Consensus        20 ~~~~~~~~~~~~~~~~~i~i~G~~G~GKttl~~~l~~~~   58 (300)
T TIGR00750        20 AKQLLDRIMPYTGNAHRVGITGTPGAGKSTLLEALGMEL   58 (300)
T ss_pred             HHHHHHhCCcccCCceEEEEECCCCCCHHHHHHHHHHHH
Confidence            3445544432  367899999999999999999988755

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.

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=94.58  E-value=0.031  Score=47.89  Aligned_cols=24  Identities=25%  Similarity=0.286  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.|.|+|++|+||||+|+.+.+..
T Consensus         3 ~~i~~~G~~GsGKst~~~~la~~l   26 (171)
T PRK03731          3 QPLFLVGARGCGKTTVGMALAQAL   26 (171)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            358889999999999999999854

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=94.58  E-value=0.026  Score=50.36  Aligned_cols=24  Identities=42%  Similarity=0.343  Sum_probs=21.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-|+|+|++|+|||||+..+.++.
T Consensus         6 ~kivv~G~~g~GKTtl~~~l~~~~   29 (219)
T COG1100           6 FKIVVLGDGGVGKTTLLNRLVGDE   29 (219)
T ss_pred             EEEEEEcCCCccHHHHHHHHhcCc
Confidence            468899999999999999999754

>PRK13235 nifH nitrogenase reductase; Reviewed

Probab=94.58  E-value=0.029  Score=52.22  Aligned_cols=24  Identities=25%  Similarity=0.425  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++|+|.|.||+||||++..+..-.
T Consensus         2 ~~iav~~KGGVGKTT~~~nLA~~L   25 (274)
T PRK13235          2 RKVAIYGKGGIGKSTTTQNTVAGL   25 (274)
T ss_pred             CEEEEeCCCCccHHHHHHHHHHHH
Confidence            589999999999999998877644

>cd02026 PRK Phosphoribulokinase (PRK) is an enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes

Probab=94.57  E-value=0.026  Score=52.42  Aligned_cols=23  Identities=39%  Similarity=0.622  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +|+|.|..|+|||||++.+....
T Consensus         1 iigI~G~sGsGKSTl~~~L~~ll   23 (273)
T cd02026           1 IIGVAGDSGCGKSTFLRRLTSLF   23 (273)
T ss_pred             CEEEECCCCCCHHHHHHHHHHhh
Confidence            58999999999999999998744

This enzyme catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH produced by the primary reactions of photosynthesis.

>PRK15453 phosphoribulokinase; Provisional

Probab=94.57  E-value=0.034  Score=51.35  Aligned_cols=26  Identities=27%  Similarity=0.358  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|+|.|.+|+||||+|+.+.+..
T Consensus         4 k~piI~ItG~SGsGKTTva~~l~~if   29 (290)
T PRK15453          4 KHPIIAVTGSSGAGTTTVKRAFEKIF   29 (290)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            45699999999999999999988644

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

Probab=94.56  E-value=0.033  Score=44.32  Aligned_cols=21  Identities=33%  Similarity=0.585  Sum_probs=19.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 043778          160 IGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~  180 (405)
                      |+|+|++|+|||||...+.+.
T Consensus         2 V~iiG~~~~GKSTlin~l~~~   22 (116)
T PF01926_consen    2 VAIIGRPNVGKSTLINALTGK   22 (116)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhcc
Confidence            789999999999999999973

These proteins represent a new subfamily of GTP-binding proteins that has both prokaryote and eukaryote members [].; GO: 0005525 GTP binding, 0005622 intracellular; PDB: 2DWQ_B 2DBY_A 3CNN_A 3CNO_A 3CNL_A 3IBY_A 1PUI_B 1WXQ_A 1LNZ_A 3GEE_A ....

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=94.56  E-value=0.03  Score=50.07  Aligned_cols=35  Identities=26%  Similarity=0.138  Sum_probs=27.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||++.+..-.    ....+.+++
T Consensus        28 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~----~~~~G~i~~   62 (216)
T TIGR00960        28 KGEMVFLVGHSGAGKSTFLKLILGIE----KPTRGKIRF   62 (216)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC----CCCceEEEE
Confidence            34699999999999999999999743    234566655

>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment

Probab=94.56  E-value=0.032  Score=48.32  Aligned_cols=35  Identities=29%  Similarity=0.186  Sum_probs=26.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||++.+....    ....+.+.+
T Consensus        25 ~G~~~~i~G~nGsGKSTLl~~l~G~~----~~~~G~i~~   59 (178)
T cd03229          25 AGEIVALLGPSGSGKSTLLRCIAGLE----EPDSGSILI   59 (178)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC----CCCceEEEE
Confidence            44699999999999999999999743    233455554

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=94.54  E-value=0.032  Score=49.91  Aligned_cols=36  Identities=19%  Similarity=0.152  Sum_probs=26.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAV  195 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~  195 (405)
                      .-..++|+|++|+|||||...+..-.    ..=.+.+++.
T Consensus        30 ~Ge~vaI~GpSGSGKSTLLniig~ld----~pt~G~v~i~   65 (226)
T COG1136          30 AGEFVAIVGPSGSGKSTLLNLLGGLD----KPTSGEVLIN   65 (226)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccc----CCCCceEEEC
Confidence            34589999999999999999888633    2233555554

>cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin

Probab=94.54  E-value=0.051  Score=48.73  Aligned_cols=36  Identities=22%  Similarity=0.237  Sum_probs=28.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAV  195 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~  195 (405)
                      .-.+++|+|..|+|||||.+.+....    ....+.+++.
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~i~G~~----~~~~G~i~~~   60 (220)
T cd03265          25 RGEIFGLLGPNGAGKTTTIKMLTTLL----KPTSGRATVA   60 (220)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC----CCCceEEEEC
Confidence            34699999999999999999999743    3345666653

In addition to DrrA, the complex includes an integral membrane protein called DrrB. DrrA belongs to the ABC family of transporters and shares sequence and functional similarities with a protein found in cancer cells called P-glycoprotein. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=94.54  E-value=0.031  Score=48.89  Aligned_cols=35  Identities=23%  Similarity=0.360  Sum_probs=26.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||.+.+....    ....+.+++
T Consensus        17 ~Ge~~~i~G~nGsGKSTLl~~i~G~~----~~~~G~i~~   51 (190)
T TIGR01166        17 RGEVLALLGANGAGKSTLLLHLNGLL----RPQSGAVLI   51 (190)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC----CCCceeEEE
Confidence            34689999999999999999998743    223455554

This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=94.54  E-value=0.032  Score=54.01  Aligned_cols=26  Identities=42%  Similarity=0.512  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.++|+++|++|+||||++..+....
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~~L  265 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAWQF  265 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHHH
Confidence            45799999999999999999998755

>PRK13233 nifH nitrogenase reductase; Reviewed

Probab=94.53  E-value=0.03  Score=52.14  Aligned_cols=24  Identities=29%  Similarity=0.468  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++|+|.|.|||||||+|..+..-.
T Consensus         3 ~vIav~~KGGVGKTT~a~nLA~~L   26 (275)
T PRK13233          3 RKIAIYGKGGIGKSTTTQNTAAAM   26 (275)
T ss_pred             eEEEEEcCCCCcHHHHHHHHHHHH
Confidence            689999999999999999876644

>TIGR00602 rad24 checkpoint protein rad24

Probab=94.52  E-value=0.047  Score=56.53  Aligned_cols=46  Identities=13%  Similarity=0.226  Sum_probs=38.1

Q ss_pred             cccccchHHHHHHHHHhhcC-----CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEE-----QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~-----~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++++|.+..++++..++...     ..+++.|+|++|+||||+++.+.+..
T Consensus        84 del~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l  134 (637)
T TIGR00602        84 HELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKEL  134 (637)
T ss_pred             HHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            56889888889988888653     33579999999999999999998744

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

>smart00072 GuKc Guanylate kinase homologues

Probab=94.51  E-value=0.045  Score=47.63  Aligned_cols=24  Identities=38%  Similarity=0.322  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .+.|.|+|++|+||+||+..+...
T Consensus         2 ~r~ivl~Gpsg~GK~tl~~~L~~~   25 (184)
T smart00072        2 RRPIVLSGPSGVGKGTLLAELIQE   25 (184)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHhc
Confidence            368999999999999999999884

Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.

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

Probab=94.50  E-value=0.079  Score=54.48  Aligned_cols=52  Identities=27%  Similarity=0.272  Sum_probs=41.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHHHHHHHh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKI  213 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i~~~l  213 (405)
                      .-+|..+.|++|+||||||..|.++.     -| .++=|..|+.-+...+-..|...+
T Consensus       325 ~kKilLL~GppGlGKTTLAHViAkqa-----GY-sVvEINASDeRt~~~v~~kI~~av  376 (877)
T KOG1969|consen  325 PKKILLLCGPPGLGKTTLAHVIAKQA-----GY-SVVEINASDERTAPMVKEKIENAV  376 (877)
T ss_pred             ccceEEeecCCCCChhHHHHHHHHhc-----Cc-eEEEecccccccHHHHHHHHHHHH
Confidence            46799999999999999999999855     22 466677888877777777776665

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=94.49  E-value=0.14  Score=48.76  Aligned_cols=58  Identities=19%  Similarity=0.236  Sum_probs=40.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCC----CCCCEEEEEEeCCCCCHHHHHHHHHHHhCC
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEP----NYFDVVIWAVASKVVEIEKIQESIAKKIGF  215 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~----~~F~~~~wv~vs~~~~~~~l~~~i~~~l~~  215 (405)
                      ...++.|.|.+|+|||+|+..+.... ...    ..-..++|++....++...+ ..+++.++.
T Consensus        95 ~g~i~~i~G~~g~GKT~l~~~~~~~~-~~~~~~Gg~~~~vvyIdtE~~f~~~Rl-~~ia~~~~~  156 (316)
T TIGR02239        95 TGSITEIFGEFRTGKTQLCHTLAVTC-QLPIDQGGGEGKALYIDTEGTFRPERL-LAIAERYGL  156 (316)
T ss_pred             CCeEEEEECCCCCCcCHHHHHHHHHH-hhhhhcCCCCceEEEEECCCCCCHHHH-HHHHHHcCC
Confidence            46799999999999999999887533 111    11235799998877787764 334555543

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).

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=94.49  E-value=0.036  Score=48.62  Aligned_cols=24  Identities=29%  Similarity=0.356  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..|+|.|..|+||||+++.+.+..
T Consensus         4 ~~IvieG~~GsGKsT~~~~L~~~l   27 (195)
T TIGR00041         4 MFIVIEGIDGAGKTTQANLLKKLL   27 (195)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            579999999999999999999865

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.

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

Probab=94.49  E-value=0.032  Score=54.75  Aligned_cols=27  Identities=33%  Similarity=0.385  Sum_probs=24.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          155 EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       155 ~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+.|+|+|..|+|||||+..+.+..
T Consensus       217 ~~~~~IvI~G~~gsGKTTL~~~La~~~  243 (399)
T PRK08099        217 FFVRTVAILGGESSGKSTLVNKLANIF  243 (399)
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHHh
Confidence            367899999999999999999999854

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=94.49  E-value=0.034  Score=52.38  Aligned_cols=24  Identities=29%  Similarity=0.187  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+|.+.|++|+||||+|+.+....
T Consensus         3 ~liil~G~pGSGKSTla~~L~~~~   26 (300)
T PHA02530          3 KIILTVGVPGSGKSTWAREFAAKN   26 (300)
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHHC
Confidence            578899999999999999998743

>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional

Probab=94.48  E-value=0.034  Score=51.65  Aligned_cols=24  Identities=25%  Similarity=0.508  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++|+|+|.+|+|||||+..+....
T Consensus         2 ~~i~i~G~~gSGKTTLi~~Li~~L   25 (274)
T PRK14493          2 KVLSIVGYKATGKTTLVERLVDRL   25 (274)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHH
Confidence            589999999999999999999876

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=94.47  E-value=2.1  Score=45.45  Aligned_cols=58  Identities=17%  Similarity=0.148  Sum_probs=35.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCC--HHHHHHHHHHHhCCC
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVE--IEKIQESIAKKIGFF  216 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~--~~~l~~~i~~~l~~~  216 (405)
                      ..+|+++|+.|+||||.+..+.... ........+..++.. .+.  ..+-++...+.++.+
T Consensus       185 g~Vi~lVGpnGvGKTTTiaKLA~~~-~~~~G~kkV~lit~D-t~RigA~eQL~~~a~~~gvp  244 (767)
T PRK14723        185 GGVLALVGPTGVGKTTTTAKLAARC-VAREGADQLALLTTD-SFRIGALEQLRIYGRILGVP  244 (767)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHhhH-HHHcCCCeEEEecCc-ccchHHHHHHHHHHHhCCCC
Confidence            4799999999999999888887643 211111234444432 333  445566666666554

>PRK05973 replicative DNA helicase; Provisional

Probab=94.46  E-value=0.15  Score=46.26  Aligned_cols=49  Identities=10%  Similarity=0.021  Sum_probs=33.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHHHH
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESI  209 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i  209 (405)
                      .-.++.|.|.+|+|||+||.++.... - +. =..++|++...+  ..++...+
T Consensus        63 ~Gsl~LIaG~PG~GKT~lalqfa~~~-a-~~-Ge~vlyfSlEes--~~~i~~R~  111 (237)
T PRK05973         63 PGDLVLLGARPGHGKTLLGLELAVEA-M-KS-GRTGVFFTLEYT--EQDVRDRL  111 (237)
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHH-H-hc-CCeEEEEEEeCC--HHHHHHHH
Confidence            44689999999999999999976644 1 12 235677765543  45555554

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=94.45  E-value=0.034  Score=42.08  Aligned_cols=23  Identities=39%  Similarity=0.535  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++.+.|.+|+||||++..+....
T Consensus         1 ~~~~~g~~G~Gktt~~~~l~~~l   23 (99)
T cd01983           1 VIVVTGKGGVGKTTLAANLAAAL   23 (99)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            47889999999999999998765

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.

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

Probab=94.45  E-value=0.03  Score=52.07  Aligned_cols=72  Identities=15%  Similarity=0.083  Sum_probs=43.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCC--CCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCcccHHHHHHHHHH
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKFLDEPN--YFDVVIWAVASKVVEIEKIQESIAKKIGFFNESWESKTVQEKAVDIFN  234 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~--~F~~~~wv~vs~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  234 (405)
                      -++|.++|++|.|||+|.+.+++.. .++.  .+.....+.+    +-..+..+.++.-        ......+-..|.+
T Consensus       177 NRliLlhGPPGTGKTSLCKaLaQkL-SIR~~~~y~~~~liEi----nshsLFSKWFsES--------gKlV~kmF~kI~E  243 (423)
T KOG0744|consen  177 NRLILLHGPPGTGKTSLCKALAQKL-SIRTNDRYYKGQLIEI----NSHSLFSKWFSES--------GKLVAKMFQKIQE  243 (423)
T ss_pred             eeEEEEeCCCCCChhHHHHHHHHhh-eeeecCccccceEEEE----ehhHHHHHHHhhh--------hhHHHHHHHHHHH
Confidence            5789999999999999999999977 6542  2322222322    2334444443332        2234555566666


Q ss_pred             HHcccch
Q 043778          235 ILSKKKY  241 (405)
Q Consensus       235 ~L~~kr~  241 (405)
                      .+.++..
T Consensus       244 Lv~d~~~  250 (423)
T KOG0744|consen  244 LVEDRGN  250 (423)
T ss_pred             HHhCCCc
Confidence            6666554

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

Probab=94.45  E-value=0.056  Score=53.59  Aligned_cols=45  Identities=18%  Similarity=0.223  Sum_probs=34.8

Q ss_pred             ccccch---HHHHHHHHHhhcC---------CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          137 TIVGLE---SIFDKLWRCLTEE---------QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       137 ~~vGr~---~~~~~l~~~L~~~---------~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++-|-+   .+++++++.|.++         =++-|.++|++|.|||-||++|....
T Consensus       305 dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA  361 (752)
T KOG0734|consen  305 DVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEA  361 (752)
T ss_pred             cccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhccc
Confidence            345655   4567778888764         25678999999999999999998755

>TIGR00017 cmk cytidylate kinase

Probab=94.43  E-value=0.036  Score=49.63  Aligned_cols=24  Identities=29%  Similarity=0.419  Sum_probs=21.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+|+|.|+.|+||||+|+.+....
T Consensus         3 ~~i~i~G~~GsGKst~~~~la~~~   26 (217)
T TIGR00017         3 MIIAIDGPSGAGKSTVAKAVAEKL   26 (217)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            479999999999999999999854

This family consists of cytidylate kinase, which catalyzes the phosphorylation of cytidine 5-monophosphate (dCMP) to cytidine 5 -diphosphate (dCDP) in the presence of ATP or GTP. UMP and dCMP can also act as acceptors.

>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=94.41  E-value=0.035  Score=48.01  Aligned_cols=24  Identities=21%  Similarity=0.120  Sum_probs=21.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      .-.+++|+|+.|+|||||.+.+..
T Consensus        20 ~G~~~~l~G~nG~GKSTLl~~il~   43 (176)
T cd03238          20 LNVLVVVTGVSGSGKSTLVNEGLY   43 (176)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhh
Confidence            446999999999999999999864

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.

>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=94.40  E-value=0.035  Score=48.04  Aligned_cols=26  Identities=27%  Similarity=0.520  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.+++|+|+.|+|||||.+.+..-.
T Consensus        24 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   49 (177)
T cd03222          24 EGEVIGIVGPNGTGKTTAVKILAGQL   49 (177)
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcCC
Confidence            44699999999999999999998743

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.

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=94.39  E-value=0.034  Score=50.77  Aligned_cols=36  Identities=22%  Similarity=0.217  Sum_probs=27.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAV  195 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~  195 (405)
                      .-.+++|+|+.|+|||||.+.++.-.    ..-.+.+++.
T Consensus        27 ~G~i~~iiGpNG~GKSTLLk~l~g~l----~p~~G~V~l~   62 (258)
T COG1120          27 KGEITGILGPNGSGKSTLLKCLAGLL----KPKSGEVLLD   62 (258)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhccC----CCCCCEEEEC
Confidence            45799999999999999999999743    2334566653

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.39  E-value=0.059  Score=55.98  Aligned_cols=46  Identities=22%  Similarity=0.244  Sum_probs=39.3

Q ss_pred             cccccchHHHHHHHHHhhcCC-ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQ-VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|.+.....|.+++..+. .+.+.++|+.|+||||+|+.+.+..
T Consensus        16 ~~liGq~~i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~lAk~L   62 (620)
T PRK14948         16 DELVGQEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARILAKSL   62 (620)
T ss_pred             hhccChHHHHHHHHHHHHcCCCCceEEEECCCCCChHHHHHHHHHHh
Confidence            457999999999999988764 3678899999999999999998755

>PRK13231 nitrogenase reductase-like protein; Reviewed

Probab=94.38  E-value=0.034  Score=51.41  Aligned_cols=36  Identities=22%  Similarity=0.398  Sum_probs=26.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeC
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVAS  197 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs  197 (405)
                      ++|+|.|.||+||||++..+.... ...   ..++-++..
T Consensus         3 ~~iav~~KGGvGKTT~a~nLA~~L-a~~---GrVLliD~D   38 (264)
T PRK13231          3 KKIAIYGKGGIGKSTTVSNMAAAY-SND---HRVLVIGCD   38 (264)
T ss_pred             eEEEEECCCCCcHHHHHHHHhccc-CCC---CEEEEEeEc
Confidence            589999999999999999998865 222   235555554

>cd01862 Rab7 Rab7 subfamily

Probab=94.38  E-value=0.033  Score=47.40  Aligned_cols=22  Identities=36%  Similarity=0.416  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 043778          159 IIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      -|+|+|.+|+|||||+..+.+.
T Consensus         2 ki~viG~~~~GKSsl~~~l~~~   23 (172)
T cd01862           2 KVIILGDSGVGKTSLMNQYVNK   23 (172)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3789999999999999998874

Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway. The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion. Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=94.38  E-value=0.035  Score=49.51  Aligned_cols=35  Identities=26%  Similarity=0.207  Sum_probs=27.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||++.+..-.    ....+.+++
T Consensus        27 ~G~~~~l~G~nGsGKSTLl~~i~Gl~----~~~~G~i~~   61 (214)
T TIGR02673        27 KGEFLFLTGPSGAGKTTLLKLLYGAL----TPSRGQVRI   61 (214)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC----CCCCceEEE
Confidence            34699999999999999999998743    234566665

This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.37  E-value=0.064  Score=54.10  Aligned_cols=46  Identities=17%  Similarity=0.224  Sum_probs=38.5

Q ss_pred             cccccchHHHHHHHHHhhcCC-ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQ-VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|-+.....|.+.+..+. .+.+.++|+.|+||||+|+.+....
T Consensus        16 ~diiGq~~i~~~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr~lAk~L   62 (486)
T PRK14953         16 KEVIGQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARILAKVL   62 (486)
T ss_pred             HHccChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            457899999999999998764 4567889999999999999987743

>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=94.37  E-value=0.051  Score=51.37  Aligned_cols=47  Identities=17%  Similarity=0.210  Sum_probs=29.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHH
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQE  207 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~  207 (405)
                      +++.+.|.||+||||+|-...-...+ +.  ..++-++.....+..+++.
T Consensus         2 r~~~~~GKGGVGKTT~aaA~A~~~A~-~G--~rtLlvS~Dpa~~L~d~l~   48 (305)
T PF02374_consen    2 RILFFGGKGGVGKTTVAAALALALAR-RG--KRTLLVSTDPAHSLSDVLG   48 (305)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHHH-TT--S-EEEEESSTTTHHHHHHT
T ss_pred             eEEEEecCCCCCcHHHHHHHHHHHhh-CC--CCeeEeecCCCccHHHHhC
Confidence            57899999999999998766543312 22  2355556555555555443

...

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=94.37  E-value=0.035  Score=49.74  Aligned_cols=35  Identities=26%  Similarity=0.373  Sum_probs=26.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||++.+..-.    ....+.+++
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~----~~~~G~i~~   61 (220)
T cd03263          27 KGEIFGLLGHNGAGKTTTLKMLTGEL----RPTSGTAYI   61 (220)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC----CCCCcEEEE
Confidence            34599999999999999999999743    233455554

Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency, degenerative retinopathies, and congenital keratinization disorders. The ABCA1 protein is involved in disorders of cholesterol transport and high-density lipoprotein (HDL) biosynthesis. The ABCA4 (ABCR) protein transports vitamin A derivatives in the outer segments of photoreceptor cells, and therefore, performs a crucial step in the visual cycle. The ABCA genes are not present in yeast. However, evolutionary studies of ABCA genes indicate that they arose as transporters that subsequently duplicated and that certain sets of ABCA genes were lost in different eukaryotic lineages.

>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=94.37  E-value=0.035  Score=50.38  Aligned_cols=26  Identities=35%  Similarity=0.466  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.+++|+|+.|+|||||++.+....
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l~G~~   50 (235)
T cd03261          25 RGEILAIIGPSGSGKSTLLRLIVGLL   50 (235)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999999743

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.

>PRK02496 adk adenylate kinase; Provisional

Probab=94.36  E-value=0.04  Score=47.90  Aligned_cols=23  Identities=17%  Similarity=0.296  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .|.|.|++|+||||+|+.+....
T Consensus         3 ~i~i~G~pGsGKst~a~~la~~~   25 (184)
T PRK02496          3 RLIFLGPPGAGKGTQAVVLAEHL   25 (184)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48899999999999999998744

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=94.36  E-value=0.04  Score=52.35  Aligned_cols=26  Identities=31%  Similarity=0.411  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +..+|+++|++|+||||++..+....
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~l  138 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHKY  138 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            46899999999999999999998765

>PRK00698 tmk thymidylate kinase; Validated

Probab=94.36  E-value=0.039  Score=48.70  Aligned_cols=24  Identities=25%  Similarity=0.430  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+|+|.|+.|+||||+++.+.+..
T Consensus         4 ~~I~ieG~~gsGKsT~~~~L~~~l   27 (205)
T PRK00698          4 MFITIEGIDGAGKSTQIELLKELL   27 (205)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            689999999999999999998855

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

Probab=94.36  E-value=0.031  Score=46.89  Aligned_cols=20  Identities=20%  Similarity=0.335  Sum_probs=18.4

Q ss_pred             EEcCCCCcHHHHHHHHHhhc
Q 043778          162 LYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       162 I~G~~GiGKTtLA~~v~~~~  181 (405)
                      |+|++|+||||+|+.+....
T Consensus         1 i~G~PgsGK~t~~~~la~~~   20 (151)
T PF00406_consen    1 ILGPPGSGKGTQAKRLAKRY   20 (151)
T ss_dssp             EEESTTSSHHHHHHHHHHHH
T ss_pred             CcCCCCCChHHHHHHHHHhc
Confidence            68999999999999999855

Two ADK isozymes have been identified in mammalian cells. These specifically bind AMP and favour binding to ATP over other nucleotide triphosphates (AK1 is cytosolic and AK2 is located in the mitochondria). A third ADK has been identified in bovine heart and human cells [], this is a mitochondrial GTP:AMP phosphotransferase, also specific for the phosphorylation of AMP, but can only use GTP or ITP as a substrate []. ADK has also been identified in different bacterial species and in yeast []. Two further enzymes are known to be related to the ADK family, i.e. yeast uridine monophosphokinase and slime mold UMP-CMP kinase. Within the ADK family there are several conserved regions, including the ATP-binding domains. One of the most conserved areas includes an Arg residue, whose modification inactivates the enzyme, together with an Asp that resides in the catalytic cleft of the enzyme and participates in a salt bridge.; GO: 0005524 ATP binding, 0019205 nucleobase-containing compound kinase activity, 0006139 nucleobase-containing compound metabolic process; PDB: 1ZD8_A 3TLX_D 1TEV_A 1ZAK_B 3CM0_A 3ADK_A 1ZIP_A 1ZIO_A 1ZIN_A 3NDP_A ....

>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]

Probab=94.36  E-value=0.043  Score=46.80  Aligned_cols=28  Identities=25%  Similarity=0.197  Sum_probs=23.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhccCCCCCC
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKFLDEPNYF  188 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F  188 (405)
                      .-|.++||.|+||||+.+.+.+..   .-+|
T Consensus         3 ~~IvLiG~mGaGKSTIGr~LAk~L---~~~F   30 (172)
T COG0703           3 MNIVLIGFMGAGKSTIGRALAKAL---NLPF   30 (172)
T ss_pred             ccEEEEcCCCCCHhHHHHHHHHHc---CCCc
Confidence            347889999999999999999855   4455

>TIGR01351 adk adenylate kinases

Probab=94.35  E-value=0.036  Score=49.39  Aligned_cols=22  Identities=32%  Similarity=0.342  Sum_probs=19.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043778          160 IGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      |.|.|++|+||||+|+.+....
T Consensus         2 I~i~G~pGsGKsT~a~~La~~~   23 (210)
T TIGR01351         2 LVLLGPPGSGKGTQAKRIAEKY   23 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            7889999999999999998744

Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=94.35  E-value=0.073  Score=52.11  Aligned_cols=24  Identities=25%  Similarity=0.270  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ..++.++|++|+||||++..+...
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~~  246 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAAK  246 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999998764

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=94.35  E-value=0.035  Score=50.60  Aligned_cols=35  Identities=26%  Similarity=0.238  Sum_probs=26.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||++.+..-.    ....+.+++
T Consensus        27 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~----~~~~G~i~~   61 (243)
T TIGR02315        27 PGEFVAIIGPSGAGKSTLLRCINRLV----EPSSGSILL   61 (243)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCc----CCCccEEEE
Confidence            34699999999999999999998743    223455554

Phosphonates are a class of phosphorus-containing organic compound with a stable direct C-P bond rather than a C-O-P linkage. A number of bacterial species have operons, typically about 14 genes in size, with genes for ATP-dependent transport of phosphonates, degradation, and regulation of the expression of the system. Members of this protein family are the ATP-binding cassette component of tripartite ABC transporters of phosphonates.

>PRK13768 GTPase; Provisional

Probab=94.35  E-value=0.039  Score=50.74  Aligned_cols=24  Identities=29%  Similarity=0.340  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .++.|.|++|+||||++..+....
T Consensus         3 ~~i~v~G~~G~GKTt~~~~~~~~l   26 (253)
T PRK13768          3 YIVFFLGTAGSGKTTLTKALSDWL   26 (253)
T ss_pred             EEEEEECCCCccHHHHHHHHHHHH
Confidence            578999999999999998887655

>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=94.34  E-value=0.04  Score=47.36  Aligned_cols=23  Identities=35%  Similarity=0.387  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++.++|++|+||||++..+....
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~   24 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYL   24 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            78899999999999999988754

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.

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=94.32  E-value=0.072  Score=46.48  Aligned_cols=37  Identities=24%  Similarity=0.093  Sum_probs=27.5

Q ss_pred             HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          144 IFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       144 ~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +...++...... -..+.|+|+.|+|||||++.+....
T Consensus        13 ~~~~~l~~~v~~-g~~i~I~G~tGSGKTTll~aL~~~i   49 (186)
T cd01130          13 LQAAYLWLAVEA-RKNILISGGTGSGKTTLLNALLAFI   49 (186)
T ss_pred             HHHHHHHHHHhC-CCEEEEECCCCCCHHHHHHHHHhhc
Confidence            444455544443 4689999999999999999988743

The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.

>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively

Probab=94.32  E-value=0.036  Score=49.67  Aligned_cols=35  Identities=23%  Similarity=0.223  Sum_probs=26.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||++.+....    ....+.+++
T Consensus        29 ~G~~~~i~G~nGsGKSTLl~~l~Gl~----~~~~G~i~~   63 (220)
T cd03293          29 EGEFVALVGPSGCGKSTLLRIIAGLE----RPTSGEVLV   63 (220)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC----CCCceEEEE
Confidence            34689999999999999999999743    223455554

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=94.32  E-value=0.052  Score=57.92  Aligned_cols=46  Identities=28%  Similarity=0.268  Sum_probs=36.4

Q ss_pred             cccccchHHHHHHHHHhhc-------------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE-------------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +++.|.+..++.+.+.+.-             ...+-|.++|++|+|||+||+.+.+..
T Consensus       178 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~  236 (733)
T TIGR01243       178 EDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEA  236 (733)
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHh
Confidence            4578999888888776531             134678899999999999999999854

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.

>TIGR01281 DPOR_bchL light-independent protochlorophyllide reductase, iron-sulfur ATP-binding protein

Probab=94.32  E-value=0.036  Score=51.34  Aligned_cols=23  Identities=35%  Similarity=0.665  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +|++.|.||+||||++..+....
T Consensus         2 ~i~~~gKGGVGKTT~~~nLA~~L   24 (268)
T TIGR01281         2 ILAVYGKGGIGKSTTSSNLSVAF   24 (268)
T ss_pred             EEEEEcCCcCcHHHHHHHHHHHH
Confidence            68889999999999888876544

The BchL peptide (ChlL in chloroplast and cyanobacteria) is an ATP-binding iron-sulfur protein of the dark form protochlorophyllide reductase, an enzyme similar to nitrogenase. This subunit resembles the nitrogenase NifH subunit.

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=94.31  E-value=0.037  Score=49.34  Aligned_cols=25  Identities=40%  Similarity=0.473  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .-.+++|+|+.|+|||||++.+...
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~G~   49 (213)
T cd03259          25 PGEFLALLGPSGCGKTTLLRLIAGL   49 (213)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCC
Confidence            3468999999999999999999874

This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PTZ00035 Rad51 protein; Provisional

Probab=94.30  E-value=0.25  Score=47.37  Aligned_cols=57  Identities=25%  Similarity=0.263  Sum_probs=39.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCC----CCCCEEEEEEeCCCCCHHHHHHHHHHHhC
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEP----NYFDVVIWAVASKVVEIEKIQESIAKKIG  214 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~----~~F~~~~wv~vs~~~~~~~l~~~i~~~l~  214 (405)
                      .-.++.|+|.+|+|||+|+..+.-.. ...    ..=..++|++....|++..+ ..+++.++
T Consensus       117 ~G~iteI~G~~GsGKT~l~~~l~~~~-qlp~~~gg~~g~vvyIdtE~~f~~eri-~~ia~~~g  177 (337)
T PTZ00035        117 TGSITELFGEFRTGKTQLCHTLCVTC-QLPIEQGGGEGKVLYIDTEGTFRPERI-VQIAERFG  177 (337)
T ss_pred             CCeEEEEECCCCCchhHHHHHHHHHh-ccccccCCCCceEEEEEccCCCCHHHH-HHHHHHhC
Confidence            46799999999999999999887543 211    11235679988777877774 34455554

>PRK04328 hypothetical protein; Provisional

Probab=94.29  E-value=0.12  Score=47.49  Aligned_cols=53  Identities=9%  Similarity=0.062  Sum_probs=35.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHHHHHHHhC
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIG  214 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i~~~l~  214 (405)
                      .-+++.|.|.+|+|||+|+.++....   ...-...+|++..++  +.++.+ .+++++
T Consensus        22 ~gs~ili~G~pGsGKT~l~~~fl~~~---~~~ge~~lyis~ee~--~~~i~~-~~~~~g   74 (249)
T PRK04328         22 ERNVVLLSGGPGTGKSIFSQQFLWNG---LQMGEPGVYVALEEH--PVQVRR-NMRQFG   74 (249)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH---HhcCCcEEEEEeeCC--HHHHHH-HHHHcC
Confidence            46799999999999999999865532   122356788887664  334333 344454

>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system

Probab=94.29  E-value=0.037  Score=50.37  Aligned_cols=26  Identities=31%  Similarity=0.406  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.+++|+|+.|+|||||++.+..-.
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   51 (241)
T cd03256          26 PGEFVALIGPSGAGKSTLLRCLNGLV   51 (241)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            34699999999999999999999743

Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all kingdoms of wildlife, but only procaryotic microorganisms are able to cleave this bond. Certain bacteria such as E. coli can use alkylphosphonates as a phosphorus source. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

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

Probab=94.28  E-value=0.053  Score=56.85  Aligned_cols=44  Identities=18%  Similarity=0.208  Sum_probs=33.3

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHh
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      +.++||+.++.++++-|....-.--.++|.+|||||+++.-+..
T Consensus       170 DPvIGRd~EI~r~iqIL~RR~KNNPvLiGEpGVGKTAIvEGLA~  213 (786)
T COG0542         170 DPVIGRDEEIRRTIQILSRRTKNNPVLVGEPGVGKTAIVEGLAQ  213 (786)
T ss_pred             CCCcChHHHHHHHHHHHhccCCCCCeEecCCCCCHHHHHHHHHH
Confidence            45799999999999999864222334689999999996555443

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=94.28  E-value=0.14  Score=49.14  Aligned_cols=59  Identities=20%  Similarity=0.168  Sum_probs=42.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCC----CCCCEEEEEEeCCCCCHHHHHHHHHHHhCCC
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEP----NYFDVVIWAVASKVVEIEKIQESIAKKIGFF  216 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~----~~F~~~~wv~vs~~~~~~~l~~~i~~~l~~~  216 (405)
                      .-+++-|.|.+|+|||+|+..+.-.. ...    ..-..++|++.-..|++..+.. ++..++..
T Consensus       125 ~G~ItEI~G~~GsGKTql~lqlav~~-qlp~~~gg~~~~vvyIdTE~tF~peRl~~-ia~~~g~d  187 (344)
T PLN03187        125 TRCITEAFGEFRSGKTQLAHTLCVTT-QLPTEMGGGNGKVAYIDTEGTFRPDRIVP-IAERFGMD  187 (344)
T ss_pred             CCeEEEEecCCCCChhHHHHHHHHHH-hcchhhCCCCceEEEEEcCCCCCHHHHHH-HHHHcCCC
Confidence            45688899999999999999875322 211    1124789999999899888765 45666543

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

Probab=94.27  E-value=0.056  Score=53.22  Aligned_cols=46  Identities=24%  Similarity=0.164  Sum_probs=34.3

Q ss_pred             cccccchHHHHHHHHHhhc-------C---------CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE-------E---------QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~-------~---------~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|-+..++.+...+.+       .         ...-+.++|++|+|||+||+.+....
T Consensus        71 ~~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l  132 (412)
T PRK05342         71 QYVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARIL  132 (412)
T ss_pred             hHeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHh
Confidence            4578988887777544421       0         23568999999999999999998744

>cd03297 ABC_ModC_molybdenum_transporter ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB

Probab=94.27  E-value=0.04  Score=49.17  Aligned_cols=34  Identities=26%  Similarity=0.304  Sum_probs=26.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      . .+++|+|+.|+|||||++.+....    ....+.+++
T Consensus        23 ~-e~~~i~G~nGsGKSTLl~~l~G~~----~~~~G~i~~   56 (214)
T cd03297          23 E-EVTGIFGASGAGKSTLLRCIAGLE----KPDGGTIVL   56 (214)
T ss_pred             c-eeEEEECCCCCCHHHHHHHHhCCC----CCCCceEEE
Confidence            5 899999999999999999999743    223455555

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=94.27  E-value=0.15  Score=48.36  Aligned_cols=58  Identities=21%  Similarity=0.261  Sum_probs=41.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCC----CCCCEEEEEEeCCCCCHHHHHHHHHHHhCC
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEP----NYFDVVIWAVASKVVEIEKIQESIAKKIGF  215 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~----~~F~~~~wv~vs~~~~~~~l~~~i~~~l~~  215 (405)
                      .-+++-|+|++|+|||+|+..+.-.. ...    ..=..++|++.-..|++..+.+ ++..++.
T Consensus        95 ~G~iteI~G~~GsGKTql~lqla~~~-~~~~~~gg~~~~vvYIdtE~~f~~eRi~~-~a~~~g~  156 (313)
T TIGR02238        95 SMSITEVFGEFRCGKTQLSHTLCVTA-QLPREMGGGNGKVAYIDTEGTFRPDRIRA-IAERFGV  156 (313)
T ss_pred             CCeEEEEECCCCCCcCHHHHHHHHHH-hcchhhcCCCCeEEEEEcCCCCCHHHHHH-HHHHcCC
Confidence            45789999999999999998866422 211    1124789999888888888764 4566654

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.

>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity

Probab=94.27  E-value=0.067  Score=46.01  Aligned_cols=35  Identities=31%  Similarity=0.279  Sum_probs=27.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|..|+|||||.+.+....    ....+.+++
T Consensus        25 ~Ge~~~i~G~nGsGKStLl~~l~G~~----~~~~G~i~~   59 (173)
T cd03230          25 KGEIYGLLGPNGAGKTTLIKIILGLL----KPDSGEIKV   59 (173)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC----CCCCeEEEE
Confidence            34689999999999999999998743    234566655

In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=94.27  E-value=0.035  Score=49.44  Aligned_cols=33  Identities=27%  Similarity=0.277  Sum_probs=26.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEE
Q 043778          159 IIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAV  195 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~  195 (405)
                      +++|+|+.|+|||||++.+..-.    ....+.+++.
T Consensus        27 ~~~i~G~nGsGKSTLl~~l~Gl~----~~~~G~i~~~   59 (211)
T cd03264          27 MYGLLGPNGAGKTTLMRILATLT----PPSSGTIRID   59 (211)
T ss_pred             cEEEECCCCCCHHHHHHHHhCCC----CCCccEEEEC
Confidence            89999999999999999999743    2345666653

The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

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

Probab=94.27  E-value=0.052  Score=56.57  Aligned_cols=46  Identities=20%  Similarity=0.179  Sum_probs=35.1

Q ss_pred             cccccchH---HHHHHHHHhhcC---------CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLES---IFDKLWRCLTEE---------QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~---~~~~l~~~L~~~---------~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .++.|-++   +++++++.|.++         -++=+.++|++|.|||-||++++...
T Consensus       311 kDVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEA  368 (774)
T KOG0731|consen  311 KDVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEA  368 (774)
T ss_pred             ccccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhccc
Confidence            45677665   455666667653         36678999999999999999999855

>TIGR02016 BchX chlorophyllide reductase iron protein subunit X

Probab=94.26  E-value=0.038  Score=52.04  Aligned_cols=24  Identities=29%  Similarity=0.519  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++|+|+|.||+||||+|..+..-.
T Consensus         1 ~vIav~gKGGvGKTT~a~nLA~~L   24 (296)
T TIGR02016         1 RIIAIYGKGGSGKSFTTTNLSHMM   24 (296)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            578999999999999999988755

This model represents the X subunit of the three-subunit enzyme, (bacterio)chlorophyllide reductase. This enzyme is responsible for the reduction of the chlorin B-ring and is closely related to the protochlorophyllide reductase complex which reduces the D-ring. Both of these complexes in turn are homologous to nitrogenase. This subunit is homologous to the nitrogenase component II, or "iron" protein.

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=94.26  E-value=0.039  Score=46.61  Aligned_cols=22  Identities=32%  Similarity=0.459  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 043778          159 IIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      -|+|+|.+|+|||||+..+.+.
T Consensus         2 ki~v~G~~~~GKTsli~~~~~~   23 (164)
T smart00173        2 KLVVLGSGGVGKSALTIQFVQG   23 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3789999999999999998763

Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=94.26  E-value=0.036  Score=49.45  Aligned_cols=26  Identities=27%  Similarity=0.342  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.+++|+|+.|+|||||++.+....
T Consensus        24 ~Ge~~~l~G~nGsGKSTLl~~l~G~~   49 (213)
T cd03235          24 PGEFLAIVGPNGAGKSTLLKAILGLL   49 (213)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            34699999999999999999998743

This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-siderophore uptake family suggesting that they share a common ancestor. The best characterized metal-type ABC transporters are the YfeABCD system of Y. pestis, the SitABCD system of Salmonella enterica serovar Typhimurium, and the SitABCD transporter of Shigella flexneri. Moreover other uncharacterized homologs of these metal-type transporters are mainly found in pathogens like Haemophilus or enteroinvasive E. coli isolates.

>cd04163 Era Era subfamily

Probab=94.26  E-value=0.041  Score=46.07  Aligned_cols=24  Identities=33%  Similarity=0.553  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ..+|+++|..|+|||||...+...
T Consensus         3 ~~~i~~~G~~g~GKttl~~~l~~~   26 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNALVGQ   26 (168)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCC
Confidence            357999999999999999998763

Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA. It also contacts several assembly elements of the 30S subunit. Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism. Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding. Both domains are important for Era function. Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA.

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=94.25  E-value=0.04  Score=48.46  Aligned_cols=26  Identities=27%  Similarity=0.397  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.+++|+|..|.|||||++.+....
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l~G~~   50 (195)
T PRK13541         25 PSAITYIKGANGCGKSSLLRMIAGIM   50 (195)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            34599999999999999999999844

>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane

Probab=94.25  E-value=0.039  Score=49.19  Aligned_cols=35  Identities=29%  Similarity=0.177  Sum_probs=26.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|..|+|||||.+.+....    ....+.+++
T Consensus        26 ~G~~~~i~G~nGsGKSTLl~~l~G~~----~~~~G~i~~   60 (214)
T cd03292          26 AGEFVFLVGPSGAGKSTLLKLIYKEE----LPTSGTIRV   60 (214)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC----CCCceEEEE
Confidence            44689999999999999999999743    223455555

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>PRK14528 adenylate kinase; Provisional

Probab=94.25  E-value=0.042  Score=47.95  Aligned_cols=24  Identities=21%  Similarity=0.227  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.|.|.|++|+||||+|+.+....
T Consensus         2 ~~i~i~G~pGsGKtt~a~~la~~~   25 (186)
T PRK14528          2 KNIIFMGPPGAGKGTQAKILCERL   25 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            468899999999999999998754

>cd03260 ABC_PstB_phosphate_transporter Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient

Probab=94.25  E-value=0.039  Score=49.74  Aligned_cols=25  Identities=40%  Similarity=0.505  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .-.+++|+|+.|+|||||++.+..-
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~i~G~   49 (227)
T cd03260          25 KGEITALIGPSGCGKSTLLRLLNRL   49 (227)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhh
Confidence            3469999999999999999999873

The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein is a phosphate-binding protein located in the periplasmic space. P stA and PstC are hydrophobic and they form the transmembrane portion of the Pst system. PstB is the catalytic subunit, which couples the energy of ATP hydrolysis to the import of phosphate across cellular membranes through the Pst system, often referred as ABC-protein. PstB belongs to one of the largest superfamilies of proteins characterized by a highly conserved adenosine triphosphate (ATP) binding cassette (ABC), which is also a nucleotide binding domain (NBD).

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=94.25  E-value=0.057  Score=57.78  Aligned_cols=46  Identities=17%  Similarity=0.273  Sum_probs=39.4

Q ss_pred             cccccchHHHHHHHHHhhcCCc-eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQV-GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .++||.+..++.|.+.+..+.+ +.+.++|+.|+||||+|+.+.+..
T Consensus        15 ~eiiGqe~v~~~L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L   61 (824)
T PRK07764         15 AEVIGQEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARILARSL   61 (824)
T ss_pred             HHhcCcHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999987654 568899999999999999998755

>cd02032 Bchl_like This family of proteins contains bchL and chlL

Probab=94.25  E-value=0.039  Score=51.15  Aligned_cols=23  Identities=26%  Similarity=0.580  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +|+|.|.||+||||+|..+....
T Consensus         2 ~i~v~gKGGvGKTT~a~nLA~~l   24 (267)
T cd02032           2 VLAVYGKGGIGKSTTSSNLSVAL   24 (267)
T ss_pred             EEEEecCCCCCHHHHHHHHHHHH
Confidence            78999999999999888877654

Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are involved in light-independent protochlorophyllide reduction in bacteriochlorophyll biosynthesis. In cyanobacteria, algae, and gymnosperms, three similar genes, chlL, chlN and chlB are involved in protochlorophyllide reduction during chlorophylls biosynthesis. BchL/chlL, bchN/chlN and bchB/chlB exhibit significant sequence similarity to the nifH, nifD and nifK subunits of nitrogenase, respectively. Nitrogenase catalyzes the reductive formation of ammonia from dinitrogen.

>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=94.25  E-value=0.13  Score=46.07  Aligned_cols=24  Identities=33%  Similarity=0.504  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      .-.+|+|+|++|+|||||.+.+..
T Consensus        29 ~GE~VaiIG~SGaGKSTLLR~lng   52 (258)
T COG3638          29 QGEMVAIIGPSGAGKSTLLRSLNG   52 (258)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHhc
Confidence            346899999999999999999987

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=94.24  E-value=0.12  Score=49.49  Aligned_cols=58  Identities=19%  Similarity=0.221  Sum_probs=42.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCC----CCCEEEEEEeCCCCCHHHHHHHHHHHhCC
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPN----YFDVVIWAVASKVVEIEKIQESIAKKIGF  215 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~----~F~~~~wv~vs~~~~~~~l~~~i~~~l~~  215 (405)
                      .-.++-|.|.+|+|||+|+..+.-.. ....    .-..++|++.-..|++..+. +|++.++.
T Consensus       122 ~g~i~~i~G~~g~GKT~l~~~l~~~~-~~~~~~gg~~g~vlyIdtE~~f~~eRl~-qia~~~~~  183 (342)
T PLN03186        122 TGSITEIYGEFRTGKTQLCHTLCVTC-QLPLDQGGGEGKAMYIDTEGTFRPQRLI-QIAERFGL  183 (342)
T ss_pred             CceEEEEECCCCCCccHHHHHHHHHh-hcchhhCCCCceEEEEECCCCccHHHHH-HHHHHcCC
Confidence            46788999999999999998877533 2111    11368999999989888764 45666654

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=94.24  E-value=0.048  Score=47.39  Aligned_cols=27  Identities=26%  Similarity=0.382  Sum_probs=23.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          155 EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       155 ~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ....+|.|.|.+|+||||+|+.+....
T Consensus        16 ~~~~~i~i~G~~GsGKstla~~l~~~l   42 (184)
T TIGR00455        16 HRGVVIWLTGLSGSGKSTIANALEKKL   42 (184)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            356799999999999999999999854

Important residue (active site in E.coli) is residue 100 of the seed alignment.

>TIGR02012 tigrfam_recA protein RecA

Probab=94.23  E-value=0.062  Score=50.90  Aligned_cols=44  Identities=25%  Similarity=0.235  Sum_probs=33.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCH
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEI  202 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~  202 (405)
                      .-+++-|.|++|+||||||.++....   ...=..++|++.-..++.
T Consensus        54 ~G~iteI~G~~GsGKTtLaL~~~~~~---~~~g~~v~yId~E~~~~~   97 (321)
T TIGR02012        54 RGRIIEIYGPESSGKTTLALHAIAEA---QKAGGTAAFIDAEHALDP   97 (321)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH---HHcCCcEEEEcccchhHH
Confidence            45799999999999999999987654   223346778877665555

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.

>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=94.23  E-value=0.094  Score=50.13  Aligned_cols=73  Identities=22%  Similarity=0.197  Sum_probs=43.8

Q ss_pred             cccccchHHHH---HHHHHhhcC--CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeC----CCCCHHHHH
Q 043778          136 LTIVGLESIFD---KLWRCLTEE--QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVAS----KVVEIEKIQ  206 (405)
Q Consensus       136 ~~~vGr~~~~~---~l~~~L~~~--~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs----~~~~~~~l~  206 (405)
                      ..+||....++   -+++++..+  .-+.|.+.|++|.|||+||..+.+.. .....|  +. ++-|    ....-.+++
T Consensus        24 ~GlVGQ~~AReAagiiv~mIk~~K~aGr~iLiaGppGtGKTAlA~~ia~eL-G~~~PF--~~-isgSEiyS~e~kKTE~L   99 (398)
T PF06068_consen   24 DGLVGQEKAREAAGIIVDMIKEGKIAGRAILIAGPPGTGKTALAMAIAKEL-GEDVPF--VS-ISGSEIYSSEVKKTEAL   99 (398)
T ss_dssp             TTEES-HHHHHHHHHHHHHHHTT--TT-EEEEEE-TTSSHHHHHHHHHHHC-TTTS-E--EE-EEGGGG-BTTC-HHHHH
T ss_pred             ccccChHHHHHHHHHHHHHHhcccccCcEEEEeCCCCCCchHHHHHHHHHh-CCCCCe--eE-cccceeeecccCchHHH
Confidence            56899765544   345666655  46789999999999999999999976 433333  22 2223    334455655


Q ss_pred             HHHHHH
Q 043778          207 ESIAKK  212 (405)
Q Consensus       207 ~~i~~~  212 (405)
                      .+.++.
T Consensus       100 ~qa~Rr  105 (398)
T PF06068_consen  100 TQAFRR  105 (398)
T ss_dssp             HHHHHC
T ss_pred             HHHHHH
Confidence            555443

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.

>PRK00279 adk adenylate kinase; Reviewed

Probab=94.22  E-value=0.042  Score=49.17  Aligned_cols=23  Identities=30%  Similarity=0.352  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .|.|.|++|+||||+|+.+....
T Consensus         2 ~I~v~G~pGsGKsT~a~~la~~~   24 (215)
T PRK00279          2 RLILLGPPGAGKGTQAKFIAEKY   24 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48899999999999999998744

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=94.22  E-value=0.057  Score=49.91  Aligned_cols=55  Identities=20%  Similarity=0.208  Sum_probs=34.0

Q ss_pred             HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHH
Q 043778          144 IFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQ  206 (405)
Q Consensus       144 ~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~  206 (405)
                      -++++...+..+  .-|.+.|++|+|||+||+.+....   ...   .+.++.....+..+++
T Consensus        10 l~~~~l~~l~~g--~~vLL~G~~GtGKT~lA~~la~~l---g~~---~~~i~~~~~~~~~dll   64 (262)
T TIGR02640        10 VTSRALRYLKSG--YPVHLRGPAGTGKTTLAMHVARKR---DRP---VMLINGDAELTTSDLV   64 (262)
T ss_pred             HHHHHHHHHhcC--CeEEEEcCCCCCHHHHHHHHHHHh---CCC---EEEEeCCccCCHHHHh
Confidence            344455555433  355689999999999999998733   222   3344445555555544

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).

>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system

Probab=94.21  E-value=0.039  Score=50.07  Aligned_cols=35  Identities=23%  Similarity=0.284  Sum_probs=27.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||++.+....    ....+.+++
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l~G~~----~p~~G~i~~   60 (236)
T TIGR03864        26 PGEFVALLGPNGAGKSTLFSLLTRLY----VAQEGQISV   60 (236)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCc----CCCceEEEE
Confidence            44699999999999999999999743    233466655

Members of this protein family are the ATP-binding subunit of an ABC transporter system that is associated with PQQ biosynthesis and PQQ-dependent alcohol dehydrogenases. While this family shows homology to several efflux ABC transporter subunits, the presence of a periplasmic substrate-binding protein and association with systems for catabolism of alcohols suggests a role in import rather than detoxification.

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

Probab=94.18  E-value=0.048  Score=52.24  Aligned_cols=26  Identities=27%  Similarity=0.340  Sum_probs=24.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      -+..++|||++|.|||.+|+.+++..
T Consensus       147 ~PlgllL~GPPGcGKTllAraiA~el  172 (413)
T PLN00020        147 VPLILGIWGGKGQGKSFQCELVFKKM  172 (413)
T ss_pred             CCeEEEeeCCCCCCHHHHHHHHHHHc
Confidence            57899999999999999999999965

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

Probab=94.18  E-value=0.041  Score=49.63  Aligned_cols=35  Identities=23%  Similarity=0.177  Sum_probs=27.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||++.+..-.    ....+.+++
T Consensus        35 ~Ge~~~i~G~nGsGKSTLl~~i~Gl~----~p~~G~i~~   69 (228)
T PRK10584         35 RGETIALIGESGSGKSTLLAILAGLD----DGSSGEVSL   69 (228)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcCC----CCCCeeEEE
Confidence            44699999999999999999999743    233455554

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=94.18  E-value=0.041  Score=48.77  Aligned_cols=35  Identities=29%  Similarity=0.250  Sum_probs=26.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||.+.+....    ....+.+++
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~----~p~~G~i~~   59 (205)
T cd03226          25 AGEIIALTGKNGAGKTTLAKILAGLI----KESSGSILL   59 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC----CCCceEEEE
Confidence            34699999999999999999999743    233455554

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>PRK13540 cytochrome c biogenesis protein CcmA; Provisional

Probab=94.18  E-value=0.07  Score=47.08  Aligned_cols=36  Identities=36%  Similarity=0.327  Sum_probs=27.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAV  195 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~  195 (405)
                      .-.+++|+|..|+|||||.+.+....    ....+.+++.
T Consensus        26 ~Ge~~~l~G~nGsGKSTLl~~i~G~~----~~~~G~v~~~   61 (200)
T PRK13540         26 AGGLLHLKGSNGAGKTTLLKLIAGLL----NPEKGEILFE   61 (200)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC----CCCCeeEEEC
Confidence            45699999999999999999998743    2335666653

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=94.17  E-value=0.04  Score=46.47  Aligned_cols=21  Identities=19%  Similarity=0.229  Sum_probs=19.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 043778          160 IGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~  180 (405)
                      |.++|.+|+|||||...+.+.
T Consensus         3 i~~vG~~~vGKTsli~~l~~~   23 (168)
T cd04119           3 VISMGNSGVGKSCIIKRYCEG   23 (168)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999998874

RJLs are found in many protists and as chimeras with C-terminal DNAJ domains in deuterostome metazoa. They are not found in plants, fungi, and protostome metazoa, suggesting a horizontal gene transfer between protists and deuterostome metazoa. RJLs lack any known membrane targeting signal and contain a degenerate phosphate/magnesium-binding 3 (PM3) motif, suggesting an impaired ability to hydrolyze GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.

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

Probab=94.17  E-value=0.039  Score=50.33  Aligned_cols=26  Identities=35%  Similarity=0.323  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+++|||.+|+|||||++.+..-.
T Consensus        38 ~ge~~glVGESG~GKSTlgr~i~~L~   63 (268)
T COG4608          38 EGETLGLVGESGCGKSTLGRLILGLE   63 (268)
T ss_pred             CCCEEEEEecCCCCHHHHHHHHHcCc
Confidence            45699999999999999999999743

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

Probab=94.16  E-value=0.088  Score=48.76  Aligned_cols=56  Identities=18%  Similarity=0.243  Sum_probs=44.8

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEE
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVI  192 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~  192 (405)
                      .+++|-+..+.-|.+.+..........+|++|.|||+-|....... --.+.|.+++
T Consensus        36 de~~gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalafar~L-~~~~~~~~rv   91 (346)
T KOG0989|consen   36 DELAGQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAFARAL-NCEQLFPCRV   91 (346)
T ss_pred             HhhcchHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHHHHHHHHh-cCccccccch
Confidence            4578988889999988888778889999999999999988887755 3345665543

>cd03114 ArgK-like The function of this protein family is unkown

Probab=94.16  E-value=0.04  Score=46.19  Aligned_cols=23  Identities=30%  Similarity=0.572  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +|++.|.+|+||||++..+....
T Consensus         1 ~i~~~G~~GsGKTt~~~~l~~~~   23 (148)
T cd03114           1 VIGITGVPGAGKSTLIDALITAL   23 (148)
T ss_pred             CEEEECCCCCcHHHHHHHHHHHH
Confidence            47899999999999999988754

The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.

>PRK09183 transposase/IS protein; Provisional

Probab=94.15  E-value=0.041  Score=50.75  Aligned_cols=25  Identities=36%  Similarity=0.343  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+.|+|++|+|||+||..+.+..
T Consensus       102 ~~~v~l~Gp~GtGKThLa~al~~~a  126 (259)
T PRK09183        102 NENIVLLGPSGVGKTHLAIALGYEA  126 (259)
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHH
Confidence            3467799999999999999998754

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

Probab=94.15  E-value=0.063  Score=51.23  Aligned_cols=26  Identities=19%  Similarity=0.120  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-+-|..+|++|.|||-||++|+...
T Consensus       244 PWkgvLm~GPPGTGKTlLAKAvATEc  269 (491)
T KOG0738|consen  244 PWKGVLMVGPPGTGKTLLAKAVATEC  269 (491)
T ss_pred             ccceeeeeCCCCCcHHHHHHHHHHhh
Confidence            45678899999999999999999954

>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import

Probab=94.14  E-value=0.041  Score=50.05  Aligned_cols=26  Identities=38%  Similarity=0.424  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.+++|+|+.|+|||||++.+....
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (239)
T cd03296          27 SGELVALLGPSGSGKTTLLRLIAGLE   52 (239)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34699999999999999999999743

Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute-binding protein (cysP). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=94.14  E-value=0.076  Score=53.83  Aligned_cols=54  Identities=22%  Similarity=0.296  Sum_probs=40.4

Q ss_pred             cccccchHHHHHHHHHhhcC-----CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          136 LTIVGLESIFDKLWRCLTEE-----QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~-----~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .+++-...-++++..||...     ..+++.+.|++|+||||.++.+.+..     -|+.+-|.
T Consensus        19 ~eLavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~el-----g~~v~Ew~   77 (519)
T PF03215_consen   19 DELAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKEL-----GFEVQEWI   77 (519)
T ss_pred             HHhhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHh-----CCeeEEec
Confidence            34555566788888888642     35689999999999999999999854     35555565

>COG4778 PhnL ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=94.14  E-value=0.071  Score=45.19  Aligned_cols=34  Identities=24%  Similarity=0.219  Sum_probs=27.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEE
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAV  195 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~  195 (405)
                      --+.+.|++|+||+||.+.+|.++ ...   .+.+||.
T Consensus        38 ECvvL~G~SG~GKStllr~LYaNY-~~d---~G~I~v~   71 (235)
T COG4778          38 ECVVLHGPSGSGKSTLLRSLYANY-LPD---EGQILVR   71 (235)
T ss_pred             cEEEeeCCCCCcHHHHHHHHHhcc-CCC---CceEEEE
Confidence            357789999999999999999977 433   3678875

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

Probab=94.13  E-value=0.11  Score=46.56  Aligned_cols=47  Identities=28%  Similarity=0.326  Sum_probs=30.1

Q ss_pred             ccccccc-hHHHHHHHHHhhc-C--CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          135 ALTIVGL-ESIFDKLWRCLTE-E--QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       135 ~~~~vGr-~~~~~~l~~~L~~-~--~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+.++|- ....-.....+.+ +  ....+-|+|..|+|||.|.+.+++..
T Consensus         8 dnfv~g~~N~~a~~~~~~ia~~~~~~~~~l~l~G~~G~GKTHLL~Ai~~~~   58 (219)
T PF00308_consen    8 DNFVVGESNELAYAAAKAIAENPGERYNPLFLYGPSGLGKTHLLQAIANEA   58 (219)
T ss_dssp             CCS--TTTTHHHHHHHHHHHHSTTTSSSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             ccCCcCCcHHHHHHHHHHHHhcCCCCCCceEEECCCCCCHHHHHHHHHHHH
Confidence            3455674 3333334444433 2  23468899999999999999999865

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.

>cd04155 Arl3 Arl3 subfamily

Probab=94.13  E-value=0.068  Score=45.59  Aligned_cols=25  Identities=28%  Similarity=0.417  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      +...|+|+|.+|+|||||...+.+.
T Consensus        13 ~~~~v~i~G~~g~GKStLl~~l~~~   37 (173)
T cd04155          13 EEPRILILGLDNAGKTTILKQLASE   37 (173)
T ss_pred             CccEEEEEccCCCCHHHHHHHHhcC
Confidence            4456999999999999999999874

Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation.

>cd03224 ABC_TM1139_LivF_branched LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids

Probab=94.12  E-value=0.043  Score=49.23  Aligned_cols=35  Identities=31%  Similarity=0.246  Sum_probs=27.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||++.+..-.    ....+.+++
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~----~~~~G~i~~   59 (222)
T cd03224          25 EGEIVALLGRNGAGKTTLLKTIMGLL----PPRSGSIRF   59 (222)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCC----CCCCceEEE
Confidence            44699999999999999999998743    234456655

The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ). 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.

>PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional

Probab=94.12  E-value=0.041  Score=49.16  Aligned_cols=26  Identities=31%  Similarity=0.235  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.+++|+|+.|+|||||.+.+..-.
T Consensus        12 ~Ge~~~l~G~NGsGKSTLlk~i~Gl~   37 (213)
T PRK15177         12 YHEHIGILAAPGSGKTTLTRLLCGLD   37 (213)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            34699999999999999999999743

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=94.11  E-value=0.043  Score=49.20  Aligned_cols=35  Identities=26%  Similarity=0.251  Sum_probs=27.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||.+.+....    ....+.+++
T Consensus        30 ~G~~~~i~G~nGsGKSTLl~~i~G~~----~~~~G~i~~   64 (221)
T TIGR02211        30 KGEIVAIVGSSGSGKSTLLHLLGGLD----NPTSGEVLF   64 (221)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC----CCCCcEEEE
Confidence            44699999999999999999999743    233556655

This model represents LolD, a member of the ABC transporter family (pfam00005). LolD is involved in localization of lipoproteins in some bacteria. It works with a transmembrane protein LolC, which in some species is a paralogous pair LolC and LolE. Depending on whether the residue immediately following the new, modified N-terminal Cys residue, the nascent lipoprotein may be carried further by LolA and LolB to the outer membrane, or remain at the inner membrane. The top scoring proteins excluded by this model include homologs from the archaeal genus Methanosarcina.

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=94.09  E-value=0.072  Score=55.73  Aligned_cols=46  Identities=22%  Similarity=0.276  Sum_probs=38.8

Q ss_pred             cccccchHHHHHHHHHhhcCC-ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQ-VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|-+..++.|.+.+..+. .+.+.++|+.|+||||+|+.+....
T Consensus        18 ~dIiGQe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~AriLAk~L   64 (725)
T PRK07133         18 DDIVGQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANAL   64 (725)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHh
Confidence            468999998999999998764 5677899999999999999987643

>PRK08116 hypothetical protein; Validated

Probab=94.09  E-value=0.046  Score=50.71  Aligned_cols=47  Identities=23%  Similarity=0.178  Sum_probs=32.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHHHHHHHh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKI  213 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i~~~l  213 (405)
                      ..+.++|.+|+|||.||..+++..   ..+-..+++++      ..+++..+...+
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~l---~~~~~~v~~~~------~~~ll~~i~~~~  161 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANEL---IEKGVPVIFVN------FPQLLNRIKSTY  161 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHH---HHcCCeEEEEE------HHHHHHHHHHHH
Confidence            458899999999999999999976   22233556665      334455554443

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

Probab=94.08  E-value=0.083  Score=48.86  Aligned_cols=42  Identities=33%  Similarity=0.355  Sum_probs=29.6

Q ss_pred             ccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          139 VGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       139 vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .|......+.+..+....-.+|.|.|..|+||||++..+.+.
T Consensus        62 lg~~~~~~~~l~~~~~~~~GlilisG~tGSGKTT~l~all~~  103 (264)
T cd01129          62 LGLKPENLEIFRKLLEKPHGIILVTGPTGSGKTTTLYSALSE  103 (264)
T ss_pred             cCCCHHHHHHHHHHHhcCCCEEEEECCCCCcHHHHHHHHHhh
Confidence            455444444444444444568999999999999999988763

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.

>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=94.07  E-value=5  Score=39.37  Aligned_cols=57  Identities=18%  Similarity=0.168  Sum_probs=39.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCH--HHHHHHHHHHhCCC
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEI--EKIQESIAKKIGFF  216 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~--~~l~~~i~~~l~~~  216 (405)
                      .+.||-.+|.-|+||||-+-.+.+.. +  + .....-+...+.+.+  -+=++.+..+++.+
T Consensus        99 ~P~vImmvGLQGsGKTTt~~KLA~~l-k--k-~~~kvllVaaD~~RpAA~eQL~~La~q~~v~  157 (451)
T COG0541          99 PPTVILMVGLQGSGKTTTAGKLAKYL-K--K-KGKKVLLVAADTYRPAAIEQLKQLAEQVGVP  157 (451)
T ss_pred             CCeEEEEEeccCCChHhHHHHHHHHH-H--H-cCCceEEEecccCChHHHHHHHHHHHHcCCc
Confidence            47899999999999999888888766 3  2 333333333444443  44477888888765

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=94.04  E-value=0.098  Score=48.27  Aligned_cols=40  Identities=13%  Similarity=0.228  Sum_probs=29.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCC
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASK  198 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~  198 (405)
                      .-+++.|.|.+|+|||+||.++.... -  ..=..++|++...
T Consensus        35 ~gs~~lI~G~pGtGKT~l~~qf~~~~-a--~~Ge~vlyis~Ee   74 (259)
T TIGR03878        35 AYSVINITGVSDTGKSLMVEQFAVTQ-A--SRGNPVLFVTVES   74 (259)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH-H--hCCCcEEEEEecC
Confidence            56799999999999999999975533 1  1124678888754

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>PRK13185 chlL protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional

Probab=94.04  E-value=0.048  Score=50.60  Aligned_cols=24  Identities=29%  Similarity=0.591  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++|+|.|.||+||||++..+....
T Consensus         3 ~iIav~~KGGVGKTT~~~nLA~~l   26 (270)
T PRK13185          3 LVLAVYGKGGIGKSTTSSNLSAAF   26 (270)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            688999999999999988887755

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

Probab=94.02  E-value=0.74  Score=42.24  Aligned_cols=43  Identities=16%  Similarity=0.203  Sum_probs=32.4

Q ss_pred             ccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHh
Q 043778          137 TIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       137 ~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      .+.++++....+......+...-..++|++|.||.|.+..+.+
T Consensus        14 ~l~~~~e~~~~Lksl~~~~d~PHll~yGPSGaGKKTrimclL~   56 (351)
T KOG2035|consen   14 ELIYHEELANLLKSLSSTGDFPHLLVYGPSGAGKKTRIMCLLR   56 (351)
T ss_pred             hcccHHHHHHHHHHhcccCCCCeEEEECCCCCCchhhHHHHHH
Confidence            3567777777777766656677788999999999997666554

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

Probab=94.02  E-value=0.084  Score=47.53  Aligned_cols=48  Identities=21%  Similarity=0.295  Sum_probs=31.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHH-hhccCCCCCCCEEEEEEeCCCCCHHHHHHH
Q 043778          156 QVGIIGLYGMGSVGKTTLLILIN-NKFLDEPNYFDVVIWAVASKVVEIEKIQES  208 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~-~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~  208 (405)
                      .-+++.|.|.+|+|||+|+.++. +.. +.  .=+.++|++..+++  .++.+.
T Consensus        18 ~gs~~li~G~~GsGKT~l~~q~l~~~~-~~--~ge~vlyvs~ee~~--~~l~~~   66 (226)
T PF06745_consen   18 KGSVVLISGPPGSGKTTLALQFLYNGL-KN--FGEKVLYVSFEEPP--EELIEN   66 (226)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHH-HH--HT--EEEEESSS-H--HHHHHH
T ss_pred             CCcEEEEEeCCCCCcHHHHHHHHHHhh-hh--cCCcEEEEEecCCH--HHHHHH
Confidence            56799999999999999999855 433 21  01357888876543  444444

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 ....

