Citrus Sinensis ID: 036323

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580---
Protein Sequence
MVDAIVSAVLEQLISVAAKEANEGVRLAVGVGQEVEKLKRNFQAIQAVLHDAEHRQVREEGVRLWLDQLKDASYNMEDVLDEWITARLKRQTEGVDHDNALVRDKKKKKKKKKKVCSFFPASSCFGFKQVFLHRDIALKIKAINQTLDDIAEQKDMFSFNVINSRGKSEGMQSTSLIDVSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKETVARMMESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEEWQSALDSEMWQLEEFEGGLSAPLFLSYNDLPFEIKRCFSYCAIFPKSSYLKKDELVKLWMAQGYIVLKGNNEMKVIGLEYFDCLASRSFYQQFVKDDDNMVIGCTMHDVVHDFAQSLTNNECVALEVHGDEEPLSLINNSQDKLRHSISVLDKVASFPVSIFNAKKLRSLLIRSPLEVLSP
Secondary Structure (PSIPRED)
cHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHcccccccccccccccccccccccHHcHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccHHHHHHHHHHHcccccccccccEEEEEEEccccccHHHHHHHHHccHHHHHccccEEEEEEcccccHHHHHHHHHHHHHccccccccHHHHHHHHHHHHcccEEEEEEccccccccccHHHHHHHHcccccccEEEEEcccHHHHHHcccccccccccccHHHHHHHHHHHHccccccccccHHHHHHHHHHHHccccHHHHHHHHHHHcccccHHHHHHHHHccccccccccccccHHHHccccccccccHHHHHHHccccccccccHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHcccccccccccccccccccccHHHHHHHHHHHHccEEEEEEccccccccccccccccEEEEEEEcccccccccccccccccEEEEcccccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHHHHHHcHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccEEEEccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccEEcccEEcccccHHHHHHHHHcccccccccccEEEEEEccccccHHHHHHHHHccHHHHHHccEEEEEEEcccccHHHHHHHHHHHHcccccccccHHHHHHHHHHHHcccEEEEEEEccccccHHHHHHHHHHHHccccccEEEEEEccHHHHHHHccccccccccccHHHHHHHHHHHHcccccccccccHHHHHHHHHHHccccHHHHHHHHHHHHccccHHHHHHHHHccHccccccccccHHHHHEcHHcccHHHHHHHHEEEEccccccEcHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHccccccccccEEEEEHHHHHHHHHHHHccccEEEEEcccccccccccccccccEEEEEEEccccccccHHHHHHHccEEEEcccccccccc
Coil and Loop (DISEMBL)
MVDAIVSAVLEQLISVAAKEANEGVRLAVGVGQEVEKLKRNFQAIQAVLHDAEHRQVREEGVRLWLDQLKDASYNMEDVLDEWITARLKRQtegvdhdnalvrdkkkkkkkkkkvcsffpasscfgfkqvFLHRDIALKIKAINQTLDDiaeqkdmfsfnvinsrgksegmqstslidvsevrgrdEEMRSIKSMLLcqgsdqqtNTVQIISMVGMGGIGKTTLAQLAYndndvinnFEIRVRVCvsdpfdefNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDnlwtddyrkwepfrNCLMNGLRGSKILITTRKETVARMMESTDIVYVQGLSELECWSLFRRfalsgrtpsecdqlegigrgivrkckglplAAKTIGSLLQFKRTKEEWQSALDSEMWQLEefegglsaplflsyndlpfeiKRCFsycaifpkssylkkDELVKLWMAQGYIVLKGNNEMKVIGLEYFDCLASRSFYQQFvkdddnmvigcTMHDVVHDFAQSltnnecvalevhgdeeplslinnsQDKLRHSISVLDKVASFPVSIFNAKKLRSLLirsplevlsp
Flexible Loop (DISEMBL)
MVDAIVSAVLEQLISVAAKEANEGVRLAVGVGQEVEKLKRNFQAIQAVLhdaehrqvREEGVRLWLDQLKDASYNMEDVLDEWITARLkrqtegvdhdnalvrdkkkkkkkkkkvcsffpasscfgfkQVFLHRDIALKIKAINQTLDDIAEQKDMFSFNVInsrgksegmqstslidvsevrgrDEEMRSIKSMllcqgsdqqTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRnclmnglrgskiLITTRKETVARMMESTDIVYVQGLSELECWSLFRRFALsgrtpsecdqlegIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEEWQSALDSEMWQLEEFEGGLSAPLFLSYNDLPFEIKRCFSYCAIFPKSSYLKKDELVKLWMAQGYIVLKGNNEMKVIGLEYFDCLASRSFYQQFVKDDDNMVIGCTMHDVVHDFAQSLTNNECVALEVHGDEEPLSLINNSQDKLRHSISVLDKVASFPVSIFNAkklrsllirsplevlsp
Low Complexity Region (SEG)
MVDAIVSAVLEQLISVAAKEANEGVRLAVGVGQEVEKLKRNFQAIQAVLHDAEHRQVREEGVRLWLDQLKDASYNMEDVLDEWITARLKRQTEGVDHDNALVRDkkkkkkkkkkVCSFFPASSCFGFKQVFLHRDIALKIKAINQTLDDIAEQKDMFSFNVINSRGKSEGMQSTSLIDVSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKETVARMMESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEEWQSALDSEMWQLEEFEGGLSAPLFLSYNDLPFEIKRCFSYCAIFPKSSYLKKDELVKLWMAQGYIVLKGNNEMKVIGLEYFDCLASRSFYQQFVKDDDNMVIGCTMHDVVHDFAQSLTNNECVALEVHGDEEPLSLINNSQDKLRHSISVLDKVASFPVSIFNAKKLRSLLIRSPLEVLSP
Disordered region (IsUnstruct)
***AIVSAVLEQLISVAAKEANEGVRLAVGVGQEVEKLKRNFQAIQAVLHDAEHRQVREEGVRLWLDQLKDASYNMEDVLDEWITARLK**************************CSFFPASSCFGFKQVFLHRDIALKIKAINQTLDDIAEQKDMFSFNVI*********************************LLCQG**QQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKETVARMMESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEEWQSALDSEMWQLEEFEGGLSAPLFLSYNDLPFEIKRCFSYCAIFPKSSYLKKDELVKLWMAQGYIVLKGNNEMKVIGLEYFDCLASRSFYQQFVKDDDNMVIGCTMHDVVHDFAQSLTNNECVALEVHGDEEPLSLINNSQDKLRHSISVLDKVASFPVSIFNAKKLRSLLIR********
Disordered Region (DISOPRED)
MVDAIVSAVLEQLISVAAKEANEGVRLAVGVGQEVEKLKRNFQAIQAVLHDAEHRQVREEGVRLWLDQLKDASYNMEDVLDEWITARLKRQT*************************FFPASSCFGFKQVFLHRDIALKIKAINQTLDDIAEQKDM*************************VRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEE**************LRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKETVARMMESTDIVYVQGLSELECWSLFRRFALS********QLEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEEWQSALDSEMWQLEEFEGGLSAPLFLSYNDLPFEIKRCFSYCAIFPKSSYLKKDELVKLWMAQGYIVLKG**EMKVIGLEYFDCLASRSFYQQFVKDDDNMVIGCTMHDVVHDFAQSLTNNECVALEVHGDEEPL*L*NNSQDKLRHSISVLDKVASFPVSIFNAKKLRSLLIRSPLEVLSP
Disordered Region (DISEMBL)
MVDAIVSAVLEQLISVAAKEANEGVRLAVGVGQEVEKLKRNFQAIQAVLHDAEHRQVREEGVRLWLDQLKDASYNMEDVLDEWITARLKRQTEGVDHDNALV*************CSFFPASSCFGFKQVFLHRDIALKIKAINQTLDDIAEQKDMFSFNVINSRGKSEGMQSTSLIDVSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKETVARMMESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEEWQSALDSEMWQLEEFEGGLSAPLFLSYNDLPFEIKRCFSYCAIFPKSSYLKKDELVKLWMAQGYIVLKGNNEMKVIGLEYFDCLASRSFYQQFVKDDDNMVIGCTMHDVVHDFAQSLTNNECVALEVHGDEEPLSLINNSQDKLRHSISVLDKVASFPVSIFNAKKLRSLLIRSPLEVLSP
Disordered Region (DISPRO)
MVDAIVSAVLEQLISVAAKEANEGVRLAVGVGQEVEKLKRNFQAIQAVLHDAEHRQVREEGVRLWLDQLKDASYNMEDVLDEWITARLKRQTEGVDHDNALVRDKKKKKKKKKKVCSFFPASSCFGFKQVFLHRDIALKIKAINQTLDDIAEQKDMFSFNV***********STSLIDVSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKETVARMMESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEEWQSALDSEMWQLEEFEGGLSAPLFLSYNDLPFEIKRCFSYCAIFPKSSYLKKDELVKLWMAQGYIVLKGNNEMKVIGLEYFDCLASRSFYQQFVKDDDNMVIGCTMHDVVHDFAQSLTNNECVALEVHGDEEPLSLINNSQDKLRHSISVLDKVASFPVSIFNAKKLRSLLIRSP******
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MVDAIVSAVLEQLISVAAKEANEGVRLAVGVGQExxxxxxxxxxxxxxxxxxxxxQVREEGVRLWLDQLKDASYNMEDVLDEWITARLKRQTEGVDHDNALVRDKKKKKKKKKKVCSFFPASSCFGFKQVFLHRDIALKIKAINQTLDDIAEQKDMFSFNVINSRGKSEGMQSTSLIDVSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKETVARMMESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEEWQSALDSEMWQLEEFEGGLSAPLFLSYNDLPFEIKRCFSYCAIFPKSSYLKKDELVKLWMAQGYIVLKGNNEMKVIGLEYFDCLASRSFYQQFVKDDDNMVIGCTMHDVVHDFAQSLTNNECVALEVHGDEEPLSLINNSQDKLRHSISVLDKVASFPVSIFNAKKLRSLLIRSPLEVLSP
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	583	2.2.26 [Sep-21-2011]
Q7XA40	992	Putative disease resistan	N/A	no	0.897	0.527	0.330	2e-85
Q7XA42	979	Putative disease resistan	N/A	no	0.890	0.530	0.314	2e-81
Q7XA39	988	Putative disease resistan	N/A	no	0.828	0.488	0.337	1e-80
Q7XBQ9	970	Disease resistance protei	N/A	no	0.823	0.494	0.330	1e-78
Q9LRR4	1054	Putative disease resistan	yes	no	0.826	0.457	0.307	7e-71
Q9LRR5	1424	Putative disease resistan	no	no	0.855	0.350	0.297	3e-60
Q38834	852	Disease resistance RPP13-	no	no	0.854	0.584	0.276	7e-50
Q8W4J9	908	Disease resistance protei	no	no	0.910	0.584	0.256	1e-41
Q9FJK8	908	Probable disease resistan	no	no	0.909	0.583	0.251	5e-39
P59584	910	Disease resistance protei	no	no	0.912	0.584	0.242	1e-38

>sp|Q7XA40|RGA3_SOLBU Putative disease resistance protein RGA3 OS=Solanum bulbocastanum GN=RGA3 PE=2 SV=2

 Score =  317 bits (811), Expect = 2e-85,   Method: Compositional matrix adjust.
 Identities = 189/572 (33%), Positives = 322/572 (56%), Gaps = 49/572 (8%)

Query: 1   MVDAIVSAVLEQLISVAAKEANEGVRLAVGVGQEVEKLKRNFQAIQAVLHDAEHRQVREE 60
           M +A +  +L+ L      E    + L  G  +E +KL   F  IQAVL DA+ +Q++ +
Sbjct: 1   MAEAFLQVLLDNLTFFIQGE----LGLVFGFEKEFKKLSSMFSMIQAVLEDAQEKQLKYK 56

Query: 61  GVRLWLDQLKDASYNMEDVLDEWIT--ARLKRQTEGVDHDNALVRDKKKKKKKKKKVCSF 118
            ++ WL +L  A+Y ++D+LD+  T  AR K+   G  H                     
Sbjct: 57  AIKNWLQKLNVAAYEVDDILDDCKTEAARFKQAVLGRYH--------------------- 95

Query: 119 FPASSCFGFKQVFLHRDIALKIKAINQTLDDIAEQKDMFSFNVINSRGKSEGMQSTSLID 178
            P +  F +K       +  ++K + + LD IAE++  F  +      ++   Q+  ++ 
Sbjct: 96  -PRTITFCYK-------VGKRMKEMMEKLDAIAEERRNFHLDERIIERQAARRQTGFVLT 147

Query: 179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNF 238
             +V GR++E   I  +L+   S   +  V ++ ++GMGG+GKTTLAQ+ +ND  +  +F
Sbjct: 148 EPKVYGREKEEDEIVKILINNVS--YSEEVPVLPILGMGGLGKTTLAQMVFNDQRITEHF 205

Query: 239 EIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWT 298
            +++ VCVSD FDE  + KA +E +EG ++   +L  L +++   + G+++F+VLD++W 
Sbjct: 206 NLKIWVCVSDDFDEKRLIKAIVESIEGKSLGDMDLAPLQKKLQELLNGKRYFLVLDDVWN 265

Query: 299 DDYRKWEPFRNCLMNGLRGSKILITTRKETVARMMESTDIVYVQGLSELECWSLFRRFAL 358
           +D  KW+  R  L  G  G+ ILITTR E +  +M +  +  +  LS+ +CW LF++ A 
Sbjct: 266 EDQEKWDNLRAVLKIGASGASILITTRLEKIGSIMGTLQLYQLSNLSQEDCWLLFKQRAF 325

Query: 359 SGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEEWQSALDSEMWQLEEFE 418
             +T +    +E IG+ IV+KC G+PLAAKT+G LL+FKR + EW+   DSE+W L + E
Sbjct: 326 CHQTETSPKLME-IGKEIVKKCGGVPLAAKTLGGLLRFKREESEWEHVRDSEIWNLPQDE 384

Query: 419 GGLSAPLFLSYNDLPFEIKRCFSYCAIFPKSSYLKKDELVKLWMAQGYIVLKGNNEMKVI 478
             +   L LSY+ LP ++++CF+YCA+FPK + ++K+ L+ LWMA  +++ KGN E++ +
Sbjct: 385 NSVLPALRLSYHHLPLDLRQCFAYCAVFPKDTKIEKEYLIALWMAHSFLLSKGNMELEDV 444

Query: 479 GLEYFDCLASRSFYQQF-VKDDDNMVIGCTMHDVVHDFAQSLTNNECVA-----LEVHGD 532
           G E ++ L  RSF+Q+  VK          MHD++HD A S+ +    +     + V  D
Sbjct: 445 GNEVWNELYLRSFFQEIEVKSGKTYF---KMHDLIHDLATSMFSASASSRSIRQINVKDD 501

Query: 533 EEPLSLINNSQDKLRHSISVLDKVASFPVSIF 564
           E+ + ++ N +D +  SI   + V+S+  S+F
Sbjct: 502 EDMMFIVTNYKDMM--SIGFSEVVSSYSPSLF 531

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via a direct or indirect interaction with this avirulence protein. That triggers a defense system which restricts the pathogen growth.
Solanum bulbocastanum (taxid: 147425)

>sp|Q7XA42|RGA1_SOLBU Putative disease resistance protein RGA1 OS=Solanum bulbocastanum GN=RGA1 PE=2 SV=2

 Score =  303 bits (777), Expect = 2e-81,   Method: Compositional matrix adjust.
 Identities = 178/566 (31%), Positives = 296/566 (52%), Gaps = 47/566 (8%)

Query: 1   MVDAIVSAVLEQLISVAAKEANEGVRLAVGVGQEVEKLKRNFQAIQAVLHDAEHRQVREE 60
           M +A +  VL+ L S    E    + L  G   E ++L   F  IQAVL DA+ +Q+ ++
Sbjct: 1   MAEAFIQVVLDNLTSFLKGE----LVLLFGFQDEFQRLSSMFSTIQAVLEDAQEKQLNDK 56

Query: 61  GVRLWLDQLKDASYNMEDVLDEWIT--ARLKRQTEGVDHDNALVRDKKKKKKKKKKVCSF 118
            +  WL +L  A+Y ++D+LDE+ T   R  +   G  H   +                 
Sbjct: 57  PLENWLQKLNAATYEVDDILDEYKTKATRFLQSEYGRYHPKVIP---------------- 100

Query: 119 FPASSCFGFKQVFLHRDIALKIKAINQTLDDIAEQKDMFSFNVINSRGKSEGMQSTSLID 178
                       F H+ +  ++  + + L+ IAE++  F         ++   ++ S++ 
Sbjct: 101 ------------FRHK-VGKRMDQVMKKLNAIAEERKKFHLQEKIIERQAATRETGSVLT 147

Query: 179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNF 238
             +V GRD+E   I  +L+   SD Q   + ++ ++GMGG+GKTTL+Q+ +ND  V   F
Sbjct: 148 EPQVYGRDKEKDEIVKILINTASDAQK--LSVLPILGMGGLGKTTLSQMVFNDQRVTERF 205

Query: 239 EIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWT 298
             ++ +C+SD F+E  + KA +E +EG ++   +L  L +++   + G+++F+VLD++W 
Sbjct: 206 YPKIWICISDDFNEKRLIKAIVESIEGKSLSDMDLAPLQKKLQELLNGKRYFLVLDDVWN 265

Query: 299 DDYRKWEPFRNCLMNGLRGSKILITTRKETVARMMESTDIVYVQGLSELECWSLFRRFAL 358
           +D  KW   R  L  G  G+ +L TTR E V  +M +     +  LS  +CW LF + A 
Sbjct: 266 EDQHKWANLRAVLKVGASGAFVLTTTRLEKVGSIMGTLQPYELSNLSPEDCWFLFMQRAF 325

Query: 359 SGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEEWQSALDSEMWQLEEFE 418
            G        L  IG+ IV+KC G+PLAAKT+G +L+FKR + EW+   DS +W L + E
Sbjct: 326 -GHQEEINPNLMAIGKEIVKKCGGVPLAAKTLGGILRFKREEREWEHVRDSPIWNLPQDE 384

Query: 419 GGLSAPLFLSYNDLPFEIKRCFSYCAIFPKSSYLKKDELVKLWMAQGYIVLKGNNEMKVI 478
             +   L LSY+ LP ++++CF YCA+FPK + + K+ L+  WMA G+++ KGN E++ +
Sbjct: 385 SSILPALRLSYHHLPLDLRQCFVYCAVFPKDTKMAKENLIAFWMAHGFLLSKGNLELEDV 444

Query: 479 GLEYFDCLASRSFYQQFVKDDDNMVIGCTMHDVVHDFAQSLTNNECVALEVHGDEEPLSL 538
           G E ++ L  RSF+Q+   +         MHD++HD A SL          +     +  
Sbjct: 445 GNEVWNELYLRSFFQEIEVESGKTYF--KMHDLIHDLATSL-------FSANTSSSNIRE 495

Query: 539 INNSQDKLRHSISVLDKVASFPVSIF 564
           IN + D    SI   + V+S+  S+ 
Sbjct: 496 INANYDGYMMSIGFAEVVSSYSPSLL 521

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via a direct or indirect interaction with this avirulence protein. That triggers a defense system which restricts the pathogen growth.

Solanum bulbocastanum (taxid: 147425)

>sp|Q7XA39|RGA4_SOLBU Putative disease resistance protein RGA4 OS=Solanum bulbocastanum GN=RGA4 PE=2 SV=1

 Score =  301 bits (770), Expect = 1e-80,   Method: Compositional matrix adjust.
 Identities = 176/521 (33%), Positives = 283/521 (54%), Gaps = 38/521 (7%)

Query: 1   MVDAIVSAVLEQLISVAAKEANEGVRLAVGVGQEVEKLKRNFQAIQAVLHDAEHRQVREE 60
           M +A +  +LE L S       + + L  G  +E EKL   F  IQAVL DA+ +Q++++
Sbjct: 1   MAEAFLQVLLENLTSFIG----DKLVLIFGFEKECEKLSSVFSTIQAVLQDAQEKQLKDK 56

Query: 61  GVRLWLDQLKDASYNMEDVLDEWITARLKRQTEGVDHDNALVRDKKKKKKKKKKVCSFFP 120
            +  WL +L  A+Y ++D+L E        + E +  + +             ++  + P
Sbjct: 57  AIENWLQKLNSAAYEVDDILGEC-------KNEAIRFEQS-------------RLGFYHP 96

Query: 121 ASSCFGFKQVFLHRDIALKIKAINQTLDDIAEQKDMFSF-NVINSRGKSEGMQSTSLIDV 179
               F  K       I  ++K I + LD I+E++  F F   I  R  +   + T  +  
Sbjct: 97  GIINFRHK-------IGRRMKEIMEKLDAISEERRKFHFLEKITERQAAAATRETGFVLT 149

Query: 180 -SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNF 238
             +V GRD+E   I  +L+   +      + +  ++GMGG+GKTTLAQ+ +ND  V  +F
Sbjct: 150 EPKVYGRDKEEDEIVKILI--NNVNVAEELPVFPIIGMGGLGKTTLAQMIFNDERVTKHF 207

Query: 239 EIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWT 298
             ++ VCVSD FDE  + K  I  +E S+  + +L S  +++   + G+++ +VLD++W 
Sbjct: 208 NPKIWVCVSDDFDEKRLIKTIIGNIERSSPHVEDLASFQKKLQELLNGKRYLLVLDDVWN 267

Query: 299 DDYRKWEPFRNCLMNGLRGSKILITTRKETVARMMESTDIVYVQGLSELECWSLFRRFAL 358
           DD  KW   R  L  G RG+ IL TTR E V  +M +    ++  LS  +   LF + A 
Sbjct: 268 DDLEKWAKLRAVLTVGARGASILATTRLEKVGSIMGTLQPYHLSNLSPHDSLLLFMQRAF 327

Query: 359 SGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEEWQSALDSEMWQLEEFE 418
            G+       L  IG+ IV+KC G+PLAAKT+G LL+FKR + EW+   D+E+W L + E
Sbjct: 328 -GQQKEANPNLVAIGKEIVKKCGGVPLAAKTLGGLLRFKREESEWEHVRDNEIWSLPQDE 386

Query: 419 GGLSAPLFLSYNDLPFEIKRCFSYCAIFPKSSYLKKDELVKLWMAQGYIVLKGNNEMKVI 478
             +   L LSY+ LP ++++CF+YCA+FPK + + K+ L+ LWMA G+++ KGN E++ +
Sbjct: 387 SSILPALRLSYHHLPLDLRQCFAYCAVFPKDTKMIKENLITLWMAHGFLLSKGNLELEDV 446

Query: 479 GLEYFDCLASRSFYQQFVKDDDNMVIGCTMHDVVHDFAQSL 519
           G E ++ L  RSF+Q+      N      +HD++HD A SL
Sbjct: 447 GNEVWNELYLRSFFQEIEAKSGNTYF--KIHDLIHDLATSL 485

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via a direct or indirect interaction with this avirulence protein. That triggers a defense system which restricts the pathogen growth.

Solanum bulbocastanum (taxid: 147425)

>sp|Q7XBQ9|RGA2_SOLBU Disease resistance protein RGA2 OS=Solanum bulbocastanum GN=RGA2 PE=1 SV=1

 Score =  294 bits (752), Expect = 1e-78,   Method: Compositional matrix adjust.
 Identities = 173/523 (33%), Positives = 283/523 (54%), Gaps = 43/523 (8%)

Query: 1   MVDAIVSAVLEQLISVAAKEANEGVRLAVGVGQEVEKLKRNFQAIQAVLHDAEHRQVREE 60
           M +A +  +L+ L S    E    + L  G   E ++L   F  IQAVL DA+ +Q+  +
Sbjct: 1   MAEAFIQVLLDNLTSFLKGE----LVLLFGFQDEFQRLSSMFSTIQAVLEDAQEKQLNNK 56

Query: 61  GVRLWLDQLKDASYNMEDVLDEWIT--ARLKRQTEGVDHDNALVRDKKKKKKKKKKVCSF 118
            +  WL +L  A+Y ++D+LDE+ T   R  +   G  H   +                 
Sbjct: 57  PLENWLQKLNAATYEVDDILDEYKTKATRFSQSEYGRYHPKVIP---------------- 100

Query: 119 FPASSCFGFKQVFLHRDIALKIKAINQTLDDIAEQKDMFSFNVINSRGKSEGMQSTSLID 178
                       F H+ +  ++  + + L  IAE++  F  +      ++   ++ S++ 
Sbjct: 101 ------------FRHK-VGKRMDQVMKKLKAIAEERKNFHLHEKIVERQAVRRETGSVLT 147

Query: 179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNF 238
             +V GRD+E   I  +L+   SD Q   + ++ ++GMGG+GKTTLAQ+ +ND  V  +F
Sbjct: 148 EPQVYGRDKEKDEIVKILINNVSDAQH--LSVLPILGMGGLGKTTLAQMVFNDQRVTEHF 205

Query: 239 EIRVRVCVSDPFDEFNVAKATIEELEGSAI-DLHELNSLLRRIGANIAGQKFFMVLDNLW 297
             ++ +CVS+ FDE  + KA +E +EG  +    +L  L +++   + G+++ +VLD++W
Sbjct: 206 HSKIWICVSEDFDEKRLIKAIVESIEGRPLLGEMDLAPLQKKLQELLNGKRYLLVLDDVW 265

Query: 298 TDDYRKWEPFRNCLMNGLRGSKILITTRKETVARMMESTDIVYVQGLSELECWSLFRRFA 357
            +D +KW   R  L  G  G+ +L TTR E V  +M +     +  LS+ +CW LF + A
Sbjct: 266 NEDQQKWANLRAVLKVGASGASVLTTTRLEKVGSIMGTLQPYELSNLSQEDCWLLFMQRA 325

Query: 358 LSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEEWQSALDSEMWQLEEF 417
             G        L  IG+ IV+K  G+PLAAKT+G +L FKR +  W+   DS +W L + 
Sbjct: 326 F-GHQEEINPNLVAIGKEIVKKSGGVPLAAKTLGGILCFKREERAWEHVRDSPIWNLPQD 384

Query: 418 EGGLSAPLFLSYNDLPFEIKRCFSYCAIFPKSSYLKKDELVKLWMAQGYIVLKGNNEMKV 477
           E  +   L LSY+ LP ++K+CF+YCA+FPK + ++K++L+ LWMA G+++ KGN E++ 
Sbjct: 385 ESSILPALRLSYHQLPLDLKQCFAYCAVFPKDAKMEKEKLISLWMAHGFLLSKGNMELED 444

Query: 478 IGLEYFDCLASRSFYQQF-VKDDDNMVIGCTMHDVVHDFAQSL 519
           +G E +  L  RSF+Q+  VKD         MHD++HD A SL
Sbjct: 445 VGDEVWKELYLRSFFQEIEVKDGKTYF---KMHDLIHDLATSL 484

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via a direct or indirect interaction with this avirulence protein. That triggers a defense system which restricts the pathogen growth. Confers a broad resistance to all known races of P.infestans.

Solanum bulbocastanum (taxid: 147425)

>sp|Q9LRR4|R13L1_ARATH Putative disease resistance RPP13-like protein 1 OS=Arabidopsis thaliana GN=RPPL1 PE=3 SV=1

 Score =  268 bits (686), Expect = 7e-71,   Method: Compositional matrix adjust.
 Identities = 161/523 (30%), Positives = 278/523 (53%), Gaps = 41/523 (7%)

Query: 4   AIVSAVLEQLIS------VAAKEANEGVRLAVGVGQEVEKLKRNFQAIQAVLHDAEHRQV 57
           A + A+ + L+S         +E NE +         +E+L      I AVL DAE +Q+
Sbjct: 11  AFLQALFQTLVSEPFRSFFKRRELNENL---------LERLSTALLTITAVLIDAEEKQI 61

Query: 58  REEGVRLWLDQLKDASYNMEDVLDEWITARLKRQTEGVDHDNALVRDKKKKKKKKKKVCS 117
               V  W+++L+D  Y+ ED LD+  T  L R   G +  ++   ++ ++ + +  +  
Sbjct: 62  TNPVVEKWVNELRDVVYHAEDALDDIATEAL-RLNIGAESSSS---NRLRQLRGRMSLGD 117

Query: 118 FFPASSCFGFKQVFLHRDIALKIKAINQTLDDIAEQKDMFSFNVINSRGKSEGMQSTSLI 177
           F   +S            +  +++ +   L+ +A Q+++     + +    + + +TSL+
Sbjct: 118 FLDGNS----------EHLETRLEKVTIRLERLASQRNILGLKELTAMIPKQRLPTTSLV 167

Query: 178 DVSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINN 237
           D SEV GRD++   I   L+ +    + N + ++++VG+GG+GKTTL+QL YND  V + 
Sbjct: 168 DESEVFGRDDDKDEIMRFLIPENG--KDNGITVVAIVGIGGVGKTTLSQLLYNDQHVRSY 225

Query: 238 FEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQ--KFFMVLDN 295
           F  +V   VS+ FD F + K   E +     +  +L+ L  ++   + G    F +VLD+
Sbjct: 226 FGTKVWAHVSEEFDVFKITKKVYESVTSRPCEFTDLDVLQVKLKERLTGTGLPFLLVLDD 285

Query: 296 LWTDDYRKWEPFRNCLMNGLRGSKILITTRKETVARMMESTDIVYVQGLSELECWSLFRR 355
           LW +++  W+  R   ++  +GS+IL+TTR + VA +M +  +  +Q LS+ +CWSLF +
Sbjct: 286 LWNENFADWDLLRQPFIHAAQGSQILVTTRSQRVASIMCAVHVHNLQPLSDGDCWSLFMK 345

Query: 356 FALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEEWQSALDSEMWQLE 415
                + P    ++  +   IV KC+GLPLA KT+G +L+F+    EW+  L S +W L 
Sbjct: 346 TVFGNQEPCLNREIGDLAERIVHKCRGLPLAVKTLGGVLRFEGKVIEWERVLSSRIWDLP 405

Query: 416 EFEGGLSAPLFLSYNDLPFEIKRCFSYCAIFPKSSYLKKDELVKLWMAQGYI-VLKGNNE 474
             +  L   L +SY  LP  +KRCF+YC+IFPK    +KD++V LWMA+G++   + +  
Sbjct: 406 ADKSNLLPVLRVSYYYLPAHLKRCFAYCSIFPKGHAFEKDKVVLLWMAEGFLQQTRSSKN 465

Query: 475 MKVIGLEYFDCLASRSFYQQFVKDDDNMVIGCTMHDVVHDFAQ 517
           ++ +G EYF  L SRS  Q   K     +    MHD +++ AQ
Sbjct: 466 LEELGNEYFSELESRSLLQ---KTKTRYI----MHDFINELAQ 501

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LRR5|DRL21_ARATH Putative disease resistance protein At3g14460 OS=Arabidopsis thaliana GN=At3g14460 PE=3 SV=1

 Score =  233 bits (594), Expect = 3e-60,   Method: Compositional matrix adjust.
 Identities = 164/552 (29%), Positives = 286/552 (51%), Gaps = 53/552 (9%)

Query: 35  VEKLKRNFQAIQAVLHDAEHRQVREEGVRLWLDQLKDASYNMEDVLDEWITARLKRQT-- 92
           +++LK        VL DA+ R      V+ WL  +KDA +  ED+LDE  T  L+R+   
Sbjct: 36  LKRLKVALVTANPVLADADQRAEHVREVKHWLTGIKDAFFQAEDILDELQTEALRRRVVA 95

Query: 93  -----EGVDHDNALVRD--KKKKKKKKKKVCSFFPASSCFGFKQVFLHRDIALKIKAINQ 145
                 G+  +    R+  +KK + K +KV            +    H ++ + +K  ++
Sbjct: 96  EAGGLGGLFQNLMAGREAIQKKIEPKMEKVVRLL--------EHHVKHIEV-IGLKEYSE 146

Query: 146 TLDDIAEQKDMFSFNVINSRGKSEGMQSTSLIDVSEVRGRDEEMRSIKSMLLCQGSDQQT 205
           T +    Q          SR + + +    L+      GR E+  ++ ++LL   SD + 
Sbjct: 147 TREPQWRQA---------SRSRPDDLPQGRLV------GRVEDKLALVNLLL---SDDEI 188

Query: 206 NTVQ--IISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEEL 263
           +  +  +IS+VGM G+GKTTL ++ +ND  V  +FE+++ +     F+ F V KA ++++
Sbjct: 189 SIGKPAVISVVGMPGVGKTTLTEIVFNDYRVTEHFEVKMWISAGINFNVFTVTKAVLQDI 248

Query: 264 EGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILIT 323
             SA++  +L SL  ++   ++G++F +VLD+ W++   +WE F+    +   GSKI++T
Sbjct: 249 TSSAVNTEDLPSLQIQLKKTLSGKRFLLVLDDFWSESDSEWESFQVAFTDAEEGSKIVLT 308

Query: 324 TRKETVARMMESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQ-LEGIGRGIVRKCKG 382
           TR E V+ + ++  I  ++ ++  ECW L  RFA    +    +Q LEGIG+ I  +CKG
Sbjct: 309 TRSEIVSTVAKAEKIYQMKLMTNEECWELISRFAFGNISVGSINQELEGIGKRIAEQCKG 368

Query: 383 LPLAAKTIGSLLQFKRTKEEWQSALDSEMWQLEEFEGGLSAPLFLSYNDLPFEIKRCFSY 442
           LPLAA+ I S L+ K   ++W +   +       +   +   L LSY+ LP ++KRCF+ 
Sbjct: 369 LPLAARAIASHLRSKPNPDDWYAVSKN----FSSYTNSILPVLKLSYDSLPPQLKRCFAL 424

Query: 443 CAIFPKSSYLKKDELVKLWMAQGYIV-LKGNNEMKVIGLEYFDCLASRSFYQQFVKDDDN 501
           C+IFPK     ++ELV LWMA   +   + +  ++ IG +Y   L ++SF+Q+     D 
Sbjct: 425 CSIFPKGHVFDREELVLLWMAIDLLYQPRSSRRLEDIGNDYLGDLVAQSFFQRL----DI 480

Query: 502 MVIGCTMHDVVHDFAQSLTNNECVALEVHGDEEPLSLINNSQDKLRHSISVLDKVASFPV 561
            +    MHD+++D A++++ + C  LE     E    I ++      S S  D   +F  
Sbjct: 481 TMTSFVMHDLMNDLAKAVSGDFCFRLEDDNIPE----IPSTTRHFSFSRSQCDASVAF-R 535

Query: 562 SIFNAKKLRSLL 573
           SI  A+ LR++L
Sbjct: 536 SICGAEFLRTIL 547

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q38834|R13L4_ARATH Disease resistance RPP13-like protein 4 OS=Arabidopsis thaliana GN=RPP13L4 PE=2 SV=2

 Score =  199 bits (505), Expect = 7e-50,   Method: Compositional matrix adjust.
 Identities = 153/554 (27%), Positives = 272/554 (49%), Gaps = 56/554 (10%)

Query: 1   MVDAIVSAVLEQLISVAAKEANEGVRLAVGVGQEVEKLKRNFQAIQAVLHDAEHRQVREE 60
           MVDA+V+  LE+ +++  ++     R      +++E L+   + +Q+ L DAE ++   E
Sbjct: 1   MVDAVVTVFLEKTLNILEEKG----RTVSDYRKQLEDLQSELKYMQSFLKDAERQKRTNE 56

Query: 61  GVRLWLDQLKDASYNMEDVLDEWITARLKRQTEGVDHDNALVRDKKKKKKKKKKVCSFFP 120
            +R  +  L++  Y  ED+L              VD   A   D  +++     +    P
Sbjct: 57  TLRTLVADLRELVYEAEDIL--------------VDCQLADGDDGNEQRSSNAWLSRLHP 102

Query: 121 ASSCFGFKQVFLHRDIALKIKAINQTLDDIAEQ-KDMFSFNVINSRGKSEGMQ--STSLI 177
           A     +K+       + +++ IN+ +  I  Q +  F F   ++ G+  G    S+ + 
Sbjct: 103 ARVPLQYKK-------SKRLQEINERITKIKSQVEPYFEFITPSNVGRDNGTDRWSSPVY 155

Query: 178 DVSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINN 237
           D ++V G + + R IK  L  + +D Q   + I++ VGMGG+GKTT+AQ  +ND ++ + 
Sbjct: 156 DHTQVVGLEGDKRKIKEWLF-RSNDSQ---LLIMAFVGMGGLGKTTIAQEVFNDKEIEHR 211

Query: 238 FEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLW 297
           FE R+ V VS  F E  + ++ +  L G A    ++ +LLR+I   + G+++ +V+D++W
Sbjct: 212 FERRIWVSVSQTFTEEQIMRSILRNL-GDASVGDDIGTLLRKIQQYLLGKRYLIVMDDVW 270

Query: 298 TDDYRKWEPFRNCLMNGLRGSKILITTRKETVARMMESTD--IVYVQGLSELECWSLFRR 355
             +   W+     L  G +G  +++TTR E+VA+ +++ D      + LS    W LF  
Sbjct: 271 DKNLSWWDKIYQGLPRG-QGGSVIVTTRSESVAKRVQARDDKTHRPELLSPDNSWLLFCN 329

Query: 356 FALSGRTPS-ECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQFK-RTKEEWQSALDSEMWQ 413
            A +    + E  +LE +G+ IV KCKGLPL  K +G LL  K     EW+    +E +Q
Sbjct: 330 VAFAANDGTCERPELEDVGKEIVTKCKGLPLTIKAVGGLLLCKDHVYHEWRRI--AEHFQ 387

Query: 414 LEEFEGGLS------APLFLSYNDLPFEIKRCFSYCAIFPKSSYLKKDELVKLWMAQGYI 467
            +E  G  S      + L LSY++LP  +K C    +++P+   + K +LV  W+ +G++
Sbjct: 388 -DELRGNTSETDNVMSSLQLSYDELPSHLKSCILTLSLYPEDCVIPKQQLVHGWIGEGFV 446

Query: 468 VLKGNNEMKVIGLEYFDCLASRSFYQQFVKDDDNMVIGCTMHDVVHDFA------QSLTN 521
           + +        G + F  L +R   +   K     +I C +HD+V D         S +N
Sbjct: 447 MWRNGRSATESGEDCFSGLTNRCLIEVVDKTYSGTIITCKIHDMVRDLVIDIAKKDSFSN 506

Query: 522 NE---CVALEVHGD 532
            E   C  L + G+
Sbjct: 507 PEGLNCRHLGISGN 520

Disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8W4J9|RPP8_ARATH Disease resistance protein RPP8 OS=Arabidopsis thaliana GN=RPP8 PE=1 SV=2

 Score =  171 bits (434), Expect = 1e-41,   Method: Compositional matrix adjust.
 Identities = 154/600 (25%), Positives = 279/600 (46%), Gaps = 69/600 (11%)

Query: 1   MVDAIVSAVLEQLISVAAKEANEGVRLAVGVGQEVEKLKRNFQAIQAVLHDAEHRQVREE 60
           M +A VS  LE+L  + ++E+    RL  G+  +++ LKR  +++Q++L DA+ ++   +
Sbjct: 1   MAEAFVSFGLEKLWDLLSRESE---RLQ-GIDGQLDGLKRQLRSLQSLLKDADAKKHGSD 56

Query: 61  GVRLWLDQLKDASYNMEDVLDEWITARLKRQTEGVDHDNALVRDKKKKKKKKKKVCSFFP 120
            VR +L+ +KD  ++ ED+++ ++  +L  + +GV             KK  +++  F  
Sbjct: 57  RVRNFLEDVKDLVFDAEDIIESYVLNKLSGKGKGV-------------KKHVRRLACFLT 103

Query: 121 ASSCFGFKQVFLHRDIALKIKAINQTLDDIAEQKDMFSFNVINSRGKSEGMQSTSLIDVS 180
                          +A  I+ I + + ++  +   F    I   G+S  +Q    +   
Sbjct: 104 DR-----------HKVASDIEGITKRISEVIGEMQSFGIQQIIDGGRSLSLQERQRVQ-R 151

Query: 181 EVRGRDEEM---------RSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYND 231
           E+R    +          +S+K ++   G   + +  Q++S+ GMGGIGKTTLA+  ++ 
Sbjct: 152 EIRQTYPDSSESDLVGVEQSVKELV---GHLVENDVHQVVSIAGMGGIGKTTLARQVFHH 208

Query: 232 NDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELN--SLLRRIGANIAGQKF 289
           + V  +F+    VCVS  F + +V +  ++EL+    D+ +++  +L R++   +   ++
Sbjct: 209 DLVRRHFDGFAWVCVSQQFTQKHVWQRILQELQPHDGDILQMDEYALQRKLFQLLEAGRY 268

Query: 290 FMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKETVARMMESTDIVYVQG-LSELE 348
            +VLD++W  +   W+  +       RG K+L+T+R E V    + T + +    L+  E
Sbjct: 269 LVVLDDVWKKE--DWDVIKAVFPRK-RGWKMLLTSRNEGVGIHADPTCLTFRASILNPEE 325

Query: 349 CWSLFRRFALSGRTPSEC---DQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEEWQS 405
            W L  R     R  +E    +++E +G+ +V  C GLPLA K +G LL  K T  EW+ 
Sbjct: 326 SWKLCERIVFPRRDETEVRLDEEMEAMGKEMVTHCGGLPLAVKALGGLLANKHTVPEWKR 385

Query: 406 ALDS-------EMWQLEEFEGGLSAPLFLSYNDLPFEIKRCFSYCAIFPKSSYLKKDELV 458
             D+         W  +     +   L LSY DLP  +K CF   A FP+ S +    L 
Sbjct: 386 VFDNIGSQIVGGSWLDDNSLNSVYRILSLSYEDLPTHLKHCFLNLAHFPEDSEISTYSLF 445

Query: 459 KLWMAQGYIVLKGNNEMKVIGLEYFDCLASRSFYQQFVKDDDNMVIG----CTMHDVVHD 514
             W A+G   +   + ++  G  Y + L  R+     V  DDN +      C MHD++ +
Sbjct: 446 YYWAAEG---IYDGSTIEDSGEYYLEELVRRN----LVIADDNYLSWQSKYCQMHDMMRE 498

Query: 515 FAQSLTNNECVALEVHGDEEPLSLINNSQDKLRHSISVLDKVASFPVSIFNAKKLRSLLI 574
              S    E   L++  D    S IN         +S+    A   +   N  K+RSL++
Sbjct: 499 VCLSKAKEENF-LQIIIDPTCTSTINAQSPSRSRRLSIHSGKAFHILGHKNKTKVRSLIV 557

Disease resistance protein. 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. The interaction with TIP (TCV-interacting protein) may be essential for the recognition of the avirulence proteins, and the triggering of the defense response.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FJK8|RP8L4_ARATH Probable disease resistance RPP8-like protein 4 OS=Arabidopsis thaliana GN=RPP8L4 PE=2 SV=1

 Score =  162 bits (411), Expect = 5e-39,   Method: Compositional matrix adjust.
 Identities = 151/601 (25%), Positives = 279/601 (46%), Gaps = 71/601 (11%)

Query: 1   MVDAIVSAVLEQLISVAAKEANEGVRLAVGVGQEVEKLKRNFQAIQAVLHDAEHRQVREE 60
           M +  VS  LE+L  + ++E+    RL  G+ ++++ LKR  +++Q++L DA+ ++   +
Sbjct: 1   MAEGFVSFGLEKLWDLLSRESE---RLQ-GIDEQLDGLKRQLRSLQSLLKDADAKKHGSD 56

Query: 61  GVRLWLDQLKDASYNMEDVLDEWITARLKRQTEGVDHDNALVRDKKKKKKKKKKVCSFFP 120
            VR +L+ +KD  ++ ED+++ ++  +L+ + +GV             KK  +++  F  
Sbjct: 57  RVRNFLEDVKDLVFDAEDIIESYVLNKLRGEGKGV-------------KKHVRRLARFLT 103

Query: 121 ASSCFGFKQVFLHRDIALKIKAINQTLDDIAEQKDMFSFNVINSRGKSEGMQSTSLIDVS 180
                          +A  I+ I + + D+  +   F    I      +G++S SL +  
Sbjct: 104 DR-----------HKVASDIEGITKRISDVIGEMQSFGIQQI-----IDGVRSLSLQERQ 147

Query: 181 EVRGRDEEMRSIKSMLLCQGSDQ----------QTNTVQIISMVGMGGIGKTTLAQLAYN 230
            V+    +     S     G +Q          + +  Q++S+ GMGGIGKTTLA+  ++
Sbjct: 148 RVQREIRQTYPDSSESDLVGVEQSVEELVGHLVENDIYQVVSIAGMGGIGKTTLARQVFH 207

Query: 231 DNDVINNFEIRVRVCVSDPFDEFNVAKATIEELE---GSAIDLHELNSLLRRIGANIAGQ 287
            + V  +F+    VCVS  F   +V +  ++EL+   G+ + + E ++L  ++   +   
Sbjct: 208 HDLVRRHFDGFAWVCVSQQFTLKHVWQRILQELQPHDGNILQMDE-SALQPKLFQLLETG 266

Query: 288 KFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKETVARMMESTDIVYVQG-LSE 346
           ++ +VLD++W  +   W+  +       RG K+L+T+R E V    + T + +    L+ 
Sbjct: 267 RYLLVLDDVWKKE--DWDRIKAVFPRK-RGWKMLLTSRNEGVGIHADPTCLTFRASILNP 323

Query: 347 LECWSLFRRFALSGRTPSEC---DQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEEW 403
            E W L  R     R  +E    +++E +G+ +V  C GLPLA K +G LL  K T  EW
Sbjct: 324 EESWKLCERIVFPRRDETEVRLDEEMEAMGKEMVTHCGGLPLAVKALGGLLANKHTVPEW 383

Query: 404 QSALDSEMWQL-------EEFEGGLSAPLFLSYNDLPFEIKRCFSYCAIFPKSSYLKKDE 456
           +   D+   Q+       +     ++  L LSY DLP  +K  F Y A FP+ S +   +
Sbjct: 384 KRVSDNIGSQIVGGSCLDDNSLNSVNRILSLSYEDLPTHLKHRFLYLAHFPEDSKIYTQD 443

Query: 457 LVKLWMAQGYIVLKGNNEMKVIGLEYFDCLASRSFYQQFVKDDDNMVIG---CTMHDVVH 513
           L   W A+G   +   + ++  G  Y + L  R+     + D+  + +    C MHD++ 
Sbjct: 444 LFNYWAAEG---IYDGSTIQDSGEYYLEELVRRNL---VIADNRYLSLEFNFCQMHDMMR 497

Query: 514 DFAQSLTNNECVALEVHGDEEPLSLINNSQDKLRHSISVLDKVASFPVSIFNAKKLRSLL 573
           +   S    E   L++  D    S IN          S+    A   +   N  K+RSL+
Sbjct: 498 EVCLSKAKEENF-LQIIKDPTSTSTINAQSPSRSRRFSIHSGKAFHILGHRNNPKVRSLI 556

Query: 574 I 574
           +
Sbjct: 557 V 557

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|P59584|RP8HA_ARATH Disease resistance protein RPH8A OS=Arabidopsis thaliana GN=RPH8A PE=3 SV=1

 Score =  161 bits (408), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 146/601 (24%), Positives = 282/601 (46%), Gaps = 69/601 (11%)

Query: 1   MVDAIVSAVLEQLISVAAKEANEGVRLAVGVGQEVEKLKRNFQAIQAVLHDAEHRQVREE 60
           M +  VS  LE+L  + ++E+    RL  G+ ++++ LKR  +++Q++L DA+ ++   +
Sbjct: 1   MAEGFVSFGLEKLWDLLSRESE---RLQ-GIDEQLDGLKRQLRSLQSLLKDADAKKHGSD 56

Query: 61  GVRLWLDQLKDASYNMEDVLDEWITARLKRQTEGVDHDNALVRDKKKKKKKKKKVCSFFP 120
            VR +L+ +KD  ++ ED+++ ++  +L+ + +GV             KK  +++  F  
Sbjct: 57  RVRNFLEDVKDLVFDAEDIIESYVLNKLRGEGKGV-------------KKHVRRLARFLT 103

Query: 121 ASSCFGFKQVFLHRDIALKIKAINQTLDDIAEQKDMFSFNVINSRGKSEGMQSTSLIDVS 180
                          +A  I+ I + + ++  +   F    I   G+S  +Q    +   
Sbjct: 104 DR-----------HKVASDIEGITKRISEVIGEMQSFGIQQIIDGGRSLSLQERQRVQ-R 151

Query: 181 EVR-----GRDEEMRSIK---SMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDN 232
           E+R       + ++  ++   + L+C   +   +  Q++S+ GMGGIGKTTLA+  ++ +
Sbjct: 152 EIRQTYPDSSESDLVGVEQSVTELVCHLVENDVH--QVVSIAGMGGIGKTTLARQVFHHD 209

Query: 233 DVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELN--SLLRRIGANIAGQKFF 290
            V  +F+    VCVS  F + +V +  ++EL+    ++ +++  ++  ++   +   ++ 
Sbjct: 210 LVRRHFDGFAWVCVSQQFTQKHVWQRILQELQPHDGEILQMDEYTIQGKLFQLLETGRYL 269

Query: 291 MVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKETVARMMESTDIVYVQG-LSELEC 349
           +VLD++W  +   W+  +       RG K+L+T+R E V    + T + +    L+  E 
Sbjct: 270 VVLDDVWKKE--DWDRIKAVFPRK-RGWKMLLTSRNEGVGIHADPTCLTFRASILNPEES 326

Query: 350 WSLFRRFALSGRTPSEC---DQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEEWQSA 406
           W L  R     R  +E    +++E +G+ +V  C GLPLA K +G LL  K T  EW+  
Sbjct: 327 WKLCERIVFPRRDETEVRLDEEMEAMGKEMVTHCGGLPLAVKALGGLLANKHTVPEWKRV 386

Query: 407 LDSEMWQL-------EEFEGGLSAPLFLSYNDLPFEIKRCFSYCAIFPKSSYLKKDELVK 459
            D+   Q+       +     +   L LSY DLP  +K CF + A +P+ S +   +L  
Sbjct: 387 SDNIGSQIVGGSCLDDNSLNSVYRILSLSYEDLPTHLKHCFLHLAHYPEDSKIYTQDLFN 446

Query: 460 LWMAQGYIVLKGNNEMKVIGLEYFDCLASRSFYQQFVKDDDNMVIG------CTMHDVVH 513
            W A+G   +   + ++  G  Y + L  R+     V  D+  +I       C MHD++ 
Sbjct: 447 YWAAEG---IYDGSTIQDSGEYYLEELVRRN----LVIADNRYLISEFKIKNCQMHDMMR 499

Query: 514 DFAQSLTNNECVALEVHGDEEPLSLINNSQDKLRHSISVLDKVASFPVSIFNAKKLRSLL 573
           +   S    E   L++  D    S IN         +S+    A   +      K+RSL+
Sbjct: 500 EVCLSKAKEENF-LQIIKDPTCTSTINAQSPSRSRRLSIHSGKAFHILGHKRNAKVRSLI 558

Query: 574 I 574
           +
Sbjct: 559 V 559

Disease resistance protein. 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. In contrast to RPP8, it does not specifically recognize the Emco5 avirulence protein from Hyaloperonospora parasitica.