>cd04159 Arl10_like Arl10-like subfamily

Probab=94.01  E-value=0.041  Score=45.76  Aligned_cols=21  Identities=43%  Similarity=0.583  Sum_probs=19.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 043778          160 IGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~  180 (405)
                      |+|+|.+|+|||||...+.+.
T Consensus         2 i~i~G~~~~GKssl~~~l~~~   22 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAGG   22 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHccC
Confidence            789999999999999999874

Arl9/Arl10 was identified from a human cancer-derived EST dataset. No functional information about the subfamily is available at the current time, but crystal structures of human Arl10b and Arl10c have been solved.

>cd03258 ABC_MetN_methionine_transporter MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport

Probab=94.01  E-value=0.046  Score=49.49  Aligned_cols=26  Identities=35%  Similarity=0.460  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.+++|+|+.|+|||||++.+....
T Consensus        30 ~Ge~~~l~G~nGsGKSTLl~~l~G~~   55 (233)
T cd03258          30 KGEIFGIIGRSGAGKSTLIRCINGLE   55 (233)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            44699999999999999999998744

Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd04113 Rab4 Rab4 subfamily

Probab=94.00  E-value=0.046  Score=46.01  Aligned_cols=21  Identities=24%  Similarity=0.311  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 043778          160 IGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~  180 (405)
                      |.|+|.+|+|||||+..+.+.
T Consensus         3 i~v~G~~~vGKTsli~~l~~~   23 (161)
T cd04113           3 FIIIGSSGTGKSCLLHRFVEN   23 (161)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999998764

Rab4 has been implicated in numerous functions within the cell. It helps regulate endocytosis through the sorting, recycling, and degradation of early endosomes. Mammalian Rab4 is involved in the regulation of many surface proteins including G-protein-coupled receptors, transferrin receptor, integrins, and surfactant protein A. Experimental data implicate Rab4 in regulation of the recycling of internalized receptors back to the plasma membrane. It is also believed to influence receptor-mediated antigen processing in B-lymphocytes, in calcium-dependent exocytosis in platelets, in alpha-amylase secretion in pancreatic cells, and in insulin-induced translocation of Glut4 from internal vesicles to the cell surface. Rab4 is known to share effector proteins with Rab5 and Rab11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to p

>PRK14730 coaE dephospho-CoA kinase; Provisional

Probab=93.99  E-value=0.051  Score=47.85  Aligned_cols=23  Identities=30%  Similarity=0.307  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .+|+|+|+.|+||||+++.+.+.
T Consensus         2 ~~i~itG~~gsGKst~~~~l~~~   24 (195)
T PRK14730          2 RRIGLTGGIASGKSTVGNYLAQQ   24 (195)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHh
Confidence            37999999999999999999873

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

Probab=93.98  E-value=0.07  Score=50.62  Aligned_cols=44  Identities=27%  Similarity=0.277  Sum_probs=33.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCH
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEI  202 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~  202 (405)
                      .-+++-|.|++|+||||||.++.-..   ...-..++|++.-..+++
T Consensus        54 ~G~iteI~Gp~GsGKTtLal~~~~~~---~~~g~~~vyId~E~~~~~   97 (325)
T cd00983          54 KGRIIEIYGPESSGKTTLALHAIAEA---QKLGGTVAFIDAEHALDP   97 (325)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH---HHcCCCEEEECccccHHH
Confidence            45789999999999999999987644   233356788887666665

RecA couples ATP hydrolysis to DNA strand exchange.

>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional

Probab=93.98  E-value=0.047  Score=49.46  Aligned_cols=35  Identities=20%  Similarity=0.182  Sum_probs=27.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||++.+..-.    ....+.+++
T Consensus        34 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~----~~~~G~i~~   68 (233)
T PRK11629         34 EGEMMAIVGSSGSGKSTLLHLLGGLD----TPTSGDVIF   68 (233)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC----CCCceEEEE
Confidence            34589999999999999999999743    234566655

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

Probab=93.97  E-value=0.046  Score=49.22  Aligned_cols=26  Identities=31%  Similarity=0.358  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.+++|+|+.|+|||||.+.+....
T Consensus        30 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   55 (228)
T cd03257          30 KGETLGLVGESGSGKSTLARAILGLL   55 (228)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34699999999999999999999743

The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane components (NikB and NikC), and two ATPase (NikD and NikE). The NikABCDE transporter is synthesized under anaerobic conditions to meet the increased demand for nickel resulting from hydrogenase synthesis. The molecular mechanism of nickel uptake in many bacteria and most archaea is not known. Many other members of this ABC family are also involved in the uptake of dipeptides and oligopeptides. The oligopeptide transport system (Opp) is a five-component ABC transport composed of a membrane-anchored substrate binding proteins (SRP), OppA, two transmembrane proteins, OppB and OppC, and two ATP-binding domains, OppD and OppF.

>TIGR01184 ntrCD nitrate transport ATP-binding subunits C and D

Probab=93.97  E-value=0.048  Score=49.35  Aligned_cols=25  Identities=40%  Similarity=0.462  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      -.+++|+|..|+|||||++.+..-.
T Consensus        11 Ge~~~i~G~nGsGKSTLl~~l~Gl~   35 (230)
T TIGR01184        11 GEFISLIGHSGCGKSTLLNLISGLA   35 (230)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4589999999999999999999743

This model describes the ATP binding subunits of nitrate transport in bacteria and archaea. This protein belongs to the ATP-binding cassette (ABC) superfamily. It is thought that the two subunits encoded by ntrC and ntrD form the binding surface for interaction with ATP. This model is restricted in identifying ATP binding subunit associated with the nitrate transport. Nitrate assimilation is aided by other proteins derived from the operon which among others include products of ntrA - a regulatory protein; ntrB - a hydropbobic transmembrane permease and narB - a reductase.

>smart00175 RAB Rab subfamily of small GTPases

Probab=93.96  E-value=0.046  Score=46.02  Aligned_cols=22  Identities=36%  Similarity=0.406  Sum_probs=19.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043778          160 IGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      |+++|.+|+|||||...+.+..
T Consensus         3 v~v~G~~~~GKTtli~~l~~~~   24 (164)
T smart00175        3 IILIGDSGVGKSSLLSRFTDGK   24 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            7899999999999999998643

Rab GTPases are implicated in vesicle trafficking.

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=93.96  E-value=0.047  Score=49.95  Aligned_cols=25  Identities=28%  Similarity=0.618  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      -.+++|+|..|+|||||.+.+....
T Consensus        25 Ge~~~i~G~NGsGKSTLlk~L~G~~   49 (246)
T cd03237          25 SEVIGILGPNGIGKTTFIKMLAGVL   49 (246)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4689999999999999999998743

The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. 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 of more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=93.95  E-value=0.047  Score=50.25  Aligned_cols=26  Identities=35%  Similarity=0.387  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.+++|+|+.|+|||||++.+....
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   51 (255)
T PRK11248         26 SGELLVVLGPSGCGKTTLLNLIAGFV   51 (255)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34699999999999999999999743

>PRK13538 cytochrome c biogenesis protein CcmA; Provisional

Probab=93.95  E-value=0.048  Score=48.28  Aligned_cols=26  Identities=23%  Similarity=0.341  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.+++|+|..|+|||||.+.+....
T Consensus        26 ~Ge~~~l~G~nGsGKSTLl~~l~G~~   51 (204)
T PRK13538         26 AGELVQIEGPNGAGKTSLLRILAGLA   51 (204)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            34699999999999999999999844

>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily

Probab=93.95  E-value=0.049  Score=45.65  Aligned_cols=22  Identities=32%  Similarity=0.499  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 043778          159 IIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      -|.|+|.+|+|||||...+.+.
T Consensus         3 ki~iiG~~~vGKTsl~~~~~~~   24 (162)
T cd04138           3 KLVVVGAGGVGKSALTIQLIQN   24 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3789999999999999998763

H-Ras, N-Ras, and K-Ras4A/4B are the prototypical members of the Ras family. These isoforms generate distinct signal outputs despite interacting with a common set of activators and effectors, and are strongly associated with oncogenic progression in tumor initiation. Mutated versions of Ras that are insensitive to GAP stimulation (and are therefore constitutively active) are found in a significant fraction of human cancers. Many Ras guanine nucleotide exchange factors (GEFs) have been identified. They are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active (GTP-bound) Ras interacts with several effector proteins that stimulate a variety of diverse cytoplasmic signaling activities. Some are known to positively mediate the oncogenic properties of Ras, including Raf, phosphatidylinositol 3-kinase (PI3K), RalGEFs, and Tiam1.

>PF00142 Fer4_NifH: 4Fe-4S iron sulfur cluster binding proteins, NifH/frxC family; InterPro: IPR000392 This entry represents members of the NifH/BchL/ChlL family

Probab=93.94  E-value=0.052  Score=49.41  Aligned_cols=24  Identities=29%  Similarity=0.540  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.|+|+|.|||||||.+..+.-..
T Consensus         1 r~IAiYGKGGIGKST~~~Nlsaal   24 (273)
T PF00142_consen    1 RKIAIYGKGGIGKSTTASNLSAAL   24 (273)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEcCCCcccChhhhHHHHHH
Confidence            469999999999999999886644

Nitrogen fixing bacteria possess a nitrogenase enzyme complex that catalyses the reduction of molecular nitrogen to ammonia [, , ]. The nitrogenase enzyme complex consists of two components: Component I is nitrogenase MoFe protein or dinitrogenase, which contains 2 molecules each of 2 non-identical subunits. Component II is nitrogenase Fe protein or dinitrogenase reductase, which is a homodimer. The monomer is encoded by the nifH gene []. Component II has 2 ATP-binding domains and one 4Fe-4S cluster per homodimer: it supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component I for the reduction of molecular nitrogen to ammonia []. There are a number of conserved regions in the sequence of these proteins: in the N-terminal section there is an ATP-binding site motif 'A' (P-loop) IPR001687 from INTERPRO and in the central section there are two conserved cysteines which have been shown, in nifH, to be the ligands of the 4Fe-4S cluster. Protochlorophyllide reductase is involved in light-independent chlorophyll biosynthesis. The light-independent reaction uses Mg-ATP and reduced ferredoxin to reduce ring D of protochlorophyllide (Pchlide) to form chlorophyllide a (Chlide). This enzyme complex is composed of three subunits: ChlL, ChlN and ChlB. ChlL is present as a homodimer, and binds one 4Fe-4S cluster per dimer. The conserved domains, including the ATP-binding motif and the Fe-S binding motif found in the three subunits, are similar to those in nitrogenases []. ; GO: 0005524 ATP binding, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1CP2_A 2AFI_F 1N2C_F 1FP6_C 2AFK_G 1M34_M 1XD8_A 1NIP_A 1M1Y_N 1G21_H ....

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=93.94  E-value=0.049  Score=48.53  Aligned_cols=35  Identities=26%  Similarity=0.199  Sum_probs=26.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||++.+....    ....+.+++
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l~G~~----~~~~G~v~~   59 (213)
T cd03301          25 DGEFVVLLGPSGCGKTTTLRMIAGLE----EPTSGRIYI   59 (213)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC----CCCceEEEE
Confidence            34589999999999999999999843    233455555

ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP. In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed.

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=93.94  E-value=0.046  Score=45.15  Aligned_cols=23  Identities=35%  Similarity=0.307  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      -|+++|.+|+|||||...+....
T Consensus         3 ki~~~G~~~~GKstl~~~l~~~~   25 (161)
T TIGR00231         3 KIVIVGDPNVGKSTLLNRLLGNK   25 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58899999999999999998754

This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model.

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=93.94  E-value=0.049  Score=48.21  Aligned_cols=34  Identities=21%  Similarity=0.244  Sum_probs=26.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      -.+++|+|+.|+|||||.+.+....    ....+.+++
T Consensus        24 Ge~~~i~G~nGsGKSTLl~~l~G~~----~~~~G~i~~   57 (206)
T TIGR03608        24 GKMYAIIGESGSGKSTLLNIIGLLE----KFDSGQVYL   57 (206)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcCC----CCCCeEEEE
Confidence            4689999999999999999999743    233455555

A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins.

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=93.94  E-value=0.16  Score=45.93  Aligned_cols=53  Identities=19%  Similarity=0.170  Sum_probs=33.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHHHHHHHhC
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIG  214 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i~~~l~  214 (405)
                      .-.++.|.|.+|+||||||.++.... - +.. ..++|++...  +..++++.+ .+++
T Consensus        23 ~g~~~~i~G~~G~GKTtl~~~~~~~~-~-~~g-~~~~yi~~e~--~~~~~~~~~-~~~g   75 (230)
T PRK08533         23 AGSLILIEGDESTGKSILSQRLAYGF-L-QNG-YSVSYVSTQL--TTTEFIKQM-MSLG   75 (230)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH-H-hCC-CcEEEEeCCC--CHHHHHHHH-HHhC
Confidence            34599999999999999986554422 1 111 3456776333  456666665 4454

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=93.93  E-value=0.046  Score=47.70  Aligned_cols=24  Identities=29%  Similarity=0.337  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..|.+.|.+|+||||+|+++....
T Consensus         2 pLiIlTGyPgsGKTtfakeLak~L   25 (261)
T COG4088           2 PLIILTGYPGSGKTTFAKELAKEL   25 (261)
T ss_pred             ceEEEecCCCCCchHHHHHHHHHH
Confidence            357789999999999999998755

>cd01673 dNK Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs)

Probab=93.93  E-value=0.045  Score=47.95  Aligned_cols=23  Identities=26%  Similarity=0.306  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +|+|-|+.|+||||++..+.+..
T Consensus         1 ~I~ieG~~GsGKSTl~~~L~~~~   23 (193)
T cd01673           1 VIVVEGNIGAGKSTLAKELAEHL   23 (193)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999998743

This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1.113), adenosine (EC 2.7.1.76), and thymidine (EC 2.7.1.21) kinases. They are key enzymes in the salvage of deoxyribonucleosides originating from extra- or intracellular breakdown of DNA.

>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=93.93  E-value=0.93  Score=41.96  Aligned_cols=35  Identities=23%  Similarity=0.305  Sum_probs=25.3

Q ss_pred             HHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          145 FDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       145 ~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      +.++.+.|..++.+. .++|.||+||+||++.+..-
T Consensus        20 i~ri~RvL~~~~Gh~-LLvG~~GsGr~sl~rLaa~i   54 (268)
T PF12780_consen   20 IARISRVLSQPRGHA-LLVGVGGSGRQSLARLAAFI   54 (268)
T ss_dssp             HHHHHHHHCSTTEEE-EEECTTTSCHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCCCe-EEecCCCccHHHHHHHHHHH
Confidence            344455565555444 59999999999999988763

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.

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

Probab=93.92  E-value=0.049  Score=49.04  Aligned_cols=35  Identities=17%  Similarity=0.133  Sum_probs=26.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||.+.+....    ....+.+++
T Consensus        32 ~Ge~~~i~G~nGsGKSTLl~~l~G~~----~~~~G~i~~   66 (225)
T PRK10247         32 AGEFKLITGPSGCGKSTLLKIVASLI----SPTSGTLLF   66 (225)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccc----CCCCCeEEE
Confidence            44699999999999999999999743    223455554

>PRK06526 transposase; Provisional

Probab=93.92  E-value=0.045  Score=50.26  Aligned_cols=26  Identities=23%  Similarity=0.177  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...-+.++|++|+|||+||..+.+..
T Consensus        97 ~~~nlll~Gp~GtGKThLa~al~~~a  122 (254)
T PRK06526         97 GKENVVFLGPPGTGKTHLAIGLGIRA  122 (254)
T ss_pred             cCceEEEEeCCCCchHHHHHHHHHHH
Confidence            34568999999999999999998755

>cd00876 Ras Ras family

Probab=93.90  E-value=0.049  Score=45.53  Aligned_cols=21  Identities=29%  Similarity=0.512  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 043778          160 IGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~  180 (405)
                      |.|+|++|+|||||...+.+.
T Consensus         2 i~i~G~~~~GKTsli~~l~~~   22 (160)
T cd00876           2 VVVLGAGGVGKSAITIQFVKG   22 (160)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999998763

The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins regulate cell growth, proliferation and differentiation. Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding. Many RasGEFs have been identified. These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of m

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

Probab=93.90  E-value=0.051  Score=47.67  Aligned_cols=25  Identities=32%  Similarity=0.452  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .-.+++|+|..|+|||||.+.+...
T Consensus        32 ~Ge~~~l~G~nGsGKSTLl~~l~G~   56 (192)
T cd03232          32 PGTLTALMGESGAGKTTLLDVLAGR   56 (192)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCC
Confidence            3469999999999999999999973

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=93.89  E-value=0.089  Score=54.02  Aligned_cols=46  Identities=15%  Similarity=0.187  Sum_probs=39.3

Q ss_pred             cccccchHHHHHHHHHhhcCC-ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQ-VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|-+..++.|...+..+. .+.+.++|+.|+||||+|+.+.+..
T Consensus        16 ~diiGqe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~lAk~L   62 (563)
T PRK06647         16 NSLEGQDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAFARCL   62 (563)
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhh
Confidence            468999999999999998764 4578899999999999999998754

>PRK07952 DNA replication protein DnaC; Validated

Probab=93.88  E-value=0.1  Score=47.56  Aligned_cols=36  Identities=19%  Similarity=0.109  Sum_probs=27.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEE
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAV  195 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~  195 (405)
                      ...+.++|.+|+|||+||..+.+.. .  ..-..+++++
T Consensus        99 ~~~~~l~G~~GtGKThLa~aia~~l-~--~~g~~v~~it  134 (244)
T PRK07952         99 IASFIFSGKPGTGKNHLAAAICNEL-L--LRGKSVLIIT  134 (244)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHH-H--hcCCeEEEEE
Confidence            4578899999999999999999976 2  2223555664

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=93.88  E-value=0.098  Score=50.02  Aligned_cols=46  Identities=11%  Similarity=0.081  Sum_probs=37.1

Q ss_pred             cccccchHHHHHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE--EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|......++.+.+..  ....-|.|+|..|+||+++|+.++...
T Consensus         6 ~~liG~S~~~~~~~~~i~~~a~~~~pVlI~GE~GtGK~~lA~~iH~~s   53 (326)
T PRK11608          6 DNLLGEANSFLEVLEQVSRLAPLDKPVLIIGERGTGKELIASRLHYLS   53 (326)
T ss_pred             CccEECCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhC
Confidence            4689998888888887754  234568899999999999999998743

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

Probab=93.88  E-value=0.077  Score=53.52  Aligned_cols=46  Identities=24%  Similarity=0.249  Sum_probs=36.4

Q ss_pred             cccccchHHHHHHHHHhhc---C---------CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE---E---------QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~---~---------~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .++=|.+..+.+|.+++..   +         .++-|.++|++|.|||.||+.+.++.
T Consensus       190 ~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel  247 (802)
T KOG0733|consen  190 SDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGEL  247 (802)
T ss_pred             hhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhc
Confidence            3455788888887777642   1         46778999999999999999999865

>PLN03046 D-glycerate 3-kinase; Provisional

Probab=93.87  E-value=0.058  Score=52.57  Aligned_cols=26  Identities=31%  Similarity=0.434  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+-+|+|.|..|+|||||++.+..-.
T Consensus       211 ~PlIIGIsG~qGSGKSTLa~~L~~lL  236 (460)
T PLN03046        211 PPLVIGFSAPQGCGKTTLVFALDYLF  236 (460)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            46799999999999999999997644

>TIGR00959 ffh signal recognition particle protein

Probab=93.87  E-value=0.24  Score=48.95  Aligned_cols=26  Identities=23%  Similarity=0.201  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+.+|.++|.+|+||||.|..+....
T Consensus        98 ~p~vi~~vG~~GsGKTTtaakLA~~l  123 (428)
T TIGR00959        98 PPTVILMVGLQGSGKTTTCGKLAYYL  123 (428)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHH
Confidence            46799999999999999988887643

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.

>cd03219 ABC_Mj1267_LivG_branched The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine

Probab=93.87  E-value=0.047  Score=49.51  Aligned_cols=35  Identities=31%  Similarity=0.285  Sum_probs=26.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||++.+....    ....+.+++
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~----~~~~G~i~~   59 (236)
T cd03219          25 PGEIHGLIGPNGAGKTTLFNLISGFL----RPTSGSVLF   59 (236)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHcCCC----CCCCceEEE
Confidence            34689999999999999999999743    233455555

MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E. coli branched-chain amino acid transporter. MJ1267 contains an insertion from residues 114 to 123 characteristic of LivG (Leucine-Isoleucine-Valine) homologs. The branched-chain amino acid transporter from E. coli comprises a heterodimer of ABCs (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ).

>PRK07429 phosphoribulokinase; Provisional

Probab=93.86  E-value=0.057  Score=51.47  Aligned_cols=26  Identities=27%  Similarity=0.401  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.-+|+|.|.+|+|||||++.+....
T Consensus         7 ~~~IIgI~G~SGSGKSTla~~L~~ll   32 (327)
T PRK07429          7 RPVLLGVAGDSGCGKTTFLRGLADLL   32 (327)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHhHh
Confidence            56799999999999999999999754

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=93.86  E-value=0.053  Score=45.18  Aligned_cols=26  Identities=42%  Similarity=0.571  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.+++|+|..|.|||||++.+....
T Consensus        25 ~Ge~~~i~G~nGsGKStLl~~l~G~~   50 (144)
T cd03221          25 PGDRIGLVGRNGAGKSTLLKLIAGEL   50 (144)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            44699999999999999999998744

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.

>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=93.84  E-value=0.3  Score=46.50  Aligned_cols=73  Identities=16%  Similarity=0.280  Sum_probs=46.6

Q ss_pred             hHHHHHHHHHhhc---CCceEEEEEcCCCCcHHHHHHHHHhhccCCC--CCC---CEEEEEEeCCCCCHHHHHHHHHHHh
Q 043778          142 ESIFDKLWRCLTE---EQVGIIGLYGMGSVGKTTLLILINNKFLDEP--NYF---DVVIWAVASKVVEIEKIQESIAKKI  213 (405)
Q Consensus       142 ~~~~~~l~~~L~~---~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~--~~F---~~~~wv~vs~~~~~~~l~~~i~~~l  213 (405)
                      +.-.+.|.+.|.+   +...+|+|.|.=|+||||+.+.+.+.. +..  ..+   ..-.|-.-...--...++..|..++
T Consensus         2 ~~~a~~la~~I~~~~~~~~~~IgL~G~WGsGKSs~l~~l~~~L-~~~~~~~~~~i~fn~w~~~~~~~~~~~~~~~l~~~l   80 (325)
T PF07693_consen    2 KPYAKALAEIIKNPDSDDPFVIGLYGEWGSGKSSFLNMLKEEL-KEDNKEKYIFIYFNAWEYDGEDDLWASFLEELFDQL   80 (325)
T ss_pred             hHHHHHHHHHHhccCCCCCeEEEEECCCCCCHHHHHHHHHHHH-hcccccceeeEEEccccCCCcchHHHHHHHHHHHHH
Confidence            3455667777765   367899999999999999999999876 332  112   1222333332333455666666666


Q ss_pred             CC
Q 043778          214 GF  215 (405)
Q Consensus       214 ~~  215 (405)
                      ..
T Consensus        81 ~~   82 (325)
T PF07693_consen   81 EK   82 (325)
T ss_pred             HH
Confidence            43

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 [].

>PRK12338 hypothetical protein; Provisional

Probab=93.83  E-value=0.06  Score=50.81  Aligned_cols=25  Identities=16%  Similarity=0.202  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.+|.|.|.+|+||||+|+.+....
T Consensus         4 p~ii~i~G~sGsGKST~a~~la~~l   28 (319)
T PRK12338          4 PYVILIGSASGIGKSTIASELARTL   28 (319)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHC
Confidence            5689999999999999999999854

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=93.83  E-value=0.34  Score=42.22  Aligned_cols=35  Identities=23%  Similarity=0.308  Sum_probs=27.6

Q ss_pred             HHHHHhhcCCc-eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          147 KLWRCLTEEQV-GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       147 ~l~~~L~~~~~-~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+.+.+..+.+ +.+.++|+.|+||||+|+.+.+..
T Consensus         3 ~l~~~i~~~~~~~~~L~~G~~G~gkt~~a~~~~~~l   38 (188)
T TIGR00678         3 QLKRALEKGRLAHAYLFAGPEGVGKELLALALAKAL   38 (188)
T ss_pred             HHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            45556655554 689999999999999999988754

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.

>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=93.83  E-value=0.056  Score=46.52  Aligned_cols=26  Identities=27%  Similarity=0.294  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.+++|+|..|+|||||.+.+....
T Consensus        27 ~Ge~~~i~G~nGsGKStLl~~l~G~~   52 (173)
T cd03246          27 PGESLAIIGPSGSGKSTLARLILGLL   52 (173)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            34699999999999999999999743

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

>PRK11124 artP arginine transporter ATP-binding subunit; Provisional

Probab=93.83  E-value=0.052  Score=49.47  Aligned_cols=36  Identities=22%  Similarity=0.110  Sum_probs=27.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAV  195 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~  195 (405)
                      .-.+++|+|+.|+|||||++.+....    ....+.+++.
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~G~~----~~~~G~i~~~   62 (242)
T PRK11124         27 QGETLVLLGPSGAGKSSLLRVLNLLE----MPRSGTLNIA   62 (242)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC----CCCceEEEEC
Confidence            34689999999999999999999743    2234666653

>cd00154 Rab Rab family

Probab=93.82  E-value=0.053  Score=45.00  Aligned_cols=22  Identities=41%  Similarity=0.468  Sum_probs=19.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043778          160 IGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      |.++|.+|+|||||...+.+..
T Consensus         3 i~~~G~~~~GKStl~~~l~~~~   24 (159)
T cd00154           3 IVLIGDSGVGKTSLLLRFVDGK   24 (159)
T ss_pred             EEEECCCCCCHHHHHHHHHhCc
Confidence            7899999999999999998754

Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide di

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=93.81  E-value=0.11  Score=44.29  Aligned_cols=29  Identities=21%  Similarity=0.384  Sum_probs=25.0

Q ss_pred             hcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          153 TEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       153 ~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+..+|=+.|.+|+||||+|..++...
T Consensus        19 ~~~~~~viW~TGLSGsGKSTiA~ale~~L   47 (197)
T COG0529          19 KGQKGAVIWFTGLSGSGKSTIANALEEKL   47 (197)
T ss_pred             hCCCCeEEEeecCCCCCHHHHHHHHHHHH
Confidence            34467799999999999999999999865

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=93.81  E-value=0.095  Score=54.12  Aligned_cols=46  Identities=20%  Similarity=0.276  Sum_probs=39.0

Q ss_pred             cccccchHHHHHHHHHhhcCCc-eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQV-GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|-+...+.|.+.+..+.+ +.+.++|+.|+||||+|+.+.+..
T Consensus        16 ~~iiGq~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak~l   62 (576)
T PRK14965         16 SDLTGQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKAL   62 (576)
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhh
Confidence            5689999899999999887654 577899999999999999987753

>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed

Probab=93.79  E-value=0.098  Score=49.61  Aligned_cols=26  Identities=27%  Similarity=0.431  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ....|.++|++|+||||+++.+....
T Consensus       132 ~~~~I~l~G~~GsGKStvg~~La~~L  157 (309)
T PRK08154        132 RRRRIALIGLRGAGKSTLGRMLAARL  157 (309)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHc
Confidence            56689999999999999999999844

>PRK10908 cell division protein FtsE; Provisional

Probab=93.78  E-value=0.054  Score=48.63  Aligned_cols=35  Identities=31%  Similarity=0.247  Sum_probs=27.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||.+.+....    ....+.+++
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~G~~----~~~~G~i~~   61 (222)
T PRK10908         27 PGEMAFLTGHSGAGKSTLLKLICGIE----RPSAGKIWF   61 (222)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC----CCCceEEEE
Confidence            45699999999999999999999743    223466655

>cd04124 RabL2 RabL2 subfamily

Probab=93.77  E-value=0.054  Score=45.81  Aligned_cols=21  Identities=33%  Similarity=0.328  Sum_probs=18.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 043778          160 IGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~  180 (405)
                      |.++|.+|+|||||+..+.+.
T Consensus         3 i~vvG~~~vGKTsli~~~~~~   23 (161)
T cd04124           3 IILLGDSAVGKSKLVERFLMD   23 (161)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            688999999999999887653

RabL2 (Rab-like2) subfamily. RabL2s are novel Rab proteins identified recently which display features that are distinct from other Rabs, and have been termed Rab-like. RabL2 contains RabL2a and RabL2b, two very similar Rab proteins that share 98% sequence identity in humans. RabL2b maps to the subtelomeric region of chromosome 22q13.3 and RabL2a maps to 2q13, a region that suggests it is also a subtelomeric gene. Both genes are believed to be expressed ubiquitously, suggesting that RabL2s are the first example of duplicated genes in human proximal subtelomeric regions that are both expressed actively. Like other Rab-like proteins, RabL2s lack a prenylation site at the C-terminus. The specific functions of RabL2a and RabL2b remain unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-b

>cd02034 CooC The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH)

Probab=93.77  E-value=0.061  Score=43.04  Aligned_cols=22  Identities=41%  Similarity=0.656  Sum_probs=20.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043778          160 IGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      |.+.|.||+||||++..+....
T Consensus         2 i~~~GkgG~GKTt~a~~la~~l   23 (116)
T cd02034           2 IAITGKGGVGKTTIAALLARYL   23 (116)
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            7899999999999999998755

CODH from Rhodospirillum rubrum catalyzes the reversible oxidation of CO to CO2. CODH contains a nickel-iron-sulfur cluster (C-center) and an iron-sulfur cluster (B-center). CO oxidation occurs at the C-center. Three accessory proteins encoded by cooCTJ genes are involved in nickel incorporation into a nickel site. CooC functions as a nickel insertase that mobilizes nickel to apoCODH using energy released from ATP hydrolysis. CooC is a homodimer and has NTPase activities. Mutation at the P-loop abolishs its function.

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

Probab=93.76  E-value=0.049  Score=54.74  Aligned_cols=26  Identities=27%  Similarity=0.431  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.+++|||.+|+||||||+.+..-.
T Consensus       316 ~GE~lglVGeSGsGKSTlar~i~gL~  341 (539)
T COG1123         316 EGETLGLVGESGSGKSTLARILAGLL  341 (539)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999999743

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=93.76  E-value=0.057  Score=46.16  Aligned_cols=26  Identities=15%  Similarity=0.234  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.+++|+|..|.|||||++.+....
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   51 (166)
T cd03223          26 PGDRLLITGPSGTGKSSLFRALAGLW   51 (166)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            44689999999999999999999854

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

>cd03218 ABC_YhbG The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids

Probab=93.75  E-value=0.054  Score=48.95  Aligned_cols=35  Identities=31%  Similarity=0.287  Sum_probs=27.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|..|+|||||.+.+....    ....+.+++
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~----~p~~G~i~~   59 (232)
T cd03218          25 QGEIVGLLGPNGAGKTTTFYMIVGLV----KPDSGKILL   59 (232)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC----CCCCcEEEE
Confidence            34689999999999999999999743    233466665

The genes yhbG and yhbN are located in a single operon and may function together in cell envelope during biogenesis. YhbG is the putative ATP-binding cassette component and YhbN is the putative periplasmic-binding protein. Depletion of each gene product leads to growth arrest, irreversible cell damage and loss of viability in E. coli. The YhbG homolog (NtrA) is essential in Rhizobium meliloti, a symbiotic nitrogen-fixing bacterium.

>TIGR01189 ccmA heme ABC exporter, ATP-binding protein CcmA

Probab=93.75  E-value=0.056  Score=47.58  Aligned_cols=35  Identities=20%  Similarity=0.160  Sum_probs=27.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||.+.+....    ....+.+++
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~G~~----~~~~G~i~~   59 (198)
T TIGR01189        25 AGEALQVTGPNGIGKTTLLRILAGLL----RPDSGEVRW   59 (198)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC----CCCccEEEE
Confidence            44699999999999999999999843    233456655

This model describes the cyt c biogenesis protein encoded by ccmA in bacteria. An exception is, an arabidopsis protein. Quite likely this is encoded by an organelle. Bacterial c-type cytocromes are located on the periplasmic side of the cytoplasmic membrane. Several gene products encoded in a locus designated as 'ccm' are implicated in the transport and assembly of the functional cytochrome C. This cluster includes genes: ccmA;B;C;D;E;F;G and H. The posttranslational pathway includes the transport of heme moiety, the secretion of the apoprotein and the covalent attachment of the heme with the apoprotein. The proteins ccmA and B represent an ABC transporter; ccmC and D participate in heme transfer to ccmE, which function as a periplasmic heme chaperone. The presence of ccmF, G and H is suggested to be obligatory for the final functional assembly of cytochrome c.

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

Probab=93.74  E-value=0.2  Score=48.01  Aligned_cols=65  Identities=20%  Similarity=0.190  Sum_probs=44.0

Q ss_pred             ccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHHHH
Q 043778          137 TIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESI  209 (405)
Q Consensus       137 ~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i  209 (405)
                      .++|.++....+...+..+  +-+.+.|.+|+|||+||+.+....   ...|   .++.........++....
T Consensus        25 ~~~g~~~~~~~~l~a~~~~--~~vll~G~PG~gKT~la~~lA~~l---~~~~---~~i~~t~~l~p~d~~G~~   89 (329)
T COG0714          25 VVVGDEEVIELALLALLAG--GHVLLEGPPGVGKTLLARALARAL---GLPF---VRIQCTPDLLPSDLLGTY   89 (329)
T ss_pred             eeeccHHHHHHHHHHHHcC--CCEEEECCCCccHHHHHHHHHHHh---CCCe---EEEecCCCCCHHHhcCch
Confidence            3788777777766665543  357789999999999999999854   3333   344445555555554433

>cd01864 Rab19 Rab19 subfamily

Probab=93.74  E-value=0.054  Score=45.86  Aligned_cols=22  Identities=32%  Similarity=0.271  Sum_probs=19.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q 043778          158 GIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      .-|+|+|.+|+|||||+..+..
T Consensus         4 ~kv~vvG~~~~GKTsli~~l~~   25 (165)
T cd01864           4 FKIILIGDSNVGKTCVVQRFKS   25 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhh
Confidence            4588999999999999999865

Rab19 proteins are associated with Golgi stacks. Similarity analysis indicated that Rab41 is closely related to Rab19. However, the function of these Rabs is not yet chracterized. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance

Probab=93.74  E-value=0.056  Score=47.98  Aligned_cols=36  Identities=25%  Similarity=0.146  Sum_probs=27.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAV  195 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~  195 (405)
                      .-.+++|+|+.|+|||||.+.+....    ....+.+++.
T Consensus        25 ~G~~~~i~G~nGsGKSTLl~~l~Gl~----~~~~G~i~~~   60 (208)
T cd03268          25 KGEIYGFLGPNGAGKTTTMKIILGLI----KPDSGEITFD   60 (208)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCc----CCCceEEEEC
Confidence            44699999999999999999999743    2335666653

Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme complex BcrABC. Bacitracin has potent antibiotic activity against gram-positive bacteria. The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin. The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC. B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.

>cd03278 ABC_SMC_barmotin Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function

Probab=93.74  E-value=0.053  Score=47.81  Aligned_cols=21  Identities=19%  Similarity=0.343  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q 043778          159 IIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      +++|+|+.|+|||||++.++.
T Consensus        24 ~~~i~G~nGsGKStll~al~~   44 (197)
T cd03278          24 LTAIVGPNGSGKSNIIDAIRW   44 (197)
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            889999999999999999975

Barmotin belongs to the SMC protein family. SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, w

>TIGR01978 sufC FeS assembly ATPase SufC

Probab=93.74  E-value=0.053  Score=49.35  Aligned_cols=37  Identities=22%  Similarity=0.117  Sum_probs=27.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||.+.+.... . .....+.+++
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~-~-~~~~~G~i~~   61 (243)
T TIGR01978        25 KGEIHAIMGPNGSGKSTLSKTIAGHP-S-YEVTSGTILF   61 (243)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC-C-CCCCcceEEE
Confidence            34699999999999999999999742 0 0233455555

SufC is part of the SUF system, shown in E. coli to consist of six proteins and believed to act in Fe-S cluster formation during oxidative stress. SufC forms a complex with SufB and SufD. SufC belongs to the ATP-binding cassette transporter family (pfam00005) but is no longer thought to be part of a transporter. The complex is reported as cytosolic (PubMed:12554644) or associated with the membrane (PubMed:11943156). The SUF system also includes a cysteine desulfurase (SufS, enhanced by SufE) and a probable iron-sulfur cluster assembly scaffold protein, SufA.

>TIGR02770 nickel_nikD nickel import ATP-binding protein NikD

Probab=93.73  E-value=0.054  Score=48.97  Aligned_cols=26  Identities=19%  Similarity=0.273  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.+++|.|+.|+|||||++.+....
T Consensus        11 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   36 (230)
T TIGR02770        11 RGEVLALVGESGSGKSLTCLAILGLL   36 (230)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34689999999999999999999844

This family represents the NikD subunit of a multisubunit nickel import ABC transporter complex. Nickel, once imported, may be used in urease and in certain classes of hydrogenase and superoxide dismutase. NikD and NikE are homologous.

>PRK04220 2-phosphoglycerate kinase; Provisional

Probab=93.73  E-value=0.098  Score=48.92  Aligned_cols=26  Identities=23%  Similarity=0.341  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+-+|.|.|.+|+||||+|..+.+..
T Consensus        91 ~p~iIlI~G~sgsGKStlA~~La~~l  116 (301)
T PRK04220         91 EPIIILIGGASGVGTSTIAFELASRL  116 (301)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            56789999999999999999999854

>PRK09354 recA recombinase A; Provisional

Probab=93.72  E-value=0.15  Score=48.80  Aligned_cols=44  Identities=23%  Similarity=0.228  Sum_probs=34.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCH
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEI  202 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~  202 (405)
                      .-+++-|+|++|+||||||.++....   ...=..++|++.-..++.
T Consensus        59 ~G~IteI~G~~GsGKTtLal~~~~~~---~~~G~~~~yId~E~s~~~  102 (349)
T PRK09354         59 RGRIVEIYGPESSGKTTLALHAIAEA---QKAGGTAAFIDAEHALDP  102 (349)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH---HHcCCcEEEECCccchHH
Confidence            45799999999999999999987654   233357789987776665

>TIGR00101 ureG urease accessory protein UreG

Probab=93.72  E-value=0.066  Score=47.29  Aligned_cols=24  Identities=29%  Similarity=0.349  Sum_probs=21.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..|+|.|+.|+|||||.+.+.+..
T Consensus         2 ~~i~i~G~~GsGKTTll~~l~~~l   25 (199)
T TIGR00101         2 LKIGVAGPVGSGKTALIEALTRAL   25 (199)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhh
Confidence            368999999999999999999854

This model represents UreG, a GTP hydrolase that acts in the assembly of the nickel metallocenter of urease. It is found only in urease-positive species, although some urease-positive species (e.g. Bacillus subtilis) lack this protein. A similar protein, hypB, is an accessory protein for expression of hydrogenase, which also uses nickel.

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=93.72  E-value=0.057  Score=47.97  Aligned_cols=35  Identities=31%  Similarity=0.178  Sum_probs=26.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|..|+|||||.+.+.... .   ...+.+++
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~G~~-~---~~~G~i~~   61 (207)
T PRK13539         27 AGEALVLTGPNGSGKTTLLRLIAGLL-P---PAAGTIKL   61 (207)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC-C---CCCceEEE
Confidence            45699999999999999999999843 2   23455554

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=93.72  E-value=0.056  Score=48.10  Aligned_cols=35  Identities=26%  Similarity=0.145  Sum_probs=26.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||.+.+..-.    ....+.+++
T Consensus        25 ~G~~~~l~G~nGsGKSTLl~~l~G~~----~~~~G~i~~   59 (213)
T cd03262          25 KGEVVVIIGPSGSGKSTLLRCINLLE----EPDSGTIII   59 (213)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC----CCCCceEEE
Confidence            34689999999999999999999743    223455554

Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP has properties intermediate between those of integral and peripheral membrane proteins and is accessible from both sides of the membrane, presumably by its interaction with HisQ and HisM. The two HisP subunits form a homodimer within the complex. The domain structure of the amino acid uptake systems is typical for prokaryote extracellular solute binding protein-dependent uptake systems. All of the amino acid uptake systems also have at least one, and in a few cases, two extracellular solute binding proteins located in the periplasm of Gram-negative bacteria, or attached to the cell membrane of Gram-positive bacteria. The best-studied member of the PAAT (polar amino acid transport) family is the HisJQM

>cd03266 ABC_NatA_sodium_exporter NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake

Probab=93.71  E-value=0.056  Score=48.33  Aligned_cols=36  Identities=22%  Similarity=0.162  Sum_probs=27.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAV  195 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~  195 (405)
                      .-.+++|+|..|+|||||.+.+..-.    ....+.+++.
T Consensus        30 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~----~~~~G~i~~~   65 (218)
T cd03266          30 PGEVTGLLGPNGAGKTTTLRMLAGLL----EPDAGFATVD   65 (218)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCc----CCCCceEEEC
Confidence            34689999999999999999999743    3345666663

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilus, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of a single ATP-binding protein and a single intergral membrane protein.

>PRK11022 dppD dipeptide transporter ATP-binding subunit; Provisional

Probab=93.70  E-value=0.052  Score=51.89  Aligned_cols=26  Identities=23%  Similarity=0.351  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        32 ~Ge~~~lvG~sGsGKSTL~~~l~Gll   57 (326)
T PRK11022         32 QGEVVGIVGESGSGKSVSSLAIMGLI   57 (326)
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcCC
Confidence            44699999999999999999999844

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=93.70  E-value=0.059  Score=46.58  Aligned_cols=26  Identities=38%  Similarity=0.511  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.+++|.|+.|+|||||++.+....
T Consensus        27 ~Ge~~~i~G~nGsGKStLl~~l~G~~   52 (178)
T cd03247          27 QGEKIALLGRSGSGKSTLLQLLTGDL   52 (178)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccC
Confidence            44689999999999999999999743

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.

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=93.69  E-value=0.11  Score=53.56  Aligned_cols=46  Identities=20%  Similarity=0.218  Sum_probs=38.7

Q ss_pred             cccccchHHHHHHHHHhhcCC-ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQ-VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|.+...+.|.+.+..+. .+.+.++|+.|+||||+|+.+....
T Consensus        16 ~~viGq~~v~~~L~~~i~~~~~~hayLf~Gp~GtGKTt~Ak~lAkal   62 (559)
T PRK05563         16 EDVVGQEHITKTLKNAIKQGKISHAYLFSGPRGTGKTSAAKIFAKAV   62 (559)
T ss_pred             HhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            568999999999999988764 5678889999999999999987643

>cd03295 ABC_OpuCA_Osmoprotection OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment

Probab=93.69  E-value=0.057  Score=49.22  Aligned_cols=35  Identities=26%  Similarity=0.258  Sum_probs=26.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||++.+....    ....+.+++
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l~G~~----~~~~G~i~~   60 (242)
T cd03295          26 KGEFLVLIGPSGSGKTTTMKMINRLI----EPTSGEIFI   60 (242)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC----CCCCceEEE
Confidence            34689999999999999999999743    223455555

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. 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.

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=93.69  E-value=0.076  Score=37.10  Aligned_cols=20  Identities=35%  Similarity=0.409  Sum_probs=17.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q 043778          159 IIGLYGMGSVGKTTLLILIN  178 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~  178 (405)
                      +..|.|..|+|||||.-++.
T Consensus        25 ~tli~G~nGsGKSTllDAi~   44 (62)
T PF13555_consen   25 VTLITGPNGSGKSTLLDAIQ   44 (62)
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            79999999999999987654

>PRK14974 cell division protein FtsY; Provisional

Probab=93.69  E-value=0.064  Score=51.27  Aligned_cols=56  Identities=23%  Similarity=0.312  Sum_probs=33.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCH--HHHHHHHHHHhCC
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEI--EKIQESIAKKIGF  215 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~--~~l~~~i~~~l~~  215 (405)
                      ++.+|.++|++|+||||++..+.... .. ..+ .++.+. .+.+..  .+-+......++.
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~~l-~~-~g~-~V~li~-~Dt~R~~a~eqL~~~a~~lgv  196 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAYYL-KK-NGF-SVVIAA-GDTFRAGAIEQLEEHAERLGV  196 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHH-HH-cCC-eEEEec-CCcCcHHHHHHHHHHHHHcCC
Confidence            46899999999999999887777654 21 223 233333 233322  2334555555554

>PRK14250 phosphate ABC transporter ATP-binding protein; Provisional

Probab=93.69  E-value=0.056  Score=49.23  Aligned_cols=35  Identities=29%  Similarity=0.311  Sum_probs=27.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|..|+|||||++.+....    ....+.+++
T Consensus        28 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~----~p~~G~i~~   62 (241)
T PRK14250         28 GGAIYTIVGPSGAGKSTLIKLINRLI----DPTEGSILI   62 (241)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC----CCCCcEEEE
Confidence            34689999999999999999999743    233455555

>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=93.68  E-value=0.06  Score=46.66  Aligned_cols=35  Identities=26%  Similarity=0.295  Sum_probs=26.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|..|+|||||.+.+....    ....+.+++
T Consensus        24 ~G~~~~l~G~nGsGKStLl~~i~G~~----~~~~G~v~~   58 (180)
T cd03214          24 AGEIVGILGPNGAGKSTLLKTLAGLL----KPSSGEILL   58 (180)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC----CCCCcEEEE
Confidence            44699999999999999999999743    234455554

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.

>PF00071 Ras: Ras family; InterPro: IPR001806 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=93.68  E-value=0.061  Score=45.27  Aligned_cols=21  Identities=38%  Similarity=0.438  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 043778          160 IGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~  180 (405)
                      |.++|.+|+|||||...+.+.
T Consensus         2 i~vvG~~~vGKtsl~~~~~~~   22 (162)
T PF00071_consen    2 IVVVGDSGVGKTSLINRLING   22 (162)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhh
Confidence            689999999999999998874

This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction; PDB: 1M7B_A 2V55_B 3EG5_C 3LAW_A 1YHN_A 1T91_B 1HE8_B 3SEA_B 3T5G_A 1XTS_A ....

>TIGR02324 CP_lyasePhnL phosphonate C-P lyase system protein PhnL

Probab=93.68  E-value=0.057  Score=48.52  Aligned_cols=36  Identities=22%  Similarity=0.150  Sum_probs=27.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAV  195 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~  195 (405)
                      .-.+++|+|..|+|||||.+.+....    ....+.+++.
T Consensus        33 ~Ge~~~l~G~nGsGKSTLl~~i~G~~----~~~~G~i~~~   68 (224)
T TIGR02324        33 AGECVALSGPSGAGKSTLLKSLYANY----LPDSGRILVR   68 (224)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC----CCCCCeEEEe
Confidence            34699999999999999999999744    2345666654

Members of this family are the PhnL protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated C-P lysase complex. This protein (PhnL) and the adjacent-encoded PhnK (TIGR02323) resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this C-P lyase complex rather than part of a transporter per se.

>PRK14247 phosphate ABC transporter ATP-binding protein; Provisional

Probab=93.68  E-value=0.056  Score=49.49  Aligned_cols=26  Identities=35%  Similarity=0.443  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.+++|+|..|+|||||++.+....
T Consensus        28 ~Ge~~~i~G~nGsGKSTLl~~i~G~~   53 (250)
T PRK14247         28 DNTITALMGPSGSGKSTLLRVFNRLI   53 (250)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccC
Confidence            34699999999999999999999743

>PHA02575 1 deoxynucleoside monophosphate kinase; Provisional

Probab=93.67  E-value=0.057  Score=48.09  Aligned_cols=21  Identities=29%  Similarity=0.387  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q 043778          159 IIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      +|+|+|++|+||||+|+.+-.
T Consensus         2 iI~i~G~~gsGKstva~~~~~   22 (227)
T PHA02575          2 LIAISGKKRSGKDTVADFIIE   22 (227)
T ss_pred             EEEEeCCCCCCHHHHHHHHHh
Confidence            799999999999999999865

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=93.65  E-value=0.052  Score=44.68  Aligned_cols=22  Identities=32%  Similarity=0.323  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 043778          159 IIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      -|+|+|.+|+|||||...+.+.
T Consensus         2 kv~liG~~~vGKSsL~~~l~~~   23 (142)
T TIGR02528         2 RIMFIGSVGCGKTTLTQALQGE   23 (142)
T ss_pred             eEEEECCCCCCHHHHHHHHcCC
Confidence            3789999999999999998764

This protein is found within operons which code for polyhedral organelles containing the enzyme ethanolamine ammonia lyase. The function of this gene is unknown, although the presence of an N-terminal GxxGxGK motif implies a GTP-binding site.

>TIGR01277 thiQ thiamine ABC transporter, ATP-binding protein

Probab=93.65  E-value=0.059  Score=48.07  Aligned_cols=35  Identities=29%  Similarity=0.280  Sum_probs=27.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||++.++...    ....+.+++
T Consensus        23 ~Ge~~~i~G~nGsGKSTLl~~l~G~~----~~~~G~i~~   57 (213)
T TIGR01277        23 DGEIVAIMGPSGAGKSTLLNLIAGFI----EPASGSIKV   57 (213)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC----CCCCcEEEE
Confidence            45699999999999999999999744    223466665

This model describes the energy-transducing ATPase subunit ThiQ of the ThiBPQ thiamine (and thiamine pyrophosphate) ABC transporter in several Proteobacteria. This protein is found so far only in Proteobacteria, and is found in complete genomes only if the ThiB and ThiP subunits are also found.

>cd04136 Rap_like Rap-like subfamily

Probab=93.65  E-value=0.058  Score=45.36  Aligned_cols=21  Identities=29%  Similarity=0.488  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q 043778          159 IIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      -|.|+|.+|+|||||+..+.+
T Consensus         3 ki~i~G~~~vGKTsl~~~~~~   23 (163)
T cd04136           3 KVVVLGSGGVGKSALTVQFVQ   23 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            478999999999999988775

The Rap subfamily consists of the Rap1, Rap2, and RSR1. Rap subfamily proteins perform different cellular functions, depending on the isoform and its subcellular localization. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and microsomal membrane of the pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. Rap1 localizes in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres.

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

Probab=93.64  E-value=0.063  Score=45.74  Aligned_cols=35  Identities=20%  Similarity=0.274  Sum_probs=27.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|..|+|||||.+.+....    ....+.+++
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~i~G~~----~~~~G~v~~   59 (163)
T cd03216          25 RGEVHALLGENGAGKSTLMKILSGLY----KPDSGEILV   59 (163)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC----CCCCeEEEE
Confidence            34699999999999999999998743    234555555

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.

>PRK14242 phosphate transporter ATP-binding protein; Provisional

Probab=93.64  E-value=0.059  Score=49.47  Aligned_cols=25  Identities=32%  Similarity=0.430  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .-.+++|+|..|+|||||.+.+..-
T Consensus        31 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   55 (253)
T PRK14242         31 QNQVTALIGPSGCGKSTFLRCLNRM   55 (253)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhh
Confidence            4469999999999999999999873

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

Probab=93.63  E-value=0.059  Score=49.69  Aligned_cols=26  Identities=27%  Similarity=0.345  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.+++|+|+.|+|||||.+.+....
T Consensus        37 ~Ge~~~I~G~NGsGKSTLlk~l~Gl~   62 (257)
T PRK11247         37 AGQFVAVVGRSGCGKSTLLRLLAGLE   62 (257)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            44699999999999999999999743

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=93.62  E-value=0.1  Score=53.71  Aligned_cols=46  Identities=24%  Similarity=0.302  Sum_probs=38.5

Q ss_pred             cccccchHHHHHHHHHhhcCC-ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQ-VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|-+..++.|.+.+..+. ...+.++|+.|+||||+|+.+.+..
T Consensus        16 ~dIiGQe~v~~~L~~ai~~~ri~ha~Lf~GPpG~GKTtiArilAk~L   62 (624)
T PRK14959         16 AEVAGQETVKAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKAL   62 (624)
T ss_pred             HHhcCCHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhc
Confidence            457898888888888887765 5788899999999999999998755

>PRK13648 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=93.61  E-value=0.095  Score=48.63  Aligned_cols=36  Identities=17%  Similarity=0.079  Sum_probs=28.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAV  195 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~  195 (405)
                      .-.+++|+|+.|.|||||.+.+..-.    ....+.+++.
T Consensus        34 ~Ge~~~I~G~nGsGKSTLl~~i~Gl~----~~~~G~i~~~   69 (269)
T PRK13648         34 KGQWTSIVGHNGSGKSTIAKLMIGIE----KVKSGEIFYN   69 (269)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC----CCCceEEEEC
Confidence            44699999999999999999999743    2345666653

>PRK10865 protein disaggregation chaperone; Provisional

Probab=93.61  E-value=0.11  Score=56.30  Aligned_cols=46  Identities=20%  Similarity=0.312  Sum_probs=36.4

Q ss_pred             cccccchHHHHHHHHHhhc-------C--CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE-------E--QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~-------~--~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|-+..++.+...+..       +  ...++.++|+.|+|||+||+.+.+..
T Consensus       568 ~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l  622 (857)
T PRK10865        568 HRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFM  622 (857)
T ss_pred             CeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            4578988888888877652       1  23578899999999999999999744

>PRK14245 phosphate ABC transporter ATP-binding protein; Provisional

Probab=93.61  E-value=0.059  Score=49.36  Aligned_cols=24  Identities=29%  Similarity=0.555  Sum_probs=21.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      .-.+++|+|+.|+|||||++.+..
T Consensus        28 ~Ge~~~i~G~nGsGKSTLl~~i~G   51 (250)
T PRK14245         28 EKSVVAFIGPSGCGKSTFLRLFNR   51 (250)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhh
Confidence            346899999999999999999975

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=93.60  E-value=0.28  Score=51.00  Aligned_cols=46  Identities=22%  Similarity=0.296  Sum_probs=38.9

Q ss_pred             cccccchHHHHHHHHHhhcCCc-eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQV-GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|.+...+.|.+.+..+.+ +.+.++|+.|+||||+|+.+....
T Consensus        17 ~~viGq~~~~~~L~~~i~~~~l~hayLf~Gp~G~GKtt~A~~lAk~l   63 (614)
T PRK14971         17 ESVVGQEALTTTLKNAIATNKLAHAYLFCGPRGVGKTTCARIFAKTI   63 (614)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHh
Confidence            5689999999999999987654 568899999999999999877643

>cd03252 ABCC_Hemolysin The ABC-transporter hemolysin B is a central component of the secretion machinery that translocates the toxin, hemolysin A, in a Sec-independent fashion across both membranes of E

Probab=93.60  E-value=0.059  Score=48.88  Aligned_cols=35  Identities=23%  Similarity=0.290  Sum_probs=26.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|..|+|||||++.+....    ....+.+++
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~----~~~~G~i~~   61 (237)
T cd03252          27 PGEVVGIVGRSGSGKSTLTKLIQRFY----VPENGRVLV   61 (237)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCc----CCCCCEEEE
Confidence            45699999999999999999999743    223455554

coli. The hemolysin A (HlyA) transport machinery is composed of the ATP-binding cassette (ABC) transporter HlyB located in the inner membrane, hemolysin D (HlyD), also anchored in the inner membrane, and TolC, which resides in the outer membrane. HlyD apparently forms a continuous channel that bridges the entire periplasm, interacting with TolC and HlyB. This arrangement prevents the appearance of periplasmic intermediates of HlyA during substrate transport. Little is known about the molecular details of HlyA transport, but it is evident that ATP-hydrolysis by the ABC-transporter HlyB is a necessary source of energy.

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=93.59  E-value=0.1  Score=47.98  Aligned_cols=38  Identities=32%  Similarity=0.260  Sum_probs=28.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEe
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVA  196 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~v  196 (405)
                      +..-+.++|.+|+|||.||.++.+.. -  ..=-.++++++
T Consensus       104 ~~~nl~l~G~~G~GKThLa~Ai~~~l-~--~~g~sv~f~~~  141 (254)
T COG1484         104 RGENLVLLGPPGVGKTHLAIAIGNEL-L--KAGISVLFITA  141 (254)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHHH-H--HcCCeEEEEEH
Confidence            56678999999999999999999977 2  22235566654

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=93.59  E-value=0.062  Score=48.90  Aligned_cols=23  Identities=39%  Similarity=0.408  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      -.+++|+|+.|.|||||.+.+..
T Consensus        30 G~~~~iiGPNGaGKSTLlK~iLG   52 (254)
T COG1121          30 GEITALIGPNGAGKSTLLKAILG   52 (254)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhC
Confidence            37999999999999999999997

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

Probab=93.57  E-value=0.13  Score=50.53  Aligned_cols=47  Identities=21%  Similarity=0.115  Sum_probs=35.2

Q ss_pred             ccccccchHHHHHHHHHhh-------c---C--------CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          135 ALTIVGLESIFDKLWRCLT-------E---E--------QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       135 ~~~~vGr~~~~~~l~~~L~-------~---~--------~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...++|-+..++.+...+.       .   .        ....|.++|++|+|||+||+.+....
T Consensus        76 ~~~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~~l  140 (413)
T TIGR00382        76 DEYVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARIL  140 (413)
T ss_pred             cceecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHHhc
Confidence            3567898888887765441       1   0        12579999999999999999999744

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

>PRK14241 phosphate transporter ATP-binding protein; Provisional

Probab=93.56  E-value=0.061  Score=49.56  Aligned_cols=26  Identities=23%  Similarity=0.370  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.+++|+|..|+|||||.+.+....
T Consensus        29 ~Ge~~~i~G~nGsGKSTLl~~laGl~   54 (258)
T PRK14241         29 PRSVTAFIGPSGCGKSTVLRTLNRMH   54 (258)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhccC
Confidence            34699999999999999999999743

>PRK09544 znuC high-affinity zinc transporter ATPase; Reviewed

Probab=93.56  E-value=0.061  Score=49.37  Aligned_cols=26  Identities=27%  Similarity=0.356  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.+++|+|..|+|||||++.+....
T Consensus        29 ~Ge~~~I~G~NGsGKSTLl~~i~Gl~   54 (251)
T PRK09544         29 PGKILTLLGPNGAGKSTLVRVVLGLV   54 (251)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            45689999999999999999999743

>cd03273 ABC_SMC2_euk Eukaryotic SMC2 proteins; SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains

Probab=93.55  E-value=0.066  Score=49.14  Aligned_cols=25  Identities=20%  Similarity=0.241  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      +..+.+|+|+.|+|||||+.+++.-
T Consensus        24 ~~~~~~IvG~NGsGKStll~Ai~~l   48 (251)
T cd03273          24 DPQFNAITGLNGSGKSNILDAICFV   48 (251)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHH
Confidence            3568999999999999999999853

Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells, the proteins are found as heterodimers of SMC1 paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6 (fo

>TIGR00972 3a0107s01c2 phosphate ABC transporter, ATP-binding protein

Probab=93.55  E-value=0.062  Score=49.15  Aligned_cols=38  Identities=24%  Similarity=0.198  Sum_probs=27.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCC--CEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYF--DVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F--~~~~wv  194 (405)
                      .-.+++|+|..|+|||||++.+..-. .....+  .+.+++
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l~G~~-~p~~~~~~~G~i~~   65 (247)
T TIGR00972        26 KNQVTALIGPSGCGKSTLLRSLNRMN-DLVPGVRIEGKVLF   65 (247)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccC-CCCcCCCCceEEEE
Confidence            44699999999999999999998743 211112  566666

This model represents the ATP-binding protein of a family of ABC transporters for inorganic phosphate. In the model species Escherichia coli, a constitutive transporter for inorganic phosphate, with low affinity, is also present. The high affinity transporter that includes this polypeptide is induced when extracellular phosphate concentrations are low. The proteins most similar to the members of this family but not included appear to be amino acid transporters.

>cd00879 Sar1 Sar1 subfamily

Probab=93.54  E-value=0.059  Score=46.88  Aligned_cols=24  Identities=33%  Similarity=0.533  Sum_probs=20.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ...|+|+|++|+|||||...+.+.
T Consensus        19 ~~ki~ilG~~~~GKStLi~~l~~~   42 (190)
T cd00879          19 EAKILFLGLDNAGKTTLLHMLKDD   42 (190)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            445699999999999999998863

Sar1 is an essential component of COPII vesicle coats involved in export of cargo from the ER. The GTPase activity of Sar1 functions as a molecular switch to control protein-protein and protein-lipid interactions that direct vesicle budding from the ER. Activation of the GDP to the GTP-bound form of Sar1 involves the membrane-associated guanine nucleotide exchange factor (GEF) Sec12. Sar1 is unlike all Ras superfamily GTPases that use either myristoyl or prenyl groups to direct membrane association and function, in that Sar1 lacks such modification. Instead, Sar1 contains a unique nine-amino-acid N-terminal extension. This extension contains an evolutionarily conserved cluster of bulky hydrophobic amino acids, referred to as the Sar1-N-terminal activation recruitment (STAR) motif. The STAR motif mediates the recruitment of Sar1 to ER membranes and facilitates its interaction with mammalian Sec12 GEF leading to activation.

>COG4136 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=93.54  E-value=0.13  Score=42.70  Aligned_cols=37  Identities=27%  Similarity=0.430  Sum_probs=29.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCC--CEEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYF--DVVIWAV  195 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F--~~~~wv~  195 (405)
                      .--|+.+.|++|+||+||-..+....   ...|  .+.+|+.
T Consensus        27 ~GeivtlMGPSGcGKSTLls~~~G~L---a~~F~~~G~~~l~   65 (213)
T COG4136          27 KGEIVTLMGPSGCGKSTLLSWMIGAL---AGQFSCTGELWLN   65 (213)
T ss_pred             CCcEEEEECCCCccHHHHHHHHHhhc---ccCcceeeEEEEC
Confidence            34589999999999999998888866   4555  5678885

>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein

Probab=93.54  E-value=0.094  Score=47.26  Aligned_cols=36  Identities=22%  Similarity=0.199  Sum_probs=27.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAV  195 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~  195 (405)
                      .-.+++|+|+.|+|||||.+.+....    ....+.+++.
T Consensus        28 ~G~~~~i~G~nGsGKSTLl~~l~G~~----~~~~G~i~~~   63 (229)
T cd03254          28 PGETVAIVGPTGAGKTTLINLLMRFY----DPQKGQILID   63 (229)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCc----CCCCCEEEEC
Confidence            34689999999999999999998743    2345666663

In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and lipid export. The MRP-like family, similar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains each composed of six transmembrane (TM) helices and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK06851 hypothetical protein; Provisional

Probab=93.53  E-value=0.83  Score=44.17  Aligned_cols=56  Identities=23%  Similarity=0.185  Sum_probs=37.4

Q ss_pred             cccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCC
Q 043778          138 IVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKV  199 (405)
Q Consensus       138 ~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~  199 (405)
                      .-|.-.-.+.+.    .+--+++.|.|++|+|||||++.++... . ..-++..++-|-+.+
T Consensus       199 p~G~~s~~~~l~----~~~~~~~~i~G~pG~GKstl~~~i~~~a-~-~~G~~v~~~hC~~dP  254 (367)
T PRK06851        199 PKGAVDFVPSLT----EGVKNRYFLKGRPGTGKSTMLKKIAKAA-E-ERGFDVEVYHCGFDP  254 (367)
T ss_pred             CCcHHhhHHhHh----cccceEEEEeCCCCCcHHHHHHHHHHHH-H-hCCCeEEEEeCCCCC
Confidence            355554455544    3445789999999999999999999866 3 233555555444443

>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=93.52  E-value=0.064  Score=46.56  Aligned_cols=35  Identities=20%  Similarity=0.067  Sum_probs=26.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|..|+|||||.+.+....    ....+.+++
T Consensus        25 ~G~~~~i~G~nGsGKSTLl~~l~G~~----~~~~G~i~~   59 (182)
T cd03215          25 AGEIVGIAGLVGNGQTELAEALFGLR----PPASGEITL   59 (182)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC----CCCCceEEE
Confidence            34689999999999999999999744    223455555

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. In members of 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.

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

Probab=93.52  E-value=0.061  Score=47.57  Aligned_cols=39  Identities=18%  Similarity=0.113  Sum_probs=28.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAV  195 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~  195 (405)
                      .-.+++|+|..|+|||||++.+.... .-.....+.+++.
T Consensus        32 ~Ge~~~i~G~nGsGKSTLl~~l~G~~-~~~~~~~G~i~i~   70 (202)
T cd03233          32 PGEMVLVLGRPGSGCSTLLKALANRT-EGNVSVEGDIHYN   70 (202)
T ss_pred             CCcEEEEECCCCCCHHHHHHHhcccC-CCCCCcceEEEEC
Confidence            44699999999999999999999844 2111345666653

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK10867 signal recognition particle protein; Provisional

Probab=93.51  E-value=0.29  Score=48.47  Aligned_cols=26  Identities=23%  Similarity=0.258  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+.+|.++|++|+||||.+..+....
T Consensus        99 ~p~vI~~vG~~GsGKTTtaakLA~~l  124 (433)
T PRK10867         99 PPTVIMMVGLQGAGKTTTAGKLAKYL  124 (433)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHH
Confidence            47899999999999999888777644

>PRK11264 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional

Probab=93.49  E-value=0.064  Score=49.10  Aligned_cols=26  Identities=35%  Similarity=0.337  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.+++|+|+.|+|||||++.+....
T Consensus        28 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   53 (250)
T PRK11264         28 PGEVVAIIGPSGSGKTTLLRCINLLE   53 (250)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34589999999999999999998743

>PRK14274 phosphate ABC transporter ATP-binding protein; Provisional

Probab=93.49  E-value=0.064  Score=49.44  Aligned_cols=25  Identities=20%  Similarity=0.351  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .-.+++|+|..|+|||||++.+...
T Consensus        37 ~Ge~~~l~G~nGsGKSTLl~~l~G~   61 (259)
T PRK14274         37 ENEVTAIIGPSGCGKSTFIKTLNLM   61 (259)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhh
Confidence            3468999999999999999999974

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

Probab=93.48  E-value=0.067  Score=45.91  Aligned_cols=26  Identities=27%  Similarity=0.382  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.+++|+|+.|.|||||.+.+..-.
T Consensus        27 ~G~~~~l~G~nGsGKstLl~~i~G~~   52 (171)
T cd03228          27 PGEKVAIVGPSGSGKSTLLKLLLRLY   52 (171)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            45699999999999999999999843

They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03267 ABC_NatA_like Similar in sequence to NatA, this is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled to proton or K+ uptake

Probab=93.48  E-value=0.065  Score=48.69  Aligned_cols=35  Identities=23%  Similarity=0.306  Sum_probs=27.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|..|+|||||++.+....    ....+.+++
T Consensus        46 ~Ge~~~i~G~NGsGKSTLl~~i~Gl~----~p~~G~i~~   80 (236)
T cd03267          46 KGEIVGFIGPNGAGKTTTLKILSGLL----QPTSGEVRV   80 (236)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCc----CCCceEEEE
Confidence            34699999999999999999999743    234566655

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilis, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of the single ATP-binding protein and the single intergral membrane protein.

>TIGR03740 galliderm_ABC gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit

Probab=93.47  E-value=0.11  Score=46.63  Aligned_cols=35  Identities=29%  Similarity=0.337  Sum_probs=27.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|..|+|||||.+.+....    ....+.+++
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~G~~----~~~~G~i~~   59 (223)
T TIGR03740        25 KNSVYGLLGPNGAGKSTLLKMITGIL----RPTSGEIIF   59 (223)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC----CCCceEEEE
Confidence            34599999999999999999999743    234566665

Model TIGR03731 represents the family of all lantibiotics related to gallidermin, including epidermin, mutatin, and nisin. This protein family describes the ATP-binding subunit of a gallidermin/epidermin class lantibiotic protection transporter. It is largely restricted to gallidermin-family lantibiotic biosynthesis and export cassettes, but also occurs in orphan transporter cassettes in species that lack candidate lantibiotic precursor and synthetase genes.

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=93.46  E-value=0.066  Score=45.28  Aligned_cols=22  Identities=32%  Similarity=0.558  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q 043778          158 GIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      -.|+|.|++|.|||||-+.+++
T Consensus        30 e~iaitGPSG~GKStllk~va~   51 (223)
T COG4619          30 EFIAITGPSGCGKSTLLKIVAS   51 (223)
T ss_pred             ceEEEeCCCCccHHHHHHHHHh
Confidence            4799999999999999999998

>TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE

Probab=93.46  E-value=0.063  Score=48.45  Aligned_cols=35  Identities=26%  Similarity=0.204  Sum_probs=27.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|..|+|||||++.+....    ....+.+++
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l~G~~----~~~~G~i~~   59 (230)
T TIGR03410        25 KGEVTCVLGRNGVGKTTLLKTLMGLL----PVKSGSIRL   59 (230)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC----CCCCCEEEE
Confidence            44699999999999999999999743    233455555

Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.

>PRK10744 pstB phosphate transporter ATP-binding protein; Provisional

Probab=93.46  E-value=0.064  Score=49.47  Aligned_cols=25  Identities=28%  Similarity=0.393  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .-.+++|+|+.|+|||||++.+...
T Consensus        38 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   62 (260)
T PRK10744         38 KNQVTAFIGPSGCGKSTLLRTFNRM   62 (260)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcc
Confidence            4469999999999999999999874

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

Probab=93.45  E-value=0.087  Score=45.30  Aligned_cols=40  Identities=23%  Similarity=0.061  Sum_probs=28.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCC
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASK  198 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~  198 (405)
                      ..++.+.|+.|+|||.||+.+.... .+ ......+-+..+.
T Consensus         3 ~~~~ll~GpsGvGKT~la~~la~~l-~~-~~~~~~~~~d~s~   42 (171)
T PF07724_consen    3 KSNFLLAGPSGVGKTELAKALAELL-FV-GSERPLIRIDMSE   42 (171)
T ss_dssp             SEEEEEESSTTSSHHHHHHHHHHHH-T--SSCCEEEEEEGGG
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHHh-cc-CCccchHHHhhhc
Confidence            4578899999999999999999866 21 3333445455443

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of ATPase AAA-2 domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....

>PRK00023 cmk cytidylate kinase; Provisional

Probab=93.45  E-value=0.074  Score=47.97  Aligned_cols=24  Identities=25%  Similarity=0.393  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+|+|.|++|+||||+|+.+....
T Consensus         5 ~~i~i~g~~gsGksti~~~la~~~   28 (225)
T PRK00023          5 IVIAIDGPAGSGKGTVAKILAKKL   28 (225)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            689999999999999999999855

>cd04123 Rab21 Rab21 subfamily

Probab=93.45  E-value=0.066  Score=44.81  Aligned_cols=22  Identities=36%  Similarity=0.514  Sum_probs=19.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043778          160 IGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      |+|+|.+|+|||||...+.+..
T Consensus         3 i~i~G~~~~GKStli~~l~~~~   24 (162)
T cd04123           3 VVLLGEGRVGKTSLVLRYVENK   24 (162)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7899999999999999888743

The localization and function of Rab21 are not clearly defined, with conflicting data reported. Rab21 has been reported to localize in the ER in human intestinal epithelial cells, with partial colocalization with alpha-glucosidase, a late endosomal/lysosomal marker. More recently, Rab21 was shown to colocalize with and affect the morphology of early endosomes. In Dictyostelium, GTP-bound Rab21, together with two novel LIM domain proteins, LimF and ChLim, has been shown to regulate phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=93.45  E-value=0.12  Score=49.36  Aligned_cols=44  Identities=11%  Similarity=0.138  Sum_probs=33.3

Q ss_pred             cccchHHHHHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          138 IVGLESIFDKLWRCLTE--EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       138 ~vGr~~~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++|......++.+.+..  ....-|.|+|..|+||+++|+.+++..
T Consensus         1 liG~S~~m~~~~~~~~~~a~~~~pVLI~GE~GtGK~~lAr~iH~~s   46 (329)
T TIGR02974         1 LIGESNAFLEVLEQVSRLAPLDRPVLIIGERGTGKELIAARLHYLS   46 (329)
T ss_pred             CCcCCHHHHHHHHHHHHHhCCCCCEEEECCCCChHHHHHHHHHHhc
Confidence            36766677777666653  234467899999999999999999754

Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	405
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	3e-17
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	8e-15
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-13
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-07

>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 = 82.6 bits (204), Expect = 3e-17
 Identities = 70/453 (15%), Positives = 133/453 (29%), Gaps = 121/453 (26%)

Query: 30  LQKNLEALPREL----------QKLVETRNDV-RIRVIVAEQQKMKRLEQVEPWFSRVQD 78
           L ++ EAL +++               T ++  ++R    +QQ+   L ++         
Sbjct: 9   LLQHREALEKDIKTSYIMDHMISDGFLTISEEEKVRNEPTQQQRAAMLIKMILKKDN-DS 67

Query: 79  AESEVAKLMLERNWELKKLCLGGCCSKSCKSS-YKVEGDFQEVAQRLPENPVDARPVALT 137
             S    L+ E   +L  L   G    S  S    V G    V   L E  V  RPV   
Sbjct: 68  YVSFYNALLHEGYKDLAALLHDGIPVVSSSSGKDSVSGITSYVRTVLCEGGVPQRPV--V 125

Query: 138 IVGLESIFDKLWRCLT--EEQVGIIGLYGMGSVGKTTLLILI-NNKFLDEPNYFDVVIWA 194
            V  + + + + + L+  + + G + ++GM   GK+ L      +  L E  +   V W 
Sbjct: 126 FVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWV 185

Query: 195 VAS---KVVEIEKIQESIAKKIGFFNESWESKTVQEKAVDI---FNILSKKKY------- 241
                 K   + K+Q    +     + S       E+A D      +    +        
Sbjct: 186 SVGKQDKSGLLMKLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDV 245

Query: 242 --EDAWKLFE-----------EKVGRDILDS--------------------------HPN 262
                 K F+           + V   ++                              +
Sbjct: 246 WDSWVLKAFDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFVNMKKAD 305

Query: 263 IPELVETVAKECG-------AMAS--RKTHQEWEYAIEVWRNEY---------------- 297
           +PE   ++ KEC         + +  R     WEY ++  +N+                 
Sbjct: 306 LPEQAHSIIKECKGSPLVVSLIGALLRDFPNRWEYYLKQLQNKQFKRIRKSSSYDYEALD 365

Query: 298 -TLVYSYDFLPSDVGRFCLL----------IDIDQLVDFWICEGFLDEYDGIAARNQGYC 346
             +  S + L  D+ +              +    L   W  E             +   
Sbjct: 366 EAMSISVEMLREDI-KDYYTDLSILQKDVKVPTKVLCILWDMETE-----------EVED 413

Query: 347 IVGTLLHACLLEEEEGNRV---KMHDVIRDMAL 376
           I+   ++  LL  +   +     +HD+  D   
Sbjct: 414 ILQEFVNKSLLFCDRNGKSFRYYLHDLQVDFLT 446

>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 = 75.0 bits (184), Expect = 8e-15
 Identities = 39/431 (9%), Positives = 97/431 (22%), Gaps = 120/431 (27%)

Query: 62  KMKRLEQVEPWFSRVQDAESEVAKLMLERNWE--------LKKLCLGGCCSKSCKSSYKV 113
              RLE++  +    +   SE+  L+   N+         L+                 +
Sbjct: 47  MSTRLERIANFLRIYRRQASELGPLIDFFNYNNQSHLADFLEDYIDFAINEPDLLRPVVI 106

Query: 114 EGDF--QEVAQRLPENPVDARPVALTIVGLESIFDKLWRCLTE---EQVGIIGLYGMGSV 168
              F  Q + ++L    V  +         E   D++ + L E        + L+G    
Sbjct: 107 APQFSRQMLDRKLLLGNVPKQMT---CYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGS 163

Query: 169 GKTTLLI-LINNKFLDEPNYFDVVIWAVASK--VVEIEKIQESIAKKIGFFNESWESKTV 225
           GK+ +    ++         +D ++W   S         +   I   +   ++     +V
Sbjct: 164 GKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSV 223

Query: 226 QEKAVDIFNI------LSKKKY-------------------------------------- 241
           +     +         + +                                         
Sbjct: 224 EHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQELRLRCLVTTRDVEISNAASQ 283

Query: 242 ------------EDAWKLFEEKVGRDILDSHPNIPELVETVAKEC----------GAMAS 279
                       ++ +   E               +++    +                 
Sbjct: 284 TCEFIEVTSLEIDECYDFLEAYGMPM--PVGEKEEDVLNKTIELSSGNPATLMMFFKSCE 341

Query: 280 RKTHQEWEYAIEVWRNEY-----------------TLVYSYDFLPSDVGRFCLL------ 316
            KT ++         +                    L    + L  +  R  L       
Sbjct: 342 PKTFEKMAQLNNKLESRGLVGVECITPYSYKSLAMALQRCVEVLSDED-RSALAFAVVMP 400

Query: 317 ----IDIDQLVDFWICEGFLDEYDGIAARNQGYCIVGTLLHACLLEEEEGNRV---KMHD 369
               I +         +   +E + +   ++    +  L     L   +   V   K+  
Sbjct: 401 PGVDIPVKLWSCVIPVDICSNEEEQL--DDEVADRLKRLSKRGALLSGKRMPVLTFKIDH 458

Query: 370 VIRDMALWIAS 380
           +I      +  
Sbjct: 459 IIHMFLKHVVD 469

>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 = 70.3 bits (171), Expect = 4e-13
 Identities = 59/448 (13%), Positives = 128/448 (28%), Gaps = 127/448 (28%)

Query: 27  IRDLQ-KNLEALPR------ELQKLVETRNDV----RIRVIVAEQQKMKRLEQVEPWFSR 75
           + +   K+++ +P+      E+  ++ +++ V    R+   +  +Q+    E V+ +   
Sbjct: 30  VDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQE----EMVQKFVEE 85

Query: 76  VQDAESEVAKLMLERN--WELKKLCLGGCCSKSCKSSYKVEGDFQEVAQRLPENPVDARP 133
           V           L  N  + +  +          +    +   + E   RL  +      
Sbjct: 86  V-----------LRINYKFLMSPI------KTEQRQPSMMTRMYIEQRDRLYNDNQVFAK 128

Query: 134 VALTIVGLESIFDKLWRCLTEEQVG-IIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVI 192
             ++       + KL + L E +    + + G+   GKT + + +   +  +      + 
Sbjct: 129 YNVSR---LQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIF 185

Query: 193 WAVASKVVE----IEKIQ------------------------ESIAKKIGFFNESWESKT 224
           W            +E +Q                         SI  ++    +S   + 
Sbjct: 186 WLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYEN 245

Query: 225 -------VQE-KAVDIFNI----------------LSKKKY-----EDAWKLFEEKVGRD 255
                  VQ  KA + FN+                LS         +           + 
Sbjct: 246 CLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKS 305

Query: 256 ILDSHPNI-----PELVETVA----KECGAMAS--RKTHQEWEYAIEVWRNEYTLVYSYD 304
           +L  + +      P  V T                  T   W++ +   +    +  S +
Sbjct: 306 LLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKH-VNCDKLTTIIESSLN 364

Query: 305 FLPSDVGR--FCLL--------IDIDQLVDFWICEGFLDEYDGIAARNQGYCIV------ 348
            L     R  F  L        I    L   W  +    +   +  +   Y +V      
Sbjct: 365 VLEPAEYRKMFDRLSVFPPSAHIPTILLSLIW-FDVIKSDVMVVVNKLHKYSLVEKQPKE 423

Query: 349 GTL-LHACLLE--EEEGNRVKMHDVIRD 373
            T+ + +  LE   +  N   +H  I D
Sbjct: 424 STISIPSIYLELKVKLENEYALHRSIVD 451

>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 = 55.2 bits (132), Expect = 2e-08
 Identities = 58/436 (13%), Positives = 120/436 (27%), Gaps = 130/436 (29%)

Query: 10  DSNITRCPDC-----TVRKASSIRDLQKNLEALPRELQKLVETRNDVRIRVIVAEQQKMK 64
              +    D       ++  +S   + + L+ L  ++     +R+D    + +       
Sbjct: 173 SYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKL------- 225

Query: 65  RLEQVEPWFSRVQDAESEVAKLMLERN----WELKKLCLGGCCSKSCK----SSYKVEGD 116
           R+  ++    R+  ++     L++  N           L       CK    + +K   D
Sbjct: 226 RIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLS------CKILLTTRFKQVTD 279

Query: 117 FQEVAQRLPENPVDARPVALTIVGLESIFDKLWRC----LTEEQVGIIGLYGMGSVGKTT 172
           F   A       +D   + LT   ++S+  K   C    L  E +               
Sbjct: 280 F-LSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPR---------- 328

Query: 173 LLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFFNESWESKTVQEKAVDI 232
            L +I     D    +D   W    K V  +K+   I   +     +             
Sbjct: 329 RLSIIAESIRDGLATWDN--W----KHVNCDKLTTIIESSLNVLEPA------------- 369

Query: 233 FNILSKKKYEDAWKLFEEKVGRDILDSHPNIP-------------ELVETVAKECGAMAS 279
                +K ++    +F             +IP               V  V  +      
Sbjct: 370 ---EYRKMFDR-LSVFPPSA---------HIPTILLSLIWFDVIKSDVMVVVNKL----H 412

Query: 280 RKTHQEWEYAIEVWRNEYTLVYSY-----DFLPSDVGRFCL---LIDIDQLVDFWICEGF 331
           + +       +E    E T   S      +        + L   ++D   +   +  +  
Sbjct: 413 KYS------LVEKQPKEST--ISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDL 464

Query: 332 LDEY-DGIAARNQGYCIVGTLLHACLLEEEEGNRVKMHDVIRDMAL---WIASTFENKNE 387
           +  Y D     + G+       H   +E  E        + R + L   ++    E K  
Sbjct: 465 IPPYLDQYFYSHIGH-------HLKNIEHPE-----RMTLFRMVFLDFRFL----EQK-- 506

Query: 388 KFLVLAGVGLTAAPSV 403
             +        A+ S+
Sbjct: 507 --IRHDSTAWNASGSI 520

>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 = 51.4 bits (122), Expect = 4e-07
 Identities = 66/407 (16%), Positives = 112/407 (27%), Gaps = 140/407 (34%)

Query: 1   NLCSPSFSCDSNITRCPDCTVRKASSIRDLQKNLEAL------PREL------------- 41
            L    +  D N T   D +      I  +Q  L  L         L             
Sbjct: 204 KLL---YQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWN 260

Query: 42  ------QKLVETRNDVRIRVIVAEQQKMKRLEQVEPWFSRVQDAESEVAKLMLERNWELK 95
                 + L+ TR       + A       L+      +     E +           L 
Sbjct: 261 AFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLT---PDEVK----------SLL 307

Query: 96  KLCLGGCCSKSCKSSYKVEGDFQEVAQRLPENPVDARPVALTIVGLESIFDKL-----WR 150
              L       C+             Q LP   +   P  L+I+  ESI D L     W+
Sbjct: 308 LKYLD------CR------------PQDLPREVLTTNPRRLSIIA-ESIRDGLATWDNWK 348

Query: 151 CLTEEQVGIIGLYGMGSVGKTTLLILINNKFLDEP----NYFDVVIW----AVASKVVEI 202
            +  +++             T +   +N   L+       +  + ++     + + ++ +
Sbjct: 349 HVNCDKL------------TTIIESSLNV--LEPAEYRKMFDRLSVFPPSAHIPTILLSL 394

Query: 203 ------EKIQESIAKKIGFFNESWESKTVQEKAVDIFNIL--SKKKYEDAWKLFEEKVGR 254
                 +     +  K      S   K  +E  + I +I    K K E+     E  + R
Sbjct: 395 IWFDVIKSDVMVVVNK--LHKYSLVEKQPKESTISIPSIYLELKVKLEN-----EYALHR 447

Query: 255 DILDSHPNIPELVETVAKECGAMASRKTHQEWEYAIEVWRNEYTLVYSYDFLP------S 308
            I+D + NIP                KT    +             Y Y  +        
Sbjct: 448 SIVDHY-NIP----------------KTFDSDDLIPPYLDQ-----YFYSHIGHHLKNIE 485

Query: 309 DVGRFCLLIDIDQLVDFWICEGFLD---EYDGIAARNQGYCIVGTLL 352
              R  L   +   +DF     FL+    +D  A    G  I+ TL 
Sbjct: 486 HPERMTLFRMV--FLDF----RFLEQKIRHDSTAWNASGS-ILNTLQ 525

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	405
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	100.0
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	99.92
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	99.9
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.88
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	99.65
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	98.19
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	98.16
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	98.13
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	98.12
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	98.11
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	98.11
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	98.08
2fna_A	357	Conserved hypothetical protein; structural genomic	98.01
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	97.88
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	97.78
2chg_A	226	Replication factor C small subunit; DNA-binding pr	97.71
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	97.57
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	97.48
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	97.24
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	97.23
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	97.22
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	97.16
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	97.09
3bos_A	242	Putative DNA replication factor; P-loop containing	97.0
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	96.95
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	96.91
2chq_A	319	Replication factor C small subunit; DNA-binding pr	96.89
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	96.88
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	96.83
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	96.83
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	96.83
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	96.83
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	96.82
3pvs_A	447	Replication-associated recombination protein A; ma	96.8
3co5_A	143	Putative two-component system transcriptional RES	96.73
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	96.72
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.7
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	96.68
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	96.68
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	96.67
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	96.66
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	96.65
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	96.63
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	96.62
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	96.61
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	96.61
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	96.6
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	96.59
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	96.59
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	96.54
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	96.54
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.43
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	96.4
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	96.39
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	96.37
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	96.36
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	96.36
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.31
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.3
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	96.3
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	96.29
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.29
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	96.28
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.27
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.26
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.22
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	96.21
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	96.18
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.15
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.14
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.14
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	96.12
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	96.07
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	96.05
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	96.04
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	96.02
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.02
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	96.01
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	96.01
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.01
2r44_A	331	Uncharacterized protein; putative ATPase, structur	96.01
3fwy_A	314	Light-independent protochlorophyllide reductase I	96.01
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.0
2hf9_A	226	Probable hydrogenase nickel incorporation protein	96.0
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	95.99
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	95.99
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	95.98
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	95.95
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	95.94
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	95.94
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	95.92
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	95.91
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	95.91
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	95.91
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	95.91
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	95.91
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	95.9
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	95.89
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	95.88
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	95.88
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	95.86
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	95.86
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	95.85
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	95.84
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	95.83
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	95.83
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	95.83
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	95.83
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	95.81
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	95.81
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	95.79
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	95.78
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	95.78
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	95.78
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	95.78
1via_A	175	Shikimate kinase; structural genomics, transferase	95.77
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	95.77
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	95.74
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	95.74
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	95.73
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	95.72
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	95.71
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	95.71
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	95.71
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	95.7
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	95.7
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	95.69
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	95.68
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	95.67
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	95.66
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	95.65
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	95.64
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	95.63
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	95.63
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	95.62
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	95.61
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	95.6
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	95.58
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	95.57
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	95.55
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	95.55
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	95.55
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	95.53
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	95.52
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	95.52
4a74_A	231	DNA repair and recombination protein RADA; hydrola	95.5
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	95.5
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	95.49
2cvh_A	220	DNA repair and recombination protein RADB; filamen	95.49
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	95.46
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	95.46
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	95.43
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	95.42
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	95.42
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	95.4
2vli_A	183	Antibiotic resistance protein; transferase, tunica	95.39
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	95.35
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	95.35
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	95.34
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	95.31
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	95.3
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	95.3
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	95.3
2z43_A	324	DNA repair and recombination protein RADA; archaea	95.29
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	95.28
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	95.25
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	95.25
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	95.23
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	95.21
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	95.2
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	95.2
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	95.2
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	95.19
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	95.18
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	95.16
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	95.13
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	95.11
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	95.08
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	95.08
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	95.08
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	95.06
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	95.04
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	95.02
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	95.02
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	95.01
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	95.0
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	94.99
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	94.97
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	94.95
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	94.92
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	94.91
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	94.9
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	94.87
1tue_A	212	Replication protein E1; helicase, replication, E1E	94.87
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	94.82
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	94.82
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	94.82
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	94.8
3end_A	307	Light-independent protochlorophyllide reductase ir	94.77
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	94.76
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	94.75
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	94.73
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	94.72
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	94.69
1b0u_A	262	Histidine permease; ABC transporter, transport pro	94.68
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	94.68
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	94.65
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	94.65
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	94.64
1ji0_A	240	ABC transporter; ATP binding protein, structural g	94.64
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	94.64
2qgz_A	308	Helicase loader, putative primosome component; str	94.63
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	94.62
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	94.61
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	94.6
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	94.59
1g6h_A	257	High-affinity branched-chain amino acid transport	94.59
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	94.59
1sgw_A	214	Putative ABC transporter; structural genomics, P p	94.59
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	94.57
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	94.56
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	94.54
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	94.54
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	94.52
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	94.51
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	94.5
2eyu_A	261	Twitching motility protein PILT; pilus retraction	94.46
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	94.45
2ghi_A	260	Transport protein; multidrug resistance protein, M	94.44
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	94.44
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	94.44
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	94.42
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	94.42
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	94.41
2og2_A	359	Putative signal recognition particle receptor; nuc	94.41
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	94.37
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	94.37
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	94.36
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	94.33
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	94.31
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	94.29
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	94.29
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	94.26
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	94.22
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	94.2
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	94.19
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	94.18
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	94.18
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	94.16
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	94.13
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	94.1
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	94.06
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	94.06
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	94.06
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	94.04
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	94.04
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	94.03
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	94.0
2wji_A	165	Ferrous iron transport protein B homolog; membrane	93.97
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	93.97
1xp8_A	366	RECA protein, recombinase A; recombination, radior	93.97
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	93.94
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	93.93
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	93.92
1u94_A	356	RECA protein, recombinase A; homologous recombinat	93.92
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	93.91
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	93.9
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	93.9
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	93.89
1p9r_A	418	General secretion pathway protein E; bacterial typ	93.84
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	93.8
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	93.74
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	93.74
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	93.71
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	93.68
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	93.68
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	93.67
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	93.65
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	93.65
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	93.6
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	93.6
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	93.55
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	93.52
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	93.51
3kta_A	182	Chromosome segregation protein SMC; structural mai	93.46
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	93.44
2xxa_A	433	Signal recognition particle protein; protein trans	93.4
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	93.39
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	93.38
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	93.38
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	93.35
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	93.34
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	93.33
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	93.33
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	93.27
2ged_A	193	SR-beta, signal recognition particle receptor beta	93.27
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	93.25
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	93.23
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	93.2
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	93.19
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	93.18
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	93.16
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	93.15
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	93.14
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	93.14
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	93.14
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	93.12
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	93.11
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	93.1
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	93.1
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	93.1
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	93.09
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	93.08
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	93.06
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	93.06
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	93.05
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	93.04
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	93.03
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	93.02
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	93.02
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	93.01
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	93.0
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	92.99
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	92.97
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	92.94
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	92.94
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	92.91
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	92.91
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	92.91
3io5_A	333	Recombination and repair protein; storage dimer, i	92.89
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	92.89
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	92.87
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	92.87
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	92.86
2ewv_A	372	Twitching motility protein PILT; pilus retraction	92.86
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	92.85
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	92.84
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	92.84
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	92.84
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	92.81
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	92.8
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	92.75
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	92.75
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	92.74
1nrj_B	218	SR-beta, signal recognition particle receptor beta	92.74
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	92.74
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	92.72
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	92.71
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	92.7
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	92.68
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	92.67
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	92.67
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	92.67
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	92.65
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	92.63
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	92.62
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	92.6
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	92.6
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	92.6
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	92.58
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	92.58
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	92.56
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	92.55
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	92.55
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	92.54
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	92.53
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	92.52
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	92.51
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	92.5
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	92.49
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	92.48
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	92.48
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	92.47
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	92.46
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	92.43
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	92.41
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	92.41
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	92.37
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	92.36
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	92.35
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	92.34
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	92.3
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	92.27
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	92.26
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	92.26
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	92.25
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	92.23
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	92.23
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	92.22
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	92.22
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	92.21
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	92.2
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	92.2
3ch4_B	202	Pmkase, phosphomevalonate kinase; parallel beta-sh	92.2
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	92.19
3llu_A	196	RAS-related GTP-binding protein C; structural geno	92.18
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	92.16
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	92.13
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	92.13
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	92.09
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	92.08
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	92.07
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	92.06
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	92.05
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	92.02
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	92.02
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	92.0
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	91.99
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	91.98
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	91.98
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	91.97
2fh5_B	214	SR-beta, signal recognition particle receptor beta	91.94
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	91.93
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	91.9
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	91.89
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	91.85
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	91.81
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	91.81
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	91.8
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	91.73
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	91.72
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	91.7
3cwq_A	209	Para family chromosome partitioning protein; alpha	91.68
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	91.67
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	91.65
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	91.65
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	91.64
3ice_A	422	Transcription termination factor RHO; transcriptio	91.62
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	91.6
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	91.46
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	91.41
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	91.38
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	91.35
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	91.34
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	91.34
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	91.32
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	91.31
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	91.27
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	91.26
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	91.25
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	91.24
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	91.23
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	91.22
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	91.22
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	91.17
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	91.16
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	91.13
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	91.12
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	91.1
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	91.08
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	91.08
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	91.07
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	91.0
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	90.99
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	90.93
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	90.92
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	90.92
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	90.91
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	90.89
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	90.88
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	90.88
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	90.88
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	90.7
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	90.65
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	90.64
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	90.63
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	90.63
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	90.59
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	90.58
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	90.56
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	90.47
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	90.47
1dek_A	241	Deoxynucleoside monophosphate kinase; transferase,	90.44
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	90.42
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	90.34
2oze_A	298	ORF delta'; para, walker type atpases, DNA segrega	90.31
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	90.27
3hdt_A	223	Putative kinase; structura genomics, PSI-2, protei	90.25
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	90.19
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	90.18
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	90.17
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	90.11
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	90.07
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	90.04
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	90.01
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	89.99
4i1u_A	210	Dephospho-COA kinase; structural genomics, niaid,	89.97
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	89.95
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	89.92
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	89.92
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	89.87
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	89.76
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	89.67
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	89.61
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	89.6
2r6a_A	454	DNAB helicase, replicative helicase; replication,	89.54
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	89.53
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	89.51
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	89.49
1wcv_1	257	SOJ, segregation protein; ATPase, bacterial, chrom	89.45

>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=3.6e-34  Score=291.25  Aligned_cols=241  Identities=13%  Similarity=0.052  Sum_probs=183.6

Q ss_pred             ccchHHHHHHHHHhhcC---CceEEEEEcCCCCcHHHHHHHHHh--hccCCCCCCCEEEEEEeCCCC--CHHHHHHHHHH
Q 043778          139 VGLESIFDKLWRCLTEE---QVGIIGLYGMGSVGKTTLLILINN--KFLDEPNYFDVVIWAVASKVV--EIEKIQESIAK  211 (405)
Q Consensus       139 vGr~~~~~~l~~~L~~~---~~~vi~I~G~~GiGKTtLA~~v~~--~~~~~~~~F~~~~wv~vs~~~--~~~~l~~~i~~  211 (405)
                      +||+.++++|.++|..+   +.++|+|+||||+||||||+.+|+  +. +++.+|++++||++++.+  +...++..|+.
T Consensus       131 ~GR~~~~~~l~~~L~~~~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~-~~~~~F~~~~wv~vs~~~~~~~~~~~~~il~  209 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQ-LIGINYDSIVWLKDSGTAPKSTFDLFTDILL  209 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSS-TBTTTBSEEEEEECCCCSTTHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhcccCCCceEEEEEcCCCCCHHHHHHHHHHhhhH-HHhccCCcEEEEEECCCCCCCHHHHHHHHHH
Confidence            59999999999999754   689999999999999999999998  56 788999999999999985  89999999999


Q ss_pred             HhCCCCC-----CCCcccHHHHHHHHHHHHccc-ch--------------------------------------------
Q 043778          212 KIGFFNE-----SWESKTVQEKAVDIFNILSKK-KY--------------------------------------------  241 (405)
Q Consensus       212 ~l~~~~~-----~~~~~~~~~~~~~l~~~L~~k-r~--------------------------------------------  241 (405)
                      +++....     .....+...+...+++.|.++ ||                                            
T Consensus       210 ~l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~~~~~~~~~gs~ilvTTR~~~v~~~~~~~~~~~~  289 (549)
T 2a5y_B          210 MLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQELRLRCLVTTRDVEISNAASQTCEFIE  289 (549)
T ss_dssp             HHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHHHHHHHTTCEEEEEESBGGGGGGCCSCEEEEE
T ss_pred             HHhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCchhhcccccCCCEEEEEcCCHHHHHHcCCCCeEEE
Confidence            9976421     112234566788999999996 87                                            


Q ss_pred             ------HHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHh--hh-----hC--CCCHHHHHHHHHHHhhh-----c--cH
Q 043778          242 ------EDAWKLFEEKVGRDILDSHPNIPELVETVAKECG--AM-----AS--RKTHQEWEYAIEVWRNE-----Y--TL  299 (405)
Q Consensus       242 ------~ds~~Lf~~~~~~~~~~~~~~l~~~~~~Iv~~C~--~l-----~~--~~~~~~W~~~l~~l~~~-----~--~l  299 (405)
                            ++||+||.+.++...  .++.+.+++++|+++|+  ++     +.  ....++|...+....+.     +  +|
T Consensus       290 l~~L~~~ea~~Lf~~~a~~~~--~~~~~~~~~~~I~~~c~GlPLAl~~~g~~l~~~~w~~~~~l~~~l~~~~~~~i~~~l  367 (549)
T 2a5y_B          290 VTSLEIDECYDFLEAYGMPMP--VGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRGLVGVECIT  367 (549)
T ss_dssp             CCCCCHHHHHHHHHHTSCCCC----CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSSHHHHHHHHHHHHHHCSSTTCCCS
T ss_pred             CCCCCHHHHHHHHHHHhcCCC--CchhHHHHHHHHHHHhCCChHHHHHHHHHhccchHHHHHHhHHHhhcccHHHHHHHH
Confidence                  899999999987653  24678899999999999  11     11  11223333323222111     2  89


Q ss_pred             hhhhccCCCCccccccc---------------eeHHHH--HHHHHHh--CCCCCCC-chhHHHHHHHHHHHHHHcCcccc
Q 043778          300 VYSYDFLPSDVGRFCLL---------------IDIDQL--VDFWICE--GFLDEYD-GIAARNQGYCIVGTLLHACLLEE  359 (405)
Q Consensus       300 ~~sy~~Lp~~~~k~cfl---------------i~~~~L--i~~Wiae--g~~~~~~-~~~~e~~a~~~~~~Lv~r~ll~~  359 (405)
                      .+||++||+ ++|.||+               |+.+.-  +++|+|+  ||+...+ +.+.++.++ ||++|+++|||++
T Consensus       368 ~~Sy~~L~~-~lk~~f~~Ls~~er~l~~~ls~fp~~~~i~i~~w~a~~~G~i~~~~~~~~~~~~~~-~l~~L~~rsLl~~  445 (549)
T 2a5y_B          368 PYSYKSLAM-ALQRCVEVLSDEDRSALAFAVVMPPGVDIPVKLWSCVIPVDICSNEEEQLDDEVAD-RLKRLSKRGALLS  445 (549)
T ss_dssp             SSSSSSHHH-HHHHHHHTSCHHHHHHTTGGGSSCTTCCEEHHHHHHHSCC-------CCCTHHHHH-HHHHTTTBSSCSE
T ss_pred             hcccccccH-HHHHHHhccchhhhhHhhheeeeCCCCeeeeeeeeeeccceeccCCCCCCHHHHHH-HHHHHHHcCCeeE
Confidence            999999999 7999974               221110  8999999  9998876 447788887 9999999999997


Q ss_pred             c---CCCeEEeChhHHHHHHHHHccccc
Q 043778          360 E---EGNRVKMHDVIRDMALWIASTFEN  384 (405)
Q Consensus       360 ~---~~~~~~~Hdlvrd~a~~~~~~~~~  384 (405)
                      .   ...+|+|||+||+||++++.+++.
T Consensus       446 ~~~~~~~~~~mHdlv~~~a~~~~~~~~~  473 (549)
T 2a5y_B          446 GKRMPVLTFKIDHIIHMFLKHVVDAQTI  473 (549)
T ss_dssp             EECSSSCEEECCHHHHHHHHTTSCTHHH
T ss_pred             ecCCCceEEEeChHHHHHHHHHHHHHHH
Confidence            5   356899999999999999887653

>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=99.92  E-value=5.3e-25  Score=243.74  Aligned_cols=230  Identities=15%  Similarity=0.205  Sum_probs=180.6

Q ss_pred             cccccchHHHHHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCC-CEEEEEEeCCCCC--HHHHHHHHH
Q 043778          136 LTIVGLESIFDKLWRCLTE--EQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYF-DVVIWAVASKVVE--IEKIQESIA  210 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F-~~~~wv~vs~~~~--~~~l~~~i~  210 (405)
                      +.+|||+.++++|.++|..  ++.++|+|+||||+||||||+++|++......+| +.++||++++..+  ....+..++
T Consensus       124 ~~~vgR~~~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~  203 (1249)
T 3sfz_A          124 VIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQNLC  203 (1249)
T ss_dssp             SSCCCCHHHHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHHHHHHHHHHH
T ss_pred             ceeccHHHHHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchHHHHHHHHHH
Confidence            5689999999999999963  4789999999999999999999998641124555 6888999988543  444577777


Q ss_pred             HHhCCCCC--CCCcccHHHHHHHHHHHHccc--ch---------------------------------------------
Q 043778          211 KKIGFFNE--SWESKTVQEKAVDIFNILSKK--KY---------------------------------------------  241 (405)
Q Consensus       211 ~~l~~~~~--~~~~~~~~~~~~~l~~~L~~k--r~---------------------------------------------  241 (405)
                      ..++....  .....+.+.+...++..|.++  |+                                             
T Consensus       204 ~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~~~~~~~~~~~~ilvTtR~~~~~~~~~~~~~~~~~~  283 (1249)
T 3sfz_A          204 MRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAFDNQCQILLTTRDKSVTDSVMGPKHVVPVE  283 (1249)
T ss_dssp             HHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCHHHHTTTCSSCEEEEEESSTTTTTTCCSCBCCEECC
T ss_pred             HHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCHHHHHhhcCCCEEEEEcCCHHHHHhhcCCceEEEec
Confidence            77765422  123456788888999999877  76                                             


Q ss_pred             -----HHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHh--hh--------hCCCCHHHHHHHHHHHhhh----------
Q 043778          242 -----EDAWKLFEEKVGRDILDSHPNIPELVETVAKECG--AM--------ASRKTHQEWEYAIEVWRNE----------  296 (405)
Q Consensus       242 -----~ds~~Lf~~~~~~~~~~~~~~l~~~~~~Iv~~C~--~l--------~~~~~~~~W~~~l~~l~~~----------  296 (405)
                           ++||+||...++...    +.+.+++++|+++|+  +|        ...++ ..|...++.+...          
T Consensus       284 ~~l~~~~a~~l~~~~~~~~~----~~~~~~~~~i~~~~~glPLal~~~~~~l~~~~-~~~~~~l~~l~~~~~~~~~~~~~  358 (1249)
T 3sfz_A          284 SGLGREKGLEILSLFVNMKK----EDLPAEAHSIIKECKGSPLVVSLIGALLRDFP-NRWAYYLRQLQNKQFKRIRKSSS  358 (1249)
T ss_dssp             SSCCHHHHHHHHHHHHTSCS----TTCCTHHHHHHHHTTTCHHHHHHHHHHHHHSS-SCHHHHHHHHHSCCCCCSSCTTC
T ss_pred             CCCCHHHHHHHHHHhhCCCh----hhCcHHHHHHHHHhCCCHHHHHHHHHHhhcCh-hHHHHHHHHHhhhhhhhcccccc
Confidence                 899999999886443    334567999999998  11        11222 4688888887543          


Q ss_pred             -----c--cHhhhhccCCCCccccccc----------eeHHHHHHHHHHhCCCCCCCchhHHHHHHHHHHHHHHcCcccc
Q 043778          297 -----Y--TLVYSYDFLPSDVGRFCLL----------IDIDQLVDFWICEGFLDEYDGIAARNQGYCIVGTLLHACLLEE  359 (405)
Q Consensus       297 -----~--~l~~sy~~Lp~~~~k~cfl----------i~~~~Li~~Wiaeg~~~~~~~~~~e~~a~~~~~~Lv~r~ll~~  359 (405)
                           +  +|.+||+.||+ +.|+||+          |++..++.+|.++           ++.++.+|++|+++|||+.
T Consensus       359 ~~~~~~~~~l~~s~~~L~~-~~~~~~~~l~~f~~~~~i~~~~~~~~~~~~-----------~~~~~~~l~~L~~~sl~~~  426 (1249)
T 3sfz_A          359 YDYEALDEAMSISVEMLRE-DIKDYYTDLSILQKDVKVPTKVLCVLWDLE-----------TEEVEDILQEFVNKSLLFC  426 (1249)
T ss_dssp             TTHHHHHHHHHHHHHTSCT-TTHHHHHHGGGSCTTCCEEHHHHHHHHTCC-----------HHHHHHHHHHHHHTTSCEE
T ss_pred             cchHHHHHHHHHHHHhCCH-HHHHHHHHhCccCCCCeeCHHHHHHHhCCC-----------HHHHHHHHHHHHhccceEE
Confidence                 1  89999999999 5999999          8899999999765           4678899999999999997


Q ss_pred             cC---CCeEEeChhHHHHHHHHHccc
Q 043778          360 EE---GNRVKMHDVIRDMALWIASTF  382 (405)
Q Consensus       360 ~~---~~~~~~Hdlvrd~a~~~~~~~  382 (405)
                      ..   ..+|+|||+||+||+..+.++
T Consensus       427 ~~~~~~~~~~~h~l~~~~~~~~~~~~  452 (1249)
T 3sfz_A          427 NRNGKSFCYYLHDLQVDFLTEKNRSQ  452 (1249)
T ss_dssp             EESSSSEEEECCHHHHHHHHHHTGGG
T ss_pred             ecCCCceEEEecHHHHHHHHhhhhHH
Confidence            52   336999999999999997764

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=99.90  E-value=4.7e-24  Score=222.87  Aligned_cols=214  Identities=14%  Similarity=0.169  Sum_probs=162.0

Q ss_pred             ccccchHHHHHHHHHhhc-CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCE-EEEEEeCCCCCHHHHHHHHHHHhC
Q 043778          137 TIVGLESIFDKLWRCLTE-EQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDV-VIWAVASKVVEIEKIQESIAKKIG  214 (405)
Q Consensus       137 ~~vGr~~~~~~l~~~L~~-~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~-~~wv~vs~~~~~~~l~~~i~~~l~  214 (405)
                      ..|||+.++++|.++|.. ++.++|+|+||||+||||||+.+|++. +++.+|+. ++|+++++.++...++..|+..++
T Consensus       129 ~~VGRe~eLeeL~elL~~~d~~RVV~IvGmGGIGKTTLAk~Vy~d~-rV~~~Fd~gV~WVsVs~~~d~~~IL~~Ll~lL~  207 (1221)
T 1vt4_I          129 YNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSY-KVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLY  207 (1221)
T ss_dssp             SCCCCHHHHHHHHHHHHHCCSSCEEEECCSTTSSHHHHHHHHHHHC-HHHHHHSSCEEEEECCCSSSHHHHHHHHHHHHH
T ss_pred             CCCCcHHHHHHHHHHHhccCCCeEEEEEcCCCccHHHHHHHHHHhh-HHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHh
Confidence            359999999999999986 468899999999999999999999876 67889985 999999999999888888877543


Q ss_pred             CCC----CCC-----CcccHHHHHHHHHHHH---cccch-----------------------------------------
Q 043778          215 FFN----ESW-----ESKTVQEKAVDIFNIL---SKKKY-----------------------------------------  241 (405)
Q Consensus       215 ~~~----~~~-----~~~~~~~~~~~l~~~L---~~kr~-----------------------------------------  241 (405)
                      ...    ...     ...+.+.+...+++.|   .++|+                                         
T Consensus       208 ~i~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd~eqLe~f~pGSRILVTTRd~~Va~~l~g~~vy  287 (1221)
T 1vt4_I          208 QIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTT  287 (1221)
T ss_dssp             HHCSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCCHHHHHHHHSSCCEEEECSCSHHHHHHHHHSSC
T ss_pred             hcCcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcChHHHHHhhCCCeEEEEeccChHHHHhcCCCeEE
Confidence            211    000     1123455566677766   45665                                         


Q ss_pred             -------------HHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHh-----------hhhCC-CCHHHHHHHHHHHhhh
Q 043778          242 -------------EDAWKLFEEKVGRDILDSHPNIPELVETVAKECG-----------AMASR-KTHQEWEYAIEVWRNE  296 (405)
Q Consensus       242 -------------~ds~~Lf~~~~~~~~~~~~~~l~~~~~~Iv~~C~-----------~l~~~-~~~~~W~~~l~~l~~~  296 (405)
                                   +|||+||++..+..    ..   ++..+|   |+           .++.+ .+..+|...-   ...
T Consensus       288 ~LeL~d~dL~LS~eEA~eLF~~~~g~~----~e---eL~~eI---CgGLPLALkLaGs~Lr~k~~s~eeW~~~~---~~~  354 (1221)
T 1vt4_I          288 HISLDHHSMTLTPDEVKSLLLKYLDCR----PQ---DLPREV---LTTNPRRLSIIAESIRDGLATWDNWKHVN---CDK  354 (1221)
T ss_dssp             EEEECSSSSCCCHHHHHHHHHHHHCCC----TT---THHHHH---CCCCHHHHHHHHHHHHHSCSSHHHHHHCS---CHH
T ss_pred             EecCccccCCcCHHHHHHHHHHHcCCC----HH---HHHHHH---hCCCHHHHHHHHHHHhCCCCCHHHHhcCC---hhH
Confidence                         58999999886432    12   233444   76           22333 3677887531   112


Q ss_pred             c--cHhhhhccCCCCcc-ccccc----------eeHHHHHHHHHHhCCCCCCCchhHHHHHHHHHHHHHHcCccccc-CC
Q 043778          297 Y--TLVYSYDFLPSDVG-RFCLL----------IDIDQLVDFWICEGFLDEYDGIAARNQGYCIVGTLLHACLLEEE-EG  362 (405)
Q Consensus       297 ~--~l~~sy~~Lp~~~~-k~cfl----------i~~~~Li~~Wiaeg~~~~~~~~~~e~~a~~~~~~Lv~r~ll~~~-~~  362 (405)
                      +  +|.+||+.||+ +. |+||+          |+...++.+|+++|          ++.++.+|++|+++|||+.. ..
T Consensus       355 I~aaLelSYd~Lp~-eelK~cFL~LAIFPed~~I~~elLa~LW~aeG----------eedAe~~L~eLvdRSLLq~d~~~  423 (1221)
T 1vt4_I          355 LTTIIESSLNVLEP-AEYRKMFDRLSVFPPSAHIPTILLSLIWFDVI----------KSDVMVVVNKLHKYSLVEKQPKE  423 (1221)
T ss_dssp             HHHHHHHHHHHSCT-THHHHHHHHTTSSCTTSCEEHHHHHHHHCSSC----------SHHHHHHHHHHHTSSSSSBCSSS
T ss_pred             HHHHHHHHHHhCCH-HHHHHHHHHHhCCCCCCCCCHHHHHHHhcCCC----------HHHHHHHHHHHHhhCCEEEeCCC
Confidence            3  89999999999 58 99999          77889999999987          13588999999999999985 46


Q ss_pred             CeEEeChhHHHHH
Q 043778          363 NRVKMHDVIRDMA  375 (405)
Q Consensus       363 ~~~~~Hdlvrd~a  375 (405)
                      .+|+|||++++++
T Consensus       424 ~rYrMHDLllELr  436 (1221)
T 1vt4_I          424 STISIPSIYLELK  436 (1221)
T ss_dssp             SEEBCCCHHHHHH
T ss_pred             CEEEehHHHHHHh
Confidence            7899999999965

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=99.88  E-value=5.9e-22  Score=203.30  Aligned_cols=224  Identities=16%  Similarity=0.246  Sum_probs=168.6

Q ss_pred             cccccchHHHHHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHhhccCC-CCCC-CEEEEEEeCCCCCHHHHHHHH--
Q 043778          136 LTIVGLESIFDKLWRCLTE--EQVGIIGLYGMGSVGKTTLLILINNKFLDE-PNYF-DVVIWAVASKVVEIEKIQESI--  209 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~-~~~F-~~~~wv~vs~~~~~~~l~~~i--  209 (405)
                      +.+|||+.++++|.+.|..  ++.++|+|+||||+||||||..++++. ++ ..+| ++++|++++.. +...++..+  
T Consensus       124 ~~~vGR~~~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~-~~~~~~f~~~v~wv~~~~~-~~~~~~~~l~~  201 (591)
T 1z6t_A          124 VVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDH-SLLEGCFPGGVHWVSVGKQ-DKSGLLMKLQN  201 (591)
T ss_dssp             SSCCCCHHHHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCH-HHHHHHCTTCEEEEEEESC-CHHHHHHHHHH
T ss_pred             CeecccHHHHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhch-hHHHhhCCCceEEEECCCC-chHHHHHHHHH
Confidence            5689999999999999974  468899999999999999999999865 44 5678 58999999875 333444443  


Q ss_pred             -HHHhCCCC--CCCCcccHHHHHHHHHHHHcc--cch-------------------------------------------
Q 043778          210 -AKKIGFFN--ESWESKTVQEKAVDIFNILSK--KKY-------------------------------------------  241 (405)
Q Consensus       210 -~~~l~~~~--~~~~~~~~~~~~~~l~~~L~~--kr~-------------------------------------------  241 (405)
                       +..++...  ......+.......++..|.+  +++                                           
T Consensus       202 l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~~~l~~l~~~~~ilvTsR~~~~~~~~~~~~~~v~  281 (591)
T 1z6t_A          202 LCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAFDSQCQILLTTRDKSVTDSVMGPKYVVP  281 (591)
T ss_dssp             HHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCHHHHHTTCSSCEEEEEESCGGGGTTCCSCEEEEE
T ss_pred             HHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCHHHHHHhcCCCeEEEECCCcHHHHhcCCCceEee
Confidence             44554211  112344566777788888876  444                                           


Q ss_pred             -------HHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHh-----------hhhCCCCHHHHHHHHHHHhhh-------
Q 043778          242 -------EDAWKLFEEKVGRDILDSHPNIPELVETVAKECG-----------AMASRKTHQEWEYAIEVWRNE-------  296 (405)
Q Consensus       242 -------~ds~~Lf~~~~~~~~~~~~~~l~~~~~~Iv~~C~-----------~l~~~~~~~~W~~~l~~l~~~-------  296 (405)
                             +||++||...++...    ....+.+.+|+++|+           .+...  ..+|...++.+...       
T Consensus       282 ~l~~L~~~ea~~L~~~~~~~~~----~~~~~~~~~i~~~~~G~PLal~~~a~~l~~~--~~~w~~~l~~l~~~~~~~~~~  355 (591)
T 1z6t_A          282 VESSLGKEKGLEILSLFVNMKK----ADLPEQAHSIIKECKGSPLVVSLIGALLRDF--PNRWEYYLKQLQNKQFKRIRK  355 (591)
T ss_dssp             CCSSCCHHHHHHHHHHHHTSCG----GGSCTHHHHHHHHHTTCHHHHHHHHHHHHHS--TTCHHHHHHHHHSCCCCCSSC
T ss_pred             cCCCCCHHHHHHHHHHHhCCCc----ccccHHHHHHHHHhCCCcHHHHHHHHHHhcC--chhHHHHHHHHHHhHHHHhhh
Confidence                   899999999987532    122357889999998           12222  23688888877542       


Q ss_pred             --------c--cHhhhhccCCCCccccccc----------eeHHHHHHHHHHhCCCCCCCchhHHHHHHHHHHHHHHcCc
Q 043778          297 --------Y--TLVYSYDFLPSDVGRFCLL----------IDIDQLVDFWICEGFLDEYDGIAARNQGYCIVGTLLHACL  356 (405)
Q Consensus       297 --------~--~l~~sy~~Lp~~~~k~cfl----------i~~~~Li~~Wiaeg~~~~~~~~~~e~~a~~~~~~Lv~r~l  356 (405)
                              +  ++..||+.||+ +.|.||+          |+...+..+|.++           .+.+..++++|+++||
T Consensus       356 ~~~~~~~~l~~~l~~s~~~L~~-~~~~~l~~la~f~~~~~i~~~~l~~l~~~~-----------~~~~~~~l~~L~~~~L  423 (591)
T 1z6t_A          356 SSSYDYEALDEAMSISVEMLRE-DIKDYYTDLSILQKDVKVPTKVLCILWDME-----------TEEVEDILQEFVNKSL  423 (591)
T ss_dssp             CCSSCCHHHHHHHHHHHHTSCT-TTHHHHHHGGGCCTTCCEEHHHHHHHHTCC-----------HHHHHHHHHHHHHTTS
T ss_pred             ccccchHHHHHHHHHHHHhCCH-HHHHHHHHccccCCCCccCHHHHHHHhccC-----------HHHHHHHHHHHHhCcC
Confidence                    2  88999999999 5999998          6778899999654           3457889999999999


Q ss_pred             cccc---CCCeEEeChhHHHHHHHHH
Q 043778          357 LEEE---EGNRVKMHDVIRDMALWIA  379 (405)
Q Consensus       357 l~~~---~~~~~~~Hdlvrd~a~~~~  379 (405)
                      |+..   ...+|+||+++|++++...
T Consensus       424 l~~~~~~~~~~~~~H~lv~~~~~~~~  449 (591)
T 1z6t_A          424 LFCDRNGKSFRYYLHDLQVDFLTEKN  449 (591)
T ss_dssp             SEEEEETTEEEEECCHHHHHHHHHHT
T ss_pred             eEEecCCCccEEEEcHHHHHHHHhhh
Confidence            9863   3447999999999999873

>3qfl_A MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-binding domain, L rich repeat containing receptors, protein binding; 2.00A {Hordeum vulgare}

Probab=99.65  E-value=4e-16  Score=123.98  Aligned_cols=82  Identities=12%  Similarity=0.126  Sum_probs=74.4

Q ss_pred             ccccchhhhhhhHhhhhhhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-hhChhhHHHHHHHHHHHHHHHHH
Q 043778            7 FSCDSNITRCPDCTVRKASSIRDLQKNLEALPRELQKLVETRNDVRIRVIVAEQQK-MKRLEQVEPWFSRVQDAESEVAK   85 (405)
Q Consensus         7 ~~~~~~~~~l~~~l~~e~~~~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~ae~~~-~~~~~~~~~Wl~~l~~~ayd~eD   85 (405)
                      ++|+.+++||.+++.+|+.++.+++++++.|+++|+.|+++|.+       ++.+. ...+++++.|+++||+++||+||
T Consensus         1 a~v~~ll~KL~~ll~~E~~l~~gv~~~i~~Lk~eL~~m~a~L~d-------a~~~~~~~~d~~vk~W~~~vrdlaYD~ED   73 (115)
T 3qfl_A            1 AAISNLIPKLGELLTEEFKLHKGVKKNIEDLGKELESMNAALIK-------IGEVPREQLDSQDKLWADEVRELSYVIED   73 (115)
T ss_dssp             CTTCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HTTSCGGGCCHHHHHHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHHHHHHH-------HHHhccccCCHHHHHHHHHHHHHHHHHHH
Confidence            36889999999999999999999999999999999999999999       66652 23478999999999999999999


Q ss_pred             HHHHHHHHhh
Q 043778           86 LMLERNWELK   95 (405)
Q Consensus        86 ~ld~~~~~~~   95 (405)
                      +||+|.++..
T Consensus        74 ~iD~f~~~~~   83 (115)
T 3qfl_A           74 VVDKFLVQVD   83 (115)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhc
Confidence            9999999874

>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=98.19  E-value=4.6e-06  Score=80.77  Aligned_cols=100  Identities=14%  Similarity=0.068  Sum_probs=68.3

Q ss_pred             cccccchHHHHHHHHHh-h----c--CCceEEEE--EcCCCCcHHHHHHHHHhhccCCC---CCCC-EEEEEEeCCCCCH
Q 043778          136 LTIVGLESIFDKLWRCL-T----E--EQVGIIGL--YGMGSVGKTTLLILINNKFLDEP---NYFD-VVIWAVASKVVEI  202 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L-~----~--~~~~vi~I--~G~~GiGKTtLA~~v~~~~~~~~---~~F~-~~~wv~vs~~~~~  202 (405)
                      ..++||+.+++.|.+.| .    +  .....+.|  +|++|+||||||+.+++.. ...   ..|+ ..+|+......+.
T Consensus        22 ~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~  100 (412)
T 1w5s_A           22 PELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRV-SEAAAKEGLTVKQAYVNAFNAPNL  100 (412)
T ss_dssp             SSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHH-HHHHHHTTCCEEEEEEEGGGCCSH
T ss_pred             CCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHH-HHHHhccCCceeEEEEECCCCCCH
Confidence            56899999999999888 4    2  24556666  9999999999999999865 211   1232 4577776667788


Q ss_pred             HHHHHHHHHHhCCCCCCCCcccHHHHHHHHHHHHc
Q 043778          203 EKIQESIAKKIGFFNESWESKTVQEKAVDIFNILS  237 (405)
Q Consensus       203 ~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~  237 (405)
                      ..++..++.+++..... ...+.......+.+.|.
T Consensus       101 ~~~~~~l~~~l~~~~~~-~~~~~~~~~~~l~~~l~  134 (412)
T 1w5s_A          101 YTILSLIVRQTGYPIQV-RGAPALDILKALVDNLY  134 (412)
T ss_dssp             HHHHHHHHHHHTCCCCC-TTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCCC-CCCCHHHHHHHHHHHHH
Confidence            88999999988654211 12233444455555554

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=98.16  E-value=4.5e-06  Score=80.07  Aligned_cols=78  Identities=18%  Similarity=0.036  Sum_probs=56.5

Q ss_pred             cccccchHHHHHHHHHhhc----CCceEEEEEcCCCCcHHHHHHHHHhhccCC---CCC--CCEEEEEEeCCCC-CHHHH
Q 043778          136 LTIVGLESIFDKLWRCLTE----EQVGIIGLYGMGSVGKTTLLILINNKFLDE---PNY--FDVVIWAVASKVV-EIEKI  205 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~---~~~--F~~~~wv~vs~~~-~~~~l  205 (405)
                      +.++||+.+++++..+|..    +..+.+.|+|++|+||||||+.+++...+.   ...  ....+|+..+... +...+
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            5689999999999877753    356789999999999999999999854110   011  2356777765555 66667


Q ss_pred             HHHHHHHh
Q 043778          206 QESIAKKI  213 (405)
Q Consensus       206 ~~~i~~~l  213 (405)
                      +..++..+
T Consensus       100 ~~~l~~~l  107 (384)
T 2qby_B          100 LSSLAGKL  107 (384)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            77776666

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=98.13  E-value=3.3e-06  Score=79.74  Aligned_cols=68  Identities=25%  Similarity=0.240  Sum_probs=53.1

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCC------CHHHHHHHH
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVV------EIEKIQESI  209 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~------~~~~l~~~i  209 (405)
                      +.++||+.+++.|.+.+..+  +++.|+|++|+|||||++.+.+..   .     .+|+......      +...++..+
T Consensus        12 ~~~~gR~~el~~L~~~l~~~--~~v~i~G~~G~GKT~Ll~~~~~~~---~-----~~~~~~~~~~~~~~~~~~~~~~~~l   81 (350)
T 2qen_A           12 EDIFDREEESRKLEESLENY--PLTLLLGIRRVGKSSLLRAFLNER---P-----GILIDCRELYAERGHITREELIKEL   81 (350)
T ss_dssp             GGSCSCHHHHHHHHHHHHHC--SEEEEECCTTSSHHHHHHHHHHHS---S-----EEEEEHHHHHHTTTCBCHHHHHHHH
T ss_pred             HhcCChHHHHHHHHHHHhcC--CeEEEECCCcCCHHHHHHHHHHHc---C-----cEEEEeecccccccCCCHHHHHHHH
Confidence            67899999999999988764  799999999999999999999853   1     6777754332      556666666


Q ss_pred             HHHh
Q 043778          210 AKKI  213 (405)
Q Consensus       210 ~~~l  213 (405)
                      ...+
T Consensus        82 ~~~l   85 (350)
T 2qen_A           82 QSTI   85 (350)
T ss_dssp             HHHS
T ss_pred             HHHH
Confidence            6554

>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=98.12  E-value=3.5e-06  Score=80.59  Aligned_cols=75  Identities=16%  Similarity=0.227  Sum_probs=54.0

Q ss_pred             cccccchHHHHHHHHHhhc----CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCC---CEEEEEEeCCCCCHHHHHHH
Q 043778          136 LTIVGLESIFDKLWRCLTE----EQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYF---DVVIWAVASKVVEIEKIQES  208 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F---~~~~wv~vs~~~~~~~l~~~  208 (405)
                      +.++||+.+++.+.+++..    +....+.|+|++|+||||||+.+++..   ...+   ...+|+......+...++..
T Consensus        20 ~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~~---~~~~~~~~~~~~i~~~~~~~~~~~~~~   96 (386)
T 2qby_A           20 DELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKL---HKKFLGKFKHVYINTRQIDTPYRVLAD   96 (386)
T ss_dssp             SCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHHH---HHHTCSSCEEEEEEHHHHCSHHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHHH---HHHhcCCceEEEEECCCCCCHHHHHHH
Confidence            6789999999999998873    456789999999999999999999854   2222   24567765444444445555


Q ss_pred             HHHHh
Q 043778          209 IAKKI  213 (405)
Q Consensus       209 i~~~l  213 (405)
                      ++.++
T Consensus        97 i~~~l  101 (386)
T 2qby_A           97 LLESL  101 (386)
T ss_dssp             HTTTT
T ss_pred             HHHHh
Confidence            44444

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=98.11  E-value=9.7e-06  Score=75.86  Aligned_cols=46  Identities=30%  Similarity=0.392  Sum_probs=38.1

Q ss_pred             cccccchHHHHHHHHHhhc-----CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE-----EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|++..++.+...+..     .....+.|+|++|+|||+||+.+++..
T Consensus        12 ~~~ig~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~i~~~~   62 (324)
T 1hqc_A           12 DEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHEL   62 (324)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCHHHHHHHHHHH
T ss_pred             HHhhCHHHHHHHHHHHHHHHHccCCCCCcEEEECCCCCCHHHHHHHHHHHh
Confidence            5689999988888877752     244678899999999999999999855

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=98.11  E-value=2.4e-05  Score=74.94  Aligned_cols=78  Identities=15%  Similarity=0.106  Sum_probs=60.0

Q ss_pred             cccccchHHHHHHHHHhhc----CCce--EEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHHHH
Q 043778          136 LTIVGLESIFDKLWRCLTE----EQVG--IIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESI  209 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~----~~~~--vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i  209 (405)
                      +.++||+.+++.+..++..    +...  .+.|+|++|+|||||++.+.+.. ..... ...+|+..+...+...++..+
T Consensus        17 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~-~~~~~-~~~~~i~~~~~~~~~~~~~~l   94 (389)
T 1fnn_A           17 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELY-KDKTT-ARFVYINGFIYRNFTAIIGEI   94 (389)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHH-TTSCC-CEEEEEETTTCCSHHHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHH-hhhcC-eeEEEEeCccCCCHHHHHHHH
Confidence            5689999999999988864    3334  89999999999999999999866 22111 256677766777778888888


Q ss_pred             HHHhCC
Q 043778          210 AKKIGF  215 (405)
Q Consensus       210 ~~~l~~  215 (405)
                      +..++.
T Consensus        95 ~~~l~~  100 (389)
T 1fnn_A           95 ARSLNI  100 (389)
T ss_dssp             HHHTTC
T ss_pred             HHHhCc
Confidence            887754

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=98.08  E-value=1.1e-05  Score=77.07  Aligned_cols=79  Identities=20%  Similarity=0.260  Sum_probs=58.4

Q ss_pred             cccccchHHHHHHHHHhhc----CCceEEEEEcCCCCcHHHHHHHHHhhccCCC----CCCCEEEEEEeCCCCCHHHHHH
Q 043778          136 LTIVGLESIFDKLWRCLTE----EQVGIIGLYGMGSVGKTTLLILINNKFLDEP----NYFDVVIWAVASKVVEIEKIQE  207 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~----~~F~~~~wv~vs~~~~~~~l~~  207 (405)
                      +.++||+..++.+..++..    .....+.|+|++|+||||||+.+++.. ...    ..--..+|+......+...++.
T Consensus        19 ~~~~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~~~-~~~~~~~~~~~~~~~i~~~~~~~~~~~~~   97 (387)
T 2v1u_A           19 DVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRL-EARASSLGVLVKPIYVNARHRETPYRVAS   97 (387)
T ss_dssp             SCCTTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHHHH-HHHHHHHTCCEEEEEEETTTSCSHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHH-HHHHhccCCCeEEEEEECCcCCCHHHHHH
Confidence            6789999999999998843    456789999999999999999999854 111    0012456777666667777777


Q ss_pred             HHHHHhCC
Q 043778          208 SIAKKIGF  215 (405)
Q Consensus       208 ~i~~~l~~  215 (405)
                      .++.+++.
T Consensus        98 ~l~~~l~~  105 (387)
T 2v1u_A           98 AIAEAVGV  105 (387)
T ss_dssp             HHHHHHSC
T ss_pred             HHHHHhCC
Confidence            77766654

>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=98.01  E-value=1.5e-05  Score=75.33  Aligned_cols=67  Identities=18%  Similarity=0.224  Sum_probs=50.5

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCC-----CCHHHHHHHHH
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKV-----VEIEKIQESIA  210 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~-----~~~~~l~~~i~  210 (405)
                      +.++||+.+++.|.+ +..   +++.|+|++|+|||||++.+.+.. .  .   ..+|+.....     .+...++..+.
T Consensus        13 ~~~~gR~~el~~L~~-l~~---~~v~i~G~~G~GKT~L~~~~~~~~-~--~---~~~~~~~~~~~~~~~~~~~~~~~~l~   82 (357)
T 2fna_A           13 KDFFDREKEIEKLKG-LRA---PITLVLGLRRTGKSSIIKIGINEL-N--L---PYIYLDLRKFEERNYISYKDFLLELQ   82 (357)
T ss_dssp             GGSCCCHHHHHHHHH-TCS---SEEEEEESTTSSHHHHHHHHHHHH-T--C---CEEEEEGGGGTTCSCCCHHHHHHHHH
T ss_pred             HHhcChHHHHHHHHH-hcC---CcEEEECCCCCCHHHHHHHHHHhc-C--C---CEEEEEchhhccccCCCHHHHHHHHH
Confidence            678999999999999 765   699999999999999999999865 2  2   2578876542     34455554444


Q ss_pred             HH
Q 043778          211 KK  212 (405)
Q Consensus       211 ~~  212 (405)
                      ..
T Consensus        83 ~~   84 (357)
T 2fna_A           83 KE   84 (357)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=97.88  E-value=1.5e-05  Score=67.90  Aligned_cols=46  Identities=17%  Similarity=0.226  Sum_probs=40.8

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|++..++.+.+.+.......+.|+|++|+|||+||+.+++..
T Consensus        22 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~~~~~~   67 (195)
T 1jbk_A           22 DPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRI   67 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cccccchHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHH
Confidence            4589999999999999987666778999999999999999998854

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=97.78  E-value=2.1e-05  Score=66.76  Aligned_cols=46  Identities=20%  Similarity=0.206  Sum_probs=40.7

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|++..++.+.+.+.......+.|+|++|+|||+||+.+.+..
T Consensus        22 ~~~~g~~~~~~~l~~~l~~~~~~~vll~G~~G~GKT~la~~~~~~~   67 (187)
T 2p65_A           22 DPVIGRDTEIRRAIQILSRRTKNNPILLGDPGVGKTAIVEGLAIKI   67 (187)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             chhhcchHHHHHHHHHHhCCCCCceEEECCCCCCHHHHHHHHHHHH
Confidence            4589999999999999987666778999999999999999998854

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=97.71  E-value=6.3e-05  Score=65.60  Aligned_cols=46  Identities=17%  Similarity=0.294  Sum_probs=40.2

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|++..++.+.+++.......+.|+|++|+|||+||+.+++..
T Consensus        17 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~   62 (226)
T 2chg_A           17 DEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDL   62 (226)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTCCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            5689999999999999987655569999999999999999998853

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=97.57  E-value=6.9e-05  Score=66.22  Aligned_cols=46  Identities=24%  Similarity=0.301  Sum_probs=40.0

Q ss_pred             cccccchHHHHHHHHHhhcCC-ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQ-VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|++..++.+..++..+. .+.+.|+|++|+||||||+.+++..
T Consensus        23 ~~~~g~~~~~~~l~~~l~~~~~~~~~ll~G~~G~GKT~l~~~~~~~~   69 (250)
T 1njg_A           23 ADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGL   69 (250)
T ss_dssp             GGCCSCHHHHHHHHHHHHHTCCCSEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            468999999999999987653 4689999999999999999998865

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=97.48  E-value=0.00022  Score=66.35  Aligned_cols=80  Identities=11%  Similarity=0.072  Sum_probs=58.1

Q ss_pred             cccccchHHHHHHHHHhhc----CCceEEEEEcCCCCcHHHHHHHHHhhccCCCC--CCC--EEEEEEeCCCCCHHHHHH
Q 043778          136 LTIVGLESIFDKLWRCLTE----EQVGIIGLYGMGSVGKTTLLILINNKFLDEPN--YFD--VVIWAVASKVVEIEKIQE  207 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~--~F~--~~~wv~vs~~~~~~~l~~  207 (405)
                      ..+.||+++.++|...|..    +....+-|+|++|+|||++++.+.+...+...  ...  ..+++.-....+...++.
T Consensus        20 ~~L~~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~~~~   99 (318)
T 3te6_A           20 ELLKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALYE   99 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HHHHH
T ss_pred             cccCCHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCHHHHHH
Confidence            3479999999999877753    46778999999999999999999986621111  111  345555556677888999


Q ss_pred             HHHHHhCC
Q 043778          208 SIAKKIGF  215 (405)
Q Consensus       208 ~i~~~l~~  215 (405)
                      .|++++..
T Consensus       100 ~I~~~L~g  107 (318)
T 3te6_A          100 KIWFAISK  107 (318)
T ss_dssp             HHHHHHSC
T ss_pred             HHHHHhcC
Confidence            99999954

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=97.24  E-value=0.00036  Score=57.07  Aligned_cols=45  Identities=20%  Similarity=0.228  Sum_probs=35.1

Q ss_pred             ccccchHHHHHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          137 TIVGLESIFDKLWRCLTE--EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       137 ~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .++|......++.+.+..  ....-|.|+|.+|+|||++|+.+++..
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~~~~~vll~G~~GtGKt~lA~~i~~~~   48 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSETDIAVWLYGAPGTGRMTGARYLHQFG   48 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTTCCSCEEEESSTTSSHHHHHHHHHHSS
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCCHHHHHHHHHHhC
Confidence            468999888888887753  233457899999999999999999854

>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.23  E-value=0.00028  Score=65.57  Aligned_cols=46  Identities=24%  Similarity=0.353  Sum_probs=40.1

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|++..++.+.+++..+....+.|+|++|+||||+|+.+++..
T Consensus        21 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l   66 (323)
T 1sxj_B           21 SDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHEL   66 (323)
T ss_dssp             GGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHh
Confidence            5689999999999999987755459999999999999999998853

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=97.22  E-value=0.00031  Score=65.40  Aligned_cols=46  Identities=26%  Similarity=0.315  Sum_probs=40.2

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|++..++.+..++..+....+.++|++|+||||+|+.+++..
T Consensus        25 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~l~~~l   70 (327)
T 1iqp_A           25 DDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALAREL   70 (327)
T ss_dssp             TTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             HHhhCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHh
Confidence            4589999999999999987765569999999999999999999853

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=97.16  E-value=0.00049  Score=62.89  Aligned_cols=46  Identities=28%  Similarity=0.275  Sum_probs=38.4