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	583
224115620	963	cc-nbs-lrr resistance protein [Populus t	0.957	0.579	0.505	1e-149
224134406	987	cc-nbs-lrr resistance protein [Populus t	0.977	0.577	0.466	1e-149
224115686	938	cc-nbs-lrr resistance protein [Populus t	0.957	0.594	0.480	1e-148
225470202	910	PREDICTED: putative disease resistance p	0.957	0.613	0.468	1e-139
359482800	1006	PREDICTED: putative disease resistance p	0.951	0.551	0.468	1e-139
224122712	945	cc-nbs-lrr resistance protein [Populus t	0.962	0.593	0.448	1e-138
359482790	923	PREDICTED: putative disease resistance p	0.962	0.607	0.463	1e-135
224114824	941	cc-nbs-lrr resistance protein [Populus t	0.931	0.577	0.457	1e-135
225463558	928	PREDICTED: putative disease resistance p	0.955	0.600	0.458	1e-134
147825450	927	hypothetical protein VITISV_000086 [Viti	0.970	0.610	0.456	1e-131

>gi|224115620|ref|XP_002332101.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222874921|gb|EEF12052.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  534 bits (1376), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 293/580 (50%), Positives = 385/580 (66%), Gaps = 22/580 (3%)

Query: 1   MVDAIVSAVLEQLISVAAKEANEGVRLAVGVGQEVEKLKRNFQAIQAVLHDAEHRQVREE 60
           M DA+VS VLEQL S+  +E    VRL VGV  EV+KL  NFQAIQA+  DAE RQ++++
Sbjct: 1   MADALVSVVLEQLSSIIIQEVQREVRLVVGVENEVKKLTSNFQAIQAMFADAEERQLKDQ 60

Query: 61  GVRLWLDQLKDASYNMEDVLDEWITARLKRQTEGVDHDNALVRDKKKKKKKKKKVCSFFP 120
            V+ WLDQLKD SY+M+DVLDEW T   K Q++  +H           +K  +KVCSF  
Sbjct: 61  LVKHWLDQLKDVSYDMDDVLDEWGTEIAKSQSKVNEH----------PRKNTRKVCSFM- 109

Query: 121 ASSCFGFKQVFLHRDIALKIKAINQTLDDIAEQKDMFSFNVINSRGKSEGMQST-SLIDV 179
             SCF F++V L RDIALKIK +N+ +D IA +K+ F F       K    + T S ID 
Sbjct: 110 IFSCFRFREVGLRRDIALKIKELNERIDGIAIEKNRFHFKSSEVVIKQHDHRKTVSFIDA 169

Query: 180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFE 239
           +EV+GR+ +   +++MLL + S  Q   ++ IS+VGMGGIGKTTLAQL YND++V  +F+
Sbjct: 170 AEVKGRETDKGRVRNMLLTESS--QGPALRTISLVGMGGIGKTTLAQLVYNDHEVEIHFD 227

Query: 240 IRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTD 299
            R+ VCVSDPFDE  +AKA +E L+GSA DL EL +LL  I   I G+KF +VLD++W +
Sbjct: 228 KRIWVCVSDPFDETKIAKAILEALKGSASDLIELQTLLENIQPLIRGKKFLLVLDDVWNE 287

Query: 300 DYRKWEPFRNCLMNGLRGSKILITTRKETVARMMES--TDIVYVQGLSELECWSLFRRFA 357
           D  KWE  +  LM GL GS IL+TTRK  VA  M S  TDI+ +  LS  ECWSLF R A
Sbjct: 288 DSTKWEQLKYSLMCGLPGSSILVTTRKRNVASRMGSSPTDILELGLLSTDECWSLFSRLA 347

Query: 358 LSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEEWQSALDSEMWQ-LEE 416
              +   E   LE IGR I  KCKGLPLAAK++GSLL+FK   EEW+S L+S +W+  EE
Sbjct: 348 FFEKNSRERGDLEDIGRQIAAKCKGLPLAAKSLGSLLRFKSRIEEWESVLNSHVWESAEE 407

Query: 417 FEGGLSAPLFLSYNDLPFEIKRCFSYCAIFPKSSYLKKDELVKLWMAQGYIVLKGNNEMK 476
            E  + APL+LSY DLP +++RCFSYCA+FPK    ++D LVKLWMAQG++    N EM+
Sbjct: 408 AESKILAPLWLSYYDLPSDMRRCFSYCAVFPKDFTFERDTLVKLWMAQGFLRETHNKEME 467

Query: 477 VIGLEYFDCLASRSFYQQFVKDD-DNMVIGCTMHDVVHDFAQSLTNNECVALEVHGDEEP 535
           VIG + F+ LA+RSF+Q F K+  D  +  C MHD+VHD AQ+LT NEC ++++ G   P
Sbjct: 468 VIGRQCFEALAARSFFQDFQKETGDGSIYACKMHDMVHDLAQNLTKNECSSVDIDG---P 524

Query: 536 LSL-INNSQDKLRHSISVLDKVASFPVSIFNAKKLRSLLI 574
             L I++     RHS+ V     SFP +I + KKLRSL++
Sbjct: 525 TELKIDSFSINARHSMVVFRNYNSFPATIHSLKKLRSLIV 564

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224134406|ref|XP_002321815.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222868811|gb|EEF05942.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  533 bits (1374), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 277/594 (46%), Positives = 388/594 (65%), Gaps = 24/594 (4%)

Query: 1   MVDAIVSAVLEQLISVAAKEANEGVRLAVGVGQEVEKLKRNFQAIQAVLHDAEHRQVREE 60
           M DA+VS +LEQ+I++A  +    V+L VGV +E++ LK NFQAI+ VL DAE +Q+++ 
Sbjct: 1   MADALVSTILEQIITIARHQVEHEVKLVVGVEKEIQHLKNNFQAIRDVLEDAERKQLKDT 60

Query: 61  GVRLWLDQLKDASYNMEDVLDEWITARLKRQTEGVDHDNALVR----------------- 103
            V+ WL+ LKD SY+M+DVLDEW TA LK + E  + +NAL                   
Sbjct: 61  AVKHWLNNLKDVSYDMDDVLDEWSTAVLKWEME--EAENALAPKSVVFSFLRSCCFCFRR 118

Query: 104 -DKKKKKKKKKKVCSFFPASSCFGFKQVFLHRDIALKIKAINQTLDDIAEQKDMFSFNVI 162
            ++ +     K V S F  S C  F++V    DIA KI  + Q L+DIA++K MF F + 
Sbjct: 119 AEQAENALAPKSVVSSFLCSFCCSFRRVARRHDIAHKIIEVGQKLEDIAKRKAMFGFELH 178

Query: 163 NSRGKSEGMQSTSLIDVSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKT 222
            +  K    Q+TS +DVS V GR++E +++ S LLC  S Q+   VQ+IS+VGMGG+GKT
Sbjct: 179 KAIEKEPDRQTTSFVDVSRVHGREDEKKNVISKLLCDSS-QEGRKVQVISIVGMGGLGKT 237

Query: 223 TLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGA 282
           TLAQLAYN +++   FE R+ VCVS PFDE  VAKA IE+L G+A +L EL  L +RI  
Sbjct: 238 TLAQLAYNADEIKTYFEKRIWVCVSHPFDENTVAKAIIEDLSGAAPNLVELEPLCKRISE 297

Query: 283 NIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKETVARMMESTDIVYVQ 342
           +I G+KF +VLD++W D+ RKWEP +  L  G  GS+IL+TTRK+TVA+MMES   + + 
Sbjct: 298 SIEGKKFLLVLDDVWEDNPRKWEPLKESLKCGAPGSRILVTTRKDTVAKMMESDYSLLLG 357

Query: 343 GLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEE 402
            L++ ECWS+F + A  GR+   C+    IGR IV +CKGLPLAAKT+G L+Q K T E+
Sbjct: 358 KLTDEECWSVFSQVAFYGRSQDACEMFTEIGRQIVYRCKGLPLAAKTLGGLMQSKTTTED 417

Query: 403 WQSALDSEMWQLEEFEGGLSAPLFLSYNDLPFEIKRCFSYCAIFPKSSYLKKDELVKLWM 462
           W + L +E+W++EE E G+  PL LSY DLP  I+ CF+YCA+FPK   +++ +L+K+WM
Sbjct: 418 WDNILSNELWEIEEVEKGIFPPLLLSYYDLPVAIRSCFTYCAMFPKDHVMERGKLIKMWM 477

Query: 463 AQGYIVLKGNNEMKVIGLEYFDCLASRSFYQQFVKDDDNMVIGCTMHDVVHDFAQSLTNN 522
           AQGY+    + EM+++G  YF+ LA+R+F+Q F + D++  I   MHD+VHDFAQ L  +
Sbjct: 478 AQGYLKASPSKEMELVGKGYFEILATRAFFQDFQETDEDS-IKFKMHDIVHDFAQFLMKD 536

Query: 523 ECVALEVHGDEEPLSLINNSQDKLRHSISVLDKVASFPVSIFNAKKLRSLLIRS 576
           EC  +E   D        +  ++ RH+I  +   A FP SI+ A KLRSLLIRS
Sbjct: 537 ECFTVET--DVLKRQKTESFYERARHAIMTVSNWARFPQSIYKAGKLRSLLIRS 588

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224115686|ref|XP_002332117.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222874937|gb|EEF12068.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  532 bits (1370), Expect = e-148,   Method: Compositional matrix adjust.
 Identities = 279/581 (48%), Positives = 391/581 (67%), Gaps = 23/581 (3%)

Query: 1   MVDAIVSAVLEQLISVAAKEANEGVRLAVGVGQEVEKLKRNFQAIQAVLHDAEHRQVREE 60
           M DA+V  V+EQL  + A+E  + VRL VGV  EV+KL  NFQ IQAVL DAE R++++ 
Sbjct: 1   MADALVFVVMEQLSLIFAQEVQQEVRLVVGVKNEVQKLTNNFQTIQAVLADAEERELKDG 60

Query: 61  GVRLWLDQLKDASYNMEDVLDEWITARLKRQTEGVDHDNALVRDKKKKKKKKKKVCSFFP 120
            ++ W+DQLK  SY+M+DVLDEW TA  K Q +  +H           +K  +KVCS   
Sbjct: 61  SIKRWIDQLKGVSYDMDDVLDEWGTAIAKSQMKVNEH----------PRKTARKVCSMI- 109

Query: 121 ASSCFGFKQVFLHRDIALKIKAINQTLDDIAEQKDMFSFNVINSRGKS-EGMQSTSLIDV 179
             SC  F++V L RDIA KIK +N+ +D I  +KD F F       K  E  ++TS+ID 
Sbjct: 110 -FSCLCFREVGLRRDIAHKIKELNERIDGIVIEKDRFHFKSSEVGIKQLEHQKTTSVIDA 168

Query: 180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFE 239
           +EV+GR+ +   +K+MLL + S  Q   ++ IS+VGMGGIGKTTLA+L YND+DV  +F+
Sbjct: 169 AEVKGRENDKDRVKNMLLSESS--QGPALRTISLVGMGGIGKTTLAKLVYNDHDVTTHFD 226

Query: 240 IRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTD 299
            R+ VCVSDPF+E  +AKA +E+L GSA +L+EL +L++ +  +I  +KF +VLD++W +
Sbjct: 227 KRIWVCVSDPFNEITIAKAILEDLTGSAPNLNELQTLVKHVQESIREKKFLLVLDDVWNE 286

Query: 300 DYRKWEPFRNCLMNGLRGSKILITTRKETVARMM---ESTDIVYVQGLSELECWSLFRRF 356
           D  KWE  ++ L  GL GS+I++TTRK  VA  M    STDI+ +  LS  +CWSLF + 
Sbjct: 287 DSTKWEQLKDSLKCGLPGSRIMVTTRKTNVASSMGSSPSTDILELGLLSTDKCWSLFSQL 346

Query: 357 ALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEEWQSALDSEMWQLEE 416
           A   +   E   LE IGR I  KCKGLPLAAK++GSLL+FKR + EW+S L++ +W+++E
Sbjct: 347 AFFEKNSRERGDLEDIGRQIAAKCKGLPLAAKSLGSLLRFKRIRAEWESVLNNHVWEIKE 406

Query: 417 FEGGLSAPLFLSYNDLPFEIKRCFSYCAIFPKSSYLKKDELVKLWMAQGYIVLKGNNEMK 476
            E  + APL+LSYNDLP +++RCFSYCA+FPK    ++D L+KLWMAQG++    N EM+
Sbjct: 407 AESKILAPLWLSYNDLPSDMRRCFSYCAVFPKDFTFERDTLIKLWMAQGFLRETQNKEME 466

Query: 477 VIGLEYFDCLASRSFYQQF-VKDDDNMVIGCTMHDVVHDFAQSLTNNECVALEVHGDEEP 535
           V+G E F+ LA+RSF+Q F + +DD  +  C MHD+VHDFAQSLT NEC ++++ G  E 
Sbjct: 467 VMGRECFEALAARSFFQDFEIDEDDGSIYACKMHDMVHDFAQSLTKNECFSVDIDGVSE- 525

Query: 536 LSLINNSQDKLRHSISVLD--KVASFPVSIFNAKKLRSLLI 574
            S I++     RHS+ V    +  SFP +I + KKLRSL++
Sbjct: 526 -SKIDSFSRDTRHSMVVFRNYRTTSFPATIHSLKKLRSLIV 565

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225470202|ref|XP_002269053.1| PREDICTED: putative disease resistance protein RGA3-like [Vitis vinifera]

 Score =  503 bits (1294), Expect = e-139,   Method: Compositional matrix adjust.
 Identities = 269/574 (46%), Positives = 375/574 (65%), Gaps = 16/574 (2%)

Query: 1   MVDAIVSAVLEQLISVAAKEANEGVRLAVGVGQEVEKLKRNFQAIQAVLHDAEHRQVREE 60
           M DA++S VL++L S+  ++ +  V L VGV +E++ L    Q ++AV+ DAE RQV EE
Sbjct: 1   MADALLSIVLDRLASLIQQQFHHEVCLVVGVKREIQSLTNTLQIVRAVVADAEKRQVNEE 60

Query: 61  GVRLWLDQLKDASYNMEDVLDEWITARLKRQTEGVDHDNALVRDKKKKKKKKKKVCSFFP 120
            V++WL++LKD +Y M+DVLDEW TA LK Q E V+  +            KKKV S  P
Sbjct: 61  PVKVWLERLKDIAYQMDDVLDEWSTAFLKSQIERVESPSM----------PKKKVSSCIP 110

Query: 121 ASSCFGFKQVFLHRDIALKIKAINQTLDDIAEQKDMFSFNVINSRGKSEGMQSTSLIDVS 180
            S C  FK+V   RDIALKIK I Q +DDIA +++ F F   N+  + + + + S +D +
Sbjct: 111 -SPCICFKRVARRRDIALKIKGIKQEVDDIANERNQFDFKSTNNE-ELQRIITISAVDTT 168

Query: 181 EVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEI 240
           EV GRD +   I   LL   S +Q+  +  IS+ GMGGIGKTTLAQLA+N  DV  +FEI
Sbjct: 169 EVYGRDRDEGIILRQLL-GTSCEQSLGLYTISVFGMGGIGKTTLAQLAFNHYDVKAHFEI 227

Query: 241 RVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDD 300
           R+ VCVSDPF    + +A +E L+G + DLH+  +L ++I  +I G+KF +VLD++WT+D
Sbjct: 228 RIWVCVSDPFVPIRILRAILEALQGQSSDLHDPEALQQKIQKSIYGKKFLLVLDDVWTED 287

Query: 301 YRKWEPFRNCLMNGLRGSKILITTRKETVARMMESTDIVYVQGLSELECWSLFRRFALSG 360
           Y+ WE  +NCL  G  GS+IL+TT  E+VARMM ST +  +  L   +  +LF + A  G
Sbjct: 288 YQLWEQLKNCLKCGGGGSRILVTTHNESVARMMRSTYMHSLGSLPLEQSQALFSQIAFCG 347

Query: 361 RTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEEWQSALDSEMWQLEEFEGG 420
           ++  + ++LE IG+ I  KCKGLPLA K +GSL+Q K  KE+W++ L+S+MW+L+ FE  
Sbjct: 348 KSTDKIEELEEIGKKIADKCKGLPLAVKALGSLMQSKNNKEDWENVLNSKMWELDVFEKK 407

Query: 421 LSAPLFLSYNDLPFEIKRCFSYCAIFPKSSYLKKDELVKLWMAQGYIVLKGNNEMKVIGL 480
           LS  L LSY DLP  IK+CFSYCA+FPK   +++D+L+KLWMAQ Y+  K   EM+ +G 
Sbjct: 408 LSPALLLSYYDLPPPIKQCFSYCAVFPKDHSIERDDLIKLWMAQSYLNSKAGREMETVGR 467

Query: 481 EYFDCLASRSFYQQFVKDDDNMVIGCTMHDVVHDFAQSLTNNECVALEVHGDEEPLSLIN 540
           EYF+ LA+RSF+Q F KDD   ++ C MHD+VHDFAQ LT+NEC+ LE   D E L   N
Sbjct: 468 EYFENLAARSFFQDFEKDDKGNIVRCKMHDIVHDFAQFLTHNECLNLE--DDSENLK-TN 524

Query: 541 NSQDKLRHSISVLDKVASFPVSIFNAKKLRSLLI 574
               K RH+  ++     FP S  N + LR+LL+
Sbjct: 525 LYLQKGRHASLMVHGSTKFPFSDNNVRNLRTLLV 558

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482800|ref|XP_003632842.1| PREDICTED: putative disease resistance protein RGA4-like [Vitis vinifera]

 Score =  501 bits (1291), Expect = e-139,   Method: Compositional matrix adjust.
 Identities = 269/574 (46%), Positives = 372/574 (64%), Gaps = 19/574 (3%)

Query: 1   MVDAIVSAVLEQLISVAAKEANEGVRLAVGVGQEVEKLKRNFQAIQAVLHDAEHRQVREE 60
           M DA+VS VLE+L SV  ++    V L VGVG EV+ L    Q+I+AVL DAE RQ  EE
Sbjct: 1   MADALVSIVLERLASVLEQQ----VTLVVGVGSEVDNLNSTLQSIRAVLADAEKRQFSEE 56

Query: 61  GVRLWLDQLKDASYNMEDVLDEWITARLKRQTEGVDHDNALVRDKKKKKKKKKKVCSFFP 120
            V++WL++LKD SY M+DV+D W TA LK Q   +  +N  +         K K+ S  P
Sbjct: 57  LVKVWLERLKDISYQMDDVVDGWNTALLKLQ---IGAENPCI--------PKLKISSCLP 105

Query: 121 ASSCFGFKQVFLHRDIALKIKAINQTLDDIAEQKDMFSFNVINSRGKSEGMQSTSLIDVS 180
            S C  FKQV L  DI +KIK I + LD IA +++ F+F   ++  +     ++S+IDVS
Sbjct: 106 -SPCVCFKQVLLRCDIGIKIKDIRKQLDAIANERNQFNFVSSSTIQQPHRRMTSSVIDVS 164

Query: 181 EVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEI 240
           +  GRD +M  I   LL  GS Q+++++ IIS+VGMGGIGKTTLAQLAYND+ V   F  
Sbjct: 165 QFCGRDADMDVIIDKLL-GGSSQESSSLYIISIVGMGGIGKTTLAQLAYNDDRVKAYFHE 223

Query: 241 RVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDD 300
           R+ VCVSDPFD   +++A +E L+  + D HEL ++ ++I   IA +KF +VLD++WT++
Sbjct: 224 RMWVCVSDPFDPVTISRAILEALQKESCDFHELENVEQKICTLIADKKFLLVLDDVWTEN 283

Query: 301 YRKWEPFRNCLMNGLRGSKILITTRKETVARMMESTDIVYVQGLSELECWSLFRRFALSG 360
           Y  WE   + L  G  GS+IL+TTRK+ V+ MM +T    ++ LSE +CWSLF   A  G
Sbjct: 284 YELWEKVESSLKGGAPGSRILVTTRKDDVSTMMGTTYKHPLRELSEGQCWSLFSNIAFCG 343

Query: 361 RTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEEWQSALDSEMWQLEEFEGG 420
           R+  + ++LE IGR I  KC+GLPLAAK +GSL++ K  KE W+S L++E+WQL+  E  
Sbjct: 344 RSREKVEELENIGRKIADKCRGLPLAAKVLGSLMRLKDNKENWESILNNEIWQLDVIEKH 403

Query: 421 LSAPLFLSYNDLPFEIKRCFSYCAIFPKSSYLKKDELVKLWMAQGYIVLKGNNEMKVIGL 480
           LS PL LSY DL   +KRCFSYCA+FPK   + KD L+KLWMA  Y+  +G+ EM+  G 
Sbjct: 404 LSTPLLLSYYDLSPAVKRCFSYCAVFPKDQIISKDRLIKLWMANSYLNSRGSIEMEKTGG 463

Query: 481 EYFDCLASRSFYQQFVKDDDNMVIGCTMHDVVHDFAQSLTNNECVALEVHGDEEPLSLIN 540
           +YF+ L SRS +Q F +D+++ +I C MHD+VHD AQSLT NEC  LE   D+E    + 
Sbjct: 464 DYFEDLVSRSLFQDFRRDNEDNIISCKMHDIVHDLAQSLTKNECFILEF--DDEKEVRMA 521

Query: 541 NSQDKLRHSISVLDKVASFPVSIFNAKKLRSLLI 574
           +S  K RH+  ++   A FP +I N K L +L +
Sbjct: 522 SSFQKARHATLIITPWAGFPSTIHNLKYLHTLFV 555

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224122712|ref|XP_002318907.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222859580|gb|EEE97127.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  498 bits (1281), Expect = e-138,   Method: Compositional matrix adjust.
 Identities = 263/586 (44%), Positives = 383/586 (65%), Gaps = 25/586 (4%)

Query: 1   MVDAIVSAVLEQLISVAAKEANEGVRLAVGVGQEVEKLKRNFQAIQAVLHDAEHRQVREE 60
           M +A++S +LEQL ++ A++  E V L VGV ++V+KLK N   IQ+VL DA+ +QV+++
Sbjct: 1   MAEALLSPILEQLTTIVAQQVQEEVNLVVGVKKQVDKLKSNLLDIQSVLEDADRKQVKDK 60

Query: 61  GVRLWLDQLKDASYNMEDVLDEWITARLKRQTEGVDHDNALVRDKKKKKKKKKKVCSFFP 120
            VR W+D+LKDA Y+M+DVLDEW TA L+ + E  + +            ++K  CSF  
Sbjct: 61  AVRDWVDKLKDACYDMDDVLDEWSTAILRWKMEEAEENT---------HSRQKIRCSFL- 110

Query: 121 ASSCFGFKQVFLHRDIALKIKAINQTLDDIAEQKDMFSFNVINSRGKSEGMQSTSLIDVS 180
            S CF F QV   RDIALKIK +++ +DDIA+++  + F++     + + + +TS +D S
Sbjct: 111 GSPCFCFNQVVRRRDIALKIKEVSEKVDDIAKERAKYGFDLYKGTDELQRLTTTSFVDES 170

Query: 181 EVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEI 240
            V GRD E R++ S LL + S  +   V +IS+VG+GGIGKTTLAQLA+ND++V  +FE 
Sbjct: 171 SVIGRDGEKRNVVSKLLAESS-HEARDVDVISLVGLGGIGKTTLAQLAFNDSEVTAHFEK 229

Query: 241 RVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDD 300
           ++ VCVS+PFDE  +AKA +E+LEG   +L EL SLL+ +  +I G++  +VLD++WT++
Sbjct: 230 KIWVCVSEPFDEIRIAKAILEQLEGRPTNLVELQSLLQGVSESITGKRLLLVLDDVWTEN 289

Query: 301 YRKWEPFRNCLMNGLRGSKILITTRKETVARMMESTDIVYVQGLSELECWSLFRRFALSG 360
           + +WE  +  L    RGS+IL+TTRK+ VA MM +   + ++ LS+  C S+F   A   
Sbjct: 290 HGQWEQLKPSLTGCARGSRILVTTRKDAVATMMGTDHRINIEKLSDEICRSIFNHVAFQE 349

Query: 361 RTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEEWQSALDSEMWQLEE---- 416
           R+  E ++L  IG  I  KCKGLPLAAK +G L+Q KRT+EEW+  L SE+W+L+E    
Sbjct: 350 RSEDERERLTDIGDKIANKCKGLPLAAKVLGGLMQSKRTREEWERVLSSELWRLDEVDRD 409

Query: 417 -FEGGLSAPLFLSYNDLPFEIKRCFSYCAIFPKSSYLKKDELVKLWMAQGYIVLKGNNEM 475
             E  +  PL LSY DLP  ++RCF YCA+FPK   + K ELVK+WMAQGYI      +M
Sbjct: 410 QVESRIFIPLLLSYYDLPSVVRRCFLYCAMFPKDYEMGKYELVKMWMAQGYIKETSGGDM 469

Query: 476 KVIGLEYFDCLASRSFYQQFVKDDDNMVIGCTMHDVVHDFAQSLTNNECVALEVH--GDE 533
           +++G  YF  LA+RSF+Q F + D    +   MHD+VHDFAQ +T NEC+ ++V+  G  
Sbjct: 470 ELVGERYFHVLAARSFFQDF-ETDIFEGMKFKMHDIVHDFAQYMTKNECLTVDVNTLGG- 527

Query: 534 EPLSLINNSQDKLRHSISVLDKVASFPVSIFNAKKLRSLLI--RSP 577
              + +  S +++RH   ++ +  SFPVSI  AK LRSLLI  R P
Sbjct: 528 ---ATVETSIERVRHLSMMVSEETSFPVSIHKAKGLRSLLIDTRDP 570

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482790|ref|XP_002268671.2| PREDICTED: putative disease resistance protein RGA4-like [Vitis vinifera]

 Score =  489 bits (1260), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 267/576 (46%), Positives = 376/576 (65%), Gaps = 15/576 (2%)

Query: 1   MVDAIVSAVLEQLISVAAKEANEGVRLAVGVGQEVEKLKRNFQAIQAVLHDAEHRQVREE 60
           M DA+VS VLE+L SV  ++ +E V L  GV  E++ LK+  ++++ VL DAE RQV+++
Sbjct: 1   MADALVSIVLERLTSVVEQQIHEQVSLVQGVKSEIQSLKKTLRSVRDVLEDAERRQVKDK 60

Query: 61  GVRLWLDQLKDASYNMEDVLDEWITARLKRQTEGVDHDNALVRDKKKKKKKKKKVCSFFP 120
            V+ WL+ LKD +Y MEDVLDEW  A L+ Q EGV++ +            KKKV SF  
Sbjct: 61  SVQGWLESLKDMAYEMEDVLDEWSIAILQFQMEGVENAST----------SKKKV-SFCM 109

Query: 121 ASSCFGFKQVFLHRDIALKIKAINQTLDDIAEQKDMFSFNVINSRGKSEGMQSTSLIDVS 180
            S C  FKQV   RDIALKIK I Q LDDI  ++  F+F    S  + + + +TS ID+S
Sbjct: 110 PSPCICFKQVASRRDIALKIKGIKQQLDDIERERIRFNFVSSRSEERPQRLITTSAIDIS 169

Query: 181 EVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEI 240
           EV GRD + + I   LL +   Q+ + + I+S+VG GG+GKTTLAQLAY+ ++V  +F+ 
Sbjct: 170 EVYGRDMDKKIILDHLLGKMC-QEKSGLYIVSIVGTGGMGKTTLAQLAYSHSEVKVHFDE 228

Query: 241 RVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDD 300
           R+ VCVSDP+D   V +A +E L+     LH+L ++ + I   IAGQKF +VLD++WT+D
Sbjct: 229 RIWVCVSDPYDPIRVCRAIVEALQKKPCHLHDLEAVQQEIQTCIAGQKFLLVLDDVWTED 288

Query: 301 YRKWEPFRNCLMNGLRGSKILITTRKETVARMMESTDIVYVQGLSELECWSLFRRFALSG 360
            + WE  +N L  G  GS+IL TTRKE+V +MM +T    +  LS  +  +LF + A   
Sbjct: 289 NQLWEQLKNTLHCGAAGSRILATTRKESVVKMMRATYKHPLGELSSEQSRALFHQIAFYE 348

Query: 361 RTPSECDQ-LEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEEWQSALDSEMWQLEEFEG 419
           R+  E ++ L+ IG  I  KCKGLPLA KT+G+LL+ K ++EEW++ L+SE+WQL+EFE 
Sbjct: 349 RSTWEKEEELKEIGEKIADKCKGLPLAIKTLGNLLRIKNSEEEWKNVLNSEVWQLDEFER 408

Query: 420 GLSAPLFLSYNDLPFEIKRCFSYCAIFPKSSYLKKDELVKLWMAQGYIVLKGNNEMKVIG 479
            +S  L LSY DLP  I+RCFS+CA+FPK S +++DEL+KLWMAQ Y+   G+ EM+++G
Sbjct: 409 DISPALLLSYYDLPPAIQRCFSFCAVFPKDSVIERDELIKLWMAQSYLKSDGSKEMEMVG 468

Query: 480 LEYFDCLASRSFYQQFVKDDDNMVIGCTMHDVVHDFAQSLTNNECVALEVHGDEEPLSLI 539
             YF+ LA+RSF+Q F KDDD  +I C MHD+VHDFAQ LT NEC  +EV  D +    +
Sbjct: 469 RTYFEYLAARSFFQDFEKDDDGNIIHCKMHDIVHDFAQFLTLNECFIVEV--DNQKKGSM 526

Query: 540 NNSQDKLRHSISVLDKVASFPVSIFNAKKLRSLLIR 575
           +    K+RH+  V+ +      S  N K L +LL +
Sbjct: 527 DLFFQKIRHATLVVRESTPNFASTCNMKNLHTLLAK 562

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224114824|ref|XP_002332291.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222832453|gb|EEE70930.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  488 bits (1256), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 258/564 (45%), Positives = 368/564 (65%), Gaps = 21/564 (3%)

Query: 21  ANEGVRLAVGVGQEVEKLKRNFQAIQAVLHDAEHRQVREEGVRLWLDQLKDASYNMEDVL 80
             E V L  GV ++V+KLK N  AIQ+VL DA+ +QV+++ +R W+D+LKD  Y+M+DVL
Sbjct: 17  VQEEVNLVGGVKKQVDKLKNNLLAIQSVLEDADRKQVKDKALRDWVDKLKDVCYDMDDVL 76

Query: 81  DEWITARLKRQTEGVDHDNALVRDKKKKKKKKKKVCSFFPASSCFGFKQVFLHRDIALKI 140
           DEW TA L+ + E  + +            +KK  CSF   S  F   QV   RDIALKI
Sbjct: 77  DEWSTAILRWKMEEAEENTP---------SRKKIRCSFL-GSPFFCLNQVVQRRDIALKI 126

Query: 141 KAINQTLDDIAEQKDMFSFNVINSRGKSEGMQSTSLIDVSEVRGRDEEMRSIKSMLLCQG 200
           K + + +DDIA+++ M+ F +  +  + + + STSL+D S V GRD++  ++ S LL + 
Sbjct: 127 KEVCEKVDDIAKERAMYGFELYRATDELQRITSTSLVDESSVIGRDDKREAVVSKLLGE- 185

Query: 201 SDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATI 260
           S Q+   V++IS+VGMGGIGKTTLAQLA+ND++V  +FE ++ VCVSDPFDE  + KA +
Sbjct: 186 SIQEAGDVEVISLVGMGGIGKTTLAQLAFNDDEVTAHFEKKIWVCVSDPFDEVRIGKAIL 245

Query: 261 EELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKI 320
           E+LEG A DL EL SLL+R+  +I G++F +VLD++WT+++R+WE  +  L    RGS+I
Sbjct: 246 EQLEGRAPDLVELQSLLQRVSESIKGERFLLVLDDVWTENHRQWEQLKPSLTGCARGSRI 305

Query: 321 LITTRKETVARMMESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKC 380
           L+TTRK +VA MM +  ++ ++ LS+  C S+F   A   R+  E ++L   G  I  KC
Sbjct: 306 LVTTRKHSVATMMGTGHVINLEKLSDEVCRSIFNHVAFQQRSKDERERLTDTGDKIANKC 365

Query: 381 KGLPLAAKTIGSLLQFKRTKEEWQSALDSEMWQLEE-----FEGGLSAPLFLSYNDLPFE 435
           KGLPLAAK +G L+Q KRT+EEW+    SE+W L+E      E G+  PL LSY DLP  
Sbjct: 366 KGLPLAAKVLGGLMQSKRTREEWERVFCSELWGLDEVDRDQVERGIFLPLLLSYYDLPSM 425

Query: 436 IKRCFSYCAIFPKSSYLKKDELVKLWMAQGYIVLKGNNEMKVIGLEYFDCLASRSFYQQF 495
           ++RCF YCA+FPK   ++K ELVK+W+AQGY+      +M+ +G +YF  LA+RSF+Q F
Sbjct: 426 VRRCFLYCAMFPKDYEMRKYELVKMWIAQGYLKETSGGDMEAVGEQYFQVLAARSFFQDF 485

Query: 496 VKDDDNMVIGCTMHDVVHDFAQSLTNNECVALEVHGDEEPLSLINNSQDKLRHSISVLDK 555
            K  D   +   MHD+VHDFAQ +T NEC+ ++V+   E  + +  S +++RH   +L K
Sbjct: 486 -KTYDREDVRFKMHDIVHDFAQYMTKNECLTVDVNNLRE--ATVETSIERVRHLSMMLSK 542

Query: 556 VASFPVSIFNAKKLRSLLI--RSP 577
              FPVSI  AK LRSL I  R P
Sbjct: 543 ETYFPVSIHKAKGLRSLFIDARDP 566

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225463558|ref|XP_002267795.1| PREDICTED: putative disease resistance protein RGA3-like [Vitis vinifera]

 Score =  486 bits (1251), Expect = e-134,   Method: Compositional matrix adjust.
 Identities = 262/572 (45%), Positives = 367/572 (64%), Gaps = 15/572 (2%)

Query: 1   MVDAIVSAVLEQLISVAAKEANEGVRLAVGVGQEVEKLKRNFQAIQAVLHDAEHRQVREE 60
           M DA+VS VLE+L SV  ++  + V L VGV  EV+ LK   Q+I+AVL DAE RQ  EE
Sbjct: 1   MADALVSIVLERLASVLEQQIRQQVTLVVGVESEVDNLKSTLQSIRAVLGDAEKRQFTEE 60

Query: 61  GVRLWLDQLKDASYNMEDVLDEWITARLKRQTEGVDHDNALVRDKKKKKKKKKKVCSFFP 120
            V++WL++LKD SY M+DV+D W TA LK Q   +  +N  +         K K+ S  P
Sbjct: 61  LVKVWLERLKDISYQMDDVVDGWSTALLKLQ---IAAENPGI--------PKPKISSCLP 109

Query: 121 ASSCFGFKQVFLHRDIALKIKAINQTLDDIAEQKDMFSFNVINSRGKSEGMQSTSLIDVS 180
            S C  FKQV L  DIAL+IK I + L+ IA +++ F+F   +   +     ++S+IDVS
Sbjct: 110 -SPCVCFKQVSLRHDIALQIKDIKKQLNAIANERNQFNFVSSSIIQQPHRRITSSVIDVS 168

Query: 181 EVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEI 240
           +  GRD ++  I   LL  GS Q+++++ I+S+VGMGGIGKTTLAQLAYN   V + F  
Sbjct: 169 QFCGRDADINIIIGKLL-GGSCQESSSLYIVSIVGMGGIGKTTLAQLAYNHEKVKSYFHE 227

Query: 241 RVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDD 300
           R+ VCVSDPFD   +++A +E L+  +   H+L ++ ++I   IA +KF +VLD++WT++
Sbjct: 228 RMWVCVSDPFDPMRISRAILEALQKKSSGFHDLEAVQQKICTLIADEKFLLVLDDVWTEN 287

Query: 301 YRKWEPFRNCLMNGLRGSKILITTRKETVARMMESTDIVYVQGLSELECWSLFRRFALSG 360
           Y  WE   + L  G  GS+IL+TTR E V+ MM +T    +  LS+ +CWSLF   A  G
Sbjct: 288 YELWEQVESSLKGGAPGSRILVTTRNENVSTMMGTTYKHPLGELSKEQCWSLFSNIAFYG 347

Query: 361 RTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEEWQSALDSEMWQLEEFEGG 420
           R+  + ++LE IGR I  KC+GLPLAAK +GSL++ K  KE+W+S L++E+WQL+  E  
Sbjct: 348 RSREKVEELENIGRKIADKCRGLPLAAKVLGSLMRLKDNKEDWESILNNEIWQLDVIEKH 407

Query: 421 LSAPLFLSYNDLPFEIKRCFSYCAIFPKSSYLKKDELVKLWMAQGYIVLKGNNEMKVIGL 480
           LS PL LSY DL   +KRCFSYCA+FPK   ++KD L+KLWMA  Y+  + + EM+  G 
Sbjct: 408 LSTPLLLSYYDLSPAVKRCFSYCAVFPKDQIIRKDRLIKLWMANSYLNSRESIEMEKTGG 467

Query: 481 EYFDCLASRSFYQQFVKDDDNMVIGCTMHDVVHDFAQSLTNNECVALEVHGDEEPLSLIN 540
           +YF+ L SRS +Q F +DD+  +I C MHD+VHD AQ LT NEC  LE+  D+E    + 
Sbjct: 468 DYFEDLVSRSLFQDFDRDDEGNIISCKMHDIVHDLAQYLTKNECFILEI--DDEKEVRMA 525

Query: 541 NSQDKLRHSISVLDKVASFPVSIFNAKKLRSL 572
           +S  K RH+  +    A FP +I N K L +L
Sbjct: 526 SSFQKARHATLISTPGAGFPSTIHNLKYLHTL 557

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147825450|emb|CAN71072.1| hypothetical protein VITISV_000086 [Vitis vinifera]

 Score =  473 bits (1218), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 265/580 (45%), Positives = 375/580 (64%), Gaps = 14/580 (2%)

Query: 1   MVDAIVSAVLEQLISVAAKEANEGVRLAVGVGQEVEKLKRNFQAIQAVLHDAEHRQVREE 60
           M DA+VS VLE+L SVA ++ +E V L +GV  E+E LK   ++++ VL DAE RQV+E+
Sbjct: 1   MADALVSIVLERLKSVAEQQIHEQVSLVLGVDSEIESLKSTLRSVRNVLEDAERRQVKEK 60

Query: 61  GVRLWLDQLKDASYNMEDVLDEWITARLKRQTEGVDHDNALVRDKKKKKKKKKKVCSFFP 120
            V+ WL+ LKD +Y MEDVLDEW    L  Q EGV++ +            KKKV SF  
Sbjct: 61  SVQDWLESLKDMAYQMEDVLDEWSIPILPFQMEGVENAST----------SKKKV-SFCM 109

Query: 121 ASSCFGFKQVFLHRDIALKIKAINQTLDDIAEQKDMFSFNVINSRGKSEGMQSTSLIDVS 180
            S C  FKQV   RDIALKIK I + LDDI  +K+ F+F    S  +S+ + +TS ID+S
Sbjct: 110 PSPCICFKQVASRRDIALKIKGIKKKLDDIEREKNRFNFVSSRSEERSQPITATSAIDIS 169

Query: 181 EVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEI 240
           EV GRD +   I   LL +   Q+ + + I+S+VG GG+GKTTLAQLAY+ ++V  +F+ 
Sbjct: 170 EVYGRDMDKEIILDHLLGKKC-QEKSGLYIVSIVGTGGMGKTTLAQLAYSHSEVEFHFDE 228

Query: 241 RVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDD 300
           R+ VCVSDPFD   V +A +E LE  + +LH+L +L ++I   I G+KF +VLD++WT++
Sbjct: 229 RIWVCVSDPFDPSRVCRAIVEALEKESCNLHDLEALQQKIQTCIGGKKFLLVLDDVWTEN 288

Query: 301 YRKWEPFRNCLMNGLRGSKILITTRKETVARMMESTDIVYVQGLSELECWSLFRRFALSG 360
           ++ WE  ++ L  G  GS+IL+TTR E V  MM +T +  +  LSE +   LF + A SG
Sbjct: 289 HQLWEQLKSILSCGAVGSRILVTTRNENVVEMMRTTYMHSLGKLSEDKSRELFYQIAFSG 348

Query: 361 RTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEEWQSALDSEMWQLEEFEGG 420
           +   + + L+ IG  I  KCKGLPLA KT+G+L++ K  +EEW++ L SE+W+L+ F   
Sbjct: 349 KNREKMEDLKEIGEKIADKCKGLPLAIKTLGNLMRSKHNREEWENVLCSEVWKLDVFGIY 408

Query: 421 LSAPLFLSYNDLPFEIKRCFSYCAIFPKSSYLKKDELVKLWMAQGYIVLKGNNEMKVIGL 480
           +S  L LSY+DLP EI+RCFS+CA+FPK S +  DEL+KLWMAQ Y+    + EM+++G 
Sbjct: 409 ISPALLLSYHDLPPEIQRCFSFCAVFPKDSVIWSDELIKLWMAQSYLNSDRSKEMEMVGR 468

Query: 481 EYFDCLASRSFYQQFVKDDDNMVIGCTMHDVVHDFAQSLTNNECVALEVHGDEEPLSLIN 540
            YF+ LA+RSF+Q F KDDD  +I C MHD+VHDFAQ LT NEC  +EV  D +    ++
Sbjct: 469 TYFEYLAARSFFQDFEKDDDGNIICCKMHDIVHDFAQFLTQNECFIVEV--DNQKKGSMD 526

Query: 541 NSQDKLRHSISVLDKVASFPVSIFNAKKLRSLLIRSPLEV 580
               K+RH+  V+ +      S  N K L +LL +   ++
Sbjct: 527 LFFQKIRHATLVVRESTPNFASTCNMKNLHTLLAKEEFBI 566

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	583
TAIR|locus:2091672	1054	AT3G14470 [Arabidopsis thalian	0.787	0.435	0.320	5.5e-66
TAIR|locus:2091662	1424	AT3G14460 [Arabidopsis thalian	0.656	0.268	0.324	6.8e-60
TAIR|locus:2078012	852	ZAR1 "HOPZ-ACTIVATED RESISTANC	0.686	0.469	0.295	4.4e-51
UNIPROTKB|O48647	1802	O48647 "XA1" [Oryza sativa (ta	0.662	0.214	0.305	6.6e-51
TAIR|locus:504956483	847	AT3G46730 [Arabidopsis thalian	0.787	0.541	0.289	2.9e-41
TAIR|locus:2176486	908	RPP8 "RECOGNITION OF PERONOSPO	0.735	0.472	0.268	7.2e-41
TAIR|locus:2152536	908	AT5G48620 [Arabidopsis thalian	0.735	0.472	0.260	7e-39
TAIR|locus:2169523	901	AT5G35450 [Arabidopsis thalian	0.672	0.435	0.278	1.6e-38
TAIR|locus:2077572	926	RPM1 "RESISTANCE TO P. SYRINGA	0.615	0.387	0.293	2.4e-37
TAIR|locus:2075170	835	RPP13 "RECOGNITION OF PERONOSP	0.627	0.438	0.277	2.6e-37

TAIR|locus:2091672 AT3G14470 [Arabidopsis thaliana (taxid:3702)]

 Score = 677 (243.4 bits), Expect = 5.5e-66, P = 5.5e-66
 Identities = 156/487 (32%), Positives = 261/487 (53%)

Query:    35 VEKLKRNFQAIQAVLHDAEHRQVREEGVRLWLDQLKDASYNMEDVLDEWITARLKRQTEG 94
             +E+L      I AVL DAE +Q+    V  W+++L+D  Y+ ED LD+  T  L R   G
Sbjct:    39 LERLSTALLTITAVLIDAEEKQITNPVVEKWVNELRDVVYHAEDALDDIATEAL-RLNIG 97

Query:    95 VDHDNALVRDXXXXXXXXXXVCSFFPASSCFGFKQVFLHRDIALKIKAINQTLDDIAEQK 154
              +  ++   +          +  F   +S            +  +++ +   L+ +A Q+
Sbjct:    98 AESSSS---NRLRQLRGRMSLGDFLDGNS----------EHLETRLEKVTIRLERLASQR 144

Query:   155 DMFSFNVINSRGKSEGMQSTSLIDVSEVRGRDEEMRSIKSMLLCQ-GSDQQTNTVQIISM 213
             ++     + +    + + +TSL+D SEV GRD++   I   L+ + G D   N + ++++
Sbjct:   145 NILGLKELTAMIPKQRLPTTSLVDESEVFGRDDDKDEIMRFLIPENGKD---NGITVVAI 201

Query:   214 VGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHEL 273
             VG+GG+GKTTL+QL YND  V + F  +V   VS+ FD F + K   E +     +  +L
Sbjct:   202 VGIGGVGKTTLSQLLYNDQHVRSYFGTKVWAHVSEEFDVFKITKKVYESVTSRPCEFTDL 261

Query:   274 NSLLRRIGANIAGQ--KFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKETVAR 331
             + L  ++   + G    F +VLD+LW +++  W+  R   ++  +GS+IL+TTR + VA 
Sbjct:   262 DVLQVKLKERLTGTGLPFLLVLDDLWNENFADWDLLRQPFIHAAQGSQILVTTRSQRVAS 321

Query:   332 MMESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIG 391
             +M +  +  +Q LS+ +CWSLF +     + P    ++  +   IV KC+GLPLA KT+G
Sbjct:   322 IMCAVHVHNLQPLSDGDCWSLFMKTVFGNQEPCLNREIGDLAERIVHKCRGLPLAVKTLG 381

Query:   392 SLLQFKRTKEEWQSALDSEMWQLEEFEGGLSAPLFLSYNDLPFEIKRCFSYCAIFPKSSY 451
              +L+F+    EW+  L S +W L   +  L   L +SY  LP  +KRCF+YC+IFPK   
Sbjct:   382 GVLRFEGKVIEWERVLSSRIWDLPADKSNLLPVLRVSYYYLPAHLKRCFAYCSIFPKGHA 441

Query:   452 LKKDELVKLWMAQGYIV-LKGNNEMKVIGLEYFDCLASRSFYQQFVKDDDNMVIGCTMHD 510
              +KD++V LWMA+G++   + +  ++ +G EYF  L SRS  Q   K     +    MHD
Sbjct:   442 FEKDKVVLLWMAEGFLQQTRSSKNLEELGNEYFSELESRSLLQ---KTKTRYI----MHD 494

Query:   511 VVHDFAQ 517
              +++ AQ
Sbjct:   495 FINELAQ 501

GO:0005576 "extracellular region" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0009627 "systemic acquired resistance" evidence=RCA

GO:0009697 "salicylic acid biosynthetic process" evidence=RCA

TAIR|locus:2091662 AT3G14460 [Arabidopsis thaliana (taxid:3702)]

 Score = 563 (203.2 bits), Expect = 6.8e-60, Sum P(2) = 6.8e-60
 Identities = 131/404 (32%), Positives = 229/404 (56%)

Query:   184 GRDEEMRSIKSMLLCQGSDQQTNTVQ--IISMVGMGGIGKTTLAQLAYNDNDVINNFEIR 241
             GR E+  ++ ++LL   SD + +  +  +IS+VGM G+GKTTL ++ +ND  V  +FE++
Sbjct:   170 GRVEDKLALVNLLL---SDDEISIGKPAVISVVGMPGVGKTTLTEIVFNDYRVTEHFEVK 226

Query:   242 VRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDY 301
             + +     F+ F V KA ++++  SA++  +L SL  ++   ++G++F +VLD+ W++  
Sbjct:   227 MWISAGINFNVFTVTKAVLQDITSSAVNTEDLPSLQIQLKKTLSGKRFLLVLDDFWSESD 286

Query:   302 RKWEPFRNCLMNGLRGSKILITTRKETVARMMESTDIVYVQGLSELECWSLFRRFALSGR 361
              +WE F+    +   GSKI++TTR E V+ + ++  I  ++ ++  ECW L  RFA    
Sbjct:   287 SEWESFQVAFTDAEEGSKIVLTTRSEIVSTVAKAEKIYQMKLMTNEECWELISRFAFGNI 346

Query:   362 TPSECDQ-LEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEEWQSALDSEMWQLEEFEGG 420
             +    +Q LEGIG+ I  +CKGLPLAA+ I S L+ K   ++W +   +       +   
Sbjct:   347 SVGSINQELEGIGKRIAEQCKGLPLAARAIASHLRSKPNPDDWYAVSKN----FSSYTNS 402

Query:   421 LSAPLFLSYNDLPFEIKRCFSYCAIFPKSSYLKKDELVKLWMAQGYIVL-KGNNEMKVIG 479
             +   L LSY+ LP ++KRCF+ C+IFPK     ++ELV LWMA   +   + +  ++ IG
Sbjct:   403 ILPVLKLSYDSLPPQLKRCFALCSIFPKGHVFDREELVLLWMAIDLLYQPRSSRRLEDIG 462

Query:   480 LEYFDCLASRSFYQQFVKDDDNMVIGCTMHDVVHDFAQSLTNNECVALEVHGDEEPLSLI 539
              +Y   L ++SF+Q+     D  +    MHD+++D A++++ + C  LE    ++ +  I
Sbjct:   463 NDYLGDLVAQSFFQRL----DITMTSFVMHDLMNDLAKAVSGDFCFRLE----DDNIPEI 514

Query:   540 NNSQDKLRHSISVLDKVASFPVSIFNAKKLRSLL-IRSPLEVLS 582
              ++      S S  D   +F  SI  A+ LR++L   SP  + S
Sbjct:   515 PSTTRHFSFSRSQCDASVAFR-SICGAEFLRTILPFNSPTSLES 557

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2078012 ZAR1 "HOPZ-ACTIVATED RESISTANCE 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 472 (171.2 bits), Expect = 4.4e-51, Sum P(2) = 4.4e-51
 Identities = 129/437 (29%), Positives = 226/437 (51%)

Query:   139 KIKAINQTLDDIAEQKD-MFSFNVINSRGKSEGMQ--STSLIDVSEVRGRDEEMRSIKSM 195
             +++ IN+ +  I  Q +  F F   ++ G+  G    S+ + D ++V G + + R IK  
Sbjct:   114 RLQEINERITKIKSQVEPYFEFITPSNVGRDNGTDRWSSPVYDHTQVVGLEGDKRKIKEW 173

Query:   196 LLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNV 255
             L  + +D Q   + I++ VGMGG+GKTT+AQ  +ND ++ + FE R+ V VS  F E  +
Sbjct:   174 LF-RSNDSQ---LLIMAFVGMGGLGKTTIAQEVFNDKEIEHRFERRIWVSVSQTFTEEQI 229

Query:   256 AKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGL 315
              ++ +  L  +++   ++ +LLR+I   + G+++ +V+D++W  +   W+     L  G 
Sbjct:   230 MRSILRNLGDASVG-DDIGTLLRKIQQYLLGKRYLIVMDDVWDKNLSWWDKIYQGLPRG- 287