Q ss_pred             cccccchHHHHHHHHHhhc-------------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE-------------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++++|.+..++.|.+.+..             ....-+.|+|++|+|||+||+.+.+..
T Consensus        17 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~   75 (285)
T 3h4m_A           17 EDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATET   75 (285)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHT
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHh
Confidence            5689999999998887642             245679999999999999999999854

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=97.09  E-value=0.00042  Score=68.35  Aligned_cols=46  Identities=17%  Similarity=0.211  Sum_probs=39.7

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.++|++..++.+...|......-+.++|++|+|||+||+.+.+..
T Consensus       180 d~iiGr~~~i~~l~~~l~r~~~~~~LL~G~pG~GKT~la~~la~~l  225 (468)
T 3pxg_A          180 DPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQI  225 (468)
T ss_dssp             CCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHH
T ss_pred             CCccCcHHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHH
Confidence            4589999999999999977655567899999999999999998753

>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=97.00  E-value=0.00073  Score=59.68  Aligned_cols=59  Identities=14%  Similarity=0.136  Sum_probs=39.8

Q ss_pred             cccccc---hHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeC
Q 043778          136 LTIVGL---ESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVAS  197 (405)
Q Consensus       136 ~~~vGr---~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs  197 (405)
                      ++++|.   +..++.+..++..+....+.|+|++|+||||||+.+.+.. .  .....+.|+..+
T Consensus        28 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~la~~l~~~~-~--~~~~~~~~~~~~   89 (242)
T 3bos_A           28 TSYYPAAGNDELIGALKSAASGDGVQAIYLWGPVKSGRTHLIHAACARA-N--ELERRSFYIPLG   89 (242)
T ss_dssp             TTSCC--CCHHHHHHHHHHHHTCSCSEEEEECSTTSSHHHHHHHHHHHH-H--HTTCCEEEEEGG
T ss_pred             hhccCCCCCHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHH-H--HcCCeEEEEEHH
Confidence            345652   3556666666655566789999999999999999999865 2  222345566544

>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=96.95  E-value=0.00051  Score=64.74  Aligned_cols=46  Identities=15%  Similarity=0.283  Sum_probs=39.3

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|++..++.+...+..+....+.++|++|+||||+|+.+.+..
T Consensus        37 ~~i~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~la~~l   82 (353)
T 1sxj_D           37 DEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKEL   82 (353)
T ss_dssp             TTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHhhCCHHHHHHHHHHHhcCCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999999999987654458999999999999999998753

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=96.91  E-value=0.00099  Score=61.25  Aligned_cols=46  Identities=20%  Similarity=0.158  Sum_probs=38.0

Q ss_pred             cccccchHHHHHHHHHhhc------------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE------------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|.+..++.+.+.+..            ...+.+.|+|++|+||||||+.+.+..
T Consensus        21 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~   78 (297)
T 3b9p_A           21 TDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATEC   78 (297)
T ss_dssp             GGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHT
T ss_pred             HHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHh
Confidence            5689999998888887632            135688999999999999999999854

>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=96.89  E-value=0.00064  Score=62.97  Aligned_cols=46  Identities=17%  Similarity=0.294  Sum_probs=39.5

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|++...+.+.+++..+....+.++|++|+|||++|+.+.+..
T Consensus        17 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l   62 (319)
T 2chq_A           17 DEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDL   62 (319)
T ss_dssp             GGSCSCHHHHHHHHTTTTTTCCCCEEEESSSSSSHHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHhCCCCCeEEEECcCCcCHHHHHHHHHHHh
Confidence            4589999999999988877655558999999999999999998753

>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=96.88  E-value=0.00094  Score=63.39  Aligned_cols=46  Identities=24%  Similarity=0.301  Sum_probs=39.7

Q ss_pred             cccccchHHHHHHHHHhhcCC-ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQ-VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|++..++.+.+.+..+. .+.+.|+|++|+||||+|+.+.+..
T Consensus        16 ~~~vg~~~~~~~L~~~l~~~~~~~~~ll~G~~G~GKT~la~~la~~l   62 (373)
T 1jr3_A           16 ADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGL   62 (373)
T ss_dssp             TTSCSCHHHHHHHHHHHHHTCCCSEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             hhccCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            458999999999999987654 4678999999999999999998755

>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=96.83  E-value=0.0011  Score=61.18  Aligned_cols=46  Identities=28%  Similarity=0.260  Sum_probs=37.3

Q ss_pred             cccccchHHHHHHHHHhhc-------------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE-------------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++++|.+..++.|.+.+..             ...+.|.|+|++|+|||+||+.+++..
T Consensus        15 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~   73 (301)
T 3cf0_A           15 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC   73 (301)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHT
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHh
Confidence            4688998888887776642             245679999999999999999999955

>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=96.83  E-value=0.0011  Score=66.20  Aligned_cols=46  Identities=26%  Similarity=0.299  Sum_probs=39.4

Q ss_pred             cccccchHHHHHHHHHhhc-----------------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE-----------------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~-----------------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|++..++.+.++|..                 +..+.+.|+|++|+||||||+.+.+..
T Consensus        39 ~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l  101 (516)
T 1sxj_A           39 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQEL  101 (516)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             HHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            5689999999999999864                 134689999999999999999999854

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=96.83  E-value=0.0012  Score=61.08  Aligned_cols=45  Identities=20%  Similarity=0.351  Sum_probs=35.3

Q ss_pred             ccccchHHHHHHHHHhh---------------cCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          137 TIVGLESIFDKLWRCLT---------------EEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       137 ~~vGr~~~~~~l~~~L~---------------~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .++|.+..++.|.+.+.               ......+.|+|++|+|||+||+.+.+..
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l   91 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLL   91 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            58999888888776553               2244578999999999999999887654

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=96.83  E-value=0.0012  Score=59.22  Aligned_cols=46  Identities=15%  Similarity=0.095  Sum_probs=35.3

Q ss_pred             cccccchHHHHHHHHHhh---c---------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLT---E---------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~---~---------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|.+..++.+.+.+.   .         ...+-+.|+|++|+|||+||+.+++..
T Consensus         6 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~   63 (262)
T 2qz4_A            6 KDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEA   63 (262)
T ss_dssp             TSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            467998887777765542   1         134568899999999999999999865

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=96.82  E-value=0.0011  Score=62.09  Aligned_cols=46  Identities=30%  Similarity=0.309  Sum_probs=38.6

Q ss_pred             cccccchHHHHHHHHHhhc-----CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE-----EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|++..++.+..++..     .....+.|+|++|+|||+||+.+.+..
T Consensus        29 ~~iiG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~~~   79 (338)
T 3pfi_A           29 DGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYEM   79 (338)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHHHT
T ss_pred             HHhCChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHHHh
Confidence            5689999999988888763     345678999999999999999998854

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=96.80  E-value=0.00096  Score=65.29  Aligned_cols=46  Identities=24%  Similarity=0.318  Sum_probs=38.9

Q ss_pred             cccccchHHH---HHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIF---DKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~---~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|.+..+   ..|...+..+....+.|+|++|+||||||+.+.+..
T Consensus        26 ~~ivGq~~~~~~~~~L~~~i~~~~~~~vLL~GppGtGKTtlAr~ia~~~   74 (447)
T 3pvs_A           26 AQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTTLAEVIARYA   74 (447)
T ss_dssp             TTCCSCHHHHSTTSHHHHHHHHTCCCEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             HHhCCcHHHHhchHHHHHHHHcCCCcEEEEECCCCCcHHHHHHHHHHHh
Confidence            4578888777   677777877777889999999999999999999854

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=96.73  E-value=0.00054  Score=55.89  Aligned_cols=46  Identities=11%  Similarity=0.081  Sum_probs=33.7

Q ss_pred             cccccchHHHHHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE--EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      -.++|.+..++++.+.+..  ....-|.|+|.+|+|||++|+.+++..
T Consensus         4 ~~~iG~s~~~~~l~~~~~~~~~~~~~vll~G~~GtGKt~lA~~i~~~~   51 (143)
T 3co5_A            4 FDKLGNSAAIQEMNREVEAAAKRTSPVFLTGEAGSPFETVARYFHKNG   51 (143)
T ss_dssp             ----CCCHHHHHHHHHHHHHHTCSSCEEEEEETTCCHHHHHGGGCCTT
T ss_pred             cCceeCCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhC
Confidence            3578988888888877653  233457799999999999999999844

>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=96.72  E-value=0.0016  Score=61.72  Aligned_cols=46  Identities=22%  Similarity=0.109  Sum_probs=38.2

Q ss_pred             cccccchHHHHHHHHHhhc------------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE------------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|.+..++.|.+.+..            ...+.|.|+|++|+|||+||+.+++..
T Consensus        84 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~  141 (357)
T 3d8b_A           84 EDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQS  141 (357)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHHT
T ss_pred             HHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHHc
Confidence            5689999999988887642            246689999999999999999999854

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.70  E-value=0.002  Score=55.74  Aligned_cols=41  Identities=24%  Similarity=0.367  Sum_probs=32.4

Q ss_pred             chHHHHHHHHHhhc---CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          141 LESIFDKLWRCLTE---EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       141 r~~~~~~l~~~L~~---~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      |+..++.|.+.+..   ....+|+|.|++|+|||||++.+....
T Consensus         3 ~~~~~~~l~~~~~~~~~~~~~~i~i~G~~GsGKstl~~~l~~~~   46 (201)
T 1rz3_A            3 LRDRIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQTL   46 (201)
T ss_dssp             HHHHHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            45566777777764   356799999999999999999998743

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=96.68  E-value=0.0015  Score=60.13  Aligned_cols=46  Identities=20%  Similarity=0.118  Sum_probs=37.8

Q ss_pred             cccccchHHHHHHHHHhhc--------------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE--------------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~--------------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.++|.+..++.+...+..              ....-+.++|++|+|||+||+.+.+..
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l   74 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA   74 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999988888877753              235578899999999999999999865

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=96.68  E-value=0.00095  Score=63.01  Aligned_cols=45  Identities=18%  Similarity=0.149  Sum_probs=37.4

Q ss_pred             cccccchHHHHHHHHHh-hcCCceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          136 LTIVGLESIFDKLWRCL-TEEQVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L-~~~~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .+++|.+...+.+.+++ ..+....+.|+|++|+||||||+.+.+.
T Consensus        14 ~~~vg~~~~~~~l~~~~~~~~~~~~~ll~Gp~G~GKTtl~~~la~~   59 (354)
T 1sxj_E           14 NALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLES   59 (354)
T ss_dssp             GGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHH
T ss_pred             HHhcCCHHHHHHHHHHHhhCCCCCeEEEECCCCCCHHHHHHHHHHH
Confidence            45899999999988888 5554333999999999999999998874

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=96.67  E-value=0.0014  Score=68.66  Aligned_cols=45  Identities=18%  Similarity=0.208  Sum_probs=39.6

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      +.++|++..++.+...|......-+.++|++|+|||++|+.+.+.
T Consensus       180 d~iiG~~~~i~~l~~~l~~~~~~~vLL~G~pGtGKT~la~~la~~  224 (758)
T 3pxi_A          180 DPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQ  224 (758)
T ss_dssp             CCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHH
T ss_pred             CCccCchHHHHHHHHHHhCCCCCCeEEECCCCCCHHHHHHHHHHH
Confidence            458999999999999998765556789999999999999999875

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=96.66  E-value=0.0018  Score=61.34  Aligned_cols=46  Identities=15%  Similarity=0.183  Sum_probs=36.2

Q ss_pred             cccccchHHHHH---HHHHhhcCC--ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDK---LWRCLTEEQ--VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~---l~~~L~~~~--~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.++|++...+.   +.+.+..+.  .+.+.|+|++|+|||+||+.+.+..
T Consensus        44 ~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l   94 (368)
T 3uk6_A           44 QGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQAL   94 (368)
T ss_dssp             TTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             hhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            468999887665   445555443  3589999999999999999999866

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=96.65  E-value=0.0015  Score=55.30  Aligned_cols=40  Identities=18%  Similarity=0.166  Sum_probs=28.9

Q ss_pred             hHHHHHHHHHhhc---CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          142 ESIFDKLWRCLTE---EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       142 ~~~~~~l~~~L~~---~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ....+.+.+++.+   .....+.|+|++|+||||||+.+++..
T Consensus        20 ~~~~~~~~~~~~~~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~   62 (180)
T 3ec2_A           20 NRALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAI   62 (180)
T ss_dssp             HHHHHHHHHHHHSCCGGGCCEEEECCSSSSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccccCCCEEEEECCCCCCHHHHHHHHHHHH
Confidence            3344444444433   245789999999999999999999855

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=96.63  E-value=0.0027  Score=54.68  Aligned_cols=50  Identities=24%  Similarity=0.123  Sum_probs=33.8

Q ss_pred             HHHHHHHHhhcC----CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEe
Q 043778          144 IFDKLWRCLTEE----QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVA  196 (405)
Q Consensus       144 ~~~~l~~~L~~~----~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~v  196 (405)
                      ..+.+.+++...    ....+.|+|++|+|||+||+.+++.. .  .....++|++.
T Consensus        37 ~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~~~-~--~~~~~~~~~~~   90 (202)
T 2w58_A           37 AIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANEL-A--KRNVSSLIVYV   90 (202)
T ss_dssp             HHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHHHH-H--TTTCCEEEEEH
T ss_pred             HHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHHHH-H--HcCCeEEEEEh
Confidence            444555555433    12789999999999999999999866 2  22334556643

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=96.62  E-value=0.0018  Score=56.22  Aligned_cols=38  Identities=18%  Similarity=0.236  Sum_probs=29.7

Q ss_pred             HHHHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          144 IFDKLWRCLTE--EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       144 ~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      -.++|.+.+..  +...+|+|+|+.|+|||||++.+....
T Consensus         7 ~~~~~~~~~~~~~~~g~~v~I~G~sGsGKSTl~~~l~~~~   46 (208)
T 3c8u_A            7 LCQGVLERLDPRQPGRQLVALSGAPGSGKSTLSNPLAAAL   46 (208)
T ss_dssp             HHHHHHHHSCTTCCSCEEEEEECCTTSCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            45556666553  356799999999999999999998754

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=96.61  E-value=0.0014  Score=69.69  Aligned_cols=46  Identities=17%  Similarity=0.231  Sum_probs=39.8

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.++||+.++..+.+.|......-+.++|++|+||||||+.+.+..
T Consensus       170 d~viGr~~~i~~l~~~l~~~~~~~vlL~G~pG~GKT~la~~la~~l  215 (854)
T 1qvr_A          170 DPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRI  215 (854)
T ss_dssp             CCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHH
T ss_pred             cccCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHH
Confidence            4589999999999999987655667899999999999999998743

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=96.61  E-value=0.002  Score=60.58  Aligned_cols=46  Identities=15%  Similarity=0.348  Sum_probs=38.2

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|.+..++.|...+..+....+.++|++|+||||+|+.+.+..
T Consensus        25 ~~~~g~~~~~~~L~~~i~~g~~~~~ll~Gp~G~GKTtla~~la~~l   70 (340)
T 1sxj_C           25 DEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREI   70 (340)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHH
T ss_pred             HHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            4568888888888888877655448999999999999999998854

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=96.60  E-value=0.0024  Score=59.69  Aligned_cols=46  Identities=22%  Similarity=0.205  Sum_probs=36.7

Q ss_pred             cccccchHHHHHHHHHhhc------------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE------------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++++|.+..++.|.+.+..            ...+-|.++|++|+|||+||+.+++..
T Consensus        12 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~   69 (322)
T 1xwi_A           12 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEA   69 (322)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHT
T ss_pred             HHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHc
Confidence            5688999888888776531            134679999999999999999999854

>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=96.59  E-value=0.0024  Score=59.59  Aligned_cols=46  Identities=24%  Similarity=0.273  Sum_probs=37.7

Q ss_pred             cccccchHHHHHHHHHhh----------c--CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLT----------E--EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~----------~--~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|.+..++.|.+.+.          .  ...+-|.++|++|+|||+||+.+.+..
T Consensus        18 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~   75 (322)
T 3eie_A           18 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEA   75 (322)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHH
T ss_pred             HHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHH
Confidence            568999999999888773          1  134578999999999999999999855

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=96.59  E-value=0.002  Score=57.95  Aligned_cols=46  Identities=17%  Similarity=0.153  Sum_probs=34.6

Q ss_pred             cccccchHHHHHHHHHh---hc---------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCL---TE---------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L---~~---------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++++|.+..++.+.+.+   ..         ...+-+.|+|++|+||||||+.+.+..
T Consensus        12 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~   69 (257)
T 1lv7_A           12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA   69 (257)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHc
Confidence            56889887777665543   22         123458899999999999999999865

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=96.54  E-value=0.0023  Score=67.07  Aligned_cols=45  Identities=20%  Similarity=0.214  Sum_probs=39.6

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      +.++||+..++.+.+.|......-+.++|++|+|||++|+.+.+.
T Consensus       186 d~~iGr~~~i~~l~~~l~~~~~~~vlL~G~~GtGKT~la~~la~~  230 (758)
T 1r6b_X          186 DPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWR  230 (758)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCccCCHHHHHHHHHHHhccCCCCeEEEcCCCCCHHHHHHHHHHH
Confidence            458999999999999998766667789999999999999999874

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=96.54  E-value=0.0017  Score=61.02  Aligned_cols=46  Identities=30%  Similarity=0.356  Sum_probs=35.3

Q ss_pred             cccccchHHHHHHHHHhhc-----CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE-----EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.++|.+..++.+...+..     .....+.++|++|+||||||+.+.+..
T Consensus        25 ~~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l   75 (334)
T 1in4_A           25 DEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASEL   75 (334)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHHHh
Confidence            4467877777776655542     245679999999999999999999854

>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=96.43  E-value=0.0016  Score=54.37  Aligned_cols=22  Identities=27%  Similarity=0.454  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .+|.|.|++|+||||+|+.+ ..
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L-~~   23 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL-KE   23 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH-HH
T ss_pred             cEEEEECCCCCCHHHHHHHH-HH
Confidence            47999999999999999999 53

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=96.40  E-value=0.0037  Score=56.63  Aligned_cols=46  Identities=17%  Similarity=0.091  Sum_probs=33.7

Q ss_pred             cccccchHHHHHHHH-------Hhh---cCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWR-------CLT---EEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~-------~L~---~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|.....+++..       .+.   ......+.|+|++|+|||+||+.+.+..
T Consensus        33 ~~~i~~~~~~~~i~~~~~~l~~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~~   88 (272)
T 1d2n_A           33 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEES   88 (272)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cCCCCccHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHHh
Confidence            346676666555554       332   3356789999999999999999999854

>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=96.39  E-value=0.0026  Score=57.41  Aligned_cols=46  Identities=11%  Similarity=0.081  Sum_probs=33.9

Q ss_pred             cccccchHHHHHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE--EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.++|.+....++.+.+..  ....-|.|+|.+|+|||+||+.+++..
T Consensus         6 ~~~ig~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKt~la~~i~~~~   53 (265)
T 2bjv_A            6 DNLLGEANSFLEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLHYLS   53 (265)
T ss_dssp             ----CCCHHHHHHHHHHHHHTTSCSCEEEECCTTSCHHHHHHHHHHTS
T ss_pred             ccceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhc
Confidence            4578998888888776643  233567899999999999999999854

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=96.37  E-value=0.0037  Score=59.94  Aligned_cols=46  Identities=20%  Similarity=0.117  Sum_probs=37.9

Q ss_pred             cccccchHHHHHHHHHhhc------------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE------------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|.+..++.|...+..            ...+-|.|+|++|+|||+||+.+.+..
T Consensus       115 ~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~  172 (389)
T 3vfd_A          115 DDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAES  172 (389)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHT
T ss_pred             HHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhh
Confidence            5689999999998887731            134679999999999999999998854

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=96.36  E-value=0.0035  Score=58.33  Aligned_cols=46  Identities=13%  Similarity=-0.065  Sum_probs=39.2

Q ss_pred             cccccchHHHHHHHHHhhcCC-ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQ-VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++++|.+...+.+.+++..+. .+++.+.|++|+|||++|+.+.+..
T Consensus        26 ~~ivg~~~~~~~l~~~l~~~~~~~~~L~~G~~G~GKT~la~~la~~l   72 (324)
T 3u61_B           26 DECILPAFDKETFKSITSKGKIPHIILHSPSPGTGKTTVAKALCHDV   72 (324)
T ss_dssp             TTSCCCHHHHHHHHHHHHTTCCCSEEEECSSTTSSHHHHHHHHHHHT
T ss_pred             HHHhCcHHHHHHHHHHHHcCCCCeEEEeeCcCCCCHHHHHHHHHHHh
Confidence            568999999999999998664 4677888889999999999999854

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=96.36  E-value=0.0024  Score=58.90  Aligned_cols=46  Identities=20%  Similarity=0.307  Sum_probs=37.3

Q ss_pred             cccccchHHHHHHHHHhhcC---------CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEE---------QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~---------~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|.+..++.+...+...         ....+.++|++|+|||++|+.+.+..
T Consensus        17 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~   71 (311)
T 4fcw_A           17 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATL   71 (311)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHH
T ss_pred             hhcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHH
Confidence            45789888888888777542         23589999999999999999999854

>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=96.31  E-value=0.0022  Score=53.44  Aligned_cols=24  Identities=21%  Similarity=0.200  Sum_probs=21.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+|.|.|++|+||||+|+.+....
T Consensus         2 ~~i~l~G~~GsGKsT~~~~L~~~l   25 (173)
T 3kb2_A            2 TLIILEGPDCCFKSTVAAKLSKEL   25 (173)
T ss_dssp             CEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            479999999999999999998854

>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=96.30  E-value=0.0023  Score=53.87  Aligned_cols=24  Identities=25%  Similarity=0.349  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+|.|.|++|+||||+|+.+....
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~~l   27 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQSVL   27 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhc
Confidence            579999999999999999999854

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=96.30  E-value=0.0038  Score=59.13  Aligned_cols=46  Identities=24%  Similarity=0.258  Sum_probs=37.1

Q ss_pred             cccccchHHHHHHHHHhhc------------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE------------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|.+..++.|.+.+..            ...+-|.++|++|+|||+||+.+++..
T Consensus        51 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~  108 (355)
T 2qp9_X           51 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEA  108 (355)
T ss_dssp             GGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHh
Confidence            5689999988888877631            123468899999999999999999965

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=96.29  E-value=0.0044  Score=57.35  Aligned_cols=46  Identities=11%  Similarity=0.122  Sum_probs=36.9

Q ss_pred             cccccchHHHHHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE--EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.++|......++.+.+..  ....-|.|+|.+|+|||++|+.+++..
T Consensus         2 ~~iig~s~~~~~~~~~~~~~a~~~~~vLi~Ge~GtGKt~lAr~i~~~~   49 (304)
T 1ojl_A            2 SHMIGSSPAMQHLLNEIAMVAPSDATVLIHGDSGTGKELVARALHACS   49 (304)
T ss_dssp             -CCCCCSHHHHHHHHHHHHHCSTTSCEEEESCTTSCHHHHHHHHHHHS
T ss_pred             CCcEECCHHHHHHHHHHHHHhCCCCcEEEECCCCchHHHHHHHHHHhC
Confidence            3578998888888887754  344567899999999999999999854

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=96.29  E-value=0.0023  Score=54.52  Aligned_cols=25  Identities=28%  Similarity=0.260  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ...+|+|+|++|+|||||++.+...
T Consensus         8 ~g~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A            8 GGNILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhc
Confidence            3468999999999999999999873

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=96.28  E-value=0.0023  Score=54.20  Aligned_cols=24  Identities=21%  Similarity=0.267  Sum_probs=21.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|+|++|+|||||++.+....
T Consensus         6 ~~i~i~GpsGsGKSTL~~~L~~~~   29 (180)
T 1kgd_A            6 KTLVLLGAHGVGRRHIKNTLITKH   29 (180)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhC
Confidence            589999999999999999998754

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.27  E-value=0.0026  Score=53.42  Aligned_cols=22  Identities=27%  Similarity=0.132  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q 043778          158 GIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      .+|.|.|++|+||||+|+.+..
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCCCHHHHHHHHHh
Confidence            5799999999999999999987

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=96.26  E-value=0.0031  Score=54.36  Aligned_cols=28  Identities=25%  Similarity=0.418  Sum_probs=24.3

Q ss_pred             cCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          154 EEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       154 ~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .....+|+|+|++|+|||||++.+....
T Consensus        22 ~~~g~~i~l~G~sGsGKSTl~~~La~~l   49 (200)
T 3uie_A           22 DQKGCVIWVTGLSGSGKSTLACALNQML   49 (200)
T ss_dssp             TSCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3456799999999999999999998755

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.22  E-value=0.0023  Score=53.60  Aligned_cols=24  Identities=25%  Similarity=0.196  Sum_probs=21.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+|+|+|++|+|||||++.+....
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~l   28 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQL   28 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            479999999999999999999854

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=96.21  E-value=0.0051  Score=60.14  Aligned_cols=46  Identities=22%  Similarity=0.205  Sum_probs=37.4

Q ss_pred             cccccchHHHHHHHHHhhc------------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE------------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++++|.+..++.|.+.+..            ...+-|.++|++|+|||+||+.+++..
T Consensus       134 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~  191 (444)
T 2zan_A          134 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEA  191 (444)
T ss_dssp             GGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHC
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHc
Confidence            5689999888888877631            234679999999999999999999854

>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=96.18  E-value=0.0019  Score=58.43  Aligned_cols=46  Identities=17%  Similarity=0.107  Sum_probs=34.1

Q ss_pred             cccccchHHHHHHHHHhh---c---------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLT---E---------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~---~---------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|.+...+.+.+.+.   .         ...+-+.|+|++|+|||+||+.+++..
T Consensus        11 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~   68 (268)
T 2r62_A           11 KDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEA   68 (268)
T ss_dssp             TTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHH
T ss_pred             HHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHh
Confidence            457888877666665543   1         123347799999999999999999865

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.15  E-value=0.0029  Score=54.46  Aligned_cols=26  Identities=35%  Similarity=0.224  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|.|+|++|+||||+|+.+....
T Consensus        24 ~~~~i~l~G~~GsGKsTl~~~La~~l   49 (199)
T 3vaa_A           24 AMVRIFLTGYMGAGKTTLGKAFARKL   49 (199)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            34689999999999999999999854

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.14  E-value=0.0033  Score=54.19  Aligned_cols=27  Identities=22%  Similarity=0.291  Sum_probs=23.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          155 EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       155 ~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ....+|+|+|+.|+|||||++.+....
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            355799999999999999999998743

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=96.14  E-value=0.0057  Score=56.12  Aligned_cols=26  Identities=27%  Similarity=0.143  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|+|+|..|+||||||+.+....
T Consensus        30 ~~~ii~I~G~sGsGKSTla~~L~~~l   55 (290)
T 1odf_A           30 CPLFIFFSGPQGSGKSFTSIQIYNHL   55 (290)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            56799999999999999999987754

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=96.12  E-value=0.0026  Score=52.25  Aligned_cols=57  Identities=16%  Similarity=0.039  Sum_probs=35.2

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCC
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASK  198 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~  198 (405)
                      +.++|.+...   +..|..-....++|+|+.|+|||||++.+++.. ... .+ ..+++...+
T Consensus        18 ~f~~g~n~~~---~~~l~~~~g~~~~l~G~~G~GKTtL~~~i~~~~-~~~-g~-~~~~~~~~~   74 (149)
T 2kjq_A           18 KFLGTENAEL---VYVLRHKHGQFIYVWGEEGAGKSHLLQAWVAQA-LEA-GK-NAAYIDAAS   74 (149)
T ss_dssp             CCCSCCTHHH---HHHCCCCCCSEEEEESSSTTTTCHHHHHHHHHH-HTT-TC-CEEEEETTT
T ss_pred             hcCcCccHHH---HHHHHhcCCCEEEEECCCCCCHHHHHHHHHHHH-Hhc-CC-cEEEEcHHH
Confidence            3345554433   333322245689999999999999999999866 321 11 255665443

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=96.07  E-value=0.0034  Score=54.06  Aligned_cols=25  Identities=16%  Similarity=0.251  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..+++|+|+.|+|||||++.+....
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            3589999999999999999998743

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.05  E-value=0.0052  Score=59.53  Aligned_cols=46  Identities=20%  Similarity=0.209  Sum_probs=37.3

Q ss_pred             cccccchHHHHHHHHHhh----c---------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLT----E---------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~----~---------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +++.|.+..+++|.+.+.    .         ..++-|.++|++|.|||.||+++.+..
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~  239 (434)
T 4b4t_M          181 SDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQT  239 (434)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             HhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHh
Confidence            567889888888877643    2         146789999999999999999999965

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.04  E-value=0.0057  Score=59.29  Aligned_cols=46  Identities=24%  Similarity=0.221  Sum_probs=36.9

Q ss_pred             cccccchHHHHHHHHHhhc-------------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE-------------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +++.|.+..+++|.+.+.-             ..++-|.++|++|.|||+||+++.+..
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~  239 (437)
T 4b4t_L          181 DGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATI  239 (437)
T ss_dssp             GGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             hHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHh
Confidence            4677888888877765531             146789999999999999999999965

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=96.02  E-value=0.0051  Score=55.99  Aligned_cols=46  Identities=26%  Similarity=0.182  Sum_probs=32.9

Q ss_pred             cccccchHHHHHHHHHhhc-------------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE-------------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .++.|.++.++.|.+.+..             .-.+-+.++|++|+||||||+.+.+..
T Consensus        10 ~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~GvlL~Gp~GtGKTtLakala~~~   68 (274)
T 2x8a_A           10 ADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANES   68 (274)
T ss_dssp             --CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSEEEEESSTTSCHHHHHHHHHHHT
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCeEEEECCCCCcHHHHHHHHHHHc
Confidence            4567888777777665421             112239999999999999999999855

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=96.02  E-value=0.0041  Score=52.17  Aligned_cols=25  Identities=20%  Similarity=0.319  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..+|+|+|++|+||||+++.+....
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            4689999999999999999998743

>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=96.01  E-value=0.026  Score=49.65  Aligned_cols=57  Identities=16%  Similarity=0.203  Sum_probs=38.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCC----CCCEEEEEEeCCCCCHHHHHHHHHHHhC
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPN----YFDVVIWAVASKVVEIEKIQESIAKKIG  214 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~----~F~~~~wv~vs~~~~~~~l~~~i~~~l~  214 (405)
                      .-.++.|+|++|+|||||+..+.... ....    .-..++|++....++...+. .++..++
T Consensus        23 ~G~~~~i~G~~GsGKTtl~~~l~~~~-~~~~~~g~~~~~~~~i~~~~~~~~~~~~-~~~~~~g   83 (243)
T 1n0w_A           23 TGSITEMFGEFRTGKTQICHTLAVTC-QLPIDRGGGEGKAMYIDTEGTFRPERLL-AVAERYG   83 (243)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHT-TSCGGGTCCSSEEEEEESSSCCCHHHHH-HHHHHTT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH-hCchhcCCCCCeEEEEECCCCcCHHHHH-HHHHHcC
Confidence            45699999999999999999998743 1111    13578899876655555443 3444554

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.01  E-value=0.0055  Score=59.30  Aligned_cols=46  Identities=22%  Similarity=0.261  Sum_probs=37.0

Q ss_pred             cccccchHHHHHHHHHhhc-------------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE-------------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +++.|.+..+++|.+.+.-             ..++-|.++|++|+|||+||+++.+..
T Consensus       172 ~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~  230 (428)
T 4b4t_K          172 ADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANST  230 (428)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            4678888888887776531             145679999999999999999999966

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.01  E-value=0.0039  Score=52.80  Aligned_cols=25  Identities=24%  Similarity=0.194  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...|.|+|++|+||||+|+.+....
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l   29 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLT   29 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            3578999999999999999999854

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=96.01  E-value=0.0045  Score=57.80  Aligned_cols=44  Identities=20%  Similarity=0.282  Sum_probs=36.6

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|.+..++.+...+..+  .-+.++|++|+|||+||+.+.+..
T Consensus        27 ~~i~g~~~~~~~l~~~l~~~--~~vll~G~pGtGKT~la~~la~~~   70 (331)
T 2r44_A           27 KVVVGQKYMINRLLIGICTG--GHILLEGVPGLAKTLSVNTLAKTM   70 (331)
T ss_dssp             TTCCSCHHHHHHHHHHHHHT--CCEEEESCCCHHHHHHHHHHHHHT
T ss_pred             cceeCcHHHHHHHHHHHHcC--CeEEEECCCCCcHHHHHHHHHHHh
Confidence            46789998888888877664  357889999999999999998844

>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=96.01  E-value=0.004  Score=57.89  Aligned_cols=27  Identities=26%  Similarity=0.532  Sum_probs=22.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          155 EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       155 ~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++.+||+|.|.|||||||.+..+.--.
T Consensus        46 ~~aKVIAIaGKGGVGKTTtavNLA~aL   72 (314)
T 3fwy_A           46 TGAKVFAVYGKGGIGKSTTSSNLSAAF   72 (314)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCceEEEEECCCccCHHHHHHHHHHHH
Confidence            478999999999999999888876544

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.00  E-value=0.0034  Score=54.13  Aligned_cols=25  Identities=24%  Similarity=0.308  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..+|.|.|++|+||||+|+.+....
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~l   42 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEAC   42 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998854

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=96.00  E-value=0.0078  Score=52.59  Aligned_cols=39  Identities=23%  Similarity=0.266  Sum_probs=30.0

Q ss_pred             HHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          143 SIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       143 ~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+.+...+.......|+|+|.+|+|||||+..+....
T Consensus        24 ~~a~~~r~~~~~~~~~~i~ivG~~gvGKTtl~~~l~~~~   62 (226)
T 2hf9_A           24 RLADKNRKLLNKHGVVAFDFMGAIGSGKTLLIEKLIDNL   62 (226)
T ss_dssp             HHHHHHHHHHHHTTCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCeEEEEEcCCCCCHHHHHHHHHHHh
Confidence            334455555555577899999999999999999998754

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=95.99  E-value=0.0044  Score=53.70  Aligned_cols=26  Identities=31%  Similarity=0.390  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|+|+|+.|+|||||++.+....
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~~~   30 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALARTL   30 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHh
Confidence            45689999999999999999998854

>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=52.80  Aligned_cols=24  Identities=29%  Similarity=0.369  Sum_probs=21.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+|.|.|++|+||||+|+.+....
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~~l   25 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKEIL   25 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            478999999999999999998865

>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=52.44  Aligned_cols=25  Identities=28%  Similarity=0.311  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..+|.|.|++|+||||+|+.+....
T Consensus         5 ~~~I~l~G~~GsGKST~~~~L~~~l   29 (193)
T 2rhm_A            5 PALIIVTGHPATGKTTLSQALATGL   29 (193)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHc
Confidence            4689999999999999999998754

>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=95.94  E-value=0.0046  Score=52.62  Aligned_cols=22  Identities=23%  Similarity=0.226  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q 043778          158 GIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      .+++|+|++|+|||||++.+..
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            4789999999999999999986

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=95.94  E-value=0.0046  Score=53.22  Aligned_cols=24  Identities=33%  Similarity=0.212  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ..+|+|+|++|+|||||++.+...
T Consensus         6 g~~i~l~G~~GsGKSTl~~~L~~~   29 (207)
T 2j41_A            6 GLLIVLSGPSGVGKGTVRKRIFED   29 (207)
T ss_dssp             CCEEEEECSTTSCHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            458999999999999999999873

>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=95.92  E-value=0.01  Score=55.26  Aligned_cols=38  Identities=26%  Similarity=0.287  Sum_probs=28.4

Q ss_pred             HHHHHHHHhhcC--CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          144 IFDKLWRCLTEE--QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       144 ~~~~l~~~L~~~--~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ....+...+..+  ....+.|+|++|+||||||+.+++..
T Consensus        22 a~~~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~~   61 (324)
T 1l8q_A           22 AYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEA   61 (324)
T ss_dssp             HHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHHHH
Confidence            344445555443  34678999999999999999999855

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=95.91  E-value=0.0063  Score=53.03  Aligned_cols=43  Identities=19%  Similarity=0.184  Sum_probs=32.8

Q ss_pred             ccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          139 VGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       139 vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      -+.....+.+...+......+|+|+|.+|+|||||+..+....
T Consensus        12 ~~~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKTTl~~~l~~~~   54 (221)
T 2wsm_A           12 AENKRLAEKNREALRESGTVAVNIMGAIGSGKTLLIERTIERI   54 (221)
T ss_dssp             HHHHHHHHHHHHHHHHHTCEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             hhcHHHHHHHHHhhcccCceEEEEEcCCCCCHHHHHHHHHHHh
Confidence            3445555566665555578899999999999999999988754

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=95.91  E-value=0.0039  Score=52.33  Aligned_cols=24  Identities=21%  Similarity=0.289  Sum_probs=20.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      ...+++|+|+.|+|||||++.++.
T Consensus         8 ~gei~~l~G~nGsGKSTl~~~~~~   31 (171)
T 4gp7_A            8 ELSLVVLIGSSGSGKSTFAKKHFK   31 (171)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHSC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHcc
Confidence            346899999999999999998664

>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=95.91  E-value=0.0048  Score=53.57  Aligned_cols=26  Identities=27%  Similarity=0.158  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|+|+|+.|+|||||++.+....
T Consensus         7 ~g~~i~l~GpsGsGKsTl~~~L~~~~   32 (208)
T 3tau_A            7 RGLLIVLSGPSGVGKGTVREAVFKDP   32 (208)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHST
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhhC
Confidence            45689999999999999999999843

>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=95.91  E-value=0.0043  Score=54.36  Aligned_cols=24  Identities=25%  Similarity=0.343  Sum_probs=21.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+|+|+|++|+||||+++.+....
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~~   29 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEAL   29 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            589999999999999999998754

>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=95.91  E-value=0.0045  Score=52.50  Aligned_cols=24  Identities=25%  Similarity=0.331  Sum_probs=21.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+|.|.|++|+||||+++.+....
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~~l   27 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMDNL   27 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            589999999999999999998754

>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=95.90  E-value=0.0047  Score=52.35  Aligned_cols=23  Identities=39%  Similarity=0.420  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .++|+|+.|+|||||++.+....
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l   24 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999999865

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=95.89  E-value=0.0054  Score=52.07  Aligned_cols=26  Identities=23%  Similarity=0.301  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|.|.|++|+||||+++.+....
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~~~l   37 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLADLL   37 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            45789999999999999999998755

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=95.88  E-value=0.0043  Score=53.62  Aligned_cols=26  Identities=27%  Similarity=0.419  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|.|+|++|+|||||++.+....
T Consensus        11 ~~~~i~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A           11 RIPPLVVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHHHC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            35689999999999999999998754

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=95.88  E-value=0.0046  Score=53.04  Aligned_cols=23  Identities=30%  Similarity=0.512  Sum_probs=21.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .|+|.|+.|+||||+++.+....
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l   24 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKL   24 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHHhc
Confidence            68999999999999999999865

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=95.86  E-value=0.01  Score=52.97  Aligned_cols=46  Identities=22%  Similarity=0.176  Sum_probs=32.1

Q ss_pred             cccccchHHHHHHHHHhh---cC---------CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLT---EE---------QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~---~~---------~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++++|.+....++.+...   ..         -.+-+.|+|++|+|||||++.+.+..
T Consensus        16 ~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~   73 (254)
T 1ixz_A           16 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA   73 (254)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             HHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHh
Confidence            457887766555544322   10         12238999999999999999999865

>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=95.86  E-value=0.0047  Score=53.22  Aligned_cols=22  Identities=32%  Similarity=0.410  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q 043778          158 GIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      .+|+|+|+.|+||||+++.+..
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            3799999999999999999987

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=95.85  E-value=0.0054  Score=52.13  Aligned_cols=25  Identities=24%  Similarity=0.198  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..+|.|.|++|+||||+|+.+....
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~~~   27 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVEKY   27 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998754

>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=95.84  E-value=0.0049  Score=51.97  Aligned_cols=25  Identities=40%  Similarity=0.276  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..+|.|.|++|+||||+++.+....
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~~~   35 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELASKS   35 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHh
Confidence            4578999999999999999998754

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.83  E-value=0.0063  Score=58.20  Aligned_cols=46  Identities=22%  Similarity=0.201  Sum_probs=36.6

Q ss_pred             cccccchHHHHHHHHHhhc-------------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE-------------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +++.|.+..+++|.+.+.-             ..++-|.++|++|.|||.||+++.+..
T Consensus       148 ~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~  206 (405)
T 4b4t_J          148 DMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHT  206 (405)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhh
Confidence            4577888888887765531             145778999999999999999999965

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=95.83  E-value=0.0086  Score=54.86  Aligned_cols=26  Identities=27%  Similarity=0.129  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|.|.|++|+||||+|+.+....
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            46789999999999999999998743

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=95.83  E-value=0.0044  Score=53.43  Aligned_cols=24  Identities=29%  Similarity=0.314  Sum_probs=21.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++++|+|+.|+|||||++.+....
T Consensus         5 ~~i~lvGpsGaGKSTLl~~L~~~~   28 (198)
T 1lvg_A            5 RPVVLSGPSGAGKSTLLKKLFQEH   28 (198)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhC
Confidence            579999999999999999998754

>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=95.83  E-value=0.0061  Score=52.29  Aligned_cols=24  Identities=33%  Similarity=0.436  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      ...+|+|+|+.|+||||+|+.+..
T Consensus         7 ~~~~I~i~G~~GsGKST~~~~La~   30 (203)
T 1uf9_A            7 HPIIIGITGNIGSGKSTVAALLRS   30 (203)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH
Confidence            567999999999999999999987

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=95.81  E-value=0.0098  Score=55.30  Aligned_cols=26  Identities=31%  Similarity=0.351  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|+|.|+.|+|||||++.+....
T Consensus        91 ~p~iigI~GpsGSGKSTl~~~L~~ll  116 (321)
T 3tqc_A           91 VPYIIGIAGSVAVGKSTTSRVLKALL  116 (321)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            45699999999999999999998754

>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=95.81  E-value=0.0087  Score=56.71  Aligned_cols=45  Identities=22%  Similarity=0.119  Sum_probs=36.0

Q ss_pred             ccccchHHHHHHHHHhh-------------c--CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          137 TIVGLESIFDKLWRCLT-------------E--EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       137 ~~vGr~~~~~~l~~~L~-------------~--~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .++|.+..++.+...+.             .  .....|.++|++|+|||++|+.+.+..
T Consensus        16 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~   75 (363)
T 3hws_A           16 YVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLL   75 (363)
T ss_dssp             HCCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             hccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHc
Confidence            46898888888887772             1  134578999999999999999999854

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=95.79  E-value=0.0056  Score=55.00  Aligned_cols=24  Identities=29%  Similarity=0.339  Sum_probs=21.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+|.|.|++|+||||||+.+....
T Consensus         2 ~li~I~G~~GSGKSTla~~La~~~   25 (253)
T 2ze6_A            2 LLHLIYGPTCSGKTDMAIQIAQET   25 (253)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHhcC
Confidence            478999999999999999998754

>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=95.78  E-value=0.006  Score=54.65  Aligned_cols=26  Identities=23%  Similarity=0.292  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|+|.|++|+||||+|+.+....
T Consensus        21 ~~~iI~I~G~~GSGKST~a~~L~~~l   46 (252)
T 1uj2_A           21 EPFLIGVSGGTASGKSSVCAKIVQLL   46 (252)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHh
Confidence            56799999999999999999998744

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=95.78  E-value=0.011  Score=55.43  Aligned_cols=43  Identities=19%  Similarity=0.188  Sum_probs=30.6

Q ss_pred             ccchHHHHHHHHHhh----cCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          139 VGLESIFDKLWRCLT----EEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       139 vGr~~~~~~l~~~L~----~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++.+.-.+.+++.+.    .+....|.|+|++|+||||+++.+....
T Consensus         2 ~~~~~L~~~il~~l~~~i~~g~~~~i~l~G~~G~GKTTl~~~la~~l   48 (359)
T 2ga8_A            2 VDTHKLADDVLQLLDNRIEDNYRVCVILVGSPGSGKSTIAEELCQII   48 (359)
T ss_dssp             CCHHHHHHHHHHHHHHTTTTCSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHhccCCeeEEEEECCCCCcHHHHHHHHHHHh
Confidence            344455555665553    3355679999999999999999887643

>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=95.78  E-value=0.006  Score=52.76  Aligned_cols=25  Identities=36%  Similarity=0.484  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ...+|+|+|++|+||||||+.+...
T Consensus        20 ~~~~i~i~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           20 KTFIIGISGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHh
Confidence            3568999999999999999999873

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=95.78  E-value=0.0056  Score=50.94  Aligned_cols=26  Identities=19%  Similarity=0.248  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|+|.|++|+||||+|+.+....
T Consensus         6 ~~~~i~l~G~~GsGKSTva~~La~~l   31 (168)
T 1zuh_A            6 HMQHLVLIGFMGSGKSSLAQELGLAL   31 (168)
T ss_dssp             --CEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             ccceEEEECCCCCCHHHHHHHHHHHh
Confidence            34689999999999999999999855

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=95.77  E-value=0.0048  Score=51.80  Aligned_cols=23  Identities=26%  Similarity=0.322  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .|.|.|++|+||||+|+.+....
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~l   28 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKDL   28 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHc
Confidence            68999999999999999999855

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=95.77  E-value=0.0043  Score=58.24  Aligned_cols=46  Identities=22%  Similarity=0.270  Sum_probs=33.8

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.++|.+.....+...+..+...-+.|+|++|+|||+||+.+.+..
T Consensus        24 ~~i~G~~~~~~~l~~~~~~~~~~~vLl~G~~GtGKT~la~~la~~~   69 (350)
T 1g8p_A           24 SAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAALL   69 (350)
T ss_dssp             GGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHHHS
T ss_pred             hhccChHHHHHHHHHHhhCCCCceEEEECCCCccHHHHHHHHHHhC
Confidence            4588988765554444443333348899999999999999999855

>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=95.74  E-value=0.0058  Score=52.73  Aligned_cols=22  Identities=41%  Similarity=0.472  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q 043778          158 GIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      .+|+|+|+.|+||||+++.+..
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

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=95.74  E-value=0.0062  Score=51.91  Aligned_cols=26  Identities=31%  Similarity=0.263  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|.|.|++|+||||+|+.+....
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~La~~l   33 (196)
T 2c95_A            8 KTNIIFVVGGPGSGKGTQCEKIVQKY   33 (196)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            34689999999999999999998754

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A*

Probab=95.73  E-value=0.011  Score=57.91  Aligned_cols=46  Identities=22%  Similarity=0.216  Sum_probs=35.4

Q ss_pred             cccccchHHHHHHHHH---hhcC--CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRC---LTEE--QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~---L~~~--~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|.+..++.+...   +..+  ..+-+.++|++|+|||+||+.+.+..
T Consensus        37 ~~iiG~~~~~~~l~~~~~~~~~~~~~~~~iLl~GppGtGKT~la~ala~~l   87 (456)
T 2c9o_A           37 SGLVGQENAREACGVIVELIKSKKMAGRAVLLAGPPGTGKTALALAIAQEL   87 (456)
T ss_dssp             TTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHHHhCCCCCCeEEEECCCcCCHHHHHHHHHHHh
Confidence            5689998887755443   3333  33578899999999999999999866

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=95.72  E-value=0.0093  Score=59.00  Aligned_cols=44  Identities=9%  Similarity=0.000  Sum_probs=36.5

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|.+..++.+...+..+  .-|.++|++|+|||+||+.+.+..
T Consensus        22 ~~ivGq~~~i~~l~~al~~~--~~VLL~GpPGtGKT~LAraLa~~l   65 (500)
T 3nbx_X           22 KGLYERSHAIRLCLLAALSG--ESVFLLGPPGIAKSLIARRLKFAF   65 (500)
T ss_dssp             TTCSSCHHHHHHHHHHHHHT--CEEEEECCSSSSHHHHHHHGGGGB
T ss_pred             hhhHHHHHHHHHHHHHHhcC--CeeEeecCchHHHHHHHHHHHHHH
Confidence            56799998888888777654  367899999999999999998854

>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=95.71  E-value=0.011  Score=58.31  Aligned_cols=46  Identities=22%  Similarity=0.176  Sum_probs=37.4

Q ss_pred             cccccchHHHHHHHHHhhc-------------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE-------------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|.+..+++|.+.+..             ....-|.|+|++|+|||+||+.+.+..
T Consensus       204 ~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~  262 (489)
T 3hu3_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET  262 (489)
T ss_dssp             GGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHC
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHh
Confidence            4589999888888877642             245578999999999999999998854

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=95.71  E-value=0.0079  Score=53.92  Aligned_cols=40  Identities=30%  Similarity=0.311  Sum_probs=29.1

Q ss_pred             hHHHHHHHHHhhcC-----CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          142 ESIFDKLWRCLTEE-----QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       142 ~~~~~~l~~~L~~~-----~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +...+.+...+..+     ...+|.|+|++|+||||+|+.+....
T Consensus        12 ~~~~~~~~~~~~~~~~~~~~~~~i~l~G~~GsGKSTla~~L~~~l   56 (253)
T 2p5t_B           12 KHALARNLRSLTRGKKSSKQPIAILLGGQSGAGKTTIHRIKQKEF   56 (253)
T ss_dssp             HHHHHHHHHHHHTTCCCCSSCEEEEEESCGGGTTHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHccCCcccCCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            33444454444432     46789999999999999999998854

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=95.71  E-value=0.013  Score=53.26  Aligned_cols=46  Identities=22%  Similarity=0.176  Sum_probs=32.6

Q ss_pred             cccccchHHHHHHHHHhh---cC---------CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLT---EE---------QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~---~~---------~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++++|.+....++.+...   ..         -.+-+.|+|++|+|||||++.+.+..
T Consensus        40 ~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~   97 (278)
T 1iy2_A           40 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA   97 (278)
T ss_dssp             GGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             HHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHc
Confidence            567888766655554332   10         11238999999999999999999865

>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=95.70  E-value=0.0061  Score=54.33  Aligned_cols=26  Identities=23%  Similarity=0.217  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|+|+|++|+|||||++.+....
T Consensus        26 ~~~~i~l~G~~GsGKSTl~k~La~~l   51 (246)
T 2bbw_A           26 KLLRAVILGPPGSGKGTVCQRIAQNF   51 (246)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            45799999999999999999999644

>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=95.70  E-value=0.011  Score=56.28  Aligned_cols=46  Identities=17%  Similarity=0.124  Sum_probs=35.3

Q ss_pred             cccccchHHHHHHHHHhhc------------------------------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE------------------------------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~------------------------------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|.+..++.|...+..                              .....+.++|++|+|||++|+.+.+..
T Consensus        21 ~~viGq~~ak~~l~~~~~~~~~~~~~g~~~~~~~~~~~~~p~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l   96 (376)
T 1um8_A           21 NYVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHL   96 (376)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             hHccCcHHHHHHHHHHHHHHHHHHHhhhhhhhccccccccccccccccccCCCCEEEECCCCCCHHHHHHHHHHHh
Confidence            4578888888777766620                              124568899999999999999999854

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=95.69  E-value=0.014  Score=56.82  Aligned_cols=37  Identities=24%  Similarity=0.276  Sum_probs=27.8

Q ss_pred             HHHHHHHhhcCC-ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          145 FDKLWRCLTEEQ-VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       145 ~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+......++ ...+.|+|++|+||||||+.+++..
T Consensus       117 ~~~~~~~a~~~~~~~~lll~Gp~G~GKTtLa~aia~~l  154 (440)
T 2z4s_A          117 YHAALEVAKHPGRYNPLFIYGGVGLGKTHLLQSIGNYV  154 (440)
T ss_dssp             HHHHHHHHHSTTSSCCEEEECSSSSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            334444444433 6789999999999999999999854

>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=95.68  E-value=0.0069  Score=51.39  Aligned_cols=25  Identities=24%  Similarity=0.219  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ...+|.|+|++|+||||+++.+...
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            3468999999999999999999884

>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=51.94  Aligned_cols=24  Identities=21%  Similarity=0.207  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+|.|.|++|+||||+|+.+....
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~l   26 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAKAL   26 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHc
Confidence            469999999999999999998854

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=95.66  E-value=0.0069  Score=51.20  Aligned_cols=24  Identities=17%  Similarity=0.178  Sum_probs=21.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+|.+.|++|+||||+|+.+....
T Consensus         5 ~~I~l~G~~GsGKST~~~~La~~l   28 (186)
T 3cm0_A            5 QAVIFLGPPGAGKGTQASRLAQEL   28 (186)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            579999999999999999998744

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=95.65  E-value=0.0075  Score=52.03  Aligned_cols=25  Identities=20%  Similarity=0.339  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..+|.|.|++|+||||+|+.+....
T Consensus         4 ~~~I~i~G~~GsGKsT~~~~L~~~l   28 (213)
T 2plr_A            4 GVLIAFEGIDGSGKSSQATLLKDWI   28 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHH
Confidence            3589999999999999999999866

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=95.64  E-value=0.0076  Score=51.81  Aligned_cols=26  Identities=27%  Similarity=0.290  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|+|.|++|+||||+|+.+....
T Consensus        14 ~~~~I~l~G~~GsGKsT~~~~L~~~~   39 (203)
T 1ukz_A           14 QVSVIFVLGGPGAGKGTQCEKLVKDY   39 (203)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            45789999999999999999999744

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=95.63  E-value=0.0069  Score=51.76  Aligned_cols=25  Identities=28%  Similarity=0.239  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..+|+|.|++|+||||+|+.+....
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~~l   36 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVEKY   36 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            3689999999999999999999854

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=95.63  E-value=0.0079  Score=55.27  Aligned_cols=26  Identities=27%  Similarity=0.333  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+..+.++|++|+|||+||+.+++..
T Consensus        35 ~p~~lLl~GppGtGKT~la~aiA~~l   60 (293)
T 3t15_A           35 VPLILGIWGGKGQGKSFQCELVFRKM   60 (293)
T ss_dssp             CCSEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            45688899999999999999999966

>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=95.62  E-value=0.0073  Score=56.04  Aligned_cols=26  Identities=31%  Similarity=0.333  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|+|+|+.|+|||||++.+..-.
T Consensus        89 ~g~ivgI~G~sGsGKSTL~~~L~gll  114 (312)
T 3aez_A           89 VPFIIGVAGSVAVGKSTTARVLQALL  114 (312)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCchHHHHHHHHHhhc
Confidence            56799999999999999999998754

>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=95.61  E-value=0.0069  Score=52.46  Aligned_cols=26  Identities=23%  Similarity=0.379  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.+++|+|+.|+|||||++.+..-.
T Consensus        19 ~Gei~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           19 VGRVVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            34699999999999999999998854

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.60  E-value=0.0091  Score=57.99  Aligned_cols=46  Identities=24%  Similarity=0.259  Sum_probs=36.9

Q ss_pred             cccccchHHHHHHHHHhh----c---------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLT----E---------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~----~---------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +++.|.+..+++|.+.+.    .         ..++-|.++|++|.|||+||+.+.+..
T Consensus       209 ~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~  267 (467)
T 4b4t_H          209 SDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRT  267 (467)
T ss_dssp             SSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhcc
Confidence            457888888888876543    1         246789999999999999999999965

>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=95.58  E-value=0.0063  Score=50.76  Aligned_cols=24  Identities=21%  Similarity=0.130  Sum_probs=21.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+|.|.|++|+||||+|+.+....
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~l   26 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELARAL   26 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHh
Confidence            469999999999999999999854

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=95.57  E-value=0.0062  Score=53.32  Aligned_cols=26  Identities=31%  Similarity=0.424  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+++|+|+.|+|||||++.+....
T Consensus        22 ~G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           22 NIYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            34689999999999999999998843

>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=95.55  E-value=0.0082  Score=50.88  Aligned_cols=25  Identities=24%  Similarity=0.218  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..+|+|.|++|+||||+|+.+....
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~~l   30 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998854

>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=95.55  E-value=0.0083  Score=51.63  Aligned_cols=26  Identities=15%  Similarity=0.188  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|+|+|+.|+|||||++.+....
T Consensus        18 ~g~~ivl~GPSGaGKsTL~~~L~~~~   43 (197)
T 3ney_A           18 GRKTLVLIGASGVGRSHIKNALLSQN   43 (197)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCCEEEEECcCCCCHHHHHHHHHhhC
Confidence            45789999999999999999999754

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=95.55  E-value=0.0085  Score=53.42  Aligned_cols=25  Identities=28%  Similarity=0.266  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ...+|+|.|+.|+|||||++.+...
T Consensus        24 ~g~iigI~G~~GsGKSTl~k~L~~~   48 (245)
T 2jeo_A           24 RPFLIGVSGGTASGKSTVCEKIMEL   48 (245)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
Confidence            4569999999999999999999874

>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=95.53  E-value=0.007  Score=51.61  Aligned_cols=24  Identities=29%  Similarity=0.367  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.|.|+|++|+|||||++.+....
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~~~   25 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhC
Confidence            458899999999999999998743

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=95.52  E-value=0.0079  Score=51.10  Aligned_cols=23  Identities=26%  Similarity=0.367  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +|+|.|+.|+||||+|+.+....
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l   24 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYL   24 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68999999999999999998744

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=95.52  E-value=0.0085  Score=52.42  Aligned_cols=26  Identities=27%  Similarity=0.257  Sum_probs=24.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.+||.|.|++|+||||.|+.+....
T Consensus        28 k~kiI~llGpPGsGKgTqa~~L~~~~   53 (217)
T 3umf_A           28 KAKVIFVLGGPGSGKGTQCEKLVQKF   53 (217)
T ss_dssp             SCEEEEEECCTTCCHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            67899999999999999999999865

>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=95.50  E-value=0.048  Score=47.44  Aligned_cols=46  Identities=22%  Similarity=0.273  Sum_probs=31.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCC----CCCCEEEEEEeCCCCCH
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEP----NYFDVVIWAVASKVVEI  202 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~----~~F~~~~wv~vs~~~~~  202 (405)
                      .-.+++|+|++|+|||||++.+.... ...    ..-...+|+.-...+..
T Consensus        24 ~G~~~~l~G~nGsGKSTll~~l~g~~-~~~~~~g~~~~~~i~~~~~~~~~~   73 (231)
T 4a74_A           24 TQAITEVFGEFGSGKTQLAHTLAVMV-QLPPEEGGLNGSVIWIDTENTFRP   73 (231)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHT-TSCGGGTCCSCEEEEEESSSCCCH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH-hcccccCCCCCEEEEEECCCCCCH
Confidence            45799999999999999999998643 211    12346788875444443

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=95.50  E-value=0.0083  Score=49.78  Aligned_cols=23  Identities=30%  Similarity=0.352  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .|.|.|++|+||||+|+.+....
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l   24 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSL   24 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            68999999999999999999854

>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=0.0086  Score=51.45  Aligned_cols=26  Identities=23%  Similarity=0.208  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|.|.|++|+||||+|+.+....
T Consensus        19 ~~~~I~l~G~~GsGKST~a~~La~~l   44 (201)
T 2cdn_A           19 SHMRVLLLGPPGAGKGTQAVKLAEKL   44 (201)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            44589999999999999999998854

>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=95.49  E-value=0.028  Score=48.60  Aligned_cols=45  Identities=20%  Similarity=0.162  Sum_probs=33.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHH
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQ  206 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~  206 (405)
                      .-.++.|+|.+|+|||||+..+.. . .    -..++|++....++...+.
T Consensus        19 ~G~~~~i~G~~GsGKTtl~~~l~~-~-~----~~~v~~i~~~~~~~~~~~~   63 (220)
T 2cvh_A           19 PGVLTQVYGPYASGKTTLALQTGL-L-S----GKKVAYVDTEGGFSPERLV   63 (220)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHH-H-H----CSEEEEEESSCCCCHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH-H-c----CCcEEEEECCCCCCHHHHH
Confidence            446999999999999999999987 2 1    1467888876655655544

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.46  E-value=0.012  Score=56.52  Aligned_cols=46  Identities=28%  Similarity=0.315  Sum_probs=36.5

Q ss_pred             cccccchHHHHHHHHHhh----c---------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLT----E---------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~----~---------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +++-|.++.+++|.+.+.    .         ...+-|.++|++|.|||.||+++.+..
T Consensus       182 ~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~  240 (437)
T 4b4t_I          182 SDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQT  240 (437)
T ss_dssp             GGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHH
T ss_pred             eecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHh
Confidence            456788888887776543    1         145789999999999999999999965

>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=95.46  E-value=0.0092  Score=53.74  Aligned_cols=24  Identities=29%  Similarity=0.354  Sum_probs=21.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ..+|.|.|++|+||||+|+.+...
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~~   27 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAKI   27 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHH
Confidence            468999999999999999999875

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=95.43  E-value=0.0081  Score=53.87  Aligned_cols=26  Identities=23%  Similarity=0.291  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|+|+|+.|+||||+++.+....
T Consensus        26 ~g~~I~I~G~~GsGKSTl~k~La~~L   51 (252)
T 4e22_A           26 IAPVITVDGPSGAGKGTLCKALAESL   51 (252)
T ss_dssp             TSCEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhc
Confidence            34699999999999999999999744

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=95.42  E-value=0.0095  Score=51.48  Aligned_cols=25  Identities=24%  Similarity=0.246  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..+|+|.|+.|+||||+++.+....
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~~l   34 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVEYL   34 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999998754

>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=95.42  E-value=0.0096  Score=51.06  Aligned_cols=25  Identities=32%  Similarity=0.470  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ...+|+|.|+.|+||||+|+.+...
T Consensus        11 ~~~iIgltG~~GSGKSTva~~L~~~   35 (192)
T 2grj_A           11 HHMVIGVTGKIGTGKSTVCEILKNK   35 (192)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHh
Confidence            4579999999999999999999874

>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=95.40  E-value=0.0096  Score=51.51  Aligned_cols=26  Identities=23%  Similarity=0.263  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|+|.|+.|+||||+|+.+....
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~L~~~l   33 (215)
T 1nn5_A            8 RGALIVLEGVDRAGKSTQSRKLVEAL   33 (215)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            34689999999999999999998754

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=95.39  E-value=0.0061  Score=51.35  Aligned_cols=25  Identities=28%  Similarity=0.284  Sum_probs=18.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..+|.|.|++|+||||+|+.+....
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~~l   29 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHERL   29 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHHHS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhc
Confidence            4589999999999999999998754

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=95.35  E-value=0.0095  Score=52.24  Aligned_cols=26  Identities=15%  Similarity=0.123  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.+++|+|+.|+|||||.+.+....
T Consensus        15 ~G~ii~l~GpsGsGKSTLlk~L~g~~   40 (219)
T 1s96_A           15 QGTLYIVSAPSGAGKSSLIQALLKTQ   40 (219)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhccC
Confidence            34699999999999999999999854

>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=95.35  E-value=0.005  Score=53.34  Aligned_cols=24  Identities=29%  Similarity=0.508  Sum_probs=21.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+|+|.|+.|+||||+++.+....
T Consensus         1 ~~I~i~G~~GsGKsTl~~~L~~~l   24 (214)
T 1gtv_A            1 MLIAIEGVDGAGKRTLVEKLSGAF   24 (214)
T ss_dssp             CEEEEEEEEEEEHHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHH
Confidence            379999999999999999998754

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=95.34  E-value=0.011  Score=48.97  Aligned_cols=25  Identities=28%  Similarity=0.146  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .-.+++|+|+.|+|||||.+.+..-
T Consensus        32 ~Ge~v~L~G~nGaGKTTLlr~l~g~   56 (158)
T 1htw_A           32 KAIMVYLNGDLGAGKTTLTRGMLQG   56 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHh
Confidence            4569999999999999999999874

>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=95.31  E-value=0.018  Score=56.63  Aligned_cols=46  Identities=22%  Similarity=0.186  Sum_probs=34.3

Q ss_pred             cccccchHHHHHHHHHh---hcC---------CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCL---TEE---------QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L---~~~---------~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|.+..++++.+.+   ...         -.+-|.|+|++|+|||+||+.+.+..
T Consensus        16 ~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~   73 (476)
T 2ce7_A           16 KDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEA   73 (476)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             HHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHc
Confidence            56889887766666543   221         23458899999999999999999855

>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=95.30  E-value=0.061  Score=50.65  Aligned_cols=74  Identities=19%  Similarity=0.194  Sum_probs=46.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCC---CcccHHHHHHHH
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFFNESW---ESKTVQEKAVDI  232 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i~~~l~~~~~~~---~~~~~~~~~~~l  232 (405)
                      .-.++.|.|++|+||||||..+.... .  ..=..++|++....++..     .+..++......   ...+.++....+
T Consensus        60 ~G~i~~I~GppGsGKSTLal~la~~~-~--~~gg~VlyId~E~s~~~~-----ra~rlgv~~~~l~i~~~~~~e~~l~~~  131 (356)
T 3hr8_A           60 RGRIVEIFGQESSGKTTLALHAIAEA-Q--KMGGVAAFIDAEHALDPV-----YAKNLGVDLKSLLISQPDHGEQALEIV  131 (356)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHH-H--HTTCCEEEEESSCCCCHH-----HHHHHTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH-H--hcCCeEEEEecccccchH-----HHHHcCCchhhhhhhhccCHHHHHHHH
Confidence            45799999999999999999998754 2  111347888877766654     455555432211   123444544555


Q ss_pred             HHHHc
Q 043778          233 FNILS  237 (405)
Q Consensus       233 ~~~L~  237 (405)
                      ...++
T Consensus       132 ~~l~~  136 (356)
T 3hr8_A          132 DELVR  136 (356)
T ss_dssp             HHHHH
T ss_pred             HHHhh
Confidence            54444

>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=95.30  E-value=0.011  Score=49.46  Aligned_cols=25  Identities=24%  Similarity=0.227  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..+++|+|..|+|||||+..+....
T Consensus         4 ~~~i~i~G~sGsGKTTl~~~L~~~l   28 (169)
T 1xjc_A            4 MNVWQVVGYKHSGKTTLMEKWVAAA   28 (169)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhh
Confidence            5689999999999999999998754

>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=95.30  E-value=0.02  Score=50.94  Aligned_cols=26  Identities=19%  Similarity=0.172  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|.|.|++|+||||+|+.+....
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            56789999999999999999998744

>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=95.29  E-value=0.064  Score=49.84  Aligned_cols=58  Identities=19%  Similarity=0.283  Sum_probs=41.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCC----CCEEEEEEeCCCCCHHHHHHHHHHHhCC
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNY----FDVVIWAVASKVVEIEKIQESIAKKIGF  215 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~----F~~~~wv~vs~~~~~~~l~~~i~~~l~~  215 (405)
                      .-.++.|+|.+|+||||||..+.... .....    -..++|++....++...+.. ++..++.
T Consensus       106 ~G~i~~i~G~~GsGKT~la~~la~~~-~~~~~~gg~~~~vlyi~~e~~~~~~~l~~-~~~~~g~  167 (324)
T 2z43_A          106 TRTMTEFFGEFGSGKTQLCHQLSVNV-QLPPEKGGLSGKAVYIDTEGTFRWERIEN-MAKALGL  167 (324)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHT-TSCGGGTCCSCEEEEEESSSCCCHHHHHH-HHHHTTC
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHHH-hcccccCCCCCeEEEEECCCCCCHHHHHH-HHHHhCC
Confidence            45699999999999999999988754 21110    24789999888777776654 3455543

>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=95.25  E-value=0.012  Score=50.52  Aligned_cols=24  Identities=29%  Similarity=0.315  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ..+|+|.|+.|+||||+++.+...
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~~   27 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIMES   27 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHT
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHH
Confidence            358999999999999999999983

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=95.25  E-value=0.011  Score=51.36  Aligned_cols=23  Identities=35%  Similarity=0.356  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .|+|.|++|+||||+|+.+....
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58899999999999999998754

>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=95.23  E-value=0.012  Score=51.39  Aligned_cols=25  Identities=24%  Similarity=0.196  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...|.|.|++|+||||+|+.+....
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~~l   28 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQERF   28 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc
Confidence            3579999999999999999998855

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=95.21  E-value=0.0069  Score=50.92  Aligned_cols=24  Identities=29%  Similarity=0.397  Sum_probs=21.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|+|..|+|||||++.+..-.
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~   26 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPIL   26 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            589999999999999999998754

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=95.20  E-value=0.013  Score=51.04  Aligned_cols=23  Identities=26%  Similarity=0.219  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      ..+|+|.|+.|+||||+++.+..
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            46899999999999999999975

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=95.20  E-value=0.014  Score=49.16  Aligned_cols=25  Identities=24%  Similarity=0.347  Sum_probs=22.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..+|+|.|+.|+||||+++.+....
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~~l   29 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEEYL   29 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999998743

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=95.20  E-value=0.011  Score=51.82  Aligned_cols=25  Identities=24%  Similarity=0.224  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...|.|.|++|+||||+|+.+....
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La~~l   31 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRITTHF   31 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc
Confidence            4689999999999999999999744

>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=95.19  E-value=0.012  Score=51.18  Aligned_cols=23  Identities=30%  Similarity=0.293  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .|+|.|++|+||||+|+.+....
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48899999999999999998744

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=95.18  E-value=0.013  Score=54.17  Aligned_cols=26  Identities=23%  Similarity=0.411  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|+|+|++|+|||||+..+..-.
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagll  126 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRYY  126 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            45799999999999999999998755

>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=95.16  E-value=0.08  Score=49.63  Aligned_cols=58  Identities=17%  Similarity=0.240  Sum_probs=41.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCC----CCCEEEEEEeCCCCCHHHHHHHHHHHhCC
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPN----YFDVVIWAVASKVVEIEKIQESIAKKIGF  215 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~----~F~~~~wv~vs~~~~~~~l~~~i~~~l~~  215 (405)
                      .-.++.|.|.+|+||||||..+.... ....    .-..++|++....++...+.. ++..++.
T Consensus       121 ~G~i~~I~G~~GsGKTtla~~la~~~-~~~~~~gg~~~~vlyi~~E~~~~~~~l~~-~~~~~g~  182 (343)
T 1v5w_A          121 SMAITEAFGEFRTGKTQLSHTLCVTA-QLPGAGGYPGGKIIFIDTENTFRPDRLRD-IADRFNV  182 (343)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHHHT-TSCBTTTBCCCEEEEEESSSCCCHHHHHH-HHHHTTC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH-hcccccCCCCCeEEEEECCCCCCHHHHHH-HHHHcCC
Confidence            45799999999999999999988753 2111    124788999888777776554 3445543

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=95.11  E-value=0.011  Score=50.52  Aligned_cols=24  Identities=33%  Similarity=0.304  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|+|+.|+|||||.+.+....
T Consensus         2 ~~i~i~G~nG~GKTTll~~l~g~~   25 (189)
T 2i3b_A            2 RHVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCChHHHHHHHHHhhc
Confidence            378999999999999999988754

>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=95.08  E-value=0.087  Score=50.48  Aligned_cols=58  Identities=19%  Similarity=0.212  Sum_probs=38.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCC----CCCEEEEEEeCCCCCHHHHHHHHHHHhCC
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPN----YFDVVIWAVASKVVEIEKIQESIAKKIGF  215 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~----~F~~~~wv~vs~~~~~~~l~~~i~~~l~~  215 (405)
                      .-.++.|+|++|+|||||+..+.-.. ....    .-..++|++....+....+. .++..++.
T Consensus       177 ~Gei~~I~G~sGsGKTTLl~~la~~~-~~p~~~Gg~~~~viyid~E~~~~~~rl~-~~a~~~gl  238 (400)
T 3lda_A          177 TGSITELFGEFRTGKSQLCHTLAVTC-QIPLDIGGGEGKCLYIDTEGTFRPVRLV-SIAQRFGL  238 (400)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHT-TSCGGGTCCSSEEEEEESSSCCCHHHHH-HHHHHTTC
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHHh-ccCcccCCCCCcEEEEeCCCccCHHHHH-HHHHHcCC
Confidence            45699999999999999999775322 1111    23468899876666655543 35566654

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=95.08  E-value=0.014  Score=50.67  Aligned_cols=27  Identities=26%  Similarity=0.399  Sum_probs=23.4

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          155 EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       155 ~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ....+|.|.|+.|+||||+++.+....
T Consensus        23 ~~~~~i~~~G~~GsGKsT~~~~l~~~l   49 (211)
T 1m7g_A           23 QRGLTIWLTGLSASGKSTLAVELEHQL   49 (211)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            345799999999999999999998754

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=95.06  E-value=0.012  Score=51.39  Aligned_cols=25  Identities=28%  Similarity=0.263  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...|.|.|++|+||||+|+.+....
T Consensus         5 ~~~I~l~G~~GsGKsT~~~~La~~l   29 (222)
T 1zak_A            5 PLKVMISGAPASGKGTQCELIKTKY   29 (222)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4579999999999999999999865

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=95.04  E-value=0.014  Score=53.94  Aligned_cols=26  Identities=27%  Similarity=0.277  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|+|+|+.|+|||||++.+....
T Consensus        79 ~g~iigI~G~~GsGKSTl~~~L~~~l  104 (308)
T 1sq5_A           79 IPYIISIAGSVAVGKSTTARVLQALL  104 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            45799999999999999999998854

>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A* 1kyi_A* 1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E* 1hqy_E* 1ht1_E* 1ht2_E*

Probab=95.02  E-value=0.017  Score=55.98  Aligned_cols=46  Identities=20%  Similarity=0.118  Sum_probs=35.7

Q ss_pred             cccccchHHHHHHHHHhhc--------------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE--------------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~--------------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|-+..++.|...+..              ...+-|.++|++|+||||+|+.+....
T Consensus        15 ~~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~l   74 (444)
T 1g41_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA   74 (444)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHHc
Confidence            4578988888777665532              134568999999999999999999855

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=95.02  E-value=0.014  Score=50.17  Aligned_cols=23  Identities=17%  Similarity=0.343  Sum_probs=21.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +|+|.|+.|+||||+|+.+....
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~l   26 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAAL   26 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc
Confidence            89999999999999999998855

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=95.01  E-value=0.014  Score=53.33  Aligned_cols=24  Identities=25%  Similarity=0.515  Sum_probs=21.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      ...+|+|.|++|+||||+|+.+..
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            457899999999999999999984

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=95.00  E-value=0.0085  Score=52.80  Aligned_cols=23  Identities=26%  Similarity=0.131  Sum_probs=16.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHH-h
Q 043778          157 VGIIGLYGMGSVGKTTLLILIN-N  179 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~-~  179 (405)
                      ..+++|+|+.|+|||||++.+. .
T Consensus        27 G~ii~l~Gp~GsGKSTl~~~L~~~   50 (231)
T 3lnc_A           27 GVILVLSSPSGCGKTTVANKLLEK   50 (231)
T ss_dssp             CCEEEEECSCC----CHHHHHHC-
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhc
Confidence            4689999999999999999998 6

>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=94.99  E-value=0.013  Score=52.00  Aligned_cols=36  Identities=17%  Similarity=0.204  Sum_probs=27.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAV  195 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~  195 (405)
                      .-.+++|+|+.|+|||||.+.+..-.    ....+.+++.
T Consensus        30 ~Ge~~~iiG~nGsGKSTLl~~l~Gl~----~p~~G~I~~~   65 (235)
T 3tif_A           30 EGEFVSIMGPSGSGKSTMLNIIGCLD----KPTEGEVYID   65 (235)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS----CCSEEEEEET
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCC----CCCceEEEEC
Confidence            34699999999999999999998733    2345666663

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=94.97  E-value=0.08  Score=48.98  Aligned_cols=53  Identities=13%  Similarity=0.149  Sum_probs=39.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHHHHHHHh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKI  213 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i~~~l  213 (405)
                      .-.++.|.|.+|+||||||..+..+. ..+.  ..++|++.-  .+..++...++...
T Consensus        67 ~G~l~li~G~pG~GKTtl~l~ia~~~-a~~g--~~vl~~slE--~s~~~l~~R~~~~~  119 (315)
T 3bh0_A           67 RRNFVLIAARPSMGKTAFALKQAKNM-SDND--DVVNLHSLE--MGKKENIKRLIVTA  119 (315)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHHHH-HTTT--CEEEEEESS--SCHHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHH-HHcC--CeEEEEECC--CCHHHHHHHHHHHH
Confidence            44689999999999999999988654 2222  577887654  56777777777654

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=94.95  E-value=0.013  Score=52.58  Aligned_cols=25  Identities=28%  Similarity=0.263  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..+|+|+|++|+||||+++.+....
T Consensus        48 g~~i~l~G~~GsGKSTl~~~La~~l   72 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIMARSL   72 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhc
Confidence            4589999999999999999999855

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=94.92  E-value=0.013  Score=51.60  Aligned_cols=35  Identities=17%  Similarity=0.238  Sum_probs=27.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||.+.+..-.    ....+.+++
T Consensus        29 ~Ge~~~iiG~nGsGKSTLl~~l~Gl~----~p~~G~i~~   63 (224)
T 2pcj_A           29 KGEFVSIIGASGSGKSTLLYILGLLD----APTEGKVFL   63 (224)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC----CCCceEEEE
Confidence            34689999999999999999998733    234566665

>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=94.91  E-value=0.085  Score=48.86  Aligned_cols=58  Identities=16%  Similarity=0.224  Sum_probs=41.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCC---------CC-----CEEEEEEeCCCCCHHHHHHHHHHHhCC
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPN---------YF-----DVVIWAVASKVVEIEKIQESIAKKIGF  215 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~---------~F-----~~~~wv~vs~~~~~~~l~~~i~~~l~~  215 (405)
                      .-.++.|.|.+|+|||+||..+.... ....         ..     ..++|++....++...+... +..++.
T Consensus        97 ~g~i~~i~G~~gsGKT~la~~la~~~-~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~~~~~~l~~~-~~~~g~  168 (322)
T 2i1q_A           97 SQSVTEFAGVFGSGKTQIMHQSCVNL-QNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQM-AEHAGI  168 (322)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHT-TCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHHHHHH-HHHHTC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH-hccccccccccccccCCCCCceEEEEECCCCCCHHHHHHH-HHHcCC
Confidence            45799999999999999999988643 1110         11     47889998888877776643 455554

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=94.90  E-value=0.019  Score=58.34  Aligned_cols=44  Identities=16%  Similarity=0.192  Sum_probs=36.3

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|.+..++.+...+..+  ..+.|+|++|+||||||+.+....
T Consensus        41 ~~i~G~~~~l~~l~~~i~~g--~~vll~Gp~GtGKTtlar~ia~~l   84 (604)
T 3k1j_A           41 DQVIGQEHAVEVIKTAANQK--RHVLLIGEPGTGKSMLGQAMAELL   84 (604)
T ss_dssp             HHCCSCHHHHHHHHHHHHTT--CCEEEECCTTSSHHHHHHHHHHTS
T ss_pred             ceEECchhhHhhccccccCC--CEEEEEeCCCCCHHHHHHHHhccC
Confidence            45789888887777766654  588999999999999999999854

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=94.87  E-value=0.015  Score=51.72  Aligned_cols=34  Identities=21%  Similarity=0.128  Sum_probs=27.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      . .+++|+|+.|+|||||.+.+..-.    ....+.+++
T Consensus        24 ~-e~~~liG~nGsGKSTLl~~l~Gl~----~p~~G~i~~   57 (240)
T 2onk_A           24 R-DYCVLLGPTGAGKSVFLELIAGIV----KPDRGEVRL   57 (240)
T ss_dssp             S-SEEEEECCTTSSHHHHHHHHHTSS----CCSEEEEEE
T ss_pred             C-EEEEEECCCCCCHHHHHHHHhCCC----CCCceEEEE
Confidence            5 799999999999999999999743    233466665

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=94.87  E-value=0.028  Score=48.43  Aligned_cols=38  Identities=13%  Similarity=0.135  Sum_probs=27.8

Q ss_pred             HHHHHHHHhhc-CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          144 IFDKLWRCLTE-EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       144 ~~~~l~~~L~~-~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      -+..+..++.+ +.-..+.|+|++|+||||+|..+.+..
T Consensus        44 f~~~l~~~~~~iPkkn~ili~GPPGtGKTt~a~ala~~l   82 (212)
T 1tue_A           44 FLGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFI   82 (212)
T ss_dssp             HHHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHh
Confidence            34555555543 233479999999999999999988855

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=94.82  E-value=0.018  Score=53.13  Aligned_cols=26  Identities=27%  Similarity=0.382  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+++|+|+.|+||||++..+....
T Consensus        99 ~g~vi~lvG~nGsGKTTll~~Lag~l  124 (302)
T 3b9q_A           99 KPAVIMIVGVNGGGKTTSLGKLAHRL  124 (302)
T ss_dssp             SCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            35699999999999999999998755

>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=94.82  E-value=0.017  Score=51.02  Aligned_cols=25  Identities=12%  Similarity=0.208  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..+|+|.|++|+||||+|+.+....
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~~l   33 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLARAL   33 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999999999999998754

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=94.82  E-value=0.014  Score=51.76  Aligned_cols=25  Identities=20%  Similarity=0.364  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .-.+++|+|+.|+|||||.+.+..-
T Consensus        30 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   54 (237)
T 2cbz_A           30 EGALVAVVGQVGCGKSSLLSALLAE   54 (237)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3469999999999999999999873

>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=94.80  E-value=0.019  Score=48.40  Aligned_cols=25  Identities=24%  Similarity=0.361  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..+++|+|..|+|||||+..+....
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~~l   30 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIPAL   30 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhc
Confidence            5689999999999999999998754

>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=94.76  E-value=0.018  Score=49.98  Aligned_cols=23  Identities=22%  Similarity=0.203  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +|.|.|++|+||+|.|+.+....
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~   24 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEK   24 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68899999999999999999865

>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=94.75  E-value=0.018  Score=52.95  Aligned_cols=26  Identities=31%  Similarity=0.318  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|+++|.+|+||||++..+....
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~~l  129 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAAIS  129 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            45799999999999999999988654

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=94.73  E-value=0.018  Score=53.76  Aligned_cols=24  Identities=38%  Similarity=0.450  Sum_probs=21.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+|+|.|+.|+||||||..+....
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l   31 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKF   31 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHc
Confidence            589999999999999999998854

>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=94.72  E-value=0.039  Score=52.09  Aligned_cols=37  Identities=22%  Similarity=0.310  Sum_probs=28.2

Q ss_pred             HHHHHHHhh--cCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          145 FDKLWRCLT--EEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       145 ~~~l~~~L~--~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+.+.+.  .++..+|+|+|.+|+|||||+..+....
T Consensus        65 ~~~~~~~~~~~~~~~~~I~i~G~~G~GKSTl~~~L~~~l  103 (355)
T 3p32_A           65 AQQLLLRLLPDSGNAHRVGITGVPGVGKSTAIEALGMHL  103 (355)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHhHhhcCCceEEEEECCCCCCHHHHHHHHHHHH
Confidence            445555554  3467899999999999999999987643

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=94.69  E-value=0.017  Score=52.56  Aligned_cols=35  Identities=23%  Similarity=0.208  Sum_probs=27.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||.+.+..-.    ....+.+++
T Consensus        33 ~Ge~~~iiGpnGsGKSTLl~~l~Gl~----~p~~G~I~~   67 (275)
T 3gfo_A           33 RGEVTAILGGNGVGKSTLFQNFNGIL----KPSSGRILF   67 (275)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcCC----CCCCeEEEE
Confidence            34699999999999999999998733    334566665

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=94.68  E-value=0.016  Score=52.31  Aligned_cols=35  Identities=26%  Similarity=0.216  Sum_probs=27.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||.+.+..-.    ....+.+++
T Consensus        31 ~Ge~~~liG~nGsGKSTLlk~l~Gl~----~p~~G~i~~   65 (262)
T 1b0u_A           31 AGDVISIIGSSGSGKSTFLRCINFLE----KPSEGAIIV   65 (262)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC----CCCCcEEEE
Confidence            44699999999999999999998733    233566666

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=94.68  E-value=0.013  Score=50.86  Aligned_cols=24  Identities=25%  Similarity=0.137  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      -.+++|+|+.|+|||||.+.+..-
T Consensus        22 Ge~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           22 NTIVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             CSEEEEECCTTSSTTHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            358999999999999999999763

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=94.65  E-value=0.018  Score=51.47  Aligned_cols=24  Identities=25%  Similarity=0.344  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      .-.+++|+|+.|+|||||.+.+..
T Consensus        28 ~Ge~~~l~G~nGsGKSTLlk~l~G   51 (250)
T 2d2e_A           28 KGEVHALMGPNGAGKSTLGKILAG   51 (250)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            346999999999999999999997

>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=94.65  E-value=0.019  Score=49.81  Aligned_cols=23  Identities=35%  Similarity=0.349  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .|.|.|++|+||||+|+.+....
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEKY   24 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48899999999999999998854

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=94.64  E-value=0.035  Score=54.86  Aligned_cols=46  Identities=22%  Similarity=0.177  Sum_probs=33.4

Q ss_pred             cccccchHHHHHHHHHh---hcC---------CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCL---TEE---------QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L---~~~---------~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|.+..+.++.+..   ...         -.+-+.|+|++|+||||||+.+.+..
T Consensus        31 ~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~   88 (499)
T 2dhr_A           31 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA   88 (499)
T ss_dssp             TSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHT
T ss_pred             HHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            56789887766655543   221         12348999999999999999999854

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=94.64  E-value=0.017  Score=51.40  Aligned_cols=35  Identities=29%  Similarity=0.200  Sum_probs=27.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||.+.+..-.    ....+.+++
T Consensus        31 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~----~p~~G~i~~   65 (240)
T 1ji0_A           31 RGQIVTLIGANGAGKTTTLSAIAGLV----RAQKGKIIF   65 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC----CCCCceEEE
Confidence            34699999999999999999998733    233566666

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=94.64  E-value=0.019  Score=50.23  Aligned_cols=23  Identities=30%  Similarity=0.429  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .|.|.|++|+||||+|+.+....
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~l   24 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDKY   24 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999998754

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=94.63  E-value=0.033  Score=51.43  Aligned_cols=38  Identities=21%  Similarity=0.342  Sum_probs=28.5

Q ss_pred             HHHHHHHHhhcC---CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          144 IFDKLWRCLTEE---QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       144 ~~~~l~~~L~~~---~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..+.+.+++...   ....+.|+|++|+|||+||..+++..
T Consensus       136 ~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~~~  176 (308)
T 2qgz_A          136 AFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHEL  176 (308)
T ss_dssp             HHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            444455555542   24678899999999999999999865

>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=94.62  E-value=0.034  Score=54.56  Aligned_cols=42  Identities=21%  Similarity=0.276  Sum_probs=29.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCC
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVE  201 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~  201 (405)
                      ...+|+|+|..|+|||||++.+.... ..   -.+.+++.-.+.+.
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAgll-~~---~~G~V~l~g~D~~r  333 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLARQF-EQ---QGKSVMLAAGDTFR  333 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHHHH-HH---TTCCEEEECCCTTC
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHHh-hh---cCCeEEEecCcccc
Confidence            45799999999999999999998754 21   13445554344444

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=94.61  E-value=0.018  Score=51.28  Aligned_cols=26  Identities=27%  Similarity=0.445  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.+++|+|+.|+|||||.+.+..-.
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            44699999999999999999998743

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=94.60  E-value=0.018  Score=52.05  Aligned_cols=35  Identities=20%  Similarity=0.226  Sum_probs=27.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||.+.+..-.    ....+.+++
T Consensus        36 ~Ge~~~liG~nGsGKSTLl~~l~Gl~----~p~~G~I~~   70 (266)
T 4g1u_C           36 SGEMVAIIGPNGAGKSTLLRLLTGYL----SPSHGECHL   70 (266)
T ss_dssp             TTCEEEEECCTTSCHHHHHHHHTSSS----CCSSCEEEE
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCC----CCCCcEEEE
Confidence            44699999999999999999998743    233566665

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=94.59  E-value=0.017  Score=50.89  Aligned_cols=26  Identities=27%  Similarity=0.514  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.+++|+|+.|+|||||.+.+..-.
T Consensus        33 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           33 RGQLLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34699999999999999999998743

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=94.59  E-value=0.017  Score=51.88  Aligned_cols=35  Identities=17%  Similarity=0.212  Sum_probs=27.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||.+.+..-.    ....+.+++
T Consensus        32 ~Ge~~~liG~nGsGKSTLlk~l~Gl~----~p~~G~i~~   66 (257)
T 1g6h_A           32 KGDVTLIIGPNGSGKSTLINVITGFL----KADEGRVYF   66 (257)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC----CCCCcEEEE
Confidence            34699999999999999999998733    233566665

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=94.59  E-value=0.019  Score=52.85  Aligned_cols=25  Identities=16%  Similarity=0.180  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .-.+++|+|+.|+|||||++.+..-
T Consensus       125 ~Ge~vaIvGpsGsGKSTLl~lL~gl  149 (305)
T 2v9p_A          125 KKNCLAFIGPPNTGKSMLCNSLIHF  149 (305)
T ss_dssp             TCSEEEEECSSSSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhhh
Confidence            4579999999999999999999874

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=94.59  E-value=0.015  Score=50.69  Aligned_cols=35  Identities=26%  Similarity=0.314  Sum_probs=26.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||.+.+..-.    ....+.+++
T Consensus        34 ~Ge~~~iiG~NGsGKSTLlk~l~Gl~----~p~~G~I~~   68 (214)
T 1sgw_A           34 KGNVVNFHGPNGIGKTTLLKTISTYL----KPLKGEIIY   68 (214)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC----CCCCeEEEE
Confidence            34589999999999999999998743    223456655

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=94.57  E-value=0.021  Score=49.81  Aligned_cols=24  Identities=25%  Similarity=0.285  Sum_probs=21.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..|.|.|++|+||||+|+.+....
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~~l   29 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKKEY   29 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            468999999999999999998855

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=94.56  E-value=0.018  Score=51.46  Aligned_cols=35  Identities=29%  Similarity=0.317  Sum_probs=27.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||.+.+..-.    ....+.+++
T Consensus        34 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~----~p~~G~I~i   68 (247)
T 2ff7_A           34 QGEVIGIVGRSGSGKSTLTKLIQRFY----IPENGQVLI   68 (247)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC----CCCCcEEEE
Confidence            34699999999999999999998743    233566666

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=94.54  E-value=0.018  Score=51.97  Aligned_cols=35  Identities=20%  Similarity=0.200  Sum_probs=27.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||.+.+..-.    ....+.+++
T Consensus        49 ~Gei~~liG~NGsGKSTLlk~l~Gl~----~p~~G~I~~   83 (263)
T 2olj_A           49 EGEVVVVIGPSGSGKSTFLRCLNLLE----DFDEGEIII   83 (263)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CCCEEEEEcCCCCcHHHHHHHHHcCC----CCCCcEEEE
Confidence            44699999999999999999998733    233566666

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=94.54  E-value=0.02  Score=51.79  Aligned_cols=24  Identities=21%  Similarity=0.282  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      .-.+++|+|+.|+|||||.+.+..
T Consensus        45 ~Ge~~~l~G~NGsGKSTLlk~l~G   68 (267)
T 2zu0_C           45 PGEVHAIMGPNGSGKSTLSATLAG   68 (267)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            446999999999999999999997

>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=94.52  E-value=0.022  Score=52.16  Aligned_cols=23  Identities=30%  Similarity=0.173  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .+|.|.|++|+||||+|+.+...
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            57999999999999999999873

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=94.51  E-value=0.024  Score=52.95  Aligned_cols=27  Identities=30%  Similarity=0.372  Sum_probs=23.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          155 EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       155 ~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +...+++|+|+.|+||||++..+....
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag~l  153 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLANWL  153 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            356899999999999999999988755

>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=94.50  E-value=0.028  Score=56.35  Aligned_cols=46  Identities=28%  Similarity=0.312  Sum_probs=34.5

Q ss_pred             cccccchHHHHHHHHHhhc------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|.+.....+.+.+.-      ....++.++|++|+||||||+.+.+..
T Consensus        81 ~di~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~~l  132 (543)
T 3m6a_A           81 EEHHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKSL  132 (543)
T ss_dssp             HHCSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHHhc
Confidence            4578887777666554321      145689999999999999999998754

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=94.46  E-value=0.024  Score=51.13  Aligned_cols=26  Identities=23%  Similarity=0.349  Sum_probs=22.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          155 EQVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       155 ~~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ..-.+++|+|+.|+|||||.+.+..-
T Consensus        23 ~~g~~v~i~Gp~GsGKSTll~~l~g~   48 (261)
T 2eyu_A           23 RKMGLILVTGPTGSGKSTTIASMIDY   48 (261)
T ss_dssp             CSSEEEEEECSTTCSHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCccHHHHHHHHHHh
Confidence            34569999999999999999998764

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=94.45  E-value=0.019  Score=51.52  Aligned_cols=35  Identities=29%  Similarity=0.332  Sum_probs=27.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||.+.+..-.    ....+.+++
T Consensus        40 ~Gei~~l~G~NGsGKSTLlk~l~Gl~----~p~~G~I~~   74 (256)
T 1vpl_A           40 EGEIFGLIGPNGAGKTTTLRIISTLI----KPSSGIVTV   74 (256)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC----CCCceEEEE
Confidence            44699999999999999999998733    233566666

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=94.44  E-value=0.02  Score=51.61  Aligned_cols=34  Identities=21%  Similarity=0.151  Sum_probs=27.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||.+.+..-.   . . .+.+++
T Consensus        45 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~---~-~-~G~I~i   78 (260)
T 2ghi_A           45 SGTTCALVGHTGSGKSTIAKLLYRFY---D-A-EGDIKI   78 (260)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS---C-C-EEEEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccC---C-C-CeEEEE
Confidence            34699999999999999999999843   2 2 566665

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=94.44  E-value=0.092  Score=49.38  Aligned_cols=56  Identities=25%  Similarity=0.298  Sum_probs=36.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCC----CEEEEEEeCCCCCHHHHHHHHHHHh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYF----DVVIWAVASKVVEIEKIQESIAKKI  213 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F----~~~~wv~vs~~~~~~~l~~~i~~~l  213 (405)
                      .-.++.|+|++|+|||||+..+.... ......    ..++|++....+....+ ..+++.+
T Consensus       130 ~G~i~~I~G~~GsGKTTL~~~l~~~~-~~~~~~Gg~~G~vi~i~~e~~~~~~~i-~~i~q~~  189 (349)
T 1pzn_A          130 TQAITEVFGEFGSGKTQLAHTLAVMV-QLPPEEGGLNGSVIWIDTENTFRPERI-REIAQNR  189 (349)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHT-TSCGGGTSCSCEEEEEESSSCCCHHHH-HHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh-ccchhcCCCCCeEEEEeCCCCCCHHHH-HHHHHHc
Confidence            45799999999999999999998754 111111    24488886655544333 3344443

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=94.44  E-value=0.02  Score=51.97  Aligned_cols=35  Identities=20%  Similarity=0.239  Sum_probs=27.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||.+.+..-.    ....+.+++
T Consensus        44 ~Ge~~~i~G~nGsGKSTLlk~l~Gl~----~p~~G~I~~   78 (271)
T 2ixe_A           44 PGKVTALVGPNGSGKSTVAALLQNLY----QPTGGKVLL   78 (271)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC----CCCCCEEEE
Confidence            44699999999999999999998743    233566665

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=94.42  E-value=0.026  Score=52.16  Aligned_cols=26  Identities=27%  Similarity=0.253  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|+|+|++|+||||++..+....
T Consensus       103 ~~~vi~ivG~~GsGKTTl~~~LA~~l  128 (306)
T 1vma_A          103 PPFVIMVVGVNGTGKTTSCGKLAKMF  128 (306)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHHHH
Confidence            45799999999999999999988755

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=94.42  E-value=0.023  Score=49.60  Aligned_cols=48  Identities=23%  Similarity=0.129  Sum_probs=30.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHHH
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQES  208 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~  208 (405)
                      .-.+++|+|++|+|||||+..+.... .  ..=..++|+....  ....+...
T Consensus        22 ~G~~~~i~G~~GsGKTtl~~~l~~~~-~--~~~~~v~~~~~~~--~~~~~~~~   69 (235)
T 2w0m_A           22 QGFFIALTGEPGTGKTIFSLHFIAKG-L--RDGDPCIYVTTEE--SRDSIIRQ   69 (235)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHHHH-H--HHTCCEEEEESSS--CHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHH-H--HCCCeEEEEEccc--CHHHHHHH
Confidence            34689999999999999999998643 1  1112456665432  34444443

>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=94.41  E-value=0.026  Score=49.77  Aligned_cols=25  Identities=24%  Similarity=0.119  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...|.|.|++|+||||+|+.+....
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~~l   40 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAKNF   40 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3579999999999999999999855

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=94.41  E-value=0.025  Score=53.37  Aligned_cols=26  Identities=27%  Similarity=0.382  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|+|+|+.|+|||||+..+....
T Consensus       156 ~g~vi~lvG~nGsGKTTll~~Lag~l  181 (359)
T 2og2_A          156 KPAVIMIVGVNGGGKTTSLGKLAHRL  181 (359)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHhhc
Confidence            35799999999999999999998755

>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=94.37  E-value=0.025  Score=48.06  Aligned_cols=25  Identities=28%  Similarity=0.267  Sum_probs=21.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.|+|+|.+|+|||||.+.+....
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            4579999999999999999998743

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=94.37  E-value=0.026  Score=52.40  Aligned_cols=24  Identities=29%  Similarity=0.379  Sum_probs=21.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+|.|+|+.|+||||||..+....
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~l   29 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADAL   29 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            589999999999999999999854

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=94.36  E-value=0.021  Score=51.06  Aligned_cols=34  Identities=26%  Similarity=0.189  Sum_probs=26.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||.+.+..-.   .- . +.+++
T Consensus        25 ~Ge~~~liG~NGsGKSTLlk~l~Gl~---~p-~-G~i~~   58 (249)
T 2qi9_C           25 AGEILHLVGPNGAGKSTLLARMAGMT---SG-K-GSIQF   58 (249)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS---CC-E-EEEEE
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC---CC-C-eEEEE
Confidence            34589999999999999999999743   22 2 66655

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=94.33  E-value=0.021  Score=51.56  Aligned_cols=35  Identities=17%  Similarity=0.117  Sum_probs=27.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||.+.+..-.    ....+.+++
T Consensus        32 ~Ge~~~liG~nGsGKSTLl~~i~Gl~----~p~~G~I~~   66 (266)
T 2yz2_A           32 EGECLLVAGNTGSGKSTLLQIVAGLI----EPTSGDVLY   66 (266)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC----CCCCcEEEE
Confidence            34699999999999999999998733    233566665

>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=94.31  E-value=0.029  Score=51.71  Aligned_cols=24  Identities=21%  Similarity=0.468  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ..+|.|+|+.|+||||||..+...
T Consensus         3 ~~~i~i~GptgsGKt~la~~La~~   26 (322)
T 3exa_A            3 EKLVAIVGPTAVGKTKTSVMLAKR   26 (322)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHT
T ss_pred             CcEEEEECCCcCCHHHHHHHHHHh
Confidence            358999999999999999999873

>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=94.29  E-value=0.042  Score=57.31  Aligned_cols=46  Identities=22%  Similarity=0.187  Sum_probs=34.9

Q ss_pred             cccccchHHHHHHHHHhh----cC---------CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLT----EE---------QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~----~~---------~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +++.|.+..+++|.+.+.    .+         .++-|.++|++|+|||+||+.+.+..
T Consensus       204 ~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~el  262 (806)
T 3cf2_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET  262 (806)
T ss_dssp             GGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTT
T ss_pred             hhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHh
Confidence            456777777776666542    21         35679999999999999999999854

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=94.29  E-value=0.022  Score=51.06  Aligned_cols=26  Identities=31%  Similarity=0.434  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.+++|+|+.|+|||||.+.+..-.
T Consensus        30 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           30 KGDILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             TTCEEEEECCSSSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34589999999999999999998743

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=94.26  E-value=0.022  Score=51.82  Aligned_cols=36  Identities=28%  Similarity=0.237  Sum_probs=27.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAV  195 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~  195 (405)
                      .-.+++|+|+.|+|||||.+.+..-.    ....+.+++.
T Consensus        46 ~Ge~~~liG~NGsGKSTLlk~l~Gl~----~p~~G~I~~~   81 (279)
T 2ihy_A           46 KGDKWILYGLNGAGKTTLLNILNAYE----PATSGTVNLF   81 (279)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS----CCSEEEEEET
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC----CCCCeEEEEC
Confidence            44689999999999999999998743    2234666653

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=94.22  E-value=0.03  Score=52.14  Aligned_cols=26  Identities=27%  Similarity=0.419  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|.|+|+.|+||||||..+....
T Consensus        39 ~~~lIvI~GPTgsGKTtLa~~LA~~l   64 (339)
T 3a8t_A           39 KEKLLVLMGATGTGKSRLSIDLAAHF   64 (339)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHTTS
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHC
Confidence            34689999999999999999999743

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=94.20  E-value=0.027  Score=51.02  Aligned_cols=23  Identities=26%  Similarity=0.293  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .++|+|+.|+|||||.+.++...
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g~~   26 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFKSQ   26 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999998744

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=94.19  E-value=0.05  Score=51.72  Aligned_cols=26  Identities=23%  Similarity=0.059  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+++|+|++|+|||||++.+....
T Consensus       168 ~~~~i~l~G~~GsGKSTl~~~l~~~~  193 (377)
T 1svm_A          168 KKRYWLFKGPIDSGKTTLAAALLELC  193 (377)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            55699999999999999999999744

>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=94.18  E-value=0.031  Score=49.96  Aligned_cols=26  Identities=27%  Similarity=0.229  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...++.+.|.||+|||||+..+....
T Consensus        13 ~~~i~~~~GkgGvGKTTl~~~La~~l   38 (262)
T 1yrb_A           13 ASMIVVFVGTAGSGKTTLTGEFGRYL   38 (262)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHH
Confidence            45789999999999999999998765

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=94.18  E-value=0.013  Score=53.68  Aligned_cols=26  Identities=23%  Similarity=0.360  Sum_probs=19.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +..+|+|.|+.|+||||+|+.+....
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~~~l   29 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFDQIF   29 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHH
Confidence            45689999999999999999998743

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=94.16  E-value=0.027  Score=48.03  Aligned_cols=23  Identities=30%  Similarity=0.320  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      -.|+|+|.+|+|||||...+...
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            46899999999999999999874

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=94.13  E-value=0.023  Score=50.07  Aligned_cols=24  Identities=29%  Similarity=0.141  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      ...+|+|.|+.|+|||||++.+..
T Consensus        19 ~g~~i~i~G~~GsGKSTl~~~L~~   42 (230)
T 2vp4_A           19 QPFTVLIEGNIGSGKTTYLNHFEK   42 (230)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHh
Confidence            457999999999999999999987

>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=94.10  E-value=0.061  Score=52.62  Aligned_cols=38  Identities=21%  Similarity=0.377  Sum_probs=28.0

Q ss_pred             HHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          143 SIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       143 ~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..+..+...+..+. ..+.|.|.+|+||||++..+....
T Consensus        32 ~av~~~~~~i~~~~-~~~li~G~aGTGKT~ll~~~~~~l   69 (459)
T 3upu_A           32 NAFNIVMKAIKEKK-HHVTINGPAGTGATTLTKFIIEAL   69 (459)
T ss_dssp             HHHHHHHHHHHSSS-CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCC-CEEEEEeCCCCCHHHHHHHHHHHH
Confidence            34445555555433 389999999999999999988755

>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=94.06  E-value=0.028  Score=51.03  Aligned_cols=26  Identities=19%  Similarity=0.282  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.++.|+|++|+|||||+..+....
T Consensus        29 ~G~i~~i~G~~GsGKTtl~~~l~~~~   54 (279)
T 1nlf_A           29 AGTVGALVSPGGAGKSMLALQLAAQI   54 (279)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            34699999999999999999988644

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=94.06  E-value=0.033  Score=49.13  Aligned_cols=26  Identities=31%  Similarity=0.419  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|+|.|+.|+||||+++.+....
T Consensus        15 ~~~~i~i~G~~gsGKst~~~~l~~~l   40 (236)
T 1q3t_A           15 KTIQIAIDGPASSGKSTVAKIIAKDF   40 (236)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            45689999999999999999998754

>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=94.06  E-value=0.029  Score=54.17  Aligned_cols=26  Identities=15%  Similarity=0.132  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|.|+|++|+||||+|+.+....
T Consensus       257 ~~~lIil~G~pGSGKSTla~~L~~~~  282 (416)
T 3zvl_A          257 NPEVVVAVGFPGAGKSTFIQEHLVSA  282 (416)
T ss_dssp             SCCEEEEESCTTSSHHHHHHHHTGGG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhc
Confidence            56899999999999999999998743

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=94.04  E-value=0.024  Score=47.70  Aligned_cols=21  Identities=33%  Similarity=0.355  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q 043778          159 IIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      -|+|+|.+|+|||||...+.+
T Consensus         4 kv~ivG~~gvGKStLl~~l~~   24 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMK   24 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            488999999999999999886

>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=94.04  E-value=0.033  Score=51.52  Aligned_cols=24  Identities=29%  Similarity=0.512  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .+++.|+|++|+|||+||.++...
T Consensus       123 gsviLI~GpPGsGKTtLAlqlA~~  146 (331)
T 2vhj_A          123 SGMVIVTGKGNSGKTPLVHALGEA  146 (331)
T ss_dssp             SEEEEEECSCSSSHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHh
Confidence            457789999999999999999874

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=94.03  E-value=0.067  Score=50.31  Aligned_cols=45  Identities=22%  Similarity=0.258  Sum_probs=33.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHH
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIE  203 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~  203 (405)
                      .-.++.|.|.+|+||||||.++.... .  ..=..++|++....++..
T Consensus        60 ~G~iv~I~G~pGsGKTtLal~la~~~-~--~~g~~vlyi~~E~~~~~~  104 (349)
T 2zr9_A           60 RGRVIEIYGPESSGKTTVALHAVANA-Q--AAGGIAAFIDAEHALDPE  104 (349)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHH-H--HTTCCEEEEESSCCCCHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH-H--hCCCeEEEEECCCCcCHH
Confidence            45699999999999999999988644 1  111357899887766653

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=94.00  E-value=0.035  Score=51.59  Aligned_cols=26  Identities=35%  Similarity=0.512  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|+|+|.+|+||||++..+....
T Consensus       104 ~~~vI~ivG~~G~GKTT~~~~LA~~l  129 (320)
T 1zu4_A          104 RLNIFMLVGVNGTGKTTSLAKMANYY  129 (320)
T ss_dssp             SCEEEEEESSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            46799999999999999999988755

>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=93.97  E-value=0.032  Score=45.99  Aligned_cols=23  Identities=30%  Similarity=0.403  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ..|+|+|.+|+|||||...+.+.
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            46899999999999999999863

>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=93.97  E-value=0.035  Score=51.02  Aligned_cols=26  Identities=31%  Similarity=0.273  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|.|.|+.|+||||||..+....
T Consensus         9 ~~~~i~i~GptgsGKt~la~~La~~~   34 (316)
T 3foz_A            9 LPKAIFLMGPTASGKTALAIELRKIL   34 (316)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCccCHHHHHHHHHHhC
Confidence            35689999999999999999998743

>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=93.97  E-value=0.19  Score=47.51  Aligned_cols=45  Identities=24%  Similarity=0.220  Sum_probs=34.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHH
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIE  203 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~  203 (405)
                      .-.++.|.|.+|+||||||..+.... .  ..=..++|++....++..
T Consensus        73 ~G~li~I~G~pGsGKTtlal~la~~~-~--~~g~~vlyi~~E~s~~~~  117 (366)
T 1xp8_A           73 RGRITEIYGPESGGKTTLALAIVAQA-Q--KAGGTCAFIDAEHALDPV  117 (366)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHH-H--HTTCCEEEEESSCCCCHH
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHHH-H--HCCCeEEEEECCCChhHH
Confidence            45689999999999999999987654 1  112368899988776654

>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=93.94  E-value=0.031  Score=51.18  Aligned_cols=53  Identities=15%  Similarity=0.120  Sum_probs=35.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCC-EEEEEEeCCCCCHHHHHHHHHHHh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFD-VVIWAVASKVVEIEKIQESIAKKI  213 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~-~~~wv~vs~~~~~~~l~~~i~~~l  213 (405)
                      .-.+++|+|.+|+|||||+..+.... ...  -. .++|+...  .+...+...+....
T Consensus        34 ~G~~~~i~G~~G~GKTTl~~~ia~~~-~~~--~G~~v~~~~~e--~~~~~~~~r~~~~~   87 (296)
T 1cr0_A           34 GGEVIMVTSGSGMGKSTFVRQQALQW-GTA--MGKKVGLAMLE--ESVEETAEDLIGLH   87 (296)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHHHH-HHT--SCCCEEEEESS--SCHHHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH-HHH--cCCeEEEEeCc--CCHHHHHHHHHHHH
Confidence            44699999999999999999988755 211  12 45666543  34555666655544

>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=93.93  E-value=0.057  Score=52.31  Aligned_cols=26  Identities=27%  Similarity=0.390  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+.+|.++|.+|+||||++..+....
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l  124 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYF  124 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHH
Confidence            46899999999999999998888755

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=93.92  E-value=0.038  Score=48.88  Aligned_cols=25  Identities=24%  Similarity=0.418  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...|+|.|..|+||||+++.+....
T Consensus         2 ~~~i~~~G~~g~GKtt~~~~l~~~l   26 (241)
T 2ocp_A            2 PRRLSIEGNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHC
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHc
Confidence            4689999999999999999999855

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=93.92  E-value=0.074  Score=50.14  Aligned_cols=45  Identities=22%  Similarity=0.206  Sum_probs=34.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHH
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIE  203 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~  203 (405)
                      .-.++.|.|.+|+||||||.++.... .  ..=..++|++....++..
T Consensus        62 ~G~ii~I~G~pGsGKTtLal~la~~~-~--~~g~~vlyid~E~s~~~~  106 (356)
T 1u94_A           62 MGRIVEIYGPESSGKTTLTLQVIAAA-Q--REGKTCAFIDAEHALDPI  106 (356)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHH-H--HTTCCEEEEESSCCCCHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH-H--HCCCeEEEEeCCCCccHH
Confidence            45699999999999999999988754 1  111368899987777654

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=93.91  E-value=0.029  Score=50.58  Aligned_cols=33  Identities=27%  Similarity=0.216  Sum_probs=25.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      -.+++|+|+.|+|||||.+.+..   - . ...+.+++
T Consensus        30 Ge~~~i~G~NGsGKSTLlk~l~G---l-~-p~~G~I~~   62 (263)
T 2pjz_A           30 GEKVIILGPNGSGKTTLLRAISG---L-L-PYSGNIFI   62 (263)
T ss_dssp             SSEEEEECCTTSSHHHHHHHHTT---S-S-CCEEEEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHhC---C-C-CCCcEEEE
Confidence            35899999999999999999986   2 2 34566655

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=93.90  E-value=0.021  Score=52.64  Aligned_cols=35  Identities=23%  Similarity=0.265  Sum_probs=27.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||++.+..-.    ....+.+++
T Consensus        79 ~Ge~vaivG~sGsGKSTLl~ll~gl~----~p~~G~I~i  113 (306)
T 3nh6_A           79 PGQTLALVGPSGAGKSTILRLLFRFY----DISSGCIRI  113 (306)
T ss_dssp             TTCEEEEESSSCHHHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CCCEEEEECCCCchHHHHHHHHHcCC----CCCCcEEEE
Confidence            45699999999999999999998743    233466655

>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=93.90  E-value=0.037  Score=48.77  Aligned_cols=26  Identities=23%  Similarity=0.333  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|.|.|++|+||||+++.+....
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~l   50 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHRL   50 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHH
Confidence            45689999999999999999999876

>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=93.89  E-value=0.14  Score=47.10  Aligned_cols=72  Identities=14%  Similarity=0.088  Sum_probs=44.1

Q ss_pred             chHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCC-CCCCEEEEEEeCC-CCCHHHHHHHHHHHhC
Q 043778          141 LESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKFLDEP-NYFDVVIWAVASK-VVEIEKIQESIAKKIG  214 (405)
Q Consensus       141 r~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~-~~F~~~~wv~vs~-~~~~~~l~~~i~~~l~  214 (405)
                      -+..++.|.+.+..+......++|++|+||||+|..+.+...... .+.+. .++..+. .....++ +.++..+.
T Consensus         2 ~~~~~~~L~~~i~~~~~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~-~~l~~~~~~~~id~i-r~li~~~~   75 (305)
T 2gno_A            2 AKDQLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDV-LEIDPEGENIGIDDI-RTIKDFLN   75 (305)
T ss_dssp             --CHHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTE-EEECCSSSCBCHHHH-HHHHHHHT
T ss_pred             hHHHHHHHHHHHHCCCCcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCE-EEEcCCcCCCCHHHH-HHHHHHHh
Confidence            345566777777766677999999999999999999987420111 23343 4454432 3444333 34555553

>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=93.84  E-value=0.067  Score=51.60  Aligned_cols=29  Identities=28%  Similarity=0.259  Sum_probs=24.2

Q ss_pred             hcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          153 TEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       153 ~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ....-.+++|+|+.|+|||||...+....
T Consensus       163 ~~~~ggii~I~GpnGSGKTTlL~allg~l  191 (418)
T 1p9r_A          163 IKRPHGIILVTGPTGSGKSTTLYAGLQEL  191 (418)
T ss_dssp             HTSSSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             HHhcCCeEEEECCCCCCHHHHHHHHHhhc
Confidence            33455699999999999999999998754

>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=93.80  E-value=0.04  Score=50.58  Aligned_cols=25  Identities=24%  Similarity=0.226  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..+|+|+|.+|+||||++..+....
T Consensus        98 ~~~i~i~g~~G~GKTT~~~~la~~~  122 (295)
T 1ls1_A           98 RNLWFLVGLQGSGKTTTAAKLALYY  122 (295)
T ss_dssp             SEEEEEECCTTTTHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4699999999999999999998755

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=93.74  E-value=0.057  Score=52.26  Aligned_cols=26  Identities=31%  Similarity=0.181  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|.++|++|+||||++..+....
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~l  121 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYFY  121 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            36899999999999999999888655

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=93.74  E-value=0.053  Score=47.71  Aligned_cols=49  Identities=14%  Similarity=0.113  Sum_probs=32.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHHHH
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESI  209 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i  209 (405)
                      .-.++.|.|.+|+||||||..+......   .=..++|++...  ...++...+
T Consensus        22 ~G~~~~i~G~~GsGKTtl~~~~~~~~~~---~~~~v~~~~~e~--~~~~~~~~~   70 (247)
T 2dr3_A           22 ERNVVLLSGGPGTGKTIFSQQFLWNGLK---MGEPGIYVALEE--HPVQVRQNM   70 (247)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHHHHH---TTCCEEEEESSS--CHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHh---cCCeEEEEEccC--CHHHHHHHH
Confidence            3468999999999999998887654311   113577776544  344444433

>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=93.71  E-value=0.038  Score=44.89  Aligned_cols=23  Identities=30%  Similarity=0.476  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      -|.++|.+|+|||||...+.+..
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            48899999999999999998743

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=93.68  E-value=0.033  Score=50.98  Aligned_cols=25  Identities=28%  Similarity=0.508  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .-.+++|+|+.|+|||||.+.+..-
T Consensus        63 ~Ge~~~i~G~NGsGKSTLlk~l~Gl   87 (290)
T 2bbs_A           63 RGQLLAVAGSTGAGKTSLLMMIMGE   87 (290)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcC
Confidence            4469999999999999999999874

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=93.68  E-value=0.039  Score=49.58  Aligned_cols=38  Identities=16%  Similarity=0.327  Sum_probs=27.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCC
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASK  198 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~  198 (405)
                      ++|+|.|.||+||||+|..+.... ....  ..++.|+...
T Consensus         2 ~vI~vs~KGGvGKTT~a~nLA~~l-a~~G--~~VlliD~D~   39 (269)
T 1cp2_A            2 RQVAIYGKGGIGKSTTTQNLTSGL-HAMG--KTIMVVGCDP   39 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHH-HTTT--CCEEEEEECT
T ss_pred             cEEEEecCCCCcHHHHHHHHHHHH-HHCC--CcEEEEcCCC
Confidence            578889999999999999988765 2222  2455666543

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=93.67  E-value=0.049  Score=56.90  Aligned_cols=46  Identities=17%  Similarity=0.293  Sum_probs=36.7

Q ss_pred             cccccchHHHHHHHHHhhcC---------CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEE---------QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~---------~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|.+..++.+...+...         ....+.++|++|+|||+||+.+.+..
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l  545 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESI  545 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            45789998888888777531         22369999999999999999999854

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=93.65  E-value=0.048  Score=44.24  Aligned_cols=23  Identities=26%  Similarity=0.338  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .-|+|+|.+|+|||||...+.+.
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~   24 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKK   24 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            45899999999999999999874

>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=93.65  E-value=0.04  Score=45.03  Aligned_cols=23  Identities=22%  Similarity=0.296  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      --|+|+|.+|+|||||...+.+.
T Consensus         6 ~~i~v~G~~~~GKssl~~~l~~~   28 (168)
T 1z2a_A            6 IKMVVVGNGAVGKSSMIQRYCKG   28 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEEECcCCCCHHHHHHHHHcC
Confidence            35889999999999999999874

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=93.60  E-value=0.039  Score=46.29  Aligned_cols=23  Identities=30%  Similarity=0.403  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ..|+|+|.+|+|||||...+.+.
T Consensus         8 ~~i~lvG~~gvGKStL~~~l~~~   30 (188)
T 2wjg_A            8 YEIALIGNPNVGKSTIFNALTGE   30 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            46999999999999999999873

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=93.60  E-value=0.025  Score=57.37  Aligned_cols=46  Identities=20%  Similarity=0.105  Sum_probs=31.8

Q ss_pred             cccccchHHHHHHHHHhhcCCce-----------EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVG-----------IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~-----------vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.++|.+..+..+.-.|.++..+           -|.++|++|+|||+||+.+.+..
T Consensus       295 ~~I~G~e~vk~al~~~l~~g~~~~~~~~~~r~~~~vLL~GppGtGKT~LAr~la~~~  351 (595)
T 3f9v_A          295 PSIYGHWELKEALALALFGGVPKVLEDTRIRGDIHILIIGDPGTAKSQMLQFISRVA  351 (595)
T ss_dssp             STTSCCHHHHHHHTTTTTCCCCEETTTTEECCSCCEEEEESSCCTHHHHHHSSSTTC
T ss_pred             chhcChHHHHHHHHHHHhCCCcccccCCCcCCCcceEEECCCchHHHHHHHHHHHhC
Confidence            45677776555554444433211           58899999999999999998743

>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=93.55  E-value=0.039  Score=51.99  Aligned_cols=26  Identities=31%  Similarity=0.267  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.+++|+|+.|+|||||.+.+..-.
T Consensus        29 ~Ge~~~llGpsGsGKSTLLr~iaGl~   54 (359)
T 3fvq_A           29 PGEILFIIGASGCGKTTLLRCLAGFE   54 (359)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCchHHHHHHHHhcCC
Confidence            34689999999999999999999743

>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=93.52  E-value=0.086  Score=44.18  Aligned_cols=34  Identities=32%  Similarity=0.604  Sum_probs=26.5

Q ss_pred             HHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHh
Q 043778          145 FDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       145 ~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      ...+.+ +......-|+|+|.+|+|||||...+.+
T Consensus         5 ~~~~~~-~~~~~~~~i~v~G~~~~GKssl~~~l~~   38 (187)
T 1zj6_A            5 FTRIWR-LFNHQEHKVIIVGLDNAGKTTILYQFSM   38 (187)
T ss_dssp             HHHHHH-HHTTSCEEEEEEESTTSSHHHHHHHHHT
T ss_pred             HHHHHH-hcCCCccEEEEECCCCCCHHHHHHHHhc
Confidence            344555 4445566799999999999999999985

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=93.51  E-value=0.041  Score=51.97  Aligned_cols=35  Identities=23%  Similarity=0.228  Sum_probs=27.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||.+.+..-.    ..-.+.+++
T Consensus        53 ~Gei~~IiGpnGaGKSTLlr~i~GL~----~p~~G~I~i   87 (366)
T 3tui_C           53 AGQIYGVIGASGAGKSTLIRCVNLLE----RPTEGSVLV   87 (366)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS----CCSEEEEEE
T ss_pred             CCCEEEEEcCCCchHHHHHHHHhcCC----CCCceEEEE
Confidence            44699999999999999999998743    233466665

>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=93.46  E-value=0.049  Score=45.71  Aligned_cols=22  Identities=23%  Similarity=0.274  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q 043778          158 GIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      .+.+|+|+.|+|||||+..++-
T Consensus        27 g~~~i~G~NGsGKStll~ai~~   48 (182)
T 3kta_A           27 GFTAIVGANGSGKSNIGDAILF   48 (182)
T ss_dssp             SEEEEEECTTSSHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHH
Confidence            4899999999999999999864

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=93.44  E-value=0.042  Score=52.03  Aligned_cols=25  Identities=24%  Similarity=0.375  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...++|+|+.|+|||||++.+..-.
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl~  194 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAVF  194 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998754

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=93.40  E-value=0.049  Score=52.80  Aligned_cols=26  Identities=19%  Similarity=0.263  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|.++|.+|+||||++..+....
T Consensus        99 ~~~vI~ivG~~GvGKTT~a~~LA~~l  124 (433)
T 2xxa_A           99 PPAVVLMAGLQGAGKTTSVGKLGKFL  124 (433)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            46899999999999999999988755

>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=93.39  E-value=0.05  Score=49.55  Aligned_cols=39  Identities=21%  Similarity=0.289  Sum_probs=27.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCC
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASK  198 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~  198 (405)
                      -++|+|.|.||+||||+|..+.... ....  ..++.|+...
T Consensus         2 MkvIavs~KGGvGKTT~a~nLA~~L-a~~G--~rVlliD~D~   40 (289)
T 2afh_E            2 MRQCAIYGKGGIGKSTTTQNLVAAL-AEMG--KKVMIVGCDP   40 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHH-HHTT--CCEEEEEECS
T ss_pred             ceEEEEeCCCcCcHHHHHHHHHHHH-HHCC--CeEEEEecCC
Confidence            3688899999999999999988755 2111  1355555543

>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=93.38  E-value=0.042  Score=45.30  Aligned_cols=23  Identities=39%  Similarity=0.382  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      --|+|+|.+|+|||||...+.+.
T Consensus         5 ~ki~i~G~~~vGKSsl~~~l~~~   27 (175)
T 2nzj_A            5 YRVVLLGDPGVGKTSLASLFAGK   27 (175)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEEECCCCccHHHHHHHHhcC
Confidence            35899999999999999998764

>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=93.38  E-value=0.046  Score=45.95  Aligned_cols=24  Identities=29%  Similarity=0.401  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      --|+|+|.+|+|||||+..+.+..
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            368899999999999999998743

>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=93.35  E-value=0.044  Score=46.98  Aligned_cols=24  Identities=17%  Similarity=0.051  Sum_probs=21.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      .-+.|.|.|++|+||||||..+..
T Consensus        33 ~g~~ilI~GpsGsGKStLA~~La~   56 (205)
T 2qmh_A           33 YGLGVLITGDSGVGKSETALELVQ   56 (205)
T ss_dssp             TTEEEEEECCCTTTTHHHHHHHHT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            346799999999999999999987

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=93.34  E-value=0.045  Score=51.52  Aligned_cols=25  Identities=40%  Similarity=0.574  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .-.+++|+|+.|+|||||.+.+..-
T Consensus        40 ~Ge~~~llGpnGsGKSTLLr~iaGl   64 (355)
T 1z47_A           40 EGEMVGLLGPSGSGKTTILRLIAGL   64 (355)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCC
Confidence            3469999999999999999999873

>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=93.33  E-value=0.071  Score=50.25  Aligned_cols=25  Identities=24%  Similarity=0.300  Sum_probs=21.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .-.+++|+|+.|+|||||.+.+...
T Consensus       122 ~~g~i~I~GptGSGKTTlL~~l~g~  146 (356)
T 3jvv_A          122 PRGLVLVTGPTGSGKSTTLAAMLDY  146 (356)
T ss_dssp             SSEEEEEECSTTSCHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhc
Confidence            3459999999999999999988653

>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=93.33  E-value=0.049  Score=44.38  Aligned_cols=24  Identities=25%  Similarity=0.310  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-|+|+|.+|+|||||...+.+..
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            358899999999999999998743

>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=93.27  E-value=0.047  Score=45.39  Aligned_cols=23  Identities=22%  Similarity=0.313  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ..|+|+|.+|+|||||...+...
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            46889999999999999999874

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=93.27  E-value=0.049  Score=45.93  Aligned_cols=25  Identities=32%  Similarity=0.349  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ....|+|+|.+|+|||||...+.+.
T Consensus        47 ~~~~i~vvG~~g~GKSsll~~l~~~   71 (193)
T 2ged_A           47 YQPSIIIAGPQNSGKTSLLTLLTTD   71 (193)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4457999999999999999999874

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=93.25  E-value=0.046  Score=47.38  Aligned_cols=24  Identities=25%  Similarity=0.311  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+|+|.|+.|+||||+++.+....
T Consensus         4 ~~i~i~G~~gsGkst~~~~l~~~~   27 (219)
T 2h92_A            4 INIALDGPAAAGKSTIAKRVASEL   27 (219)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhc
Confidence            479999999999999999998743

>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=93.23  E-value=0.052  Score=44.30  Aligned_cols=22  Identities=27%  Similarity=0.445  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 043778          159 IIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      -|+|+|.+|+|||||...+.+.
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            4889999999999999999874

>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=93.20  E-value=0.052  Score=44.15  Aligned_cols=22  Identities=27%  Similarity=0.447  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 043778          159 IIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      -|+|+|.+|+|||||...+.+.
T Consensus         5 ~i~v~G~~~~GKSsli~~l~~~   26 (167)
T 1kao_A            5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5899999999999999988764

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=93.19  E-value=0.05  Score=44.57  Aligned_cols=22  Identities=27%  Similarity=0.638  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 043778          159 IIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      -|+|+|.+|+|||||...+.+.
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~   26 (172)
T 2erx_A            5 RVAVFGAGGVGKSSLVLRFVKG   26 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5889999999999999999863

>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=93.18  E-value=0.049  Score=51.36  Aligned_cols=25  Identities=28%  Similarity=0.458  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .-.+++|+|+.|+|||||.+.+..-
T Consensus        28 ~Ge~~~llGpnGsGKSTLLr~iaGl   52 (359)
T 2yyz_A           28 DGEFVALLGPSGCGKTTTLLMLAGI   52 (359)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEEcCCCchHHHHHHHHHCC
Confidence            3468999999999999999999973

>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=93.16  E-value=0.053  Score=51.74  Aligned_cols=24  Identities=38%  Similarity=0.570  Sum_probs=21.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+|+|.|+.|+||||||..+....
T Consensus         3 ~~i~i~GptgsGKttla~~La~~~   26 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQLAQKF   26 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             cEEEEECcchhhHHHHHHHHHHHC
Confidence            589999999999999999998643

>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=93.15  E-value=0.11  Score=54.36  Aligned_cols=46  Identities=20%  Similarity=0.356  Sum_probs=36.3

Q ss_pred             cccccchHHHHHHHHHhhcC---------CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEE---------QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~---------~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|.+..++.+...+...         ....+.++|++|+|||++|+.+.+..
T Consensus       458 ~~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l  512 (758)
T 1r6b_X          458 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL  512 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHh
Confidence            45789888888877766421         23478999999999999999999855

>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=93.14  E-value=0.14  Score=47.84  Aligned_cols=30  Identities=30%  Similarity=0.323  Sum_probs=24.4

Q ss_pred             hhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          152 LTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       152 L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.+...+++.+.|.||+||||+|..+....
T Consensus        11 l~~~~~~i~~~sgkGGvGKTt~a~~lA~~l   40 (334)
T 3iqw_A           11 LDQRSLRWIFVGGKGGVGKTTTSCSLAIQL   40 (334)
T ss_dssp             HHCTTCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             hcCCCeEEEEEeCCCCccHHHHHHHHHHHH
Confidence            344456788889999999999999988755

>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=93.14  E-value=0.05  Score=51.68  Aligned_cols=35  Identities=20%  Similarity=0.212  Sum_probs=26.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||.+.+..-.    ..-.+.+++
T Consensus        28 ~Ge~~~llGpsGsGKSTLLr~iaGl~----~p~~G~I~i   62 (381)
T 3rlf_A           28 EGEFVVFVGPSGCGKSTLLRMIAGLE----TITSGDLFI   62 (381)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS----CCSEEEEEE
T ss_pred             CCCEEEEEcCCCchHHHHHHHHHcCC----CCCCeEEEE
Confidence            34689999999999999999999743    222455554

>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=93.14  E-value=0.053  Score=44.30  Aligned_cols=23  Identities=22%  Similarity=0.364  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      -|+|+|.+|+|||||...+.+..
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            48899999999999999988643

>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=93.12  E-value=0.058  Score=57.18  Aligned_cols=46  Identities=20%  Similarity=0.307  Sum_probs=36.2

Q ss_pred             cccccchHHHHHHHHHhhcC---------CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEE---------QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~---------~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|.+..++.+...+...         ....+.|+|++|+|||++|+.+.+..
T Consensus       558 ~~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~  612 (854)
T 1qvr_A          558 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATL  612 (854)
T ss_dssp             HHSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHH
T ss_pred             cccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            35789988888887766421         23589999999999999999998854

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=93.11  E-value=0.051  Score=51.33  Aligned_cols=35  Identities=26%  Similarity=0.311  Sum_probs=26.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||.+.+..-.    ....+.+++
T Consensus        28 ~Ge~~~llGpnGsGKSTLLr~iaGl~----~p~~G~I~i   62 (362)
T 2it1_A           28 DGEFMALLGPSGSGKSTLLYTIAGIY----KPTSGKIYF   62 (362)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS----CCSEEEEEE
T ss_pred             CCCEEEEECCCCchHHHHHHHHhcCC----CCCceEEEE
Confidence            34699999999999999999999743    223455555

>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=93.10  E-value=0.055  Score=44.28  Aligned_cols=23  Identities=22%  Similarity=0.307  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      -|+|+|.+|+|||||...+.+..
T Consensus         8 ~i~v~G~~~~GKSsli~~l~~~~   30 (170)
T 1z0j_A            8 KVCLLGDTGVGKSSIMWRFVEDS   30 (170)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHHcCC
Confidence            58899999999999999998743

>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=93.10  E-value=0.05  Score=44.58  Aligned_cols=22  Identities=32%  Similarity=0.253  Sum_probs=19.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q 043778          158 GIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      --|+|+|.+|+|||||...+.+
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            3588999999999999999864

>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=93.10  E-value=0.055  Score=44.33  Aligned_cols=23  Identities=35%  Similarity=0.444  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      --|+|+|.+|+|||||...+.+.
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1z08_A            7 FKVVLLGEGCVGKTSLVLRYCEN   29 (170)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            35899999999999999999864

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=93.09  E-value=0.083  Score=48.57  Aligned_cols=33  Identities=30%  Similarity=0.283  Sum_probs=26.4

Q ss_pred             HHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          145 FDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       145 ~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +++|...+.+   .+++++|++|+|||||...+. ..
T Consensus       156 i~~L~~~l~G---~i~~l~G~sG~GKSTLln~l~-~~  188 (302)
T 2yv5_A          156 IDELVDYLEG---FICILAGPSGVGKSSILSRLT-GE  188 (302)
T ss_dssp             HHHHHHHTTT---CEEEEECSTTSSHHHHHHHHH-SC
T ss_pred             HHHHHhhccC---cEEEEECCCCCCHHHHHHHHH-Hh
Confidence            5556666543   589999999999999999998 54

>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=93.08  E-value=0.057  Score=44.95  Aligned_cols=33  Identities=24%  Similarity=0.290  Sum_probs=24.9

Q ss_pred             HHHHHhhc-CCceEEEEEcCCCCcHHHHHHHHHh
Q 043778          147 KLWRCLTE-EQVGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       147 ~l~~~L~~-~~~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      ++.+.+.. ....-|+|+|.+|+|||||...+.+
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            34444444 4566799999999999999988874

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=93.06  E-value=0.053  Score=51.48  Aligned_cols=26  Identities=31%  Similarity=0.268  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.+++|+|+.|+|||||.+.+..-.
T Consensus        28 ~Ge~~~llGpnGsGKSTLLr~iaGl~   53 (372)
T 1g29_1           28 DGEFMILLGPSGCGKTTTLRMIAGLE   53 (372)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCcHHHHHHHHHHcCC
Confidence            34689999999999999999999743

>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=93.06  E-value=0.08  Score=44.29  Aligned_cols=24  Identities=42%  Similarity=0.441  Sum_probs=21.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      ...-|+|+|.+|+|||||...+.+
T Consensus        15 ~~~ki~ivG~~~vGKSsL~~~l~~   38 (181)
T 1fzq_A           15 QEVRILLLGLDNAGKTTLLKQLAS   38 (181)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHCC
T ss_pred             CceEEEEECCCCCCHHHHHHHHhc
Confidence            456799999999999999999876

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=93.05  E-value=0.089  Score=51.94  Aligned_cols=26  Identities=23%  Similarity=0.321  Sum_probs=21.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|+|+|.+|+||||++..+....
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA~~l  125 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLAYYY  125 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            36799999999999999999988654

>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=0.06  Score=43.87  Aligned_cols=21  Identities=33%  Similarity=0.482  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 043778          160 IGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~  180 (405)
                      |+|+|.+|+|||||...+.+.
T Consensus         3 i~~~G~~~~GKssl~~~l~~~   23 (164)
T 1r8s_A            3 ILMVGLDAAGKTTILYKLKLG   23 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            789999999999999999764

>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=93.03  E-value=0.055  Score=45.32  Aligned_cols=23  Identities=30%  Similarity=0.349  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      --|+|+|.+|+|||||...+.+.
T Consensus         8 ~ki~v~G~~~vGKSsli~~l~~~   30 (184)
T 1m7b_A            8 CKIVVVGDSQCGKTALLHVFAKD   30 (184)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            45889999999999999999874

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=93.02  E-value=0.056  Score=45.49  Aligned_cols=23  Identities=48%  Similarity=0.416  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      --|+|+|.+|+|||||.+.+.+.
T Consensus        15 ~ki~vvG~~~~GKssL~~~l~~~   37 (198)
T 3t1o_A           15 FKIVYYGPGLSGKTTNLKWIYSK   37 (198)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHhh
Confidence            45889999999999999877763

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=93.02  E-value=0.081  Score=50.87  Aligned_cols=24  Identities=17%  Similarity=0.277  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      ...+++|+|+.|+|||||.+.+..
T Consensus        68 ~~~~valvG~nGaGKSTLln~L~G   91 (413)
T 1tq4_A           68 SVLNVAVTGETGSGKSSFINTLRG   91 (413)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHhC
Confidence            556999999999999999999987

>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=93.01  E-value=0.052  Score=44.34  Aligned_cols=21  Identities=29%  Similarity=0.407  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q 043778          159 IIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      -|+|+|.+|+|||||...+.+
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            478999999999999998865

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=93.00  E-value=0.054  Score=51.37  Aligned_cols=25  Identities=32%  Similarity=0.351  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .-.+++|+|+.|+|||||.+.+..-
T Consensus        36 ~Ge~~~llGpnGsGKSTLLr~iaGl   60 (372)
T 1v43_A           36 DGEFLVLLGPSGCGKTTTLRMIAGL   60 (372)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcC
Confidence            4469999999999999999999873

>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=92.99  E-value=0.057  Score=44.76  Aligned_cols=25  Identities=28%  Similarity=0.323  Sum_probs=21.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ...-|+|+|.+|+|||||...+.+.
T Consensus         7 ~~~~i~v~G~~~~GKSsli~~l~~~   31 (182)
T 1ky3_A            7 NILKVIILGDSGVGKTSLMHRYVND   31 (182)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhC
Confidence            3456899999999999999998774

>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=92.97  E-value=0.12  Score=48.13  Aligned_cols=40  Identities=13%  Similarity=0.227  Sum_probs=32.3

Q ss_pred             hHHHHHHHHHhhcCC-ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          142 ESIFDKLWRCLTEEQ-VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       142 ~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +...+.+.+.+..+. .+.+.++|++|+|||++|+.+.+..
T Consensus         8 ~~~~~~l~~~i~~~~~~~a~L~~G~~G~GKt~~a~~la~~l   48 (334)
T 1a5t_A            8 RPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYL   48 (334)
T ss_dssp             HHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcceeEEEECCCCchHHHHHHHHHHHH
Confidence            556677777777664 5679999999999999999998754