Query:   316 RGSKILITTRKETVARMMESTD--IVYVQGLSELECWSLFRRFALSGRTPS-ECDQLEGI 372
             +G  +++TTR E+VA+ +++ D      + LS    W LF   A +    + E  +LE +
Sbjct:   288 QGGSVIVTTRSESVAKRVQARDDKTHRPELLSPDNSWLLFCNVAFAANDGTCERPELEDV 347

Query:   373 GRGIVRKCKGLPLAAKTIGSLLQFK-RTKEEWQSALDSEMWQLEEFEGGLS------APL 425
             G+ IV KCKGLPL  K +G LL  K     EW+    +E +Q +E  G  S      + L
Sbjct:   348 GKEIVTKCKGLPLTIKAVGGLLLCKDHVYHEWRRI--AEHFQ-DELRGNTSETDNVMSSL 404

Query:   426 FLSYNDLPFEIKRCFSYCAIFPKSSYLKKDELVKLWMAQGYIVLKGNNEMKVIGLEYFDC 485
              LSY++LP  +K C    +++P+   + K +LV  W+ +G+++ +        G + F  
Sbjct:   405 QLSYDELPSHLKSCILTLSLYPEDCVIPKQQLVHGWIGEGFVMWRNGRSATESGEDCFSG 464

Query:   486 LASRSFYQQFVKDDDNMVIGCTMHDVVHDFA------QSLTNNE---CVALEVHG--DEE 534
             L +R   +   K     +I C +HD+V D         S +N E   C  L + G  DE+
Sbjct:   465 LTNRCLIEVVDKTYSGTIITCKIHDMVRDLVIDIAKKDSFSNPEGLNCRHLGISGNFDEK 524

Query:   535 PLSLINNSQDKLRHSIS 551
              +  +N+   KLR  +S
Sbjct:   525 QIK-VNH---KLRGVVS 537

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

UNIPROTKB|O48647 O48647 "XA1" [Oryza sativa (taxid:4530)]

 Score = 496 (179.7 bits), Expect = 6.6e-51, Sum P(2) = 6.6e-51
 Identities = 126/412 (30%), Positives = 226/412 (54%)

Query:   182 VRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIR 241
             V GR  EM +IK +++      ++N + ++ +VG GGIGKTTLAQL   D  + + F ++
Sbjct:   297 VYGRAAEMETIKQLIM----SNRSNGITVLPIVGNGGIGKTTLAQLVCKDLVIKSQFNVK 352

Query:   242 VRVCVSDPFDEFNVAKATIEELEGSAID-LHELNSLLRRIGANIAGQKFFMVLDNLW--- 297
             + V VSD FD   + +  ++ +   + + +  L++L + +   +  +KF +VLD++W   
Sbjct:   353 IWVYVSDKFDVVKITRQILDHVSNQSHEGISNLDTLQQDLEEQMKSKKFLIVLDDVWEIR 412

Query:   298 TDDYRKW-EPFR-NCLMNGLR----GSKILITTRKETVARMMESTDIVYVQGLSELECWS 351
             TDD++K   P R N  +N  +    G+ I++TTR +++A+ + +   + ++ L + + WS
Sbjct:   413 TDDWKKLLAPLRPNDQVNSSQEEATGNMIILTTRIQSIAKSLGTVQSIKLEALKDDDIWS 472

Query:   352 LFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEEWQSALDSEM 411
             LF+  A           L+ +G+ I  + KG PLAAKT+GSLL    T + W S + SE 
Sbjct:   473 LFKVHAFGNDKHDSSPGLQVLGKQIASELKGNPLAAKTVGSLLGTNLTIDHWDSIIKSEE 532

Query:   412 WQLEEFEGGLSAPLFLSYNDLPFEIKRCFSYCAIFPKSSYLKKDELVKLWMAQGYIVLKG 471
             W+  +   G+   L LSY+ L   +++C SYC++FPK     K +L+++W+AQG++  + 
Sbjct:   533 WKSLQQAYGIMQALKLSYDHLSNPLQQCVSYCSLFPKGYSFSKAQLIQIWIAQGFVE-ES 591

Query:   472 NNEMKVIGLEYFDCLASRSFYQQFVKDDDNMVIGCTMHDVVHDFAQSLTNNECVALEVHG 531
             + +++  G +Y   L +  F QQ V+          MHD++HD AQ ++  E   ++   
Sbjct:   592 SEKLEQKGWKYLAELVNSGFLQQ-VESTRFSSEYFVMHDLMHDLAQKVSQTEYATIDGSE 650

Query:   532 DEE--P----LSLINNS---QDKLRHSISVLDKVASFPVSIFNAKKLRSLLI 574
               E  P    LS++ +S   ++K R+ IS  +      + + +  KLRSL++
Sbjct:   651 CTELAPSIRHLSIVTDSAYRKEKYRN-ISRNEVFEKRLMKVKSRSKLRSLVL 701

GO:0006915 "apoptotic process" evidence=IGI

GO:0006952 "defense response" evidence=IGI

TAIR|locus:504956483 AT3G46730 [Arabidopsis thaliana (taxid:3702)]

 Score = 446 (162.1 bits), Expect = 2.9e-41, P = 2.9e-41
 Identities = 149/514 (28%), Positives = 246/514 (47%)

Query:    22 NEGVRLAVGVGQEVEKLKRNFQAIQAVLHDAEHRQVREEGVRLWLDQLKDASYNMEDVLD 81
             NE + L +GV  ++E+LK     I   L D E R+  +E  + W   + D +Y++EDVLD
Sbjct:    19 NEVLAL-MGVKDDLEELKTELTCIHGYLKDVEAREREDEVSKEWTKLVLDIAYDIEDVLD 77

Query:    82 EWITARLKRQTEGVDHDNALVRDXXXXXXXXXXVCSFFPASSCFGFKQVFLHRDIALKIK 141
              +    LK +   +     L+R                  ++  G K+   +  I   I+
Sbjct:    78 TYF---LKLEERSLRR--GLLR-----------------LTNKIGKKRDAYN--IVEDIR 113

Query:   142 AINQTLDDIAEQKDMFSFNVINS-RGKS------EGMQSTSLIDVSE-VRGRDEEMRSIK 193
              + + + DI  +++ F     N  RG++        ++    +D  E V G +++++ + 
Sbjct:   114 TLKRRILDITRKRETFGIGSFNEPRGENITNVRVRQLRRAPPVDQEELVVGLEDDVKILL 173

Query:   194 SMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEF 253
               LL   SD + +   IIS+ GMGG+GKT LA+  YN  DV   F+ R    VS  +   
Sbjct:   174 VKLL---SDNEKDKSYIISIFGMGGLGKTALARKLYNSGDVKRRFDCRAWTYVSQEYKTR 230

Query:   254 NVAKATIEEL------EGSAIDLHELNSLLR-RIGANIAGQKFFMVLDNLWTDDYRKWEP 306
             ++    I  L      E   I + E +  L   +   + G+ + +V+D++W  D   WE 
Sbjct:   231 DILIRIIRSLGIVSAEEMEKIKMFEEDEELEVYLYGLLEGKNYMVVVDDVWDPD--AWES 288

Query:   307 FRNCLMNGLRGSKILITTRKETVARMMESTDIVYVQGLSEL---ECWSLFRRFALSGRTP 363
              +  L    RGSK++ITTR   +A  +E T  VY   L  L   E W+LF R A S    
Sbjct:   289 LKRALPCDHRGSKVIITTRIRAIAEGVEGT--VYAHKLRFLTFEESWTLFERKAFSNIEK 346

Query:   364 SECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEEWQSALDSEMWQ-LEEFEGGLS 422
              + D L+  G+ +V+KC GLPLA   +  LL  KRT E W     S +W+ L++    +S
Sbjct:   347 VDED-LQRTGKEMVKKCGGLPLAIVVLSGLLSRKRTNE-WHEVCAS-LWRRLKDNSIHIS 403

Query:   423 APLFLSYNDLPFEIKRCFSYCAIFPKSSYLKKDELVKLWMAQGYIVLKGNNEMKVIGLEY 482
                 LS+ ++  E+K CF Y ++FP+   +K ++L+ L +A+G+I       M+ +   Y
Sbjct:   404 TVFDLSFKEMRHELKLCFLYFSVFPEDYEIKVEKLIHLLVAEGFIQEDEEMMMEDVARCY 463

Query:   483 FDCLASRSFYQQFVKDDDNMVIGCTMHDVVHDFA 516
              D L  RS  +   + +   V+ C +HD++ D A
Sbjct:   464 IDELVDRSLVKA-ERIERGKVMSCRIHDLLRDLA 496

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2176486 RPP8 "RECOGNITION OF PERONOSPORA PARASITICA 8" [Arabidopsis thaliana (taxid:3702)]

 Score = 380 (138.8 bits), Expect = 7.2e-41, Sum P(2) = 7.2e-41
 Identities = 125/465 (26%), Positives = 219/465 (47%)

Query:   133 HRDIALKIKAINQTLDDIAEQKDMFSFNVINSRGKSEGMQSTSLIDVSEVR-----GRDE 187
             H+ +A  I+ I + + ++  +   F    I   G+S  +Q    +   E+R       + 
Sbjct:   106 HK-VASDIEGITKRISEVIGEMQSFGIQQIIDGGRSLSLQERQRVQ-REIRQTYPDSSES 163

Query:   188 EMRSIK-SMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCV 246
             ++  ++ S+    G   + +  Q++S+ GMGGIGKTTLA+  ++ + V  +F+    VCV
Sbjct:   164 DLVGVEQSVKELVGHLVENDVHQVVSIAGMGGIGKTTLARQVFHHDLVRRHFDGFAWVCV 223

Query:   247 SDPFDEFNVAKATIEELEGSAIDLHELN--SLLRRIGANIAGQKFFMVLDNLWTDDYRKW 304
             S  F + +V +  ++EL+    D+ +++  +L R++   +   ++ +VLD++W  +   W
Sbjct:   224 SQQFTQKHVWQRILQELQPHDGDILQMDEYALQRKLFQLLEAGRYLVVLDDVWKKE--DW 281

Query:   305 EPFRNCLMNGLRGSKILITTRKETVARMMESTDIVYVQG-LSELECWSLFRRFALSGRTP 363
             +  +  +    RG K+L+T+R E V    + T + +    L+  E W L  R     R  
Sbjct:   282 DVIK-AVFPRKRGWKMLLTSRNEGVGIHADPTCLTFRASILNPEESWKLCERIVFPRRDE 340

Query:   364 SEC---DQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEEWQSALD---SEM----WQ 413
             +E    +++E +G+ +V  C GLPLA K +G LL  K T  EW+   D   S++    W 
Sbjct:   341 TEVRLDEEMEAMGKEMVTHCGGLPLAVKALGGLLANKHTVPEWKRVFDNIGSQIVGGSWL 400

Query:   414 LEEFEGGLSAPLFLSYNDLPFEIKRCFSYCAIFPKSSYLKKDELVKLWMAQGYIVLKGNN 473
              +     +   L LSY DLP  +K CF   A FP+ S +    L   W A+G  +  G+ 
Sbjct:   401 DDNSLNSVYRILSLSYEDLPTHLKHCFLNLAHFPEDSEISTYSLFYYWAAEG--IYDGST 458

Query:   474 EMKVIGLEYFDCLASRSFYQQFVKDDDNMVIG----CTMHDVVHDFAQSLTNNECVALEV 529
              ++  G  Y + L  R+     V  DDN +      C MHD++ +   S    E   L++
Sbjct:   459 -IEDSGEYYLEELVRRNL----VIADDNYLSWQSKYCQMHDMMREVCLSKAKEENF-LQI 512

Query:   530 HGDEEPLSLINNSQDKLRHSISVLDKVASFPVSIFNAKKLRSLLI 574
               D    S IN         +S+    A   +   N  K+RSL++
Sbjct:   513 IIDPTCTSTINAQSPSRSRRLSIHSGKAFHILGHKNKTKVRSLIV 557

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

GO:0043531 "ADP binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=ISS

GO:0009416 "response to light stimulus" evidence=IMP

GO:0051607 "defense response to virus" evidence=IMP

GO:0005886 "plasma membrane" evidence=IDA

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

GO:0051707 "response to other organism" evidence=IMP

TAIR|locus:2152536 AT5G48620 [Arabidopsis thaliana (taxid:3702)]

 Score = 359 (131.4 bits), Expect = 7.0e-39, Sum P(2) = 7.0e-39
 Identities = 121/465 (26%), Positives = 217/465 (46%)

Query:   133 HRDIALKIKAINQTLDDIAEQKDMFSFNVINSRGKSEGMQSTSLIDVSEVR-----GRDE 187
             H+ +A  I+ I + + D+  +   F    I    +S  +Q    +   E+R       + 
Sbjct:   106 HK-VASDIEGITKRISDVIGEMQSFGIQQIIDGVRSLSLQERQRVQ-REIRQTYPDSSES 163

Query:   188 EMRSIK-SMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCV 246
             ++  ++ S+    G   + +  Q++S+ GMGGIGKTTLA+  ++ + V  +F+    VCV
Sbjct:   164 DLVGVEQSVEELVGHLVENDIYQVVSIAGMGGIGKTTLARQVFHHDLVRRHFDGFAWVCV 223

Query:   247 SDPFDEFNVAKATIEELE---GSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRK 303
             S  F   +V +  ++EL+   G+ + + E ++L  ++   +   ++ +VLD++W  +   
Sbjct:   224 SQQFTLKHVWQRILQELQPHDGNILQMDE-SALQPKLFQLLETGRYLLVLDDVWKKE--D 280

Query:   304 WEPFRNCLMNGLRGSKILITTRKETVARMMESTDIVYVQG-LSELECWSLFRRFALSGRT 362
             W+  +  +    RG K+L+T+R E V    + T + +    L+  E W L  R     R 
Sbjct:   281 WDRIK-AVFPRKRGWKMLLTSRNEGVGIHADPTCLTFRASILNPEESWKLCERIVFPRRD 339

Query:   363 PSEC---DQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEEWQSALDSEMWQL----- 414
              +E    +++E +G+ +V  C GLPLA K +G LL  K T  EW+   D+   Q+     
Sbjct:   340 ETEVRLDEEMEAMGKEMVTHCGGLPLAVKALGGLLANKHTVPEWKRVSDNIGSQIVGGSC 399

Query:   415 --EEFEGGLSAPLFLSYNDLPFEIKRCFSYCAIFPKSSYLKKDELVKLWMAQGYIVLKGN 472
               +     ++  L LSY DLP  +K  F Y A FP+ S +   +L   W A+G  +  G+
Sbjct:   400 LDDNSLNSVNRILSLSYEDLPTHLKHRFLYLAHFPEDSKIYTQDLFNYWAAEG--IYDGS 457

Query:   473 NEMKVIGLEYFDCLASRSFY---QQFVKDDDNMVIGCTMHDVVHDFAQSLTNNECVALEV 529
               ++  G  Y + L  R+      +++  + N    C MHD++ +   S    E   L++
Sbjct:   458 T-IQDSGEYYLEELVRRNLVIADNRYLSLEFNF---CQMHDMMREVCLSKAKEENF-LQI 512

Query:   530 HGDEEPLSLINNSQDKLRHSISVLDKVASFPVSIFNAKKLRSLLI 574
               D    S IN          S+    A   +   N  K+RSL++
Sbjct:   513 IKDPTSTSTINAQSPSRSRRFSIHSGKAFHILGHRNNPKVRSLIV 557

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005886 "plasma membrane" evidence=IDA

TAIR|locus:2169523 AT5G35450 [Arabidopsis thaliana (taxid:3702)]

 Score = 362 (132.5 bits), Expect = 1.6e-38, Sum P(2) = 1.6e-38
 Identities = 119/427 (27%), Positives = 214/427 (50%)

Query:   169 EGMQSTSLIDVS-EVR-----GRDEEMRSIK-SMLLCQGSDQQTNTVQIISMVGMGGIGK 221
             +G +S SL D+  E+R       + ++  ++ S+    G   + + +Q++S+ GMGGIGK
Sbjct:   137 DGGRSLSLQDIQREIRQTFPNSSESDLVGVEQSVEELVGPMVEIDNIQVVSISGMGGIGK 196

Query:   222 TTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEEL---EGSAIDLHELNSLLR 278
             TTLA+  ++ + V  +F+    VCVS  F + +V +  ++EL   +G  + + E  ++  
Sbjct:   197 TTLARQIFHHDLVRRHFDGFAWVCVSQQFTQKHVWQRILQELRPHDGEILQMDEY-TIQG 255

Query:   279 RIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKETVARMMESTDI 338
             ++   +   ++ +VLD++W ++   W+  +       RG K+L+T+R E V    + T +
Sbjct:   256 KLFQLLETGRYLVVLDDVWKEE--DWDRIKEVFPRK-RGWKMLLTSRNEGVGLHADPTCL 312

Query:   339 VY-VQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQFK 397
              +  + L+  E W LF R  +  R  +E +++E IG+ +V  C GLPLA K +G LL  K
Sbjct:   313 SFRARILNPKESWKLFERI-VPRRNETEYEEMEAIGKEMVTYCGGLPLAVKVLGGLLANK 371

Query:   398 RTKEEWQSALDSEMWQLEEF----EGGLSAP---LFLSYNDLPFEIKRCFSYCAIFPKSS 450
              T  EW+   ++   Q+       +  L++    L LSY DLP ++K CF Y A FP+  
Sbjct:   372 HTASEWKRVSENIGAQIVGKSCLDDNSLNSVYRILSLSYEDLPTDLKHCFLYLAHFPEDY 431

Query:   451 YLKKDELVKLWMAQGYIVLKGNNEMKVIGLEYFDCLASRSFYQQFVKDDDNM---VIGCT 507
              +K   L   W A+G  +  G   +   G +Y + L  R+     + +  N+   +  C 
Sbjct:   432 KIKTRTLYSYWAAEG--IYDGLTILDS-GEDYLEELVRRNLV---IAEKSNLSWRLKLCQ 485

Query:   508 MHDVVHDFAQSLTNNECVALEVHGDEEPLSLINNSQDKLRHSISVLDKVASFPVSIFNAK 567
             MHD++ +   S    E     +       ++I  S  + R  ++V    A F + + + K
Sbjct:   486 MHDMMREVCISKAKVENFLQIIKVPTSTSTIIAQSPSRSRR-LTVHSGKA-FHI-LGHKK 542

Query:   568 KLRSLLI 574
             K+RSLL+
Sbjct:   543 KVRSLLV 549

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005886 "plasma membrane" evidence=IDA

TAIR|locus:2077572 RPM1 "RESISTANCE TO P. SYRINGAE PV MACULICOLA 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 397 (144.8 bits), Expect = 2.4e-37, Sum P(2) = 2.4e-37
 Identities = 112/382 (29%), Positives = 193/382 (50%)

Query:   210 IISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSA-- 267
             ++++VGMGG GKTTL+   +    V  +FE    V +S  +   +V +  I+E    A  
Sbjct:   195 VVAVVGMGGSGKTTLSANIFKSQSVRRHFESYAWVTISKSYVIEDVFRTMIKEFYKEADT 254

Query:   268 ---IDLHELN--SLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILI 322
                 +L+ L    L+ ++   +  +++ +VLD++WT     W      L +G+ GS++++
Sbjct:   255 QIPAELYSLGYRELVEKLVEYLQSKRYIVVLDDVWTTGL--WREISIALPDGIYGSRVMM 312

Query:   323 TTRKETVARM---MESTDIVYVQGLSELECWSLFRRFALSGRTPSEC--DQLEGIGRGIV 377
             TTR   VA     + ST    ++ L E E W LF   A       +C    LE I R +V
Sbjct:   313 TTRDMNVASFPYGIGSTKHE-IELLKEDEAWVLFSNKAFPASL-EQCRTQNLEPIARKLV 370

Query:   378 RKCKGLPLAAKTIGSLLQFKRTKEEWQSALDSEMWQLEE-FEGGL-SAPLFLSYNDLPFE 435
              +C+GLPLA  ++GS++  K+ + EW+    +  W+L    E  +  + +FLS+NDLP+ 
Sbjct:   371 ERCQGLPLAIASLGSMMSTKKFESEWKKVYSTLNWELNNNHELKIVRSIMFLSFNDLPYP 430

Query:   436 IKRCFSYCAIFPKSSYLKKDELVKLWMAQGYIV-LKGNNEMKVIGLEYFDCLASRSFYQQ 494
             +KRCF YC++FP +  +K+  L+++WMAQ ++  ++G    +V    Y + L  R+  Q 
Sbjct:   431 LKRCFLYCSLFPVNYRMKRKRLIRMWMAQRFVEPIRGVKAEEVAD-SYLNELVYRNMLQV 489

Query:   495 FVKDDDNMVIGCTMHDVVHDFAQSLTNNECVALEVHGDEEPLSLINNSQDKLRHSISVLD 554
              + +         MHDV+ + A S++  E    +V+ D+        + +        + 
Sbjct:   490 ILWNPFGRPKAFKMHDVIWEIALSVSKLERFC-DVYNDDSDGDDAAETMENYGSRHLCIQ 548

Query:   555 KVASFPVSIFNAKKLRSLLIRS 576
             K  + P SI  A  L SLL+ S
Sbjct:   549 KEMT-PDSI-RATNLHSLLVCS 568

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0005886 "plasma membrane" evidence=IDA

GO:0000166 "nucleotide binding" evidence=ISS

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

TAIR|locus:2075170 RPP13 "RECOGNITION OF PERONOSPORA PARASITICA 13" [Arabidopsis thaliana (taxid:3702)]

 Score = 368 (134.6 bits), Expect = 2.6e-37, Sum P(2) = 2.6e-37
 Identities = 110/396 (27%), Positives = 198/396 (50%)

Query:   140 IKAINQTLDDIAEQKDMFSFNVINSRGKSEGMQSTSLIDVSEVR-GR--DEE-----MRS 191
             I+ + + + DI  +++ +    I    + +G  +TS + V ++R  R  D+E     +  
Sbjct:   112 IRILKRRILDITRKRETYG---IGGLKEPQGGGNTSSLRVRQLRRARSVDQEEVVVGLED 168

Query:   192 IKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFD 251
                +LL +  D +     IIS+ GMGG+GKT LA+  YN  DV   FE R    VS  + 
Sbjct:   169 DAKILLEKLLDYEEKNRFIISIFGMGGLGKTALARKLYNSRDVKERFEYRAWTYVSQEYK 228

Query:   252 EFNVAKATIEELE-GSAIDLHELNSLLRR-----IGANIAGQKFFMVLDNLWTDDYRKWE 305
               ++    I  L   S  +L ++           +   + G+K+ +V+D++W  +   W+
Sbjct:   229 TGDILMRIIRSLGMTSGEELEKIRKFAEEELEVYLYGLLEGKKYLVVVDDIW--EREAWD 286

Query:   306 PFRNCLMNGLRGSKILITTRKETVARMMESTDIVY-VQGLSELECWSLFRRFALSGRTPS 364
               +  L     GS+++ITTR + VA  ++     + ++ L+  E W LF + A       
Sbjct:   287 SLKRALPCNHEGSRVIITTRIKAVAEGVDGRFYAHKLRFLTFEESWELFEQRAFRNIQRK 346

Query:   365 ECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEEWQSALDSEMWQLEEFEGGLSAP 424
             + D L+  G+ +V+KC+GLPL    +  LL  ++T  EW    +S +W+  + +    AP
Sbjct:   347 DEDLLK-TGKEMVQKCRGLPLCIVVLAGLLS-RKTPSEWNDVCNS-LWRRLKDDSIHVAP 403

Query:   425 LF--LSYNDLPFEIKRCFSYCAIFPKSSYLKKDELVKLWMAQGYIVLKGNNEMKV--IGL 480
             +   LS+ +L  E K CF Y +IFP+   +  ++L+ L +A+G+I  +G+ EM +  +  
Sbjct:   404 IVFDLSFKELRHESKLCFLYLSIFPEDYEIDLEKLIHLLVAEGFI--QGDEEMMMEDVAR 461

Query:   481 EYFDCLASRSFYQQFVKDDDNMVIGCTMHDVVHDFA 516
              Y + L  RS  +  V+ +   V+ C +HD++ D A
Sbjct:   462 YYIEELIDRSLLEA-VRRERGKVMSCRIHDLLRDVA 496

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=TAS

GO:0009814 "defense response, incompatible interaction" evidence=IMP

GO:0005886 "plasma membrane" evidence=IDA

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: eugene3.01930033 cc-nbs-lrr resistance protein (963 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	583
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	2e-67

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

 Score =  220 bits (562), Expect = 2e-67
 Identities = 102/288 (35%), Positives = 166/288 (57%), Gaps = 13/288 (4%)

Query: 185 RDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRV 244
           R++ + ++   LL + SD     + ++ +VGMGG+GKTTLA+  YND+ V  +F+    V
Sbjct: 1   REDMIEALIEKLL-EMSDN----LGVVGIVGMGGVGKTTLAKQIYNDDSVGGHFDSVAWV 55

Query: 245 CVSDPFDEFNVAKATIEEL--EGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYR 302
            VS  + EF + K  ++EL  + S       + L  +I   +  ++F +VLD++W  +  
Sbjct: 56  VVSKTYTEFRLQKDILQELGLDDSDWVEKNESELAVKIKEALLRKRFLLVLDDVW--EKN 113

Query: 303 KWEPFRNCLMNGLRGSKILITTRKETVA-RMMESTDIVYVQGLSELECWSLFRRFALSGR 361
            W+       +G  GS++++TTR E+VA RM  ++    V+ L   E W LF        
Sbjct: 114 DWDKIGVPFPDGENGSRVIVTTRSESVAGRMGGTSKPHEVESLEPEESWELFSNKVFEKE 173

Query: 362 TPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEEWQSALDSEMWQLEEFEG-- 419
            P  C +LE + + IV KCKGLPLA K +G LL FK T +EW+  L+    +L   +G  
Sbjct: 174 LPP-CPELEEVAKEIVEKCKGLPLALKVLGGLLAFKSTVQEWEHVLEQLNNELAGRDGLN 232

Query: 420 GLSAPLFLSYNDLPFEIKRCFSYCAIFPKSSYLKKDELVKLWMAQGYI 467
            + + L LSY++LP  +KRCF Y A+FP+   ++K++L+KLW+A+G++
Sbjct: 233 EVLSILSLSYDNLPMHLKRCFLYLALFPEDYNIRKEQLIKLWIAEGFV 280

Length = 285

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	583
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	100.0
PLN03210	1153	Resistant to P. syringae 6; Provisional	100.0
PRK04841	903	transcriptional regulator MalT; Provisional	99.64
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.54
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	99.41
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.4
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.37
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.36
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.33
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	99.32
COG3899	849	Predicted ATPase [General function prediction only	99.24
PF05729	166	NACHT: NACHT domain	99.12
PTZ00112	1164	origin recognition complex 1 protein; Provisional	99.02
PRK06893	229	DNA replication initiation factor; Validated	98.94
PRK13342	413	recombination factor protein RarA; Reviewed	98.86
COG2256	436	MGS1 ATPase related to the helicase subunit of the	98.86
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	98.83
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	98.82
PRK04195	482	replication factor C large subunit; Provisional	98.78
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.78
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.78
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	98.78
PRK12402	337	replication factor C small subunit 2; Reviewed	98.76
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.73
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	98.72
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	98.71
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	98.7
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	98.69
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	98.67
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	98.66
COG3903	414	Predicted ATPase [General function prediction only	98.66
PTZ00202	550	tuzin; Provisional	98.65
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	98.65
PRK00440	319	rfc replication factor C small subunit; Reviewed	98.63
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.63
PLN03025	319	replication factor C subunit; Provisional	98.61
KOG2028	554	consensus ATPase related to the helicase subunit o	98.61
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	98.6
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	98.59
PRK08903	227	DnaA regulatory inactivator Hda; Validated	98.58
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	98.58
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	98.58
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	98.57
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	98.56
PF13173	128	AAA_14: AAA domain	98.56
PRK13341	725	recombination factor protein RarA/unknown domain f	98.55
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	98.55
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	98.55
PRK09112	351	DNA polymerase III subunit delta'; Validated	98.54
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	98.53
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	98.53
PRK08727	233	hypothetical protein; Validated	98.53
PRK08084	235	DNA replication initiation factor; Provisional	98.53
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	98.5
PRK07471	365	DNA polymerase III subunit delta'; Validated	98.5
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	98.49
PRK07940	394	DNA polymerase III subunit delta'; Validated	98.49
PRK05642	234	DNA replication initiation factor; Validated	98.49
PRK09087	226	hypothetical protein; Validated	98.49
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	98.48
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	98.48
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	98.46
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	98.45
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	98.44
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	98.43
cd01128	249	rho_factor Transcription termination factor rho is	98.42
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	98.4
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	98.4
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	98.39
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	98.38
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	98.38
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	98.34
PRK14087	450	dnaA chromosomal replication initiation protein; P	98.32
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	98.3
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	98.29
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	98.26
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	98.25
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	98.24
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	98.23
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	98.22
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	98.22
PF14516	331	AAA_35: AAA-like domain	98.2
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	98.2
PRK09376	416	rho transcription termination factor Rho; Provisio	98.19
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	98.18
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	98.17
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	98.17
PHA02544	316	44 clamp loader, small subunit; Provisional	98.17
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	98.15
PRK06620	214	hypothetical protein; Validated	98.14
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	98.12
PRK14088	440	dnaA chromosomal replication initiation protein; P	98.11
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	98.1
CHL00181	287	cbbX CbbX; Provisional	98.09
PRK03992	389	proteasome-activating nucleotidase; Provisional	98.08
PRK00149	450	dnaA chromosomal replication initiation protein; R	98.07
TIGR00767	415	rho transcription termination factor Rho. Members	98.06
CHL00095	821	clpC Clp protease ATP binding subunit	98.06
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	98.05
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	98.05
PRK12422	445	chromosomal replication initiation protein; Provis	98.04
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	98.04
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	98.04
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	98.04
PRK14086	617	dnaA chromosomal replication initiation protein; P	98.03
PRK05707	328	DNA polymerase III subunit delta'; Validated	98.01
PRK07399	314	DNA polymerase III subunit delta'; Validated	98.0
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	97.96
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.94
PF00004	132	AAA: ATPase family associated with various cellula	97.93
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.93
PRK10865	857	protein disaggregation chaperone; Provisional	97.85
smart00382	148	AAA ATPases associated with a variety of cellular	97.75
PRK08116	268	hypothetical protein; Validated	97.75
PRK06090	319	DNA polymerase III subunit delta'; Validated	97.72
PRK10536	262	hypothetical protein; Provisional	97.72
COG0593	408	DnaA ATPase involved in DNA replication initiation	97.7
PRK08769	319	DNA polymerase III subunit delta'; Validated	97.7
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	97.7
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	97.66
PRK06871	325	DNA polymerase III subunit delta'; Validated	97.65
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	97.65
PRK08058	329	DNA polymerase III subunit delta'; Validated	97.65
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	97.61
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	97.6
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	97.59
PRK10865	857	protein disaggregation chaperone; Provisional	97.59
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	97.59
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.57
PRK12377	248	putative replication protein; Provisional	97.57
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	97.57
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	97.56
CHL00176	638	ftsH cell division protein; Validated	97.55
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	97.55
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.52
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	97.51
PRK07993	334	DNA polymerase III subunit delta'; Validated	97.49
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	97.47
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	97.45
PRK08181	269	transposase; Validated	97.44
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	97.41
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	97.41
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	97.41
PRK13531	498	regulatory ATPase RavA; Provisional	97.4
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	97.37
PRK07952	244	DNA replication protein DnaC; Validated	97.36
PRK06964	342	DNA polymerase III subunit delta'; Validated	97.36
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	97.35
PRK08939	306	primosomal protein DnaI; Reviewed	97.34
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	97.34
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.32
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	97.3
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.28
PRK06526	254	transposase; Provisional	97.27
CHL00095	821	clpC Clp protease ATP binding subunit	97.26
PRK06921	266	hypothetical protein; Provisional	97.25
PRK09183	259	transposase/IS protein; Provisional	97.22
KOG1514	767	consensus Origin recognition complex, subunit 1, a	97.22
PRK08118	167	topology modulation protein; Reviewed	97.22
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	97.21
PRK04296	190	thymidine kinase; Provisional	97.18
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	97.18
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	97.16
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	97.16
PRK04132	846	replication factor C small subunit; Provisional	97.16
TIGR02237	209	recomb_radB DNA repair and recombination protein R	97.14
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	97.14
PRK07261	171	topology modulation protein; Provisional	97.13
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	97.13
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.12
PRK08699	325	DNA polymerase III subunit delta'; Validated	97.11
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	97.1
cd01394	218	radB RadB. The archaeal protein radB shares simila	97.08
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	97.07
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	97.07
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	97.05
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	97.05
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	97.05
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	97.04
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	97.04
PRK06835	329	DNA replication protein DnaC; Validated	97.02
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.02
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	97.0
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.0
COG1875	436	NYN ribonuclease and ATPase of PhoH family domains	96.99
PHA00729	226	NTP-binding motif containing protein	96.99
PTZ00494	664	tuzin-like protein; Provisional	96.97
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	96.94
PRK05541	176	adenylylsulfate kinase; Provisional	96.93
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	96.91
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	96.91
COG1484	254	DnaC DNA replication protein [DNA replication, rec	96.9
PRK12608	380	transcription termination factor Rho; Provisional	96.89
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	96.87
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	96.86
KOG1969	877	consensus DNA replication checkpoint protein CHL12	96.86
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	96.86
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	96.85
CHL00195	489	ycf46 Ycf46; Provisional	96.84
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	96.84
PRK06067	234	flagellar accessory protein FlaH; Validated	96.84
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	96.83
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	96.8
PHA02244	383	ATPase-like protein	96.8
PRK13695	174	putative NTPase; Provisional	96.79
COG2884	223	FtsE Predicted ATPase involved in cell division [C	96.78
PRK06696	223	uridine kinase; Validated	96.76
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	96.76
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	96.76
cd00983	325	recA RecA is a bacterial enzyme which has roles in	96.75
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	96.73
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	96.73
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	96.72
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	96.71
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	96.69
PRK09354	349	recA recombinase A; Provisional	96.68
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	96.68
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	96.67
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	96.66
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	96.66
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	96.65
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	96.64
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	96.62
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	96.62
cd03216	163	ABC_Carb_Monos_I This family represents the domain	96.61
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	96.6
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	96.59
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	96.58
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	96.56
PRK11608	326	pspF phage shock protein operon transcriptional ac	96.52
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	96.5
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	96.5
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	96.5
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	96.47
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	96.47
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	96.47
COG4618	580	ArpD ABC-type protease/lipase transport system, AT	96.46
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	96.45
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	96.43
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	96.43
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	96.42
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	96.41
PRK08233	182	hypothetical protein; Provisional	96.39
PTZ00035	337	Rad51 protein; Provisional	96.38
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	96.38
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	96.36
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	96.34
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	96.34
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	96.31
TIGR02236	310	recomb_radA DNA repair and recombination protein R	96.31
cd03246	173	ABCC_Protease_Secretion This family represents the	96.31
COG0714	329	MoxR-like ATPases [General function prediction onl	96.27
PF10236	309	DAP3: Mitochondrial ribosomal death-associated pro	96.27
PRK07667	193	uridine kinase; Provisional	96.27
PRK15455	644	PrkA family serine protein kinase; Provisional	96.26
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	96.25
PRK07132	299	DNA polymerase III subunit delta'; Validated	96.25
PRK00771	437	signal recognition particle protein Srp54; Provisi	96.24
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	96.21
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	96.21
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	96.21
PRK05439	311	pantothenate kinase; Provisional	96.2
PRK05022	509	anaerobic nitric oxide reductase transcription reg	96.15
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	96.14
PRK04301	317	radA DNA repair and recombination protein RadA; Va	96.13
PRK14974	336	cell division protein FtsY; Provisional	96.12
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	96.11
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	96.1
PRK08533	230	flagellar accessory protein FlaH; Reviewed	96.1
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	96.05
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	96.05
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	96.03
cd03215	182	ABC_Carb_Monos_II This family represents domain II	96.02
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	96.02
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	95.98
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	95.98
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	95.97
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	95.96
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	95.94
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	95.93
PF00154	322	RecA: recA bacterial DNA recombination protein; In	95.91
cd03369	207	ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-ty	95.9
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	95.89
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	95.88
cd03115	173	SRP The signal recognition particle (SRP) mediates	95.88
PRK10867	433	signal recognition particle protein; Provisional	95.86
TIGR00959	428	ffh signal recognition particle protein. This mode	95.86
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	95.86
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	95.85
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	95.84
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	95.82
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	95.81
PRK05917	290	DNA polymerase III subunit delta'; Validated	95.81
cd03244	221	ABCC_MRP_domain2 Domain 2 of the ABC subfamily C.	95.81
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	95.8
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	95.78
TIGR00235	207	udk uridine kinase. Model contains a number of lon	95.78
cd03217	200	ABC_FeS_Assembly ABC-type transport system involve	95.77
PTZ00301	210	uridine kinase; Provisional	95.76
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	95.74
PRK05480	209	uridine/cytidine kinase; Provisional	95.74
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	95.71
cd03254	229	ABCC_Glucan_exporter_like Glucan exporter ATP-bind	95.69
cd03233	202	ABC_PDR_domain1 The pleiotropic drug resistance (P	95.68
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	95.68
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	95.67
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	95.66
KOG0924	1042	consensus mRNA splicing factor ATP-dependent RNA h	95.66
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	95.66
PRK06762	166	hypothetical protein; Provisional	95.66
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	95.66
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	95.65
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	95.64
cd03253	236	ABCC_ATM1_transporter ATM1 is an ABC transporter t	95.62
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	95.61
PRK00889	175	adenylylsulfate kinase; Provisional	95.61
cd03245	220	ABCC_bacteriocin_exporters ABC-type bacteriocin ex	95.61
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	95.59
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	95.58
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	95.57
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	95.57
PRK04328	249	hypothetical protein; Provisional	95.56
PRK06547	172	hypothetical protein; Provisional	95.55
cd03251	234	ABCC_MsbA MsbA is an essential ABC transporter, cl	95.55
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	95.54
TIGR00064	272	ftsY signal recognition particle-docking protein F	95.52
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	95.52
cd03220	224	ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transpo	95.48
cd03282	204	ABC_MSH4_euk MutS4 homolog in eukaryotes. The MutS	95.47
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	95.47
cd03252	237	ABCC_Hemolysin The ABC-transporter hemolysin B is	95.46
PRK09519	790	recA DNA recombination protein RecA; Reviewed	95.45
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	95.45
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	95.45
TIGR03740	223	galliderm_ABC gallidermin-class lantibiotic protec	95.42
PTZ00088	229	adenylate kinase 1; Provisional	95.4
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	95.4
cd03231	201	ABC_CcmA_heme_exporter CcmA, the ATP-binding compo	95.39
cd03268	208	ABC_BcrA_bacitracin_resist The BcrA subfamily repr	95.38
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	95.38
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	95.37
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	95.36
COG1643	845	HrpA HrpA-like helicases [DNA replication, recombi	95.34
PRK06002	450	fliI flagellum-specific ATP synthase; Validated	95.33
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	95.32
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	95.28
PRK03839	180	putative kinase; Provisional	95.27
cd03249	238	ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6)	95.26
PRK06217	183	hypothetical protein; Validated	95.26
) 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	95.25
TIGR03575	340	selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryoti	95.23
TIGR01069	771	mutS2 MutS2 family protein. Function of MutS2 is u	95.23
PRK04040	188	adenylate kinase; Provisional	95.21
KOG3928	461	consensus Mitochondrial ribosome small subunit com	95.18
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	95.18
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	95.17
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	95.15
KOG0736	953	consensus Peroxisome assembly factor 2 containing	95.15
PRK09544	251	znuC high-affinity zinc transporter ATPase; Review	95.14
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	95.12
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	95.12
TIGR02329	526	propionate_PrpR propionate catabolism operon regul	95.11
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	95.09
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	95.09
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	95.05
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	95.04
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	95.03
PRK13647	274	cbiO cobalt transporter ATP-binding subunit; Provi	95.03
PF07726	131	AAA_3: ATPase family associated with various cellu	95.02
TIGR03522	301	GldA_ABC_ATP gliding motility-associated ABC trans	95.01
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	95.0
PRK00131	175	aroK shikimate kinase; Reviewed	94.99
COG2401	593	ABC-type ATPase fused to a predicted acetyltransfe	94.98
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	94.96
PRK15177	213	Vi polysaccharide export ATP-binding protein VexC;	94.95
PF13479	213	AAA_24: AAA domain	94.94
PF05659	147	RPW8: Arabidopsis broad-spectrum mildew resistance	94.94
cd03289	275	ABCC_CFTR2 The CFTR subfamily domain 2. The cystic	94.93
PRK15453	290	phosphoribulokinase; Provisional	94.91
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	94.91
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	94.91
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	94.91
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	94.91
PRK00625	173	shikimate kinase; Provisional	94.91
TIGR03498	418	FliI_clade3 flagellar protein export ATPase FliI.	94.89
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	94.89
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	94.89
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	94.87
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	94.87
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	94.81
PRK05973	237	replicative DNA helicase; Provisional	94.8
cd01136	326	ATPase_flagellum-secretory_path_III Flagellum-spec	94.8
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	94.8
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	94.8
PRK11823	446	DNA repair protein RadA; Provisional	94.78
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	94.78
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	94.77
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	94.75
COG1131	293	CcmA ABC-type multidrug transport system, ATPase c	94.74
cd03240	204	ABC_Rad50 The catalytic domains of Rad50 are simil	94.73
TIGR02314	343	ABC_MetN D-methionine ABC transporter, ATP-binding	94.72
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	94.72
TIGR03411	242	urea_trans_UrtD urea ABC transporter, ATP-binding	94.72
cd03248	226	ABCC_TAP TAP, the Transporter Associated with Anti	94.71
PRK13537	306	nodulation ABC transporter NodI; Provisional	94.71
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	94.71
PRK14269	246	phosphate ABC transporter ATP-binding protein; Pro	94.71
cd03250	204	ABCC_MRP_domain1 Domain 1 of the ABC subfamily C.	94.7
COG2019	189	AdkA Archaeal adenylate kinase [Nucleotide transpo	94.7
PRK13545	549	tagH teichoic acids export protein ATP-binding sub	94.69
TIGR01188	302	drrA daunorubicin resistance ABC transporter ATP-b	94.69
COG0396	251	sufC Cysteine desulfurase activator ATPase [Posttr	94.68
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	94.68
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	94.67
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	94.67
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	94.67
PRK05922	434	type III secretion system ATPase; Validated	94.64
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	94.61
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	94.61
cd03300	232	ABC_PotA_N PotA is an ABC-type transporter and the	94.6
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	94.59
COG4181	228	Predicted ABC-type transport system involved in ly	94.57
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	94.56
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	94.56
COG4133	209	CcmA ABC-type transport system involved in cytochr	94.55
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	94.55
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	94.54
PRK07276	290	DNA polymerase III subunit delta'; Validated	94.53
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	94.53
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	94.53
PRK15424	538	propionate catabolism operon regulatory protein Pr	94.51
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	94.5
cd03236	255	ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 o	94.49
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	94.46
PRK11160	574	cysteine/glutathione ABC transporter membrane/ATP-	94.46
PRK00409	782	recombination and DNA strand exchange inhibitor pr	94.46
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	94.46
PRK13657	588	cyclic beta-1,2-glucan ABC transporter; Provisiona	94.46
PRK08972	444	fliI flagellum-specific ATP synthase; Validated	94.45
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	94.45
KOG2170	344	consensus ATPase of the AAA+ superfamily [General	94.43
PRK11650	356	ugpC glycerol-3-phosphate transporter ATP-binding	94.43
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	94.42
PRK00300	205	gmk guanylate kinase; Provisional	94.42
PF06414	199	Zeta_toxin: Zeta toxin; InterPro: IPR010488 This e	94.41
PRK10416	318	signal recognition particle-docking protein FtsY;	94.41
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	94.41
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	94.4
PRK08149	428	ATP synthase SpaL; Validated	94.39
PRK03846	198	adenylylsulfate kinase; Provisional	94.39
PRK15115	444	response regulator GlrR; Provisional	94.32
PRK12339	197	2-phosphoglycerate kinase; Provisional	94.32
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	94.32
PRK08927	442	fliI flagellum-specific ATP synthase; Validated	94.31
PRK06793	432	fliI flagellum-specific ATP synthase; Validated	94.31
PRK14738	206	gmk guanylate kinase; Provisional	94.29
COG3840	231	ThiQ ABC-type thiamine transport system, ATPase co	94.29
PRK11432	351	fbpC ferric transporter ATP-binding subunit; Provi	94.27
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	94.26
PRK14737	186	gmk guanylate kinase; Provisional	94.26
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	94.26
TIGR03496	411	FliI_clade1 flagellar protein export ATPase FliI.	94.26
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	94.22
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	94.22
COG0541	451	Ffh Signal recognition particle GTPase [Intracellu	94.22
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	94.22
PRK12678	672	transcription termination factor Rho; Provisional	94.21
PRK13947	171	shikimate kinase; Provisional	94.21
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	94.2
COG2842	297	Uncharacterized ATPase, putative transposase [Gene	94.19
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	94.18
PF03796	259	DnaB_C: DnaB-like helicase C terminal domain; Inte	94.16
PRK15064	530	ABC transporter ATP-binding protein; Provisional	94.14
COG5635	824	Predicted NTPase (NACHT family) [Signal transducti	94.14
CHL00206	2281	ycf2 Ycf2; Provisional	94.13
smart00534	185	MUTSac ATPase domain of DNA mismatch repair MUTS f	94.13
TIGR02857	529	CydD thiol reductant ABC exporter, CydD subunit. U	94.12
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	94.12
PRK11174	588	cysteine/glutathione ABC transporter membrane/ATP-	94.12
cd02029	277	PRK_like Phosphoribulokinase-like (PRK-like) is a	94.11
cd01132	274	F1_ATPase_alpha F1 ATP synthase alpha, central dom	94.11
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	94.11
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	94.11
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	94.09
PRK13949	169	shikimate kinase; Provisional	94.08
COG0488	530	Uup ATPase components of ABC transporters with dup	94.08
PRK07594	433	type III secretion system ATPase SsaN; Validated	94.07
PRK07721	438	fliI flagellum-specific ATP synthase; Validated	94.06
KOG1970	634	consensus Checkpoint RAD17-RFC complex, RAD17/RAD2	94.05
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	94.03
TIGR03258	362	PhnT 2-aminoethylphosphonate ABC transport system,	94.03
PRK14530	215	adenylate kinase; Provisional	94.03
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	93.99
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	93.99
TIGR03375	694	type_I_sec_LssB type I secretion system ATPase, Ls	93.98
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	93.98
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	93.98
PF00005	137	ABC_tran: ABC transporter This structure is on hol	93.96
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	93.95

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=8.2e-72  Score=619.76  Aligned_cols=535  Identities=25%  Similarity=0.414  Sum_probs=435.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHHHHHhhcccCchHHHHHHHHHHHhhhchHhHHHHH
Q 036323            4 AIVSAVLEQLISVAAKEANEGVRLAVGVGQEVEKLKRNFQAIQAVLHDAEHRQVREEGVRLWLDQLKDASYNMEDVLDEW   83 (583)
Q Consensus         4 ~~~~~~~~~l~~~l~~~~~~e~~~~~~v~~~i~~L~~~l~~i~~~l~~ae~~~~~~~~~~~Wl~~lr~~ayd~eD~lD~~   83 (583)
                      +.++..++++.+.    +.+++..+.++++.+..|+++|..++.++++++.++.....+..|...+++++|++||.++.|
T Consensus         3 ~~~s~~~~~~~~~----l~~~~~~~~~~~~~i~~Lk~~L~~l~~~l~d~~a~~~~~~~~~~~~e~~~~~~~~~e~~~~~~   78 (889)
T KOG4658|consen    3 ACVSFGVEKLDQL----LNRESECLDGKDNYILELKENLKALQSALEDLDAKRDDLERRVNWEEDVGDLVYLAEDIIWLF   78 (889)
T ss_pred             eEEEEehhhHHHH----HHHHHHHHhchHHHHHHHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444455555554    778899999999999999999999999999999999888899999999999999999999999


Q ss_pred             HHHHHhhhhcCCCCchhhhhhhhhhhhhhccccccCCCCccccccchhhHHHHHHHHHHHHHHHHHHHHHhhhcCccccc
Q 036323           84 ITARLKRQTEGVDHDNALVRDKKKKKKKKKKVCSFFPASSCFGFKQVFLHRDIALKIKAINQTLDDIAEQKDMFSFNVIN  163 (583)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~i~~l~~~l~~i~~~~~~~~~~~~~  163 (583)
                      ..+....+..+.-..    +     ....+..        |++    .++++.+..+..+..++..+.+..+.++....-
T Consensus        79 ~v~~~~~~~~~~l~~----~-----~~~~~~~--------c~~----~~~~~~~~~~~~~~~rv~~~l~~ve~l~~~~~~  137 (889)
T KOG4658|consen   79 LVEEIERKANDLLST----R-----SVERQRL--------CLC----GFCSKNVSDSYKYGKRVSKVLREVESLGSKGVF  137 (889)
T ss_pred             HHHHHHHHHhHHhhh----h-----HHHHHHH--------hhh----hhHhHhhhhhHhHHHHHHHHHHHHHHhccccce
Confidence            877665432211100    0     0001111        111    466777788888888888888887777654422


Q ss_pred             ---CC--CCCCCCCccccccCCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCcc-cccc
Q 036323          164 ---SR--GKSEGMQSTSLIDVSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDND-VINN  237 (583)
Q Consensus       164 ---~~--~~~~~~~~~~~~~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~-~~~~  237 (583)
                         ..  .+.......+..+... ||.+..++++.+.|...+       ..+++|+||||+||||||+.++|+.. +..+
T Consensus       138 ~~~~~~~~~~~~~e~~~~~~~~~-VG~e~~~~kl~~~L~~d~-------~~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~  209 (889)
T KOG4658|consen  138 EVVGESLDPREKVETRPIQSESD-VGLETMLEKLWNRLMEDD-------VGIVGIYGMGGVGKTTLARQIFNKFDEVGNH  209 (889)
T ss_pred             ecccccccchhhcccCCCCcccc-ccHHHHHHHHHHHhccCC-------CCEEEEECCCcccHHHHHHHHhcccchhccc
Confidence               11  1111233444444455 999999999999998765       38999999999999999999999987 9999


Q ss_pred             CceEEEEEeCCCCChHHHHHHHHHHhhcCccccc--cHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccCC
Q 036323          238 FEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLH--ELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGL  315 (583)
Q Consensus       238 f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~--~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~  315 (583)
                      |+.++||.||+.++...++.+|+..++.......  ..+.+...|.+.|++|||||||||||+..  .|+.+..++|...
T Consensus       210 Fd~~iWV~VSk~f~~~~iq~~Il~~l~~~~~~~~~~~~~~~~~~i~~~L~~krfllvLDDIW~~~--dw~~I~~~~p~~~  287 (889)
T KOG4658|consen  210 FDGVIWVVVSKEFTTRKIQQTILERLGLLDEEWEDKEEDELASKLLNLLEGKRFLLVLDDIWEEV--DWDKIGVPFPSRE  287 (889)
T ss_pred             CceEEEEEEcccccHHhHHHHHHHHhccCCcccchhhHHHHHHHHHHHhccCceEEEEecccccc--cHHhcCCCCCCcc
Confidence            9999999999999999999999999987544322  34688999999999999999999999864  6999999999998