>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=92.94  E-value=0.047  Score=50.63  Aligned_cols=25  Identities=40%  Similarity=0.433  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ...+++|+|+.|+|||||.+.+...
T Consensus         3 ~i~v~~i~G~~GaGKTTll~~l~~~   27 (318)
T 1nij_A            3 PIAVTLLTGFLGAGKTTLLRHILNE   27 (318)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             cccEEEEEecCCCCHHHHHHHHHhh
Confidence            3579999999999999999999864

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=92.94  E-value=0.12  Score=48.45  Aligned_cols=30  Identities=27%  Similarity=0.310  Sum_probs=24.5

Q ss_pred             hhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          152 LTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       152 L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.+.+.+++.+.|.||+||||+|..+....
T Consensus        13 l~~~~~~i~~~~gkGGvGKTt~a~~lA~~l   42 (348)
T 3io3_A           13 VQHDSLKWIFVGGKGGVGKTTTSSSVAVQL   42 (348)
T ss_dssp             HTCTTCSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             hcCCCcEEEEEeCCCCCcHHHHHHHHHHHH
Confidence            334567899999999999999999887654

>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=92.91  E-value=0.068  Score=45.75  Aligned_cols=37  Identities=27%  Similarity=0.179  Sum_probs=21.5

Q ss_pred             HHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          145 FDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       145 ~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+.+.+.......--|+|+|.+|+|||||...+.+..
T Consensus        18 ~~~m~~~~~~~~~~ki~vvG~~~~GKSsLi~~l~~~~   54 (204)
T 4gzl_A           18 GSHMENLYFQGQAIKCVVVGDGAVGKTCLLISYTTNA   54 (204)
T ss_dssp             ------------CEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             hhHHHhHhhcCCeEEEEEECcCCCCHHHHHHHHHhCC
Confidence            3333333334455578999999999999998888643

>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=92.91  E-value=0.059  Score=44.61  Aligned_cols=24  Identities=29%  Similarity=0.365  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ..-|+|+|.+|+|||||...+.+.
T Consensus         9 ~~~i~v~G~~~~GKssli~~l~~~   32 (181)
T 2fn4_A            9 THKLVVVGGGGVGKSALTIQFIQS   32 (181)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            456899999999999999999874

>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=92.91  E-value=0.04  Score=49.52  Aligned_cols=26  Identities=19%  Similarity=0.335  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ....|+|.|..|+||||+|+.+....
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            45799999999999999999988743

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4}

Probab=92.89  E-value=0.22  Score=45.96  Aligned_cols=53  Identities=11%  Similarity=0.110  Sum_probs=37.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCC
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFF  216 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i~~~l~~~  216 (405)
                      .++-|.|++|+|||||+.++.....+ ...=..++|++....++..     .++.++..
T Consensus        29 GiteI~G~pGsGKTtL~Lq~~~~~~~-~g~g~~vlyId~E~s~~~~-----ra~~lGvd   81 (333)
T 3io5_A           29 GLLILAGPSKSFKSNFGLTMVSSYMR-QYPDAVCLFYDSEFGITPA-----YLRSMGVD   81 (333)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHHHHHH-HCTTCEEEEEESSCCCCHH-----HHHHTTCC
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHh-cCCCceEEEEeccchhhHH-----HHHHhCCC
Confidence            37899999999999999988765411 1011468899887777764     26667654

>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=92.89  E-value=0.038  Score=53.58  Aligned_cols=25  Identities=28%  Similarity=0.310  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..+|+|+|.+|+||||++..+....
T Consensus        99 ~~vI~ivG~~GvGKTTla~~La~~l  123 (432)
T 2v3c_C           99 QNVILLVGIQGSGKTTTAAKLARYI  123 (432)
T ss_dssp             CCCEEEECCSSSSTTHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4699999999999999999988754

>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=92.87  E-value=0.061  Score=44.42  Aligned_cols=23  Identities=30%  Similarity=0.324  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      --|+|+|.+|+|||||...+.+.
T Consensus         8 ~~i~v~G~~~~GKSsli~~l~~~   30 (177)
T 1wms_A            8 FKVILLGDGGVGKSSLMNRYVTN   30 (177)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            46899999999999999999864

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=92.87  E-value=0.22  Score=46.45  Aligned_cols=53  Identities=13%  Similarity=0.013  Sum_probs=39.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHHHHHHHh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKI  213 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i~~~l  213 (405)
                      .-.++.|.|.+|+||||||..+..+. ..  .=..++|++.  ..+...+...++...
T Consensus        45 ~G~LiiIaG~pG~GKTt~al~ia~~~-a~--~g~~Vl~fSl--Ems~~ql~~Rlls~~   97 (338)
T 4a1f_A           45 KGSLVIIGARPSMGKTSLMMNMVLSA-LN--DDRGVAVFSL--EMSAEQLALRALSDL   97 (338)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHHHHH-HH--TTCEEEEEES--SSCHHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHH-HH--cCCeEEEEeC--CCCHHHHHHHHHHHh
Confidence            34689999999999999999998765 21  1135677754  556778888777665

>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=92.86  E-value=0.062  Score=43.97  Aligned_cols=23  Identities=35%  Similarity=0.364  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      --|+|+|.+|+|||||...+.+.
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            35899999999999999998864

>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=92.86  E-value=0.063  Score=50.98  Aligned_cols=26  Identities=23%  Similarity=0.349  Sum_probs=22.4

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          155 EQVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       155 ~~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ..-.+++|+|+.|+|||||+..+...
T Consensus       134 ~~g~~i~ivG~~GsGKTTll~~l~~~  159 (372)
T 2ewv_A          134 RKMGLILVTGPTGSGKSTTIASMIDY  159 (372)
T ss_dssp             SSSEEEEEECSSSSSHHHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            34568999999999999999998764

>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=92.85  E-value=0.061  Score=45.23  Aligned_cols=24  Identities=25%  Similarity=0.185  Sum_probs=20.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .--|+|+|.+|+|||||...+.+.
T Consensus        20 ~~ki~ivG~~~vGKSsL~~~~~~~   43 (184)
T 3ihw_A           20 ELKVGIVGNLSSGKSALVHRYLTG   43 (184)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            346899999999999999887763

>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=92.84  E-value=0.17  Score=43.86  Aligned_cols=25  Identities=20%  Similarity=0.181  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...|.|.|+.|+||||+++.+....
T Consensus         6 g~~i~~eG~~gsGKsT~~~~l~~~l   30 (213)
T 4edh_A            6 GLFVTLEGPEGAGKSTNRDYLAERL   30 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999998866

>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=92.84  E-value=0.045  Score=51.43  Aligned_cols=35  Identities=23%  Similarity=0.059  Sum_probs=27.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||.+.+..-.    ....+.+++
T Consensus        25 ~Ge~~~llGpnGsGKSTLLr~iaGl~----~p~~G~I~~   59 (348)
T 3d31_A           25 SGEYFVILGPTGAGKTLFLELIAGFH----VPDSGRILL   59 (348)
T ss_dssp             TTCEEEEECCCTHHHHHHHHHHHTSS----CCSEEEEEE
T ss_pred             CCCEEEEECCCCccHHHHHHHHHcCC----CCCCcEEEE
Confidence            34699999999999999999999743    233566665

>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=92.84  E-value=0.064  Score=43.82  Aligned_cols=23  Identities=26%  Similarity=0.340  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      --|+|+|.+|+|||||...+.+.
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            35889999999999999998864

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=92.81  E-value=0.067  Score=44.24  Aligned_cols=23  Identities=30%  Similarity=0.339  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      --|+|+|.+|+|||||...+.+.
T Consensus         7 ~ki~v~G~~~~GKssl~~~l~~~   29 (178)
T 2hxs_A            7 LKIVVLGDGASGKTSLTTCFAQE   29 (178)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHGG
T ss_pred             EEEEEECcCCCCHHHHHHHHHhC
Confidence            35889999999999999998764

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=92.80  E-value=0.067  Score=45.33  Aligned_cols=24  Identities=25%  Similarity=0.223  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .++.|+|+.|+||||++..+....
T Consensus         4 ~i~vi~G~~gsGKTT~ll~~~~~~   27 (184)
T 2orw_A            4 KLTVITGPMYSGKTTELLSFVEIY   27 (184)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHH
Confidence            478899999999999986665543

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=92.75  E-value=0.067  Score=47.01  Aligned_cols=25  Identities=32%  Similarity=0.304  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...++|.|++|+||||+|+.+....
T Consensus         8 ~~~~~~~G~pGsGKsT~a~~L~~~~   32 (230)
T 3gmt_A            8 HMRLILLGAPGAGKGTQANFIKEKF   32 (230)
T ss_dssp             -CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ccceeeECCCCCCHHHHHHHHHHHh
Confidence            3468999999999999999998855

>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=92.75  E-value=0.064  Score=45.35  Aligned_cols=24  Identities=38%  Similarity=0.621  Sum_probs=20.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ..-|+|+|.+|+|||||...+.+.
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            347899999999999999998873

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=92.74  E-value=0.063  Score=50.45  Aligned_cols=26  Identities=38%  Similarity=0.434  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.+++|+|+.|+|||||.+.+.+..
T Consensus        70 ~Gq~~gIiG~nGaGKTTLl~~I~g~~   95 (347)
T 2obl_A           70 IGQRIGIFAGSGVGKSTLLGMICNGA   95 (347)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            55799999999999999999999865

>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=92.74  E-value=0.064  Score=46.28  Aligned_cols=26  Identities=31%  Similarity=0.300  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ....|.|+|.+|+|||||...+.+..
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            45678999999999999999998743

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=92.74  E-value=0.074  Score=49.77  Aligned_cols=26  Identities=23%  Similarity=0.350  Sum_probs=22.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          155 EQVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       155 ~~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ....+++|+|++|+|||||...+...
T Consensus        53 ~~g~~v~i~G~~GaGKSTLl~~l~g~   78 (337)
T 2qm8_A           53 GRAIRVGITGVPGVGKSTTIDALGSL   78 (337)
T ss_dssp             CCSEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHh
Confidence            46679999999999999999999753

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=92.72  E-value=0.075  Score=43.92  Aligned_cols=25  Identities=32%  Similarity=0.397  Sum_probs=21.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ....|+|+|.+|+|||||...+.+.
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

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=92.71  E-value=0.053  Score=51.28  Aligned_cols=26  Identities=27%  Similarity=0.304  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.+++|+|+.|+|||||++.+..-.
T Consensus       174 ~G~~i~ivG~sGsGKSTll~~l~~~~  199 (361)
T 2gza_A          174 LERVIVVAGETGSGKTTLMKALMQEI  199 (361)
T ss_dssp             TTCCEEEEESSSSCHHHHHHHHHTTS
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHhcC
Confidence            34589999999999999999998744

>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=92.70  E-value=0.051  Score=49.97  Aligned_cols=21  Identities=24%  Similarity=0.303  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q 043778          159 IIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      -|+|+|.+|+|||||...++.
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            359999999999999999886

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=92.68  E-value=0.093  Score=52.48  Aligned_cols=26  Identities=23%  Similarity=0.281  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|+|+|+.|+|||||++.+....
T Consensus       368 ~G~iI~LiG~sGSGKSTLar~La~~L  393 (552)
T 3cr8_A          368 QGFTVFFTGLSGAGKSTLARALAARL  393 (552)
T ss_dssp             SCEEEEEEESSCHHHHHHHHHHHHHH
T ss_pred             cceEEEEECCCCChHHHHHHHHHHhh
Confidence            45789999999999999999999855

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=92.67  E-value=0.067  Score=46.81  Aligned_cols=23  Identities=22%  Similarity=0.120  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .|.+.|.||+||||+|..+....
T Consensus         8 ~I~~~~kgGvGKTt~a~~la~~l   30 (228)
T 2r8r_A            8 KVFLGAAPGVGKTYAMLQAAHAQ   30 (228)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHHH
Confidence            47789999999999998888755

>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=92.67  E-value=0.067  Score=44.67  Aligned_cols=23  Identities=26%  Similarity=0.382  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      -|+|+|.+|+|||||...+.+..
T Consensus         6 ki~v~G~~~~GKSsli~~l~~~~   28 (189)
T 4dsu_A            6 KLVVVGADGVGKSALTIQLIQNH   28 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            58899999999999999998743

>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=92.67  E-value=0.068  Score=44.11  Aligned_cols=25  Identities=28%  Similarity=0.187  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..-|.|+|.+|+|||||...+.+..
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            3568999999999999999998743

>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=0.067  Score=45.06  Aligned_cols=24  Identities=21%  Similarity=0.277  Sum_probs=20.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .--|+|+|.+|+|||||...+.+.
T Consensus        21 ~~ki~vvG~~~vGKTsLi~~l~~~   44 (187)
T 3c5c_A           21 EVNLAILGRRGAGKSALTVKFLTK   44 (187)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCcHHHHHHHHHhC
Confidence            346889999999999999888764

>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=92.63  E-value=0.15  Score=44.98  Aligned_cols=25  Identities=20%  Similarity=0.389  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...|.|.|+.|+||||+++.+....
T Consensus        27 ~~~i~~eG~~GsGKsT~~~~l~~~l   51 (236)
T 3lv8_A           27 AKFIVIEGLEGAGKSTAIQVVVETL   51 (236)
T ss_dssp             CCEEEEEESTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999998865

>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=92.62  E-value=0.071  Score=43.70  Aligned_cols=24  Identities=29%  Similarity=0.328  Sum_probs=20.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ..-|+|+|.+|+|||||...+.+.
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            346899999999999999999764

>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=92.60  E-value=0.075  Score=44.76  Aligned_cols=25  Identities=28%  Similarity=0.422  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      +...|+|+|.+|+|||||...+.+.
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            4567999999999999999999863

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=92.60  E-value=0.091  Score=45.99  Aligned_cols=28  Identities=25%  Similarity=0.254  Sum_probs=23.9

Q ss_pred             cCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          154 EEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       154 ~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ......|.|.|+.|+||||+++.+.+..
T Consensus        18 ~~~~~~i~~~G~~g~GKst~~~~l~~~l   45 (223)
T 3ld9_A           18 GPGSMFITFEGIDGSGKTTQSHLLAEYL   45 (223)
T ss_dssp             -CCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3456799999999999999999998865

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=92.60  E-value=0.042  Score=51.78  Aligned_cols=25  Identities=28%  Similarity=0.424  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .-.+++|+|+.|+|||||.+.+..-
T Consensus        30 ~Ge~~~llGpnGsGKSTLLr~iaGl   54 (353)
T 1oxx_K           30 NGERFGILGPSGAGKTTFMRIIAGL   54 (353)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCC
Confidence            3469999999999999999999873

>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=92.58  E-value=0.07  Score=44.44  Aligned_cols=24  Identities=33%  Similarity=0.375  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .--|+|+|.+|+|||||...+.+.
T Consensus        18 ~~ki~v~G~~~~GKSsl~~~l~~~   41 (183)
T 3kkq_A           18 TYKLVVVGDGGVGKSALTIQFFQK   41 (183)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            346899999999999999999874

>1g8f_A Sulfate adenylyltransferase; alpha-beta protein, beta-barrel, rossmann-fold, kinase fold; 1.95A {Saccharomyces cerevisiae} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1g8g_A* 1g8h_A* 1j70_A 1jec_A 1jed_A* 1jee_A*

Probab=92.58  E-value=0.12  Score=51.10  Aligned_cols=26  Identities=27%  Similarity=0.106  Sum_probs=23.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|.+.|++|+||||+|+.+....
T Consensus       394 ~~~~I~l~GlsGsGKSTIa~~La~~L  419 (511)
T 1g8f_A          394 QGFSIVLGNSLTVSREQLSIALLSTF  419 (511)
T ss_dssp             CCEEEEECTTCCSCHHHHHHHHHHHH
T ss_pred             cceEEEecccCCCCHHHHHHHHHHHH
Confidence            55789999999999999999999976

>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=92.56  E-value=0.062  Score=44.97  Aligned_cols=22  Identities=36%  Similarity=0.499  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 043778          159 IIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      -|+|+|.+|+|||||...+.+.
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            4789999999999999998864

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=92.55  E-value=0.066  Score=51.08  Aligned_cols=35  Identities=26%  Similarity=0.183  Sum_probs=27.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAV  195 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~  195 (405)
                      .-.+++|+|+.|+|||||.+.+..-.   .  ..+.+++.
T Consensus        46 ~Ge~~~llGpsGsGKSTLLr~iaGl~---~--~~G~I~i~   80 (390)
T 3gd7_A           46 PGQRVGLLGRTGSGKSTLLSAFLRLL---N--TEGEIQID   80 (390)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTCS---E--EEEEEEES
T ss_pred             CCCEEEEECCCCChHHHHHHHHhCCC---C--CCeEEEEC
Confidence            44699999999999999999999733   1  34666663

>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=92.55  E-value=0.055  Score=49.66  Aligned_cols=25  Identities=28%  Similarity=0.227  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..+|+++|.+|+||||++..+....
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~~  122 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYFY  122 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            5799999999999999999988655

>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=92.54  E-value=0.07  Score=44.52  Aligned_cols=24  Identities=25%  Similarity=0.137  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      --|.|+|.+|+|||||...+.+..
T Consensus        11 ~ki~v~G~~~~GKSsli~~l~~~~   34 (186)
T 2bme_A           11 FKFLVIGNAGTGKSCLLHQFIEKK   34 (186)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            468899999999999999998643

>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=92.53  E-value=0.11  Score=44.32  Aligned_cols=24  Identities=33%  Similarity=0.656  Sum_probs=20.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      ...-|+|+|.+|+|||||...+.+
T Consensus        24 ~~~ki~lvG~~~vGKSsLi~~l~~   47 (198)
T 1f6b_A           24 KTGKLVFLGLDNAGKTTLLHMLKD   47 (198)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHHSC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhc
Confidence            345689999999999999999875

>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=92.52  E-value=0.072  Score=44.60  Aligned_cols=23  Identities=26%  Similarity=0.216  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      --|+|+|.+|+|||||...+.+.
T Consensus        12 ~ki~v~G~~~~GKSsli~~l~~~   34 (195)
T 3bc1_A           12 IKFLALGDSGVGKTSVLYQYTDG   34 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            46899999999999999999874

>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=92.51  E-value=0.072  Score=43.98  Aligned_cols=23  Identities=30%  Similarity=0.278  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      --|+|+|.+|+|||||...+.+.
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            35889999999999999998864

>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=92.50  E-value=0.04  Score=47.25  Aligned_cols=24  Identities=21%  Similarity=0.249  Sum_probs=21.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      ....|+|+|.+|+|||||...+..
T Consensus        25 ~~~~v~lvG~~g~GKSTLl~~l~g   48 (210)
T 1pui_A           25 TGIEVAFAGRSNAGKSSALNTLTN   48 (210)
T ss_dssp             CSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhC
Confidence            456899999999999999988765

>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=92.49  E-value=0.073  Score=44.30  Aligned_cols=22  Identities=41%  Similarity=0.481  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 043778          159 IIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      -|+|+|.+|+|||||...+.+.
T Consensus         7 ~i~~~G~~~~GKssl~~~l~~~   28 (186)
T 1mh1_A            7 KCVVVGDGAVGKTCLLISYTTN   28 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5889999999999999998764

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=92.48  E-value=0.081  Score=49.73  Aligned_cols=25  Identities=24%  Similarity=0.301  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      +..+|+|+|.+|+|||||...+...
T Consensus        73 ~~~~v~lvG~pgaGKSTLln~L~~~   97 (349)
T 2www_A           73 LAFRVGLSGPPGAGKSTFIEYFGKM   97 (349)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHH
Confidence            3679999999999999999998863

>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=92.48  E-value=0.082  Score=52.55  Aligned_cols=26  Identities=19%  Similarity=0.259  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|.++|++|+||||+|+.+....
T Consensus        34 ~~~lIvlvGlpGSGKSTia~~La~~L   59 (520)
T 2axn_A           34 SPTVIVMVGLPARGKTYISKKLTRYL   59 (520)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            45789999999999999999997643

>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=92.47  E-value=0.074  Score=44.82  Aligned_cols=25  Identities=36%  Similarity=0.315  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .--|+|+|.+|+|||||...+.+..
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            3468999999999999999988743

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=92.46  E-value=0.068  Score=44.90  Aligned_cols=25  Identities=32%  Similarity=0.504  Sum_probs=21.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ....|+|+|.+|+|||||...+.+.
T Consensus        22 ~~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 3pqc_A           22 LKGEVAFVGRSNVGKSSLLNALFNR   46 (195)
T ss_dssp             TTCEEEEEEBTTSSHHHHHHHHHTS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHcC
Confidence            3457899999999999999999874

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=92.43  E-value=0.069  Score=44.18  Aligned_cols=24  Identities=25%  Similarity=0.389  Sum_probs=20.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .--|+|+|.+|+|||||...+.+.
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            446899999999999999998764

>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=92.41  E-value=0.077  Score=44.14  Aligned_cols=25  Identities=24%  Similarity=0.321  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..-|+|+|.+|+|||||...+.+..
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            3468999999999999999998743

>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=92.41  E-value=0.06  Score=44.66  Aligned_cols=23  Identities=22%  Similarity=0.290  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      --|+++|.+|+|||||...+.+.
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            35889999999999999998874

>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=92.37  E-value=0.059  Score=45.87  Aligned_cols=24  Identities=29%  Similarity=0.261  Sum_probs=20.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      ..--|+|+|.+|+|||||...+.+
T Consensus        22 ~~~ki~vvG~~~vGKSsLi~~l~~   45 (195)
T 3cbq_A           22 GIFKVMLVGESGVGKSTLAGTFGG   45 (195)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHTCC
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHh
Confidence            345789999999999999999853

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=92.36  E-value=0.064  Score=52.44  Aligned_cols=25  Identities=20%  Similarity=0.154  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .-.+++|+|+.|+|||||++.+.+-
T Consensus       137 ~Ge~v~IvGpnGsGKSTLlr~L~Gl  161 (460)
T 2npi_A          137 EGPRVVIVGGSQTGKTSLSRTLCSY  161 (460)
T ss_dssp             SCCCEEEEESTTSSHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCc
Confidence            4468999999999999999999873

>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=92.35  E-value=0.077  Score=45.11  Aligned_cols=24  Identities=25%  Similarity=0.389  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ..-|+|+|.+|+|||||...+.+.
T Consensus        14 ~~ki~v~G~~~~GKSsli~~l~~~   37 (206)
T 2bov_A           14 LHKVIMVGSGGVGKSALTLQFMYD   37 (206)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhC
Confidence            456899999999999999998764

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=92.34  E-value=0.086  Score=45.34  Aligned_cols=24  Identities=13%  Similarity=0.050  Sum_probs=22.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+|+|.|+.|+||||+|+.+....
T Consensus         7 ~iI~i~g~~GsGk~ti~~~la~~l   30 (201)
T 3fdi_A            7 IIIAIGREFGSGGHLVAKKLAEHY   30 (201)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHHh
Confidence            589999999999999999999855

>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=92.30  E-value=0.081  Score=43.89  Aligned_cols=24  Identities=38%  Similarity=0.343  Sum_probs=20.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .--|+|+|.+|+|||||...+.+.
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            345889999999999999998863

>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=92.27  E-value=0.088  Score=50.79  Aligned_cols=26  Identities=23%  Similarity=0.229  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|+|+|++|+||||++..+....
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~~l  122 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLALYY  122 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            35799999999999999999998765

>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=92.26  E-value=0.081  Score=43.95  Aligned_cols=24  Identities=33%  Similarity=0.427  Sum_probs=20.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ..-|+|+|.+|+|||||...+.+.
T Consensus         6 ~~ki~~~G~~~~GKSsli~~l~~~   29 (181)
T 3t5g_A            6 SRKIAILGYRSVGKSSLTIQFVEG   29 (181)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcC
Confidence            346899999999999999998864

>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=92.26  E-value=0.082  Score=43.81  Aligned_cols=23  Identities=22%  Similarity=0.320  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .-|+|+|.+|+|||||...+.+.
T Consensus        13 ~ki~v~G~~~~GKSsli~~l~~~   35 (181)
T 2efe_B           13 AKLVLLGDVGAGKSSLVLRFVKD   35 (181)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            45899999999999999998864

>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=92.25  E-value=0.17  Score=45.52  Aligned_cols=36  Identities=22%  Similarity=0.253  Sum_probs=28.0

Q ss_pred             HHHHHHHhhcC-C-ceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          145 FDKLWRCLTEE-Q-VGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       145 ~~~l~~~L~~~-~-~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ..-+..+|... + -.-|.++|++|.|||+||..+.+.
T Consensus        90 ~~~l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~~  127 (267)
T 1u0j_A           90 ASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHT  127 (267)
T ss_dssp             HHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHhh
Confidence            34466666653 2 457999999999999999999984

>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=92.23  E-value=0.081  Score=45.04  Aligned_cols=25  Identities=32%  Similarity=0.288  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..-|+|+|.+|+|||||...+.+..
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~~   32 (207)
T 1vg8_A            8 LLKVIILGDSGVGKTSLMNQYVNKK   32 (207)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcCC
Confidence            4568999999999999999988743

>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=92.23  E-value=0.084  Score=43.70  Aligned_cols=24  Identities=33%  Similarity=0.339  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      --|+|+|.+|+|||||...+.+..
T Consensus        11 ~~i~v~G~~~~GKssli~~l~~~~   34 (180)
T 2g6b_A           11 FKVMLVGDSGVGKTCLLVRFKDGA   34 (180)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhCC
Confidence            468999999999999999988744

>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=92.22  E-value=0.17  Score=44.51  Aligned_cols=43  Identities=19%  Similarity=0.162  Sum_probs=29.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHH
Q 043778          159 IIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEK  204 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~  204 (405)
                      .|+|.|.||+||||+|..+.... ....  ..++-|+.....+...
T Consensus         2 kI~vs~kGGvGKTt~a~~LA~~l-a~~g--~~VlliD~D~~~~l~~   44 (254)
T 3kjh_A            2 KLAVAGKGGVGKTTVAAGLIKIM-ASDY--DKIYAVDGDPDSCLGQ   44 (254)
T ss_dssp             EEEEECSSSHHHHHHHHHHHHHH-TTTC--SCEEEEEECTTSCHHH
T ss_pred             EEEEecCCCCCHHHHHHHHHHHH-HHCC--CeEEEEeCCCCcChHH
Confidence            36779999999999999998866 3222  3466666655444443

>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=92.22  E-value=0.13  Score=43.26  Aligned_cols=36  Identities=19%  Similarity=0.285  Sum_probs=25.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCC
Q 043778          159 IIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVE  201 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~  201 (405)
                      +|.|+|.+|+||||+|..+..   .    -..++|+.-...++
T Consensus         1 ~ilV~Gg~~SGKS~~A~~la~---~----~~~~~yiaT~~~~d   36 (180)
T 1c9k_A            1 MILVTGGARSGKSRHAEALIG---D----APQVLYIATSQILD   36 (180)
T ss_dssp             CEEEEECTTSSHHHHHHHHHC---S----CSSEEEEECCCC--
T ss_pred             CEEEECCCCCcHHHHHHHHHh---c----CCCeEEEecCCCCC
Confidence            378999999999999999886   2    12456666555443

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=92.21  E-value=0.059  Score=50.30  Aligned_cols=24  Identities=25%  Similarity=0.158  Sum_probs=21.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|+|+.|+|||||++.+..-.
T Consensus       172 ~~v~i~G~~GsGKTTll~~l~g~~  195 (330)
T 2pt7_A          172 KNVIVCGGTGSGKTTYIKSIMEFI  195 (330)
T ss_dssp             CCEEEEESTTSCHHHHHHHGGGGS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            589999999999999999998754

>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=92.20  E-value=0.083  Score=44.72  Aligned_cols=25  Identities=24%  Similarity=0.444  Sum_probs=21.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ..--|+|+|.+|+|||||...+.+.
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            3456899999999999999998874

>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=92.20  E-value=0.084  Score=44.75  Aligned_cols=22  Identities=32%  Similarity=0.332  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q 043778          158 GIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      --|+|+|.+|+|||||...+.+
T Consensus         7 ~kv~lvG~~~vGKSsL~~~~~~   28 (192)
T 2cjw_A            7 YRVVLIGEQGVGKSTLANIFAG   28 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            4589999999999999998875

>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=92.20  E-value=0.096  Score=44.96  Aligned_cols=25  Identities=12%  Similarity=0.130  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ...+|+|+|++|+||+|+|..+.+.
T Consensus        10 ~~~II~itGk~~SGKd~va~~l~~~   34 (202)
T 3ch4_B           10 PRLVLLFSGKRKSGKDFVTEALQSR   34 (202)
T ss_dssp             CSEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCChHHHHHHHHHH
Confidence            4569999999999999999998763

>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=92.19  E-value=0.084  Score=44.46  Aligned_cols=25  Identities=28%  Similarity=0.312  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .--|+|+|.+|+|||||...+.+..
T Consensus        23 ~~ki~v~G~~~~GKSsli~~l~~~~   47 (191)
T 3dz8_A           23 MFKLLIIGNSSVGKTSFLFRYADDT   47 (191)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             eeEEEEECCCCcCHHHHHHHHhcCC
Confidence            3468899999999999999988743

>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=92.18  E-value=0.076  Score=45.03  Aligned_cols=24  Identities=25%  Similarity=0.321  Sum_probs=20.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .--|.|+|.+|+|||||...+.+.
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            446889999999999999977763

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=92.16  E-value=0.12  Score=47.34  Aligned_cols=34  Identities=32%  Similarity=0.466  Sum_probs=26.8

Q ss_pred             HHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          145 FDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       145 ~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++++...+.+   .+++|+|++|+|||||...+....
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            4555555543   589999999999999999998743

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=92.13  E-value=0.084  Score=44.92  Aligned_cols=26  Identities=23%  Similarity=0.211  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...-|+|+|.+|+|||||...+.+..
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            34578999999999999999998743

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=92.13  E-value=0.085  Score=44.49  Aligned_cols=24  Identities=25%  Similarity=0.365  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .--|+|+|.+|+|||||...+.+.
T Consensus         7 ~~ki~v~G~~~~GKSsli~~l~~~   30 (208)
T 3clv_A            7 SYKTVLLGESSVGKSSIVLRLTKD   30 (208)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            346899999999999999999875

>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=92.09  E-value=0.085  Score=45.28  Aligned_cols=25  Identities=28%  Similarity=0.288  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..-|+|+|.+|+|||||...+.+..
T Consensus        28 ~~ki~vvG~~~vGKSsLi~~l~~~~   52 (205)
T 1gwn_A           28 KCKIVVVGDSQCGKTALLHVFAKDC   52 (205)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcCC
Confidence            4568899999999999999998743

>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=92.08  E-value=0.098  Score=48.99  Aligned_cols=26  Identities=23%  Similarity=0.262  Sum_probs=22.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          155 EQVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       155 ~~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .+..+|+|+|.+|+|||||+..+...
T Consensus        54 ~~~~~i~i~G~~g~GKSTl~~~l~~~   79 (341)
T 2p67_A           54 GNTLRLGVTGTPGAGKSTFLEAFGML   79 (341)
T ss_dssp             SCSEEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHH
Confidence            46789999999999999999998753

>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=92.07  E-value=0.086  Score=45.12  Aligned_cols=24  Identities=33%  Similarity=0.297  Sum_probs=20.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .--|+|+|.+|+|||||...+.+.
T Consensus        26 ~~ki~lvG~~~vGKSsLi~~l~~~   49 (201)
T 2ew1_A           26 LFKIVLIGNAGVGKTCLVRRFTQG   49 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhC
Confidence            346899999999999999998764

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=92.06  E-value=0.19  Score=43.53  Aligned_cols=24  Identities=25%  Similarity=0.313  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..|.|-|+.|+||||+++.+....
T Consensus         4 ~~i~~eG~~gsGKsT~~~~l~~~l   27 (213)
T 4tmk_A            4 KYIVIEGLEGAGKTTARNVVVETL   27 (213)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            589999999999999999998866

>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=92.05  E-value=0.087  Score=44.46  Aligned_cols=25  Identities=20%  Similarity=0.228  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .--|+|+|.+|+|||||...+.+..
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            3468999999999999999998743

>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=92.02  E-value=0.099  Score=43.67  Aligned_cols=26  Identities=31%  Similarity=0.410  Sum_probs=21.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          155 EQVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       155 ~~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ....-|+|+|.+|+|||||...+.+.
T Consensus        16 ~~~~~i~v~G~~~~GKssl~~~l~~~   41 (186)
T 1ksh_A           16 ERELRLLMLGLDNAGKTTILKKFNGE   41 (186)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHTTC
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHhcC
Confidence            34567899999999999999999864

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=92.02  E-value=0.068  Score=51.52  Aligned_cols=21  Identities=33%  Similarity=0.347  Sum_probs=19.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 043778          160 IGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ++|+|+.|+|||||...++..
T Consensus        45 vaLvG~nGaGKSTLln~L~G~   65 (427)
T 2qag_B           45 ILCVGETGLGKSTLMDTLFNT   65 (427)
T ss_dssp             EEEECSTTSSSHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhCc
Confidence            999999999999999999863

>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=92.00  E-value=0.087  Score=44.77  Aligned_cols=23  Identities=35%  Similarity=0.365  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      --|+|+|.+|+|||||...+.+.
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~   31 (203)
T 1zbd_A            9 FKILIIGNSSVGKTSFLFRYADD   31 (203)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            45899999999999999998874

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=91.99  E-value=0.09  Score=44.24  Aligned_cols=25  Identities=28%  Similarity=0.329  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .--|+|+|.+|+|||||...+.+..
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            3468999999999999999998744

>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=91.98  E-value=0.092  Score=44.12  Aligned_cols=24  Identities=29%  Similarity=0.313  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      --|+|+|.+|+|||||...+.+..
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            468899999999999999998643

>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=91.98  E-value=0.091  Score=44.11  Aligned_cols=25  Identities=32%  Similarity=0.320  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .--|+|+|.+|+|||||...+.+..
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            3468999999999999999998743

>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=91.97  E-value=0.09  Score=44.38  Aligned_cols=24  Identities=25%  Similarity=0.437  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .--|+|+|.+|+|||||...+.+.
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            446899999999999999999874

>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=91.94  E-value=0.092  Score=45.08  Aligned_cols=24  Identities=21%  Similarity=0.284  Sum_probs=20.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ...|+|+|.+|+|||||...+.+.
T Consensus         7 ~~ki~vvG~~~~GKTsli~~l~~~   30 (214)
T 2fh5_B            7 QRAVLFVGLCDSGKTLLFVRLLTG   30 (214)
T ss_dssp             -CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            346899999999999999999874

>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=91.93  E-value=0.094  Score=44.24  Aligned_cols=25  Identities=36%  Similarity=0.385  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .--|+|+|.+|+|||||...+.+..
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            3468899999999999999998743

>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=91.90  E-value=0.098  Score=48.06  Aligned_cols=24  Identities=38%  Similarity=0.556  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ...|+|+|.+|+|||||...+...
T Consensus         8 ~~~VaIvG~~nvGKSTLln~L~g~   31 (301)
T 1ega_A            8 CGFIAIVGRPNVGKSTLLNKLLGQ   31 (301)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCC
Confidence            458999999999999999999864

>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=91.89  E-value=0.093  Score=44.75  Aligned_cols=41  Identities=20%  Similarity=0.229  Sum_probs=27.5

Q ss_pred             eEEEEE-cCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCC
Q 043778          158 GIIGLY-GMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVE  201 (405)
Q Consensus       158 ~vi~I~-G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~  201 (405)
                      ++|+|+ +.||+||||+|..+.... ....  ..++.++.....+
T Consensus         2 ~vi~v~s~kgG~GKTt~a~~la~~l-a~~g--~~vlliD~D~~~~   43 (206)
T 4dzz_A            2 KVISFLNPKGGSGKTTAVINIATAL-SRSG--YNIAVVDTDPQMS   43 (206)
T ss_dssp             EEEEECCSSTTSSHHHHHHHHHHHH-HHTT--CCEEEEECCTTCH
T ss_pred             eEEEEEeCCCCccHHHHHHHHHHHH-HHCC--CeEEEEECCCCCC
Confidence            578887 678899999999987755 2121  2456666654433

>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=91.85  E-value=0.097  Score=44.07  Aligned_cols=23  Identities=30%  Similarity=0.332  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      --|.|+|.+|+|||||...+.+.
T Consensus        22 ~ki~v~G~~~~GKSsli~~l~~~   44 (191)
T 2a5j_A           22 FKYIIIGDTGVGKSCLLLQFTDK   44 (191)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHhcC
Confidence            35889999999999999998864

>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=91.81  E-value=0.091  Score=46.26  Aligned_cols=26  Identities=23%  Similarity=0.031  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ....|+|+|.+|+|||||...+....
T Consensus        28 ~~~~i~lvG~~g~GKStlin~l~g~~   53 (239)
T 3lxx_A           28 SQLRIVLVGKTGAGKSATGNSILGRK   53 (239)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTSC
T ss_pred             CceEEEEECCCCCCHHHHHHHHcCCC
Confidence            45679999999999999999998744

>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=91.81  E-value=0.095  Score=49.34  Aligned_cols=24  Identities=29%  Similarity=0.260  Sum_probs=21.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|+|++|+|||||...+....
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            589999999999999999999744

>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=91.80  E-value=0.085  Score=44.64  Aligned_cols=25  Identities=28%  Similarity=0.357  Sum_probs=21.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHh
Q 043778          155 EQVGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       155 ~~~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      ...--|+|+|.+|+|||||...+.+
T Consensus        27 ~~~~ki~v~G~~~vGKSsLi~~l~~   51 (192)
T 2b6h_A           27 KKQMRILMVGLDAAGKTTILYKLKL   51 (192)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHCS
T ss_pred             CCccEEEEECCCCCCHHHHHHHHHh
Confidence            3445699999999999999999865

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=91.73  E-value=0.096  Score=50.85  Aligned_cols=27  Identities=26%  Similarity=0.362  Sum_probs=23.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          155 EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       155 ~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..-.+++|+|+.|+|||||.+.+.+..
T Consensus       155 ~~Gq~~~IvG~sGsGKSTLl~~Iag~~  181 (438)
T 2dpy_A          155 GRGQRMGLFAGSGVGKSVLLGMMARYT  181 (438)
T ss_dssp             BTTCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            355799999999999999999999855

>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=91.72  E-value=0.1  Score=44.31  Aligned_cols=25  Identities=28%  Similarity=0.379  Sum_probs=21.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ...-|+|+|.+|+|||||...+.+.
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            4567899999999999999999864

>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=91.70  E-value=0.1  Score=43.77  Aligned_cols=24  Identities=29%  Similarity=0.198  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ..-|+|+|.+|+|||||...+.+.
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            456899999999999999998764

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=91.68  E-value=0.22  Score=42.85  Aligned_cols=41  Identities=20%  Similarity=0.134  Sum_probs=28.1

Q ss_pred             EEEEE-cCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHH
Q 043778          159 IIGLY-GMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIE  203 (405)
Q Consensus       159 vi~I~-G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~  203 (405)
                      +|+|+ +.||+||||+|..+.... ....   .++.++.....+..
T Consensus         2 vI~v~s~KGGvGKTT~a~~LA~~l-a~~g---~VlliD~D~q~~~~   43 (209)
T 3cwq_A            2 IITVASFKGGVGKTTTAVHLSAYL-ALQG---ETLLIDGDPNRSAT   43 (209)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHH-HTTS---CEEEEEECTTCHHH
T ss_pred             EEEEEcCCCCCcHHHHHHHHHHHH-HhcC---CEEEEECCCCCCHH
Confidence            56775 788999999999998766 2222   56667665544443

>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=91.67  E-value=0.11  Score=50.88  Aligned_cols=26  Identities=19%  Similarity=0.222  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|.++|++|+||||+++.+....
T Consensus        38 ~~~~IvlvGlpGsGKSTia~~La~~l   63 (469)
T 1bif_A           38 CPTLIVMVGLPARGKTYISKKLTRYL   63 (469)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHH
Confidence            45689999999999999999998754

>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=91.65  E-value=0.11  Score=43.72  Aligned_cols=24  Identities=29%  Similarity=0.382  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      --|+|+|.+|+|||||...+.+..
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            468999999999999999998743

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=91.65  E-value=0.095  Score=44.45  Aligned_cols=24  Identities=33%  Similarity=0.365  Sum_probs=20.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .--|+|+|.+|+|||||...+.+.
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            446889999999999999998763

>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=91.64  E-value=0.1  Score=44.48  Aligned_cols=24  Identities=29%  Similarity=0.346  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      --|+|+|.+|+|||||...+.+..
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~~   32 (206)
T 2bcg_Y            9 FKLLLIGNSGVGKSCLLLRFSDDT   32 (206)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Confidence            468999999999999999998643

>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=91.62  E-value=0.2  Score=47.52  Aligned_cols=53  Identities=11%  Similarity=-0.039  Sum_probs=34.4

Q ss_pred             HHHHHhhc-CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCC
Q 043778          147 KLWRCLTE-EQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVV  200 (405)
Q Consensus       147 ~l~~~L~~-~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~  200 (405)
                      ++++.+.. ..-..++|+|.+|+|||||++.+.+........+. ++++-+++..
T Consensus       163 raID~~~pi~rGQr~~IvG~sG~GKTtLl~~Iar~i~~~~~~v~-~I~~lIGER~  216 (422)
T 3ice_A          163 RVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCV-LMVLLIDERP  216 (422)
T ss_dssp             HHHHHHSCCBTTCEEEEECCSSSSHHHHHHHHHHHHHHHCTTSE-EEEEEESSCH
T ss_pred             eeeeeeeeecCCcEEEEecCCCCChhHHHHHHHHHHhhcCCCee-EEEEEecCCh
Confidence            34455443 35569999999999999999998764311112333 3457777654

>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=91.60  E-value=0.095  Score=44.62  Aligned_cols=24  Identities=21%  Similarity=0.185  Sum_probs=20.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .--|+|+|.+|+|||||...+.+.
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            446889999999999999998763

>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=91.46  E-value=0.11  Score=44.46  Aligned_cols=24  Identities=33%  Similarity=0.462  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-|+|+|.+|+|||||...+.+..
T Consensus        26 ~ki~vvG~~~~GKSsli~~l~~~~   49 (207)
T 2fv8_A           26 KKLVVVGDGACGKTCLLIVFSKDE   49 (207)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSS
T ss_pred             cEEEEECcCCCCHHHHHHHHhcCC
Confidence            468999999999999999998743

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A*

Probab=91.41  E-value=0.097  Score=43.63  Aligned_cols=23  Identities=26%  Similarity=0.394  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      --|+|+|.+|+|||||...+.+.
T Consensus        22 ~~i~v~G~~~~GKSsli~~l~~~   44 (181)
T 2h17_A           22 HKVIIVGLDNAGKTTILYQFSMN   44 (181)
T ss_dssp             EEEEEEEETTSSHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            46899999999999999999863

>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=91.38  E-value=0.11  Score=43.67  Aligned_cols=23  Identities=39%  Similarity=0.407  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      --|+|+|.+|+|||||...+.+.
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            46899999999999999999874

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=91.35  E-value=0.11  Score=52.00  Aligned_cols=25  Identities=28%  Similarity=0.481  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      -.+++|+|+.|+|||||++.++.-.
T Consensus       312 Ge~~~i~G~NGsGKSTLlk~l~Gl~  336 (538)
T 1yqt_A          312 GEVIGIVGPNGIGKTTFVKMLAGVE  336 (538)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4699999999999999999999743

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=91.34  E-value=0.096  Score=52.27  Aligned_cols=25  Identities=32%  Similarity=0.542  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      -.+++|+|+.|+|||||++.++.-.
T Consensus       294 Gei~~i~G~nGsGKSTLl~~l~Gl~  318 (538)
T 3ozx_A          294 GEIIGILGPNGIGKTTFARILVGEI  318 (538)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4589999999999999999999743

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens}

Probab=91.34  E-value=0.1  Score=44.96  Aligned_cols=24  Identities=33%  Similarity=0.484  Sum_probs=20.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .--|+|+|.+|+|||||...+.+.
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            346899999999999999998763

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=91.32  E-value=0.24  Score=42.29  Aligned_cols=23  Identities=26%  Similarity=0.465  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .|+|=|.-|+||||.++.+.+..
T Consensus         2 fI~~EG~DGsGKsTq~~~L~~~L   24 (197)
T 3hjn_A            2 FITFEGIDGSGKSTQIQLLAQYL   24 (197)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            47889999999999999998866

>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=91.31  E-value=0.13  Score=46.25  Aligned_cols=24  Identities=29%  Similarity=0.430  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ...|+++|.+|+|||||...+...
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            357899999999999999999864

>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome condensation, condensin, SMC, N subunit, ABC-type ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus ducreyi} PDB: 3euk_A*

Probab=91.26  E-value=0.11  Score=50.85  Aligned_cols=22  Identities=23%  Similarity=0.191  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q 043778          158 GIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      .+++|+|+.|+|||||.+.+..
T Consensus        30 e~~~liG~nGsGKSTLl~~l~G   51 (483)
T 3euj_A           30 LVTTLSGGNGAGKSTTMAGFVT   51 (483)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCcHHHHHHHHhc
Confidence            7999999999999999999875

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=91.25  E-value=0.093  Score=44.28  Aligned_cols=26  Identities=19%  Similarity=0.252  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...-|+|+|.+|+|||||...+.+..
T Consensus        16 ~~~ki~v~G~~~~GKSsl~~~l~~~~   41 (199)
T 4bas_A           16 TKLQVVMCGLDNSGKTTIINQVKPAQ   41 (199)
T ss_dssp             CEEEEEEECCTTSCHHHHHHHHSCCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            45679999999999999999988643

>2qag_C Septin-7; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=91.24  E-value=0.096  Score=50.48  Aligned_cols=22  Identities=23%  Similarity=0.232  Sum_probs=19.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043778          160 IGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      |+|+|.+|+|||||...+....
T Consensus        34 I~lvG~sGaGKSTLln~L~g~~   55 (418)
T 2qag_C           34 LMVVGESGLGKSTLINSLFLTD   55 (418)
T ss_dssp             EEEECCTTSSHHHHHHHHTTCC
T ss_pred             EEEECCCCCcHHHHHHHHhCCC
Confidence            5999999999999999998743

>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=91.23  E-value=0.12  Score=44.06  Aligned_cols=24  Identities=29%  Similarity=0.267  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .--|+|+|.+|+|||||...+.+.
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            456899999999999999998764

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=91.22  E-value=0.12  Score=44.27  Aligned_cols=23  Identities=35%  Similarity=0.348  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      --|+|+|.+|+|||||...+.+.
T Consensus        10 ~ki~i~G~~~~GKTsli~~l~~~   32 (212)
T 2j0v_A           10 IKCVTVGDGAVGKTCMLICYTSN   32 (212)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            45899999999999999998864

>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=91.22  E-value=0.12  Score=44.11  Aligned_cols=24  Identities=33%  Similarity=0.391  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ..-|+|+|.+|+|||||...+.+.
T Consensus        20 ~~~i~v~G~~~~GKSsli~~l~~~   43 (213)
T 3cph_A           20 IMKILLIGDSGVGKSCLLVRFVED   43 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            457899999999999999998864

>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=91.17  E-value=0.12  Score=44.77  Aligned_cols=23  Identities=30%  Similarity=0.302  Sum_probs=20.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      ..-|+|+|.+|+|||||...+..
T Consensus        37 ~~kVvlvG~~~vGKSSLl~r~~~   59 (211)
T 2g3y_A           37 YYRVVLIGEQGVGKSTLANIFAG   59 (211)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHh
Confidence            34689999999999999998874

>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=91.16  E-value=0.12  Score=43.88  Aligned_cols=23  Identities=35%  Similarity=0.553  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .-|+|+|.+|+|||||...+.+.
T Consensus        26 ~ki~vvG~~~~GKSsli~~l~~~   48 (201)
T 2gco_A           26 KKLVIVGDGACGKTCLLIVFSKD   48 (201)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            46899999999999999998874

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=91.13  E-value=0.093  Score=46.10  Aligned_cols=25  Identities=28%  Similarity=0.387  Sum_probs=19.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...|.|-|+.|+||||+++.+.+..
T Consensus        25 g~~I~~eG~~GsGKsT~~~~l~~~l   49 (227)
T 3v9p_A           25 GKFITFEGIDGAGKTTHLQWFCDRL   49 (227)
T ss_dssp             CCEEEEECCC---CHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999998865

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=91.12  E-value=0.12  Score=51.73  Aligned_cols=25  Identities=20%  Similarity=0.457  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      -.+++|+|+.|+|||||++.+....
T Consensus        47 Ge~~~LvG~NGaGKSTLlk~l~Gl~   71 (538)
T 1yqt_A           47 GMVVGIVGPNGTGKSTAVKILAGQL   71 (538)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3589999999999999999998743

>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=91.10  E-value=0.14  Score=51.90  Aligned_cols=26  Identities=23%  Similarity=0.353  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|.|.|++|+||||+|+.+....
T Consensus        51 ~g~lIvLtGlsGSGKSTlAr~La~~L   76 (630)
T 1x6v_B           51 RGCTVWLTGLSGAGKTTVSMALEEYL   76 (630)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHH
Confidence            56789999999999999999998743

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=91.08  E-value=0.12  Score=43.63  Aligned_cols=23  Identities=26%  Similarity=0.325  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      --|+|+|.+|+|||||...+.+.
T Consensus        27 ~ki~vvG~~~~GKSsLi~~l~~~   49 (192)
T 2il1_A           27 LQVIIIGSRGVGKTSLMERFTDD   49 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHCC-
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            45889999999999999998764

>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=91.08  E-value=0.17  Score=41.16  Aligned_cols=22  Identities=36%  Similarity=0.392  Sum_probs=19.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHH
Q 043778          157 VGIIGLYGMGSVGKTTLLILIN  178 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~  178 (405)
                      ..+.+|+|+.|+|||||...++
T Consensus        23 ~g~~~I~G~NGsGKStil~Ai~   44 (149)
T 1f2t_A           23 EGINLIIGQNGSGKSSLLDAIL   44 (149)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHH
Confidence            4588999999999999988875

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=91.07  E-value=0.13  Score=45.23  Aligned_cols=50  Identities=16%  Similarity=0.135  Sum_probs=31.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHHHH
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESI  209 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i  209 (405)
                      .-.++.|.|.+|+|||+||..+..+. - ...-..++|++..  .+...+...+
T Consensus        29 ~G~l~~i~G~pG~GKT~l~l~~~~~~-~-~~~~~~v~~~s~E--~~~~~~~~~~   78 (251)
T 2zts_A           29 EGTTVLLTGGTGTGKTTFAAQFIYKG-A-EEYGEPGVFVTLE--ERARDLRREM   78 (251)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHHHH-H-HHHCCCEEEEESS--SCHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH-H-HhcCCCceeeccc--CCHHHHHHHH
Confidence            35689999999999999998865321 0 1112346666544  3455555544

>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=91.00  E-value=0.15  Score=44.38  Aligned_cols=25  Identities=24%  Similarity=0.394  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ...-|+|+|.+|+|||||...+.+.
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            4567999999999999999998864

>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=90.99  E-value=0.13  Score=44.33  Aligned_cols=25  Identities=24%  Similarity=0.260  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .--|.|+|.+|+|||||...+.+..
T Consensus        27 ~~ki~vvG~~~vGKSsL~~~l~~~~   51 (214)
T 3q3j_B           27 RCKLVLVGDVQCGKTAMLQVLAKDC   51 (214)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcCC
Confidence            3468899999999999999988743

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=90.93  E-value=0.12  Score=52.31  Aligned_cols=25  Identities=28%  Similarity=0.481  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      -.+++|+|+.|+|||||.+.+..-.
T Consensus       382 Gei~~i~G~NGsGKSTLlk~l~Gl~  406 (607)
T 3bk7_A          382 GEVIGIVGPNGIGKTTFVKMLAGVE  406 (607)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            4689999999999999999999743

>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=90.92  E-value=0.13  Score=44.65  Aligned_cols=21  Identities=33%  Similarity=0.379  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q 043778          159 IIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      -|.|+|-+|+|||+|...+.+
T Consensus        15 KivlvGd~~VGKTsLi~r~~~   35 (216)
T 4dkx_A           15 KLVFLGEQSVGKTSLITRFMY   35 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECcCCcCHHHHHHHHHh
Confidence            478999999999999998876

>1m8p_A Sulfate adenylyltransferase; rossmann fold, phosphosulfate binding, T-state; HET: PPS; 2.60A {Penicillium chrysogenum} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1i2d_A*

Probab=90.92  E-value=0.19  Score=50.58  Aligned_cols=26  Identities=23%  Similarity=0.119  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|.|.|++|+||||+|+.+....
T Consensus       395 ~~~~I~l~GlsGSGKSTiA~~La~~L  420 (573)
T 1m8p_A          395 QGFTIFLTGYMNSGKDAIARALQVTL  420 (573)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cceEEEeecCCCCCHHHHHHHHHHHh
Confidence            45789999999999999999998854

>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=90.91  E-value=0.075  Score=44.26  Aligned_cols=23  Identities=30%  Similarity=0.319  Sum_probs=9.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      --|+|+|.+|+|||||...+.+.
T Consensus         9 ~ki~v~G~~~~GKssl~~~l~~~   31 (183)
T 2fu5_C            9 FKLLLIGDSGVGKTCVLFRFSED   31 (183)
T ss_dssp             EEEEEECCCCC------------
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            46899999999999999888753

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=90.89  E-value=0.12  Score=52.23  Aligned_cols=24  Identities=33%  Similarity=0.538  Sum_probs=21.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|+|+.|+|||||++.+..-.
T Consensus       379 Eiv~iiG~NGsGKSTLlk~l~Gl~  402 (608)
T 3j16_B          379 EILVMMGENGTGKTTLIKLLAGAL  402 (608)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHTSS
T ss_pred             eEEEEECCCCCcHHHHHHHHhcCC
Confidence            579999999999999999998743

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=90.88  E-value=0.17  Score=42.25  Aligned_cols=23  Identities=17%  Similarity=0.232  Sum_probs=20.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      -.-|.|.|.+|+||||||..+..
T Consensus        16 G~gvli~G~SGaGKStlal~L~~   38 (181)
T 3tqf_A           16 KMGVLITGEANIGKSELSLALID   38 (181)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHH
Confidence            45788999999999999999987

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=90.88  E-value=0.12  Score=51.58  Aligned_cols=26  Identities=35%  Similarity=0.621  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.+++|+|+.|+|||||.+.+..-.
T Consensus        24 ~Gei~gLiGpNGaGKSTLlkiL~Gl~   49 (538)
T 3ozx_A           24 NNTILGVLGKNGVGKTTVLKILAGEI   49 (538)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            34699999999999999999998743

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens}

Probab=90.88  E-value=0.095  Score=44.05  Aligned_cols=25  Identities=20%  Similarity=0.194  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .--|+|+|.+|+|||||...+.+..
T Consensus        21 ~~ki~v~G~~~~GKSsli~~l~~~~   45 (190)
T 2h57_A           21 EVHVLCLGLDNSGKTTIINKLKPSN   45 (190)
T ss_dssp             CEEEEEEECTTSSHHHHHHHTSCGG
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcCC
Confidence            3468899999999999999987643

>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=90.70  E-value=0.17  Score=47.97  Aligned_cols=40  Identities=13%  Similarity=0.174  Sum_probs=28.7

Q ss_pred             CceEEEEEc-CCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCC
Q 043778          156 QVGIIGLYG-MGSVGKTTLLILINNKFLDEPNYFDVVIWAVASK  198 (405)
Q Consensus       156 ~~~vi~I~G-~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~  198 (405)
                      +.++|+|+| .||+||||+|..+.... ....  ..++.++...
T Consensus       142 ~~kvIav~s~KGGvGKTT~a~nLA~~L-a~~g--~rVlliD~D~  182 (373)
T 3fkq_A          142 KSSVVIFTSPCGGVGTSTVAAACAIAH-ANMG--KKVFYLNIEQ  182 (373)
T ss_dssp             SCEEEEEECSSTTSSHHHHHHHHHHHH-HHHT--CCEEEEECCT
T ss_pred             CceEEEEECCCCCChHHHHHHHHHHHH-HhCC--CCEEEEECCC
Confidence            578999986 99999999999887654 1111  2467777663

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=90.65  E-value=0.066  Score=49.35  Aligned_cols=24  Identities=29%  Similarity=0.322  Sum_probs=20.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      -.+++|+|++|+|||||...+...
T Consensus       173 G~~~~lvG~sG~GKSTLln~L~g~  196 (307)
T 1t9h_A          173 DKTTVFAGQSGVGKSSLLNAISPE  196 (307)
T ss_dssp             TSEEEEEESHHHHHHHHHHHHCC-
T ss_pred             CCEEEEECCCCCCHHHHHHHhccc
Confidence            358999999999999999999753

>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=90.64  E-value=0.17  Score=43.57  Aligned_cols=24  Identities=25%  Similarity=0.389  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..|+|-|.-|+||||+++.+.+..
T Consensus         3 kFI~~EG~dGsGKsTq~~~L~~~L   26 (205)
T 4hlc_A            3 AFITFEGPEGSGKTTVINEVYHRL   26 (205)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHH
Confidence            468999999999999999999876

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=90.63  E-value=0.14  Score=51.95  Aligned_cols=26  Identities=31%  Similarity=0.534  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.+++|+|+.|+|||||.+.+..-.
T Consensus       102 ~Gei~~LvGpNGaGKSTLLkiL~Gll  127 (608)
T 3j16_B          102 PGQVLGLVGTNGIGKSTALKILAGKQ  127 (608)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcCC
Confidence            34699999999999999999998743

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=90.63  E-value=0.13  Score=44.13  Aligned_cols=24  Identities=29%  Similarity=0.292  Sum_probs=20.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .--|+|+|.+|+|||||...+.+.
T Consensus        25 ~~ki~vvG~~~~GKSsLi~~l~~~   48 (217)
T 2f7s_A           25 LIKLLALGDSGVGKTTFLYRYTDN   48 (217)
T ss_dssp             EEEEEEESCTTSSHHHHHHHHHCS
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcC
Confidence            346899999999999999998863

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=90.59  E-value=0.18  Score=43.91  Aligned_cols=25  Identities=28%  Similarity=0.355  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...|.|-|+.|+||||++..+.+..
T Consensus         5 g~~i~~eG~~g~GKst~~~~l~~~l   29 (216)
T 3tmk_A            5 GKLILIEGLDRTGKTTQCNILYKKL   29 (216)
T ss_dssp             CCEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3589999999999999999999976

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=90.58  E-value=0.3  Score=47.33  Aligned_cols=43  Identities=28%  Similarity=0.424  Sum_probs=31.8

Q ss_pred             ccchHHHHHHHHHhhc-----------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          139 VGLESIFDKLWRCLTE-----------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       139 vGr~~~~~~l~~~L~~-----------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .|.++-++.+.+.+..           +....|+|+|.+|+|||||...+....
T Consensus       151 ~gv~~L~~~i~~~l~~~~~~~~~~~~~~~~~kvaivG~~gvGKSTLln~l~g~~  204 (439)
T 1mky_A          151 INLDTMLETIIKKLEEKGLDLESKPEITDAIKVAIVGRPNVGKSTLFNAILNKE  204 (439)
T ss_dssp             BSHHHHHHHHHHHHHHTTCCSSSCCCCCSCEEEEEECSTTSSHHHHHHHHHTST
T ss_pred             CCHHHHHHHHHHhcccccccchhccccccCceEEEECCCCCCHHHHHHHHhCCc
Confidence            4566667777666641           123579999999999999999998743

>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; HET: ANP; 3.70A {Salmonella typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A* 3b5z_A* 3b5w_A

Probab=90.56  E-value=0.12  Score=52.11  Aligned_cols=35  Identities=23%  Similarity=0.261  Sum_probs=27.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||++.+..-.    ....+.+.+
T Consensus       368 ~G~~~~ivG~sGsGKSTLl~~l~g~~----~p~~G~i~~  402 (582)
T 3b60_A          368 AGKTVALVGRSGSGKSTIASLITRFY----DIDEGHILM  402 (582)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHTTTT----CCSEEEEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhhcc----CCCCCeEEE
Confidence            45689999999999999999998743    234566665

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=90.47  E-value=0.29  Score=43.72  Aligned_cols=37  Identities=16%  Similarity=0.248  Sum_probs=27.0

Q ss_pred             HHHHHHHhhcC--CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          145 FDKLWRCLTEE--QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       145 ~~~l~~~L~~~--~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.++.+.+...  ....|+|+|.+|+|||||...+....
T Consensus        22 l~~~~~~~~~~~~~~~~I~lvG~~g~GKSSLin~l~~~~   60 (262)
T 3def_A           22 LIEFFGKLKQKDMNSMTVLVLGKGGVGKSSTVNSLIGEQ   60 (262)
T ss_dssp             HHHHHHHHHHTTCCEEEEEEEECTTSSHHHHHHHHHTSC
T ss_pred             HHHHHHHHhhccCCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            33444444432  45579999999999999999998743

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=90.47  E-value=0.13  Score=51.90  Aligned_cols=35  Identities=23%  Similarity=0.227  Sum_probs=26.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||++.+..-.    ....+.+.+
T Consensus       368 ~G~~~~ivG~sGsGKSTll~~l~g~~----~p~~G~i~~  402 (582)
T 3b5x_A          368 QGKTVALVGRSGSGKSTIANLFTRFY----DVDSGSICL  402 (582)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC----CCCCCEEEE
Confidence            45689999999999999999998744    223455554

>1dek_A Deoxynucleoside monophosphate kinase; transferase, phosphotransferase; HET: DGP; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1 PDB: 1del_A*

Probab=90.44  E-value=0.18  Score=44.65  Aligned_cols=23  Identities=30%  Similarity=0.291  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .+|+|.|+.|+||||+|..+...
T Consensus         2 ~~i~ltG~~~sGK~tv~~~l~~~   24 (241)
T 1dek_A            2 KLIFLSGVKRSGKDTTADFIMSN   24 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            48999999999999999998763

>2xtp_A GTPase IMAP family member 2; immune system, G protein; HET: MSE; 1.50A {Homo sapiens} PDB: 2xto_A* 2xtm_A* 2xtn_A* 3p1j_A

Probab=90.42  E-value=0.18  Score=44.88  Aligned_cols=25  Identities=28%  Similarity=0.060  Sum_probs=21.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ....|+|+|.+|+|||||...+...
T Consensus        21 ~~~~I~lvG~~g~GKStl~n~l~~~   45 (260)
T 2xtp_A           21 SELRIILVGKTGTGKSAAGNSILRK   45 (260)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHTS
T ss_pred             CceEEEEECCCCCCHHHHHHHHhCC
Confidence            4567999999999999999998763

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=90.34  E-value=0.3  Score=43.80  Aligned_cols=37  Identities=27%  Similarity=0.259  Sum_probs=26.6

Q ss_pred             HHHHHHHhhcC--CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          145 FDKLWRCLTEE--QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       145 ~~~l~~~L~~~--~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.++.+.+...  ....|+++|.+|+|||||...+.+..
T Consensus        25 l~~~~~~~~~~~~~~~~I~vvG~~g~GKSSLin~l~~~~   63 (270)
T 1h65_A           25 LLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGER   63 (270)
T ss_dssp             HHHHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             HHHHHHHHhhcCCCCeEEEEECCCCCCHHHHHHHHhCCC
Confidence            34444444432  34578999999999999999998743

>2oze_A ORF delta'; para, walker type atpases, DNA segregation, PSM19035, plasmid, DNA binding protein; HET: AGS EPE; 1.83A {Streptococcus pyogenes}

Probab=90.31  E-value=0.16  Score=46.34  Aligned_cols=36  Identities=25%  Similarity=0.366  Sum_probs=25.1

Q ss_pred             HHHHHHHhhcCCceEEEEEc---CCCCcHHHHHHHHHhhc
Q 043778          145 FDKLWRCLTEEQVGIIGLYG---MGSVGKTTLLILINNKF  181 (405)
Q Consensus       145 ~~~l~~~L~~~~~~vi~I~G---~~GiGKTtLA~~v~~~~  181 (405)
                      ..++.+.+.. +.++|+|++   .||+||||+|..+....
T Consensus        23 ~~~~~r~~~~-~~~~i~v~~~s~KGGvGKTT~a~nLA~~l   61 (298)
T 2oze_A           23 LEELRRILSN-KNEAIVILNNYFKGGVGKSKLSTMFAYLT   61 (298)
T ss_dssp             HHHHHHHHHH-HCSCEEEEECCSSSSSSHHHHHHHHHHHH
T ss_pred             HHHHHHHhcC-CCcEEEEEeccCCCCchHHHHHHHHHHHH
Confidence            3444444433 346777776   99999999999988655

>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S rRNA, 30S ribosome ASSE GTP-binding, nucleotide-binding; HET: GNP; 1.90A {Aquifex aeolicus} PDB: 3r9w_A* 3r9x_A*

Probab=90.27  E-value=0.17  Score=46.62  Aligned_cols=25  Identities=36%  Similarity=0.538  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ....|+|+|.+|+|||||...+...
T Consensus         9 ~~g~v~ivG~~nvGKSTLin~l~g~   33 (308)
T 3iev_A            9 KVGYVAIVGKPNVGKSTLLNNLLGT   33 (308)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCC
Confidence            4568999999999999999998874

>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; 2.79A {Clostridium symbiosum atcc 14940}

Probab=90.25  E-value=0.19  Score=43.96  Aligned_cols=25  Identities=12%  Similarity=-0.033  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..+|+|.|+.|+||||+|+.+....
T Consensus        14 ~~iI~i~g~~gsGk~~i~~~la~~l   38 (223)
T 3hdt_A           14 NLIITIEREYGSGGRIVGKKLAEEL   38 (223)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHc
Confidence            4699999999999999999999855

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=90.19  E-value=0.17  Score=43.85  Aligned_cols=23  Identities=35%  Similarity=0.340  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      --|+|+|.+|+|||||...+.+.
T Consensus        14 ~ki~v~G~~~vGKSsli~~l~~~   36 (223)
T 3cpj_B           14 FKIVLIGDSGVGKSNLLSRFTKN   36 (223)
T ss_dssp             EEEEEESCTTSSHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcC
Confidence            46899999999999999998874

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=90.18  E-value=0.14  Score=51.85  Aligned_cols=26  Identities=23%  Similarity=0.464  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.+++|+|+.|+|||||.+.+....
T Consensus       116 ~Ge~~~LiG~NGsGKSTLlkiL~Gll  141 (607)
T 3bk7_A          116 DGMVVGIVGPNGTGKTTAVKILAGQL  141 (607)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhCCC
Confidence            34699999999999999999998743

>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=90.17  E-value=0.6  Score=46.04  Aligned_cols=54  Identities=11%  Similarity=-0.012  Sum_probs=38.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHHHHHHHh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKI  213 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i~~~l  213 (405)
                      .-.++.|.|.+|+||||||..+..+. ..+ +=..++|++.-  .+..++...++...
T Consensus       241 ~G~l~li~G~pG~GKT~lal~~a~~~-a~~-~g~~vl~~s~E--~s~~~l~~r~~~~~  294 (503)
T 1q57_A          241 GGEVIMVTSGSGMVMSTFVRQQALQW-GTA-MGKKVGLAMLE--ESVEETAEDLIGLH  294 (503)
T ss_dssp             TTCEEEEEESSCHHHHHHHHHHHHHH-TTT-SCCCEEEEESS--SCHHHHHHHHHHHH
T ss_pred             CCeEEEEeecCCCCchHHHHHHHHHH-HHh-cCCcEEEEecc--CCHHHHHHHHHHHH
Confidence            34689999999999999999988765 222 11357777653  45677777776554

>1zcb_A G alpha I/13; GTP-binding, lipoprotein, membrane, transducer, signaling PR; HET: GDP; 2.00A {Mus musculus} SCOP: a.66.1.1 c.37.1.8 PDB: 3ab3_A* 3cx8_A* 3cx7_A* 3cx6_A* 1zca_A*

Probab=90.11  E-value=0.19  Score=47.49  Aligned_cols=22  Identities=36%  Similarity=0.483  Sum_probs=19.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHH
Q 043778          156 QVGIIGLYGMGSVGKTTLLILI  177 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v  177 (405)
                      ...-|.|.|.||+||||+++.+
T Consensus        32 ~~~killlG~~~SGKST~~kq~   53 (362)
T 1zcb_A           32 RLVKILLLGAGESGKSTFLKQM   53 (362)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHH
T ss_pred             CccEEEEECCCCCcHHHHHHHH
Confidence            4567899999999999999985

>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=90.07  E-value=0.55  Score=45.65  Aligned_cols=63  Identities=21%  Similarity=0.275  Sum_probs=45.6

Q ss_pred             HHHHhhc-CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCC-HHHHHHHHHHH
Q 043778          148 LWRCLTE-EQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVE-IEKIQESIAKK  212 (405)
Q Consensus       148 l~~~L~~-~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~-~~~l~~~i~~~  212 (405)
                      .++.|.- ..-..++|.|.+|+|||+|+..+.++. . +.+-+.++++-+++... ..+++.++...
T Consensus       143 ~ID~l~pigkGQr~~Ifgg~G~GKT~L~~~i~~~~-~-~~~~~v~V~~~iGER~rEv~e~~~~~~~~  207 (482)
T 2ck3_D          143 VVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNV-A-KAHGGYSVFAGVGERTREGNDLYHEMIES  207 (482)
T ss_dssp             HHHHHSCEETTCEEEEEECTTSSHHHHHHHHHHHT-T-TTCSSEEEEEEESCCHHHHHHHHHHHHHH
T ss_pred             EEecccccccCCeeeeecCCCCChHHHHHHHHHhh-H-hhCCCEEEEEECCCcchHHHHHHHHhhhc
Confidence            3444432 355789999999999999999998853 1 33457788888888754 56677777765

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=90.01  E-value=0.35  Score=48.32  Aligned_cols=26  Identities=23%  Similarity=0.276  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|.+.|++|+||||+|+.+....
T Consensus       371 ~~~~I~l~G~~GsGKSTia~~La~~L  396 (546)
T 2gks_A          371 QGFCVWLTGLPCAGKSTIAEILATML  396 (546)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cceEEEccCCCCCCHHHHHHHHHHHh
Confidence            45789999999999999999998754

>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote initiative, RSGI, structural genomics, hydrolase; HET: GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8 d.52.3.1

Probab=89.99  E-value=0.19  Score=46.10  Aligned_cols=24  Identities=33%  Similarity=0.477  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ...|+|+|.+|+|||||...+...
T Consensus         7 ~g~V~ivG~~nvGKSTLln~l~g~   30 (301)
T 1wf3_A            7 SGFVAIVGKPNVGKSTLLNNLLGV   30 (301)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            357999999999999999999874

>4i1u_A Dephospho-COA kinase; structural genomics, niaid, national institute of allergy AN infectious diseases; 2.05A {Burkholderia vietnamiensis} PDB: 4i1v_A*

Probab=89.97  E-value=0.19  Score=43.52  Aligned_cols=24  Identities=38%  Similarity=0.344  Sum_probs=20.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      ....|+++|.-|+||||+++.+..
T Consensus         8 ~~~~iglTGgigsGKStv~~~l~~   31 (210)
T 4i1u_A            8 HMYAIGLTGGIGSGKTTVADLFAA   31 (210)
T ss_dssp             SCCEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHH
Confidence            345799999999999999998865

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=89.95  E-value=0.41  Score=46.50  Aligned_cols=53  Identities=13%  Similarity=0.149  Sum_probs=36.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHHHHHHHh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKI  213 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i~~~l  213 (405)
                      .-.++.|.|.+|+||||||..+..+. ..+.  ..++|++.-  .+..++...++...
T Consensus       196 ~G~liiIaG~pG~GKTtlal~ia~~~-a~~g--~~vl~fSlE--ms~~ql~~R~~~~~  248 (444)
T 3bgw_A          196 RRNFVLIAARPSMGKTAFALKQAKNM-SDND--DVVNLHSLE--MGKKENIKRLIVTA  248 (444)
T ss_dssp             SSCEEEEEECSSSSHHHHHHHHHHHH-HHTT--CEEEEECSS--SCTTHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCChHHHHHHHHHHH-HHcC--CEEEEEECC--CCHHHHHHHHHHHH
Confidence            34689999999999999999988765 2221  356777543  45556666666554

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=89.92  E-value=0.27  Score=48.72  Aligned_cols=24  Identities=29%  Similarity=0.041  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|+|+.|+|||||++.+..-.
T Consensus       261 ~~i~I~GptGSGKTTlL~aL~~~i  284 (511)
T 2oap_1          261 FSAIVVGETASGKTTTLNAIMMFI  284 (511)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGGS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhC
Confidence            469999999999999999998743

>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=89.92  E-value=0.21  Score=43.65  Aligned_cols=26  Identities=27%  Similarity=0.030  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.++.|.|..|+||||++..+.+..
T Consensus        11 ~G~i~litG~mGsGKTT~ll~~~~r~   36 (223)
T 2b8t_A           11 IGWIEFITGPMFAGKTAELIRRLHRL   36 (223)
T ss_dssp             CCEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCcHHHHHHHHHHHH
Confidence            44689999999999999888877755

>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=89.87  E-value=0.56  Score=45.82  Aligned_cols=62  Identities=21%  Similarity=0.283  Sum_probs=45.5

Q ss_pred             HHHhhc-CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCC-HHHHHHHHHHH
Q 043778          149 WRCLTE-EQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVE-IEKIQESIAKK  212 (405)
Q Consensus       149 ~~~L~~-~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~-~~~l~~~i~~~  212 (405)
                      ++.|.- ..-..++|.|.+|+|||+|+..+.++. . +.+-+.++++-+++... ..+++.++...
T Consensus       156 ID~l~pigkGqr~gIfgg~GvGKT~L~~~l~~~~-a-~~~~~v~V~~~iGER~rEv~e~~~~~~~~  219 (498)
T 1fx0_B          156 VNLLAPYRRGGKIGLFGGAGVGKTVLIMELINNI-A-KAHGGVSVFGGVGERTREGNDLYMEMKES  219 (498)
T ss_dssp             HHHHSCCCTTCCEEEEECSSSSHHHHHHHHHHHT-T-TTCSSCEEEEEESCCSHHHHHHHHHHHHT
T ss_pred             eeeecccccCCeEEeecCCCCCchHHHHHHHHHH-H-hhCCCEEEEEEcccCcHHHHHHHHhhhcc
Confidence            444432 345689999999999999999998853 1 34557888998988764 56777777654

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=89.76  E-value=0.13  Score=43.13  Aligned_cols=25  Identities=20%  Similarity=0.352  Sum_probs=21.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHh
Q 043778          155 EQVGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       155 ~~~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      ...--|+|+|.+|+|||||...+.+
T Consensus        20 ~~~~~i~v~G~~~~GKssli~~l~~   44 (189)
T 2x77_A           20 DRKIRVLMLGLDNAGKTSILYRLHL   44 (189)
T ss_dssp             TSCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHc
Confidence            3455799999999999999998864

>2qtf_A Protein HFLX, GTP-binding protein; beta-alpha-barrels, nucleotide-binding, nucleotide binding protein; 2.00A {Sulfolobus solfataricus P2} PDB: 2qth_A* 3kxi_A* 3kxl_A 3kxk_A

Probab=89.67  E-value=0.18  Score=47.59  Aligned_cols=26  Identities=27%  Similarity=0.414  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +..+|+|+|.+|+|||||...+.+..
T Consensus       178 ~~~~V~lvG~~naGKSTLln~L~~~~  203 (364)
T 2qtf_A          178 NIPSIGIVGYTNSGKTSLFNSLTGLT  203 (364)
T ss_dssp             -CCEEEEECBTTSSHHHHHHHHHCC-
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHCCC
Confidence            56679999999999999999998743

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=89.61  E-value=0.17  Score=50.32  Aligned_cols=20  Identities=25%  Similarity=0.222  Sum_probs=0.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHH
Q 043778          158 GIIGLYGMGSVGKTTLLILI  177 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v  177 (405)
                      .+++|+|++|+|||||++.+
T Consensus        40 e~~~l~G~nGsGKSTL~~~~   59 (525)
T 1tf7_A           40 RSTLVSGTSGTGKTLFSIQF   59 (525)
T ss_dssp             SEEEEEESTTSSHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHH

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=89.60  E-value=0.12  Score=44.52  Aligned_cols=26  Identities=23%  Similarity=0.267  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +...|+|+|..|+|||||...+.+..
T Consensus        28 ~~~~i~v~G~~~~GKSslin~l~~~~   53 (223)
T 4dhe_A           28 VQPEIAFAGRSNAGKSTAINVLCNQK   53 (223)
T ss_dssp             CSCEEEEEESCHHHHHHHHHHHTTCS
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCC
Confidence            45678999999999999999998753

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=89.54  E-value=0.2  Score=48.81  Aligned_cols=52  Identities=15%  Similarity=0.126  Sum_probs=35.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHHHHHH
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAK  211 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i~~  211 (405)
                      .-.++.|.|.+|+||||||..+.... .... =..++|++..  .+...+...++.
T Consensus       202 ~G~liiI~G~pG~GKTtl~l~ia~~~-~~~~-g~~Vl~~s~E--~s~~~l~~r~~~  253 (454)
T 2r6a_A          202 RSDLIIVAARPSVGKTAFALNIAQNV-ATKT-NENVAIFSLE--MSAQQLVMRMLC  253 (454)
T ss_dssp             TTCEEEEECCTTSCHHHHHHHHHHHH-HHHS-SCCEEEEESS--SCHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHH-HHhC-CCcEEEEECC--CCHHHHHHHHHH
Confidence            34689999999999999999988755 2111 1257777643  455667666654

>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=89.53  E-value=0.17  Score=52.81  Aligned_cols=46  Identities=28%  Similarity=0.260  Sum_probs=34.8

Q ss_pred             cccccchHHHHHHHHHhhc-------------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE-------------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .++.|.++.+++|.+.+.-             ...+-|.++|++|.|||.||+.+.+..
T Consensus       477 ~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~  535 (806)
T 3cf2_A          477 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC  535 (806)
T ss_dssp             TTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTT
T ss_pred             HHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHh
Confidence            4567788777777765431             134568899999999999999999954

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=89.51  E-value=0.26  Score=43.26  Aligned_cols=41  Identities=12%  Similarity=0.042  Sum_probs=27.5

Q ss_pred             CceEEEEEc-CCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCC
Q 043778          156 QVGIIGLYG-MGSVGKTTLLILINNKFLDEPNYFDVVIWAVASK  198 (405)
Q Consensus       156 ~~~vi~I~G-~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~  198 (405)
                      ..++|+|++ .||+||||+|..+.... .... =..++.|+...
T Consensus         3 ~~~vI~v~s~kGGvGKTt~a~~LA~~l-a~~~-g~~VlliD~D~   44 (245)
T 3ea0_A            3 AKRVFGFVSAKGGDGGSCIAANFAFAL-SQEP-DIHVLAVDISL   44 (245)
T ss_dssp             CCEEEEEEESSTTSSHHHHHHHHHHHH-TTST-TCCEEEEECCT
T ss_pred             CCeEEEEECCCCCcchHHHHHHHHHHH-HhCc-CCCEEEEECCC
Confidence            357888875 68899999999998766 2220 12456666543

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=89.49  E-value=0.16  Score=45.89  Aligned_cols=23  Identities=22%  Similarity=0.203  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      --|+|+|.+|+|||||...++..
T Consensus         9 ~~I~vvG~~g~GKSTLin~L~~~   31 (274)
T 3t5d_A            9 FTLMVVGESGLGKSTLINSLFLT   31 (274)
T ss_dssp             EEEEEEECTTSSHHHHHHHHSSS
T ss_pred             EEEEEECCCCCCHHHHHHHHhCC
Confidence            35899999999999999998763

>1wcv_1 SOJ, segregation protein; ATPase, bacterial, chromosome segregation; 1.6A {Thermus thermophilus} PDB: 2bej_A* 2bek_A*

Probab=89.45  E-value=0.16  Score=45.28  Aligned_cols=39  Identities=28%  Similarity=0.257  Sum_probs=26.9

Q ss_pred             CceEEEEE-cCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeC
Q 043778          156 QVGIIGLY-GMGSVGKTTLLILINNKFLDEPNYFDVVIWAVAS  197 (405)
Q Consensus       156 ~~~vi~I~-G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs  197 (405)
                      +.++|+|+ +.||+||||+|..+.... ....  ..++.|+..
T Consensus         5 ~~~vI~v~s~kGGvGKTt~a~~LA~~l-a~~g--~~VlliD~D   44 (257)
T 1wcv_1            5 KVRRIALANQKGGVGKTTTAINLAAYL-ARLG--KRVLLVDLD   44 (257)
T ss_dssp             CCCEEEECCSSCCHHHHHHHHHHHHHH-HHTT--CCEEEEECC
T ss_pred             CCEEEEEEeCCCCchHHHHHHHHHHHH-HHCC--CCEEEEECC
Confidence            45789997 688999999999988755 2121  245555544

---

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	405
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	3e-10

>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 = 58.3 bits (140), Expect = 3e-10
 Identities = 27/276 (9%), Positives = 61/276 (22%), Gaps = 84/276 (30%)

Query: 118 QEVAQRLPENPVDARPVALTIVGLESIFDKLWRCLTE---EQVGIIGLYGMGSVGKTTLL 174
           Q + ++L    V  +    T    E   D++ + L E        + L+G    GK+ + 
Sbjct: 5   QMLDRKLLLGNVPKQM---TCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIA 61

Query: 175 ILI-NNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFFNESW--------ESKTV 225
               +         +D ++W   S               +   +E             +V
Sbjct: 62  SQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSV 121

Query: 226 QEKAVDIFNILSKKKY-------------------------------------------- 241
             K +    ++ +                                               
Sbjct: 122 VLKRMICNALIDRPNTLFVFDDVVQEETIRWAQELRLRCLVTTRDVEISNAASQTCEFIE 181

Query: 242 ------EDAWKLFEEKVGRDILDSHPNIPELVETVAKEC----------GAMASRKTHQE 285
                 ++ +   E       +        ++    +                  KT ++
Sbjct: 182 VTSLEIDECYDFLEAYGMPMPVGEKEED--VLNKTIELSSGNPATLMMFFKSCEPKTFEK 239

Query: 286 WEYAIEVWRNE------YTLVYSYDFLPSDVGRFCL 315
                    +           YSY  L   + R C+
Sbjct: 240 MAQLNNKLESRGLVGVECITPYSYKSLAMALQR-CV 274

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	405
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	99.93
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.27
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	97.89
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	97.79
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	97.74
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.66
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	97.64
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	97.58
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	97.54
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	97.47
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	97.43
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	97.42
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.37
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	97.31
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	97.25
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.17
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.1
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.08
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.06
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.01
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.97
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	96.97
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	96.95
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	96.86
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	96.85
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	96.83
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	96.79
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	96.74
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.74
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.74
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	96.73
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.71
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	96.69
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	96.68
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.67
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	96.67
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	96.65
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	96.64
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.62
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	96.61
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.57
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	96.55
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	96.52
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	96.47
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	96.41
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.4
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.34
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	96.34
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.34
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	96.29
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.28
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.27
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.18
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.14
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	96.09
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.08
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.05
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.04
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.01
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.01
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	95.92
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	95.92
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	95.9
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	95.89
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	95.88
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	95.83
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	95.74
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	95.74
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	95.73
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	95.66
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	95.61
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	95.61
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	95.59
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	95.55
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	95.54
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	95.51
d2qy9a2	211	GTPase domain of the signal recognition particle r	95.5
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	95.48
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	95.48
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	95.44
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	95.27
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	95.24
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	95.23
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	95.12
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	95.1
d1g2912	240	Maltose transport protein MalK, N-terminal domain	95.1
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	95.07
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	95.07
d1okkd2	207	GTPase domain of the signal recognition particle r	95.07
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	95.06
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	95.03
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	95.02
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	95.01
d2awna2	232	Maltose transport protein MalK, N-terminal domain	94.96
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	94.91
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	94.88
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	94.86
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	94.82
d1ls1a2	207	GTPase domain of the signal sequence recognition p	94.82
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	94.76
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	94.73
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	94.69
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	94.55
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	94.53
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	94.53
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	94.52
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	94.52
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.47
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	94.43
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	94.39
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	94.38
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	94.38
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	94.37
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	94.37
d1j8yf2	211	GTPase domain of the signal sequence recognition p	94.31
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	94.28
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	94.24
d1vmaa2	213	GTPase domain of the signal recognition particle r	94.24
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	94.09
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	94.04
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	94.03
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	94.02
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	93.99
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	93.99
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	93.91
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	93.89
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	93.89
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	93.89
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	93.87
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	93.86
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	93.76
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	93.75
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	93.67
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	93.66
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	93.61
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	93.59
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	93.55
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	93.52
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	93.5
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	93.49
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	93.47
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	93.46
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	93.44
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	93.43
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	93.41
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	93.4
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	93.39
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	93.39
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	93.38
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	93.34
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	93.32
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	93.32
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	93.29
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	93.27
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	93.24
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	93.21
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	93.21
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	93.17
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	93.15
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	93.15
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	93.07
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	93.06
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	93.0
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	92.97
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	92.97
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	92.97
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	92.9
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	92.86
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	92.84
d2fh5b1	207	Signal recognition particle receptor beta-subunit	92.81
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	92.77
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	92.73
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	92.72
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	92.69
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	92.68
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	92.68
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	92.66
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	92.57
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	92.57
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	92.43
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	92.42
d1nrjb_	209	Signal recognition particle receptor beta-subunit	92.41
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	92.38
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	92.34
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	92.19
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	92.19
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	92.14
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	92.12
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	92.12
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	92.11
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	92.09
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	92.0
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	92.0
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	91.95
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	91.94
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	91.84
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	91.71
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	91.64
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	91.59
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	91.58
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	91.56
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	91.46
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	91.41
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	91.26
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	91.14
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	91.12
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	90.86
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	90.62
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	90.57
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	90.56
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	90.5
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	90.35
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	90.19
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	89.95
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	89.74
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	89.72
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	89.7
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	89.16
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	88.64
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	88.25
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	88.11
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	87.8
d1xpua3	289	Transcription termination factor Rho, ATPase domai	87.58
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	87.48
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	86.98
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	86.67
d1tuea_	205	Replication protein E1 helicase domain {Human papi	86.52
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	85.87
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	84.89
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	84.71
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	83.66
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	83.62
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	83.44
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	83.11
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	83.07
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	82.76
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	82.65
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	82.19
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	81.95
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	80.53
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	80.46
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	80.03

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=99.93  E-value=4.7e-26  Score=209.12  Aligned_cols=178  Identities=13%  Similarity=0.059  Sum_probs=137.9

Q ss_pred             ccccccchHHHHHHHHHhhc---CCceEEEEEcCCCCcHHHHHHHHHhhcc-CCCCCCCEEEEEEeCCCCCHHHHHHHHH
Q 043778          135 ALTIVGLESIFDKLWRCLTE---EQVGIIGLYGMGSVGKTTLLILINNKFL-DEPNYFDVVIWAVASKVVEIEKIQESIA  210 (405)
Q Consensus       135 ~~~~vGr~~~~~~l~~~L~~---~~~~vi~I~G~~GiGKTtLA~~v~~~~~-~~~~~F~~~~wv~vs~~~~~~~l~~~i~  210 (405)
                      .+.++||+.++++|+++|.+   ...++|+|+||||+||||||+++|++.. ....+|++++||+++..++...+...+.
T Consensus        19 ~~~~~gR~~~~~~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l~~~~~   98 (277)
T d2a5yb3          19 QMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTD   98 (277)
T ss_dssp             CCCSCCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHH
T ss_pred             CCceeCcHHHHHHHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHHHHHHHHH
Confidence            46689999999999999964   3678999999999999999999998751 1567899999999999998877766665


Q ss_pred             HHh---CCCCC-----CCCcccHHHHHHHHHHHHcccch-----------------------------------------
Q 043778          211 KKI---GFFNE-----SWESKTVQEKAVDIFNILSKKKY-----------------------------------------  241 (405)
Q Consensus       211 ~~l---~~~~~-----~~~~~~~~~~~~~l~~~L~~kr~-----------------------------------------  241 (405)
                      ..+   +....     .............+.+.|.++|+                                         
T Consensus        99 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~~~~~~~~~~~srilvTTR~~~v~~~~~~~~~  178 (277)
T d2a5yb3          99 ILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQELRLRCLVTTRDVEISNAASQTCE  178 (277)
T ss_dssp             HHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHHHHHHHTTCEEEEEESBGGGGGGCCSCEE
T ss_pred             HHHHHhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEecchhhHHhhhhhhcccCceEEEEeehHHHHHhcCCCCc
Confidence            443   22111     11122334445567788888887                                         


Q ss_pred             ---------HHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHh----------hhhCCCCHHHHHHHHHHHhhh----c-
Q 043778          242 ---------EDAWKLFEEKVGRDILDSHPNIPELVETVAKECG----------AMASRKTHQEWEYAIEVWRNE----Y-  297 (405)
Q Consensus       242 ---------~ds~~Lf~~~~~~~~~~~~~~l~~~~~~Iv~~C~----------~l~~~~~~~~W~~~l~~l~~~----~-  297 (405)
                               +|||+||+..++...  ..+...+++++|+++|+          .....++.++|....+.|...    + 
T Consensus       179 ~~~l~~L~~~ea~~Lf~~~~~~~~--~~~~~~~~~~~iv~~c~GlPLAl~~ig~~l~~k~~~~~~~~~~~L~~~~~~~v~  256 (277)
T d2a5yb3         179 FIEVTSLEIDECYDFLEAYGMPMP--VGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRGLVGVE  256 (277)
T ss_dssp             EEECCCCCHHHHHHHHHHTSCCCC----CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSSHHHHHHHHHHHHHHCSSTTC
T ss_pred             eEECCCCCHHHHHHHHHHHhCCcc--CchhhHHHHHHHHHHhCCCHHHHHHHHHHhccCCHHHHHHHHHHHhcCcHHHHH
Confidence                     999999999887653  34456789999999999          223457888999988888765    2 


Q ss_pred             -cHhhhhccCCCCcccccc
Q 043778          298 -TLVYSYDFLPSDVGRFCL  315 (405)
Q Consensus       298 -~l~~sy~~Lp~~~~k~cf  315 (405)
                       ++.+||++||+ ++|+||
T Consensus       257 ~il~~sY~~L~~-~lk~c~  274 (277)
T d2a5yb3         257 CITPYSYKSLAM-ALQRCV  274 (277)
T ss_dssp             CCSSSSSSSHHH-HHHHHH
T ss_pred             HHHHHHHhcccH-HHHHHH
Confidence             99999999999 799998

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=98.27  E-value=5.5e-06  Score=72.96  Aligned_cols=98  Identities=14%  Similarity=0.060  Sum_probs=67.8

Q ss_pred             cccccchHHHHHHHHHhhc------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHHHH
Q 043778          136 LTIVGLESIFDKLWRCLTE------EQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESI  209 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~------~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i  209 (405)
                      ..++||+.+++.|.++|..      .....+.|+|++|+||||+|+.+.+.. .....| ..+++..........++..+
T Consensus        16 ~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l-~~~~~~-~~~~~~~~~~~~~~~~~~~~   93 (276)
T d1fnna2          16 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELY-KDKTTA-RFVYINGFIYRNFTAIIGEI   93 (276)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHH-TTSCCC-EEEEEETTTCCSHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHH-hcccCC-cEEEecchhhhhhhhhhhhh
Confidence            4589999999999988853      245789999999999999999999976 322222 34566666777788888888


Q ss_pred             HHHhCCCCCCCCcccHHHHHHHHHHHH
Q 043778          210 AKKIGFFNESWESKTVQEKAVDIFNIL  236 (405)
Q Consensus       210 ~~~l~~~~~~~~~~~~~~~~~~l~~~L  236 (405)
                      ...++.... ............+.+.+
T Consensus        94 ~~~~~~~~~-~~~~~~~~~~~~~~~~~  119 (276)
T d1fnna2          94 ARSLNIPFP-RRGLSRDEFLALLVEHL  119 (276)
T ss_dssp             HHHTTCCCC-SSCCCHHHHHHHHHHHH
T ss_pred             HHhhhhhhh-hhccchhHHHHHHHHHH
Confidence            888765432 12233344444444433

>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=97.89  E-value=3.4e-06  Score=74.54  Aligned_cols=43  Identities=19%  Similarity=0.234  Sum_probs=36.8

Q ss_pred             ccccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          135 ALTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       135 ~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+.|+||+.++++|.+.    ..++|.|+|++|+|||+|++++.+..
T Consensus        11 ~~~f~GR~~el~~l~~~----~~~~i~i~G~~G~GKTsLl~~~~~~~   53 (283)
T d2fnaa2          11 RKDFFDREKEIEKLKGL----RAPITLVLGLRRTGKSSIIKIGINEL   53 (283)
T ss_dssp             GGGSCCCHHHHHHHHHT----CSSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             hhhCCChHHHHHHHHhc----cCCEEEEEcCCCCcHHHHHHHHHHHC
Confidence            47899999999988763    34689999999999999999998855

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=97.79  E-value=4.1e-05  Score=67.48  Aligned_cols=101  Identities=15%  Similarity=0.099  Sum_probs=65.1

Q ss_pred             ccccccchHHHHHHHHHhhc----C----C-ceEEEEEcCCCCcHHHHHHHHHhhccC---CCCCCCEEEEEEeCCCCCH
Q 043778          135 ALTIVGLESIFDKLWRCLTE----E----Q-VGIIGLYGMGSVGKTTLLILINNKFLD---EPNYFDVVIWAVASKVVEI  202 (405)
Q Consensus       135 ~~~~vGr~~~~~~l~~~L~~----~----~-~~vi~I~G~~GiGKTtLA~~v~~~~~~---~~~~F~~~~wv~vs~~~~~  202 (405)
                      ++.++||+.++++|.+.+..    +    + ..++.++|++|+|||++++.+.+...+   .........++........
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            36789999999999887642    1    1 224567899999999999999985411   0111235567777777778


Q ss_pred             HHHHHHHHHHhCCCCCCCCcccHHHHHHHHHHHH
Q 043778          203 EKIQESIAKKIGFFNESWESKTVQEKAVDIFNIL  236 (405)
Q Consensus       203 ~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L  236 (405)
                      ......+...++.... ............+.+.+
T Consensus        95 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~l~~~~  127 (287)
T d1w5sa2          95 YTILSLIVRQTGYPIQ-VRGAPALDILKALVDNL  127 (287)
T ss_dssp             HHHHHHHHHHHTCCCC-CTTCCHHHHHHHHHHHH
T ss_pred             hhHHHHHhhhcccccc-cccchHHHHHHHHHHHH
Confidence            8888888888765432 12333344444444443

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=97.74  E-value=1.8e-05  Score=65.98  Aligned_cols=44  Identities=18%  Similarity=0.208  Sum_probs=37.8

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHh
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      +.++||+.+++++...|...+-.-+.++|.+|+|||+++..+..
T Consensus        22 d~~igRd~Ei~~l~~iL~r~~k~n~lLvG~pGVGKTalv~~LA~   65 (195)
T d1jbka_          22 DPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQ   65 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCcCcHHHHHHHHHHHhccCCCCeEEEecCCcccHHHHHHHHH
Confidence            34699999999999999976666778999999999998877765

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=97.66  E-value=2.3e-05  Score=68.84  Aligned_cols=79  Identities=20%  Similarity=0.262  Sum_probs=54.0

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhcc--CCCC-CCCEEEEE-EeCC-------CCCHHH
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKFL--DEPN-YFDVVIWA-VASK-------VVEIEK  204 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~~--~~~~-~F~~~~wv-~vs~-------~~~~~~  204 (405)
                      +.++||+.++++++..|....-.-+.+||++|+|||+++..+.....  ++.. .....+|. +++.       .-...+
T Consensus        18 d~~igRd~Ei~~l~~iL~r~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~liag~~~~g~~e~   97 (268)
T d1r6bx2          18 DPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFEK   97 (268)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCCSSCHHH
T ss_pred             CcccChHHHHHHHHHHHhcCccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechHhccCccchhHHH
Confidence            34799999999999999876656677999999999998887775321  1112 22345554 2211       235677


Q ss_pred             HHHHHHHHhC
Q 043778          205 IQESIAKKIG  214 (405)
Q Consensus       205 l~~~i~~~l~  214 (405)
                      -++.++..+.
T Consensus        98 r~~~i~~~~~  107 (268)
T d1r6bx2          98 RFKALLKQLE  107 (268)
T ss_dssp             HHHHHHHHHS
T ss_pred             HHHHHHHHhh
Confidence            7777887764

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=97.64  E-value=2.4e-05  Score=67.41  Aligned_cols=46  Identities=26%  Similarity=0.315  Sum_probs=41.1

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|.+..++.|..++..+...-+.++|++|+||||+|+.+.+..
T Consensus        24 ~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtla~~iak~l   69 (231)
T d1iqpa2          24 DDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALAREL   69 (231)
T ss_dssp             TTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCcHHHHHHHHHHHH
Confidence            5689999999999999988877778899999999999999998744

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.58  E-value=3.1e-05  Score=66.33  Aligned_cols=46  Identities=24%  Similarity=0.353  Sum_probs=40.4

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++++|.+..++.|..++.++...-+.++|++|+||||+|+.+.+..
T Consensus        15 ~d~ig~~~~~~~L~~~~~~~~~~~~ll~Gp~G~GKTt~a~~la~~l   60 (224)
T d1sxjb2          15 SDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHEL   60 (224)
T ss_dssp             GGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHhcCCHHHHHHHHHHHHcCCCCeEEEECCCCCCchhhHHHHHHHH
Confidence            5689999999999999998776667799999999999999988754

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.54  E-value=3.8e-05  Score=65.84  Aligned_cols=46  Identities=15%  Similarity=0.348  Sum_probs=40.4

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|.+..++.|..++..+....+.++|++|+||||+|+.+.+..
T Consensus        14 ~divg~~~~~~~L~~~i~~~~~~~lLl~Gp~G~GKttl~~~la~~l   59 (227)
T d1sxjc2          14 DEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREI   59 (227)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChhHHHHHHHHHh
Confidence            5689999999999999988766557799999999999999999864

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.47  E-value=3.5e-05  Score=66.37  Aligned_cols=45  Identities=16%  Similarity=0.274  Sum_probs=39.5

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ++++|.+..++.|..++.......+.++|++|+||||+|+.+.+.
T Consensus        12 ~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtl~~~i~~~   56 (237)
T d1sxjd2          12 DEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKE   56 (237)
T ss_dssp             TTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChHHHHHHHHHH
Confidence            558999989999999998876666889999999999999999875

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=97.43  E-value=6.2e-05  Score=65.02  Aligned_cols=46  Identities=30%  Similarity=0.392  Sum_probs=37.7

Q ss_pred             cccccchHHHHHHHHHhhc-----CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE-----EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +++||-+..+++|..++..     ..+.-+.++|++|+||||+|+.+.+..
T Consensus         9 ddivGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~~~   59 (239)
T d1ixsb2           9 DEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHEL   59 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHh
Confidence            5689999888888877752     235667799999999999999999866

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=97.42  E-value=6.8e-05  Score=64.67  Aligned_cols=46  Identities=30%  Similarity=0.356  Sum_probs=38.2

Q ss_pred             cccccchHHHHHHHHHhhc-----CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE-----EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++++|-+..++.|..++..     ....-+.++|++|+||||+|+.+.+..
T Consensus         9 ~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~   59 (238)
T d1in4a2           9 DEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASEL   59 (238)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHH
T ss_pred             HHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHhcc
Confidence            5689999999998888753     234567799999999999999999865

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=97.37  E-value=0.0001  Score=68.36  Aligned_cols=77  Identities=16%  Similarity=0.101  Sum_probs=49.7

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHH----HHhhccCCCCCCCEEEEE-EeCC-----C--CCHH
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLIL----INNKFLDEPNYFDVVIWA-VASK-----V--VEIE  203 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~----v~~~~~~~~~~F~~~~wv-~vs~-----~--~~~~  203 (405)
                      +.++||+.+++++++.|...+-.-+.+||.+|||||+++..    +.+.. -.....+.++|. +++.     .  -...
T Consensus        22 d~~~gr~~ei~~~~~~L~r~~k~n~llvG~~GvGKtaiv~~la~~i~~~~-vp~~l~~~~i~~ld~~~l~ag~~~~g~~e  100 (387)
T d1qvra2          22 DPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGD-VPEGLKGKRIVSLQMGSLLAGAKYRGEFE  100 (387)
T ss_dssp             CCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTC-SCTTSTTCEEEEECC-----------CHH
T ss_pred             CCCcCcHHHHHHHHHHHhcCCCCCCeEECCCCCCHHHHHHHHHHHHHhCC-CCHHHcCceEEEeeHhhhhcccCcchhHH
Confidence            34799999999999999876555567889999999997654    44422 122334556654 3322     1  1455


Q ss_pred             HHHHHHHHHh
Q 043778          204 KIQESIAKKI  213 (405)
Q Consensus       204 ~l~~~i~~~l  213 (405)
                      +-+..|+..+
T Consensus       101 ~r~~~i~~~~  110 (387)
T d1qvra2         101 ERLKAVIQEV  110 (387)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            5566666665

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.31  E-value=0.00012  Score=63.61  Aligned_cols=63  Identities=24%  Similarity=0.230  Sum_probs=46.1

Q ss_pred             cccccchHHHHHHHHHhhc-----------------CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCC
Q 043778          136 LTIVGLESIFDKLWRCLTE-----------------EQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASK  198 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~-----------------~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~  198 (405)
                      .+++|.+..+++|.++|..                 ...+.+.++|++|+||||+|+.+.++.   .  + ..+++..+.
T Consensus        14 ~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~---~--~-~~~~~~~~~   87 (253)
T d1sxja2          14 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQEL---G--Y-DILEQNASD   87 (253)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHT---T--C-EEEEECTTS
T ss_pred             HHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHH---H--h-hhhcccccc
Confidence            5689999999999998852                 134679999999999999999999955   1  1 244555554


Q ss_pred             CCCHHH
Q 043778          199 VVEIEK  204 (405)
Q Consensus       199 ~~~~~~  204 (405)
                      ..+...
T Consensus        88 ~~~~~~   93 (253)
T d1sxja2          88 VRSKTL   93 (253)
T ss_dssp             CCCHHH
T ss_pred             chhhHH
Confidence            444433

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.25  E-value=7.7e-05  Score=64.76  Aligned_cols=46  Identities=17%  Similarity=0.162  Sum_probs=37.5

Q ss_pred             cccccchHHHHHHHHHhhcC-CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEE-QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~-~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++++|.+...+.|..++... ...-+.|+|++|+||||+|+.+.+..
T Consensus        11 ~diig~~~~~~~L~~~~~~~~~~~~lll~Gp~G~GKTt~~~~la~~l   57 (252)
T d1sxje2          11 NALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESI   57 (252)
T ss_dssp             GGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHhh
Confidence            56899988888888777654 34457799999999999999998853

>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=97.17  E-value=9.7e-05  Score=60.49  Aligned_cols=25  Identities=24%  Similarity=0.375  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+.|+|.|++|+||||||+.+.+..
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~~   31 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAVF   31 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh
Confidence            5789999999999999999999854

>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=97.10  E-value=0.00014  Score=57.71  Aligned_cols=23  Identities=30%  Similarity=0.173  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ++|.|.|++|+||||||+.+...
T Consensus         3 klIii~G~pGsGKTTla~~L~~~   25 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAK   25 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            57889999999999999998763

>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=97.08  E-value=0.00014  Score=58.70  Aligned_cols=25  Identities=24%  Similarity=0.361  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..||+|+|.+|+|||||+.++.+..
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~~l   26 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIPAL   26 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            3689999999999999999998754

>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=97.06  E-value=0.00013  Score=58.41  Aligned_cols=24  Identities=25%  Similarity=0.196  Sum_probs=21.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.|.+.|++|+||||+|+.+....
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~L   26 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQL   26 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            468888999999999999999854

>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=97.01  E-value=0.00018  Score=58.08  Aligned_cols=24  Identities=21%  Similarity=0.256  Sum_probs=21.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++|.|.|++|+||||+|+.+....
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~~   26 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQL   26 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHc
Confidence            589999999999999999998744

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.97  E-value=0.00031  Score=58.07  Aligned_cols=27  Identities=26%  Similarity=0.413  Sum_probs=24.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          155 EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       155 ~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+.-+|+|.|.+|+||||||+.+....
T Consensus        20 ~~~~iIgI~G~~GSGKSTla~~L~~~l   46 (198)
T d1rz3a_          20 AGRLVLGIDGLSRSGKTTLANQLSQTL   46 (198)
T ss_dssp             SSSEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            467799999999999999999998755

>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=96.97  E-value=0.00022  Score=59.29  Aligned_cols=27  Identities=22%  Similarity=0.223  Sum_probs=24.4

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          155 EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       155 ~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..+.+|.|+|++|+||||+|+.+....
T Consensus         4 ~kp~iI~i~G~pGSGKsT~a~~La~~~   30 (194)
T d1qf9a_           4 SKPNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            467899999999999999999999865

>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=96.95  E-value=0.00024  Score=57.70  Aligned_cols=26  Identities=23%  Similarity=0.119  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+|.++|++|+||||+|+.+....
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La~~L   30 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQVTL   30 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            34689999999999999999999754

>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=96.86  E-value=0.00025  Score=57.29  Aligned_cols=24  Identities=42%  Similarity=0.263  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..|.|.|++|+||||+|+.+....
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~~l   28 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELASKS   28 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            457799999999999999999854

>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=96.85  E-value=0.00055  Score=59.65  Aligned_cols=42  Identities=21%  Similarity=0.127  Sum_probs=31.1

Q ss_pred             cchHHHHHHHHHhhcC-----CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          140 GLESIFDKLWRCLTEE-----QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       140 Gr~~~~~~l~~~L~~~-----~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +..+.+.+.++.+..+     .++.|.++|++|+||||||+.+.+..
T Consensus        10 ~~~~~~~~~~~~~~~~~~~~~~P~~ilL~GpPGtGKT~la~~la~~~   56 (273)
T d1gvnb_          10 QFENRLNDNLEELIQGKKAVESPTAFLLGGQPGSGKTSLRSAIFEET   56 (273)
T ss_dssp             HHHHHHHHHHHHHHTTCCCCSSCEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHhcccCCCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            3344555555555432     56789999999999999999999955

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.83  E-value=0.00025  Score=57.78  Aligned_cols=24  Identities=33%  Similarity=0.304  Sum_probs=21.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.|.|+|++|+|||||++.+....
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l   25 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHH
Confidence            568999999999999999998765

>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=96.79  E-value=0.00072  Score=58.12  Aligned_cols=46  Identities=24%  Similarity=0.301  Sum_probs=39.2

Q ss_pred             cccccchHHHHHHHHHhhcCC-ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTEEQ-VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|.+...+.|..++..++ .+.+.|+|++|+||||+|+.+.+..
T Consensus        12 ~dlig~~~~~~~L~~~i~~~~~~~~~Ll~Gp~G~GKtt~a~~~~~~l   58 (239)
T d1njfa_          12 ADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGL   58 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHTTCCCSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHccChHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHh
Confidence            568999999999999998765 4568899999999999999987643

>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=96.74  E-value=0.00043  Score=55.78  Aligned_cols=26  Identities=19%  Similarity=0.318  Sum_probs=23.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..+++.|.|++|+||||+|+.+....
T Consensus         5 ~~~iivl~G~~GsGKsT~a~~La~~l   30 (171)
T d1knqa_           5 DHHIYVLMGVSGSGKSAVASEVAHQL   30 (171)
T ss_dssp             TSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            57899999999999999999999855

>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=96.74  E-value=0.0004  Score=58.10  Aligned_cols=25  Identities=20%  Similarity=0.263  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.+|.++|.+|+||||||+++....
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~l   26 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRYL   26 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999999755

>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=96.74  E-value=0.00038  Score=56.84  Aligned_cols=24  Identities=25%  Similarity=0.331  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++|+|.|++|+||||+++.+....
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l   25 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNL   25 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            689999999999999999998765

>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=96.73  E-value=0.00043  Score=55.95  Aligned_cols=25  Identities=24%  Similarity=0.335  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .++|.|.|++|+||||+|+.+.+..
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l   27 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVL   27 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHc
Confidence            4689999999999999999999854

>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=96.71  E-value=0.00051  Score=57.03  Aligned_cols=27  Identities=26%  Similarity=0.313  Sum_probs=24.2

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          155 EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       155 ~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +...||.|.|++|+||||+|+.+....
T Consensus         6 ~~~~iI~i~GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_           6 DQVSVIFVLGGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            367899999999999999999999855

>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=0.00054  Score=55.30  Aligned_cols=26  Identities=23%  Similarity=0.236  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ....|.|.|++|+||||+|+.+....
T Consensus         4 k~~~I~i~G~~GsGKTT~~~~La~~l   29 (174)
T d1y63a_           4 KGINILITGTPGTGKTSMAEMIAAEL   29 (174)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHh
Confidence            45579999999999999999999854

>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=96.68  E-value=0.00046  Score=55.67  Aligned_cols=24  Identities=25%  Similarity=0.214  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +||+|+|..|+|||||+.++....
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~L   25 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAAA   25 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHH
Confidence            589999999999999999998765

>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=96.67  E-value=0.0005  Score=55.59  Aligned_cols=24  Identities=29%  Similarity=0.300  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      +.++|.|.|++|+||||+|+.+..
T Consensus         3 ~g~iI~l~G~~GsGKSTia~~La~   26 (176)
T d1zp6a1           3 GGNILLLSGHPGSGKSTIAEALAN   26 (176)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            357999999999999999999986

>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=96.67  E-value=0.00046  Score=56.28  Aligned_cols=26  Identities=15%  Similarity=0.155  Sum_probs=23.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          155 EQVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       155 ~~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      +.+.+|.++|++|+||||+|+.+...
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            46789999999999999999998764

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=96.65  E-value=0.00096  Score=57.64  Aligned_cols=46  Identities=17%  Similarity=0.065  Sum_probs=34.6

Q ss_pred             cccccchHHHHHHHHHhh-------c---CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLT-------E---EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~-------~---~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.++|..+.++.+++.+.       .   ...+-|.++|++|+|||+||+.+.+..
T Consensus         9 ~~~i~~~~~i~~i~~~~~~~~~~~~~~~~~p~~~vLL~GppGtGKT~la~alA~~~   64 (246)
T d1d2na_           9 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEES   64 (246)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cCCcCcCHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECcCCCCHHHHHHHHhhcc
Confidence            457887777666665443       1   145668899999999999999999965

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=96.64  E-value=0.0013  Score=56.71  Aligned_cols=46  Identities=24%  Similarity=0.200  Sum_probs=34.7

Q ss_pred             cccccchHHHHHHHHH---hhc---------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRC---LTE---------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~---L~~---------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++++|.+..++.|.+.   +..         ...+-|.++|++|+|||+||+.+.+..
T Consensus         9 ~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~   66 (247)
T d1ixza_           9 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA   66 (247)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             HHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHc
Confidence            4688988777665543   322         135678999999999999999999855

>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=96.62  E-value=0.00036  Score=57.56  Aligned_cols=25  Identities=24%  Similarity=0.347  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..+|.++|++|+||||+|+.+....
T Consensus        19 g~vI~L~G~pGSGKTTiAk~La~~l   43 (195)
T d1x6va3          19 GCTVWLTGLSGAGKTTVSMALEEYL   43 (195)
T ss_dssp             CEEEEEESSCHHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4688899999999999999998754

>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=96.61  E-value=0.00051  Score=55.41  Aligned_cols=22  Identities=23%  Similarity=0.282  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043778          160 IGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      |.++||+|+||||+++.+....
T Consensus         4 IvliG~~G~GKSTig~~La~~l   25 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKAL   25 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            4456999999999999999865

>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=96.57  E-value=0.00057  Score=54.97  Aligned_cols=22  Identities=27%  Similarity=0.379  Sum_probs=20.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043778          160 IGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      |.|.||+|+||||+|+.+....
T Consensus         3 I~liG~~GsGKsTi~k~La~~l   24 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKDL   24 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6788999999999999999865

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=96.55  E-value=0.0011  Score=57.61  Aligned_cols=46  Identities=20%  Similarity=0.169  Sum_probs=35.7

Q ss_pred             cccccchHHHHHHHHH---hhc---------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRC---LTE---------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~---L~~---------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|.++.+++|.+.   +..         ...+.+.++|++|+|||+||+.+.+..
T Consensus        12 ~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~   69 (256)
T d1lv7a_          12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA   69 (256)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHc
Confidence            5688998887777553   321         135678899999999999999999866

>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=96.52  E-value=0.0006  Score=55.34  Aligned_cols=22  Identities=41%  Similarity=0.471  Sum_probs=20.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043778          160 IGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      |+|+|++|+|||||++.+....
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~l   24 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCcHHHHHHHHHHhcC
Confidence            8899999999999999999855

>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=96.47  E-value=0.00079  Score=55.65  Aligned_cols=25  Identities=24%  Similarity=0.198  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.+|.|.|++|+||||.|+.+.+..
T Consensus         1 p~iI~i~GppGSGKsT~a~~La~~~   25 (194)
T d1teva_           1 PLVVFVLGGPGAGKGTQCARIVEKY   25 (194)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            3689999999999999999999855

>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=96.41  E-value=0.0013  Score=58.79  Aligned_cols=46  Identities=20%  Similarity=0.118  Sum_probs=35.3

Q ss_pred             cccccchHHHHHHHHHhhc--------------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLTE--------------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~--------------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|-++.++.+...+..              ...+.+.++|++|+|||.||+.+.+..
T Consensus        14 ~~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~   73 (309)
T d1ofha_          14 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA   73 (309)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhcc
Confidence            4578988888777654410              135678899999999999999999865

>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=96.40  E-value=0.00078  Score=54.54  Aligned_cols=23  Identities=22%  Similarity=0.147  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .|.++|++|+||||+|+.+....
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~~L   26 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELARAL   26 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            46688999999999999999866

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.34  E-value=0.0011  Score=55.70  Aligned_cols=25  Identities=24%  Similarity=0.281  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +-||+|.|..|+||||||+.+....
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~~l   26 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQLL   26 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998754

>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=96.34  E-value=0.0016  Score=56.70  Aligned_cols=46  Identities=20%  Similarity=0.192  Sum_probs=36.7

Q ss_pred             cccccchHHHHHHHHHh----hc---------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCL----TE---------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L----~~---------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +++.|.+..+++|.+.+    ..         ...+-|.++|++|+|||+||+.+.+..
T Consensus         4 ~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~   62 (258)
T d1e32a2           4 DDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET   62 (258)
T ss_dssp             GGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             hhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHh
Confidence            45789998888887764    22         135678999999999999999999954

>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=96.34  E-value=0.00096  Score=56.18  Aligned_cols=25  Identities=24%  Similarity=0.331  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..||+|-|++|+||||+|+.+.++.
T Consensus         3 ~piI~I~GppGSGKgT~ak~La~~~   27 (225)
T d1ckea_           3 APVITIDGPSGAGKGTLCKAMAEAL   27 (225)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            3599999999999999999999966

>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=96.29  E-value=0.0015  Score=57.21  Aligned_cols=51  Identities=25%  Similarity=0.324  Sum_probs=36.3

Q ss_pred             HHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCC
Q 043778          145 FDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASK  198 (405)
Q Consensus       145 ~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~  198 (405)
                      +..+.+.+..++.+||.+.|.||+||||+|..+.... ..+.  ..++-|+...
T Consensus         8 ~~~~~~~~~~~~~~iii~sGKGGVGKTT~a~nLA~~l-A~~G--~rVllvD~Dp   58 (279)
T d1ihua2           8 LSALVDDIARNEHGLIMLMGKGGVGKTTMAAAIAVRL-ADMG--FDVHLTTSDP   58 (279)
T ss_dssp             HHHHHHHHHTTSCEEEEEECSTTSSHHHHHHHHHHHH-HHTT--CCEEEEESCC
T ss_pred             HHHHHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHH-HHCC--CcEEEEeCCC
Confidence            5566777777889999999999999999887776544 2122  2355566553

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=96.28  E-value=0.014  Score=51.70  Aligned_cols=26  Identities=27%  Similarity=0.277  Sum_probs=23.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+-+|||.|.+|+||||+|+.+....
T Consensus        79 ~P~iIGIaG~sgSGKSTla~~L~~lL  104 (308)
T d1sq5a_          79 IPYIISIAGSVAVGKSTTARVLQALL  104 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCCCcHHHHHHHHHH
Confidence            56799999999999999999998865

>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=96.27  E-value=0.0012  Score=54.00  Aligned_cols=24  Identities=29%  Similarity=0.369  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++|.|.|++|+||||+++.+....
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~L   25 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEIL   25 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            588999999999999999998765

>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=96.18  E-value=0.0012  Score=54.31  Aligned_cols=25  Identities=28%  Similarity=0.263  Sum_probs=22.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +..|.|.|++|+||||+|+.+.+..
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~~~   27 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKTKY   27 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4568899999999999999998855

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=96.14  E-value=0.0013  Score=55.37  Aligned_cols=24  Identities=33%  Similarity=0.433  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      -+|+|-|++|+||||+|+.+..+.
T Consensus         4 i~IaIdGp~GsGKgT~ak~La~~l   27 (223)
T d1q3ta_           4 IQIAIDGPASSGKSTVAKIIAKDF   27 (223)
T ss_dssp             CEEEEECSSCSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            468999999999999999999966

>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=96.09  E-value=0.0015  Score=57.06  Aligned_cols=37  Identities=16%  Similarity=0.341  Sum_probs=27.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeC
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVAS  197 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs  197 (405)
                      +.|+|+|.||+||||+|..+.... ....  ..++-|+..
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~~L-A~~G--~rVllID~D   38 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTSGL-HAMG--KTIMVVGCD   38 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHH-HTTT--CCEEEEEEC
T ss_pred             CEEEEECCCcCCHHHHHHHHHHHH-HhCC--CcEEEEecC
Confidence            689999999999999999988766 2222  245556654

>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=96.08  E-value=0.0016  Score=53.54  Aligned_cols=24  Identities=33%  Similarity=0.436  Sum_probs=20.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      .+-+|||.|+.|+||||+|..+-.
T Consensus         2 ~p~IIgitG~~gSGKstva~~l~~   25 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALLRS   25 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            467999999999999999998743

>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=0.0018  Score=53.42  Aligned_cols=26  Identities=31%  Similarity=0.231  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.++|.|.|++|+||||+|+.+....
T Consensus         7 ~~~iI~l~G~pGSGKsT~a~~La~~~   32 (194)
T d3adka_           7 KSKIIFVVGGPGSGKGTQCEKIVQKY   32 (194)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            46799999999999999999999854

>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=96.04  E-value=0.0016  Score=53.03  Aligned_cols=23  Identities=26%  Similarity=0.271  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .|.|.|++|+||||+|+.+....
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1zina1           2 NLVLMGLPGAGKGTQAEKIVAAY   24 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            37799999999999999998855

>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=96.01  E-value=0.0033  Score=52.66  Aligned_cols=29  Identities=28%  Similarity=0.402  Sum_probs=24.7

Q ss_pred             hhcCCceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          152 LTEEQVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       152 L~~~~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      +...+..+|-+.|++|+||||||+.+...
T Consensus        19 ~~~~kg~vIwltGlsGsGKTTia~~L~~~   47 (208)
T d1m7ga_          19 LRNQRGLTIWLTGLSASGKSTLAVELEHQ   47 (208)
T ss_dssp             HHTSSCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HhCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            44457789999999999999999999863

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=96.01  E-value=0.0018  Score=53.15  Aligned_cols=25  Identities=28%  Similarity=0.343  Sum_probs=20.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.++| |+|++|+||||+|+.+....
T Consensus         3 ~~rii-l~G~pGSGKsT~a~~La~~~   27 (190)
T d1ak2a1           3 GVRAV-LLGPPGAGKGTQAPKLAKNF   27 (190)
T ss_dssp             CCEEE-EECCTTSSHHHHHHHHHHHH
T ss_pred             ccEEE-EECCCCCCHHHHHHHHHHHh
Confidence            34555 78999999999999999854

>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=95.92  E-value=0.002  Score=53.08  Aligned_cols=25  Identities=24%  Similarity=0.279  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...|.|.|++|+||||+|+.+....
T Consensus         6 ~mrIiliG~PGSGKtT~a~~La~~~   30 (189)
T d2ak3a1           6 LLRAAIMGAPGSGKGTVSSRITKHF   30 (189)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHB
T ss_pred             ceeEEEECCCCCCHHHHHHHHHHHH
Confidence            3457788999999999999999855

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=95.92  E-value=0.0057  Score=51.29  Aligned_cols=59  Identities=27%  Similarity=0.224  Sum_probs=36.8

Q ss_pred             ccccccchHH--HHHHHHHhhcC--CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEe
Q 043778          135 ALTIVGLESI--FDKLWRCLTEE--QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVA  196 (405)
Q Consensus       135 ~~~~vGr~~~--~~~l~~~L~~~--~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~v  196 (405)
                      .+.++|-...  ..-+.++....  ....+-|+|++|+|||.|++.+++..   ......+++++.
T Consensus        10 dnF~vg~~N~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKTHLl~A~~~~~---~~~~~~~~~~~~   72 (213)
T d1l8qa2          10 ENFIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEA---KKRGYRVIYSSA   72 (213)
T ss_dssp             SSCCCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHH---HHTTCCEEEEEH
T ss_pred             hhccCCCcHHHHHHHHHHHHhCcCCCCCcEEEECCCCCcHHHHHHHHHHHh---ccCccceEEech
Confidence            3445674322  23333444433  23447899999999999999999976   333345666643

>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=95.90  E-value=0.0022  Score=52.32  Aligned_cols=24  Identities=25%  Similarity=0.477  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++|.|+|++|+|||||++.+....
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~~~   26 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRERI   26 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhC
Confidence            578999999999999999998754

>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=95.89  E-value=0.002  Score=52.53  Aligned_cols=23  Identities=26%  Similarity=0.312  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .|.|.|++|+||||+|+.+....
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~~   24 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEKL   24 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            47889999999999999999865

>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=95.88  E-value=0.0022  Score=52.30  Aligned_cols=23  Identities=35%  Similarity=0.341  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .|.|.|++|+||||+|+.+....
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKY   24 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            47799999999999999999865

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=95.83  E-value=0.0051  Score=55.18  Aligned_cols=63  Identities=19%  Similarity=0.104  Sum_probs=32.8

Q ss_pred             HHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHHHH
Q 043778          146 DKLWRCLTE--EQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESI  209 (405)
Q Consensus       146 ~~l~~~L~~--~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i  209 (405)
                      .+++..+..  ++..+|+|+|++|+|||||.-.+.... ....+=-+++=++.+.+++-..++.+-
T Consensus        41 ~~ll~~~~~~~~~~~~IgitG~pGaGKSTLi~~l~~~~-~~~g~~vavlavDpss~~~ggailgdr  105 (327)
T d2p67a1          41 TQLLDAIMPYCGNTLRLGVTGTPGAGKSTFLEAFGMLL-IREGLKVAVIAVDPSSPVTGGSILGDK  105 (327)
T ss_dssp             HHHHHHHGGGCSCSEEEEEEECTTSCHHHHHHHHHHHH-HHTTCCEEEEEECCC------------
T ss_pred             HHHHHHhhhccCCceEEEeeCCCCCCHHHHHHHHHHHH-HhcCCceeeecCCCceeeeccccccch
Confidence            445555432  468899999999999999998887654 222221233444444455555555443

>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=95.74  E-value=0.0028  Score=52.03  Aligned_cols=24  Identities=29%  Similarity=0.367  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +-|.|+|++|+|||||++.+..+.
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~~~   25 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhC
Confidence            457899999999999999998854

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=95.74  E-value=0.0065  Score=51.61  Aligned_cols=40  Identities=20%  Similarity=0.075  Sum_probs=32.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCC
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASK  198 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~  198 (405)
                      .-.++.|.|.+|+|||+||.++..+.   ..+...++|++...
T Consensus        25 ~gsl~li~G~pGsGKT~l~~qia~~~---~~~~~~~~~is~e~   64 (242)
T d1tf7a2          25 KDSIILATGATGTGKTLLVSRFVENA---CANKERAILFAYEE   64 (242)
T ss_dssp             SSCEEEEEECTTSSHHHHHHHHHHHH---HTTTCCEEEEESSS
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH---HHhccccceeeccC
Confidence            56799999999999999999998865   45566788887654

>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=95.73  E-value=0.0024  Score=52.60  Aligned_cols=23  Identities=30%  Similarity=0.342  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .|.|+|++|+|||||++.+....
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~   24 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEH   24 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHhC
Confidence            47799999999999999998754

>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=95.66  E-value=0.0059  Score=54.64  Aligned_cols=55  Identities=16%  Similarity=0.152  Sum_probs=35.0

Q ss_pred             HHHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCC
Q 043778          145 FDKLWRCLTE--EQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVV  200 (405)
Q Consensus       145 ~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~  200 (405)
                      ..++++.+..  ++..+|+|.|++|+|||||.-.+.... ....+=-.++=++.+.++
T Consensus        37 ~~~~~~~~~~~~~~~~~igitG~pGaGKSTli~~l~~~~-~~~g~~vaViavDpss~~   93 (323)
T d2qm8a1          37 VRDLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGSLL-TAAGHKVAVLAVDPSSTR   93 (323)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHHHH-HHTTCCEEEEEECGGGGS
T ss_pred             HHHHHHHhhhccCCceEEeeeCCCCCCHHHHHHHHHHHH-hhcCCceeeeecccccHH
Confidence            4455555532  478899999999999999999887644 212222244444444444

>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=95.61  E-value=0.0035  Score=51.08  Aligned_cols=24  Identities=21%  Similarity=0.267  Sum_probs=21.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.|.|+|++|+|||||++.+..+.
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~~   27 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITKH   27 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhC
Confidence            578999999999999999998743

>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=95.61  E-value=0.0031  Score=55.59  Aligned_cols=38  Identities=21%  Similarity=0.282  Sum_probs=26.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCC
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASK  198 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~  198 (405)
                      +.|+|.|.||+||||+|..+.... ....  ..++-|+...
T Consensus         3 r~IaisgKGGVGKTT~a~NLA~~L-A~~G--~rVLlID~Dp   40 (289)
T d2afhe1           3 RQCAIYGKGGIGKSTTTQNLVAAL-AEMG--KKVMIVGCDP   40 (289)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHH-HHTT--CCEEEEEECS
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHH-HHCC--CCEEEEecCC
Confidence            578899999999999988876644 2122  1355566543

>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=95.59  E-value=0.003  Score=51.26  Aligned_cols=23  Identities=35%  Similarity=0.349  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .|.|.|++|+||||+|+.+....
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~~   24 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEKY   24 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            46789999999999999999855

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=95.55  E-value=0.0082  Score=53.55  Aligned_cols=46  Identities=20%  Similarity=0.376  Sum_probs=36.6

Q ss_pred             cccccchHHHHHHHHHhh-------c-C-CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLT-------E-E-QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~-------~-~-~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..++|-+..++.+...+.       + + ...++.++|+.|+|||.||+.+..-.
T Consensus        22 ~~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l   76 (315)
T d1r6bx3          22 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL   76 (315)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhc
Confidence            567898988888877653       1 1 35588999999999999999999854

>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=95.54  E-value=0.0034  Score=56.56  Aligned_cols=44  Identities=23%  Similarity=0.283  Sum_probs=32.8

Q ss_pred             cccccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHh
Q 043778          136 LTIVGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      ..++|.+..+..|.-.+...+.+-|.+.|.+|+||||||+.+..
T Consensus         7 ~~I~Gq~~~kral~laa~~~~~h~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_           7 SAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             GGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHH
T ss_pred             hhccCcHHHHHHHHHHHhccCCCeEEEECCCCccHHHHHHHHHH
Confidence            56899987766555444433335688999999999999998864

>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=95.51  E-value=0.0063  Score=53.33  Aligned_cols=49  Identities=14%  Similarity=0.242  Sum_probs=33.0

Q ss_pred             cCCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHH
Q 043778          154 EEQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKI  205 (405)
Q Consensus       154 ~~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l  205 (405)
                      ++.+++|.+.|.||+||||+|..+.....+ +.  ..++.|+.....+...+
T Consensus         5 ~~~p~~i~~sGKGGVGKTTvaa~lA~~lA~-~G--~rVLlvD~Dp~~~l~~~   53 (296)
T d1ihua1           5 QNIPPYLFFTGKGGVGKTSISCATAIRLAE-QG--KRVLLVSTDPASNVGQV   53 (296)
T ss_dssp             SSCCSEEEEECSTTSSHHHHHHHHHHHHHH-TT--CCEEEEECCTTCCHHHH
T ss_pred             CCCCeEEEEECCCcChHHHHHHHHHHHHHH-CC--CCEEEEeCCCCCCHHHH
Confidence            445789999999999999988887765512 22  23566666554555443

>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=95.50  E-value=0.015  Score=48.48  Aligned_cols=58  Identities=16%  Similarity=0.184  Sum_probs=36.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCH--HHHHHHHHHHhCCC
Q 043778          155 EQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEI--EKIQESIAKKIGFF  216 (405)
Q Consensus       155 ~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~--~~l~~~i~~~l~~~  216 (405)
                      ..+.||.++|+.|+||||.+-.+.... +..   ...+.+...+.+..  .+=++...+.++.+
T Consensus         7 ~~p~vi~lvGptGvGKTTTiAKLA~~~-~~~---g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~   66 (211)
T d2qy9a2           7 KAPFVILMVGVNGVGKTTTIGKLARQF-EQQ---GKSVMLAAGDTFRAAAVEQLQVWGQRNNIP   66 (211)
T ss_dssp             CTTEEEEEECCTTSCHHHHHHHHHHHH-HTT---TCCEEEECCCTTCHHHHHHHHHHHHHTTCC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH-HHC---CCcEEEEecccccccchhhhhhhhhhcCCc
Confidence            357899999999999999555555544 212   23444544566655  33456666666654

>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=95.48  E-value=0.0042  Score=50.47  Aligned_cols=23  Identities=26%  Similarity=0.293  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .|.|.|++|+||||+|+.+....
T Consensus         4 rIvl~G~pGSGKtT~a~~La~~~   26 (180)
T d1akya1           4 RMVLIGPPGAGKGTQAPNLQERF   26 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            35578999999999999999855

>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=95.48  E-value=0.0032  Score=51.90  Aligned_cols=26  Identities=27%  Similarity=0.061  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+.+|+|-|..|+||||+++.+.+..
T Consensus         8 kp~~I~ieG~~GsGKTTl~~~L~~~l   33 (197)
T d2vp4a1           8 QPFTVLIEGNIGSGKTTYLNHFEKYK   33 (197)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGGGT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHh
Confidence            56799999999999999999988744

>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=95.44  E-value=0.017  Score=48.64  Aligned_cols=47  Identities=15%  Similarity=0.117  Sum_probs=33.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCC----CEEEEEEeCCCCCHH
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYF----DVVIWAVASKVVEIE  203 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F----~~~~wv~vs~~~~~~  203 (405)
                      .-+++-|.|.+|+||||||..+.... .....+    ...+|++....++..
T Consensus        33 ~G~~~li~G~pGsGKT~l~lq~~~~~-~~~~~~~~~~~~~~~i~~~~~~~~~   83 (251)
T d1szpa2          33 TGSITELFGEFRTGKSQLCHTLAVTC-QIPLDIGGGEGKCLYIDTEGTFRPV   83 (251)
T ss_dssp             SSSEEEEEESTTSSHHHHHHHHTTTT-TSCTTTTCCSCEEEEEESSSCCCGG
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHh-hhhhhhccCCceEEEEeecchHHHH
Confidence            45799999999999999999887644 222222    467888876666543

>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=95.27  E-value=0.01  Score=49.43  Aligned_cols=42  Identities=14%  Similarity=0.216  Sum_probs=34.4

Q ss_pred             cchHHHHHHHHHhhcCC-ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          140 GLESIFDKLWRCLTEEQ-VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       140 Gr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.+...+++.+.+..+. .+.+.++|++|+||||+|+.+.+..
T Consensus         6 w~~~~~~~l~~~~~~~~l~h~lLl~Gp~G~GKtt~a~~~a~~l   48 (207)
T d1a5ta2           6 WLRPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYL   48 (207)
T ss_dssp             GGHHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHcCCcCeEEEEECCCCCcHHHHHHHHHHhc
Confidence            45667888888888765 5579999999999999999888744

>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=95.24  E-value=0.0024  Score=55.68  Aligned_cols=46  Identities=28%  Similarity=0.282  Sum_probs=33.1

Q ss_pred             cccccchHHHHHHHHHhh----c---------CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          136 LTIVGLESIFDKLWRCLT----E---------EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~----~---------~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+++|.+..+++|.+.+.    .         ...+-|.++|++|+|||+||+.+.+..
T Consensus         7 ~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~   65 (265)
T d1r7ra3           7 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC   65 (265)
T ss_dssp             SSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHT
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHh
Confidence            346777666555554432    1         135678899999999999999999955

>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=95.23  E-value=0.0051  Score=52.20  Aligned_cols=23  Identities=30%  Similarity=0.326  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ||+|+|+.|+|||||...+.+..
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~   24 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYL   24 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHH
Confidence            89999999999999999998655

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.12  E-value=0.0066  Score=51.59  Aligned_cols=26  Identities=23%  Similarity=0.390  Sum_probs=23.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +++.|+|-|+-|+||||+++.+.+..
T Consensus         1 ~pk~IviEG~~GsGKST~~~~L~~~l   26 (241)
T d2ocpa1           1 GPRRLSIEGNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHC
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            57899999999999999999999865

>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=95.10  E-value=0.047  Score=46.05  Aligned_cols=49  Identities=24%  Similarity=0.326  Sum_probs=34.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCC----CCCCEEEEEEeCCCCCHHHH
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEP----NYFDVVIWAVASKVVEIEKI  205 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~----~~F~~~~wv~vs~~~~~~~l  205 (405)
                      .-+++.|.|.+|+||||||.++..+. ...    ......+|+......+...+
T Consensus        35 ~G~~~li~G~pGsGKT~~~lq~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (254)
T d1pzna2          35 TQAITEVFGEFGSGKTQLAHTLAVMV-QLPPEEGGLNGSVIWIDTENTFRPERI   87 (254)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHT-TSCGGGTSCSCEEEEEESSSCCCHHHH
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHh-hchHHhcCCCceEEEEeccchhHHHHH
Confidence            45799999999999999999987654 211    12356778877666665443

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=95.10  E-value=0.0058  Score=52.10  Aligned_cols=35  Identities=26%  Similarity=0.173  Sum_probs=26.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||++.++.-.    ..-.+.+++
T Consensus        28 ~Ge~~~liG~sGaGKSTll~~i~gl~----~p~sG~I~~   62 (240)
T d1g2912          28 DGEFMILLGPSGCGKTTTLRMIAGLE----EPSRGQIYI   62 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTSS----CCSEEEEEE
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcCC----CCCCCEEEE
Confidence            34699999999999999999998743    223455555

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=95.07  E-value=0.0046  Score=51.37  Aligned_cols=35  Identities=26%  Similarity=0.314  Sum_probs=26.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||.+.+..-.    ....+.+.+
T Consensus        26 ~Gei~~l~G~NGsGKSTLl~~i~gl~----~p~~G~I~~   60 (200)
T d1sgwa_          26 KGNVVNFHGPNGIGKTTLLKTISTYL----KPLKGEIIY   60 (200)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CCCEEEEECCCCChHHHHHHHHhccc----ccCCCEEEE
Confidence            44699999999999999999998743    334455544

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=95.07  E-value=0.0056  Score=52.34  Aligned_cols=35  Identities=29%  Similarity=0.317  Sum_probs=27.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-..++|+|..|+|||||++.+..-.    ..-.+.+.+
T Consensus        28 ~Ge~vaIvG~sGsGKSTLl~ll~gl~----~p~~G~I~i   62 (241)
T d2pmka1          28 QGEVIGIVGRSGSGKSTLTKLIQRFY----IPENGQVLI   62 (241)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcC----CCCCCEEEE
Confidence            34689999999999999999999743    223466665

>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=95.07  E-value=0.026  Score=46.80  Aligned_cols=59  Identities=14%  Similarity=0.206  Sum_probs=39.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCC-CCCHHHHHHHHHHHhCCC
Q 043778          155 EQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASK-VVEIEKIQESIAKKIGFF  216 (405)
Q Consensus       155 ~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~-~~~~~~l~~~i~~~l~~~  216 (405)
                      ++.+||.++|+.|+||||.+-.+.... ...+  ..+..++... .....+=++...+.++.+
T Consensus         4 ~~~~vi~lvGptGvGKTTTiaKLA~~~-~~~g--~kV~lit~Dt~R~gA~eQL~~~a~~l~i~   63 (207)
T d1okkd2           4 PKGRVVLVVGVNGVGKTTTIAKLGRYY-QNLG--KKVMFCAGDTFRAAGGTQLSEWGKRLSIP   63 (207)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHHHH-HTTT--CCEEEECCCCSSTTHHHHHHHHHHHHTCC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH-HHCC--CcEEEEEeccccccchhhHhhcccccCce
Confidence            356899999999999999655555544 3222  2466666543 345666677777777654