Q ss_pred             CCceEEEecCchHHHhh-hcCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhhhhhh
Q 036323          316 RGSKILITTRKETVARM-MESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLL  394 (583)
Q Consensus       316 ~gs~IlvTtR~~~v~~~-~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~~~L  394 (583)
                      +||+|++|||+..|+.. ++....++++.|+++|||+||++.+|.... ...+.++++|++|+++|+|+|||++++|+.|
T Consensus       288 ~g~KvvlTTRs~~V~~~~m~~~~~~~v~~L~~~eaW~LF~~~v~~~~~-~~~~~i~~lak~v~~kC~GLPLAl~viG~~m  366 (889)
T KOG4658|consen  288 NGSKVVLTTRSEEVCGRAMGVDYPIEVECLTPEEAWDLFQKKVGPNTL-GSHPDIEELAKEVAEKCGGLPLALNVLGGLL  366 (889)
T ss_pred             CCeEEEEEeccHhhhhccccCCccccccccCccccHHHHHHhhccccc-cccccHHHHHHHHHHHhCChHHHHHHHHHHh
Confidence            99999999999999998 777899999999999999999999986543 3445589999999999999999999999999


Q ss_pred             ccCCCHHHHHHHHhhhccc----cccccCCCcchhhccccCChHHhHHHHhhhccCCCCcccChHHHHHHHHHhccccc-
Q 036323          395 QFKRTKEEWQSALDSEMWQ----LEEFEGGLSAPLFLSYNDLPFEIKRCFSYCAIFPKSSYLKKDELVKLWMAQGYIVL-  469 (583)
Q Consensus       395 ~~~~~~~~w~~~l~~~~~~----~~~~~~~i~~~l~~sy~~L~~~~k~cf~~lsifp~~~~i~~~~Li~~W~aeg~i~~-  469 (583)
                      +.+.+..+|+++++...+.    .++..+.+.++|.+||+.||+++|.||+|||+||++|.|+++.|+.+|+||||+.+ 
T Consensus       367 a~K~t~~eW~~~~~~l~s~~~~~~~~~~~~i~~iLklSyd~L~~~lK~CFLycalFPED~~I~~e~Li~yWiaEGfi~~~  446 (889)
T KOG4658|consen  367 ACKKTVQEWRRALNVLKSSLAADFSGMEESILPILKLSYDNLPEELKSCFLYCALFPEDYEIKKEKLIEYWIAEGFIDPL  446 (889)
T ss_pred             cCCCcHHHHHHHHccccccccCCCCchhhhhHHhhhccHhhhhHHHHHHHHhhccCCcccccchHHHHHHHHhccCcCcc
Confidence            9999999999999876544    23345678999999999999999999999999999999999999999999999999 


Q ss_pred             cCCchHHHHHHHHHHHHhhcccccceecCCCCcEEEEEEchhHHHHHHHhhc-----cceEEEeeCCCCCccccccCCCC
Q 036323          470 KGNNEMKVIGLEYFDCLASRSFYQQFVKDDDNMVIGCTMHDVVHDFAQSLTN-----NECVALEVHGDEEPLSLINNSQD  544 (583)
Q Consensus       470 ~~~~~~e~~~~~~l~~L~~rsll~~~~~~~~~~~~~~~mHdlv~~~a~~~~~-----~e~~~~~~~~~~~~~~~~~~~~~  544 (583)
                      ..+.+.++.|+.|+.+|++++|++.....  ++..+|+|||+|||+|.++|+     .|+.++..+..... .+....+.
T Consensus       447 ~~~~~~~d~G~~~i~~LV~~~Ll~~~~~~--~~~~~~kmHDvvRe~al~ias~~~~~~e~~iv~~~~~~~~-~~~~~~~~  523 (889)
T KOG4658|consen  447 DGGETAEDVGYDYIEELVRASLLIEERDE--GRKETVKMHDVVREMALWIASDFGKQEENQIVSDGVGLSE-IPQVKSWN  523 (889)
T ss_pred             ccccchhcchHHHHHHHHHHHHHhhcccc--cceeEEEeeHHHHHHHHHHhccccccccceEEECCcCccc-cccccchh
Confidence            56788999999999999999999875543  566789999999999999999     67665554311110 12234578


Q ss_pred             CeeEEEEEcccccCccccccCCCCceEEEecCCc
Q 036323          545 KLRHSISVLDKVASFPVSIFNAKKLRSLLIRSPL  578 (583)
Q Consensus       545 ~~r~ls~~~~~~~~~~~~~~~~~~lrtl~~~~~~  578 (583)
                      .+||++++++.....+... ++++||||+++++.
T Consensus       524 ~~rr~s~~~~~~~~~~~~~-~~~~L~tLll~~n~  556 (889)
T KOG4658|consen  524 SVRRMSLMNNKIEHIAGSS-ENPKLRTLLLQRNS  556 (889)
T ss_pred             heeEEEEeccchhhccCCC-CCCccceEEEeecc
Confidence            9999999988766555553 67789999988863

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

Probab=100.00  E-value=4.1e-46  Score=374.52  Aligned_cols=278  Identities=34%  Similarity=0.586  Sum_probs=224.8

Q ss_pred             chhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhh
Q 036323          185 RDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELE  264 (583)
Q Consensus       185 R~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~  264 (583)
                      ||.++++|.+.|....     .+.++|+|+|+||+||||||..++++..++.+|+.++|++++...+...++..|+..+.
T Consensus         1 re~~~~~l~~~L~~~~-----~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~   75 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNS-----NEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLG   75 (287)
T ss_dssp             -HHHHHHHHHHHHTTT-----TSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHhhCCC-----CCeEEEEEEcCCcCCcceeeeeccccccccccccccccccccccccccccccccccccc
Confidence            7899999999998643     67999999999999999999999997668999999999999999999999999999998


Q ss_pred             cCcc---ccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCchHHHhhhcC-CCeEE
Q 036323          265 GSAI---DLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKETVARMMES-TDIVY  340 (583)
Q Consensus       265 ~~~~---~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~~v~~~~~~-~~~~~  340 (583)
                      ....   ...+.+.....+.+.|.++++||||||||+..  .|+.+...++....|++||||||+..++..+.. ...++
T Consensus        76 ~~~~~~~~~~~~~~~~~~l~~~L~~~~~LlVlDdv~~~~--~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~~  153 (287)
T PF00931_consen   76 EPDSSISDPKDIEELQDQLRELLKDKRCLLVLDDVWDEE--DLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVIE  153 (287)
T ss_dssp             CC-STSSCCSSHHHHHHHHHHHHCCTSEEEEEEEE-SHH--HH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEEE
T ss_pred             ccccccccccccccccccchhhhccccceeeeeeecccc--ccccccccccccccccccccccccccccccccccccccc
Confidence            8743   45677789999999999999999999998654  788888777777789999999999988876655 67899


Q ss_pred             cCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhhhhhhccCCCHHHHHHHHhhhcccccc---c
Q 036323          341 VQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEEWQSALDSEMWQLEE---F  417 (583)
Q Consensus       341 l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~~~L~~~~~~~~w~~~l~~~~~~~~~---~  417 (583)
                      +++|+.++|++||.+.++... ....+.+++.+++|+++|+|+||||+++|++|+.+.+..+|..++++......+   .
T Consensus       154 l~~L~~~ea~~L~~~~~~~~~-~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~~~~~~~~  232 (287)
T PF00931_consen  154 LEPLSEEEALELFKKRAGRKE-SESPEDLEDLAKEIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELENSLRESRDY  232 (287)
T ss_dssp             CSS--HHHHHHHHHHHHTSHS-----TTSCTHHHHHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHCHTCSSGS
T ss_pred             ccccccccccccccccccccc-cccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            999999999999999987554 223345577899999999999999999999997666778899988765544322   2


Q ss_pred             cCCCcchhhccccCChHHhHHHHhhhccCCCCcccChHHHHHHHHHhcccccc
Q 036323          418 EGGLSAPLFLSYNDLPFEIKRCFSYCAIFPKSSYLKKDELVKLWMAQGYIVLK  470 (583)
Q Consensus       418 ~~~i~~~l~~sy~~L~~~~k~cf~~lsifp~~~~i~~~~Li~~W~aeg~i~~~  470 (583)
                      ...+..++.+||+.||+++|+||+|||+||+++.|+++.|+++|++|||+...
T Consensus       233 ~~~~~~~l~~s~~~L~~~~~~~f~~L~~f~~~~~i~~~~li~lW~~e~~i~~~  285 (287)
T PF00931_consen  233 DRSVFSALELSYDSLPDELRRCFLYLSIFPEGVPIPRERLIRLWVAEGFISSK  285 (287)
T ss_dssp             CHHHHHHHHHHHHSSHTCCHHHHHHGGGSGTTS-EEHHHHHHHHTT-HHTC--
T ss_pred             cccccccceechhcCCccHHHHHhhCcCCCCCceECHHHHHHHHHHCCCCccc
Confidence            45588899999999999999999999999999999999999999999999764

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

>PLN03210 Resistant to P

Probab=100.00  E-value=1e-39  Score=381.80  Aligned_cols=361  Identities=18%  Similarity=0.251  Sum_probs=268.7

Q ss_pred             ccCCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEe---CCCC---
Q 036323          177 IDVSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCV---SDPF---  250 (583)
Q Consensus       177 ~~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~---~~~~---  250 (583)
                      .+...+|||+..+++|..+|...     ...+++|+|+||||+||||||+.+|+  ++..+|++.+|+..   +...   
T Consensus       181 ~~~~~~vG~~~~l~~l~~lL~l~-----~~~~~vvgI~G~gGiGKTTLA~~l~~--~l~~~F~g~vfv~~~~v~~~~~~~  253 (1153)
T PLN03210        181 NDFEDFVGIEDHIAKMSSLLHLE-----SEEVRMVGIWGSSGIGKTTIARALFS--RLSRQFQSSVFIDRAFISKSMEIY  253 (1153)
T ss_pred             cccccccchHHHHHHHHHHHccc-----cCceEEEEEEcCCCCchHHHHHHHHH--HHhhcCCeEEEeeccccccchhhc
Confidence            45677999999999999988543     35689999999999999999999998  57788988888742   1110   


Q ss_pred             --------C-hHHHHHHHHHHhhcCcc-ccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccCCCCceE
Q 036323          251 --------D-EFNVAKATIEELEGSAI-DLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKI  320 (583)
Q Consensus       251 --------~-~~~~~~~il~~l~~~~~-~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~I  320 (583)
                              . ...+..+++..+..... ....    ...+++.+.++|+||||||||+.  .+|+.+.......++|++|
T Consensus       254 ~~~~~~~~~~~~~l~~~~l~~il~~~~~~~~~----~~~~~~~L~~krvLLVLDdv~~~--~~l~~L~~~~~~~~~GsrI  327 (1153)
T PLN03210        254 SSANPDDYNMKLHLQRAFLSEILDKKDIKIYH----LGAMEERLKHRKVLIFIDDLDDQ--DVLDALAGQTQWFGSGSRI  327 (1153)
T ss_pred             ccccccccchhHHHHHHHHHHHhCCCCcccCC----HHHHHHHHhCCeEEEEEeCCCCH--HHHHHHHhhCccCCCCcEE
Confidence                    0 12234444554433211 1111    14567778999999999999754  4788877665666789999


Q ss_pred             EEecCchHHHhhhcCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhhhhhhccCCCH
Q 036323          321 LITTRKETVARMMESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTK  400 (583)
Q Consensus       321 lvTtR~~~v~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~~~L~~~~~~  400 (583)
                      |||||+..++..++..++|+++.|+.++||+||+++||+...  .++.+.+++++|+++|+|+||||+++|++|+.+ +.
T Consensus       328 IiTTrd~~vl~~~~~~~~~~v~~l~~~ea~~LF~~~Af~~~~--~~~~~~~l~~~iv~~c~GLPLAl~vlgs~L~~k-~~  404 (1153)
T PLN03210        328 IVITKDKHFLRAHGIDHIYEVCLPSNELALEMFCRSAFKKNS--PPDGFMELASEVALRAGNLPLGLNVLGSYLRGR-DK  404 (1153)
T ss_pred             EEEeCcHHHHHhcCCCeEEEecCCCHHHHHHHHHHHhcCCCC--CcHHHHHHHHHHHHHhCCCcHHHHHHHHHHcCC-CH
Confidence            999999999987777789999999999999999999997543  345688999999999999999999999999876 68


Q ss_pred             HHHHHHHhhhccccccccCCCcchhhccccCChH-HhHHHHhhhccCCCCcccChHHHHHHHHHhccccccCCchHHHHH
Q 036323          401 EEWQSALDSEMWQLEEFEGGLSAPLFLSYNDLPF-EIKRCFSYCAIFPKSSYLKKDELVKLWMAQGYIVLKGNNEMKVIG  479 (583)
Q Consensus       401 ~~w~~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~-~~k~cf~~lsifp~~~~i~~~~Li~~W~aeg~i~~~~~~~~e~~~  479 (583)
                      .+|..++.+....   ....|..+|++||+.|++ ..|.||+++|+|+.+..++   .+..|++.+....          
T Consensus       405 ~~W~~~l~~L~~~---~~~~I~~~L~~SYd~L~~~~~k~~Fl~ia~ff~~~~~~---~v~~~l~~~~~~~----------  468 (1153)
T PLN03210        405 EDWMDMLPRLRNG---LDGKIEKTLRVSYDGLNNKKDKAIFRHIACLFNGEKVN---DIKLLLANSDLDV----------  468 (1153)
T ss_pred             HHHHHHHHHHHhC---ccHHHHHHHHHhhhccCccchhhhhheehhhcCCCCHH---HHHHHHHhcCCCc----------
Confidence            9999999886543   245789999999999987 5999999999999886543   4777888765432          


Q ss_pred             HHHHHHHhhcccccceecCCCCcEEEEEEchhHHHHHHHhhccce-------EEEeeCCCCCccccccCCCCCeeEEEEE
Q 036323          480 LEYFDCLASRSFYQQFVKDDDNMVIGCTMHDVVHDFAQSLTNNEC-------VALEVHGDEEPLSLINNSQDKLRHSISV  552 (583)
Q Consensus       480 ~~~l~~L~~rsll~~~~~~~~~~~~~~~mHdlv~~~a~~~~~~e~-------~~~~~~~~~~~~~~~~~~~~~~r~ls~~  552 (583)
                      +..++.|+++|||+...    +   .|.|||++|++|+.++.++.       +.....+-...+ .......+++++++.
T Consensus       469 ~~~l~~L~~ksLi~~~~----~---~~~MHdLl~~~~r~i~~~~~~~~~~r~~l~~~~di~~vl-~~~~g~~~v~~i~l~  540 (1153)
T PLN03210        469 NIGLKNLVDKSLIHVRE----D---IVEMHSLLQEMGKEIVRAQSNEPGEREFLVDAKDICDVL-EDNTGTKKVLGITLD  540 (1153)
T ss_pred             hhChHHHHhcCCEEEcC----C---eEEhhhHHHHHHHHHHHhhcCCCCcceeEeCHHHHHHHH-HhCcccceeeEEEec
Confidence            22389999999998532    1   58999999999999987653       111110000000 012345788999887


Q ss_pred             cccccCc---cccccCCCCceEEEecCC
Q 036323          553 LDKVASF---PVSIFNAKKLRSLLIRSP  577 (583)
Q Consensus       553 ~~~~~~~---~~~~~~~~~lrtl~~~~~  577 (583)
                      .+...++   +..+.+|++||.|.++.+
T Consensus       541 ~~~~~~~~i~~~aF~~m~~L~~L~~~~~  568 (1153)
T PLN03210        541 IDEIDELHIHENAFKGMRNLLFLKFYTK  568 (1153)
T ss_pred             cCccceeeecHHHHhcCccccEEEEecc
Confidence            6544322   234677888888877543

syringae 6; Provisional

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.64  E-value=1.3e-14  Score=168.98  Aligned_cols=295  Identities=14%  Similarity=0.164  Sum_probs=184.0

Q ss_pred             ccCCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCC-CCChHHH
Q 036323          177 IDVSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSD-PFDEFNV  255 (583)
Q Consensus       177 ~~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~  255 (583)
                      .....++-|+.-.+.|..          ....+++.|+|++|.||||++..+...      +..++|+++.. +.+...+
T Consensus        11 ~~~~~~~~R~rl~~~l~~----------~~~~~~~~v~apaG~GKTtl~~~~~~~------~~~~~w~~l~~~d~~~~~f   74 (903)
T PRK04841         11 VRLHNTVVRERLLAKLSG----------ANNYRLVLVTSPAGYGKTTLISQWAAG------KNNLGWYSLDESDNQPERF   74 (903)
T ss_pred             CCccccCcchHHHHHHhc----------ccCCCeEEEECCCCCCHHHHHHHHHHh------CCCeEEEecCcccCCHHHH
Confidence            344567777755554432          135789999999999999999998852      22589999964 4466667


Q ss_pred             HHHHHHHhhcCccc-------------cccHHHHHHHHHHHhc--CCceeEEEcCCCcccccchHh-hHHhhccCCCCce
Q 036323          256 AKATIEELEGSAID-------------LHELNSLLRRIGANIA--GQKFFMVLDNLWTDDYRKWEP-FRNCLMNGLRGSK  319 (583)
Q Consensus       256 ~~~il~~l~~~~~~-------------~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~~~~~~~-l~~~l~~~~~gs~  319 (583)
                      +..++..+......             ..+...+...+...+.  +.+++|||||++..+...... +...+.....+.+
T Consensus        75 ~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~  154 (903)
T PRK04841         75 ASYLIAALQQATNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLT  154 (903)
T ss_pred             HHHHHHHHHHhcCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeE
Confidence            77777777422111             0122333333433332  679999999997755444443 3333444566778


Q ss_pred             EEEecCchHHHh--hh-cCCCeEEcC----CCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhhhh
Q 036323          320 ILITTRKETVAR--MM-ESTDIVYVQ----GLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGS  392 (583)
Q Consensus       320 IlvTtR~~~v~~--~~-~~~~~~~l~----~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~~  392 (583)
                      +|||||......  .+ ......++.    +|+.+|+.+||.......   -    ..+....|.+.|+|+|+++..++.
T Consensus       155 lv~~sR~~~~~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~~~~---~----~~~~~~~l~~~t~Gwp~~l~l~~~  227 (903)
T PRK04841        155 LVVLSRNLPPLGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRLSSP---I----EAAESSRLCDDVEGWATALQLIAL  227 (903)
T ss_pred             EEEEeCCCCCCchHhHHhcCcceecCHHhCCCCHHHHHHHHHhccCCC---C----CHHHHHHHHHHhCChHHHHHHHHH
Confidence            889999742111  11 112345555    999999999998765321   1    144567899999999999999887


Q ss_pred             hhccCCC-HHHHHHHHhhhcccccc-ccCCCcchh-hccccCChHHhHHHHhhhccCCCCcccChHHHHHHHHHhccccc
Q 036323          393 LLQFKRT-KEEWQSALDSEMWQLEE-FEGGLSAPL-FLSYNDLPFEIKRCFSYCAIFPKSSYLKKDELVKLWMAQGYIVL  469 (583)
Q Consensus       393 ~L~~~~~-~~~w~~~l~~~~~~~~~-~~~~i~~~l-~~sy~~L~~~~k~cf~~lsifp~~~~i~~~~Li~~W~aeg~i~~  469 (583)
                      .+..... .....       +.+.. ....+...+ .-.++.||++.+..+..+|+++ .  ++.+.+-.+.   |    
T Consensus       228 ~~~~~~~~~~~~~-------~~~~~~~~~~~~~~l~~~v~~~l~~~~~~~l~~~a~~~-~--~~~~l~~~l~---~----  290 (903)
T PRK04841        228 SARQNNSSLHDSA-------RRLAGINASHLSDYLVEEVLDNVDLETRHFLLRCSVLR-S--MNDALIVRVT---G----  290 (903)
T ss_pred             HHhhCCCchhhhh-------HhhcCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcccc-c--CCHHHHHHHc---C----
Confidence            7754432 11111       11111 112234433 3347899999999999999997 3  4433222211   1    


Q ss_pred             cCCchHHHHHHHHHHHHhhcccccceecCCCCcEEEEEEchhHHHHHHHhh
Q 036323          470 KGNNEMKVIGLEYFDCLASRSFYQQFVKDDDNMVIGCTMHDVVHDFAQSLT  520 (583)
Q Consensus       470 ~~~~~~e~~~~~~l~~L~~rsll~~~~~~~~~~~~~~~mHdlv~~~a~~~~  520 (583)
                            .+.+...+++|.+.+++.....+ ++  ..|+.|++++++++...
T Consensus       291 ------~~~~~~~L~~l~~~~l~~~~~~~-~~--~~yr~H~L~r~~l~~~l  332 (903)
T PRK04841        291 ------EENGQMRLEELERQGLFIQRMDD-SG--EWFRYHPLFASFLRHRC  332 (903)
T ss_pred             ------CCcHHHHHHHHHHCCCeeEeecC-CC--CEEehhHHHHHHHHHHH
Confidence                  11246789999999997532221 11  25889999999998764

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.54  E-value=1.8e-12  Score=136.17  Aligned_cols=320  Identities=12%  Similarity=0.079  Sum_probs=186.4

Q ss_pred             ccccCCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHH
Q 036323          175 SLIDVSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFN  254 (583)
Q Consensus       175 ~~~~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~  254 (583)
                      +...+..|+||++++++|...|...-   .......+.|+|++|+|||++++.++++.......-..+++++....+...
T Consensus        25 ~~~~P~~l~~Re~e~~~l~~~l~~~~---~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~  101 (394)
T PRK00411         25 PDYVPENLPHREEQIEELAFALRPAL---RGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYA  101 (394)
T ss_pred             CCCcCCCCCCHHHHHHHHHHHHHHHh---CCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHH
Confidence            33456789999999999999985432   123445678999999999999999998543322223466777777777888


Q ss_pred             HHHHHHHHhhcCc-c-ccccHHHHHHHHHHHhc--CCceeEEEcCCCccc----ccchHhhHHhhccCCCC--ceEEEec
Q 036323          255 VAKATIEELEGSA-I-DLHELNSLLRRIGANIA--GQKFFMVLDNLWTDD----YRKWEPFRNCLMNGLRG--SKILITT  324 (583)
Q Consensus       255 ~~~~il~~l~~~~-~-~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~----~~~~~~l~~~l~~~~~g--s~IlvTt  324 (583)
                      ++..++.++.... + ...+..++...+.+.+.  +++.+||||+++.-.    .+.+..+...+.. ..+  ..+|.++
T Consensus       102 ~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~-~~~~~v~vI~i~  180 (394)
T PRK00411        102 IFSEIARQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHEE-YPGARIGVIGIS  180 (394)
T ss_pred             HHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhhc-cCCCeEEEEEEE
Confidence            8999999987522 1 22345666677777665  456899999996532    1122223222221 223  2355555


Q ss_pred             CchHHHhhhc-------CCCeEEcCCCChHHHHHHHHHHhccCC--CCCCCchHHHHHHHHhhhCCCCccchhhhhhhh-
Q 036323          325 RKETVARMME-------STDIVYVQGLSELECWSLFRRFALSGR--TPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLL-  394 (583)
Q Consensus       325 R~~~v~~~~~-------~~~~~~l~~L~~~ea~~Lf~~~a~~~~--~~~~~~~~~~~~~~I~~~c~GlPLai~~~~~~L-  394 (583)
                      ....+...+.       ....+.+.+++.++..+++...+....  ....+..++.+++......|..+.|+..+-... 
T Consensus       181 ~~~~~~~~l~~~~~s~~~~~~i~f~py~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~  260 (394)
T PRK00411        181 SDLTFLYILDPRVKSVFRPEEIYFPPYTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGL  260 (394)
T ss_pred             CCcchhhhcCHHHHhcCCcceeecCCCCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            5443322111       135688999999999999988763221  112222333333333333455777776654321 


Q ss_pred             -c--c-C--CCHHHHHHHHhhhccccccccCCCcchhhccccCChHHhHHHHhhhccC-CC-CcccChHHHHHHH--HHh
Q 036323          395 -Q--F-K--RTKEEWQSALDSEMWQLEEFEGGLSAPLFLSYNDLPFEIKRCFSYCAIF-PK-SSYLKKDELVKLW--MAQ  464 (583)
Q Consensus       395 -~--~-~--~~~~~w~~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~~~k~cf~~lsif-p~-~~~i~~~~Li~~W--~ae  464 (583)
                       .  . .  -+.+....+++...          .....-.+..||.+.|..+..++.. .. ...+....+....  +++
T Consensus       261 ~a~~~~~~~I~~~~v~~a~~~~~----------~~~~~~~~~~L~~~~k~~L~ai~~~~~~~~~~~~~~~i~~~y~~l~~  330 (394)
T PRK00411        261 IAEREGSRKVTEEDVRKAYEKSE----------IVHLSEVLRTLPLHEKLLLRAIVRLLKKGGDEVTTGEVYEEYKELCE  330 (394)
T ss_pred             HHHHcCCCCcCHHHHHHHHHHHH----------HHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHHHHH
Confidence             1  1 1  14566665555431          1223456789999988877665533 21 1235555554332  222


Q ss_pred             ccccccCCchHHHHHHHHHHHHhhcccccceec--CCCCcEEEEEEchh
Q 036323          465 GYIVLKGNNEMKVIGLEYFDCLASRSFYQQFVK--DDDNMVIGCTMHDV  511 (583)
Q Consensus       465 g~i~~~~~~~~e~~~~~~l~~L~~rsll~~~~~--~~~~~~~~~~mHdl  511 (583)
                      .+-.  ...+ ......|++.|...|+|.....  +..|+.+.++++.-
T Consensus       331 ~~~~--~~~~-~~~~~~~l~~L~~~glI~~~~~~~g~~g~~~~~~~~~~  376 (394)
T PRK00411        331 ELGY--EPRT-HTRFYEYINKLDMLGIINTRYSGKGGRGRTRLISLSYD  376 (394)
T ss_pred             HcCC--CcCc-HHHHHHHHHHHHhcCCeEEEEecCCCCCCeEEEEecCC
Confidence            1100  0011 1234569999999999986543  33466666666533

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=99.41  E-value=2.1e-11  Score=130.91  Aligned_cols=301  Identities=16%  Similarity=0.165  Sum_probs=195.2

Q ss_pred             cccCCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCC-CCChHH
Q 036323          176 LIDVSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSD-PFDEFN  254 (583)
Q Consensus       176 ~~~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~  254 (583)
                      +..+.+.+-|..-    .+.|...      ...+.+.|..++|.|||||+...+.   ....-..+.|.++.+ +.+...
T Consensus        15 P~~~~~~v~R~rL----~~~L~~~------~~~RL~li~APAGfGKttl~aq~~~---~~~~~~~v~Wlslde~dndp~r   81 (894)
T COG2909          15 PVRPDNYVVRPRL----LDRLRRA------NDYRLILISAPAGFGKTTLLAQWRE---LAADGAAVAWLSLDESDNDPAR   81 (894)
T ss_pred             CCCcccccccHHH----HHHHhcC------CCceEEEEeCCCCCcHHHHHHHHHH---hcCcccceeEeecCCccCCHHH
Confidence            3345566667644    4444322      4689999999999999999999875   122334689999865 556788


Q ss_pred             HHHHHHHHhhcCccc-------------cccHHHHHHHHHHHhc--CCceeEEEcCCCcccccchHh-hHHhhccCCCCc
Q 036323          255 VAKATIEELEGSAID-------------LHELNSLLRRIGANIA--GQKFFMVLDNLWTDDYRKWEP-FRNCLMNGLRGS  318 (583)
Q Consensus       255 ~~~~il~~l~~~~~~-------------~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~~~~~~~-l~~~l~~~~~gs  318 (583)
                      ++..++..+..-.+.             ..+...+...+...+.  .++.+|||||.+-........ +...+...+++-
T Consensus        82 F~~yLi~al~~~~p~~~~~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l  161 (894)
T COG2909          82 FLSYLIAALQQATPTLGDEAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKHAPENL  161 (894)
T ss_pred             HHHHHHHHHHHhCccccHHHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHhCCCCe
Confidence            888888888743221             2334455555555443  468999999986533333333 555556677889


Q ss_pred             eEEEecCchHHHhh---hcCCCeEEcC----CCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhhh
Q 036323          319 KILITTRKETVARM---MESTDIVYVQ----GLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIG  391 (583)
Q Consensus       319 ~IlvTtR~~~v~~~---~~~~~~~~l~----~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~  391 (583)
                      .+|+|||+..-...   --....++++    .|+.+|+.++|.......   -+    ..-.+.|.+..+|-+-|+..++
T Consensus       162 ~lvv~SR~rP~l~la~lRlr~~llEi~~~~Lrf~~eE~~~fl~~~~~l~---Ld----~~~~~~L~~~teGW~~al~L~a  234 (894)
T COG2909         162 TLVVTSRSRPQLGLARLRLRDELLEIGSEELRFDTEEAAAFLNDRGSLP---LD----AADLKALYDRTEGWAAALQLIA  234 (894)
T ss_pred             EEEEEeccCCCCcccceeehhhHHhcChHhhcCChHHHHHHHHHcCCCC---CC----hHHHHHHHhhcccHHHHHHHHH
Confidence            99999998643221   1112333433    588999999998865211   11    3446789999999999999999


Q ss_pred             hhhccCCCHHHHHHHHhhhccccccccCCCcc-hhhccccCChHHhHHHHhhhccCCCCcccChHHHHHHHHHhcccccc
Q 036323          392 SLLQFKRTKEEWQSALDSEMWQLEEFEGGLSA-PLFLSYNDLPFEIKRCFSYCAIFPKSSYLKKDELVKLWMAQGYIVLK  470 (583)
Q Consensus       392 ~~L~~~~~~~~w~~~l~~~~~~~~~~~~~i~~-~l~~sy~~L~~~~k~cf~~lsifp~~~~i~~~~Li~~W~aeg~i~~~  470 (583)
                      =.++.+.+.+.-...+...       .+.+.. ...--++.||+++|..++-||+++.=   . ..|+..-         
T Consensus       235 La~~~~~~~~q~~~~LsG~-------~~~l~dYL~eeVld~Lp~~l~~FLl~~svl~~f---~-~eL~~~L---------  294 (894)
T COG2909         235 LALRNNTSAEQSLRGLSGA-------ASHLSDYLVEEVLDRLPPELRDFLLQTSVLSRF---N-DELCNAL---------  294 (894)
T ss_pred             HHccCCCcHHHHhhhccch-------HHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHh---h-HHHHHHH---------
Confidence            8887444444333322211       111111 13345788999999999999999752   1 2333321         


Q ss_pred             CCchHHHHHHHHHHHHhhcccccceecCCCCcEEEEEEchhHHHHHHHhhcc
Q 036323          471 GNNEMKVIGLEYFDCLASRSFYQQFVKDDDNMVIGCTMHDVVHDFAQSLTNN  522 (583)
Q Consensus       471 ~~~~~e~~~~~~l~~L~~rsll~~~~~~~~~~~~~~~mHdlv~~~a~~~~~~  522 (583)
                         +-++-+...+++|.+++|+-..-.+. +  ..|+.|.++.||.+.--..
T Consensus       295 ---tg~~ng~amLe~L~~~gLFl~~Ldd~-~--~WfryH~LFaeFL~~r~~~  340 (894)
T COG2909         295 ---TGEENGQAMLEELERRGLFLQRLDDE-G--QWFRYHHLFAEFLRQRLQR  340 (894)
T ss_pred             ---hcCCcHHHHHHHHHhCCCceeeecCC-C--ceeehhHHHHHHHHhhhcc
Confidence               22344677899999999986433222 2  2799999999998775543

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.40  E-value=8.5e-11  Score=122.28  Aligned_cols=306  Identities=12%  Similarity=0.050  Sum_probs=174.5

Q ss_pred             cccCCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCcccc-ccC---ceEEEEEeCCCCC
Q 036323          176 LIDVSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVI-NNF---EIRVRVCVSDPFD  251 (583)
Q Consensus       176 ~~~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~-~~f---~~~~wv~~~~~~~  251 (583)
                      ...|..++||++++++|...|...-   .+.....+.|+|++|+|||++++.++++.... ...   -..+|+++....+
T Consensus        11 ~~~p~~l~gRe~e~~~l~~~l~~~~---~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~   87 (365)
T TIGR02928        11 DYVPDRIVHRDEQIEELAKALRPIL---RGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDT   87 (365)
T ss_pred             CCCCCCCCCcHHHHHHHHHHHHHHH---cCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCC
Confidence            3445689999999999999986422   12345578999999999999999998752211 111   2457788877777


Q ss_pred             hHHHHHHHHHHhhc---Ccc-ccccHHHHHHHHHHHhc--CCceeEEEcCCCccccc---chHhhHHhh-ccCC--CCce
Q 036323          252 EFNVAKATIEELEG---SAI-DLHELNSLLRRIGANIA--GQKFFMVLDNLWTDDYR---KWEPFRNCL-MNGL--RGSK  319 (583)
Q Consensus       252 ~~~~~~~il~~l~~---~~~-~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~~~---~~~~l~~~l-~~~~--~gs~  319 (583)
                      ...++..++.++..   ..+ ...+..+....+.+.+.  +++++||||+++.-...   ....+.... ....  ....
T Consensus        88 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~~~~~~~v~  167 (365)
T TIGR02928        88 LYQVLVELANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVGDDDDLLYQLSRARSNGDLDNAKVG  167 (365)
T ss_pred             HHHHHHHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhccCCcHHHHhHhccccccCCCCCeEE
Confidence            78899999998842   211 12234445555555553  56789999999654211   112222110 1111  2334


Q ss_pred             EEEecCchHHHhhh----c-C--CCeEEcCCCChHHHHHHHHHHhccC-CCCCCCchHHHHHHHHhhhCCCCccchhhhh
Q 036323          320 ILITTRKETVARMM----E-S--TDIVYVQGLSELECWSLFRRFALSG-RTPSECDQLEGIGRGIVRKCKGLPLAAKTIG  391 (583)
Q Consensus       320 IlvTtR~~~v~~~~----~-~--~~~~~l~~L~~~ea~~Lf~~~a~~~-~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~  391 (583)
                      +|.++........+    . .  ...+.+.|++.++..+++...+... ....-.++..+....++..+.|.|..+..+.
T Consensus       168 lI~i~n~~~~~~~l~~~~~s~~~~~~i~f~p~~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~al~~l  247 (365)
T TIGR02928       168 VIGISNDLKFRENLDPRVKSSLCEEEIIFPPYDAEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKAIDLL  247 (365)
T ss_pred             EEEEECCcchHhhcCHHHhccCCcceeeeCCCCHHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHHHHHHH
Confidence            45555433322111    1 1  2568899999999999999876311 1111222333444556777778885443222


Q ss_pred             -hhh----cc-C--CCHHHHHHHHhhhccccccccCCCcchhhccccCChHHhHHHHhhhccCC--CCcccChHHHHHHH
Q 036323          392 -SLL----QF-K--RTKEEWQSALDSEMWQLEEFEGGLSAPLFLSYNDLPFEIKRCFSYCAIFP--KSSYLKKDELVKLW  461 (583)
Q Consensus       392 -~~L----~~-~--~~~~~w~~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~~~k~cf~~lsifp--~~~~i~~~~Li~~W  461 (583)
                       ...    .. .  -+.+....+++...          .....-++..||.+.+..+..+...-  ++..+....+...+
T Consensus       248 ~~a~~~a~~~~~~~it~~~v~~a~~~~~----------~~~~~~~i~~l~~~~~~~l~ai~~~~~~~~~~~~~~~~~~~y  317 (365)
T TIGR02928       248 RVAGEIAEREGAERVTEDHVEKAQEKIE----------KDRLLELIRGLPTHSKLVLLAIANLAANDEDPFRTGEVYEVY  317 (365)
T ss_pred             HHHHHHHHHcCCCCCCHHHHHHHHHHHH----------HHHHHHHHHcCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHH
Confidence             111    11 1  24455554444321          12234466789998887666554221  33346666666533


Q ss_pred             HH-hccccccCCchHHHHHHHHHHHHhhccccccee
Q 036323          462 MA-QGYIVLKGNNEMKVIGLEYFDCLASRSFYQQFV  496 (583)
Q Consensus       462 ~a-eg~i~~~~~~~~e~~~~~~l~~L~~rsll~~~~  496 (583)
                      -. ...+...  .........+++.|...|++....
T Consensus       318 ~~~~~~~~~~--~~~~~~~~~~l~~l~~~gli~~~~  351 (365)
T TIGR02928       318 KEVCEDIGVD--PLTQRRISDLLNELDMLGLVEAEE  351 (365)
T ss_pred             HHHHHhcCCC--CCcHHHHHHHHHHHHhcCCeEEEE
Confidence            11 1111111  122355678899999999998754

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.

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

Probab=99.37  E-value=6.3e-11  Score=117.74  Aligned_cols=182  Identities=17%  Similarity=0.155  Sum_probs=115.0

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHH----H
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGA----N  283 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~----~  283 (583)
                      ..++.|+|++|+|||||++.+++..... .+ ..+|+ +....+..+++..+...++..... .+.......+.+    .
T Consensus        43 ~~~~~l~G~~G~GKTtl~~~l~~~l~~~-~~-~~~~~-~~~~~~~~~~l~~i~~~lG~~~~~-~~~~~~~~~l~~~l~~~  118 (269)
T TIGR03015        43 EGFILITGEVGAGKTTLIRNLLKRLDQE-RV-VAAKL-VNTRVDAEDLLRMVAADFGLETEG-RDKAALLRELEDFLIEQ  118 (269)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHhcCCC-Ce-EEeee-eCCCCCHHHHHHHHHHHcCCCCCC-CCHHHHHHHHHHHHHHH
Confidence            4588999999999999999999853321 11 22333 233456778888888887655332 222223333332    2


Q ss_pred             -hcCCceeEEEcCCCcccccchHhhHHhhcc---CCCCceEEEecCchHHHhhh--------c--CCCeEEcCCCChHHH
Q 036323          284 -IAGQKFFMVLDNLWTDDYRKWEPFRNCLMN---GLRGSKILITTRKETVARMM--------E--STDIVYVQGLSELEC  349 (583)
Q Consensus       284 -l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~---~~~gs~IlvTtR~~~v~~~~--------~--~~~~~~l~~L~~~ea  349 (583)
                       ..+++.+||+||+|..+...++.+......   ......|++|.... ....+        .  ....+++++|+.+|.
T Consensus       119 ~~~~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~~-~~~~l~~~~~~~l~~r~~~~~~l~~l~~~e~  197 (269)
T TIGR03015       119 FAAGKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPE-FRETLQSPQLQQLRQRIIASCHLGPLDREET  197 (269)
T ss_pred             HhCCCCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCHH-HHHHHcCchhHHHHhheeeeeeCCCCCHHHH
Confidence             267889999999987665566665533221   12223455665432 21111        1  134678999999999


Q ss_pred             HHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhhhhhh
Q 036323          350 WSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLL  394 (583)
Q Consensus       350 ~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~~~L  394 (583)
                      .+++...+..........-..+..+.|++.|+|+|..|..++..+
T Consensus       198 ~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~  242 (269)
T TIGR03015       198 REYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRL  242 (269)
T ss_pred             HHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHH
Confidence            999987764322111122335778899999999999999988776

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=99.36  E-value=3.9e-11  Score=121.48  Aligned_cols=268  Identities=15%  Similarity=0.105  Sum_probs=144.5

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKAT  259 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  259 (583)
                      .+|+|++..+++|..++....  ........+.|+|++|+|||+||+.+++...  ..+   ..+..+.... ...+...
T Consensus         4 ~~~iG~~~~~~~l~~~l~~~~--~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~~--~~~---~~~~~~~~~~-~~~l~~~   75 (305)
T TIGR00635         4 AEFIGQEKVKEQLQLFIEAAK--MRQEALDHLLLYGPPGLGKTTLAHIIANEMG--VNL---KITSGPALEK-PGDLAAI   75 (305)
T ss_pred             HHHcCHHHHHHHHHHHHHHHH--hcCCCCCeEEEECCCCCCHHHHHHHHHHHhC--CCE---EEeccchhcC-chhHHHH
Confidence            469999999999999886432  0123355688999999999999999988432  122   1111111111 1112222


Q ss_pred             HHHhhcCcc----cccc-HHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCchHHHhhhc
Q 036323          260 IEELEGSAI----DLHE-LNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKETVARMME  334 (583)
Q Consensus       260 l~~l~~~~~----~~~~-~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~~v~~~~~  334 (583)
                      +..+.....    +... .......+...+.+.+..+|+++..+.  ..+..      ...+.+-|..||+...+...+.
T Consensus        76 l~~~~~~~vl~iDEi~~l~~~~~e~l~~~~~~~~~~~v~~~~~~~--~~~~~------~~~~~~li~~t~~~~~l~~~l~  147 (305)
T TIGR00635        76 LTNLEEGDVLFIDEIHRLSPAVEELLYPAMEDFRLDIVIGKGPSA--RSVRL------DLPPFTLVGATTRAGMLTSPLR  147 (305)
T ss_pred             HHhcccCCEEEEehHhhhCHHHHHHhhHHHhhhheeeeeccCccc--cceee------cCCCeEEEEecCCccccCHHHH
Confidence            222221110    0000 011122233334444444455443211  11110      1123455666777654433221


Q ss_pred             --CCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhhhhhhc------cCC--CHHHHH
Q 036323          335 --STDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQ------FKR--TKEEWQ  404 (583)
Q Consensus       335 --~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~~~L~------~~~--~~~~w~  404 (583)
                        ....+.+++++.++..+++.+.+......    -..+....|++.|+|.|-.+..++..+.      ...  +.+...
T Consensus       148 sR~~~~~~l~~l~~~e~~~il~~~~~~~~~~----~~~~al~~ia~~~~G~pR~~~~ll~~~~~~a~~~~~~~it~~~v~  223 (305)
T TIGR00635       148 DRFGIILRLEFYTVEELAEIVSRSAGLLNVE----IEPEAALEIARRSRGTPRIANRLLRRVRDFAQVRGQKIINRDIAL  223 (305)
T ss_pred             hhcceEEEeCCCCHHHHHHHHHHHHHHhCCC----cCHHHHHHHHHHhCCCcchHHHHHHHHHHHHHHcCCCCcCHHHHH
Confidence              13567899999999999999887533221    1255678899999999976655544321      000  111111


Q ss_pred             HHHhhhccccccccCCCcchhhccccCChHHhHHHHh-hhccCCCCcccChHHHHHHHHHhccccccCCchHHHHHHHHH
Q 036323          405 SALDSEMWQLEEFEGGLSAPLFLSYNDLPFEIKRCFS-YCAIFPKSSYLKKDELVKLWMAQGYIVLKGNNEMKVIGLEYF  483 (583)
Q Consensus       405 ~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~~~k~cf~-~lsifp~~~~i~~~~Li~~W~aeg~i~~~~~~~~e~~~~~~l  483 (583)
                      ..               ...+...|..|+++.+..+. .+..++.+ .+..+.+....   |        .....++..+
T Consensus       224 ~~---------------l~~l~~~~~~l~~~~~~~L~al~~~~~~~-~~~~~~ia~~l---g--------~~~~~~~~~~  276 (305)
T TIGR00635       224 KA---------------LEMLMIDELGLDEIDRKLLSVLIEQFQGG-PVGLKTLAAAL---G--------EDADTIEDVY  276 (305)
T ss_pred             HH---------------HHHhCCCCCCCCHHHHHHHHHHHHHhCCC-cccHHHHHHHh---C--------CCcchHHHhh
Confidence            11               11256678899998887776 55777654 34544444332   1        1223456667


Q ss_pred             H-HHhhcccccc
Q 036323          484 D-CLASRSFYQQ  494 (583)
Q Consensus       484 ~-~L~~rsll~~  494 (583)
                      + .|++++||..
T Consensus       277 e~~Li~~~li~~  288 (305)
T TIGR00635       277 EPYLLQIGFLQR  288 (305)
T ss_pred             hHHHHHcCCccc
Confidence            7 6999999963

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.