>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=95.06  E-value=0.007  Score=50.42  Aligned_cols=24  Identities=13%  Similarity=0.141  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+|.|+|++|+|||||.+.+....
T Consensus         3 ~livi~GPSG~GK~tl~~~L~~~~   26 (205)
T d1s96a_           3 TLYIVSAPSGAGKSSLIQALLKTQ   26 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhC
Confidence            588999999999999999998743

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=95.03  E-value=0.0056  Score=52.76  Aligned_cols=35  Identities=23%  Similarity=0.261  Sum_probs=27.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||++.+..-.    ..-.+.+.+
T Consensus        40 ~Ge~iaivG~sGsGKSTLl~ll~gl~----~p~~G~I~i   74 (253)
T d3b60a1          40 AGKTVALVGRSGSGKSTIASLITRFY----DIDEGHILM   74 (253)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHTTTT----CCSEEEEEE
T ss_pred             CCCEEEEECCCCChHHHHHHHHhccc----CCCccEEEE
Confidence            34689999999999999999998633    223466666

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=95.02  E-value=0.0055  Score=52.24  Aligned_cols=35  Identities=23%  Similarity=0.223  Sum_probs=26.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||++.+..-. +   .=.+.+++
T Consensus        30 ~Ge~~~iiG~sGsGKSTLl~~i~Gl~-~---p~sG~I~~   64 (240)
T d3dhwc1          30 AGQIYGVIGASGAGKSTLIRCVNLLE-R---PTEGSVLV   64 (240)
T ss_dssp             SSCEEEEEESTTSSHHHHHHHHTTSS-C---CSEEEEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcCCc-c---ccCCceEE
Confidence            34699999999999999999998744 2   22366655

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=95.01  E-value=0.0057  Score=51.82  Aligned_cols=36  Identities=17%  Similarity=0.204  Sum_probs=27.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAV  195 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~  195 (405)
                      .-.+++|+|+.|+|||||.+.+..-.    ..-.+.+++.
T Consensus        30 ~Ge~~~iiG~sGsGKSTLl~~i~gl~----~p~sG~I~~~   65 (230)
T d1l2ta_          30 EGEFVSIMGPSGSGKSTMLNIIGCLD----KPTEGEVYID   65 (230)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS----CCSEEEEEET
T ss_pred             CCCEEEEECCCCCCcchhhHhccCCC----CCCcceeEEC
Confidence            34699999999999999999888633    2335777763

>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=94.96  E-value=0.0066  Score=51.44  Aligned_cols=36  Identities=19%  Similarity=0.171  Sum_probs=27.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAV  195 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~  195 (405)
                      .-.+++|+|+.|+|||||.+.+..-. +   .=.+.+++.
T Consensus        25 ~Gei~~liGpsGsGKSTLl~~i~Gl~-~---p~sG~I~i~   60 (232)
T d2awna2          25 EGEFVVFVGPSGCGKSTLLRMIAGLE-T---ITSGDLFIG   60 (232)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS-C---CSEEEEEES
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcCC-C---CCCCEEEEC
Confidence            34699999999999999999998743 2   224666653

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.91  E-value=0.0061  Score=52.45  Aligned_cols=35  Identities=20%  Similarity=0.241  Sum_probs=27.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||++.+..-.    ..-.+.+++
T Consensus        39 ~Ge~vaivG~sGsGKSTLl~li~gl~----~p~~G~I~i   73 (251)
T d1jj7a_          39 PGEVTALVGPNGSGKSTVAALLQNLY----QPTGGQLLL   73 (251)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhccc----CCCcCEEEE
Confidence            45699999999999999999998744    234567766

>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=94.88  E-value=0.0071  Score=51.72  Aligned_cols=25  Identities=28%  Similarity=0.394  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .-..++|+|+.|+|||||++.+..-
T Consensus        27 ~Ge~vaivG~sGsGKSTLl~ll~gl   51 (242)
T d1mv5a_          27 PNSIIAFAGPSGGGKSTIFSLLERF   51 (242)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHh
Confidence            4569999999999999999999863

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=94.86  E-value=0.0064  Score=52.52  Aligned_cols=35  Identities=26%  Similarity=0.216  Sum_probs=27.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||++.+..-.    ..-.+.+++
T Consensus        27 ~GEi~~iiG~sGsGKSTLl~~i~Gl~----~p~~G~I~~   61 (258)
T d1b0ua_          27 AGDVISIIGSSGSGKSTFLRCINFLE----KPSEGAIIV   61 (258)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHcCc----cCCCCCEEE
Confidence            34699999999999999999998633    334577766

>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=47.14  Aligned_cols=22  Identities=32%  Similarity=0.401  Sum_probs=19.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043778          160 IGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      |.|+|.+|+|||||...+.++.
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            6799999999999999987654

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=94.82  E-value=0.018  Score=47.88  Aligned_cols=57  Identities=16%  Similarity=0.114  Sum_probs=35.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCC--HHHHHHHHHHHhCCC
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVE--IEKIQESIAKKIGFF  216 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~--~~~l~~~i~~~l~~~  216 (405)
                      +.+||.++|+.|+||||.+-.+.... ..+ .. -+..++. +.+.  ..+-++...+.++.+
T Consensus         9 ~~~vi~lvGp~GvGKTTTiaKLA~~~-~~~-g~-kV~lit~-Dt~R~gA~eQL~~~a~~l~v~   67 (207)
T d1ls1a2           9 DRNLWFLVGLQGSGKTTTAAKLALYY-KGK-GR-RPLLVAA-DTQRPAAREQLRLLGEKVGVP   67 (207)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHH-HHT-TC-CEEEEEC-CSSCHHHHHHHHHHHHHHTCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH-HHC-CC-cEEEEec-ccccchHHHHHHHHHHhcCCc
Confidence            45799999999999999555555444 212 22 3444444 4443  344566667777654

>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=94.76  E-value=0.008  Score=51.11  Aligned_cols=35  Identities=26%  Similarity=0.203  Sum_probs=27.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||.+.+..-.    ..-.+.+++
T Consensus        31 ~Ge~~~liGpsGaGKSTLl~~i~Gl~----~p~sG~I~i   65 (239)
T d1v43a3          31 DGEFLVLLGPSGCGKTTTLRMIAGLE----EPTEGRIYF   65 (239)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS----CCSEEEEEE
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcCC----CCCCCEEEE
Confidence            34699999999999999999998743    223466666

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.73  E-value=0.0079  Score=52.66  Aligned_cols=26  Identities=31%  Similarity=0.520  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.+++|+|+.|+|||||++.+..-.
T Consensus        61 ~Ge~vaivG~nGsGKSTLl~~i~Gl~   86 (281)
T d1r0wa_          61 KGEMLAITGSTGSGKTSLLMLILGEL   86 (281)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhCCC
Confidence            45689999999999999999998744

>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=94.69  E-value=0.0086  Score=50.90  Aligned_cols=34  Identities=21%  Similarity=0.091  Sum_probs=27.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEE
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAV  195 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~  195 (405)
                      .+++|+|+.|+|||||.+.+..-.    ..-.+.+++.
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl~----~p~~G~I~~~   58 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGIV----KPDRGEVRLN   58 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSS----CCSEEEEEET
T ss_pred             EEEEEECCCCChHHHHHHHHHcCC----CCCceEEEEC
Confidence            388999999999999999999743    2336777773

>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=94.55  E-value=0.061  Score=45.29  Aligned_cols=48  Identities=15%  Similarity=0.039  Sum_probs=34.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccC---CCCCCCEEEEEEeCCCCCHH
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLD---EPNYFDVVIWAVASKVVEIE  203 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~---~~~~F~~~~wv~vs~~~~~~  203 (405)
                      .-+++.|.|.+|+|||+||.++..+...   ....+..+.|+.....+...
T Consensus        36 ~G~~~~i~G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (258)
T d1v5wa_          36 SMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPD   86 (258)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHhhhhcccccceEEEechHHHHHHH
Confidence            4579999999999999999998764311   12345677888776666544

>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=94.53  E-value=0.018  Score=52.22  Aligned_cols=26  Identities=23%  Similarity=0.059  Sum_probs=23.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..+.+.++|++|+|||++|..+.+..
T Consensus       153 ~~~~~~~~g~~~~gk~~~~~~~~~~~  178 (362)
T d1svma_         153 KKRYWLFKGPIDSGKTTLAAALLELC  178 (362)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CcCeEEEECCCCCCHHHHHHHHHHHc
Confidence            56789999999999999999999966

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.53  E-value=0.0099  Score=51.98  Aligned_cols=26  Identities=27%  Similarity=0.143  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+-+|||.|..|+||||||..+....
T Consensus        26 ~P~iIGi~G~qGSGKSTl~~~l~~~L   51 (286)
T d1odfa_          26 CPLFIFFSGPQGSGKSFTSIQIYNHL   51 (286)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEeECCCCCCHHHHHHHHHHHH
Confidence            46699999999999999999887643

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=94.52  E-value=0.0094  Score=49.63  Aligned_cols=20  Identities=30%  Similarity=0.315  Sum_probs=18.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q 043778          159 IIGLYGMGSVGKTTLLILIN  178 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~  178 (405)
                      +|||+|+.|+||||+|..+-
T Consensus         5 iIgitG~igSGKStv~~~l~   24 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAFA   24 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHHH
Confidence            89999999999999998654

>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=94.52  E-value=0.061  Score=43.87  Aligned_cols=26  Identities=19%  Similarity=0.213  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.++.|.|++|+|||+||..+..+.
T Consensus        22 ~G~v~~i~G~~GsGKT~l~l~la~~~   47 (242)
T d1n0wa_          22 TGSITEMFGEFRTGKTQICHTLAVTC   47 (242)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHHH
Confidence            35699999999999999999987654

>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=94.47  E-value=0.01  Score=46.79  Aligned_cols=23  Identities=30%  Similarity=0.364  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      -|+|+|.+|+|||||...+.++.
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~~~   29 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQVGE   29 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            37899999999999999987753

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=94.43  E-value=0.008  Score=50.76  Aligned_cols=35  Identities=23%  Similarity=0.059  Sum_probs=27.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||.+.+..-.    ..-.+.+++
T Consensus        25 ~Ge~~~liGpsGaGKSTll~~l~Gl~----~p~sG~I~~   59 (229)
T d3d31a2          25 SGEYFVILGPTGAGKTLFLELIAGFH----VPDSGRILL   59 (229)
T ss_dssp             TTCEEEEECCCTHHHHHHHHHHHTSS----CCSEEEEEE
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCc----CCCCCEEEE
Confidence            34699999999999999999999743    222466666

>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=94.39  E-value=0.007  Score=51.25  Aligned_cols=25  Identities=20%  Similarity=0.328  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      -+.|+|-|+-|+||||+++.+....
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~~l   26 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQLC   26 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGGC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999988754

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=94.38  E-value=0.018  Score=49.24  Aligned_cols=44  Identities=16%  Similarity=0.093  Sum_probs=33.7

Q ss_pred             cccchHHHHHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          138 IVGLESIFDKLWRCLTE--EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       138 ~vGr~~~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +||.....+++.+.+..  ..-.-|.|.|..|+|||++|+.++...
T Consensus         2 ~v~~S~~~~~~~~~~~~~a~~~~pvlI~Ge~GtGK~~~A~~ih~~s   47 (247)
T d1ny5a2           2 YVFESPKMKEILEKIKKISCAECPVLITGESGVGKEVVARLIHKLS   47 (247)
T ss_dssp             CCCCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhc
Confidence            67877777877777653  222346889999999999999998744

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=94.38  E-value=0.011  Score=49.12  Aligned_cols=21  Identities=43%  Similarity=0.460  Sum_probs=18.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHH
Q 043778          158 GIIGLYGMGSVGKTTLLILIN  178 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~  178 (405)
                      -+|||+|..|+||||+|+.+-
T Consensus         3 ~iIgITG~igSGKStv~~~l~   23 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFT   23 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            489999999999999998664

>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=94.37  E-value=0.012  Score=49.55  Aligned_cols=37  Identities=24%  Similarity=0.200  Sum_probs=27.7

Q ss_pred             eEEEEE-cCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeC
Q 043778          158 GIIGLY-GMGSVGKTTLLILINNKFLDEPNYFDVVIWAVAS  197 (405)
Q Consensus       158 ~vi~I~-G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs  197 (405)
                      +||+|+ |.||+||||+|..+.... .  +.=..++.|...
T Consensus         2 kvIav~s~KGGvGKTtia~nlA~~l-a--~~g~~VlliD~D   39 (232)
T d1hyqa_           2 RTITVASGKGGTGKTTITANLGVAL-A--QLGHDVTIVDAD   39 (232)
T ss_dssp             EEEEEEESSSCSCHHHHHHHHHHHH-H--HTTCCEEEEECC
T ss_pred             EEEEEECCCCCChHHHHHHHHHHHH-H--hCCCCEEEEeCC
Confidence            688998 899999999999988765 2  222357777754

>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=94.37  E-value=0.013  Score=47.99  Aligned_cols=24  Identities=29%  Similarity=0.403  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      ++..|+|+|.+|+|||||...+.+
T Consensus        22 ~~~~I~lvG~~n~GKSTLin~L~g   45 (195)
T d1svia_          22 GLPEIALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             CCCEEEEEEBTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHhcC
Confidence            556799999999999999999986

>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=94.31  E-value=0.012  Score=49.15  Aligned_cols=58  Identities=19%  Similarity=0.100  Sum_probs=30.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCC-CCCHHHHHHHHHHHhCCC
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASK-VVEIEKIQESIAKKIGFF  216 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~-~~~~~~l~~~i~~~l~~~  216 (405)
                      .+.||.++|+.|+||||.+-.+.... +.+ .. .+..|+... .....+=++...+.++.+
T Consensus        11 ~p~vi~lvGptGvGKTTTiAKLA~~~-~~~-g~-kV~lit~Dt~R~ga~eQL~~~a~~l~v~   69 (211)
T d1j8yf2          11 IPYVIMLVGVQGTGKATTAGKLAYFY-KKK-GF-KVGLVGADVYRPAALEQLQQLGQQIGVP   69 (211)
T ss_dssp             SSEEEEEECSCCC----HHHHHHHHH-HHT-TC-CEEEEECCCSSHHHHHHHHHHHHHHTCC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHH-HHC-CC-ceEEEEeeccccchhHHHHHhccccCcc
Confidence            67899999999999999544444444 212 22 355555432 122333455556666544

>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=94.28  E-value=0.054  Score=46.72  Aligned_cols=54  Identities=26%  Similarity=0.280  Sum_probs=41.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCC
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFFN  217 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i~~~l~~~~  217 (405)
                      .-+++-|.|.+|+||||||..+....   +..=..++|++.-..++...     +++++...
T Consensus        59 ~g~i~e~~G~~~~GKT~l~l~~~~~~---q~~g~~~vyIDtE~~~~~e~-----a~~~GvD~  112 (269)
T d1mo6a1          59 RGRVIEIYGPESSGKTTVALHAVANA---QAAGGVAAFIDAEHALDPDY-----AKKLGVDT  112 (269)
T ss_dssp             SSSEEEEECSSSSSHHHHHHHHHHHH---HHTTCEEEEEESSCCCCHHH-----HHHHTCCG
T ss_pred             cceeEEEecCCCcHHHHHHHHHHHHH---hcCCCEEEEEECCccCCHHH-----HHHhCCCH
Confidence            46799999999999999998888755   22234689999888888764     55666653

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=94.24  E-value=0.025  Score=50.25  Aligned_cols=45  Identities=20%  Similarity=0.295  Sum_probs=34.7

Q ss_pred             cccccchHHHHHHHHHhhc-------C--CceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          136 LTIVGLESIFDKLWRCLTE-------E--QVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       136 ~~~vGr~~~~~~l~~~L~~-------~--~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ..++|-+..++.+...+..       +  ...++.++|+.|+|||.||+.+...
T Consensus        23 ~~v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~   76 (315)
T d1qvra3          23 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAAT   76 (315)
T ss_dssp             HHSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHH
T ss_pred             CeEeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHH
Confidence            4578888888877765531       1  3448889999999999999998874

>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=94.24  E-value=0.015  Score=48.51  Aligned_cols=58  Identities=19%  Similarity=0.172  Sum_probs=35.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCC-CCCHHHHHHHHHHHhCCC
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASK-VVEIEKIQESIAKKIGFF  216 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~-~~~~~~l~~~i~~~l~~~  216 (405)
                      .+.||.++|+.|+||||.+-.+.... ..++  ..+..++... .....+=++...+.++.+
T Consensus        10 ~p~vi~lvGptGvGKTTTiAKLAa~~-~~~~--~kV~lit~Dt~R~gA~eQL~~~a~~l~i~   68 (213)
T d1vmaa2          10 PPFVIMVVGVNGTGKTTSCGKLAKMF-VDEG--KSVVLAAADTFRAAAIEQLKIWGERVGAT   68 (213)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHH-HHTT--CCEEEEEECTTCHHHHHHHHHHHHHHTCE
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHH-HHCC--CceEEEeecccccchhHHHHHHhhhcCcc
Confidence            67899999999999999544444433 2122  2456665543 223344466666666543

>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=94.09  E-value=0.014  Score=48.53  Aligned_cols=24  Identities=25%  Similarity=0.310  Sum_probs=21.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..|+|-|+.|+||||+++.+.+..
T Consensus         4 ~lI~ieG~dGsGKsT~~~~L~~~L   27 (209)
T d1nn5a_           4 ALIVLEGVDRAGKSTQSRKLVEAL   27 (209)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            579999999999999999998865

>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=94.04  E-value=0.014  Score=46.74  Aligned_cols=21  Identities=33%  Similarity=0.479  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 043778          160 IGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~  180 (405)
                      |.|+|.+|+|||||+.++.++
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            678999999999999998764

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=94.03  E-value=0.0089  Score=50.91  Aligned_cols=25  Identities=28%  Similarity=0.424  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .-.+++|+|+.|+|||||.+.+..-
T Consensus        30 ~Ge~~~iiG~sGsGKSTll~~i~gl   54 (242)
T d1oxxk2          30 NGERFGILGPSGAGKTTFMRIIAGL   54 (242)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHcC
Confidence            3469999999999999999999973

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=94.02  E-value=0.013  Score=49.94  Aligned_cols=35  Identities=29%  Similarity=0.200  Sum_probs=27.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|.|||||.+.+..-.    ..-.+.+.+
T Consensus        31 ~Gei~~liGpnGaGKSTl~~~i~Gl~----~p~~G~I~~   65 (240)
T d1ji0a_          31 RGQIVTLIGANGAGKTTTLSAIAGLV----RAQKGKIIF   65 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC----CCCccEEEe
Confidence            34699999999999999999999743    233466666

>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=93.99  E-value=0.0072  Score=52.88  Aligned_cols=26  Identities=23%  Similarity=0.360  Sum_probs=18.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +..||+|.|.+|+||||+|+.+.+..
T Consensus         3 k~pIIgIaG~SGSGKTTva~~l~~i~   28 (288)
T d1a7ja_           3 KHPIISVTGSSGAGTSTVKHTFDQIF   28 (288)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHH
Confidence            34599999999999999999876643

>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=93.99  E-value=0.016  Score=47.85  Aligned_cols=23  Identities=30%  Similarity=0.580  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .|+|-|.-|+||||+++.+.+..
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l   24 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAF   24 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68999999999999999998754

>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=93.91  E-value=0.064  Score=46.20  Aligned_cols=55  Identities=24%  Similarity=0.314  Sum_probs=42.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCC
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFFNE  218 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i~~~l~~~~~  218 (405)
                      .-+++-|+|.+|+|||+||..+.... ....  ..++|++.-..+++.     +++.+|...+
T Consensus        56 ~g~itei~G~~~sGKT~l~l~~~~~a-qk~g--~~v~yiDtE~~~~~~-----~a~~~Gvd~d  110 (268)
T d1xp8a1          56 RGRITEIYGPESGGKTTLALAIVAQA-QKAG--GTCAFIDAEHALDPV-----YARALGVNTD  110 (268)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHH-HHTT--CCEEEEESSCCCCHH-----HHHHTTCCGG
T ss_pred             CceEEEEecCCccchHHHHHHHHHHH-HhCC--CEEEEEECCccCCHH-----HHHHhCCCch
Confidence            45799999999999999999988766 2222  358999988888874     5677776543

>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=93.89  E-value=0.014  Score=49.62  Aligned_cols=35  Identities=29%  Similarity=0.332  Sum_probs=27.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||.+.+..-.    ..-.+.+.+
T Consensus        27 ~Gei~glvG~nGaGKSTLl~~l~G~~----~p~~G~i~i   61 (238)
T d1vpla_          27 EGEIFGLIGPNGAGKTTTLRIISTLI----KPSSGIVTV   61 (238)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC----CCCCCEEEE
Confidence            34699999999999999999999743    222466665

>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=93.89  E-value=0.014  Score=50.19  Aligned_cols=35  Identities=17%  Similarity=0.212  Sum_probs=27.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-.+++|+|+.|+|||||++.+..-.    ..-.+.+++
T Consensus        29 ~Gei~~liG~nGaGKSTLl~~i~Gl~----~p~~G~I~~   63 (254)
T d1g6ha_          29 KGDVTLIIGPNGSGKSTLINVITGFL----KADEGRVYF   63 (254)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHCCC----cCCCcEEEE
Confidence            34589999999999999999999844    223466666

>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=93.89  E-value=0.016  Score=46.04  Aligned_cols=21  Identities=33%  Similarity=0.341  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 043778          160 IGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~  180 (405)
                      |.|+|.+|+|||+|+.++.++
T Consensus         7 ivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           7 YIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988763

>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=93.87  E-value=0.016  Score=45.85  Aligned_cols=21  Identities=24%  Similarity=0.428  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 043778          160 IGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~  180 (405)
                      |.++|.+|+|||||...+.+.
T Consensus         5 v~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999987763

>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=93.86  E-value=0.016  Score=45.85  Aligned_cols=21  Identities=33%  Similarity=0.292  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 043778          160 IGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~  180 (405)
                      |.++|.+|+|||||...+.++
T Consensus         5 v~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            779999999999999998764

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=93.76  E-value=0.009  Score=51.44  Aligned_cols=35  Identities=26%  Similarity=0.323  Sum_probs=26.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEE
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWA  194 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv  194 (405)
                      .-..++|+|..|+|||||++.+..-.    ..-.+.+.+
T Consensus        43 ~Ge~vaivG~sGsGKSTLl~ll~gl~----~p~~G~I~i   77 (255)
T d2hyda1          43 KGETVAFVGMSGGGKSTLINLIPRFY----DVTSGQILI   77 (255)
T ss_dssp             TTCEEEEECSTTSSHHHHHTTTTTSS----CCSEEEEEE
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHhcC----Ccccccccc
Confidence            44699999999999999999888633    222455555

>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=93.75  E-value=0.016  Score=45.85  Aligned_cols=22  Identities=32%  Similarity=0.502  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 043778          159 IIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      -|.|+|.+|+|||||...+.+.
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~~   25 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNGE   25 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHcCC
Confidence            3779999999999999998663

>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=93.67  E-value=0.019  Score=48.18  Aligned_cols=37  Identities=24%  Similarity=0.272  Sum_probs=27.4

Q ss_pred             eEEEEE-cCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeC
Q 043778          158 GIIGLY-GMGSVGKTTLLILINNKFLDEPNYFDVVIWAVAS  197 (405)
Q Consensus       158 ~vi~I~-G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs  197 (405)
                      +||+|+ +.||+||||+|..+.... .  ..-..++.++..
T Consensus         3 ~vIav~~~kGGvGKTtia~nLA~~l-a--~~g~~VlliD~D   40 (237)
T d1g3qa_           3 RIISIVSGKGGTGKTTVTANLSVAL-G--DRGRKVLAVDGD   40 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHH-H--HTTCCEEEEECC
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHHH-H--hCCCCEEEEeCC
Confidence            689999 679999999999988765 2  222356777654

>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=93.66  E-value=0.032  Score=50.53  Aligned_cols=26  Identities=23%  Similarity=0.217  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ....+..+|+.|+|||-||+.+....
T Consensus        67 p~~niLfiGPTGvGKTElAk~LA~~~   92 (364)
T d1um8a_          67 SKSNILLIGPTGSGKTLMAQTLAKHL   92 (364)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCcceeeeCCCCccHHHHHHHHHhhc
Confidence            45668899999999999999998643

>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=93.61  E-value=0.019  Score=45.42  Aligned_cols=21  Identities=33%  Similarity=0.420  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 043778          160 IGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~  180 (405)
                      |.|+|.+|+|||+|..++.++
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~   23 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYD   23 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            788999999999999998763

>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=93.59  E-value=0.019  Score=45.70  Aligned_cols=21  Identities=38%  Similarity=0.515  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 043778          160 IGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~  180 (405)
                      |.++|.+|+|||||...+.++
T Consensus         8 i~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            789999999999999988753

>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=93.55  E-value=0.03  Score=44.65  Aligned_cols=24  Identities=33%  Similarity=0.656  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      +..-|.++|.+|+|||||...+..
T Consensus        12 k~~kI~lvG~~~vGKTsLl~~l~~   35 (186)
T d1f6ba_          12 KTGKLVFLGLDNAGKTTLLHMLKD   35 (186)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHHSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            445688999999999999988865

>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=93.52  E-value=0.02  Score=45.71  Aligned_cols=22  Identities=36%  Similarity=0.376  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 043778          159 IIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      -|.|+|.+|+|||||...+.++
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999998864

>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=93.50  E-value=0.022  Score=48.21  Aligned_cols=23  Identities=30%  Similarity=0.291  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .+|+|.|..|+||||+|..+.+.
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e~   24 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMSN   24 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            58999999999999999999763

>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=93.49  E-value=0.02  Score=45.60  Aligned_cols=21  Identities=29%  Similarity=0.377  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q 043778          159 IIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      .|+|+|.+|+|||||...+.+
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            589999999999999999875

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=93.47  E-value=0.038  Score=46.36  Aligned_cols=26  Identities=15%  Similarity=0.183  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .-.++.|.|.+|+|||+||..+..+.
T Consensus        33 ~G~l~~i~G~~G~GKT~~~l~~a~~~   58 (258)
T d2i1qa2          33 SQSVTEFAGVFGSGKTQIMHQSCVNL   58 (258)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            45799999999999999999997644

>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=93.46  E-value=0.019  Score=45.66  Aligned_cols=21  Identities=29%  Similarity=0.706  Sum_probs=18.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 043778          160 IGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~  180 (405)
                      |.++|.+|+|||||...+.++
T Consensus         5 i~viG~~~vGKTsLi~r~~~~   25 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKG   25 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            679999999999999887763

>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=93.44  E-value=0.021  Score=45.33  Aligned_cols=22  Identities=23%  Similarity=0.353  Sum_probs=19.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043778          160 IGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      |.|+|.+|+|||||...+.++.
T Consensus         7 i~lvG~~~vGKTsli~rl~~~~   28 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVEDS   28 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6789999999999999987643

>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=93.43  E-value=0.023  Score=45.48  Aligned_cols=23  Identities=39%  Similarity=0.559  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      ...|+|+|.+|+|||||..++.+
T Consensus         5 ~~~I~iiG~~nvGKSSLin~L~~   27 (179)
T d1egaa1           5 CGFIAIVGRPNVGKSTLLNKLLG   27 (179)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHT
T ss_pred             ccEEEEECCCCCCHHHHHHHHhC
Confidence            45799999999999999999986

>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=93.41  E-value=0.021  Score=45.56  Aligned_cols=21  Identities=33%  Similarity=0.385  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q 043778          159 IIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      -|+|+|.+|+|||||...+.+
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~   24 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVN   24 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHc
Confidence            378999999999999998775

>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=93.40  E-value=0.021  Score=45.47  Aligned_cols=21  Identities=29%  Similarity=0.414  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 043778          160 IGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~  180 (405)
                      |.++|.+|+|||+|+..+.+.
T Consensus         4 i~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCcCHHHHHHHHhCC
Confidence            778999999999999988763

>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=93.39  E-value=0.022  Score=44.37  Aligned_cols=22  Identities=36%  Similarity=0.608  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 043778          159 IIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      -|+++|.+|+|||||...+.+.
T Consensus         2 KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999998763

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=93.39  E-value=0.016  Score=49.10  Aligned_cols=24  Identities=33%  Similarity=0.425  Sum_probs=21.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      .-.+++|+|+.|.|||||.+.+..
T Consensus        24 ~Gei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          24 AGEILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             TTCEEECBCCTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhC
Confidence            346999999999999999999987

>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=93.38  E-value=0.022  Score=45.38  Aligned_cols=21  Identities=29%  Similarity=0.488  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 043778          160 IGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~  180 (405)
                      |.++|.+|+|||||+..+.+.
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           9 LVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998753

>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=93.34  E-value=0.022  Score=45.15  Aligned_cols=22  Identities=27%  Similarity=0.447  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 043778          159 IIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      -|.++|.+|+|||+|..++.++
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999998764

>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=93.32  E-value=0.02  Score=46.31  Aligned_cols=21  Identities=33%  Similarity=0.363  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q 043778          159 IIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      -|.|+|.+|+|||||+..+.+
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~   27 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTD   27 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHhc
Confidence            377999999999999998876

>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=93.32  E-value=0.025  Score=50.14  Aligned_cols=24  Identities=29%  Similarity=0.553  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .++.++|++|+|||.||+.+....
T Consensus       124 g~~l~~G~pG~GKT~la~ala~~~  147 (321)
T d1w44a_         124 GMVIVTGKGNSGKTPLVHALGEAL  147 (321)
T ss_dssp             EEEEEECSSSSCHHHHHHHHHHHH
T ss_pred             ceEEEECCCCccHHHHHHHHHHHh
Confidence            456668999999999999999854

>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=93.29  E-value=0.023  Score=45.13  Aligned_cols=20  Identities=40%  Similarity=0.619  Sum_probs=18.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q 043778          160 IGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~  179 (405)
                      |.|+|.+|+|||+|..++.+
T Consensus         6 ivlvG~~~vGKTsLi~r~~~   25 (167)
T d1z08a1           6 VVLLGEGCVGKTSLVLRYCE   25 (167)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            68999999999999998775

>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=93.27  E-value=0.026  Score=45.29  Aligned_cols=24  Identities=33%  Similarity=0.477  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ...|+|+|.+|+|||||...+.+.
T Consensus         5 ~~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           5 SGFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            457999999999999999999864

>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=93.24  E-value=0.023  Score=45.46  Aligned_cols=22  Identities=32%  Similarity=0.413  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 043778          159 IIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      -|.|+|..|+|||||+..+.++
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999988763

>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=93.21  E-value=0.023  Score=45.40  Aligned_cols=22  Identities=32%  Similarity=0.419  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 043778          159 IIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      -|.|+|.+|+|||+|...+.++
T Consensus         8 Kv~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4779999999999999987763

>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=93.21  E-value=0.024  Score=45.33  Aligned_cols=20  Identities=25%  Similarity=0.287  Sum_probs=18.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q 043778          160 IGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~  179 (405)
                      |.++|.+|+|||||+..+..
T Consensus         8 I~lvG~~~vGKTsll~~~~~   27 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIE   27 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999998765

>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=93.17  E-value=0.033  Score=44.28  Aligned_cols=33  Identities=27%  Similarity=0.543  Sum_probs=24.0

Q ss_pred             HHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          147 KLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       147 ~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .+..++. +.-.-|.|+|.+|+|||||..++...
T Consensus         6 ~~~~~~~-~k~~kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1           6 RIWRLFN-HQEHKVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             HHHHHHT-TSCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHHhC-CCeEEEEEECCCCCCHHHHHHHHhcC
Confidence            4444443 33345779999999999999988763

>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=93.15  E-value=0.024  Score=44.86  Aligned_cols=21  Identities=38%  Similarity=0.487  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 043778          160 IGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~  180 (405)
                      |.++|.+|+|||||...+.+.
T Consensus         5 i~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            779999999999999988763

>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=93.15  E-value=0.022  Score=45.44  Aligned_cols=22  Identities=41%  Similarity=0.469  Sum_probs=19.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q 043778          158 GIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      --|.++|.+|+|||||...+.+
T Consensus        17 ~kI~vvG~~~vGKSsLi~~l~~   38 (176)
T d1fzqa_          17 VRILLLGLDNAGKTTLLKQLAS   38 (176)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            3588999999999999998865

>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=93.07  E-value=0.026  Score=44.89  Aligned_cols=21  Identities=29%  Similarity=0.646  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 043778          160 IGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~  180 (405)
                      |.++|.+|+|||+|...+.++
T Consensus         5 i~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            678999999999999998874

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

Probab=93.06  E-value=0.018  Score=46.30  Aligned_cols=20  Identities=35%  Similarity=0.675  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q 043778          160 IGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~  179 (405)
                      |+|+|.+|+|||||...+.+
T Consensus         4 VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCS
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            89999999999999999875

>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=93.00  E-value=0.026  Score=44.92  Aligned_cols=21  Identities=33%  Similarity=0.472  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 043778          160 IGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~  180 (405)
                      |.|+|.+|+|||+|...+.++
T Consensus         8 i~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           8 LVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            788999999999999987763

>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=92.97  E-value=0.027  Score=44.62  Aligned_cols=23  Identities=35%  Similarity=0.460  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .-|.|+|.+|+|||||...+.++
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            35788999999999999987653

>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=92.97  E-value=0.033  Score=46.37  Aligned_cols=25  Identities=28%  Similarity=0.355  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+.|+|-|+-|+||||+++.+....
T Consensus         3 Gk~I~iEG~DGsGKST~~~~L~~~L   27 (214)
T d1tmka_           3 GKLILIEGLDRTGKTTQCNILYKKL   27 (214)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             eEEEEEECCCCCcHHHHHHHHHHHH
Confidence            4689999999999999999999865

>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=92.97  E-value=0.027  Score=44.62  Aligned_cols=21  Identities=33%  Similarity=0.556  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 043778          160 IGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~  180 (405)
                      |.++|.+|+|||||...+.++
T Consensus         6 i~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999998774

>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=92.90  E-value=0.027  Score=45.98  Aligned_cols=21  Identities=33%  Similarity=0.545  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 043778          160 IGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~  180 (405)
                      |.|+|.+|+|||||...+.+.
T Consensus         9 ivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhhC
Confidence            789999999999999998764

>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=92.86  E-value=0.03  Score=46.31  Aligned_cols=24  Identities=25%  Similarity=0.313  Sum_probs=21.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.|+|-|+.|+||||++..+....
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~~L   26 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVETL   26 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            578999999999999999998755

>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=92.84  E-value=0.029  Score=44.44  Aligned_cols=21  Identities=29%  Similarity=0.499  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 043778          160 IGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~  180 (405)
                      |.++|.+|+|||+|...+.+.
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            678999999999999998764

>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=92.81  E-value=0.032  Score=45.93  Aligned_cols=23  Identities=22%  Similarity=0.317  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      +-|+|+|.+|+|||||..++.+.
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            35899999999999999998764

>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=92.77  E-value=0.026  Score=45.28  Aligned_cols=22  Identities=36%  Similarity=0.499  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 043778          159 IIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      -|+|+|.+|+|||||...+.+.
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999999863

>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=92.73  E-value=0.03  Score=44.83  Aligned_cols=22  Identities=36%  Similarity=0.537  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 043778          159 IIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      -|.|+|.+|+|||+|...+.++
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3678999999999999887764

>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=92.72  E-value=0.19  Score=41.02  Aligned_cols=38  Identities=11%  Similarity=0.015  Sum_probs=31.3

Q ss_pred             HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          144 IFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       144 ~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .++.+.+++..+...-+.++|.+|+||||+|..+.+..
T Consensus         2 ~~~~l~~~i~~~~~~~~l~~G~~g~gk~~~a~~l~~~i   39 (198)
T d2gnoa2           2 QLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYV   39 (198)
T ss_dssp             HHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            35566677777788899999999999999999988744

>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=92.69  E-value=0.035  Score=44.22  Aligned_cols=31  Identities=23%  Similarity=0.251  Sum_probs=22.4

Q ss_pred             HHHhhcCCceEEEEEcCCCCcHHHHHHHHHh
Q 043778          149 WRCLTEEQVGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       149 ~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      .+.+.+.+---|.++|.+|+|||||..++.+
T Consensus         4 ~~~~~~~k~~kIvlvG~~~vGKTSli~rl~~   34 (173)
T d1e0sa_           4 LSKIFGNKEMRILMLGLDAAGKTTILYKLKL   34 (173)
T ss_dssp             HHHHHTTCCEEEEEEEETTSSHHHHHHHTTC
T ss_pred             hhhhhCCCeEEEEEECCCCCCHHHHHHHHhc
Confidence            3344444333366999999999999999875

>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=92.68  E-value=0.11  Score=40.83  Aligned_cols=29  Identities=24%  Similarity=0.141  Sum_probs=24.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCC
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEP  185 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~  185 (405)
                      ...+|.+.|.=|+||||+++.+.+.. .+.
T Consensus        32 ~g~ii~L~G~LGaGKTtfvr~~~~~l-g~~   60 (158)
T d1htwa_          32 KAIMVYLNGDLGAGKTTLTRGMLQGI-GHQ   60 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHT-TCC
T ss_pred             CCeEEEEecCCCccHHHHHHHHHhhc-ccc
Confidence            44589999999999999999999866 443

>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=92.68  E-value=0.032  Score=44.31  Aligned_cols=21  Identities=24%  Similarity=0.502  Sum_probs=18.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 043778          160 IGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~  180 (405)
                      |.|+|.+|+|||+|...+.+.
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999987763

>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=92.66  E-value=0.023  Score=45.92  Aligned_cols=21  Identities=48%  Similarity=0.757  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q 043778          159 IIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      -|+|+|.+++|||||...+.+
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEE
T ss_pred             eEEEECCCCCCHHHHHHHHhC
Confidence            489999999999999999865

>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=92.57  E-value=0.034  Score=43.89  Aligned_cols=22  Identities=32%  Similarity=0.433  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 043778          159 IIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      -|.++|.+|+|||||...+...
T Consensus         4 ki~i~G~~~~GKTsLl~~l~~~   25 (164)
T d1zd9a1           4 ELTLVGLQYSGKTTFVNVIASG   25 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            3678999999999999988663

>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=92.57  E-value=0.034  Score=44.16  Aligned_cols=22  Identities=36%  Similarity=0.483  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 043778          159 IIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      -|.|+|.+|+|||+|+..+.+.
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3889999999999999987663

>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=92.43  E-value=0.035  Score=44.69  Aligned_cols=20  Identities=35%  Similarity=0.439  Sum_probs=18.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q 043778          160 IGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~  179 (405)
                      |.++|.+|+|||||+..+.+
T Consensus         5 v~vvG~~~vGKSSLi~~l~~   24 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVN   24 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            77999999999999998876

>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=92.42  E-value=0.034  Score=44.91  Aligned_cols=21  Identities=43%  Similarity=0.548  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 043778          160 IGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~  180 (405)
                      |.|+|.+|+|||+|...+.++
T Consensus        12 i~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          12 CVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhhC
Confidence            789999999999999987763

>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=92.41  E-value=0.038  Score=45.24  Aligned_cols=23  Identities=35%  Similarity=0.426  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ..|+|+|.+|+|||||...+.+.
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            37899999999999999999864

>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=92.38  E-value=0.036  Score=44.62  Aligned_cols=22  Identities=41%  Similarity=0.481  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 043778          159 IIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      -|.|+|.+|+|||+|..++.++
T Consensus         7 KivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999887763

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=92.34  E-value=0.064  Score=44.80  Aligned_cols=33  Identities=33%  Similarity=0.460  Sum_probs=26.3

Q ss_pred             HHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          145 FDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       145 ~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      ++.|..+|.+   +...++|.+|+|||||...+..+
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            5666666643   57789999999999999999764

>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=92.19  E-value=0.039  Score=43.19  Aligned_cols=21  Identities=24%  Similarity=0.355  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q 043778          159 IIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      -|+++|.+|+|||||..++..
T Consensus         3 kI~lvG~~nvGKSsLin~l~~   23 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAG   23 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            367999999999999999875

>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=92.19  E-value=0.04  Score=44.10  Aligned_cols=21  Identities=33%  Similarity=0.574  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 043778          160 IGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~  180 (405)
                      |.++|.+|+|||||..++.++
T Consensus        10 i~vvG~~~vGKTsli~~l~~~   30 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDD   30 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988763

>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=92.14  E-value=0.037  Score=44.11  Aligned_cols=20  Identities=35%  Similarity=0.471  Sum_probs=18.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q 043778          160 IGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~  179 (405)
                      |.++|.+|+|||+|...+..
T Consensus         6 v~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           6 VVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEECCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            77999999999999998865

>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=92.12  E-value=0.078  Score=45.53  Aligned_cols=53  Identities=25%  Similarity=0.295  Sum_probs=39.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCC
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIGFF  216 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i~~~l~~~  216 (405)
                      .-+++-|+|.+|+||||||..+.... ....  ..++|++.-..++...     ++.++..
T Consensus        53 ~g~itei~G~~gsGKTtl~l~~~~~~-q~~g--~~~vyidtE~~~~~~~-----a~~~Gvd  105 (263)
T d1u94a1          53 MGRIVEIYGPESSGKTTLTLQVIAAA-QREG--KTCAFIDAEHALDPIY-----ARKLGVD  105 (263)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHH-HHTT--CCEEEEESSCCCCHHH-----HHHTTCC
T ss_pred             CceEEEEecCCCcHHHHHHHHHHHHH-HcCC--CEEEEEccccccCHHH-----HHHhCCC
Confidence            45699999999999999999988766 2222  3578998888887643     5566654

>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=92.12  E-value=0.041  Score=43.86  Aligned_cols=20  Identities=35%  Similarity=0.481  Sum_probs=18.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q 043778          160 IGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~  179 (405)
                      |.++|.+|+|||||...+.+
T Consensus         9 I~vvG~~~vGKSSli~~~~~   28 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYVT   28 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            78999999999999988765

>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=92.11  E-value=0.037  Score=44.98  Aligned_cols=19  Identities=42%  Similarity=0.558  Sum_probs=17.2

Q ss_pred             EEEEEcCCCCcHHHHHHHH
Q 043778          159 IIGLYGMGSVGKTTLLILI  177 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v  177 (405)
                      -|.++|.+|+|||||..++
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            3679999999999999988

>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=92.09  E-value=0.038  Score=44.60  Aligned_cols=22  Identities=27%  Similarity=0.412  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 043778          160 IGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      |.++|-+|+|||+|..++..+.
T Consensus         5 ivllG~~~vGKTsl~~r~~~~~   26 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKIIH   26 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhhCC
Confidence            6789999999999999876543

>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=92.00  E-value=0.043  Score=43.50  Aligned_cols=22  Identities=27%  Similarity=0.389  Sum_probs=19.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q 043778          158 GIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      .-|.++|.+|+|||||...+.+
T Consensus         5 ~KivlvG~~~vGKTsli~~~~~   26 (168)
T d1u8za_           5 HKVIMVGSGGVGKSALTLQFMY   26 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHh
Confidence            3578999999999999999765

>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=92.00  E-value=0.038  Score=46.26  Aligned_cols=26  Identities=38%  Similarity=0.383  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+.|+.|.|.-|+|||||.+++.+..
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~~   27 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNEQ   27 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHSC
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhcC
Confidence            46789999999999999999998743

>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=91.95  E-value=0.044  Score=44.04  Aligned_cols=21  Identities=33%  Similarity=0.447  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 043778          160 IGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~  180 (405)
                      |.++|.+|+|||+|...+.+.
T Consensus         5 ivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999988764

>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=91.94  E-value=0.064  Score=44.54  Aligned_cols=23  Identities=22%  Similarity=0.075  Sum_probs=19.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHH
Q 043778          156 QVGIIGLYGMGSVGKTTLLILIN  178 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~  178 (405)
                      .-.++.|.|.+|+|||+||..+.
T Consensus        25 ~G~~~~I~G~~G~GKT~la~~~~   47 (242)
T d1tf7a1          25 IGRSTLVSGTSGTGKTLFSIQFL   47 (242)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHH
Confidence            45799999999999999997753

>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=91.84  E-value=0.046  Score=43.39  Aligned_cols=21  Identities=38%  Similarity=0.525  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 043778          160 IGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~  180 (405)
                      |.++|.+|+|||||...+.++
T Consensus         7 i~lvG~~~vGKTsll~~~~~~   27 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQK   27 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            668899999999999998874

>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=91.71  E-value=0.047  Score=43.87  Aligned_cols=22  Identities=41%  Similarity=0.525  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 043778          159 IIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      -|+|+|.+|+|||||..++.+.
T Consensus        10 kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            4899999999999999998863

>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=91.64  E-value=0.032  Score=44.84  Aligned_cols=23  Identities=30%  Similarity=0.336  Sum_probs=19.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      .--|.++|.+|+|||||...+.+
T Consensus        17 ~~KI~lvG~~~vGKTsLi~~l~~   39 (182)
T d1moza_          17 ELRILILGLDGAGKTTILYRLQI   39 (182)
T ss_dssp             CEEEEEEEETTSSHHHHHHHTCC
T ss_pred             eEEEEEECCCCCCHHHHHHHHhc
Confidence            33467999999999999998754

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=91.59  E-value=0.045  Score=50.89  Aligned_cols=25  Identities=24%  Similarity=0.149  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+-|.++|+.|+|||.||+.+....
T Consensus        49 ksNILliGPTGvGKTlLAr~LAk~l   73 (443)
T d1g41a_          49 PKNILMIGPTGVGKTEIARRLAKLA   73 (443)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             cccEEEECCCCCCHHHHHHHHHHHh
Confidence            4578999999999999999999854

>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=91.58  E-value=0.027  Score=44.84  Aligned_cols=20  Identities=35%  Similarity=0.378  Sum_probs=17.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q 043778          160 IGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~  179 (405)
                      |.++|.+|+|||+|...+.+
T Consensus         6 i~vvG~~~vGKTsli~~~~~   25 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLT   25 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC-
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            77899999999999987655

>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=91.56  E-value=0.05  Score=44.12  Aligned_cols=21  Identities=43%  Similarity=0.537  Sum_probs=18.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 043778          160 IGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~  180 (405)
                      |.++|.+|+|||+|...+.+.
T Consensus         6 vvllG~~~vGKTSli~r~~~~   26 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTN   26 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999887653

>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=91.46  E-value=0.19  Score=43.19  Aligned_cols=63  Identities=22%  Similarity=0.292  Sum_probs=45.2

Q ss_pred             HHHHhhc-CCceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCC-CHHHHHHHHHHH
Q 043778          148 LWRCLTE-EQVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVV-EIEKIQESIAKK  212 (405)
Q Consensus       148 l~~~L~~-~~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~-~~~~l~~~i~~~  212 (405)
                      .++.|.- ..-+.++|.|.+|+|||+|+..+.++. . +.+=+.++++-+++.. ...++...+...
T Consensus        58 aID~l~pigkGQr~~If~~~g~GKt~l~~~i~~~~-~-~~~~~v~V~~~iGer~~ev~~~~~~~~~~  122 (276)
T d2jdid3          58 VVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNV-A-KAHGGYSVFAGVGERTREGNDLYHEMIES  122 (276)
T ss_dssp             HHHHHSCEETTCEEEEEECTTSSHHHHHHHHHHHH-T-TTCSSEEEEEEESCCHHHHHHHHHHHHHH
T ss_pred             eeeeeccccCCCEEEeeCCCCCCHHHHHHHHHHHH-H-hhCCCeEEEEEeccChHHHHHHHHHHHhc
Confidence            4444442 344679999999999999999998763 1 3444678899888765 456777777764

>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=91.41  E-value=0.054  Score=43.39  Aligned_cols=23  Identities=22%  Similarity=0.313  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      -|.++|.+|+|||||...+.+..
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~~   29 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTGS   29 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47899999999999999887743

>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=91.26  E-value=0.057  Score=43.62  Aligned_cols=21  Identities=29%  Similarity=0.430  Sum_probs=18.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 043778          160 IGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~  180 (405)
                      |.++|.+|+|||+|..++...
T Consensus         5 iv~lG~~~vGKTsll~r~~~~   25 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRII   25 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            678999999999999998654

>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=91.14  E-value=0.03  Score=44.80  Aligned_cols=24  Identities=21%  Similarity=0.249  Sum_probs=20.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      +..-|+|+|.+++|||||..++..
T Consensus        15 ~~~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          15 TGIEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             CSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhC
Confidence            456799999999999999988755

>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=91.12  E-value=0.064  Score=42.99  Aligned_cols=23  Identities=17%  Similarity=0.078  Sum_probs=20.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      -+-|.|.|.+|+||||||..+..
T Consensus        14 g~gvl~~G~sG~GKStlal~l~~   36 (176)
T d1kkma_          14 GLGVLITGDSGVGKSETALELVQ   36 (176)
T ss_dssp             TEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHH
Confidence            35688999999999999998876

>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=90.86  E-value=0.12  Score=44.07  Aligned_cols=40  Identities=25%  Similarity=0.249  Sum_probs=29.7

Q ss_pred             hHHHHHHHHHhhcC--CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          142 ESIFDKLWRCLTEE--QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       142 ~~~~~~l~~~L~~~--~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ...+.++.+.+...  ..--|+++|.+|+|||||.-.+++..
T Consensus        15 ~~~l~e~~~~l~~~~~~~l~I~LvG~tg~GKSSliN~ilg~~   56 (257)
T d1h65a_          15 QTKLLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGER   56 (257)
T ss_dssp             HHHHHHHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHHhhcCCCCcEEEEECCCCCcHHHHHHHHhCCC
Confidence            34555666666543  44468899999999999999999743

>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=90.62  E-value=0.068  Score=45.84  Aligned_cols=24  Identities=21%  Similarity=0.354  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .+..|+|.+|+||||||..+.-..
T Consensus        30 ~~~~i~G~~G~GKS~l~l~la~~i   53 (274)
T d1nlfa_          30 TVGALVSPGGAGKSMLALQLAAQI   53 (274)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHH
Confidence            578899999999999998876543

>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=90.57  E-value=0.039  Score=43.93  Aligned_cols=20  Identities=35%  Similarity=0.479  Sum_probs=8.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q 043778          160 IGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~  179 (405)
                      |.|+|.+|+|||||...+.+
T Consensus         9 i~vvG~~~vGKTsLi~~l~~   28 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSE   28 (173)
T ss_dssp             EEEECCCCC-----------
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            77999999999999987665

>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=90.56  E-value=0.073  Score=42.64  Aligned_cols=23  Identities=22%  Similarity=0.141  Sum_probs=20.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      -.-|.|.|.+|+||||||..+..
T Consensus        15 g~gvli~G~sG~GKS~lal~l~~   37 (177)
T d1knxa2          15 GVGVLLTGRSGIGKSECALDLIN   37 (177)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHT
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHH
Confidence            35688999999999999998876

>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=90.50  E-value=0.081  Score=43.42  Aligned_cols=24  Identities=21%  Similarity=0.068  Sum_probs=20.3

Q ss_pred             eEEEEEcCC-CCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMG-SVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~-GiGKTtLA~~v~~~~  181 (405)
                      +.+-|.|.| ||||||++..+....
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aL   26 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAA   26 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHH
Confidence            567899998 999999888887755

>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=90.35  E-value=0.07  Score=44.45  Aligned_cols=23  Identities=26%  Similarity=0.333  Sum_probs=19.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .-|.++|.+|+|||||...+...
T Consensus         7 ~KilllG~~~vGKTsll~~~~~~   29 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRIL   29 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            45789999999999999987643

>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=90.19  E-value=0.086  Score=41.91  Aligned_cols=23  Identities=13%  Similarity=0.082  Sum_probs=20.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      -.-|.|.|.+|+||||||..+..
T Consensus        15 g~gvli~G~sg~GKS~la~~l~~   37 (169)
T d1ko7a2          15 GVGVLITGDSGIGKSETALELIK   37 (169)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHH
Confidence            35688999999999999988876

>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=89.95  E-value=0.11  Score=46.78  Aligned_cols=43  Identities=19%  Similarity=0.057  Sum_probs=25.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCC
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKV  199 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~  199 (405)
                      -++..|.|++|.||||++..+.....+....-..++.+.....
T Consensus       163 ~~~~vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~~I~l~ApTg  205 (359)
T d1w36d1         163 RRISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAAPTG  205 (359)
T ss_dssp             BSEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEBSSH
T ss_pred             CCeEEEEcCCCCCceehHHHHHHHHHHHHhccCCeEEEecCcH
Confidence            3689999999999999876654322111122234566655433

>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=89.74  E-value=0.13  Score=45.59  Aligned_cols=22  Identities=27%  Similarity=0.173  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 043778          159 IIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      -|.|.|..|+|||||...+...
T Consensus       168 nili~G~tgSGKTT~l~al~~~  189 (323)
T d1g6oa_         168 NVIVCGGTGSGKTTYIKSIMEF  189 (323)
T ss_dssp             CEEEEESTTSSHHHHHHHHGGG
T ss_pred             CEEEEeeccccchHHHHHHhhh
Confidence            4788999999999999999873

>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=89.70  E-value=0.027  Score=44.05  Aligned_cols=21  Identities=38%  Similarity=0.483  Sum_probs=19.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 043778          160 IGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~~  180 (405)
                      |+++|.+|+|||||...+.+.
T Consensus         3 I~liG~~n~GKSSLin~l~g~   23 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLLNE   23 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999999764

>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=89.16  E-value=0.13  Score=44.07  Aligned_cols=54  Identities=15%  Similarity=0.045  Sum_probs=36.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHHHHHHHhC
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKIG  214 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i~~~l~  214 (405)
                      -.++.|.|.+|+|||||+..+..+. -....+ .+++++.  ..+...+...++....
T Consensus        35 G~l~vi~G~~G~GKT~~~~~la~~~-a~~~g~-~v~~~s~--E~~~~~~~~r~~~~~~   88 (277)
T d1cr2a_          35 GEVIMVTSGSGMGKSTFVRQQALQW-GTAMGK-KVGLAML--EESVEETAEDLIGLHN   88 (277)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHHH-HHTSCC-CEEEEES--SSCHHHHHHHHHHHHT
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHhh-hhhccc-ceeEeee--ccchhhHHhHHHHHhh
Confidence            3588899999999999999887543 112222 3455543  4567777777776653

>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=88.64  E-value=0.12  Score=44.55  Aligned_cols=26  Identities=27%  Similarity=0.112  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +.+-|+|+|-+|.|||||+-++....
T Consensus         5 ~iRni~i~gh~~~GKTtL~e~ll~~~   30 (276)
T d2bv3a2           5 RLRNIGIAAHIDAGKTTTTERILYYT   30 (276)
T ss_dssp             GEEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             hceEEEEEeCCCCCHHHHHHHHHHhc
Confidence            46789999999999999999986544

>d1p9ra_ c.37.1.11 (A:) Extracellular secretion NTPase EpsE {Vibrio cholerae [TaxId: 666]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Extracellular secretion NTPase EpsE
species: Vibrio cholerae [TaxId: 666]

Probab=88.25  E-value=0.27  Score=44.81  Aligned_cols=43  Identities=26%  Similarity=0.291  Sum_probs=31.5

Q ss_pred             ccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          139 VGLESIFDKLWRCLTEEQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       139 vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      .|.....-+.++.+......+|.|.|+.|+||||....+.+..
T Consensus       140 LG~~~~~~~~l~~l~~~~~GliLvtGpTGSGKSTTl~~~l~~~  182 (401)
T d1p9ra_         140 LGMTAHNHDNFRRLIKRPHGIILVTGPTGSGKSTTLYAGLQEL  182 (401)
T ss_dssp             SCCCHHHHHHHHHHHTSSSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             hcccHHHHHHHHHHHhhhhceEEEEcCCCCCccHHHHHHhhhh
Confidence            4655544444555555567899999999999999888887743

>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=88.11  E-value=0.35  Score=42.03  Aligned_cols=19  Identities=11%  Similarity=-0.020  Sum_probs=14.8

Q ss_pred             CeEEeChhHHHHHHHHHcc
Q 043778          363 NRVKMHDVIRDMALWIAST  381 (405)
Q Consensus       363 ~~~~~Hdlvrd~a~~~~~~  381 (405)
                      ..||.+.-|.++|..+...
T Consensus       284 ~nyRs~~~I~~~an~ll~~  302 (318)
T d1pjra1         284 QNYRSTKRILQAANEVIEH  302 (318)
T ss_dssp             BCSSSCHHHHHHHHHHHTT
T ss_pred             CCCCCcHHHHHHHHHHHHc
Confidence            3578888889988888664

>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=87.80  E-value=0.16  Score=43.58  Aligned_cols=23  Identities=30%  Similarity=0.366  Sum_probs=20.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHh
Q 043778          157 VGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      +|-|+|+|-.|.|||||+-++..
T Consensus         2 iRNv~iiGh~~~GKTtL~e~ll~   24 (267)
T d2dy1a2           2 IRTVALVGHAGSGKTTLTEALLY   24 (267)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHH
T ss_pred             eeEEEEEcCCCCcHHHHHHHHHH
Confidence            36799999999999999998854

>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=87.58  E-value=0.47  Score=40.82  Aligned_cols=35  Identities=17%  Similarity=0.056  Sum_probs=27.9

Q ss_pred             HHHHHhhc-CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          147 KLWRCLTE-EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       147 ~l~~~L~~-~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ++++.|.- ..-+.++|.|.+|+|||+|+..+.+..
T Consensus        32 r~ID~l~PigrGQr~~I~g~~g~GKT~l~~~i~~~~   67 (289)
T d1xpua3          32 RVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSI   67 (289)
T ss_dssp             HHHHHHSCCBTTCEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             eeeeecccccCCCeeeEeCCCCCCHHHHHHHHHHHH
Confidence            45666653 355789999999999999999998754

>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=87.48  E-value=0.16  Score=45.13  Aligned_cols=25  Identities=24%  Similarity=0.191  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          157 VGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       157 ~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      +..|.|-|+-|+||||+++.+.+..
T Consensus         6 ~~rI~iEG~iGsGKSTl~~~L~~~l   30 (333)
T d1p6xa_           6 IVRIYLDGVYGIGKSTTGRVMASAA   30 (333)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHSGG
T ss_pred             eEEEEEECCccCCHHHHHHHHHHHh
Confidence            4579999999999999999999865

>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=86.98  E-value=0.16  Score=40.42  Aligned_cols=21  Identities=33%  Similarity=0.547  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q 043778          159 IIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      -|+|+|.+++|||||..++..
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            599999999999999999874

>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=86.67  E-value=0.2  Score=41.61  Aligned_cols=23  Identities=39%  Similarity=0.437  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      .+|+|+|-.++|||||...+...
T Consensus         6 p~IaIiGh~d~GKSTL~~~L~~~   28 (227)
T d1g7sa4           6 PIVSVLGHVDHGKTTLLDHIRGS   28 (227)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEEeCCCccHHHHHHHHHhh
Confidence            46999999999999999888653

>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=86.52  E-value=0.33  Score=39.41  Aligned_cols=38  Identities=13%  Similarity=0.135  Sum_probs=28.9

Q ss_pred             HHHHHHHHhhc-CCceEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          144 IFDKLWRCLTE-EQVGIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       144 ~~~~l~~~L~~-~~~~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      -+..+..+|.+ ++-.-+.++|+++.|||++|..+.+-.
T Consensus        39 Fl~~l~~~l~~~PKkn~i~~~GP~~TGKS~f~~sl~~~l   77 (205)
T d1tuea_          39 FLGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFI   77 (205)
T ss_dssp             HHHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCCceEEEEECCCCccHHHHHHHHHHHh
Confidence            35555666654 356789999999999999999887643

>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=84.89  E-value=0.12  Score=43.27  Aligned_cols=23  Identities=30%  Similarity=0.378  Sum_probs=19.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 043778          158 GIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      +...++|.+|+|||||...+..+
T Consensus        98 ~~~vl~G~SGVGKSSLiN~L~~~  120 (231)
T d1t9ha2          98 KTTVFAGQSGVGKSSLLNAISPE  120 (231)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC-
T ss_pred             ceEEEECCCCccHHHHHHhhccH
Confidence            45568999999999999998764

>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=84.71  E-value=0.2  Score=44.28  Aligned_cols=24  Identities=25%  Similarity=0.063  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      ..|.|=|.-|+||||+++.+.+..
T Consensus         5 lrI~IEG~iGsGKTTl~~~La~~l   28 (329)
T d1e2ka_           5 LRVYIDGPHGMGKTTTTQLLVALG   28 (329)
T ss_dssp             EEEEECSCTTSSHHHHHHHHTC--
T ss_pred             eEEEEECCcCCCHHHHHHHHHHHh
Confidence            469999999999999999997643

>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=83.66  E-value=0.58  Score=40.02  Aligned_cols=42  Identities=10%  Similarity=-0.031  Sum_probs=31.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCC
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVV  200 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~  200 (405)
                      .-.-++|+|.+|+|||+|+..+....   ..+-+.++++-+....
T Consensus        66 ~GQr~~Ifg~~g~GKt~l~~~~~~~~---~~~~~v~V~~~iGer~  107 (276)
T d1fx0a3          66 RGQRELIIGDRQTGKTAVATDTILNQ---QGQNVICVYVAIGQKA  107 (276)
T ss_dssp             TTCBCBEEESSSSSHHHHHHHHHHTC---CTTTCEEEEEEESCCH
T ss_pred             CCceEeeccCCCCChHHHHHHHHhhh---cccCceeeeeeecchh
Confidence            34568999999999999998765533   4445677888777654

>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=83.62  E-value=0.23  Score=43.95  Aligned_cols=24  Identities=33%  Similarity=0.189  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhc
Q 043778          158 GIIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      -.|.|=|.-|+||||+++.+.+..
T Consensus         6 lrI~IEG~iGsGKSTl~~~L~~~l   29 (331)
T d1osna_           6 LRIYLDGAYGIGKTTAAEEFLHHF   29 (331)
T ss_dssp             EEEEEEESSSSCTTHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            469999999999999999999855

>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=83.44  E-value=0.38  Score=41.36  Aligned_cols=32  Identities=16%  Similarity=0.375  Sum_probs=25.9

Q ss_pred             HHHHhhcCCceEEEEEcCCCCcHHHHHHHHHhh
Q 043778          148 LWRCLTEEQVGIIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       148 l~~~L~~~~~~vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      +++.+ ++.+.||+|+|+-+.|||||.-.+++.
T Consensus        24 ~l~~~-~~~v~vvsi~G~~~sGKS~llN~l~~~   55 (277)
T d1f5na2          24 ILSAI-TQPMVVVAIVGLYRTGKSYLMNKLAGK   55 (277)
T ss_dssp             HHHTC-CSBEEEEEEEEBTTSSHHHHHHHHTTC
T ss_pred             HHHcC-CCCEEEEEEECCCCCCHHHHHHHHcCC
Confidence            34444 346889999999999999999999874

>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=83.11  E-value=0.24  Score=42.68  Aligned_cols=19  Identities=11%  Similarity=0.013  Sum_probs=15.3

Q ss_pred             CCeEEeChhHHHHHHHHHc
Q 043778          362 GNRVKMHDVIRDMALWIAS  380 (405)
Q Consensus       362 ~~~~~~Hdlvrd~a~~~~~  380 (405)
                      ...||.|.-|-++|-.+..
T Consensus       273 ~~nyRs~~~I~~~an~l~~  291 (306)
T d1uaaa1         273 EQNYRSSGRILKAANILIA  291 (306)
T ss_dssp             CCBSSSCHHHHHHHHHHHH
T ss_pred             CCCCCCCHHHHHHHHHHHH
Confidence            3479999999999988754

>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=82.76  E-value=0.12  Score=41.48  Aligned_cols=22  Identities=23%  Similarity=0.240  Sum_probs=18.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q 043778          158 GIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       158 ~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      .+..|+|+.|+||||+..++.-
T Consensus        25 ~~tvi~G~NGsGKStil~Ai~~   46 (222)
T d1qhla_          25 LVTTLSGGNGAGKSTTMAAFVT   46 (222)
T ss_dssp             HHHHHHSCCSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            3566789999999999999864

>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=82.65  E-value=0.39  Score=42.55  Aligned_cols=33  Identities=15%  Similarity=0.159  Sum_probs=25.4

Q ss_pred             HHHHHhhc-CCceEEEEEcCCCCcHHHHHHHHHh
Q 043778          147 KLWRCLTE-EQVGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       147 ~l~~~L~~-~~~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      .+.+++.. ++.|-|+|+|-.|.|||||+-.+..
T Consensus         6 ~~~~lm~~~~~IRNI~iiGhvd~GKTTL~d~Ll~   39 (341)
T d1n0ua2           6 QMRSLMDKVTNVRNMSVIAHVDHGKSTLTDSLVQ   39 (341)
T ss_dssp             HHHHHHHCGGGEEEEEEECCGGGTHHHHHHHHHH
T ss_pred             HHHHHhcCcccCcEEEEEeCCCCcHHHHHHHHHH
Confidence            44444444 3678899999999999999998863

>d1jala1 c.37.1.8 (A:1-278) YchF GTP-binding protein N-terminal domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Haemophilus influenzae [TaxId: 727]

Probab=82.19  E-value=0.34  Score=41.54  Aligned_cols=23  Identities=30%  Similarity=0.457  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 043778          159 IIGLYGMGSVGKTTLLILINNKF  181 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~~  181 (405)
                      -|||+|++.+|||||-..+-+..
T Consensus         4 ~~GivG~Pn~GKSTlf~~lt~~~   26 (278)
T d1jala1           4 KCGIVGLPNVGKSTLFNALTKAG   26 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHTC
T ss_pred             eEEEECCCCCCHHHHHHHHHCCC
Confidence            58999999999999998887643

>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=81.95  E-value=0.38  Score=39.23  Aligned_cols=20  Identities=35%  Similarity=0.428  Sum_probs=18.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q 043778          160 IGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       160 i~I~G~~GiGKTtLA~~v~~  179 (405)
                      |+|+|-.+.|||||+-++..
T Consensus         6 i~iiGhvd~GKSTL~~~Ll~   25 (204)
T d2c78a3           6 VGTIGHVDHGKTTLTAALTY   25 (204)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEeCCCCcHHHHHHHHHH
Confidence            89999999999999988853

>d1ni3a1 c.37.1.8 (A:11-306) YchF GTP-binding protein N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=80.53  E-value=0.41  Score=41.43  Aligned_cols=22  Identities=36%  Similarity=0.588  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 043778          159 IIGLYGMGSVGKTTLLILINNK  180 (405)
Q Consensus       159 vi~I~G~~GiGKTtLA~~v~~~  180 (405)
                      -|||+|.+.+|||||-..+-+.
T Consensus        12 kiGivG~Pn~GKSTlfnalT~~   33 (296)
T d1ni3a1          12 KTGIVGMPNVGKSTFFRAITKS   33 (296)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            4999999999999999998864

>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=80.46  E-value=0.83  Score=34.00  Aligned_cols=51  Identities=12%  Similarity=0.040  Sum_probs=32.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhccCCCCCCCEEEEEEeCCCCCHHHHHHHHHHHh
Q 043778          156 QVGIIGLYGMGSVGKTTLLILINNKFLDEPNYFDVVIWAVASKVVEIEKIQESIAKKI  213 (405)
Q Consensus       156 ~~~vi~I~G~~GiGKTtLA~~v~~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i~~~l  213 (405)
                      +-++..|+++-|+|||+++-.++...       ..++.+.+....-.....+.+...+
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            45678889999999999887766522       2345565555444444444444444

>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=80.03  E-value=1  Score=38.17  Aligned_cols=34  Identities=24%  Similarity=0.294  Sum_probs=26.0

Q ss_pred             HHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHh
Q 043778          146 DKLWRCLTE--EQVGIIGLYGMGSVGKTTLLILINN  179 (405)
Q Consensus       146 ~~l~~~L~~--~~~~vi~I~G~~GiGKTtLA~~v~~  179 (405)
                      .-+..+|..  +.-..+.++|+|+.|||+++..+.+
T Consensus        91 ~~l~~~L~~~~~k~n~~~l~G~~~tGKS~f~~~i~~  126 (267)
T d1u0ja_          91 SVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAH  126 (267)
T ss_dssp             HHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHHHHHHcCCCCccEEEEEEcCCCCCHHHHHHHHHH
Confidence            334455643  3566889999999999999999876