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.33  E-value=2.6e-11  Score=123.77  Aligned_cols=279  Identities=15%  Similarity=0.112  Sum_probs=145.7

Q ss_pred             cCCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHH
Q 036323          178 DVSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAK  257 (583)
Q Consensus       178 ~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  257 (583)
                      .-.+|+|+++.++.+..++....  ........+.|+|++|+|||+||+.+++...  ..+   .++..+ .......+.
T Consensus        23 ~~~~~vG~~~~~~~l~~~l~~~~--~~~~~~~~~ll~GppG~GKT~la~~ia~~l~--~~~---~~~~~~-~~~~~~~l~   94 (328)
T PRK00080         23 SLDEFIGQEKVKENLKIFIEAAK--KRGEALDHVLLYGPPGLGKTTLANIIANEMG--VNI---RITSGP-ALEKPGDLA   94 (328)
T ss_pred             CHHHhcCcHHHHHHHHHHHHHHH--hcCCCCCcEEEECCCCccHHHHHHHHHHHhC--CCe---EEEecc-cccChHHHH
Confidence            34679999999999988885421  0123456788999999999999999998532  111   111111 111111222


Q ss_pred             HHHHHhhcCcc-ccccH----HHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCchHHHhh
Q 036323          258 ATIEELEGSAI-DLHEL----NSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKETVARM  332 (583)
Q Consensus       258 ~il~~l~~~~~-~~~~~----~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~~v~~~  332 (583)
                      .++..+..... -..+.    ....+.+...+.+.+..+|+|+..+..  .+.   .   ...+.+-|..|++...+...
T Consensus        95 ~~l~~l~~~~vl~IDEi~~l~~~~~e~l~~~~e~~~~~~~l~~~~~~~--~~~---~---~l~~~~li~at~~~~~l~~~  166 (328)
T PRK00080         95 AILTNLEEGDVLFIDEIHRLSPVVEEILYPAMEDFRLDIMIGKGPAAR--SIR---L---DLPPFTLIGATTRAGLLTSP  166 (328)
T ss_pred             HHHHhcccCCEEEEecHhhcchHHHHHHHHHHHhcceeeeeccCcccc--cee---e---cCCCceEEeecCCcccCCHH
Confidence            22222211100 00000    001111222223333333333321110  000   0   01123456667775443332


Q ss_pred             hcC--CCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhhhhhhccCCCHHHHHHHHhhh
Q 036323          333 MES--TDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEEWQSALDSE  410 (583)
Q Consensus       333 ~~~--~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~~~L~~~~~~~~w~~~l~~~  410 (583)
                      +..  ...+++++++.++..+++.+.+......-    ..+....|++.|+|.|-.+..+...+      ..|.......
T Consensus       167 L~sRf~~~~~l~~~~~~e~~~il~~~~~~~~~~~----~~~~~~~ia~~~~G~pR~a~~~l~~~------~~~a~~~~~~  236 (328)
T PRK00080        167 LRDRFGIVQRLEFYTVEELEKIVKRSARILGVEI----DEEGALEIARRSRGTPRIANRLLRRV------RDFAQVKGDG  236 (328)
T ss_pred             HHHhcCeeeecCCCCHHHHHHHHHHHHHHcCCCc----CHHHHHHHHHHcCCCchHHHHHHHHH------HHHHHHcCCC
Confidence            211  35689999999999999998875433222    24567889999999996555444332      1222111100


Q ss_pred             ccccccccCCCcchhhccccCChHHhHHHHh-hhccCCCCcccChHHHHHHHHHhccccccCCchHHHHHHHHHH-HHhh
Q 036323          411 MWQLEEFEGGLSAPLFLSYNDLPFEIKRCFS-YCAIFPKSSYLKKDELVKLWMAQGYIVLKGNNEMKVIGLEYFD-CLAS  488 (583)
Q Consensus       411 ~~~~~~~~~~i~~~l~~sy~~L~~~~k~cf~-~lsifp~~~~i~~~~Li~~W~aeg~i~~~~~~~~e~~~~~~l~-~L~~  488 (583)
                      .-. ...-......+...+..|++..+..+. .+..|+.+ .+..+.+....   |        ...+.+++.++ .|++
T Consensus       237 ~I~-~~~v~~~l~~~~~~~~~l~~~~~~~l~~~~~~~~~~-~~~~~~~a~~l---g--------~~~~~~~~~~e~~Li~  303 (328)
T PRK00080        237 VIT-KEIADKALDMLGVDELGLDEMDRKYLRTIIEKFGGG-PVGLDTLAAAL---G--------EERDTIEDVYEPYLIQ  303 (328)
T ss_pred             CCC-HHHHHHHHHHhCCCcCCCCHHHHHHHHHHHHHcCCC-ceeHHHHHHHH---C--------CCcchHHHHhhHHHHH
Confidence            000 000111223456778889988888775 77788776 46666654432   1        11223444556 8999


Q ss_pred             cccccce
Q 036323          489 RSFYQQF  495 (583)
Q Consensus       489 rsll~~~  495 (583)
                      .+|++..
T Consensus       304 ~~li~~~  310 (328)
T PRK00080        304 QGFIQRT  310 (328)
T ss_pred             cCCcccC
Confidence            9999743

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

Probab=99.32  E-value=4.9e-12  Score=122.64  Aligned_cols=195  Identities=19%  Similarity=0.167  Sum_probs=99.4

Q ss_pred             eeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHH--
Q 036323          182 VRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKAT--  259 (583)
Q Consensus       182 ~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i--  259 (583)
                      |+||++|+++|.+++...       ..+.+.|+|+.|+|||+|++.+.+.... ..+ ..+|+........ .....+  
T Consensus         1 F~gR~~el~~l~~~l~~~-------~~~~~~l~G~rg~GKTsLl~~~~~~~~~-~~~-~~~y~~~~~~~~~-~~~~~~~~   70 (234)
T PF01637_consen    1 FFGREKELEKLKELLESG-------PSQHILLYGPRGSGKTSLLKEFINELKE-KGY-KVVYIDFLEESNE-SSLRSFIE   70 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH---------SSEEEEEESTTSSHHHHHHHHHHHCT---EE-CCCHHCCTTBSHH-HHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhh-------cCcEEEEEcCCcCCHHHHHHHHHHHhhh-cCC-cEEEEecccchhh-hHHHHHHH
Confidence            799999999999998643       2568899999999999999999884311 111 3334443333222 222222  


Q ss_pred             --------HHHhhcCcc----------ccccHHHHHHHHHHHhc--CCceeEEEcCCCccc------ccchHhhHHhhcc
Q 036323          260 --------IEELEGSAI----------DLHELNSLLRRIGANIA--GQKFFMVLDNLWTDD------YRKWEPFRNCLMN  313 (583)
Q Consensus       260 --------l~~l~~~~~----------~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~------~~~~~~l~~~l~~  313 (583)
                              ...+....+          ...........+.+.+.  +++++||+||+....      ..-...+...+..
T Consensus        71 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~  150 (234)
T PF01637_consen   71 ETSLADELSEALGISIPSITLEKISKDLSEDSFSALERLLEKLKKKGKKVIIVIDEFQYLAIASEEDKDFLKSLRSLLDS  150 (234)
T ss_dssp             HHHHHCHCHHHHHHHCCTSTTEEEECTS-GG-G--HHHHHHHHHHCHCCEEEEEETGGGGGBCTTTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhcccccchhhhhcchhhHHHHHHHHHHHHHhcCCcEEEEEecHHHHhhcccchHHHHHHHHHHHhh
Confidence                    111211100          01111222223333332  345999999995543      1112223333333


Q ss_pred             --CCCCceEEEecCchHHHhh--------hcCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCC
Q 036323          314 --GLRGSKILITTRKETVARM--------MESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGL  383 (583)
Q Consensus       314 --~~~gs~IlvTtR~~~v~~~--------~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~Gl  383 (583)
                        ......+|+++.+......        .+....+.+++|+.+++++++....-..  ..- +.-.+..++|+..+||+
T Consensus       151 ~~~~~~~~~v~~~S~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~e~~~~~~~~~~~~--~~~-~~~~~~~~~i~~~~gG~  227 (234)
T PF01637_consen  151 LLSQQNVSIVITGSSDSLMEEFLDDKSPLFGRFSHIELKPLSKEEAREFLKELFKEL--IKL-PFSDEDIEEIYSLTGGN  227 (234)
T ss_dssp             ----TTEEEEEEESSHHHHHHTT-TTSTTTT---EEEE----HHHHHHHHHHHHHCC---------HHHHHHHHHHHTT-
T ss_pred             ccccCCceEEEECCchHHHHHhhcccCccccccceEEEeeCCHHHHHHHHHHHHHHh--hcc-cCCHHHHHHHHHHhCCC
Confidence              2233334444443433322        2234569999999999999999975322  111 12255568899999999


Q ss_pred             ccchhh
Q 036323          384 PLAAKT  389 (583)
Q Consensus       384 PLai~~  389 (583)
                      |..|..
T Consensus       228 P~~l~~  233 (234)
T PF01637_consen  228 PRYLQE  233 (234)
T ss_dssp             HHHHHH
T ss_pred             HHHHhc
Confidence            998764

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

>COG3899 Predicted ATPase [General function prediction only]

Probab=99.24  E-value=1.5e-10  Score=130.86  Aligned_cols=314  Identities=14%  Similarity=0.097  Sum_probs=183.3

Q ss_pred             ceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEE---EEEeCCCCCh---HH
Q 036323          181 EVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRV---RVCVSDPFDE---FN  254 (583)
Q Consensus       181 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~---wv~~~~~~~~---~~  254 (583)
                      .++||+.|++.|...+....    .+...++.|.|.+|||||+|+++|...  +.+.+...+   +-......+.   ..
T Consensus         1 ~l~GRe~ev~~Ll~~f~~v~----~g~~~~~lv~G~sGIGKsalv~ev~~~--i~~~~~~~i~~~f~q~~~~ipl~~lvq   74 (849)
T COG3899           1 PLYGRETELAQLLAAFDRVS----KGRGEVVLVAGESGIGKSALVNEVHKP--ITQQRGYFIKGKFDQFERNIPLSPLVQ   74 (849)
T ss_pred             CCCchHhHHHHHHHHHHHHh----CCCeEEEEEeecCCCcHHHHHHHHHHH--HhccceeeeHhhcccccCCCchHHHHH
Confidence            37899999999999997654    355679999999999999999999874  222211111   1111222211   12


Q ss_pred             HHHHHHHHh-------------------hcCcc-----------------c-----cccHH-----HHHHHHHHHh-cCC
Q 036323          255 VAKATIEEL-------------------EGSAI-----------------D-----LHELN-----SLLRRIGANI-AGQ  287 (583)
Q Consensus       255 ~~~~il~~l-------------------~~~~~-----------------~-----~~~~~-----~~~~~l~~~l-~~k  287 (583)
                      .+++++.++                   +....                 .     .....     .....+.... +.+
T Consensus        75 ~~r~l~~~ll~~~~~~~~~~~~~il~~~g~~~~~~~~vip~L~~i~g~~~~~~el~~~~~~~r~n~~~~~~i~~~~~~~~  154 (849)
T COG3899          75 AFRDLMGQLLSESDTRILSWRARLLAALGENGQVIIDVIPELELIIGKRPPALELSPTAAQNRFNLAFLRFIQVFTAEEH  154 (849)
T ss_pred             HHHHHHHHHhhccchHHHHHHHHHHHHhcccchhHHhhhHHHHhhcCCCcchhhcccchhHHHHHHHHHHHHHHHHhccC
Confidence            233333332                   11100                 0     00000     1222222333 356


Q ss_pred             ceeEEEcCCCcccccchHhhHHhhccCCC------CceEEEecCch--HHHhhhcCCCeEEcCCCChHHHHHHHHHHhcc
Q 036323          288 KFFMVLDNLWTDDYRKWEPFRNCLMNGLR------GSKILITTRKE--TVARMMESTDIVYVQGLSELECWSLFRRFALS  359 (583)
Q Consensus       288 ~~LlVlDdv~~~~~~~~~~l~~~l~~~~~------gs~IlvTtR~~--~v~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~  359 (583)
                      +.++|+||+++.|....+.+.........      ..-.+.|.+..  ...........+.|.||+..+...+.......
T Consensus       155 plVi~leDlhWaD~~SL~lL~~lm~~~~~~~~~~n~v~~~h~~~~~~~~~~~~~~~i~~I~L~PL~~~d~~~lV~~~l~~  234 (849)
T COG3899         155 PLVIVLEDLHWADSASLKLLQLLMDRIAIGAYRDNEVLLLHPLRPTLGEILKSATNITTITLAPLSRADTNQLVAATLGC  234 (849)
T ss_pred             CeEEEEecccccChhHHHHHHHHHHhcchhhhhccccccCCCccchhhHHhhcCCceeEEecCcCchhhHHHHHHHHhCC
Confidence            99999999988777666655444333211      11223333332  22222334678999999999999999988743


Q ss_pred             CCCCCCCchHHHHHHHHhhhCCCCccchhhhhhhhccCC------CHHHHHHHHhhhccccccccCCCcchhhccccCCh
Q 036323          360 GRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKR------TKEEWQSALDSEMWQLEEFEGGLSAPLFLSYNDLP  433 (583)
Q Consensus       360 ~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~~~L~~~~------~~~~w~~~l~~~~~~~~~~~~~i~~~l~~sy~~L~  433 (583)
                      ...     ...+....|+++..|+|+.+..+-..+....      +...|..-..+..  .....+.+...+..-.+.||
T Consensus       235 ~~~-----~~~p~~~~i~~kt~GnPfFi~e~lk~l~~~~~i~f~~~~~~w~~~~~~i~--~~~~~~~vv~~l~~rl~kL~  307 (849)
T COG3899         235 TKL-----LPAPLLELIFEKTKGNPFFIEEFLKALYEEGLLVFNFDTGAWQCSIASLG--ILATTDAVVEFLAARLQKLP  307 (849)
T ss_pred             ccc-----ccchHHHHHHHHhcCCCccHHHHHHHHHhCCeeEecCCCcceeccHHhcC--CchhhHHHHHHHHHHHhcCC
Confidence            221     2245677899999999999999998887652      3334433222111  11111224445788899999


Q ss_pred             HHhHHHHhhhccCCCCcccChHHHHHHHHHhccccccCCchHHHHHHHHHHHHhhcccccceecCCC---CcEE-EEEEc
Q 036323          434 FEIKRCFSYCAIFPKSSYLKKDELVKLWMAQGYIVLKGNNEMKVIGLEYFDCLASRSFYQQFVKDDD---NMVI-GCTMH  509 (583)
Q Consensus       434 ~~~k~cf~~lsifp~~~~i~~~~Li~~W~aeg~i~~~~~~~~e~~~~~~l~~L~~rsll~~~~~~~~---~~~~-~~~mH  509 (583)
                      ...|..+...|++...|  +.+.|...|-          ......+...++.|....++-..+....   .... +-..|
T Consensus       308 ~~t~~Vl~~AA~iG~~F--~l~~La~l~~----------~~~~~~a~~l~~al~e~lI~~~~~~yr~~~~~~~~~Y~F~H  375 (849)
T COG3899         308 GTTREVLKAAACIGNRF--DLDTLAALAE----------DSPALEAAALLDALQEGLILPLSETYRFGSNVDIATYKFLH  375 (849)
T ss_pred             HHHHHHHHHHHHhCccC--CHHHHHHHHh----------hchHHHHHHHHHHhHhhceeccccccccccccchhhHHhhH
Confidence            99999999999998764  5666766652          1344556665666655555432211111   1111 11578


Q ss_pred             hhHHHHHHHh
Q 036323          510 DVVHDFAQSL  519 (583)
Q Consensus       510 dlv~~~a~~~  519 (583)
                      ++|++.|-..
T Consensus       376 ~~vqqaaY~~  385 (849)
T COG3899         376 DRVQQAAYNL  385 (849)
T ss_pred             HHHHHHHhcc
Confidence            8888887543

>PF05729 NACHT: NACHT domain

Probab=99.12  E-value=5.3e-10  Score=102.20  Aligned_cols=144  Identities=19%  Similarity=0.259  Sum_probs=88.2

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCcccccc----CceEEEEEeCCCCChH---HHHHHHHHHhhcCccccccHHHHHHHHH
Q 036323          209 QIISMVGMGGIGKTTLAQLAYNDNDVINN----FEIRVRVCVSDPFDEF---NVAKATIEELEGSAIDLHELNSLLRRIG  281 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~----f~~~~wv~~~~~~~~~---~~~~~il~~l~~~~~~~~~~~~~~~~l~  281 (583)
                      |++.|+|.+|+||||+++.++.+......    +...+|++........   .+...+........   .........+.
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~---~~~~~~~~~~~   77 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESI---APIEELLQELL   77 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccch---hhhHHHHHHHH
Confidence            57899999999999999998875332222    4566677765543322   23333333332221   11111111111


Q ss_pred             HHhcCCceeEEEcCCCccccc-------chHhhH-Hhhcc-CCCCceEEEecCchHH---HhhhcCCCeEEcCCCChHHH
Q 036323          282 ANIAGQKFFMVLDNLWTDDYR-------KWEPFR-NCLMN-GLRGSKILITTRKETV---ARMMESTDIVYVQGLSELEC  349 (583)
Q Consensus       282 ~~l~~k~~LlVlDdv~~~~~~-------~~~~l~-~~l~~-~~~gs~IlvTtR~~~v---~~~~~~~~~~~l~~L~~~ea  349 (583)
                        ...++++||||++++....       .+..+. ..+.. ..++++++||+|....   .........+++.+|++++.
T Consensus        78 --~~~~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~~~~~  155 (166)
T PF05729_consen   78 --EKNKRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFSEEDI  155 (166)
T ss_pred             --HcCCceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCCHHHH
Confidence              2578999999999653221       122323 23333 3678999999998665   33344456899999999999


Q ss_pred             HHHHHHHh
Q 036323          350 WSLFRRFA  357 (583)
Q Consensus       350 ~~Lf~~~a  357 (583)
                      .+++.++.
T Consensus       156 ~~~~~~~f  163 (166)
T PF05729_consen  156 KQYLRKYF  163 (166)
T ss_pred             HHHHHHHh
Confidence            99998764

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=99.02  E-value=3.6e-08  Score=107.26  Aligned_cols=307  Identities=11%  Similarity=0.046  Sum_probs=164.7

Q ss_pred             ccCCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccc---cccC--ceEEEEEeCCCCC
Q 036323          177 IDVSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDV---INNF--EIRVRVCVSDPFD  251 (583)
Q Consensus       177 ~~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~---~~~f--~~~~wv~~~~~~~  251 (583)
                      ..|..+.|||+|+++|...|...-.  +.....++.|+|++|+|||++++.|.+....   ....  -.+++|++.....
T Consensus       752 YVPD~LPhREeEIeeLasfL~paIk--gsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lst  829 (1164)
T PTZ00112        752 VVPKYLPCREKEIKEVHGFLESGIK--QSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVH  829 (1164)
T ss_pred             cCCCcCCChHHHHHHHHHHHHHHHh--cCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCC
Confidence            3456899999999999998865320  1223467789999999999999999864311   1111  2356777777677


Q ss_pred             hHHHHHHHHHHhhcCcc-ccccHHHHHHHHHHHhc---CCceeEEEcCCCcccccchHhhHHhhcc-CCCCceEEE--ec
Q 036323          252 EFNVAKATIEELEGSAI-DLHELNSLLRRIGANIA---GQKFFMVLDNLWTDDYRKWEPFRNCLMN-GLRGSKILI--TT  324 (583)
Q Consensus       252 ~~~~~~~il~~l~~~~~-~~~~~~~~~~~l~~~l~---~k~~LlVlDdv~~~~~~~~~~l~~~l~~-~~~gs~Ilv--Tt  324 (583)
                      ...++..|..++....+ ...........+...+.   ....+||||+++.-....-+.|...+.. ...+++|++  +|
T Consensus       830 p~sIYqvI~qqL~g~~P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK~QDVLYnLFR~~~~s~SKLiLIGIS  909 (1164)
T PTZ00112        830 PNAAYQVLYKQLFNKKPPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITKTQKVLFTLFDWPTKINSKLVLIAIS  909 (1164)
T ss_pred             HHHHHHHHHHHHcCCCCCccccHHHHHHHHHhhhhcccccceEEEeehHhhhCccHHHHHHHHHHHhhccCCeEEEEEec
Confidence            88888888888854432 22223344445554442   2245899999954221111223333321 223455444  33


Q ss_pred             CchHHH----hhhcC---CCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhhhhhhccC
Q 036323          325 RKETVA----RMMES---TDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQFK  397 (583)
Q Consensus       325 R~~~v~----~~~~~---~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~~~L~~~  397 (583)
                      .+....    ..+.+   ...+...|.+.++-.+++...+......-.+..++-+++.++...|-.=.||.++-.+....
T Consensus       910 NdlDLperLdPRLRSRLg~eeIvF~PYTaEQL~dILk~RAe~A~gVLdDdAIELIArkVAq~SGDARKALDILRrAgEik  989 (1164)
T PTZ00112        910 NTMDLPERLIPRCRSRLAFGRLVFSPYKGDEIEKIIKERLENCKEIIDHTAIQLCARKVANVSGDIRKALQICRKAFENK  989 (1164)
T ss_pred             CchhcchhhhhhhhhccccccccCCCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhhcCCHHHHHHHHHHHHHhhc
Confidence            322111    11111   23467799999999999998875321112223333444444444444555555554333221


Q ss_pred             C----CHHHHHHHHhhhccccccccCCCcchhhccccCChHHhHHHHhhhccC-C--CCcccChHHHHHHH--HHhcccc
Q 036323          398 R----TKEEWQSALDSEMWQLEEFEGGLSAPLFLSYNDLPFEIKRCFSYCAIF-P--KSSYLKKDELVKLW--MAQGYIV  468 (583)
Q Consensus       398 ~----~~~~w~~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~~~k~cf~~lsif-p--~~~~i~~~~Li~~W--~aeg~i~  468 (583)
                      .    +.++...+.....          ...+.-....||.+.|-.+..+... -  ....++...+....  +++..-.
T Consensus       990 egskVT~eHVrkAleeiE----------~srI~e~IktLPlHqKLVLlALIlLlk~tg~~~i~TGEVYerYk~Lce~~Gk 1059 (1164)
T PTZ00112        990 RGQKIVPRDITEATNQLF----------DSPLTNAINYLPWPFKMFLTCLIVELRMLNDFIIPYKKVLNRYKVLVETSGK 1059 (1164)
T ss_pred             CCCccCHHHHHHHHHHHH----------hhhHHHHHHcCCHHHHHHHHHHHHHHhhcCCCceeHHHHHHHHHHHHHhhhh
Confidence            1    2233333332210          1123344567898877766544322 1  12245555554443  2220000


Q ss_pred             ccCCchHHHHHHHHHHHHhhcccccce
Q 036323          469 LKGNNEMKVIGLEYFDCLASRSFYQQF  495 (583)
Q Consensus       469 ~~~~~~~e~~~~~~l~~L~~rsll~~~  495 (583)
                      .-+....-.....|+.+|...|+|...
T Consensus      1060 ~iGv~plTqRV~d~L~eL~~LGIIl~e 1086 (1164)
T PTZ00112       1060 YIGMCSNNELFKIMLDKLVKMGILLIR 1086 (1164)
T ss_pred             hcCCCCcHHHHHHHHHHHHhcCeEEec
Confidence            001111112667889999999998653

>PRK06893 DNA replication initiation factor; Validated

Probab=98.94  E-value=1.2e-08  Score=98.46  Aligned_cols=156  Identities=15%  Similarity=0.142  Sum_probs=95.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQ  287 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  287 (583)
                      .+.+.|+|++|+|||+|++.+++.  .......+.|+++...   ....                 .    .+.+.+. +
T Consensus        39 ~~~l~l~G~~G~GKThL~~ai~~~--~~~~~~~~~y~~~~~~---~~~~-----------------~----~~~~~~~-~   91 (229)
T PRK06893         39 QPFFYIWGGKSSGKSHLLKAVSNH--YLLNQRTAIYIPLSKS---QYFS-----------------P----AVLENLE-Q   91 (229)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH--HHHcCCCeEEeeHHHh---hhhh-----------------H----HHHhhcc-c
Confidence            357899999999999999999985  2222334456665311   0000                 0    1111122 3


Q ss_pred             ceeEEEcCCCccc-ccchHh-hHHhhccC-CCCceE-EEecCc---------hHHHhhhcCCCeEEcCCCChHHHHHHHH
Q 036323          288 KFFMVLDNLWTDD-YRKWEP-FRNCLMNG-LRGSKI-LITTRK---------ETVARMMESTDIVYVQGLSELECWSLFR  354 (583)
Q Consensus       288 ~~LlVlDdv~~~~-~~~~~~-l~~~l~~~-~~gs~I-lvTtR~---------~~v~~~~~~~~~~~l~~L~~~ea~~Lf~  354 (583)
                      .-+|||||+|... ...|+. +...+... ..|..+ |+|+..         +.+...+.....+++++++.++.+++++
T Consensus        92 ~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~~l~~~~~~L~sRl~~g~~~~l~~pd~e~~~~iL~  171 (229)
T PRK06893         92 QDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPHALSIKLPDLASRLTWGEIYQLNDLTDEQKIIVLQ  171 (229)
T ss_pred             CCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChHHccccchhHHHHHhcCCeeeCCCCCHHHHHHHHH
Confidence            3599999998632 234553 44434322 235555 455544         3455555556789999999999999999


Q ss_pred             HHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhhhhhh
Q 036323          355 RFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLL  394 (583)
Q Consensus       355 ~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~~~L  394 (583)
                      +.+......-    -+++..-|++.+.|..-.+..+-..|
T Consensus       172 ~~a~~~~l~l----~~~v~~~L~~~~~~d~r~l~~~l~~l  207 (229)
T PRK06893        172 RNAYQRGIEL----SDEVANFLLKRLDRDMHTLFDALDLL  207 (229)
T ss_pred             HHHHHcCCCC----CHHHHHHHHHhccCCHHHHHHHHHHH
Confidence            9886443222    25677889999988776665554433

>PRK13342 recombination factor protein RarA; Reviewed

Probab=98.86  E-value=2.3e-08  Score=105.28  Aligned_cols=179  Identities=17%  Similarity=0.213  Sum_probs=106.6

Q ss_pred             CCceeechhHHHH---HHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHH
Q 036323          179 VSEVRGRDEEMRS---IKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNV  255 (583)
Q Consensus       179 ~~~~vGR~~e~~~---l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~  255 (583)
                      -.+|+|++..+..   |..++...       ....+.|+|++|+||||||+.+++.  ....|     +.++........
T Consensus        11 l~d~vGq~~~v~~~~~L~~~i~~~-------~~~~ilL~GppGtGKTtLA~~ia~~--~~~~~-----~~l~a~~~~~~~   76 (413)
T PRK13342         11 LDEVVGQEHLLGPGKPLRRMIEAG-------RLSSMILWGPPGTGKTTLARIIAGA--TDAPF-----EALSAVTSGVKD   76 (413)
T ss_pred             HHHhcCcHHHhCcchHHHHHHHcC-------CCceEEEECCCCCCHHHHHHHHHHH--hCCCE-----EEEecccccHHH
Confidence            3468888877665   77777432       3557888999999999999999874  22222     222221111111


Q ss_pred             HHHHHHHhhcCccccccHHHHHHHHHHH-hcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEE--ecCchHH--H
Q 036323          256 AKATIEELEGSAIDLHELNSLLRRIGAN-IAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILI--TTRKETV--A  330 (583)
Q Consensus       256 ~~~il~~l~~~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~Ilv--TtR~~~v--~  330 (583)
                      .+.+                 ....... ..+++.+|+||+++..+....+.|...+..   |..+++  ||.+...  .
T Consensus        77 ir~i-----------------i~~~~~~~~~g~~~vL~IDEi~~l~~~~q~~LL~~le~---~~iilI~att~n~~~~l~  136 (413)
T PRK13342         77 LREV-----------------IEEARQRRSAGRRTILFIDEIHRFNKAQQDALLPHVED---GTITLIGATTENPSFEVN  136 (413)
T ss_pred             HHHH-----------------HHHHHHhhhcCCceEEEEechhhhCHHHHHHHHHHhhc---CcEEEEEeCCCChhhhcc
Confidence            1122                 2222111 145788999999987655555656555433   444444  3444321  1


Q ss_pred             hh-hcCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhhhh
Q 036323          331 RM-MESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGS  392 (583)
Q Consensus       331 ~~-~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~~  392 (583)
                      .. ......+.+.+++.++...++.+.+....... .+...+....|++.|+|.|..+..+..
T Consensus       137 ~aL~SR~~~~~~~~ls~e~i~~lL~~~l~~~~~~~-i~i~~~al~~l~~~s~Gd~R~aln~Le  198 (413)
T PRK13342        137 PALLSRAQVFELKPLSEEDIEQLLKRALEDKERGL-VELDDEALDALARLANGDARRALNLLE  198 (413)
T ss_pred             HHHhccceeeEeCCCCHHHHHHHHHHHHHHhhcCC-CCCCHHHHHHHHHhCCCCHHHHHHHHH
Confidence            11 22257899999999999999988653211100 022255677899999999986654443

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

Probab=98.86  E-value=1.5e-08  Score=100.71  Aligned_cols=153  Identities=20%  Similarity=0.247  Sum_probs=96.2

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHH-HHHh
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRI-GANI  284 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l-~~~l  284 (583)
                      +.+....+||++|+||||||+.+...  ....|     ..++...+-.+                 ++..+.+.- +...
T Consensus        46 ~~l~SmIl~GPPG~GKTTlA~liA~~--~~~~f-----~~~sAv~~gvk-----------------dlr~i~e~a~~~~~  101 (436)
T COG2256          46 GHLHSMILWGPPGTGKTTLARLIAGT--TNAAF-----EALSAVTSGVK-----------------DLREIIEEARKNRL  101 (436)
T ss_pred             CCCceeEEECCCCCCHHHHHHHHHHh--hCCce-----EEeccccccHH-----------------HHHHHHHHHHHHHh
Confidence            45777889999999999999999883  33344     22333222222                 222222222 2223


Q ss_pred             cCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEE--ecCchHHH---hhhcCCCeEEcCCCChHHHHHHHHHHhcc
Q 036323          285 AGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILI--TTRKETVA---RMMESTDIVYVQGLSELECWSLFRRFALS  359 (583)
Q Consensus       285 ~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~Ilv--TtR~~~v~---~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~  359 (583)
                      .+++.+|++|.|+.-+..+.+.|   ||.-.+|..|+|  ||-++...   .......++.+++|+.++-..++.+.+..
T Consensus       102 ~gr~tiLflDEIHRfnK~QQD~l---Lp~vE~G~iilIGATTENPsF~ln~ALlSR~~vf~lk~L~~~di~~~l~ra~~~  178 (436)
T COG2256         102 LGRRTILFLDEIHRFNKAQQDAL---LPHVENGTIILIGATTENPSFELNPALLSRARVFELKPLSSEDIKKLLKRALLD  178 (436)
T ss_pred             cCCceEEEEehhhhcChhhhhhh---hhhhcCCeEEEEeccCCCCCeeecHHHhhhhheeeeecCCHHHHHHHHHHHHhh
Confidence            58999999999988776666665   445556777776  66665432   11234789999999999999999984321


Q ss_pred             CCCC-C-CCc-hHHHHHHHHhhhCCCCcc
Q 036323          360 GRTP-S-ECD-QLEGIGRGIVRKCKGLPL  385 (583)
Q Consensus       360 ~~~~-~-~~~-~~~~~~~~I~~~c~GlPL  385 (583)
                      .... . ... -.+++.+.|++.++|--.
T Consensus       179 ~~rgl~~~~~~i~~~a~~~l~~~s~GD~R  207 (436)
T COG2256         179 EERGLGGQIIVLDEEALDYLVRLSNGDAR  207 (436)
T ss_pred             hhcCCCcccccCCHHHHHHHHHhcCchHH
Confidence            1111 1 111 124466778888888544

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=98.83  E-value=4.7e-08  Score=94.38  Aligned_cols=171  Identities=13%  Similarity=0.093  Sum_probs=100.9

Q ss_pred             chhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhh
Q 036323          185 RDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELE  264 (583)
Q Consensus       185 R~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~  264 (583)
                      .+..++.+.+++..       .....+.|+|++|+|||+||+.+++..  .......+++++..-.+      ..     
T Consensus        22 ~~~~~~~l~~~~~~-------~~~~~lll~G~~G~GKT~la~~~~~~~--~~~~~~~~~i~~~~~~~------~~-----   81 (226)
T TIGR03420        22 NAELLAALRQLAAG-------KGDRFLYLWGESGSGKSHLLQAACAAA--EERGKSAIYLPLAELAQ------AD-----   81 (226)
T ss_pred             cHHHHHHHHHHHhc-------CCCCeEEEECCCCCCHHHHHHHHHHHH--HhcCCcEEEEeHHHHHH------hH-----
Confidence            44566777776532       235688899999999999999998742  22223345555432110      00     


Q ss_pred             cCccccccHHHHHHHHHHHhcCCceeEEEcCCCccccc-c-hHhhHHhhcc-CCCCceEEEecCchH---------HHhh
Q 036323          265 GSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYR-K-WEPFRNCLMN-GLRGSKILITTRKET---------VARM  332 (583)
Q Consensus       265 ~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~-~-~~~l~~~l~~-~~~gs~IlvTtR~~~---------v~~~  332 (583)
                               ....    ..+.+ .-+|||||++..... . ...+...+.. ...+..+|+||+...         +...
T Consensus        82 ---------~~~~----~~~~~-~~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~~L~~r  147 (226)
T TIGR03420        82 ---------PEVL----EGLEQ-ADLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLPDLRTR  147 (226)
T ss_pred             ---------HHHH----hhccc-CCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccHHHHHH
Confidence                     0111    11222 348999999654332 2 2334444432 123457888887432         1222


Q ss_pred             hcCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhhhhh
Q 036323          333 MESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSL  393 (583)
Q Consensus       333 ~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~~~  393 (583)
                      +.....+++.+++.++...++...+-.....    --.+....|++.+.|+|..+..+...
T Consensus       148 ~~~~~~i~l~~l~~~e~~~~l~~~~~~~~~~----~~~~~l~~L~~~~~gn~r~L~~~l~~  204 (226)
T TIGR03420       148 LAWGLVFQLPPLSDEEKIAALQSRAARRGLQ----LPDEVADYLLRHGSRDMGSLMALLDA  204 (226)
T ss_pred             HhcCeeEecCCCCHHHHHHHHHHHHHHcCCC----CCHHHHHHHHHhccCCHHHHHHHHHH
Confidence            2224679999999999999988765322211    12455677888899998877766443

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

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=98.82  E-value=1.9e-07  Score=101.22  Aligned_cols=196  Identities=15%  Similarity=0.136  Sum_probs=116.1

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      -.++||.+..++.|.+++....      -.+.+.++|..|+||||+|+.+.+...-...+.       +..+........
T Consensus        15 FdEVIGQe~Vv~~L~~aL~~gR------L~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~-------~~PCG~C~sCr~   81 (830)
T PRK07003         15 FASLVGQEHVVRALTHALDGGR------LHHAYLFTGTRGVGKTTLSRIFAKALNCETGVT-------SQPCGVCRACRE   81 (830)
T ss_pred             HHHHcCcHHHHHHHHHHHhcCC------CCeEEEEECCCCCCHHHHHHHHHHHhcCccCCC-------CCCCcccHHHHH
Confidence            3578999999999999985432      355667999999999999988876321111110       001111111111


Q ss_pred             HHHHhh-----cCc---cccccHHHHHHHHHHH-hcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCchH-
Q 036323          259 TIEELE-----GSA---IDLHELNSLLRRIGAN-IAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKET-  328 (583)
Q Consensus       259 il~~l~-----~~~---~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~~-  328 (583)
                      |...-.     ...   ....++.++++.+... ..++.-++|||+++..+...++.|+..|..-..+.++|+||.+.. 
T Consensus        82 I~~G~h~DviEIDAas~rgVDdIReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~~K  161 (830)
T PRK07003         82 IDEGRFVDYVEMDAASNRGVDEMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQK  161 (830)
T ss_pred             HhcCCCceEEEecccccccHHHHHHHHHHHHhccccCCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECChhh
Confidence            111000     000   0011122222222111 124455899999987766678888887766666777777777643 


Q ss_pred             HHhhh-cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCcc-chhhhh
Q 036323          329 VARMM-ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPL-AAKTIG  391 (583)
Q Consensus       329 v~~~~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPL-ai~~~~  391 (583)
                      +...+ .....+.+.+++.++..+.+.+.+..++...+    .+....|++.++|..- |+..+-
T Consensus       162 Ip~TIrSRCq~f~Fk~Ls~eeIv~~L~~Il~~EgI~id----~eAL~lIA~~A~GsmRdALsLLd  222 (830)
T PRK07003        162 IPVTVLSRCLQFNLKQMPAGHIVSHLERILGEERIAFE----PQALRLLARAAQGSMRDALSLTD  222 (830)
T ss_pred             ccchhhhheEEEecCCcCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHHHHHH
Confidence            32222 23678999999999999999887644332222    5566789999988654 555433

>PRK04195 replication factor C large subunit; Provisional

Probab=98.78  E-value=6.1e-07  Score=96.41  Aligned_cols=248  Identities=13%  Similarity=0.111  Sum_probs=138.2

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      -.+++|.+..+++|.+|+....   .....+.+.|+|++|+||||+|+.++++..    |. .+-++.++..+. .....
T Consensus        13 l~dlvg~~~~~~~l~~~l~~~~---~g~~~~~lLL~GppG~GKTtla~ala~el~----~~-~ielnasd~r~~-~~i~~   83 (482)
T PRK04195         13 LSDVVGNEKAKEQLREWIESWL---KGKPKKALLLYGPPGVGKTSLAHALANDYG----WE-VIELNASDQRTA-DVIER   83 (482)
T ss_pred             HHHhcCCHHHHHHHHHHHHHHh---cCCCCCeEEEECCCCCCHHHHHHHHHHHcC----CC-EEEEcccccccH-HHHHH
Confidence            4568999999999999986532   112367899999999999999999998531    22 223344432222 22222


Q ss_pred             HHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccc----cchHhhHHhhccCCCCceEEEecCchH-HHh-h
Q 036323          259 TIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDY----RKWEPFRNCLMNGLRGSKILITTRKET-VAR-M  332 (583)
Q Consensus       259 il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~----~~~~~l~~~l~~~~~gs~IlvTtR~~~-v~~-~  332 (583)
                      ++.......              .....++-+||||+++.-..    ..+..+...+..  .+..||+|+.+.. ... .
T Consensus        84 ~i~~~~~~~--------------sl~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~~--~~~~iIli~n~~~~~~~k~  147 (482)
T PRK04195         84 VAGEAATSG--------------SLFGARRKLILLDEVDGIHGNEDRGGARAILELIKK--AKQPIILTANDPYDPSLRE  147 (482)
T ss_pred             HHHHhhccC--------------cccCCCCeEEEEecCcccccccchhHHHHHHHHHHc--CCCCEEEeccCccccchhh
Confidence            222211110              00113677999999965322    234555555543  2344666664321 111 1


Q ss_pred             h-cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhhhhhhccCC---CHHHHHHHHh
Q 036323          333 M-ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKR---TKEEWQSALD  408 (583)
Q Consensus       333 ~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~~~L~~~~---~~~~w~~~l~  408 (583)
                      + .....+++.+++..+....+...+...+..-.    .++...|++.++|..-.+......+....   +.+....+..
T Consensus       148 Lrsr~~~I~f~~~~~~~i~~~L~~i~~~egi~i~----~eaL~~Ia~~s~GDlR~ain~Lq~~a~~~~~it~~~v~~~~~  223 (482)
T PRK04195        148 LRNACLMIEFKRLSTRSIVPVLKRICRKEGIECD----DEALKEIAERSGGDLRSAINDLQAIAEGYGKLTLEDVKTLGR  223 (482)
T ss_pred             HhccceEEEecCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHHHHHHHHhcCCCCCcHHHHHHhhc
Confidence            1 23567899999999999888887644332222    45678899999997765554433333221   2333332221


Q ss_pred             hhccccccccCCCcchhhcccc-CChHHhHHHHhhhccCCCCcccChHHHHHHHHHhccccc
Q 036323          409 SEMWQLEEFEGGLSAPLFLSYN-DLPFEIKRCFSYCAIFPKSSYLKKDELVKLWMAQGYIVL  469 (583)
Q Consensus       409 ~~~~~~~~~~~~i~~~l~~sy~-~L~~~~k~cf~~lsifp~~~~i~~~~Li~~W~aeg~i~~  469 (583)
                            .+...+++.++..-+. .-+......+..+.       ++. ..+-.|+.|.+...
T Consensus       224 ------~d~~~~if~~l~~i~~~k~~~~a~~~~~~~~-------~~~-~~i~~~l~en~~~~  271 (482)
T PRK04195        224 ------RDREESIFDALDAVFKARNADQALEASYDVD-------EDP-DDLIEWIDENIPKE  271 (482)
T ss_pred             ------CCCCCCHHHHHHHHHCCCCHHHHHHHHHccc-------CCH-HHHHHHHHhccccc
Confidence                  1123344555554443 22233333332222       222 35778999998764

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

Probab=98.78  E-value=9.6e-09  Score=95.75  Aligned_cols=48  Identities=25%  Similarity=0.443  Sum_probs=32.7

Q ss_pred             ceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCc
Q 036323          181 EVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDN  232 (583)
Q Consensus       181 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~  232 (583)
                      .|+||++++++|...|...    .....+.+.|+|.+|+|||+|++.++...
T Consensus         1 ~fvgR~~e~~~l~~~l~~~----~~~~~~~~ll~G~~G~GKT~ll~~~~~~~   48 (185)
T PF13191_consen    1 QFVGREEEIERLRDLLDAA----QSGSPRNLLLTGESGSGKTSLLRALLDRL   48 (185)
T ss_dssp             --TT-HHHHHHHHHTTGGT----SS-----EEE-B-TTSSHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHH----HcCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            4899999999999999522    34567899999999999999999988753

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

Probab=98.78  E-value=1.6e-08  Score=88.63  Aligned_cols=118  Identities=17%  Similarity=0.133  Sum_probs=79.1

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCcccc---ccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHH
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVI---NNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGAN  283 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~---~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~  283 (583)
                      +.+++.|+|.+|+|||++++.+.++....   ..-..++|+.+....+...+...++..++.......+...+.+.+.+.
T Consensus         3 ~~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~~   82 (131)
T PF13401_consen    3 SQRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQTSDELRSLLIDA   82 (131)
T ss_dssp             ----EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHHH
T ss_pred             CCcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCCHHHHHHHHHHH
Confidence            35689999999999999999998742110   003456799988877899999999999998766655666677777777


Q ss_pred             hcCCc-eeEEEcCCCcc-cccchHhhHHhhccCCCCceEEEecCc
Q 036323          284 IAGQK-FFMVLDNLWTD-DYRKWEPFRNCLMNGLRGSKILITTRK  326 (583)
Q Consensus       284 l~~k~-~LlVlDdv~~~-~~~~~~~l~~~l~~~~~gs~IlvTtR~  326 (583)
                      +...+ .+||||+++.- +...++.+.....  ..+.++|+..+.
T Consensus        83 l~~~~~~~lviDe~~~l~~~~~l~~l~~l~~--~~~~~vvl~G~~  125 (131)
T PF13401_consen   83 LDRRRVVLLVIDEADHLFSDEFLEFLRSLLN--ESNIKVVLVGTP  125 (131)
T ss_dssp             HHHCTEEEEEEETTHHHHTHHHHHHHHHHTC--SCBEEEEEEESS
T ss_pred             HHhcCCeEEEEeChHhcCCHHHHHHHHHHHh--CCCCeEEEEECh
Confidence            76555 49999999654 3333444433222  566777776654

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.78  E-value=2.3e-07  Score=95.87  Aligned_cols=193  Identities=15%  Similarity=0.163  Sum_probs=111.7

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      -.+++|.+.-++.+.+.+....      -.+.+.++|+.|+||||+|+.+.+...-...+.       ..+.........
T Consensus        15 ~~~iiGq~~~~~~l~~~~~~~~------~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~-------~~pc~~c~~c~~   81 (363)
T PRK14961         15 FRDIIGQKHIVTAISNGLSLGR------IHHAWLLSGTRGVGKTTIARLLAKSLNCQNGIT-------SNPCRKCIICKE   81 (363)
T ss_pred             hhhccChHHHHHHHHHHHHcCC------CCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCC-------CCCCCCCHHHHH
Confidence            3468999999999999886432      356778999999999999999877421111000       000000011111


Q ss_pred             HHHHhhc-------C-ccccccHHHHHHHHHHH-hcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCch-H
Q 036323          259 TIEELEG-------S-AIDLHELNSLLRRIGAN-IAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKE-T  328 (583)
Q Consensus       259 il~~l~~-------~-~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~-~  328 (583)
                      +......       . .....+...+...+... ..+++-++|+|+++......++.+...+......+.+|++|.+. .
T Consensus        82 ~~~~~~~d~~~~~~~~~~~v~~ir~i~~~~~~~p~~~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~~~~~  161 (363)
T PRK14961         82 IEKGLCLDLIEIDAASRTKVEEMREILDNIYYSPSKSRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDVEK  161 (363)
T ss_pred             HhcCCCCceEEecccccCCHHHHHHHHHHHhcCcccCCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcCChHh
Confidence            1111000       0 00111122222221111 12445699999997665556777777776655666677666543 3


Q ss_pred             HHhhh-cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchh
Q 036323          329 VARMM-ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAK  388 (583)
Q Consensus       329 v~~~~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~  388 (583)
                      +...+ +....+++.+++.++..+.+...+...+..-    .++.+..|++.++|.|..+.
T Consensus       162 l~~tI~SRc~~~~~~~l~~~el~~~L~~~~~~~g~~i----~~~al~~ia~~s~G~~R~al  218 (363)
T PRK14961        162 IPKTILSRCLQFKLKIISEEKIFNFLKYILIKESIDT----DEYALKLIAYHAHGSMRDAL  218 (363)
T ss_pred             hhHHHHhhceEEeCCCCCHHHHHHHHHHHHHHcCCCC----CHHHHHHHHHHcCCCHHHHH
Confidence            33222 2257899999999999988887664332211    24566779999999886443

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=98.76  E-value=1.7e-07  Score=96.30  Aligned_cols=199  Identities=14%  Similarity=0.084  Sum_probs=109.2

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCc-eEEEEEeCCCCChH-HHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFE-IRVRVCVSDPFDEF-NVA  256 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~-~~~wv~~~~~~~~~-~~~  256 (583)
                      -..++|++..++.|..++..+       ..+.+.++|++|+||||+|+.+++... ...+. ..+.+++++..... ..+
T Consensus        14 ~~~~~g~~~~~~~L~~~~~~~-------~~~~lll~Gp~GtGKT~la~~~~~~l~-~~~~~~~~~~i~~~~~~~~~~~~~   85 (337)
T PRK12402         14 LEDILGQDEVVERLSRAVDSP-------NLPHLLVQGPPGSGKTAAVRALARELY-GDPWENNFTEFNVADFFDQGKKYL   85 (337)
T ss_pred             HHHhcCCHHHHHHHHHHHhCC-------CCceEEEECCCCCCHHHHHHHHHHHhc-CcccccceEEechhhhhhcchhhh
Confidence            357899999999999988533       234578999999999999999887421 11111 12334433211000 000


Q ss_pred             H---HHHHHhhcC-ccccccHHHHHHHHHHH---h--cCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCch
Q 036323          257 K---ATIEELEGS-AIDLHELNSLLRRIGAN---I--AGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKE  327 (583)
Q Consensus       257 ~---~il~~l~~~-~~~~~~~~~~~~~l~~~---l--~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~  327 (583)
                      .   .....+... .......+.....+...   .  .+.+-+|||||+..-.......+...+......+++|+|+...
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~  165 (337)
T PRK12402         86 VEDPRFAHFLGTDKRIRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQP  165 (337)
T ss_pred             hcCcchhhhhhhhhhhccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCHHHHHHHHHHHHhccCCCeEEEEeCCh
Confidence            0   000000000 00000111111111111   1  1345589999996544334445655555444556777776543


Q ss_pred             -HHHhhhc-CCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhh
Q 036323          328 -TVARMME-STDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKT  389 (583)
Q Consensus       328 -~v~~~~~-~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~  389 (583)
                       .+...+. ....+++.+++.++...++...+...+..-    -.+....|++.++|.+-.+..
T Consensus       166 ~~~~~~L~sr~~~v~~~~~~~~~~~~~l~~~~~~~~~~~----~~~al~~l~~~~~gdlr~l~~  225 (337)
T PRK12402        166 SKLIPPIRSRCLPLFFRAPTDDELVDVLESIAEAEGVDY----DDDGLELIAYYAGGDLRKAIL  225 (337)
T ss_pred             hhCchhhcCCceEEEecCCCHHHHHHHHHHHHHHcCCCC----CHHHHHHHHHHcCCCHHHHHH
Confidence             2222222 246788999999999999988764333221    255677889999887665443

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.73  E-value=3.5e-07  Score=92.74  Aligned_cols=178  Identities=16%  Similarity=0.141  Sum_probs=116.5

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcC----ccccccCceEEEEEe-CCCCChHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYND----NDVINNFEIRVRVCV-SDPFDEFN  254 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~----~~~~~~f~~~~wv~~-~~~~~~~~  254 (583)
                      .+++|.+.-++.|...+...      .-.+...++|+.|+||||+|+.+++.    .....|++...|... +.......
T Consensus         4 ~~i~g~~~~~~~l~~~~~~~------~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~   77 (313)
T PRK05564          4 HTIIGHENIKNRIKNSIIKN------RFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDD   77 (313)
T ss_pred             hhccCcHHHHHHHHHHHHcC------CCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHH
Confidence            35789999999999998543      34567789999999999999888763    122345565555442 22222222


Q ss_pred             HHHHHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCchHHH-hh-
Q 036323          255 VAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKETVA-RM-  332 (583)
Q Consensus       255 ~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~~v~-~~-  332 (583)
                       .+++.+.+...+                ..+++-++|+|+++..+...++.|...+.....++.+|++|.+.... .. 
T Consensus        78 -ir~~~~~~~~~p----------------~~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI  140 (313)
T PRK05564         78 -IRNIIEEVNKKP----------------YEGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTI  140 (313)
T ss_pred             -HHHHHHHHhcCc----------------ccCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHH
Confidence             222222222111                13456688888886666677888999998777888888888765422 21 


Q ss_pred             hcCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchh
Q 036323          333 MESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAK  388 (583)
Q Consensus       333 ~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~  388 (583)
                      ......+++.+++.++....+.+... .   ..    .+.+..++..++|.|.-+.
T Consensus       141 ~SRc~~~~~~~~~~~~~~~~l~~~~~-~---~~----~~~~~~l~~~~~g~~~~a~  188 (313)
T PRK05564        141 KSRCQIYKLNRLSKEEIEKFISYKYN-D---IK----EEEKKSAIAFSDGIPGKVE  188 (313)
T ss_pred             HhhceeeeCCCcCHHHHHHHHHHHhc-C---CC----HHHHHHHHHHcCCCHHHHH
Confidence            22257899999999999888866531 1   11    3336678899999887554

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.72  E-value=2.8e-07  Score=101.84  Aligned_cols=195  Identities=13%  Similarity=0.162  Sum_probs=115.9

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      -.+++|.+..++.|.+++....      -...+.++|+.|+||||+|+.+++...-......       ..+........
T Consensus        15 FddIIGQe~Iv~~LknaI~~~r------l~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~-------~pCg~C~sC~~   81 (944)
T PRK14949         15 FEQMVGQSHVLHALTNALTQQR------LHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTA-------TPCGVCSSCVE   81 (944)
T ss_pred             HHHhcCcHHHHHHHHHHHHhCC------CCeEEEEECCCCCCHHHHHHHHHHhccCccCCCC-------CCCCCchHHHH
Confidence            3578999999999999886432      3456689999999999999999874221111000       00000000011


Q ss_pred             HHHH-------hhcC-ccccccHHHHHHHHHHH-hcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCc-hH
Q 036323          259 TIEE-------LEGS-AIDLHELNSLLRRIGAN-IAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRK-ET  328 (583)
Q Consensus       259 il~~-------l~~~-~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~-~~  328 (583)
                      +...       +... .....++..+...+... ..+++-++|||+++......++.|+..+.....+.++|++|.+ ..
T Consensus        82 i~~g~~~DviEidAas~~kVDdIReLie~v~~~P~~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFILaTTe~~k  161 (944)
T PRK14949         82 IAQGRFVDLIEVDAASRTKVDDTRELLDNVQYRPSRGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFLLATTDPQK  161 (944)
T ss_pred             HhcCCCceEEEeccccccCHHHHHHHHHHHHhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEEEEECCCchh
Confidence            1100       0000 01111222232222211 2466779999999877767788888877665556666655544 44


Q ss_pred             HHhh-hcCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhh
Q 036323          329 VARM-MESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTI  390 (583)
Q Consensus       329 v~~~-~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~  390 (583)
                      +... ......|++.+|+.++...++.+.+-.....    ...+.+..|++.++|.|--+..+
T Consensus       162 Ll~TIlSRCq~f~fkpLs~eEI~~~L~~il~~EgI~----~edeAL~lIA~~S~Gd~R~ALnL  220 (944)
T PRK14949        162 LPVTVLSRCLQFNLKSLTQDEIGTQLNHILTQEQLP----FEAEALTLLAKAANGSMRDALSL  220 (944)
T ss_pred             chHHHHHhheEEeCCCCCHHHHHHHHHHHHHHcCCC----CCHHHHHHHHHHcCCCHHHHHHH
Confidence            4322 2235789999999999999998876432211    12456778999999988644443

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.71  E-value=5e-08  Score=104.16  Aligned_cols=197  Identities=16%  Similarity=0.127  Sum_probs=113.8

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKAT  259 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  259 (583)
                      .+++|.+..++.|..++....      -...+.++|++|+||||+|+.+++...-.+.+...+|.|.+... .......-
T Consensus        14 ~dvvGq~~v~~~L~~~i~~~~------l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~~-i~~~~h~d   86 (504)
T PRK14963         14 DEVVGQEHVKEVLLAALRQGR------LGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCLA-VRRGAHPD   86 (504)
T ss_pred             HHhcChHHHHHHHHHHHHcCC------CCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhHH-HhcCCCCc
Confidence            468999999999988886432      34567999999999999999887743221222222332221100 00000000


Q ss_pred             HHHhhcC-ccccccHHHHHHHHHHH-hcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecC-chHHHhhhc-C
Q 036323          260 IEELEGS-AIDLHELNSLLRRIGAN-IAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTR-KETVARMME-S  335 (583)
Q Consensus       260 l~~l~~~-~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR-~~~v~~~~~-~  335 (583)
                      +..+... .....++.++...+... ..+++-++|||+++......++.|...+......+.+|++|. ...+...+. .
T Consensus        87 v~el~~~~~~~vd~iR~l~~~~~~~p~~~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~kl~~~I~SR  166 (504)
T PRK14963         87 VLEIDAASNNSVEDVRDLREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPTILSR  166 (504)
T ss_pred             eEEecccccCCHHHHHHHHHHHhhccccCCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChhhCChHHhcc
Confidence            0000000 00111122222222211 234566999999976665667778777766545555555554 333333222 2


Q ss_pred             CCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccch
Q 036323          336 TDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAA  387 (583)
Q Consensus       336 ~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai  387 (583)
                      ...+++.+++.++....+.+.+...+...    ..+....|++.++|.+--+
T Consensus       167 c~~~~f~~ls~~el~~~L~~i~~~egi~i----~~~Al~~ia~~s~GdlR~a  214 (504)
T PRK14963        167 TQHFRFRRLTEEEIAGKLRRLLEAEGREA----EPEALQLVARLADGAMRDA  214 (504)
T ss_pred             eEEEEecCCCHHHHHHHHHHHHHHcCCCC----CHHHHHHHHHHcCCCHHHH
Confidence            56899999999999999998775433222    2456788999999988644

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.70  E-value=2.6e-07  Score=98.99  Aligned_cols=197  Identities=14%  Similarity=0.144  Sum_probs=114.7

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccc---cCceEEEEEeCCCCChHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVIN---NFEIRVRVCVSDPFDEFNV  255 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~---~f~~~~wv~~~~~~~~~~~  255 (583)
                      -.++||.+..++.|.+++....      -.+.+.++|..|+||||+|+.+.+...-..   ... .    .+..+.....
T Consensus        15 FddVIGQe~vv~~L~~al~~gR------LpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g-~----~~~PCG~C~s   83 (700)
T PRK12323         15 FTTLVGQEHVVRALTHALEQQR------LHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGG-I----TAQPCGQCRA   83 (700)
T ss_pred             HHHHcCcHHHHHHHHHHHHhCC------CceEEEEECCCCCCHHHHHHHHHHHhcCCCcccccc-C----CCCCCcccHH
Confidence            3468999999999999996543      356778999999999999988876321100   000 0    0000111111


Q ss_pred             HHHHHHH-------hhcC-ccccccHHHHHHHHHHH-hcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEE-ecC
Q 036323          256 AKATIEE-------LEGS-AIDLHELNSLLRRIGAN-IAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILI-TTR  325 (583)
Q Consensus       256 ~~~il~~-------l~~~-~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~Ilv-TtR  325 (583)
                      ...|...       +... .....++.++.+.+... ..++.-++|||+++..+...++.|+..|..-..++++|+ ||.
T Consensus        84 C~~I~aG~hpDviEIdAas~~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTte  163 (700)
T PRK12323         84 CTEIDAGRFVDYIEMDAASNRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTD  163 (700)
T ss_pred             HHHHHcCCCCcceEecccccCCHHHHHHHHHHHHhchhcCCceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCC
Confidence            1111110       0000 00111222222222211 135566999999987776778888877765445555554 554


Q ss_pred             chHHHhhhc-CCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhh
Q 036323          326 KETVARMME-STDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTI  390 (583)
Q Consensus       326 ~~~v~~~~~-~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~  390 (583)
                      ...+...+. ....+.+..++.++..+.+.+.+...+...+    .+..+.|++.++|.|.-...+
T Consensus       164 p~kLlpTIrSRCq~f~f~~ls~eei~~~L~~Il~~Egi~~d----~eAL~~IA~~A~Gs~RdALsL  225 (700)
T PRK12323        164 PQKIPVTVLSRCLQFNLKQMPPGHIVSHLDAILGEEGIAHE----VNALRLLAQAAQGSMRDALSL  225 (700)
T ss_pred             hHhhhhHHHHHHHhcccCCCChHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHHHH
Confidence            454443322 2678999999999999998877643322111    345677999999998754443

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.69  E-value=4.4e-07  Score=97.46  Aligned_cols=194  Identities=16%  Similarity=0.137  Sum_probs=114.9

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      -.+++|.+..++.|.+++....      -...+.++|+.|+||||+|+.+++...-..      ++. ...+......+.
T Consensus        14 FddVIGQe~vv~~L~~aI~~gr------l~HAyLF~GPpGvGKTTlAriLAK~LnC~~------~~~-~~pCg~C~sC~~   80 (702)
T PRK14960         14 FNELVGQNHVSRALSSALERGR------LHHAYLFTGTRGVGKTTIARILAKCLNCET------GVT-STPCEVCATCKA   80 (702)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCC------CCeEEEEECCCCCCHHHHHHHHHHHhCCCc------CCC-CCCCccCHHHHH
Confidence            3578999999999999996442      356888999999999999998876321110      110 001111111111


Q ss_pred             HHHHhhc-------C-ccccccHHHHHHHHHHH-hcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCch-H
Q 036323          259 TIEELEG-------S-AIDLHELNSLLRRIGAN-IAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKE-T  328 (583)
Q Consensus       259 il~~l~~-------~-~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~-~  328 (583)
                      +...-..       . .....++.++...+... ..++.-++|||+++.-+....+.|...+.....+..+|++|.+. .
T Consensus        81 I~~g~hpDviEIDAAs~~~VddIReli~~~~y~P~~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTtd~~k  160 (702)
T PRK14960         81 VNEGRFIDLIEIDAASRTKVEDTRELLDNVPYAPTQGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTDPQK  160 (702)
T ss_pred             HhcCCCCceEEecccccCCHHHHHHHHHHHhhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEECChHh
Confidence            1110000       0 00111122222221111 23566699999997766667777777776655566777766553 3


Q ss_pred             HHhh-hcCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhh
Q 036323          329 VARM-MESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKT  389 (583)
Q Consensus       329 v~~~-~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~  389 (583)
                      +... ......+++.+++.++....+.+.+...+....    .+....|++.++|.+..+..
T Consensus       161 Ip~TIlSRCq~feFkpLs~eEI~k~L~~Il~kEgI~id----~eAL~~IA~~S~GdLRdALn  218 (702)
T PRK14960        161 LPITVISRCLQFTLRPLAVDEITKHLGAILEKEQIAAD----QDAIWQIAESAQGSLRDALS  218 (702)
T ss_pred             hhHHHHHhhheeeccCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHHH
Confidence            3222 233678999999999999999887644332222    45567799999997754443

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.67  E-value=4.6e-07  Score=97.01  Aligned_cols=184  Identities=17%  Similarity=0.157  Sum_probs=113.2

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCcccc-------------------ccCc
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVI-------------------NNFE  239 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~-------------------~~f~  239 (583)
                      -.+++|.+..++.|...+....      -.+.+.++|+.|+||||+|+.+++...-.                   ..|.
T Consensus        15 f~diiGq~~~v~~L~~~i~~~r------l~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~~~~   88 (546)
T PRK14957         15 FAEVAGQQHALNSLVHALETQK------VHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNNSFI   88 (546)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCC------CCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcCCCC
Confidence            3468999999999999885432      34567899999999999999887631110                   0111


Q ss_pred             eEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHH-hcCCceeEEEcCCCcccccchHhhHHhhccCCCCc
Q 036323          240 IRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGAN-IAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGS  318 (583)
Q Consensus       240 ~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs  318 (583)
                      ..++++......                  ..+...+...+... ..+++-++|+|+++..+...++.|+..+......+
T Consensus        89 dlieidaas~~g------------------vd~ir~ii~~~~~~p~~g~~kViIIDEa~~ls~~a~naLLK~LEepp~~v  150 (546)
T PRK14957         89 DLIEIDAASRTG------------------VEETKEILDNIQYMPSQGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYV  150 (546)
T ss_pred             ceEEeecccccC------------------HHHHHHHHHHHHhhhhcCCcEEEEEechhhccHHHHHHHHHHHhcCCCCc
Confidence            122222211111                  11222233322221 23566799999997766667788888887655566


Q ss_pred             eEE-EecCchHHHhh-hcCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCcc-chhhh
Q 036323          319 KIL-ITTRKETVARM-MESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPL-AAKTI  390 (583)
Q Consensus       319 ~Il-vTtR~~~v~~~-~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPL-ai~~~  390 (583)
                      .+| +||....+... ......+++.+++.++....+.+.+...+...    ..+....|++.++|.+- |+..+
T Consensus       151 ~fIL~Ttd~~kil~tI~SRc~~~~f~~Ls~~eI~~~L~~il~~egi~~----e~~Al~~Ia~~s~GdlR~alnlL  221 (546)
T PRK14957        151 KFILATTDYHKIPVTILSRCIQLHLKHISQADIKDQLKIILAKENINS----DEQSLEYIAYHAKGSLRDALSLL  221 (546)
T ss_pred             eEEEEECChhhhhhhHHHheeeEEeCCCCHHHHHHHHHHHHHHcCCCC----CHHHHHHHHHHcCCCHHHHHHHH
Confidence            555 45544444322 23367899999999998888887653322211    24556779999999664 44444

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

Probab=98.66  E-value=2.8e-07  Score=85.95  Aligned_cols=182  Identities=18%  Similarity=0.207  Sum_probs=98.8

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      -.+|||.+.-++.+.-++....  ........+.++|++|+||||||.-+.+.  ....|.   +.+.. ...       
T Consensus        23 L~efiGQ~~l~~~l~i~i~aa~--~r~~~l~h~lf~GPPG~GKTTLA~IIA~e--~~~~~~---~~sg~-~i~-------   87 (233)
T PF05496_consen   23 LDEFIGQEHLKGNLKILIRAAK--KRGEALDHMLFYGPPGLGKTTLARIIANE--LGVNFK---ITSGP-AIE-------   87 (233)
T ss_dssp             CCCS-S-HHHHHHHHHHHHHHH--CTTS---EEEEESSTTSSHHHHHHHHHHH--CT--EE---EEECC-C---------
T ss_pred             HHHccCcHHHHhhhHHHHHHHH--hcCCCcceEEEECCCccchhHHHHHHHhc--cCCCeE---eccch-hhh-------
Confidence            4689999998888766554211  01245778899999999999999999984  333332   22211 100       


Q ss_pred             HHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccC--------CC-----------Cce
Q 036323          259 TIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNG--------LR-----------GSK  319 (583)
Q Consensus       259 il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~--------~~-----------gs~  319 (583)
                                ..   .++...+.. + +++-+|++|.++.-+..+-+.|...+.++        ++           -+-
T Consensus        88 ----------k~---~dl~~il~~-l-~~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~FTl  152 (233)
T PF05496_consen   88 ----------KA---GDLAAILTN-L-KEGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPPFTL  152 (233)
T ss_dssp             ----------SC---HHHHHHHHT----TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE----EE
T ss_pred             ----------hH---HHHHHHHHh-c-CCCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccCCCceE
Confidence                      01   112222221 2 24558888999876655555555544321        11           122


Q ss_pred             EEEecCchHHHhhhcC-CC-eEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhhhhhh
Q 036323          320 ILITTRKETVARMMES-TD-IVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLL  394 (583)
Q Consensus       320 IlvTtR~~~v~~~~~~-~~-~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~~~L  394 (583)
                      |=.|||...+...+.. .. ..+++..+.+|-..+..+.+..-.    .+-.++.+.+|+++|.|-|--..-+-+..
T Consensus       153 igATTr~g~ls~pLrdRFgi~~~l~~Y~~~el~~Iv~r~a~~l~----i~i~~~~~~~Ia~rsrGtPRiAnrll~rv  225 (233)
T PF05496_consen  153 IGATTRAGLLSSPLRDRFGIVLRLEFYSEEELAKIVKRSARILN----IEIDEDAAEEIARRSRGTPRIANRLLRRV  225 (233)
T ss_dssp             EEEESSGCCTSHCCCTTSSEEEE----THHHHHHHHHHCCHCTT-----EE-HHHHHHHHHCTTTSHHHHHHHHHHH
T ss_pred             eeeeccccccchhHHhhcceecchhcCCHHHHHHHHHHHHHHhC----CCcCHHHHHHHHHhcCCChHHHHHHHHHH
Confidence            3457887655544443 33 347999999999999988663322    22336778999999999997655444433

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.

>COG3903 Predicted ATPase [General function prediction only]

Probab=98.66  E-value=4.4e-08  Score=98.14  Aligned_cols=270  Identities=22%  Similarity=0.170  Sum_probs=171.0

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccccCc-eEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHh
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFE-IRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANI  284 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~-~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l  284 (583)
                      ...+.+.++|.|||||||++-.+..   +...|. .+.++....-.+...+.-.+...++......   +.....+....
T Consensus        12 ~~~RlvtL~g~ggvgkttl~~~~a~---~~~~~~~~v~~vdl~pitD~~~v~~~~ag~~gl~~~~g---~~~~~~~~~~~   85 (414)
T COG3903          12 TALRLVTLTGAGGVGKTTLALQAAH---AASEYADGVAFVDLAPITDPALVFPTLAGALGLHVQPG---DSAVDTLVRRI   85 (414)
T ss_pred             hhhheeeeeccCccceehhhhhhHh---HhhhcccceeeeeccccCchhHhHHHHHhhcccccccc---hHHHHHHHHHH
Confidence            3467899999999999999988877   556674 4555555554455555555555555443221   22333455566


Q ss_pred             cCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCchHHHhhhcCCCeEEcCCCChH-HHHHHHHHHhccCCCC
Q 036323          285 AGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKETVARMMESTDIVYVQGLSEL-ECWSLFRRFALSGRTP  363 (583)
Q Consensus       285 ~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~~v~~~~~~~~~~~l~~L~~~-ea~~Lf~~~a~~~~~~  363 (583)
                      .+++.++|+||...- ...-..+...+..+.+.-.|+.|+|.....   .......+.+|+.. ++.++|...+......
T Consensus        86 ~~rr~llvldncehl-~~~~a~~i~all~~~~~~~~~atsre~~l~---~ge~~~~~~~L~~~d~a~~lf~~ra~~~~~~  161 (414)
T COG3903          86 GDRRALLVLDNCEHL-LDACAALIVALLGACPRLAILATSREAILV---AGEVHRRVPSLSLFDEAIELFVCRAVLVALS  161 (414)
T ss_pred             hhhhHHHHhcCcHHH-HHHHHHHHHHHHccchhhhhHHHhHhhhcc---cccccccCCccccCCchhHHHHHHHHHhccc
Confidence            788999999998321 112223444455555666789999976433   23455667777765 7888887765332221


Q ss_pred             -CCCchHHHHHHHHhhhCCCCccchhhhhhhhccCCCHHHHHHHHhhhcccccc-------ccCCCcchhhccccCChHH
Q 036323          364 -SECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEEWQSALDSEMWQLEE-------FEGGLSAPLFLSYNDLPFE  435 (583)
Q Consensus       364 -~~~~~~~~~~~~I~~~c~GlPLai~~~~~~L~~~~~~~~w~~~l~~~~~~~~~-------~~~~i~~~l~~sy~~L~~~  435 (583)
                       .-...-.....+|.++..|.|++|...++..+.- .+.+....++.....+.+       ........+.+||.-|...
T Consensus       162 f~l~~~~~a~v~~icr~ldg~~laielaaarv~sl-~~~~i~~~L~drf~ll~~~~r~a~~~~qtl~asl~ws~~lLtgw  240 (414)
T COG3903         162 FWLTDDNAAAVAEICRRLDGIPLAIELAAARVRSL-SPDEIAAGLRDRFRLLTGGARLAVLRQQTLRASLDWSYALLTGW  240 (414)
T ss_pred             eeecCCchHHHHHHHHHhhcchHHHHHHHHHHHhc-CHHHHHHHHhhHHHHHhcccccchhHHHhccchhhhhhHhhhhH
Confidence             1111224567889999999999999999988765 444444444332222211       2345788999999999999


Q ss_pred             hHHHHhhhccCCCCcccChHHHHHHHHHhccccccCCchHHHHHHHHHHHHhhcccccc
Q 036323          436 IKRCFSYCAIFPKSSYLKKDELVKLWMAQGYIVLKGNNEMKVIGLEYFDCLASRSFYQQ  494 (583)
Q Consensus       436 ~k~cf~~lsifp~~~~i~~~~Li~~W~aeg~i~~~~~~~~e~~~~~~l~~L~~rsll~~  494 (583)
                      .+-.|..++.|...|...    ...|.+-|-...    .+....-..+..|++.+++..
T Consensus       241 e~~~~~rLa~~~g~f~~~----l~~~~a~g~~~~----~~~y~~~~a~~ll~~kslv~a  291 (414)
T COG3903         241 ERALFGRLAVFVGGFDLG----LALAVAAGADVD----VPRYLVLLALTLLVDKSLVVA  291 (414)
T ss_pred             HHHHhcchhhhhhhhccc----HHHHHhcCCccc----cchHHHHHHHHHHhhccchhh
Confidence            999999999999887644    334444332210    122233444667777777753

>PTZ00202 tuzin; Provisional

Probab=98.65  E-value=1.1e-06  Score=89.24  Aligned_cols=172  Identities=16%  Similarity=0.195  Sum_probs=105.8

Q ss_pred             ccccccCCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCCh
Q 036323          173 STSLIDVSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDE  252 (583)
Q Consensus       173 ~~~~~~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  252 (583)
                      ...+.+.+.|+||+.++.+|...|...+    ...++++.|+|++|+|||||++.+.....    + ..+.++..   +.
T Consensus       255 ~~lPa~~~~FVGReaEla~Lr~VL~~~d----~~~privvLtG~~G~GKTTLlR~~~~~l~----~-~qL~vNpr---g~  322 (550)
T PTZ00202        255 QSAPAVIRQFVSREAEESWVRQVLRRLD----TAHPRIVVFTGFRGCGKSSLCRSAVRKEG----M-PAVFVDVR---GT  322 (550)
T ss_pred             cCCCCCccCCCCcHHHHHHHHHHHhccC----CCCceEEEEECCCCCCHHHHHHHHHhcCC----c-eEEEECCC---CH
Confidence            3455677899999999999999996443    23456999999999999999999987422    1 12233332   67


Q ss_pred             HHHHHHHHHHhhcCcccc--ccHHHHHHHHHHHh-c-CCceeEEEcCCCcccc-cchHhhHHhhccCCCCceEEEecCch
Q 036323          253 FNVAKATIEELEGSAIDL--HELNSLLRRIGANI-A-GQKFFMVLDNLWTDDY-RKWEPFRNCLMNGLRGSKILITTRKE  327 (583)
Q Consensus       253 ~~~~~~il~~l~~~~~~~--~~~~~~~~~l~~~l-~-~k~~LlVlDdv~~~~~-~~~~~l~~~l~~~~~gs~IlvTtR~~  327 (583)
                      .+++..++.+|+..+...  .-...+.+.+.+.- . +++.+||+-=-...+. ..+++. ..|.....-|.|++----+
T Consensus       323 eElLr~LL~ALGV~p~~~k~dLLrqIqeaLl~~~~e~GrtPVLII~lreg~~l~rvyne~-v~la~drr~ch~v~evple  401 (550)
T PTZ00202        323 EDTLRSVVKALGVPNVEACGDLLDFISEACRRAKKMNGETPLLVLKLREGSSLQRVYNEV-VALACDRRLCHVVIEVPLE  401 (550)
T ss_pred             HHHHHHHHHHcCCCCcccHHHHHHHHHHHHHHHHHhCCCCEEEEEEecCCCcHHHHHHHH-HHHHccchhheeeeeehHh
Confidence            899999999999743221  11233333333322 2 5666776643211111 112221 1234445567787755444


Q ss_pred             HHHhh---hcCCCeEEcCCCChHHHHHHHHHHh
Q 036323          328 TVARM---MESTDIVYVQGLSELECWSLFRRFA  357 (583)
Q Consensus       328 ~v~~~---~~~~~~~~l~~L~~~ea~~Lf~~~a  357 (583)
                      .+...   +.....|.+++++.++|..+-.+..
T Consensus       402 slt~~~~~lprldf~~vp~fsr~qaf~y~~h~~  434 (550)
T PTZ00202        402 SLTIANTLLPRLDFYLVPNFSRSQAFAYTQHAI  434 (550)
T ss_pred             hcchhcccCccceeEecCCCCHHHHHHHHhhcc
Confidence            33221   1225678899999999988776643

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=98.65  E-value=9e-07  Score=94.22  Aligned_cols=194  Identities=13%  Similarity=0.151  Sum_probs=114.1

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCce-EEEEEeCCCCChHHHHHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEI-RVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~-~~wv~~~~~~~~~~~~~~  258 (583)
                      .+++|.+..+..|...+...      .-.+.+.++|+.|+||||+|+.+++...-...... .-+.    .+........
T Consensus        21 ~dliGq~~vv~~L~~ai~~~------ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~----~C~~C~~C~~   90 (507)
T PRK06645         21 AELQGQEVLVKVLSYTILND------RLAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIK----TCEQCTNCIS   90 (507)
T ss_pred             HHhcCcHHHHHHHHHHHHcC------CCCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcC----CCCCChHHHH
Confidence            46799999999998877543      23567889999999999999999774211111000 0000    0000011111


Q ss_pred             HHHHh-------hc-CccccccHHHHHHHHHHH-hcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEE-ecCchH
Q 036323          259 TIEEL-------EG-SAIDLHELNSLLRRIGAN-IAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILI-TTRKET  328 (583)
Q Consensus       259 il~~l-------~~-~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~Ilv-TtR~~~  328 (583)
                      +....       .. ......++.++.+..... +.+++-++|+|+++.-....++.|...+......+.+|+ ||+...
T Consensus        91 i~~~~h~Dv~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte~~k  170 (507)
T PRK06645         91 FNNHNHPDIIEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQK  170 (507)
T ss_pred             HhcCCCCcEEEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCChHH
Confidence            11100       00 001112222222222111 235667999999987666678888888776555666554 555555


Q ss_pred             HHhhhc-CCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccch
Q 036323          329 VARMME-STDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAA  387 (583)
Q Consensus       329 v~~~~~-~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai  387 (583)
                      +...+. ....+++.+++.++....+.+.+...+...+    .+....|++.++|.+.-+
T Consensus       171 I~~tI~SRc~~~ef~~ls~~el~~~L~~i~~~egi~ie----~eAL~~Ia~~s~GslR~a  226 (507)
T PRK06645        171 IPATIISRCQRYDLRRLSFEEIFKLLEYITKQENLKTD----IEALRIIAYKSEGSARDA  226 (507)
T ss_pred             hhHHHHhcceEEEccCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHH
Confidence            544333 3567999999999999999988754332222    455677999999977544

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=98.63  E-value=9.5e-07  Score=90.04  Aligned_cols=182  Identities=15%  Similarity=0.087  Sum_probs=106.4

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEe--CCCCChHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCV--SDPFDEFNVA  256 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~--~~~~~~~~~~  256 (583)
                      -.+++|++..++.+..++....       .+.+.|+|.+|+||||+|+.+++... ...+.. .++.+  +...... ..
T Consensus        16 ~~~~~g~~~~~~~l~~~i~~~~-------~~~~ll~G~~G~GKt~~~~~l~~~l~-~~~~~~-~~i~~~~~~~~~~~-~~   85 (319)
T PRK00440         16 LDEIVGQEEIVERLKSYVKEKN-------MPHLLFAGPPGTGKTTAALALARELY-GEDWRE-NFLELNASDERGID-VI   85 (319)
T ss_pred             HHHhcCcHHHHHHHHHHHhCCC-------CCeEEEECCCCCCHHHHHHHHHHHHc-CCcccc-ceEEeccccccchH-HH
Confidence            3568999999999999985432       34579999999999999999987421 111211 12222  2211111 11


Q ss_pred             HHHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCch-HHHhhh-c
Q 036323          257 KATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKE-TVARMM-E  334 (583)
Q Consensus       257 ~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~-~v~~~~-~  334 (583)
                      ...+..+....+              .....+-++++|+++.-.......+...+......+.+|+++... .....+ .
T Consensus        86 ~~~i~~~~~~~~--------------~~~~~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~s  151 (319)
T PRK00440         86 RNKIKEFARTAP--------------VGGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQS  151 (319)
T ss_pred             HHHHHHHHhcCC--------------CCCCCceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHHH
Confidence            111111110000              001235689999986544334555666665545556777766432 221111 2


Q ss_pred             CCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchh
Q 036323          335 STDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAK  388 (583)
Q Consensus       335 ~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~  388 (583)
                      ....+++.+++.++....+...+...+..-    ..+....|++.++|.+.-+.
T Consensus       152 r~~~~~~~~l~~~ei~~~l~~~~~~~~~~i----~~~al~~l~~~~~gd~r~~~  201 (319)
T PRK00440        152 RCAVFRFSPLKKEAVAERLRYIAENEGIEI----TDDALEAIYYVSEGDMRKAI  201 (319)
T ss_pred             HhheeeeCCCCHHHHHHHHHHHHHHcCCCC----CHHHHHHHHHHcCCCHHHHH
Confidence            245789999999999888888764333211    24567788999999877543

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

Probab=98.63  E-value=2.5e-07  Score=82.17  Aligned_cols=125  Identities=15%  Similarity=0.083  Sum_probs=71.8

Q ss_pred             eechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHH
Q 036323          183 RGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEE  262 (583)
Q Consensus       183 vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~  262 (583)
                      +|++..+..+...+...       ..+.+.|+|.+|+|||+|++.+++...  ..-..++++..............+...
T Consensus         1 ~~~~~~~~~i~~~~~~~-------~~~~v~i~G~~G~GKT~l~~~i~~~~~--~~~~~v~~~~~~~~~~~~~~~~~~~~~   71 (151)
T cd00009           1 VGQEEAIEALREALELP-------PPKNLLLYGPPGTGKTTLARAIANELF--RPGAPFLYLNASDLLEGLVVAELFGHF   71 (151)
T ss_pred             CchHHHHHHHHHHHhCC-------CCCeEEEECCCCCCHHHHHHHHHHHhh--cCCCCeEEEehhhhhhhhHHHHHhhhh
Confidence            47888999999888542       356788999999999999999998532  212345566554433222111111000


Q ss_pred             hhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccC------CCCceEEEecCchH
Q 036323          263 LEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNG------LRGSKILITTRKET  328 (583)
Q Consensus       263 l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~------~~gs~IlvTtR~~~  328 (583)
                                  ............++.+||+||++.........+...+...      ..+..+|+||....
T Consensus        72 ------------~~~~~~~~~~~~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~  131 (151)
T cd00009          72 ------------LVRLLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRPL  131 (151)
T ss_pred             ------------hHhHHHHhhccCCCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCccc
Confidence                        0011111223456789999999753222223333333322      35778888887543

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.

>PLN03025 replication factor C subunit; Provisional

Probab=98.61  E-value=5.9e-07  Score=91.35  Aligned_cols=183  Identities=14%  Similarity=0.130  Sum_probs=106.0

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCc-eEEEEEeCCCCChHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFE-IRVRVCVSDPFDEFNVAK  257 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~-~~~wv~~~~~~~~~~~~~  257 (583)
                      -.+++|.++.++.|..++...       ..+.+.++|++|+||||+|..+++... ...|. .++-++.++..... ..+
T Consensus        12 l~~~~g~~~~~~~L~~~~~~~-------~~~~lll~Gp~G~GKTtla~~la~~l~-~~~~~~~~~eln~sd~~~~~-~vr   82 (319)
T PLN03025         12 LDDIVGNEDAVSRLQVIARDG-------NMPNLILSGPPGTGKTTSILALAHELL-GPNYKEAVLELNASDDRGID-VVR   82 (319)
T ss_pred             HHHhcCcHHHHHHHHHHHhcC-------CCceEEEECCCCCCHHHHHHHHHHHHh-cccCccceeeecccccccHH-HHH
Confidence            346889998888888877533       234477999999999999999887421 11221 11112222221111 122


Q ss_pred             HHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCch-HHHhhh-cC
Q 036323          258 ATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKE-TVARMM-ES  335 (583)
Q Consensus       258 ~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~-~v~~~~-~~  335 (583)
                      .++..+......             ...++.-+++||+++.-.......+...+......+++++++... .+...+ ..
T Consensus        83 ~~i~~~~~~~~~-------------~~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~SR  149 (319)
T PLN03025         83 NKIKMFAQKKVT-------------LPPGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSR  149 (319)
T ss_pred             HHHHHHHhcccc-------------CCCCCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhHHHh
Confidence            222211110000             002346699999997655445555666554444556777766542 222211 12


Q ss_pred             CCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccch
Q 036323          336 TDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAA  387 (583)
Q Consensus       336 ~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai  387 (583)
                      ...+++.+++.++....+...+-..+..-.    .+....|++.++|..-.+
T Consensus       150 c~~i~f~~l~~~~l~~~L~~i~~~egi~i~----~~~l~~i~~~~~gDlR~a  197 (319)
T PLN03025        150 CAIVRFSRLSDQEILGRLMKVVEAEKVPYV----PEGLEAIIFTADGDMRQA  197 (319)
T ss_pred             hhcccCCCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHH
Confidence            467899999999999998887744332222    455678899999866433

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

Probab=98.61  E-value=9.1e-07  Score=86.62  Aligned_cols=158  Identities=18%  Similarity=0.177  Sum_probs=100.0

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIA  285 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~  285 (583)
                      +....+.+||++|+||||||+.+.+..+...    ..||..|.......-.+.++++-..               ...+.
T Consensus       160 ~~ipSmIlWGppG~GKTtlArlia~tsk~~S----yrfvelSAt~a~t~dvR~ife~aq~---------------~~~l~  220 (554)
T KOG2028|consen  160 NRIPSMILWGPPGTGKTTLARLIASTSKKHS----YRFVELSATNAKTNDVRDIFEQAQN---------------EKSLT  220 (554)
T ss_pred             CCCCceEEecCCCCchHHHHHHHHhhcCCCc----eEEEEEeccccchHHHHHHHHHHHH---------------HHhhh
Confidence            4577788999999999999999998533322    4566666554433444444443211               11246


Q ss_pred             CCceeEEEcCCCcccccchHhhHHhhccCCCCceEEE--ecCchHHH---hhhcCCCeEEcCCCChHHHHHHHHHHhc--
Q 036323          286 GQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILI--TTRKETVA---RMMESTDIVYVQGLSELECWSLFRRFAL--  358 (583)
Q Consensus       286 ~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~Ilv--TtR~~~v~---~~~~~~~~~~l~~L~~~ea~~Lf~~~a~--  358 (583)
                      ++|.+|++|.|+.-+..+.+.+   ||.-..|..++|  ||.++...   ..+....++.|++|+.++...++.+..-  
T Consensus       221 krkTilFiDEiHRFNksQQD~f---LP~VE~G~I~lIGATTENPSFqln~aLlSRC~VfvLekL~~n~v~~iL~raia~l  297 (554)
T KOG2028|consen  221 KRKTILFIDEIHRFNKSQQDTF---LPHVENGDITLIGATTENPSFQLNAALLSRCRVFVLEKLPVNAVVTILMRAIASL  297 (554)
T ss_pred             cceeEEEeHHhhhhhhhhhhcc---cceeccCceEEEecccCCCccchhHHHHhccceeEeccCCHHHHHHHHHHHHHhh
Confidence            7899999999977665555544   556667876666  67766442   2234478899999999999888877321  


Q ss_pred             cCC-C---CCCC---chHHHHHHHHhhhCCCCcc
Q 036323          359 SGR-T---PSEC---DQLEGIGRGIVRKCKGLPL  385 (583)
Q Consensus       359 ~~~-~---~~~~---~~~~~~~~~I~~~c~GlPL  385 (583)
                      +.. .   +-.+   .-...+.+-++..|.|-..
T Consensus       298 ~dser~~~~l~n~s~~ve~siidyla~lsdGDaR  331 (554)
T KOG2028|consen  298 GDSERPTDPLPNSSMFVEDSIIDYLAYLSDGDAR  331 (554)
T ss_pred             ccccccCCCCCCcchhhhHHHHHHHHHhcCchHH
Confidence            111 1   1111   1224566777888888543

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

Probab=98.60  E-value=2.1e-06  Score=88.00  Aligned_cols=177  Identities=15%  Similarity=0.177  Sum_probs=116.4

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      |..+.+|+.+++++...|...-   .+..+.-+.|+|.+|+|||+.++.+.+..+....=...+.|++....+...++..
T Consensus        16 P~~l~~Re~ei~~l~~~l~~~~---~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~   92 (366)
T COG1474          16 PEELPHREEEINQLASFLAPAL---RGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSK   92 (366)
T ss_pred             cccccccHHHHHHHHHHHHHHh---cCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHH
Confidence            4459999999999999886543   2233334889999999999999999984322211112788999999999999999


Q ss_pred             HHHHhhcCccccccHHHHHHHHHHHhc--CCceeEEEcCCCcccccchHhhHHhhccCCC-Cce--EEEecCchHHHhhh
Q 036323          259 TIEELEGSAIDLHELNSLLRRIGANIA--GQKFFMVLDNLWTDDYRKWEPFRNCLMNGLR-GSK--ILITTRKETVARMM  333 (583)
Q Consensus       259 il~~l~~~~~~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~-gs~--IlvTtR~~~v~~~~  333 (583)
                      |+..++..+.......+....+.+.+.  ++.+++|||++..-....-+.+...+..... .++  +|..+.+......+
T Consensus        93 i~~~~~~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~~~~~~v~vi~i~n~~~~~~~l  172 (366)
T COG1474          93 ILNKLGKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGEVLYSLLRAPGENKVKVSIIAVSNDDKFLDYL  172 (366)
T ss_pred             HHHHcCCCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccchHHHHHHhhccccceeEEEEEEeccHHHHHHh
Confidence            999998555444555566666666664  5789999999954222211333333333222 343  33344444333222


Q ss_pred             cC-------CCeEEcCCCChHHHHHHHHHHhc
Q 036323          334 ES-------TDIVYVQGLSELECWSLFRRFAL  358 (583)
Q Consensus       334 ~~-------~~~~~l~~L~~~ea~~Lf~~~a~  358 (583)
                      .+       ...+..+|-+.+|-...+...+-
T Consensus       173 d~rv~s~l~~~~I~F~pY~a~el~~Il~~R~~  204 (366)
T COG1474         173 DPRVKSSLGPSEIVFPPYTAEELYDILRERVE  204 (366)
T ss_pred             hhhhhhccCcceeeeCCCCHHHHHHHHHHHHH
Confidence            11       23377888999999999988764

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.59  E-value=1.2e-06  Score=92.94  Aligned_cols=202  Identities=17%  Similarity=0.173  Sum_probs=115.7

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCcccccc--C-----------------c
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINN--F-----------------E  239 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~--f-----------------~  239 (583)
                      -.+++|.+...+.|...+....      -.+.+.++|++|+||||+|+.+++...-...  +                 .
T Consensus        13 ~~divGq~~i~~~L~~~i~~~~------l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~g~~~   86 (472)
T PRK14962         13 FSEVVGQDHVKKLIINALKKNS------ISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDEGTFM   86 (472)
T ss_pred             HHHccCcHHHHHHHHHHHHcCC------CCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhcCCCC
Confidence            3568999988888888775432      3456889999999999999998764211100  0                 0


Q ss_pred             eEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHH-HhcCCceeEEEcCCCcccccchHhhHHhhccCCCCc
Q 036323          240 IRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGA-NIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGS  318 (583)
Q Consensus       240 ~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs  318 (583)
                      ....++.+.....                  .++..+...+.. -..+++-++|+|+++.-.....+.|...+......+
T Consensus        87 dv~el~aa~~~gi------------------d~iR~i~~~~~~~p~~~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~v  148 (472)
T PRK14962         87 DVIELDAASNRGI------------------DEIRKIRDAVGYRPMEGKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHV  148 (472)
T ss_pred             ccEEEeCcccCCH------------------HHHHHHHHHHhhChhcCCeEEEEEEChHHhHHHHHHHHHHHHHhCCCcE
Confidence            1111111111111                  111111111111 123456799999996554445666766665544445


Q ss_pred             eEEEecCc-hHHHhhhc-CCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCC-Cccchhhhhhhhc
Q 036323          319 KILITTRK-ETVARMME-STDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKG-LPLAAKTIGSLLQ  395 (583)
Q Consensus       319 ~IlvTtR~-~~v~~~~~-~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~G-lPLai~~~~~~L~  395 (583)
                      .+|++|.+ ..+...+. ....+++.+++.++....+.+.+...+..-    ..+....|++.++| ++.++..+-.+..
T Consensus       149 v~Ilattn~~kl~~~L~SR~~vv~f~~l~~~el~~~L~~i~~~egi~i----~~eal~~Ia~~s~GdlR~aln~Le~l~~  224 (472)
T PRK14962        149 VFVLATTNLEKVPPTIISRCQVIEFRNISDELIIKRLQEVAEAEGIEI----DREALSFIAKRASGGLRDALTMLEQVWK  224 (472)
T ss_pred             EEEEEeCChHhhhHHHhcCcEEEEECCccHHHHHHHHHHHHHHcCCCC----CHHHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence            44444433 33433322 356899999999999998888764332222    24566778887765 5667776655432


Q ss_pred             c---CCCHHHHHHHHh
Q 036323          396 F---KRTKEEWQSALD  408 (583)
Q Consensus       396 ~---~~~~~~w~~~l~  408 (583)
                      .   .-+.+....++.
T Consensus       225 ~~~~~It~e~V~~~l~  240 (472)
T PRK14962        225 FSEGKITLETVHEALG  240 (472)
T ss_pred             hcCCCCCHHHHHHHHc
Confidence            2   125556655543

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=98.58  E-value=9.5e-07  Score=85.32  Aligned_cols=153  Identities=11%  Similarity=0.064  Sum_probs=89.7

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAG  286 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~  286 (583)
                      ..+.+.|+|.+|+|||+||+.+++... .... ...+++.....      .    .+                  .. ..
T Consensus        41 ~~~~~~l~G~~G~GKT~La~ai~~~~~-~~~~-~~~~i~~~~~~------~----~~------------------~~-~~   89 (227)
T PRK08903         41 ADRFFYLWGEAGSGRSHLLQALVADAS-YGGR-NARYLDAASPL------L----AF------------------DF-DP   89 (227)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHH-hCCC-cEEEEehHHhH------H----HH------------------hh-cc
Confidence            346788999999999999999987421 1122 23444433210      0    00                  01 12


Q ss_pred             CceeEEEcCCCcccccchHhhHHhhcc-CCCCc-eEEEecCchHHHh--------hhcCCCeEEcCCCChHHHHHHHHHH
Q 036323          287 QKFFMVLDNLWTDDYRKWEPFRNCLMN-GLRGS-KILITTRKETVAR--------MMESTDIVYVQGLSELECWSLFRRF  356 (583)
Q Consensus       287 k~~LlVlDdv~~~~~~~~~~l~~~l~~-~~~gs-~IlvTtR~~~v~~--------~~~~~~~~~l~~L~~~ea~~Lf~~~  356 (583)
                      ..-+||+||+...+...-..+...+.. ...+. .+|+|++......        .+.....+++.++++++-..++.+.
T Consensus        90 ~~~~liiDdi~~l~~~~~~~L~~~~~~~~~~~~~~vl~~~~~~~~~~~l~~~L~sr~~~~~~i~l~pl~~~~~~~~l~~~  169 (227)
T PRK08903         90 EAELYAVDDVERLDDAQQIALFNLFNRVRAHGQGALLVAGPAAPLALPLREDLRTRLGWGLVYELKPLSDADKIAALKAA  169 (227)
T ss_pred             cCCEEEEeChhhcCchHHHHHHHHHHHHHHcCCcEEEEeCCCCHHhCCCCHHHHHHHhcCeEEEecCCCHHHHHHHHHHH
Confidence            345799999965433333334444432 12333 4667766432211        2223468899999998877777665


Q ss_pred             hccCCCCCCCchHHHHHHHHhhhCCCCccchhhhhhhh
Q 036323          357 ALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLL  394 (583)
Q Consensus       357 a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~~~L  394 (583)
                      +-.....    --+++.+.|++.+.|++..+..+...+
T Consensus       170 ~~~~~v~----l~~~al~~L~~~~~gn~~~l~~~l~~l  203 (227)
T PRK08903        170 AAERGLQ----LADEVPDYLLTHFRRDMPSLMALLDAL  203 (227)
T ss_pred             HHHcCCC----CCHHHHHHHHHhccCCHHHHHHHHHHH
Confidence            4222211    125667788899999999887776555

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.58  E-value=4.4e-07  Score=94.75  Aligned_cols=193  Identities=10%  Similarity=0.064  Sum_probs=114.2

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      -.+++|.+..+..|..++....      -...+.++|+.|+||||+|+.+++...-......   ..+....+    ...
T Consensus        17 f~dvVGQe~iv~~L~~~i~~~r------i~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~---~pCg~C~s----C~~   83 (484)
T PRK14956         17 FRDVIHQDLAIGALQNALKSGK------IGHAYIFFGPRGVGKTTIARILAKRLNCENPIGN---EPCNECTS----CLE   83 (484)
T ss_pred             HHHHhChHHHHHHHHHHHHcCC------CCeEEEEECCCCCCHHHHHHHHHHhcCcccccCc---cccCCCcH----HHH
Confidence            3568999999999999886432      2356889999999999999999874211110000   00000001    111


Q ss_pred             HHHHhhcC--------ccccccHHHHHHHHHHH-hcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEe-cCchH
Q 036323          259 TIEELEGS--------AIDLHELNSLLRRIGAN-IAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILIT-TRKET  328 (583)
Q Consensus       259 il~~l~~~--------~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvT-tR~~~  328 (583)
                      +.......        .....++.++.+.+... ..++.-++|||+++.-+...++.|+..+........+|++ |....
T Consensus        84 i~~g~~~dviEIdaas~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~k  163 (484)
T PRK14956         84 ITKGISSDVLEIDAASNRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHK  163 (484)
T ss_pred             HHccCCccceeechhhcccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhh
Confidence            11111000        01122223333333221 2355669999999877767788887777554445555544 44444


Q ss_pred             HHhhh-cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchh
Q 036323          329 VARMM-ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAK  388 (583)
Q Consensus       329 v~~~~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~  388 (583)
                      +...+ .....|.+.+++.++..+.+.+.+...+...    ..+....|++.++|.+.-+.
T Consensus       164 I~~TI~SRCq~~~f~~ls~~~i~~~L~~i~~~Egi~~----e~eAL~~Ia~~S~Gd~RdAL  220 (484)
T PRK14956        164 IPETILSRCQDFIFKKVPLSVLQDYSEKLCKIENVQY----DQEGLFWIAKKGDGSVRDML  220 (484)
T ss_pred             ccHHHHhhhheeeecCCCHHHHHHHHHHHHHHcCCCC----CHHHHHHHHHHcCChHHHHH
Confidence            43332 2256799999999999988888764333222    25567889999999886433

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=98.58  E-value=2.3e-06  Score=88.59  Aligned_cols=184  Identities=10%  Similarity=0.146  Sum_probs=111.0

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCcccc--------------------ccC
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVI--------------------NNF  238 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~--------------------~~f  238 (583)
                      -..++|.+..++.|.+++....      -.+.+.++|++|+|||++|+.+.+...-.                    .++
T Consensus        13 ~~~iig~~~~~~~l~~~~~~~~------~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~   86 (355)
T TIGR02397        13 FEDVIGQEHIVQTLKNAIKNGR------IAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEINSGSSL   86 (355)
T ss_pred             HhhccCcHHHHHHHHHHHHcCC------CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCC
Confidence            4568999999999999885432      34678899999999999998886531100                    122


Q ss_pred             ceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHH-hcCCceeEEEcCCCcccccchHhhHHhhccCCCC
Q 036323          239 EIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGAN-IAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRG  317 (583)
Q Consensus       239 ~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~g  317 (583)
                      +. ++++......                  ..+...+...+... ..+++-++|+|++..-.....+.+...+......
T Consensus        87 ~~-~~~~~~~~~~------------------~~~~~~l~~~~~~~p~~~~~~vviidea~~l~~~~~~~Ll~~le~~~~~  147 (355)
T TIGR02397        87 DV-IEIDAASNNG------------------VDDIREILDNVKYAPSSGKYKVYIIDEVHMLSKSAFNALLKTLEEPPEH  147 (355)
T ss_pred             CE-EEeeccccCC------------------HHHHHHHHHHHhcCcccCCceEEEEeChhhcCHHHHHHHHHHHhCCccc
Confidence            21 2222111111                  11112222222111 1245568999998554444566677777555556


Q ss_pred             ceEEEecCchH-HHhhh-cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhhh
Q 036323          318 SKILITTRKET-VARMM-ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIG  391 (583)
Q Consensus       318 s~IlvTtR~~~-v~~~~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~  391 (583)
                      +.+|++|.+.. +...+ .....+++.+++.++...++...+-..+..-    -.+.+..|++.++|.|..+....
T Consensus       148 ~~lIl~~~~~~~l~~~l~sr~~~~~~~~~~~~~l~~~l~~~~~~~g~~i----~~~a~~~l~~~~~g~~~~a~~~l  219 (355)
T TIGR02397       148 VVFILATTEPHKIPATILSRCQRFDFKRIPLEDIVERLKKILDKEGIKI----EDEALELIARAADGSLRDALSLL  219 (355)
T ss_pred             eeEEEEeCCHHHHHHHHHhheeEEEcCCCCHHHHHHHHHHHHHHcCCCC----CHHHHHHHHHHcCCChHHHHHHH
Confidence            66666665443 33222 2256788999999999988888764332211    14567789999999887655443

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.

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=98.57  E-value=1.1e-06  Score=95.52  Aligned_cols=195  Identities=14%  Similarity=0.182  Sum_probs=116.0

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      -.++||.+.-++.|.+.+....      -...+.++|..|+||||+|+.+++...-...+       ....+........
T Consensus        15 f~divGQe~vv~~L~~~l~~~r------l~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~-------~~~pCg~C~~C~~   81 (647)
T PRK07994         15 FAEVVGQEHVLTALANALDLGR------LHHAYLFSGTRGVGKTTIARLLAKGLNCETGI-------TATPCGECDNCRE   81 (647)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCC------CCeEEEEECCCCCCHHHHHHHHHHhhhhccCC-------CCCCCCCCHHHHH
Confidence            3578999999999999886432      34567899999999999999987642111000       0011111122222


Q ss_pred             HHHH-------hhcC-ccccccHHHHHHHHHHH-hcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCc-hH
Q 036323          259 TIEE-------LEGS-AIDLHELNSLLRRIGAN-IAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRK-ET  328 (583)
Q Consensus       259 il~~-------l~~~-~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~-~~  328 (583)
                      |...       +... .....++.++...+... ..++.-++|||+++..+....+.|+..+......+++|++|.+ ..
T Consensus        82 i~~g~~~D~ieidaas~~~VddiR~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~k  161 (647)
T PRK07994         82 IEQGRFVDLIEIDAASRTKVEDTRELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQK  161 (647)
T ss_pred             HHcCCCCCceeecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccc
Confidence            2110       0000 01112222333322211 2456679999999877767788888877665556655555444 44


Q ss_pred             HHhh-hcCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhh
Q 036323          329 VARM-MESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTI  390 (583)
Q Consensus       329 v~~~-~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~  390 (583)
                      +... ......|++.+|+.++....+.+.+-..+...    ..+....|++.++|.+--+..+
T Consensus       162 Ll~TI~SRC~~~~f~~Ls~~ei~~~L~~il~~e~i~~----e~~aL~~Ia~~s~Gs~R~Al~l  220 (647)
T PRK07994        162 LPVTILSRCLQFHLKALDVEQIRQQLEHILQAEQIPF----EPRALQLLARAADGSMRDALSL  220 (647)
T ss_pred             cchHHHhhheEeeCCCCCHHHHHHHHHHHHHHcCCCC----CHHHHHHHHHHcCCCHHHHHHH
Confidence            4322 22367899999999999999887663322212    2455677999999988744433

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.56  E-value=1.6e-06  Score=91.55  Aligned_cols=182  Identities=14%  Similarity=0.128  Sum_probs=113.1

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCcccc-------------------ccCc
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVI-------------------NNFE  239 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~-------------------~~f~  239 (583)
                      -.+++|.+..++.|.+.+....      -.+.+.++|+.|+||||+|+.+++...-.                   ..+.
T Consensus        12 f~dliGQe~vv~~L~~a~~~~r------i~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~   85 (491)
T PRK14964         12 FKDLVGQDVLVRILRNAFTLNK------IPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHP   85 (491)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCC------CCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCC
Confidence            3578999999999988885432      34578899999999999998886521000                   0111


Q ss_pred             eEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHH-hcCCceeEEEcCCCcccccchHhhHHhhccCCCCc
Q 036323          240 IRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGAN-IAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGS  318 (583)
Q Consensus       240 ~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs  318 (583)
                      -++.++.+......                  ++.++.+..... ..++.-++|+|+++.-+...++.|...+....+.+
T Consensus        86 Dv~eidaas~~~vd------------------dIR~Iie~~~~~P~~~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v  147 (491)
T PRK14964         86 DVIEIDAASNTSVD------------------DIKVILENSCYLPISSKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHV  147 (491)
T ss_pred             CEEEEecccCCCHH------------------HHHHHHHHHHhccccCCceEEEEeChHhCCHHHHHHHHHHHhCCCCCe
Confidence            12223322221111                  122222221111 12455689999997665556777888887655666


Q ss_pred             eEEEecC-chHHHhhh-cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchh
Q 036323          319 KILITTR-KETVARMM-ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAK  388 (583)
Q Consensus       319 ~IlvTtR-~~~v~~~~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~  388 (583)
                      .+|++|. ...+...+ .....+++.+++.++....+.+.+...+..-+    .+....|++.++|.+..+.
T Consensus       148 ~fIlatte~~Kl~~tI~SRc~~~~f~~l~~~el~~~L~~ia~~Egi~i~----~eAL~lIa~~s~GslR~al  215 (491)
T PRK14964        148 KFILATTEVKKIPVTIISRCQRFDLQKIPTDKLVEHLVDIAKKENIEHD----EESLKLIAENSSGSMRNAL  215 (491)
T ss_pred             EEEEEeCChHHHHHHHHHhheeeecccccHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHH
Confidence            6665554 44444333 23678999999999999999887754432222    4556779999999876443

>PF13173 AAA_14: AAA domain

Probab=98.56  E-value=2.8e-07  Score=80.37  Aligned_cols=119  Identities=24%  Similarity=0.221  Sum_probs=76.2

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQ  287 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  287 (583)
                      .+++.|.|+.|+|||||+++++++..   ....+++++..+.......                +.+ +.+.+.+....+
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~~---~~~~~~yi~~~~~~~~~~~----------------~~~-~~~~~~~~~~~~   61 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDLL---PPENILYINFDDPRDRRLA----------------DPD-LLEYFLELIKPG   61 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhc---ccccceeeccCCHHHHHHh----------------hhh-hHHHHHHhhccC
Confidence            36899999999999999999987532   2344566665543210000                000 223333333447


Q ss_pred             ceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCchHHHhh-----h-cCCCeEEcCCCChHH
Q 036323          288 KFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKETVARM-----M-ESTDIVYVQGLSELE  348 (583)
Q Consensus       288 ~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~~v~~~-----~-~~~~~~~l~~L~~~e  348 (583)
                      +.+|+||++...  ..|......+.+..+..+|++|+.+......     + +....++|.||+-.|
T Consensus        62 ~~~i~iDEiq~~--~~~~~~lk~l~d~~~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E  126 (128)
T PF13173_consen   62 KKYIFIDEIQYL--PDWEDALKFLVDNGPNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFRE  126 (128)
T ss_pred             CcEEEEehhhhh--ccHHHHHHHHHHhccCceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHH
Confidence            889999999543  4787766666665567889999987655532     1 124567899998776

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

Probab=98.55  E-value=5.8e-07  Score=99.72  Aligned_cols=172  Identities=18%  Similarity=0.268  Sum_probs=96.7

Q ss_pred             CceeechhHHH---HHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHH
Q 036323          180 SEVRGRDEEMR---SIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVA  256 (583)
Q Consensus       180 ~~~vGR~~e~~---~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~  256 (583)
                      .+|+|.+..+.   .|.+.+..       .....+.|+|++|+||||||+.+++.  ...+|.   .++... ...    
T Consensus        28 dd~vGQe~ii~~~~~L~~~i~~-------~~~~slLL~GPpGtGKTTLA~aIA~~--~~~~f~---~lna~~-~~i----   90 (725)
T PRK13341         28 EEFVGQDHILGEGRLLRRAIKA-------DRVGSLILYGPPGVGKTTLARIIANH--TRAHFS---SLNAVL-AGV----   90 (725)
T ss_pred             HHhcCcHHHhhhhHHHHHHHhc-------CCCceEEEECCCCCCHHHHHHHHHHH--hcCcce---eehhhh-hhh----
Confidence            46899988774   45555543       23556789999999999999999974  333331   111110 000    


Q ss_pred             HHHHHHhhcCccccccHHHHHHHHHHHh--cCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEE--ecCchH--HH
Q 036323          257 KATIEELEGSAIDLHELNSLLRRIGANI--AGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILI--TTRKET--VA  330 (583)
Q Consensus       257 ~~il~~l~~~~~~~~~~~~~~~~l~~~l--~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~Ilv--TtR~~~--v~  330 (583)
                                    .+.........+.+  .+++.+|||||++.-+...++.|...+.   .|+.+++  ||.+..  +.
T Consensus        91 --------------~dir~~i~~a~~~l~~~~~~~IL~IDEIh~Ln~~qQdaLL~~lE---~g~IiLI~aTTenp~~~l~  153 (725)
T PRK13341         91 --------------KDLRAEVDRAKERLERHGKRTILFIDEVHRFNKAQQDALLPWVE---NGTITLIGATTENPYFEVN  153 (725)
T ss_pred             --------------HHHHHHHHHHHHHhhhcCCceEEEEeChhhCCHHHHHHHHHHhc---CceEEEEEecCCChHhhhh
Confidence                          01111112221111  2467799999997655445555554433   3555555  344432  22


Q ss_pred             hhh-cCCCeEEcCCCChHHHHHHHHHHhccCC---CCCCCchHHHHHHHHhhhCCCCcc
Q 036323          331 RMM-ESTDIVYVQGLSELECWSLFRRFALSGR---TPSECDQLEGIGRGIVRKCKGLPL  385 (583)
Q Consensus       331 ~~~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~---~~~~~~~~~~~~~~I~~~c~GlPL  385 (583)
                      ..+ .....+.+.+|+.++...++.+.+-...   ......-.++....|++.+.|..-
T Consensus       154 ~aL~SR~~v~~l~pLs~edi~~IL~~~l~~~~~~~g~~~v~I~deaL~~La~~s~GD~R  212 (725)
T PRK13341        154 KALVSRSRLFRLKSLSDEDLHQLLKRALQDKERGYGDRKVDLEPEAEKHLVDVANGDAR  212 (725)
T ss_pred             hHhhccccceecCCCCHHHHHHHHHHHHHHHHhhcCCcccCCCHHHHHHHHHhCCCCHH
Confidence            211 2256799999999999999987653100   000111124556777888877544

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=98.55  E-value=1.3e-06  Score=96.15  Aligned_cols=203  Identities=18%  Similarity=0.162  Sum_probs=120.6

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccC---ceEEEEEeCCC---CChH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNF---EIRVRVCVSDP---FDEF  253 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f---~~~~wv~~~~~---~~~~  253 (583)
                      +.++|++..+..+.+.+...       ....+.|+|++|+||||||+.+++.......+   ...-|+.+...   .+..
T Consensus       154 ~~iiGqs~~~~~l~~~ia~~-------~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~~~~l~~d~~  226 (615)
T TIGR02903       154 SEIVGQERAIKALLAKVASP-------FPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVDGTTLRWDPR  226 (615)
T ss_pred             HhceeCcHHHHHHHHHHhcC-------CCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEechhccCCHH
Confidence            46899999999988887432       24578999999999999999998754322222   12334444321   1122


Q ss_pred             HHHHHH---------------HHHhhcCc----------------ccccc-HHHHHHHHHHHhcCCceeEEEcCCCcccc
Q 036323          254 NVAKAT---------------IEELEGSA----------------IDLHE-LNSLLRRIGANIAGQKFFMVLDNLWTDDY  301 (583)
Q Consensus       254 ~~~~~i---------------l~~l~~~~----------------~~~~~-~~~~~~~l~~~l~~k~~LlVlDdv~~~~~  301 (583)
                      .+...+               +...+...                ++... ....+..|.+.++++++.++-|+.|..+.
T Consensus       227 ~i~~~llg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~Ld~~~Q~~Ll~~Le~~~v~~~~~~~~~~~~  306 (615)
T TIGR02903       227 EVTNPLLGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGELDPLLQNKLLKVLEDKRVEFSSSYYDPDDP  306 (615)
T ss_pred             HHhHHhcCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccCCHHHHHHHHHHHhhCeEEeecceeccCCc
Confidence            211111               11111000                00011 12356777888888888888887877766


Q ss_pred             cchHhhHHhhccCCCCceEEE--ecCchHH-Hhhh-cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHh
Q 036323          302 RKWEPFRNCLMNGLRGSKILI--TTRKETV-ARMM-ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIV  377 (583)
Q Consensus       302 ~~~~~l~~~l~~~~~gs~Ilv--TtR~~~v-~~~~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~  377 (583)
                      ..|..+...+....+...+++  ||++... ...+ .....+.+.+++.++.+.++.+.+..... .   -..++.+.|.
T Consensus       307 ~~~~~ik~~~~~~~~~~~VLI~aTt~~~~~l~~aLrSR~~~i~~~pls~edi~~Il~~~a~~~~v-~---ls~eal~~L~  382 (615)
T TIGR02903       307 NVPKYIKKLFEEGAPADFVLIGATTRDPEEINPALRSRCAEVFFEPLTPEDIALIVLNAAEKINV-H---LAAGVEELIA  382 (615)
T ss_pred             ccchhhhhhcccCccceEEEEEeccccccccCHHHHhceeEEEeCCCCHHHHHHHHHHHHHHcCC-C---CCHHHHHHHH
Confidence            778887766666555555555  5664431 1111 12456789999999999999987643211 1   1144556666


Q ss_pred             hhCCCCccchhhhhhh
Q 036323          378 RKCKGLPLAAKTIGSL  393 (583)
Q Consensus       378 ~~c~GlPLai~~~~~~  393 (583)
                      +.+..-+-++..++..
T Consensus       383 ~ys~~gRraln~L~~~  398 (615)
T TIGR02903       383 RYTIEGRKAVNILADV  398 (615)
T ss_pred             HCCCcHHHHHHHHHHH
Confidence            6665556777766443

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.

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=98.55  E-value=1.2e-06  Score=94.89  Aligned_cols=195  Identities=13%  Similarity=0.153  Sum_probs=111.6

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      -.+++|.+..++.|..++....      -.+.+.++|+.|+||||+|+.+.+...-.....   +    ..+........
T Consensus        15 FddIIGQe~vv~~L~~ai~~~r------l~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~---~----~pCg~C~sCr~   81 (709)
T PRK08691         15 FADLVGQEHVVKALQNALDEGR------LHHAYLLTGTRGVGKTTIARILAKSLNCENAQH---G----EPCGVCQSCTQ   81 (709)
T ss_pred             HHHHcCcHHHHHHHHHHHHcCC------CCeEEEEECCCCCcHHHHHHHHHHHhcccCCCC---C----CCCcccHHHHH
Confidence            3578999999999999986432      356789999999999999998876321111000   0    00000001111


Q ss_pred             HHHH-----hhcC---ccccccHHHHHHHHHHH-hcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCc-hH
Q 036323          259 TIEE-----LEGS---AIDLHELNSLLRRIGAN-IAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRK-ET  328 (583)
Q Consensus       259 il~~-----l~~~---~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~-~~  328 (583)
                      +...     +...   .....++.+++...... ..+++-++|||++...+....+.|+..+......+++|++|.+ ..
T Consensus        82 i~~g~~~DvlEidaAs~~gVd~IRelle~a~~~P~~gk~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~fILaTtd~~k  161 (709)
T PRK08691         82 IDAGRYVDLLEIDAASNTGIDNIREVLENAQYAPTAGKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPHK  161 (709)
T ss_pred             HhccCccceEEEeccccCCHHHHHHHHHHHHhhhhhCCcEEEEEECccccCHHHHHHHHHHHHhCCCCcEEEEEeCCccc
Confidence            1000     0000   00111122222221111 1356679999999765554566677777654455666666644 33


Q ss_pred             HHhh-hcCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhh
Q 036323          329 VARM-MESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTI  390 (583)
Q Consensus       329 v~~~-~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~  390 (583)
                      +... .+....+.+.+++.++....+.+.+-..+...+    .+....|++.++|.+.-+..+
T Consensus       162 L~~TIrSRC~~f~f~~Ls~eeI~~~L~~Il~kEgi~id----~eAL~~Ia~~A~GslRdAlnL  220 (709)
T PRK08691        162 VPVTVLSRCLQFVLRNMTAQQVADHLAHVLDSEKIAYE----PPALQLLGRAAAGSMRDALSL  220 (709)
T ss_pred             cchHHHHHHhhhhcCCCCHHHHHHHHHHHHHHcCCCcC----HHHHHHHHHHhCCCHHHHHHH
Confidence            2222 222456888999999999999887654332222    456778999999988654443

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=98.54  E-value=1.6e-06  Score=88.45  Aligned_cols=198  Identities=14%  Similarity=0.108  Sum_probs=116.7

Q ss_pred             cCCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccc--cCceEEEEEeCCCCChHHH
Q 036323          178 DVSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVIN--NFEIRVRVCVSDPFDEFNV  255 (583)
Q Consensus       178 ~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~--~f~~~~wv~~~~~~~~~~~  255 (583)
                      .-..++|-+...+.|...+....      ....+.|+|+.|+||||+|..+.+..--..  .+...   ...........
T Consensus        21 ~~~~l~Gh~~a~~~L~~a~~~gr------l~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~---~~~~~~~~c~~   91 (351)
T PRK09112         21 ENTRLFGHEEAEAFLAQAYREGK------LHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPE---TLADPDPASPV   91 (351)
T ss_pred             chhhccCcHHHHHHHHHHHHcCC------CCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCcc---ccCCCCCCCHH
Confidence            44578999999999999986443      456788999999999999988876321100  01100   00111111122


Q ss_pred             HHHHHHH-------hhcC--c-----cccccHHHHHHHHHHHh-----cCCceeEEEcCCCcccccchHhhHHhhccCCC
Q 036323          256 AKATIEE-------LEGS--A-----IDLHELNSLLRRIGANI-----AGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLR  316 (583)
Q Consensus       256 ~~~il~~-------l~~~--~-----~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~  316 (583)
                      .+.+...       +..+  .     ...-.++++ ..+.+++     .++.-++|+|+++..+....+.|...+.....
T Consensus        92 c~~i~~~~hPdl~~l~~~~~~~~~~~~~~I~vd~i-R~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LEEpp~  170 (351)
T PRK09112         92 WRQIAQGAHPNLLHITRPFDEKTGKFKTAITVDEI-RRVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEPPA  170 (351)
T ss_pred             HHHHHcCCCCCEEEeecccccccccccccCCHHHH-HHHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHhcCCC
Confidence            2332221       1000  0     011112332 2333333     35667999999987777777778877765444


Q ss_pred             CceEE-EecCchHHHhhhc-CCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhhh
Q 036323          317 GSKIL-ITTRKETVARMME-STDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIG  391 (583)
Q Consensus       317 gs~Il-vTtR~~~v~~~~~-~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~  391 (583)
                      ++.+| +|++...+..... ....+++.+++.++...++.+.....   .   ...+....|++.++|.|.....+.
T Consensus       171 ~~~fiLit~~~~~llptIrSRc~~i~l~pl~~~~~~~~L~~~~~~~---~---~~~~~~~~i~~~s~G~pr~Al~ll  241 (351)
T PRK09112        171 RALFILISHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHLGSSQ---G---SDGEITEALLQRSKGSVRKALLLL  241 (351)
T ss_pred             CceEEEEECChhhccHHHHhhccEEEecCCCHHHHHHHHHHhhccc---C---CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            45544 4444433332222 25789999999999999998843211   1   113446779999999998665443

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

Probab=98.53  E-value=2.9e-06  Score=82.91  Aligned_cols=197  Identities=18%  Similarity=0.118  Sum_probs=120.7

Q ss_pred             hHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCcccc----ccCceEEEEEeCCCCChHHHHHHHHHH
Q 036323          187 EEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVI----NNFEIRVRVCVSDPFDEFNVAKATIEE  262 (583)
Q Consensus       187 ~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~----~~f~~~~wv~~~~~~~~~~~~~~il~~  262 (583)
                      +-+++|.++|..+.    ....+.+.|+|.+|+|||++++++.+..-..    ..--.++.+.....++...++..|+.+
T Consensus        44 ~~L~~L~~Ll~~P~----~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~  119 (302)
T PF05621_consen   44 EALDRLEELLEYPK----RHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSAILEA  119 (302)
T ss_pred             HHHHHHHHHHhCCc----ccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHHHHHH
Confidence            45677777776553    4567789999999999999999998631111    111246777888889999999999999


Q ss_pred             hhcCccccccHHHHHHHHHHHhcC-CceeEEEcCCCccc---ccchHhhHHhh---ccCCCCceEEEecCchHHHhhh--
Q 036323          263 LEGSAIDLHELNSLLRRIGANIAG-QKFFMVLDNLWTDD---YRKWEPFRNCL---MNGLRGSKILITTRKETVARMM--  333 (583)
Q Consensus       263 l~~~~~~~~~~~~~~~~l~~~l~~-k~~LlVlDdv~~~~---~~~~~~l~~~l---~~~~~gs~IlvTtR~~~v~~~~--  333 (583)
                      ++.+.........+.......++. +--+||+|.+++.-   ......+...|   .+.-.=+-|.+-|+...-+-..  
T Consensus       120 lgaP~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~~A~~al~~D~  199 (302)
T PF05621_consen  120 LGAPYRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTREAYRALRTDP  199 (302)
T ss_pred             hCcccCCCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccHHHHHHhccCH
Confidence            998865555555555555555543 34599999996521   11222333333   3333345566666653222111  


Q ss_pred             ---cCCCeEEcCCCChHH-HHHHHHHHh--ccCCCCCCCchHHHHHHHHhhhCCCCccchh
Q 036323          334 ---ESTDIVYVQGLSELE-CWSLFRRFA--LSGRTPSECDQLEGIGRGIVRKCKGLPLAAK  388 (583)
Q Consensus       334 ---~~~~~~~l~~L~~~e-a~~Lf~~~a--~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~  388 (583)
                         .-..++.++....++ ...|+....  ..-.. ...-...++++.|...++|+.=-+.
T Consensus       200 QLa~RF~~~~Lp~W~~d~ef~~LL~s~e~~LPLr~-~S~l~~~~la~~i~~~s~G~iG~l~  259 (302)
T PF05621_consen  200 QLASRFEPFELPRWELDEEFRRLLASFERALPLRK-PSNLASPELARRIHERSEGLIGELS  259 (302)
T ss_pred             HHHhccCCccCCCCCCCcHHHHHHHHHHHhCCCCC-CCCCCCHHHHHHHHHHcCCchHHHH
Confidence               125667777776554 445554432  11111 1222346788999999999765443

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

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.53  E-value=1.8e-06  Score=93.75  Aligned_cols=198  Identities=13%  Similarity=0.136  Sum_probs=113.6

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCcccccc--CceEEEEEeCCCCChHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINN--FEIRVRVCVSDPFDEFNVA  256 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~--f~~~~wv~~~~~~~~~~~~  256 (583)
                      -.++||-+.-++.|.+++....      -...+.++|..|+||||+|+.+.+...-...  ....-    ...+......
T Consensus        15 f~dviGQe~vv~~L~~~l~~~r------l~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~----~~pCg~C~~C   84 (618)
T PRK14951         15 FSEMVGQEHVVQALTNALTQQR------LHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGIT----ATPCGVCQAC   84 (618)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCC------CCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCC----CCCCCccHHH
Confidence            3568999999999999886543      3567789999999999999888653111000  00000    0011111222


Q ss_pred             HHHHHHhhc-----CccccccHHHHHHHHHHH----hcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEec-Cc
Q 036323          257 KATIEELEG-----SAIDLHELNSLLRRIGAN----IAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITT-RK  326 (583)
Q Consensus       257 ~~il~~l~~-----~~~~~~~~~~~~~~l~~~----l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTt-R~  326 (583)
                      ..|...-..     .......++++.+.+...    ..++.-++|||+++..+...++.++..+......+.+|++| ..
T Consensus        85 ~~i~~g~h~D~~eldaas~~~Vd~iReli~~~~~~p~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd~  164 (618)
T PRK14951         85 RDIDSGRFVDYTELDAASNRGVDEVQQLLEQAVYKPVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDP  164 (618)
T ss_pred             HHHHcCCCCceeecCcccccCHHHHHHHHHHHHhCcccCCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECCc
Confidence            222110000     000011122222222111    12345589999998777667788877776655565665554 43


Q ss_pred             hHHHhh-hcCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhh
Q 036323          327 ETVARM-MESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTI  390 (583)
Q Consensus       327 ~~v~~~-~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~  390 (583)
                      ..+... ......+++.+++.++....+.+.+...+...+    .+....|++.++|.+.-+..+
T Consensus       165 ~kil~TIlSRc~~~~f~~Ls~eei~~~L~~i~~~egi~ie----~~AL~~La~~s~GslR~al~l  225 (618)
T PRK14951        165 QKVPVTVLSRCLQFNLRPMAPETVLEHLTQVLAAENVPAE----PQALRLLARAARGSMRDALSL  225 (618)
T ss_pred             hhhhHHHHHhceeeecCCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHHHH
Confidence            444322 233678999999999999999887644332222    455677899999977654443

>PRK08727 hypothetical protein; Validated

Probab=98.53  E-value=2.7e-06  Score=82.24  Aligned_cols=149  Identities=15%  Similarity=0.054  Sum_probs=88.3

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQ  287 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  287 (583)
                      ...+.|+|.+|+|||+|++.+++..  ......+.++++.+      ....+.              .....    + .+
T Consensus        41 ~~~l~l~G~~G~GKThL~~a~~~~~--~~~~~~~~y~~~~~------~~~~~~--------------~~~~~----l-~~   93 (233)
T PRK08727         41 SDWLYLSGPAGTGKTHLALALCAAA--EQAGRSSAYLPLQA------AAGRLR--------------DALEA----L-EG   93 (233)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH--HHcCCcEEEEeHHH------hhhhHH--------------HHHHH----H-hc
Confidence            3459999999999999999998742  22223445555322      111100              11111    1 23


Q ss_pred             ceeEEEcCCCccc-ccchHh-hHHhhcc-CCCCceEEEecCch---------HHHhhhcCCCeEEcCCCChHHHHHHHHH
Q 036323          288 KFFMVLDNLWTDD-YRKWEP-FRNCLMN-GLRGSKILITTRKE---------TVARMMESTDIVYVQGLSELECWSLFRR  355 (583)
Q Consensus       288 ~~LlVlDdv~~~~-~~~~~~-l~~~l~~-~~~gs~IlvTtR~~---------~v~~~~~~~~~~~l~~L~~~ea~~Lf~~  355 (583)
                      .-+|||||+.... ...|.. +...+.. ...|..||+||+..         .+...+.....+++.+++.++-..++.+
T Consensus        94 ~dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~~~~dL~SRl~~~~~~~l~~~~~e~~~~iL~~  173 (233)
T PRK08727         94 RSLVALDGLESIAGQREDEVALFDFHNRARAAGITLLYTARQMPDGLALVLPDLRSRLAQCIRIGLPVLDDVARAAVLRE  173 (233)
T ss_pred             CCEEEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECCCChhhhhhhhHHHHHHHhcCceEEecCCCHHHHHHHHHH
Confidence            3599999995422 122332 3333322 23456699998852         2222334456899999999999999998


Q ss_pred             HhccCCCCCCCchHHHHHHHHhhhCCCCccch
Q 036323          356 FALSGRTPSECDQLEGIGRGIVRKCKGLPLAA  387 (583)
Q Consensus       356 ~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai  387 (583)
                      .+......-    -++....|++.++|-.-.+
T Consensus       174 ~a~~~~l~l----~~e~~~~La~~~~rd~r~~  201 (233)
T PRK08727        174 RAQRRGLAL----DEAAIDWLLTHGERELAGL  201 (233)
T ss_pred             HHHHcCCCC----CHHHHHHHHHhCCCCHHHH
Confidence            765432211    2556777888888765544

>PRK08084 DNA replication initiation factor; Provisional

Probab=98.53  E-value=2.2e-06  Score=83.05  Aligned_cols=155  Identities=17%  Similarity=0.094  Sum_probs=91.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQ  287 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  287 (583)
                      .+.+.|+|++|+|||+|++.+++..  ...-..+.++++.....                    ...+..+.+    . +
T Consensus        45 ~~~l~l~Gp~G~GKThLl~a~~~~~--~~~~~~v~y~~~~~~~~--------------------~~~~~~~~~----~-~   97 (235)
T PRK08084         45 SGYIYLWSREGAGRSHLLHAACAEL--SQRGRAVGYVPLDKRAW--------------------FVPEVLEGM----E-Q   97 (235)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH--HhCCCeEEEEEHHHHhh--------------------hhHHHHHHh----h-h
Confidence            3578899999999999999988742  22223345555432100                    001111122    1 1


Q ss_pred             ceeEEEcCCCccc-ccchHh-hHHhhcc-CCCC-ceEEEecCch---------HHHhhhcCCCeEEcCCCChHHHHHHHH
Q 036323          288 KFFMVLDNLWTDD-YRKWEP-FRNCLMN-GLRG-SKILITTRKE---------TVARMMESTDIVYVQGLSELECWSLFR  354 (583)
Q Consensus       288 ~~LlVlDdv~~~~-~~~~~~-l~~~l~~-~~~g-s~IlvTtR~~---------~v~~~~~~~~~~~l~~L~~~ea~~Lf~  354 (583)
                      --+|+|||+.... ...|+. +...+.. ...| .++|+||+..         .+...+....++++.++++++-.+++.
T Consensus        98 ~dlliiDdi~~~~~~~~~~~~lf~l~n~~~e~g~~~li~ts~~~p~~l~~~~~~L~SRl~~g~~~~l~~~~~~~~~~~l~  177 (235)
T PRK08084         98 LSLVCIDNIECIAGDELWEMAIFDLYNRILESGRTRLLITGDRPPRQLNLGLPDLASRLDWGQIYKLQPLSDEEKLQALQ  177 (235)
T ss_pred             CCEEEEeChhhhcCCHHHHHHHHHHHHHHHHcCCCeEEEeCCCChHHcCcccHHHHHHHhCCceeeecCCCHHHHHHHHH
Confidence            2489999995432 124443 3333322 1233 4688888754         233345556899999999999999988


Q ss_pred             HHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhhhhh
Q 036323          355 RFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSL  393 (583)
Q Consensus       355 ~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~~~  393 (583)
                      +.+...+.    .--+++..-|++.+.|..-.+..+-..
T Consensus       178 ~~a~~~~~----~l~~~v~~~L~~~~~~d~r~l~~~l~~  212 (235)
T PRK08084        178 LRARLRGF----ELPEDVGRFLLKRLDREMRTLFMTLDQ  212 (235)
T ss_pred             HHHHHcCC----CCCHHHHHHHHHhhcCCHHHHHHHHHH
Confidence            76643221    122667788899988876655544433

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=98.50  E-value=3.1e-06  Score=79.12  Aligned_cols=91  Identities=11%  Similarity=0.079  Sum_probs=63.9

Q ss_pred             CCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCch-HHHhhh-cCCCeEEcCCCChHHHHHHHHHHhccCCCC
Q 036323          286 GQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKE-TVARMM-ESTDIVYVQGLSELECWSLFRRFALSGRTP  363 (583)
Q Consensus       286 ~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~-~v~~~~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~  363 (583)
                      +.+-++|+||++.-....++.|...+......+.+|++|++. .+...+ .....+++.+++.++..+.+.+..      
T Consensus        95 ~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~i~sr~~~~~~~~~~~~~~~~~l~~~g------  168 (188)
T TIGR00678        95 SGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTIRSRCQVLPFPPLSEEALLQWLIRQG------  168 (188)
T ss_pred             CCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHHHHhhcEEeeCCCCCHHHHHHHHHHcC------
Confidence            456689999997655556777877776655566677666543 222222 225689999999999988888761      


Q ss_pred             CCCchHHHHHHHHhhhCCCCccc
Q 036323          364 SECDQLEGIGRGIVRKCKGLPLA  386 (583)
Q Consensus       364 ~~~~~~~~~~~~I~~~c~GlPLa  386 (583)
                      -.    .+.+..|++.++|.|..
T Consensus       169 i~----~~~~~~i~~~~~g~~r~  187 (188)
T TIGR00678       169 IS----EEAAELLLALAGGSPGA  187 (188)
T ss_pred             CC----HHHHHHHHHHcCCCccc
Confidence            11    45678899999999864

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.

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=98.50  E-value=3.8e-06  Score=86.24  Aligned_cols=197  Identities=11%  Similarity=0.019  Sum_probs=114.1

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCcccccc--Cc-eEEEEEeCCCCChHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINN--FE-IRVRVCVSDPFDEFNV  255 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~--f~-~~~wv~~~~~~~~~~~  255 (583)
                      -.+++|.+...+.|.+.+....      -...+.++|+.|+||+|+|..+.+..--...  .. +..-............
T Consensus        18 ~~~iiGq~~~~~~L~~~~~~~r------l~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~~l~~~~~c~~   91 (365)
T PRK07471         18 TTALFGHAAAEAALLDAYRSGR------LHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPTSLAIDPDHPV   91 (365)
T ss_pred             hhhccChHHHHHHHHHHHHcCC------CCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccccccCCCCChH
Confidence            3578999999999999886543      4557889999999999999777553110000  00 0000000000000111


Q ss_pred             HHHHHHHhhcC---------c-----cccccHHHHHHHHHHHh-----cCCceeEEEcCCCcccccchHhhHHhhccCCC
Q 036323          256 AKATIEELEGS---------A-----IDLHELNSLLRRIGANI-----AGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLR  316 (583)
Q Consensus       256 ~~~il~~l~~~---------~-----~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~  316 (583)
                      .+.+...-...         .     ...-.+++ ++.+.+.+     .+.+-++|||+++..+....+.|...+.....
T Consensus        92 c~~i~~~~HPDl~~i~~~~~~~~~~~~~~I~Vdq-iR~l~~~~~~~~~~~~~kVviIDead~m~~~aanaLLK~LEepp~  170 (365)
T PRK07471         92 ARRIAAGAHGGLLTLERSWNEKGKRLRTVITVDE-VRELISFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLEEPPA  170 (365)
T ss_pred             HHHHHccCCCCeEEEecccccccccccccccHHH-HHHHHHHhCcCcccCCCEEEEEechHhcCHHHHHHHHHHHhcCCC
Confidence            11111110000         0     00112233 22333333     25567999999988777778888888866555


Q ss_pred             CceEEEecCchH-HHhhh-cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhh
Q 036323          317 GSKILITTRKET-VARMM-ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTI  390 (583)
Q Consensus       317 gs~IlvTtR~~~-v~~~~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~  390 (583)
                      ++.+|++|.+.. +...+ .....+.+.+++.++..+++......    ..    ......+++.++|.|+....+
T Consensus       171 ~~~~IL~t~~~~~llpti~SRc~~i~l~~l~~~~i~~~L~~~~~~----~~----~~~~~~l~~~s~Gsp~~Al~l  238 (365)
T PRK07471        171 RSLFLLVSHAPARLLPTIRSRCRKLRLRPLAPEDVIDALAAAGPD----LP----DDPRAALAALAEGSVGRALRL  238 (365)
T ss_pred             CeEEEEEECCchhchHHhhccceEEECCCCCHHHHHHHHHHhccc----CC----HHHHHHHHHHcCCCHHHHHHH
Confidence            666777666543 33222 23678999999999999999876411    11    112256899999999866544

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.49  E-value=1.8e-06  Score=90.40  Aligned_cols=200  Identities=13%  Similarity=0.130  Sum_probs=112.2

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEE-eCCCCChHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVC-VSDPFDEFNVAK  257 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~-~~~~~~~~~~~~  257 (583)
                      -.+++|.+.-++.|..++..+.      -...+.++|++|+||||+|..+++...-...+....|.. ...+...-...+
T Consensus        15 ~~eiiGq~~~~~~L~~~~~~~~------~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~c~~c~~c~   88 (397)
T PRK14955         15 FADITAQEHITRTIQNSLRMGR------VGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEPCGECESCR   88 (397)
T ss_pred             HhhccChHHHHHHHHHHHHhCC------cceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCCCCCCHHHH
Confidence            3578999999999998885432      345688999999999999988876321111110000110 011111111222


Q ss_pred             HHHHHhhcC-----ccccccHHHHHHHHHHHh-----cCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEec-Cc
Q 036323          258 ATIEELEGS-----AIDLHELNSLLRRIGANI-----AGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITT-RK  326 (583)
Q Consensus       258 ~il~~l~~~-----~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTt-R~  326 (583)
                      .+.......     .......+++.+ +.+.+     .+++-++|+|+++.-....++.+...+....+.+.+|++| +.
T Consensus        89 ~~~~~~~~n~~~~~~~~~~~id~Ir~-l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t~~~  167 (397)
T PRK14955         89 DFDAGTSLNISEFDAASNNSVDDIRL-LRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTEL  167 (397)
T ss_pred             HHhcCCCCCeEeecccccCCHHHHHH-HHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEeCCh
Confidence            221110000     001111222222 22222     3455689999997655556778888776655566665554 44


Q ss_pred             hHHHhhhc-CCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhh
Q 036323          327 ETVARMME-STDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKT  389 (583)
Q Consensus       327 ~~v~~~~~-~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~  389 (583)
                      ..+...+. ....+++.+++.++....+...+-..+..-    ..+.+..|++.++|.+--+..
T Consensus       168 ~kl~~tl~sR~~~v~f~~l~~~ei~~~l~~~~~~~g~~i----~~~al~~l~~~s~g~lr~a~~  227 (397)
T PRK14955        168 HKIPATIASRCQRFNFKRIPLEEIQQQLQGICEAEGISV----DADALQLIGRKAQGSMRDAQS  227 (397)
T ss_pred             HHhHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHcCCCC----CHHHHHHHHHHcCCCHHHHHH
Confidence            44433222 245788999999999888887663322111    255678899999998754433

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=98.49  E-value=3.1e-06  Score=87.69  Aligned_cols=194  Identities=11%  Similarity=0.095  Sum_probs=109.2

Q ss_pred             CceeechhHHHHHHHHhhcCCCCC---CCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQ---QTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVA  256 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~---~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~  256 (583)
                      .+++|.+.-++.|.+++.......   ...-.+.+.++|++|+|||++|..+.+...-...-        ......-...
T Consensus         5 ~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~--------~~~Cg~C~~C   76 (394)
T PRK07940          5 DDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPD--------EPGCGECRAC   76 (394)
T ss_pred             hhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCC--------CCCCCCCHHH
Confidence            468899999999999997543000   01135678899999999999998886521100000        0000001111


Q ss_pred             HHHHHHhhc---------CccccccHHHHHHHHHHH-hcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCc
Q 036323          257 KATIEELEG---------SAIDLHELNSLLRRIGAN-IAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRK  326 (583)
Q Consensus       257 ~~il~~l~~---------~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~  326 (583)
                      ..+...-..         ......++..+.+.+... ..+++-++++|+++..+....+.|...+.....++.+|++|.+
T Consensus        77 ~~~~~~~hpD~~~i~~~~~~i~i~~iR~l~~~~~~~p~~~~~kViiIDead~m~~~aanaLLk~LEep~~~~~fIL~a~~  156 (394)
T PRK07940         77 RTVLAGTHPDVRVVAPEGLSIGVDEVRELVTIAARRPSTGRWRIVVIEDADRLTERAANALLKAVEEPPPRTVWLLCAPS  156 (394)
T ss_pred             HHHhcCCCCCEEEeccccccCCHHHHHHHHHHHHhCcccCCcEEEEEechhhcCHHHHHHHHHHhhcCCCCCeEEEEECC
Confidence            111100000         000111122222222111 1245558899999776666666777777665556666666655


Q ss_pred             h-HHHhhh-cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhh
Q 036323          327 E-TVARMM-ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTI  390 (583)
Q Consensus       327 ~-~v~~~~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~  390 (583)
                      . .+...+ .....+.+.+++.++....+.+...     ..    .+.+..+++.++|.|.....+
T Consensus       157 ~~~llpTIrSRc~~i~f~~~~~~~i~~~L~~~~~-----~~----~~~a~~la~~s~G~~~~A~~l  213 (394)
T PRK07940        157 PEDVLPTIRSRCRHVALRTPSVEAVAEVLVRRDG-----VD----PETARRAARASQGHIGRARRL  213 (394)
T ss_pred             hHHChHHHHhhCeEEECCCCCHHHHHHHHHHhcC-----CC----HHHHHHHHHHcCCCHHHHHHH
Confidence            3 333332 2357899999999999888875321     11    344677899999999755433

>PRK05642 DNA replication initiation factor; Validated

Probab=98.49  E-value=2.6e-06  Score=82.43  Aligned_cols=156  Identities=17%  Similarity=0.163  Sum_probs=92.4

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQ  287 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  287 (583)
                      ...+.|+|.+|+|||.|++.+++..  ...-..++|++..+      +...              ...+.+.    +.+-
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~~--~~~~~~v~y~~~~~------~~~~--------------~~~~~~~----~~~~   98 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLRF--EQRGEPAVYLPLAE------LLDR--------------GPELLDN----LEQY   98 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH--HhCCCcEEEeeHHH------HHhh--------------hHHHHHh----hhhC
Confidence            4678899999999999999998732  22223455665431      1110              0112222    2222


Q ss_pred             ceeEEEcCCCccc-ccchHh-hHHhhcc-CCCCceEEEecCchH---------HHhhhcCCCeEEcCCCChHHHHHHHHH
Q 036323          288 KFFMVLDNLWTDD-YRKWEP-FRNCLMN-GLRGSKILITTRKET---------VARMMESTDIVYVQGLSELECWSLFRR  355 (583)
Q Consensus       288 ~~LlVlDdv~~~~-~~~~~~-l~~~l~~-~~~gs~IlvTtR~~~---------v~~~~~~~~~~~l~~L~~~ea~~Lf~~  355 (583)
                       =+||+||+.... ...|.. +...+.. ...|..+|+|++...         +...+.....+++.+++.++-..+++.
T Consensus        99 -d~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~~~~e~~~~il~~  177 (234)
T PRK05642         99 -ELVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRGLSDEDKLRALQL  177 (234)
T ss_pred             -CEEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCCCCHHHHHHHHHH
Confidence             278899995321 234443 4444432 234677888887532         112233357789999999999999986


Q ss_pred             HhccCCCCCCCchHHHHHHHHhhhCCCCccchhhhhhhh
Q 036323          356 FALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLL  394 (583)
Q Consensus       356 ~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~~~L  394 (583)
                      ++......    --+++...|++.+.|..-.+..+-..|
T Consensus       178 ka~~~~~~----l~~ev~~~L~~~~~~d~r~l~~~l~~l  212 (234)
T PRK05642        178 RASRRGLH----LTDEVGHFILTRGTRSMSALFDLLERL  212 (234)
T ss_pred             HHHHcCCC----CCHHHHHHHHHhcCCCHHHHHHHHHHH
Confidence            66432211    125677888888888766655544433

>PRK09087 hypothetical protein; Validated

Probab=98.49  E-value=2.9e-06  Score=81.42  Aligned_cols=143  Identities=13%  Similarity=0.149  Sum_probs=87.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQ  287 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  287 (583)
                      .+.+.|+|.+|+|||+|++.+++...       ..+++..      .+...++.                 .+    .+ 
T Consensus        44 ~~~l~l~G~~GsGKThLl~~~~~~~~-------~~~i~~~------~~~~~~~~-----------------~~----~~-   88 (226)
T PRK09087         44 SPVVVLAGPVGSGKTHLASIWREKSD-------ALLIHPN------EIGSDAAN-----------------AA----AE-   88 (226)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHhcC-------CEEecHH------HcchHHHH-----------------hh----hc-
Confidence            45689999999999999999887421       1133221      11111111                 11    11 


Q ss_pred             ceeEEEcCCCcccccchHhhHHhhcc-CCCCceEEEecCc---------hHHHhhhcCCCeEEcCCCChHHHHHHHHHHh
Q 036323          288 KFFMVLDNLWTDDYRKWEPFRNCLMN-GLRGSKILITTRK---------ETVARMMESTDIVYVQGLSELECWSLFRRFA  357 (583)
Q Consensus       288 ~~LlVlDdv~~~~~~~~~~l~~~l~~-~~~gs~IlvTtR~---------~~v~~~~~~~~~~~l~~L~~~ea~~Lf~~~a  357 (583)
                       -+|++||+..... .-+.+...+.. ...|..+|+|++.         ++....+.....+++++++.++-.+++.+.+
T Consensus        89 -~~l~iDDi~~~~~-~~~~lf~l~n~~~~~g~~ilits~~~p~~~~~~~~dL~SRl~~gl~~~l~~pd~e~~~~iL~~~~  166 (226)
T PRK09087         89 -GPVLIEDIDAGGF-DETGLFHLINSVRQAGTSLLMTSRLWPSSWNVKLPDLKSRLKAATVVEIGEPDDALLSQVIFKLF  166 (226)
T ss_pred             -CeEEEECCCCCCC-CHHHHHHHHHHHHhCCCeEEEECCCChHHhccccccHHHHHhCCceeecCCCCHHHHHHHHHHHH
Confidence             2788999954211 12234433322 2346778988873         2333445557899999999999999999887


Q ss_pred             ccCCCCCCCchHHHHHHHHhhhCCCCccchhhhh
Q 036323          358 LSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIG  391 (583)
Q Consensus       358 ~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~  391 (583)
                      -.....    --+++...|++.+.|..-++..+-
T Consensus       167 ~~~~~~----l~~ev~~~La~~~~r~~~~l~~~l  196 (226)
T PRK09087        167 ADRQLY----VDPHVVYYLVSRMERSLFAAQTIV  196 (226)
T ss_pred             HHcCCC----CCHHHHHHHHHHhhhhHHHHHHHH
Confidence            432211    126677888898888777766443

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.48  E-value=2.3e-06  Score=91.67  Aligned_cols=183  Identities=15%  Similarity=0.129  Sum_probs=111.1

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccc-------------------cCc
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVIN-------------------NFE  239 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~-------------------~f~  239 (583)
                      -.++||-+.-++.|.+++....      -...+.++|+.|+||||+|+.+.+...-..                   .|.
T Consensus        15 f~divGq~~v~~~L~~~~~~~~------l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~g~~~   88 (509)
T PRK14958         15 FQEVIGQAPVVRALSNALDQQY------LHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCREIDEGRFP   88 (509)
T ss_pred             HHHhcCCHHHHHHHHHHHHhCC------CCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHHhcCCCc
Confidence            3468999999999999996443      345678999999999999988876321111                   111


Q ss_pred             eEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHH-hcCCceeEEEcCCCcccccchHhhHHhhccCCCCc
Q 036323          240 IRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGAN-IAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGS  318 (583)
Q Consensus       240 ~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs  318 (583)
                      -++.++......+                  .+..++...+... ..++.-++|||+++.-+....+.+...+......+
T Consensus        89 d~~eidaas~~~v------------------~~iR~l~~~~~~~p~~~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~  150 (509)
T PRK14958         89 DLFEVDAASRTKV------------------EDTRELLDNIPYAPTKGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHV  150 (509)
T ss_pred             eEEEEcccccCCH------------------HHHHHHHHHHhhccccCCcEEEEEEChHhcCHHHHHHHHHHHhccCCCe
Confidence            1222221111111                  1122222221111 13455689999997766667777888776655567


Q ss_pred             eEEEecCc-hHHHhhh-cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhh
Q 036323          319 KILITTRK-ETVARMM-ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKT  389 (583)
Q Consensus       319 ~IlvTtR~-~~v~~~~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~  389 (583)
                      ++|++|.+ ..+...+ .....+++.+++.++....+.+.+-..+....    .+....|++.++|.+.-+..
T Consensus       151 ~fIlattd~~kl~~tI~SRc~~~~f~~l~~~~i~~~l~~il~~egi~~~----~~al~~ia~~s~GslR~al~  219 (509)
T PRK14958        151 KFILATTDHHKLPVTVLSRCLQFHLAQLPPLQIAAHCQHLLKEENVEFE----NAALDLLARAANGSVRDALS  219 (509)
T ss_pred             EEEEEECChHhchHHHHHHhhhhhcCCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCcHHHHHH
Confidence            66665543 3333222 22567889999999988877766543322222    44567789999998864443

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=98.48  E-value=1.4e-06  Score=93.52  Aligned_cols=197  Identities=12%  Similarity=0.126  Sum_probs=112.3

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      -..++|++..++.|.+.+....      -.+.+.++|+.|+||||+|+.+.+...-      .-|... ..+......+.
T Consensus        15 F~dIIGQe~iv~~L~~aI~~~r------l~hA~Lf~GP~GvGKTTlA~~lAk~L~C------~~~~~~-~~Cg~C~sCr~   81 (605)
T PRK05896         15 FKQIIGQELIKKILVNAILNNK------LTHAYIFSGPRGIGKTSIAKIFAKAINC------LNPKDG-DCCNSCSVCES   81 (605)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCC------CCceEEEECCCCCCHHHHHHHHHHHhcC------CCCCCC-CCCcccHHHHH
Confidence            3578999999999999885432      3467889999999999999988763211      111110 11111122222


Q ss_pred             HHHHhhcC--------ccccccHHHHHHHHHHH-hcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEec-CchH
Q 036323          259 TIEELEGS--------AIDLHELNSLLRRIGAN-IAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITT-RKET  328 (583)
Q Consensus       259 il~~l~~~--------~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTt-R~~~  328 (583)
                      +.......        .....++..+...+... ..+++-++|+|+++......+..|...+......+.+|++| ....
T Consensus        82 i~~~~h~DiieIdaas~igVd~IReIi~~~~~~P~~~~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~Tt~~~K  161 (605)
T PRK05896         82 INTNQSVDIVELDAASNNGVDEIRNIIDNINYLPTTFKYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQK  161 (605)
T ss_pred             HHcCCCCceEEeccccccCHHHHHHHHHHHHhchhhCCcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEECCChHh
Confidence            21111000        00111122222222211 12334479999997655556777777776554555555544 4334


Q ss_pred             HHhh-hcCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCcc-chhhhhh
Q 036323          329 VARM-MESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPL-AAKTIGS  392 (583)
Q Consensus       329 v~~~-~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPL-ai~~~~~  392 (583)
                      +... ......+++.+++.++....+...+...+..-.    .+.+..|++.++|.+. |+..+-.
T Consensus       162 Ll~TI~SRcq~ieF~~Ls~~eL~~~L~~il~kegi~Is----~eal~~La~lS~GdlR~AlnlLek  223 (605)
T PRK05896        162 IPLTIISRCQRYNFKKLNNSELQELLKSIAKKEKIKIE----DNAIDKIADLADGSLRDGLSILDQ  223 (605)
T ss_pred             hhHHHHhhhhhcccCCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCcHHHHHHHHHH
Confidence            4322 223568999999999999888886643322111    4456789999999665 4444433

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.46  E-value=2.7e-06  Score=91.77  Aligned_cols=184  Identities=15%  Similarity=0.156  Sum_probs=109.5

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccc-------------------cCc
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVIN-------------------NFE  239 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~-------------------~f~  239 (583)
                      -.+++|.+.-++.|..++....      -.+.+.++|+.|+||||+|+.+.+...-..                   .|.
T Consensus        15 f~divGq~~v~~~L~~~i~~~~------~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~C~~i~~~~~~   88 (527)
T PRK14969         15 FSELVGQEHVVRALTNALEQQR------LHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACLEIDSGRFV   88 (527)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCC------CCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCC
Confidence            3468999999999999986433      345678999999999999998876321110                   011


Q ss_pred             eEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHH-HhcCCceeEEEcCCCcccccchHhhHHhhccCCCCc
Q 036323          240 IRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGA-NIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGS  318 (583)
Q Consensus       240 ~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs  318 (583)
                      -.++++.+....                  ..++..+...+.. -..+++-++|+|+++..+....+.+...+......+
T Consensus        89 d~~ei~~~~~~~------------------vd~ir~l~~~~~~~p~~~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~  150 (527)
T PRK14969         89 DLIEVDAASNTQ------------------VDAMRELLDNAQYAPTRGRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHV  150 (527)
T ss_pred             ceeEeeccccCC------------------HHHHHHHHHHHhhCcccCCceEEEEcCcccCCHHHHHHHHHHHhCCCCCE
Confidence            111221111111                  1111122221111 013556699999997665556777777776655566


Q ss_pred             eEEEecCc-hHHHhh-hcCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCcc-chhhh
Q 036323          319 KILITTRK-ETVARM-MESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPL-AAKTI  390 (583)
Q Consensus       319 ~IlvTtR~-~~v~~~-~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPL-ai~~~  390 (583)
                      .+|++|.+ ..+... ......+++.+++.++....+.+.+...+...    ..+....|++.++|.+- |+..+
T Consensus       151 ~fIL~t~d~~kil~tI~SRc~~~~f~~l~~~~i~~~L~~il~~egi~~----~~~al~~la~~s~Gslr~al~ll  221 (527)
T PRK14969        151 KFILATTDPQKIPVTVLSRCLQFNLKQMPPPLIVSHLQHILEQENIPF----DATALQLLARAAAGSMRDALSLL  221 (527)
T ss_pred             EEEEEeCChhhCchhHHHHHHHHhcCCCCHHHHHHHHHHHHHHcCCCC----CHHHHHHHHHHcCCCHHHHHHHH
Confidence            56655543 333222 12246789999999999988887664332221    24456778999999775 33333

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=98.45  E-value=4.7e-06  Score=90.71  Aligned_cols=199  Identities=12%  Similarity=0.109  Sum_probs=116.2

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCc--eEEEEEeCCCCChHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFE--IRVRVCVSDPFDEFNVA  256 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~--~~~wv~~~~~~~~~~~~  256 (583)
                      -.+++|.+..++.|.+.+....      -...+.++|+.|+||||+|+.+.+...-.....  ...+    ..+......
T Consensus        23 f~dliGq~~~v~~L~~~~~~gr------i~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~----~~cg~c~~C   92 (598)
T PRK09111         23 FDDLIGQEAMVRTLTNAFETGR------IAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTI----DLCGVGEHC   92 (598)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCC------CCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCcc----ccCcccHHH
Confidence            3578999999999999986432      355788999999999999999877421111000  0000    001111112


Q ss_pred             HHHHHHhhcC--------ccccccHHHHHHHHHHH-hcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEec-Cc
Q 036323          257 KATIEELEGS--------AIDLHELNSLLRRIGAN-IAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITT-RK  326 (583)
Q Consensus       257 ~~il~~l~~~--------~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTt-R~  326 (583)
                      ..|.......        .....++.++...+... ..+++-++|+|+++..+....+.|...+..-..++.+|++| ..
T Consensus        93 ~~i~~g~h~Dv~e~~a~s~~gvd~IReIie~~~~~P~~a~~KVvIIDEad~Ls~~a~naLLKtLEePp~~~~fIl~tte~  172 (598)
T PRK09111         93 QAIMEGRHVDVLEMDAASHTGVDDIREIIESVRYRPVSARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIFATTEI  172 (598)
T ss_pred             HHHhcCCCCceEEecccccCCHHHHHHHHHHHHhchhcCCcEEEEEEChHhCCHHHHHHHHHHHHhCCCCeEEEEEeCCh
Confidence            2222111110        01112222333322211 12445589999997665556777877776655566665544 44


Q ss_pred             hHHHhhhc-CCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhhh
Q 036323          327 ETVARMME-STDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIG  391 (583)
Q Consensus       327 ~~v~~~~~-~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~  391 (583)
                      ..+...+. ....+++.+++.++....+.+.+...+....    .+....|++.++|.+.-+....
T Consensus       173 ~kll~tI~SRcq~~~f~~l~~~el~~~L~~i~~kegi~i~----~eAl~lIa~~a~Gdlr~al~~L  234 (598)
T PRK09111        173 RKVPVTVLSRCQRFDLRRIEADVLAAHLSRIAAKEGVEVE----DEALALIARAAEGSVRDGLSLL  234 (598)
T ss_pred             hhhhHHHHhheeEEEecCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHHHHH
Confidence            44433322 3578999999999999999887643332222    4567789999999887554433

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.44  E-value=2.6e-06  Score=93.52  Aligned_cols=196  Identities=13%  Similarity=0.183  Sum_probs=113.7

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      -.+++|.+.-++.|..++....      -...+.++|+.|+||||+|+.+++.........      ....++.....+.
T Consensus        15 ~~eiiGq~~~~~~L~~~i~~~~------i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~------~~~~c~~c~~c~~   82 (585)
T PRK14950         15 FAELVGQEHVVQTLRNAIAEGR------VAHAYLFTGPRGVGKTSTARILAKAVNCTTNDP------KGRPCGTCEMCRA   82 (585)
T ss_pred             HHHhcCCHHHHHHHHHHHHhCC------CceEEEEECCCCCCHHHHHHHHHHHhcCCCCCC------CCCCCccCHHHHH
Confidence            3478999999999988885432      345678999999999999999876321100000      0011122223333


Q ss_pred             HHHHhhcC--------ccccccHHHHHHHHHHH-hcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCc-hH
Q 036323          259 TIEELEGS--------AIDLHELNSLLRRIGAN-IAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRK-ET  328 (583)
Q Consensus       259 il~~l~~~--------~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~-~~  328 (583)
                      +.......        .....++.++...+... ..+++-++|||+++.-+....+.|...+......+.+|+++.+ ..
T Consensus        83 i~~~~~~d~~~i~~~~~~~vd~ir~ii~~~~~~p~~~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t~~~~k  162 (585)
T PRK14950         83 IAEGSAVDVIEMDAASHTSVDDAREIIERVQFRPALARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTEVHK  162 (585)
T ss_pred             HhcCCCCeEEEEeccccCCHHHHHHHHHHHhhCcccCCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEeCChhh
Confidence            32221110        00111122222222211 1245669999999655545567777777655556666665543 33


Q ss_pred             HHhhh-cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhh
Q 036323          329 VARMM-ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTI  390 (583)
Q Consensus       329 v~~~~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~  390 (583)
                      +...+ .....+++.+++.++....+.+.+...+....    .+.+..|++.++|.+..+...
T Consensus       163 ll~tI~SR~~~i~f~~l~~~el~~~L~~~a~~egl~i~----~eal~~La~~s~Gdlr~al~~  221 (585)
T PRK14950        163 VPATILSRCQRFDFHRHSVADMAAHLRKIAAAEGINLE----PGALEAIARAATGSMRDAENL  221 (585)
T ss_pred             hhHHHHhccceeeCCCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHHHH
Confidence            33222 22567889999999998888877644332211    456778999999988755444

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=98.43  E-value=4.7e-06  Score=93.76  Aligned_cols=191  Identities=15%  Similarity=0.146  Sum_probs=111.9

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKAT  259 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  259 (583)
                      .++||.+..++.|..++....      -.+.+.++|..|+||||+|+.+.+...-.....       ...+......+.|
T Consensus        15 ~eiiGqe~v~~~L~~~i~~~r------i~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~-------~~pCg~C~sC~~~   81 (824)
T PRK07764         15 AEVIGQEHVTEPLSTALDSGR------INHAYLFSGPRGCGKTSSARILARSLNCVEGPT-------STPCGECDSCVAL   81 (824)
T ss_pred             HHhcCcHHHHHHHHHHHHhCC------CCceEEEECCCCCCHHHHHHHHHHHhCcccCCC-------CCCCcccHHHHHH
Confidence            468999999999999996433      345678999999999999998876421111100       0000111111111


Q ss_pred             HHH---------hhc-CccccccHHHHHHHHHH-HhcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEec-Cch
Q 036323          260 IEE---------LEG-SAIDLHELNSLLRRIGA-NIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITT-RKE  327 (583)
Q Consensus       260 l~~---------l~~-~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTt-R~~  327 (583)
                      ...         +.. ......++.++.+.+.. -..++.-++|||+++......++.|+..|..-...+.+|++| ...
T Consensus        82 ~~g~~~~~dv~eidaas~~~Vd~iR~l~~~~~~~p~~~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~tt~~~  161 (824)
T PRK07764         82 APGGPGSLDVTEIDAASHGGVDDARELRERAFFAPAESRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFATTEPD  161 (824)
T ss_pred             HcCCCCCCcEEEecccccCCHHHHHHHHHHHHhchhcCCceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChh
Confidence            110         000 00011122222222111 123555689999998777677888888887655566666555 444


Q ss_pred             HHHhhhc-CCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccch
Q 036323          328 TVARMME-STDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAA  387 (583)
Q Consensus       328 ~v~~~~~-~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai  387 (583)
                      .+...+. ....|++.+++.++...++.+.+-..+....    .+....|++.++|.+..+
T Consensus       162 kLl~TIrSRc~~v~F~~l~~~~l~~~L~~il~~EGv~id----~eal~lLa~~sgGdlR~A  218 (824)
T PRK07764        162 KVIGTIRSRTHHYPFRLVPPEVMRGYLERICAQEGVPVE----PGVLPLVIRAGGGSVRDS  218 (824)
T ss_pred             hhhHHHHhheeEEEeeCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHH
Confidence            4443333 3678999999999998888876533222111    445677899999988533

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

Probab=98.42  E-value=5.7e-07  Score=87.15  Aligned_cols=90  Identities=18%  Similarity=0.121  Sum_probs=61.5

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCC--CChHHHHHHHHH-----HhhcCccc-cccHHHHHH
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDP--FDEFNVAKATIE-----ELEGSAID-LHELNSLLR  278 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~--~~~~~~~~~il~-----~l~~~~~~-~~~~~~~~~  278 (583)
                      ....++|+|++|+|||||++.++++.... +|+.++|+.+.+.  .+..++++.+..     .++.+... ..-......
T Consensus        15 ~Gqr~~I~G~~G~GKTTLlr~I~n~l~~~-~fdv~~~v~vI~er~~ev~el~~~I~~~~v~~~~~~~~~~~~~~~~~~~~   93 (249)
T cd01128          15 KGQRGLIVAPPKAGKTTLLQSIANAITKN-HPEVYLIVLLIDERPEEVTDMQRSVKGEVIASTFDEPPERHVQVAEMVLE   93 (249)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhccccc-cCCeEEEEEEccCCCccHHHHHHHhccEEEEecCCCCHHHHHHHHHHHHH
Confidence            45678899999999999999999975444 8999999997766  788888888833     33321111 011112222


Q ss_pred             HHHHH-hcCCceeEEEcCCC
Q 036323          279 RIGAN-IAGQKFFMVLDNLW  297 (583)
Q Consensus       279 ~l~~~-l~~k~~LlVlDdv~  297 (583)
                      ..... -.+++.+|++|++.
T Consensus        94 ~a~~~~~~G~~vll~iDei~  113 (249)
T cd01128          94 KAKRLVEHGKDVVILLDSIT  113 (249)
T ss_pred             HHHHHHHCCCCEEEEEECHH
Confidence            22222 24899999999994

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.

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

Probab=98.40  E-value=6.8e-06  Score=78.54  Aligned_cols=162  Identities=12%  Similarity=0.126  Sum_probs=94.1

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccC--ceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHh
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNF--EIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANI  284 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f--~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l  284 (583)
                      ....+.|+|..|+|||.|.+.+++.  .....  ..+++++      ..++...+...+...     ..+.    +.+.+
T Consensus        33 ~~~~l~l~G~~G~GKTHLL~Ai~~~--~~~~~~~~~v~y~~------~~~f~~~~~~~~~~~-----~~~~----~~~~~   95 (219)
T PF00308_consen   33 RYNPLFLYGPSGLGKTHLLQAIANE--AQKQHPGKRVVYLS------AEEFIREFADALRDG-----EIEE----FKDRL   95 (219)
T ss_dssp             SSSEEEEEESTTSSHHHHHHHHHHH--HHHHCTTS-EEEEE------HHHHHHHHHHHHHTT-----SHHH----HHHHH
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHH--HHhccccccceeec------HHHHHHHHHHHHHcc-----cchh----hhhhh
Confidence            4456789999999999999999984  33222  2344543      345555555555432     1222    22333


Q ss_pred             cCCceeEEEcCCCccccc-chHh-hHHhhcc-CCCCceEEEecCch---------HHHhhhcCCCeEEcCCCChHHHHHH
Q 036323          285 AGQKFFMVLDNLWTDDYR-KWEP-FRNCLMN-GLRGSKILITTRKE---------TVARMMESTDIVYVQGLSELECWSL  352 (583)
Q Consensus       285 ~~k~~LlVlDdv~~~~~~-~~~~-l~~~l~~-~~~gs~IlvTtR~~---------~v~~~~~~~~~~~l~~L~~~ea~~L  352 (583)
                      . .-=+|+|||++.-... .|.. +...+.. ...|.+||+|+...         .+...+...-.+++.+++.++-..+
T Consensus        96 ~-~~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~l~~~~~~L~SRl~~Gl~~~l~~pd~~~r~~i  174 (219)
T PF00308_consen   96 R-SADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDRPPSELSGLLPDLRSRLSWGLVVELQPPDDEDRRRI  174 (219)
T ss_dssp             C-TSSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-TTTTTTS-HHHHHHHHCSEEEEE----HHHHHHH
T ss_pred             h-cCCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCCCccccccChhhhhhHhhcchhhcCCCCHHHHHHH
Confidence            3 3458999999653222 2332 3333322 23467899998543         2334455677899999999999999


Q ss_pred             HHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhh
Q 036323          353 FRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTI  390 (583)
Q Consensus       353 f~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~  390 (583)
                      +.+.+...+..    --++++.-|++.+.+..-.|..+
T Consensus       175 l~~~a~~~~~~----l~~~v~~~l~~~~~~~~r~L~~~  208 (219)
T PF00308_consen  175 LQKKAKERGIE----LPEEVIEYLARRFRRDVRELEGA  208 (219)
T ss_dssp             HHHHHHHTT------S-HHHHHHHHHHTTSSHHHHHHH
T ss_pred             HHHHHHHhCCC----CcHHHHHHHHHhhcCCHHHHHHH
Confidence            99987543332    22566777888777665554443

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.

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.40  E-value=6.3e-06  Score=89.02  Aligned_cols=198  Identities=14%  Similarity=0.163  Sum_probs=113.9

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKAT  259 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  259 (583)
                      .+++|.+..++.|.+.+....      -...+.++|+.|+||||+|+.+.+...-.....       ...++.-...+.+
T Consensus        16 ~dIiGQe~v~~~L~~ai~~~r------i~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~-------~~pCg~C~sC~~i   82 (624)
T PRK14959         16 AEVAGQETVKAILSRAAQENR------VAPAYLFSGTRGVGKTTIARIFAKALNCETAPT-------GEPCNTCEQCRKV   82 (624)
T ss_pred             HHhcCCHHHHHHHHHHHHcCC------CCceEEEECCCCCCHHHHHHHHHHhccccCCCC-------CCCCcccHHHHHH
Confidence            467899988888888885432      246788999999999999998877422111000       0011111122222


Q ss_pred             HHHhhcC--------ccccccHHHHHHHHHH-HhcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCc-hHH
Q 036323          260 IEELEGS--------AIDLHELNSLLRRIGA-NIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRK-ETV  329 (583)
Q Consensus       260 l~~l~~~--------~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~-~~v  329 (583)
                      .......        .....++..+...+.. -..+++-++|||+++..+...++.|...+........+|++|.+ ..+
T Consensus        83 ~~g~hpDv~eId~a~~~~Id~iR~L~~~~~~~p~~g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt~~~kl  162 (624)
T PRK14959         83 TQGMHVDVVEIDGASNRGIDDAKRLKEAIGYAPMEGRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPHKF  162 (624)
T ss_pred             hcCCCCceEEEecccccCHHHHHHHHHHHHhhhhcCCceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecCChhhh
Confidence            1110000        0001111222222211 12355679999999766555677777777554345555555544 444


Q ss_pred             Hhhh-cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCc-cchhhhhhhh
Q 036323          330 ARMM-ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLP-LAAKTIGSLL  394 (583)
Q Consensus       330 ~~~~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlP-Lai~~~~~~L  394 (583)
                      ...+ .....+++.+++.++....+...+........    .+.+..|++.++|.+ .|+..+..++
T Consensus       163 l~TI~SRcq~i~F~pLs~~eL~~~L~~il~~egi~id----~eal~lIA~~s~GdlR~Al~lLeqll  225 (624)
T PRK14959        163 PVTIVSRCQHFTFTRLSEAGLEAHLTKVLGREGVDYD----PAAVRLIARRAAGSVRDSMSLLGQVL  225 (624)
T ss_pred             hHHHHhhhhccccCCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            3322 22567899999999999888886644332122    456777899999965 5776665544

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.39  E-value=8.6e-06  Score=84.70  Aligned_cols=182  Identities=14%  Similarity=0.199  Sum_probs=105.1

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCcccc------ccCceEEEEEeCCCCCh
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVI------NNFEIRVRVCVSDPFDE  252 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~------~~f~~~~wv~~~~~~~~  252 (583)
                      -.+++|.+..++.+.+.+....      -.+.+.++|++|+|||++|+.+.+.....      ..|...+ +.+... + 
T Consensus        16 ~~~iig~~~~~~~l~~~i~~~~------~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~-~~l~~~-~-   86 (367)
T PRK14970         16 FDDVVGQSHITNTLLNAIENNH------LAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNI-FELDAA-S-   86 (367)
T ss_pred             HHhcCCcHHHHHHHHHHHHcCC------CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcce-EEeccc-c-
Confidence            3567999999999999986432      35688899999999999999887642110      1121111 111110 0 


Q ss_pred             HHHHHHHHHHhhcCccccccHHHHHHHHHH-HhcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEec-CchHHH
Q 036323          253 FNVAKATIEELEGSAIDLHELNSLLRRIGA-NIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITT-RKETVA  330 (583)
Q Consensus       253 ~~~~~~il~~l~~~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTt-R~~~v~  330 (583)
                                    .....++..+...+.. -..+++-++++|++.......++.+...+......+.+|++| ......
T Consensus        87 --------------~~~~~~i~~l~~~~~~~p~~~~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl~  152 (367)
T PRK14970         87 --------------NNSVDDIRNLIDQVRIPPQTGKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKII  152 (367)
T ss_pred             --------------CCCHHHHHHHHHHHhhccccCCcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccCC
Confidence                          0001111111111111 012455689999996544445666666665444445555554 333332


Q ss_pred             hh-hcCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccch
Q 036323          331 RM-MESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAA  387 (583)
Q Consensus       331 ~~-~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai  387 (583)
                      .. ......+++.+++.++....+...+...+..-.    .+.+..|++.++|.+-.+
T Consensus       153 ~~l~sr~~~v~~~~~~~~~l~~~l~~~~~~~g~~i~----~~al~~l~~~~~gdlr~~  206 (367)
T PRK14970        153 PTILSRCQIFDFKRITIKDIKEHLAGIAVKEGIKFE----DDALHIIAQKADGALRDA  206 (367)
T ss_pred             HHHHhcceeEecCCccHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHhCCCCHHHH
Confidence            22 223567899999999999888887644332211    456777888999866533

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.38  E-value=1e-05  Score=87.70  Aligned_cols=195  Identities=15%  Similarity=0.128  Sum_probs=113.6

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      -.+++|.+..++.|..++....      -.+.+.++|+.|+||||+|+.+.+...-.....       ...+..-.....
T Consensus        12 f~eivGq~~i~~~L~~~i~~~r------~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~-------~~pCg~C~~C~~   78 (584)
T PRK14952         12 FAEVVGQEHVTEPLSSALDAGR------INHAYLFSGPRGCGKTSSARILARSLNCAQGPT-------ATPCGVCESCVA   78 (584)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCC------CCeEEEEECCCCCCHHHHHHHHHHHhccccCCC-------CCcccccHHHHH
Confidence            3578999999999999996432      345678999999999999998876321111000       001111111111


Q ss_pred             HHHH---------hhc-CccccccHHHHHHHHHHH-hcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEE-ecCc
Q 036323          259 TIEE---------LEG-SAIDLHELNSLLRRIGAN-IAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILI-TTRK  326 (583)
Q Consensus       259 il~~---------l~~-~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~Ilv-TtR~  326 (583)
                      +...         +.. ......++.++...+... ..+++-++|+|+++.......+.|+..+......+.+|+ ||..
T Consensus        79 i~~~~~~~~dvieidaas~~gvd~iRel~~~~~~~P~~~~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fIL~tte~  158 (584)
T PRK14952         79 LAPNGPGSIDVVELDAASHGGVDDTRELRDRAFYAPAQSRYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEP  158 (584)
T ss_pred             hhcccCCCceEEEeccccccCHHHHHHHHHHHHhhhhcCCceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEEEEeCCh
Confidence            1110         000 000112222232222211 134556999999977666677788887876555665555 4444


Q ss_pred             hHHHhhh-cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCcc-chhhh
Q 036323          327 ETVARMM-ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPL-AAKTI  390 (583)
Q Consensus       327 ~~v~~~~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPL-ai~~~  390 (583)
                      ..+...+ .....+++.+++.++..+.+.+.+...+...+    .+....|++.++|.+- ++..+
T Consensus       159 ~kll~TI~SRc~~~~F~~l~~~~i~~~L~~i~~~egi~i~----~~al~~Ia~~s~GdlR~aln~L  220 (584)
T PRK14952        159 EKVLPTIRSRTHHYPFRLLPPRTMRALIARICEQEGVVVD----DAVYPLVIRAGGGSPRDTLSVL  220 (584)
T ss_pred             HhhHHHHHHhceEEEeeCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHHHHH
Confidence            4444332 23678999999999998888876643332221    4456778899999775 44444

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.38  E-value=8.1e-06  Score=89.03  Aligned_cols=197  Identities=13%  Similarity=0.105  Sum_probs=110.1

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEE-eCCCCChHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVC-VSDPFDEFNVAK  257 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~-~~~~~~~~~~~~  257 (583)
                      -.+++|.+..++.|.+.+..+.      -...+.++|+.|+||||+|+.+.+...-...+....|.. +...+......+
T Consensus        15 f~eivGQe~i~~~L~~~i~~~r------i~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~~~Cg~C~sC~   88 (620)
T PRK14954         15 FADITAQEHITHTIQNSLRMDR------VGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVTEPCGECESCR   88 (620)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCC------CCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccCCCCccCHHHH
Confidence            3568999999999999885432      345688999999999999988876321111110001110 001111111222


Q ss_pred             HHHHHhhcC-----ccccccHHHHHHHHHHH----hcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEE-ecCch
Q 036323          258 ATIEELEGS-----AIDLHELNSLLRRIGAN----IAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILI-TTRKE  327 (583)
Q Consensus       258 ~il~~l~~~-----~~~~~~~~~~~~~l~~~----l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~Ilv-TtR~~  327 (583)
                      .+...-...     ......++++...+...    ..+++-++|+|+++.......+.|...+..-...+.+|+ |++..
T Consensus        89 ~~~~g~~~n~~~~d~~s~~~vd~Ir~l~e~~~~~P~~~~~KVvIIdEad~Lt~~a~naLLK~LEePp~~tv~IL~t~~~~  168 (620)
T PRK14954         89 DFDAGTSLNISEFDAASNNSVDDIRQLRENVRYGPQKGRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFATTELH  168 (620)
T ss_pred             HHhccCCCCeEEecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEeChhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChh
Confidence            221110000     00111122222222111    234556899999976555567778777766545555554 44444


Q ss_pred             HHHhh-hcCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCcc
Q 036323          328 TVARM-MESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPL  385 (583)
Q Consensus       328 ~v~~~-~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPL  385 (583)
                      .+... ......+++.+++.++....+.+.+...+..-    ..+.+..|++.++|..-
T Consensus       169 kLl~TI~SRc~~vef~~l~~~ei~~~L~~i~~~egi~I----~~eal~~La~~s~Gdlr  223 (620)
T PRK14954        169 KIPATIASRCQRFNFKRIPLDEIQSQLQMICRAEGIQI----DADALQLIARKAQGSMR  223 (620)
T ss_pred             hhhHHHHhhceEEecCCCCHHHHHHHHHHHHHHcCCCC----CHHHHHHHHHHhCCCHH
Confidence            44433 23367899999999998888877654322111    15567789999999655

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=98.34  E-value=7e-06  Score=85.14  Aligned_cols=182  Identities=15%  Similarity=0.136  Sum_probs=99.7

Q ss_pred             ccCCceeechhHHHHHHHHhhcCCCC------CCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCC
Q 036323          177 IDVSEVRGRDEEMRSIKSMLLCQGSD------QQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPF  250 (583)
Q Consensus       177 ~~~~~~vGR~~e~~~l~~~L~~~~~~------~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~  250 (583)
                      .....+.|+++.+++|.+.+..+-..      .+-..++-+.|+|++|+|||+||+.+++.  ....|     +.+..  
T Consensus       119 ~~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~--l~~~~-----~~v~~--  189 (364)
T TIGR01242       119 VSYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHE--TNATF-----IRVVG--  189 (364)
T ss_pred             CCHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHh--CCCCE-----Eecch--
Confidence            34567899999999999877432100      00123456889999999999999999984  32233     22211  


Q ss_pred             ChHHHHHHHHHHhhcCccccccHHHHHHHHHHH-hcCCceeEEEcCCCccc-----------ccchHhhHHhh---cc--
Q 036323          251 DEFNVAKATIEELEGSAIDLHELNSLLRRIGAN-IAGQKFFMVLDNLWTDD-----------YRKWEPFRNCL---MN--  313 (583)
Q Consensus       251 ~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~-----------~~~~~~l~~~l---~~--  313 (583)
                        ..+.    ....+      ........+.+. -...+.+|+||+++.-.           ......+...+   ..  
T Consensus       190 --~~l~----~~~~g------~~~~~i~~~f~~a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~  257 (364)
T TIGR01242       190 --SELV----RKYIG------EGARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFD  257 (364)
T ss_pred             --HHHH----HHhhh------HHHHHHHHHHHHHHhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCC
Confidence              1111    11000      001111222222 23467899999985421           11112232222   11  


Q ss_pred             CCCCceEEEecCchHHH-hhh----cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCc
Q 036323          314 GLRGSKILITTRKETVA-RMM----ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLP  384 (583)
Q Consensus       314 ~~~gs~IlvTtR~~~v~-~~~----~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlP  384 (583)
                      ...+..||.||...... ..+    .....+++...+.++..++|..+....... ..-.    ...+++.+.|..
T Consensus       258 ~~~~v~vI~ttn~~~~ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~l~-~~~~----~~~la~~t~g~s  328 (364)
T TIGR01242       258 PRGNVKVIAATNRPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLA-EDVD----LEAIAKMTEGAS  328 (364)
T ss_pred             CCCCEEEEEecCChhhCChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcCCCC-ccCC----HHHHHHHcCCCC
Confidence            13466788888754322 111    124578999999999999999876433211 1112    345677776643

Many proteins may score above the trusted cutoff because an internal

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=98.32  E-value=1.6e-05  Score=84.31  Aligned_cols=170  Identities=15%  Similarity=0.075  Sum_probs=102.1

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQ  287 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  287 (583)
                      ...+.|+|..|+|||+|++.+++.......-..+++++      ..++...+...+....       .....+.+.+. +
T Consensus       141 ~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~------~~~f~~~~~~~l~~~~-------~~~~~~~~~~~-~  206 (450)
T PRK14087        141 YNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMS------GDEFARKAVDILQKTH-------KEIEQFKNEIC-Q  206 (450)
T ss_pred             cCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEE------HHHHHHHHHHHHHHhh-------hHHHHHHHHhc-c
Confidence            45688999999999999999988321111112233333      3456666666654311       11223333333 3


Q ss_pred             ceeEEEcCCCcccc-cc-hHhhHHhhcc-CCCCceEEEecCch---------HHHhhhcCCCeEEcCCCChHHHHHHHHH
Q 036323          288 KFFMVLDNLWTDDY-RK-WEPFRNCLMN-GLRGSKILITTRKE---------TVARMMESTDIVYVQGLSELECWSLFRR  355 (583)
Q Consensus       288 ~~LlVlDdv~~~~~-~~-~~~l~~~l~~-~~~gs~IlvTtR~~---------~v~~~~~~~~~~~l~~L~~~ea~~Lf~~  355 (583)
                      .-+|||||+..... .. .+.+...+.. ...|..||+|+...         .+...+...-++.+.+++.++-.+++.+
T Consensus       207 ~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~~rL~SR~~~Gl~~~L~~pd~e~r~~iL~~  286 (450)
T PRK14087        207 NDVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFDNRLITRFNMGLSIAIQKLDNKTATAIIKK  286 (450)
T ss_pred             CCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhccHHHHHHHhCCceeccCCcCHHHHHHHHHH
Confidence            45899999954321 12 2334443322 23455688887642         2223344567888999999999999998


Q ss_pred             HhccCCCCCCCchHHHHHHHHhhhCCCCccchhhhhhh
Q 036323          356 FALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSL  393 (583)
Q Consensus       356 ~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~~~  393 (583)
                      .+-..+..  ..-.+++...|++.++|.|-.+.-+...
T Consensus       287 ~~~~~gl~--~~l~~evl~~Ia~~~~gd~R~L~gaL~~  322 (450)
T PRK14087        287 EIKNQNIK--QEVTEEAINFISNYYSDDVRKIKGSVSR  322 (450)
T ss_pred             HHHhcCCC--CCCCHHHHHHHHHccCCCHHHHHHHHHH
Confidence            87432210  1223677888999999999887766543

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=98.30  E-value=1.9e-05  Score=86.68  Aligned_cols=191  Identities=14%  Similarity=0.178  Sum_probs=108.7

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCcccccc---C-ceE-EEEEeCCCCChH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINN---F-EIR-VRVCVSDPFDEF  253 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~---f-~~~-~wv~~~~~~~~~  253 (583)
                      -..++|.+..++.|...+....      -.+.+.++|+.|+||||+|+.+++..--...   + .|. +--+....++..
T Consensus        17 f~dIiGQe~~v~~L~~aI~~~r------l~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~C~~~~~~~~Dvi   90 (725)
T PRK07133         17 FDDIVGQDHIVQTLKNIIKSNK------ISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQECIENVNNSLDII   90 (725)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCC------CCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhHHHHhhcCCCcEE
Confidence            3468899999999999996432      3567789999999999999888763110000   0 000 000000000000


Q ss_pred             HHHHHHHHHhhc-CccccccHHHHHHHHHHH-hcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEE-EecCchHHH
Q 036323          254 NVAKATIEELEG-SAIDLHELNSLLRRIGAN-IAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKIL-ITTRKETVA  330 (583)
Q Consensus       254 ~~~~~il~~l~~-~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~Il-vTtR~~~v~  330 (583)
                      .        +.. ......++..+.+.+... ..+++-++|+|+++......+..|...+......+.+| +|+....+.
T Consensus        91 e--------idaasn~~vd~IReLie~~~~~P~~g~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifILaTte~~KLl  162 (725)
T PRK07133         91 E--------MDAASNNGVDEIRELIENVKNLPTQSKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVHKIP  162 (725)
T ss_pred             E--------EeccccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEEcCChhhhh
Confidence            0        000 000111222333332221 13556699999997655556777777776544455444 555544444


Q ss_pred             hh-hcCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccch
Q 036323          331 RM-MESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAA  387 (583)
Q Consensus       331 ~~-~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai  387 (583)
                      .. ......+++.+++.++....+...+...+....    .+.+..|++.++|.+.-+
T Consensus       163 ~TI~SRcq~ieF~~L~~eeI~~~L~~il~kegI~id----~eAl~~LA~lS~GslR~A  216 (725)
T PRK07133        163 LTILSRVQRFNFRRISEDEIVSRLEFILEKENISYE----KNALKLIAKLSSGSLRDA  216 (725)
T ss_pred             HHHHhhceeEEccCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHH
Confidence            33 233578999999999999888876533322111    445677999999976533

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.29  E-value=2.8e-05  Score=83.04  Aligned_cols=184  Identities=14%  Similarity=0.156  Sum_probs=108.4

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccc--cc-----------------cCce
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDV--IN-----------------NFEI  240 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~--~~-----------------~f~~  240 (583)
                      ..++|.+.-+..|.+++....      -.+.+.++|+.|+||||+|+.++....-  ..                 .|..
T Consensus        16 ~diiGq~~i~~~L~~~i~~~~------i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~nc~~i~~g~~~d   89 (486)
T PRK14953         16 KEVIGQEIVVRILKNAVKLQR------VSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENCVEIDKGSFPD   89 (486)
T ss_pred             HHccChHHHHHHHHHHHHcCC------CCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHHHHHhcCCCCc
Confidence            468899999999999996432      3456778999999999999888763110  00                 0111


Q ss_pred             EEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHH-hcCCceeEEEcCCCcccccchHhhHHhhccCCCCce
Q 036323          241 RVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGAN-IAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSK  319 (583)
Q Consensus       241 ~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~  319 (583)
                      .++++.+..                  ....+...+...+... ..+++-++|+|+++.......+.|...+....+...
T Consensus        90 ~~eidaas~------------------~gvd~ir~I~~~~~~~P~~~~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~v  151 (486)
T PRK14953         90 LIEIDAASN------------------RGIDDIRALRDAVSYTPIKGKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTI  151 (486)
T ss_pred             EEEEeCccC------------------CCHHHHHHHHHHHHhCcccCCeeEEEEEChhhcCHHHHHHHHHHHhcCCCCeE
Confidence            111111100                  0111122222222211 135567999999966554556667777765444555


Q ss_pred             EEEec-CchHHHhhh-cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhhh
Q 036323          320 ILITT-RKETVARMM-ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIG  391 (583)
Q Consensus       320 IlvTt-R~~~v~~~~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~  391 (583)
                      +|++| +...+...+ .....+++.+++.++....+...+-..+...+    .+.+..|++.++|.+..+....
T Consensus       152 ~Il~tt~~~kl~~tI~SRc~~i~f~~ls~~el~~~L~~i~k~egi~id----~~al~~La~~s~G~lr~al~~L  221 (486)
T PRK14953        152 FILCTTEYDKIPPTILSRCQRFIFSKPTKEQIKEYLKRICNEEKIEYE----EKALDLLAQASEGGMRDAASLL  221 (486)
T ss_pred             EEEEECCHHHHHHHHHHhceEEEcCCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHHHHH
Confidence            55544 433333222 23567899999999998888876643332221    4556778899999776544443

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=98.26  E-value=1.5e-05  Score=90.82  Aligned_cols=183  Identities=17%  Similarity=0.143  Sum_probs=95.3

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCcc---cccc-CceEEE-EEeCCCCChHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDND---VINN-FEIRVR-VCVSDPFDEFN  254 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~---~~~~-f~~~~w-v~~~~~~~~~~  254 (583)
                      ..++||+.++.+++..|....       ..-+.++|++|+||||||+.+++...   +... ....+| ++++.      
T Consensus       187 d~~iGr~~ei~~~i~~l~r~~-------~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~------  253 (852)
T TIGR03345       187 DPVLGRDDEIRQMIDILLRRR-------QNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGL------  253 (852)
T ss_pred             CcccCCHHHHHHHHHHHhcCC-------cCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhh------
Confidence            578999999999999986543       33456999999999999999887421   1111 122222 22221      


Q ss_pred             HHHHHHHHhhcCccccccHHHHHHHHHHHh--cCCceeEEEcCCCcccc-----cchH--h-hHHhhccCCCCceEEEec
Q 036323          255 VAKATIEELEGSAIDLHELNSLLRRIGANI--AGQKFFMVLDNLWTDDY-----RKWE--P-FRNCLMNGLRGSKILITT  324 (583)
Q Consensus       255 ~~~~il~~l~~~~~~~~~~~~~~~~l~~~l--~~k~~LlVlDdv~~~~~-----~~~~--~-l~~~l~~~~~gs~IlvTt  324 (583)
                              +........+.+..+..+.+.+  .+++.+|++|+++.-..     ..-+  . |...+..  ...++|-||
T Consensus       254 --------l~ag~~~~ge~e~~lk~ii~e~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~l~~--G~l~~IgaT  323 (852)
T TIGR03345       254 --------LQAGASVKGEFENRLKSVIDEVKASPQPIILFIDEAHTLIGAGGQAGQGDAANLLKPALAR--GELRTIAAT  323 (852)
T ss_pred             --------hhcccccchHHHHHHHHHHHHHHhcCCCeEEEEeChHHhccCCCccccccHHHHhhHHhhC--CCeEEEEec
Confidence                    0000001111111111111111  24689999999865211     1111  1 3232222  124566566


Q ss_pred             CchHHHhh-------hcCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCcc
Q 036323          325 RKETVARM-------MESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPL  385 (583)
Q Consensus       325 R~~~v~~~-------~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPL  385 (583)
                      ........       ......+.+.+++.++..+++....-.-.......-..+....+++.+.+..-
T Consensus       324 T~~e~~~~~~~d~AL~rRf~~i~v~eps~~~~~~iL~~~~~~~e~~~~v~i~d~al~~~~~ls~ryi~  391 (852)
T TIGR03345       324 TWAEYKKYFEKDPALTRRFQVVKVEEPDEETAIRMLRGLAPVLEKHHGVLILDEAVVAAVELSHRYIP  391 (852)
T ss_pred             CHHHHhhhhhccHHHHHhCeEEEeCCCCHHHHHHHHHHHHHhhhhcCCCeeCHHHHHHHHHHcccccc
Confidence            54322111       12256899999999999999754431111101111224445566666655443

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.

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=98.25  E-value=3.6e-05  Score=82.22  Aligned_cols=195  Identities=12%  Similarity=0.107  Sum_probs=111.8

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      -.+++|-+.-++.|...+...      .-.++..++|+.|+||||+|+.+.+..--....+.       .++........
T Consensus        13 fdeiiGqe~v~~~L~~~I~~g------rl~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~-------~pC~~C~~C~~   79 (535)
T PRK08451         13 FDELIGQESVSKTLSLALDNN------RLAHAYLFSGLRGSGKTSSARIFARALVCEQGPSS-------TPCDTCIQCQS   79 (535)
T ss_pred             HHHccCcHHHHHHHHHHHHcC------CCCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCC-------CCCcccHHHHH
Confidence            356899999999999988543      23557789999999999999877653110000000       00000000000


Q ss_pred             HHHHhhc-----CccccccHHHHHHHHHHH----hcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCch-H
Q 036323          259 TIEELEG-----SAIDLHELNSLLRRIGAN----IAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKE-T  328 (583)
Q Consensus       259 il~~l~~-----~~~~~~~~~~~~~~l~~~----l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~-~  328 (583)
                      +......     ........+.+.+.+...    ..+++-++|+|+++..+....+.|+..+......+.+|++|.+. .
T Consensus        80 ~~~~~h~dv~eldaas~~gId~IRelie~~~~~P~~~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t~FIL~ttd~~k  159 (535)
T PRK08451         80 ALENRHIDIIEMDAASNRGIDDIRELIEQTKYKPSMARFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFILATTDPLK  159 (535)
T ss_pred             HhhcCCCeEEEeccccccCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHHhhcCCceEEEEEECChhh
Confidence            0000000     000001122222222110    12455689999997766667777887776655667766666553 2


Q ss_pred             HHhhh-cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhh
Q 036323          329 VARMM-ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTI  390 (583)
Q Consensus       329 v~~~~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~  390 (583)
                      +...+ .....+++.+++.++....+.+.+...+....    .+.+..|++.++|.+.-+..+
T Consensus       160 L~~tI~SRc~~~~F~~Ls~~ei~~~L~~Il~~EGi~i~----~~Al~~Ia~~s~GdlR~alnl  218 (535)
T PRK08451        160 LPATILSRTQHFRFKQIPQNSIISHLKTILEKEGVSYE----PEALEILARSGNGSLRDTLTL  218 (535)
T ss_pred             CchHHHhhceeEEcCCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCcHHHHHHH
Confidence            22222 22578999999999999888876643332222    456778999999988554444

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.24  E-value=3.6e-05  Score=84.15  Aligned_cols=195  Identities=13%  Similarity=0.161  Sum_probs=110.9

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      -.+++|.+.-++.|.+.+....      -.+.+.++|+.|+||||+|+.+.+...-.....       ...+........
T Consensus        15 f~~iiGq~~v~~~L~~~i~~~~------~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~-------~~~c~~c~~c~~   81 (576)
T PRK14965         15 FSDLTGQEHVSRTLQNAIDTGR------VAHAFLFTGARGVGKTSTARILAKALNCEQGLT-------AEPCNVCPPCVE   81 (576)
T ss_pred             HHHccCcHHHHHHHHHHHHcCC------CCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCC-------CCCCCccHHHHH
Confidence            3578999999999999886432      345678999999999999988876421111000       000111111111


Q ss_pred             HHHHh-------hcC-ccccccHHHHHHHHHHH-hcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEE-ecCchH
Q 036323          259 TIEEL-------EGS-AIDLHELNSLLRRIGAN-IAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILI-TTRKET  328 (583)
Q Consensus       259 il~~l-------~~~-~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~Ilv-TtR~~~  328 (583)
                      +...-       .+. .....++.++...+... ..++.-++|+|+++..+....+.|...+......+.+|+ ||....
T Consensus        82 i~~g~~~d~~eid~~s~~~v~~ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fIl~t~~~~k  161 (576)
T PRK14965         82 ITEGRSVDVFEIDGASNTGVDDIRELRENVKYLPSRSRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATTEPHK  161 (576)
T ss_pred             HhcCCCCCeeeeeccCccCHHHHHHHHHHHHhccccCCceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEEEEeCChhh
Confidence            11100       000 00111222233222211 124455899999976665667778877766555665554 544444


Q ss_pred             HHhhh-cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCc-cchhhh
Q 036323          329 VARMM-ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLP-LAAKTI  390 (583)
Q Consensus       329 v~~~~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlP-Lai~~~  390 (583)
                      +...+ .....+++.+++.++....+...+-..+...+    .+....|++.++|.. .|+..+
T Consensus       162 l~~tI~SRc~~~~f~~l~~~~i~~~L~~i~~~egi~i~----~~al~~la~~a~G~lr~al~~L  221 (576)
T PRK14965        162 VPITILSRCQRFDFRRIPLQKIVDRLRYIADQEGISIS----DAALALVARKGDGSMRDSLSTL  221 (576)
T ss_pred             hhHHHHHhhhhhhcCCCCHHHHHHHHHHHHHHhCCCCC----HHHHHHHHHHcCCCHHHHHHHH
Confidence            44332 23567889999999988888776533322222    455677889998866 444444

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

Probab=98.23  E-value=3.3e-05  Score=78.64  Aligned_cols=178  Identities=13%  Similarity=0.129  Sum_probs=112.6

Q ss_pred             cCCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHH
Q 036323          178 DVSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAK  257 (583)
Q Consensus       178 ~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  257 (583)
                      .+..++||+.|++.+.+++...-   .....+.+-|.|-+|.|||.+...++.+..-...=..++.+++..-.....++.
T Consensus       148 ~p~~l~gRe~e~~~v~~F~~~hl---e~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~aiF~  224 (529)
T KOG2227|consen  148 PPGTLKGRELEMDIVREFFSLHL---ELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEASAIFK  224 (529)
T ss_pred             CCCCccchHHHHHHHHHHHHhhh---hcccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccchHHHHH
Confidence            46789999999999999997654   345677888999999999999999988633222223557777776667788888


Q ss_pred             HHHHHhhcCccccccHHHHHHHHHHHhcCC--ceeEEEcCCCcccccchHhhHHhhcc-CCCCceEEEecCc--hHHH--
Q 036323          258 ATIEELEGSAIDLHELNSLLRRIGANIAGQ--KFFMVLDNLWTDDYRKWEPFRNCLMN-GLRGSKILITTRK--ETVA--  330 (583)
Q Consensus       258 ~il~~l~~~~~~~~~~~~~~~~l~~~l~~k--~~LlVlDdv~~~~~~~~~~l~~~l~~-~~~gs~IlvTtR~--~~v~--  330 (583)
                      .|...+...........+.+..+.....+.  .+|+|+|.++.-....-..+...+.+ .-+++++|+.--.  -+..  
T Consensus       225 kI~~~~~q~~~s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~vLy~lFewp~lp~sr~iLiGiANslDlTdR  304 (529)
T KOG2227|consen  225 KIFSSLLQDLVSPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTVLYTLFEWPKLPNSRIILIGIANSLDLTDR  304 (529)
T ss_pred             HHHHHHHHHhcCCchhHHHHHHHHHHHhcccceEEEEechhhHHhhcccceeeeehhcccCCcceeeeeeehhhhhHHHH
Confidence            888887332222222244455555555433  58999999854222222222222322 2345555543211  1111  


Q ss_pred             -----hh-h-cCCCeEEcCCCChHHHHHHHHHHhc
Q 036323          331 -----RM-M-ESTDIVYVQGLSELECWSLFRRFAL  358 (583)
Q Consensus       331 -----~~-~-~~~~~~~l~~L~~~ea~~Lf~~~a~  358 (583)
                           .. . .....+...|-+.++-.++|....-
T Consensus       305 ~LprL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~  339 (529)
T KOG2227|consen  305 FLPRLNLDLTIKPKLLVFPPYTKDQIVEILQQRLS  339 (529)
T ss_pred             HhhhhhhccCCCCceeeecCCCHHHHHHHHHHHHh
Confidence                 11 1 1256788899999999999998874

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.22  E-value=3.4e-05  Score=84.64  Aligned_cols=180  Identities=14%  Similarity=0.176  Sum_probs=110.4

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCcc---------------------cccc
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDND---------------------VINN  237 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~---------------------~~~~  237 (583)
                      -.+++|.+..++.|..++....      -.+.+.++|+.|+||||+|+.+.+...                     ...+
T Consensus        16 f~~viGq~~~~~~L~~~i~~~~------l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~~~~~~   89 (614)
T PRK14971         16 FESVVGQEALTTTLKNAIATNK------LAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAFNEQRS   89 (614)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCC------CCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHHhcCCC
Confidence            3468999999999999986432      356688999999999999987765311                     0112


Q ss_pred             CceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHH-hcCCceeEEEcCCCcccccchHhhHHhhccCCC
Q 036323          238 FEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGAN-IAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLR  316 (583)
Q Consensus       238 f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~  316 (583)
                      |+. ..++.......                  .++..+...+... ..+++-++|+|++..-+...++.|...+..-..
T Consensus        90 ~n~-~~ld~~~~~~v------------------d~Ir~li~~~~~~P~~~~~KVvIIdea~~Ls~~a~naLLK~LEepp~  150 (614)
T PRK14971         90 YNI-HELDAASNNSV------------------DDIRNLIEQVRIPPQIGKYKIYIIDEVHMLSQAAFNAFLKTLEEPPS  150 (614)
T ss_pred             Cce-EEecccccCCH------------------HHHHHHHHHHhhCcccCCcEEEEEECcccCCHHHHHHHHHHHhCCCC
Confidence            221 11221111111                  1111222111111 124455889999977666677788888866555


Q ss_pred             CceEEE-ecCchHHHhhh-cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccch
Q 036323          317 GSKILI-TTRKETVARMM-ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAA  387 (583)
Q Consensus       317 gs~Ilv-TtR~~~v~~~~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai  387 (583)
                      ++.+|+ |+....+...+ .....+++.+++.++....+.+.+...+....    .+.+..|++.++|..--+
T Consensus       151 ~tifIL~tt~~~kIl~tI~SRc~iv~f~~ls~~ei~~~L~~ia~~egi~i~----~~al~~La~~s~gdlr~a  219 (614)
T PRK14971        151 YAIFILATTEKHKILPTILSRCQIFDFNRIQVADIVNHLQYVASKEGITAE----PEALNVIAQKADGGMRDA  219 (614)
T ss_pred             CeEEEEEeCCchhchHHHHhhhheeecCCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHH
Confidence            666555 44444444332 23678999999999999888876643332211    445677999999976544

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=98.22  E-value=3.2e-05  Score=81.94  Aligned_cols=183  Identities=13%  Similarity=0.153  Sum_probs=107.5

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCcccc---------------------cc
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVI---------------------NN  237 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~---------------------~~  237 (583)
                      -.+++|.+..++.|.+.+....      -...+.++|++|+||||+|+.+.+...-.                     .+
T Consensus        16 ~~diiGq~~~v~~L~~~i~~~~------i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~~i~~~~~   89 (451)
T PRK06305         16 FSEILGQDAVVAVLKNALRFNR------AAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCKEISSGTS   89 (451)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCC------CceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHHHHhcCCC
Confidence            4578999999999999985432      34678899999999999998886531110                     01


Q ss_pred             CceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHH-hcCCceeEEEcCCCcccccchHhhHHhhccCCC
Q 036323          238 FEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGAN-IAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLR  316 (583)
Q Consensus       238 f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~  316 (583)
                      ++ .+++.......                  ..++..+.+.+.-. ..+++-++|+|++........+.|...+.....
T Consensus        90 ~d-~~~i~g~~~~g------------------id~ir~i~~~l~~~~~~~~~kvvIIdead~lt~~~~n~LLk~lEep~~  150 (451)
T PRK06305         90 LD-VLEIDGASHRG------------------IEDIRQINETVLFTPSKSRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQ  150 (451)
T ss_pred             Cc-eEEeeccccCC------------------HHHHHHHHHHHHhhhhcCCCEEEEEecHHhhCHHHHHHHHHHhhcCCC
Confidence            11 11111100000                  11112222211110 135667899999965444455667777765445


Q ss_pred             CceEEEecCc-hHHHhhh-cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCcc-chhhh
Q 036323          317 GSKILITTRK-ETVARMM-ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPL-AAKTI  390 (583)
Q Consensus       317 gs~IlvTtR~-~~v~~~~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPL-ai~~~  390 (583)
                      ++.+|++|.. ..+...+ .....+++.+++.++....+...+-..+..-    ..+.+..|++.++|.+. |+..+
T Consensus       151 ~~~~Il~t~~~~kl~~tI~sRc~~v~f~~l~~~el~~~L~~~~~~eg~~i----~~~al~~L~~~s~gdlr~a~~~L  223 (451)
T PRK06305        151 HVKFFLATTEIHKIPGTILSRCQKMHLKRIPEETIIDKLALIAKQEGIET----SREALLPIARAAQGSLRDAESLY  223 (451)
T ss_pred             CceEEEEeCChHhcchHHHHhceEEeCCCCCHHHHHHHHHHHHHHcCCCC----CHHHHHHHHHHcCCCHHHHHHHH
Confidence            6666665533 3333222 2356899999999999888887654322111    14567789999999764 44433

>PF14516 AAA_35: AAA-like domain

Probab=98.20  E-value=0.00011  Score=74.87  Aligned_cols=203  Identities=12%  Similarity=0.066  Sum_probs=118.3

Q ss_pred             ccCCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCC-----CC
Q 036323          177 IDVSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDP-----FD  251 (583)
Q Consensus       177 ~~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-----~~  251 (583)
                      .+.+..|.|...-+++.+.|..+        ...+.|.|+-.+|||+|...+.+..+. ..|. .+++++...     .+
T Consensus         8 ~~~~~Yi~R~~~e~~~~~~i~~~--------G~~~~I~apRq~GKTSll~~l~~~l~~-~~~~-~v~id~~~~~~~~~~~   77 (331)
T PF14516_consen    8 LDSPFYIERPPAEQECYQEIVQP--------GSYIRIKAPRQMGKTSLLLRLLERLQQ-QGYR-CVYIDLQQLGSAIFSD   77 (331)
T ss_pred             CCCCcccCchHHHHHHHHHHhcC--------CCEEEEECcccCCHHHHHHHHHHHHHH-CCCE-EEEEEeecCCCcccCC
Confidence            44556789986667777777532        358899999999999999998875322 2343 456776542     24


Q ss_pred             hHHHHHHHHHHhhcC----cc-------ccccHHHHHHHHHHHh---cCCceeEEEcCCCcccc--cchHhhHHhhc---
Q 036323          252 EFNVAKATIEELEGS----AI-------DLHELNSLLRRIGANI---AGQKFFMVLDNLWTDDY--RKWEPFRNCLM---  312 (583)
Q Consensus       252 ~~~~~~~il~~l~~~----~~-------~~~~~~~~~~~l~~~l---~~k~~LlVlDdv~~~~~--~~~~~l~~~l~---  312 (583)
                      ....++.+...+...    ..       ...........+.+++   .+++.+|+||+++.--.  .....+...|.   
T Consensus        78 ~~~f~~~~~~~i~~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~~~~~~~dF~~~LR~~~  157 (331)
T PF14516_consen   78 LEQFLRWFCEEISRQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDRLFEYPQIADDFFGLLRSWY  157 (331)
T ss_pred             HHHHHHHHHHHHHHHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhhhccCcchHHHHHHHHHHHH
Confidence            555555555444332    11       0112222333343332   26899999999954211  11122333221   


Q ss_pred             -cCC----CCc-e-EEEecCchHHHhh-----hcCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhC
Q 036323          313 -NGL----RGS-K-ILITTRKETVARM-----MESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKC  380 (583)
Q Consensus       313 -~~~----~gs-~-IlvTtR~~~v~~~-----~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c  380 (583)
                       ...    ... + |++.+........     +.....+.|++++.+|...|+..+...    ..    ....++|...+
T Consensus       158 ~~~~~~~~~~~L~li~~~~t~~~~~~~~~~SPFNIg~~i~L~~Ft~~ev~~L~~~~~~~----~~----~~~~~~l~~~t  229 (331)
T PF14516_consen  158 EQRKNNPIWQKLRLILAGSTEDYIILDINQSPFNIGQPIELPDFTPEEVQELAQRYGLE----FS----QEQLEQLMDWT  229 (331)
T ss_pred             HhcccCcccceEEEEEecCcccccccCCCCCCcccccceeCCCCCHHHHHHHHHhhhcc----CC----HHHHHHHHHHH
Confidence             111    111 1 2222211111111     112457899999999999999886421    11    22378899999


Q ss_pred             CCCccchhhhhhhhccC
Q 036323          381 KGLPLAAKTIGSLLQFK  397 (583)
Q Consensus       381 ~GlPLai~~~~~~L~~~  397 (583)
                      ||+|.-+..++..+...
T Consensus       230 gGhP~Lv~~~~~~l~~~  246 (331)
T PF14516_consen  230 GGHPYLVQKACYLLVEE  246 (331)
T ss_pred             CCCHHHHHHHHHHHHHc
Confidence            99999999999999664

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

Probab=98.20  E-value=1.6e-05  Score=89.72  Aligned_cols=155  Identities=15%  Similarity=0.166  Sum_probs=85.5

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCc---cccccC-ceEEEEEeCCCCChHHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDN---DVINNF-EIRVRVCVSDPFDEFNV  255 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~---~~~~~f-~~~~wv~~~~~~~~~~~  255 (583)
                      ..++||++++++++..|....       ..-+.++|++|+|||++|+.+++..   .+...+ ...+|. +.    ..  
T Consensus       182 ~~~igr~~ei~~~~~~L~~~~-------~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~-~~----~~--  247 (731)
T TIGR02639       182 DPLIGREDELERTIQVLCRRK-------KNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYS-LD----MG--  247 (731)
T ss_pred             CcccCcHHHHHHHHHHHhcCC-------CCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEE-ec----HH--
Confidence            468999999999999986443       3345799999999999999988742   111112 233332 11    11  


Q ss_pred             HHHHHHHhhcCccccccHHHHHHHHHHHh-cCCceeEEEcCCCccc---------ccchHhhHHhhccCCCC-ceEEEec
Q 036323          256 AKATIEELEGSAIDLHELNSLLRRIGANI-AGQKFFMVLDNLWTDD---------YRKWEPFRNCLMNGLRG-SKILITT  324 (583)
Q Consensus       256 ~~~il~~l~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~---------~~~~~~l~~~l~~~~~g-s~IlvTt  324 (583)
                        .++.    ...-..+.+..+..+.+.+ ..++.+|++|+++.-.         .+.-+.+...+.   .| .++|-+|
T Consensus       248 --~l~a----~~~~~g~~e~~l~~i~~~~~~~~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l~---~g~i~~IgaT  318 (731)
T TIGR02639       248 --SLLA----GTKYRGDFEERLKAVVSEIEKEPNAILFIDEIHTIVGAGATSGGSMDASNLLKPALS---SGKLRCIGST  318 (731)
T ss_pred             --HHhh----hccccchHHHHHHHHHHHHhccCCeEEEEecHHHHhccCCCCCccHHHHHHHHHHHh---CCCeEEEEec
Confidence              1111    0001112222333333322 3468899999996321         011122333332   23 3455444


Q ss_pred             CchHHHh------hh-cCCCeEEcCCCChHHHHHHHHHHh
Q 036323          325 RKETVAR------MM-ESTDIVYVQGLSELECWSLFRRFA  357 (583)
Q Consensus       325 R~~~v~~------~~-~~~~~~~l~~L~~~ea~~Lf~~~a  357 (583)
                      .......      .+ .....+++.+++.++..+++....
T Consensus       319 t~~e~~~~~~~d~al~rRf~~i~v~~p~~~~~~~il~~~~  358 (731)
T TIGR02639       319 TYEEYKNHFEKDRALSRRFQKIDVGEPSIEETVKILKGLK  358 (731)
T ss_pred             CHHHHHHHhhhhHHHHHhCceEEeCCCCHHHHHHHHHHHH
Confidence            4322111      11 225689999999999999998654

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=98.19  E-value=2.8e-06  Score=85.99  Aligned_cols=90  Identities=19%  Similarity=0.147  Sum_probs=59.6

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCC--ChHHHHHHHHHHhhcCcccccc------HHHHHH
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPF--DEFNVAKATIEELEGSAIDLHE------LNSLLR  278 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~--~~~~~~~~il~~l~~~~~~~~~------~~~~~~  278 (583)
                      ...-..|+|++|+|||||++.++++.... +|+..+|+.+.+..  .+.++++.+...+-....+...      .....+
T Consensus       168 kGQR~lIvgppGvGKTTLaK~Ian~I~~n-hFDv~~~VvLIgER~~EVtdiqrsIlg~vv~st~d~~~~~~~~~a~~~ie  246 (416)
T PRK09376        168 KGQRGLIVAPPKAGKTVLLQNIANSITTN-HPEVHLIVLLIDERPEEVTDMQRSVKGEVVASTFDEPAERHVQVAEMVIE  246 (416)
T ss_pred             cCceEEEeCCCCCChhHHHHHHHHHHHhh-cCCeEEEEEEeCCchhHHHHHHHHhcCcEEEECCCCCHHHHHHHHHHHHH
Confidence            45567899999999999999999975444 89999999998876  6667777765322211111110      111122


Q ss_pred             HHHHH-hcCCceeEEEcCCC
Q 036323          279 RIGAN-IAGQKFFMVLDNLW  297 (583)
Q Consensus       279 ~l~~~-l~~k~~LlVlDdv~  297 (583)
                      .-... -.++++||++|++.
T Consensus       247 ~Ae~~~e~G~dVlL~iDsIt  266 (416)
T PRK09376        247 KAKRLVEHGKDVVILLDSIT  266 (416)
T ss_pred             HHHHHHHcCCCEEEEEEChH
Confidence            11221 25799999999994

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.18  E-value=5.6e-05  Score=82.98  Aligned_cols=196  Identities=13%  Similarity=0.144  Sum_probs=111.3

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKAT  259 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  259 (583)
                      ..++|.+..+..|..++....      -.+.+.++|+.|+||||+|+.+++...-..... .    ....+......+.+
T Consensus        16 ~~liGq~~i~~~L~~~l~~~r------l~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~-~----~~~~Cg~C~~C~~i   84 (620)
T PRK14948         16 DELVGQEAIATTLKNALISNR------IAPAYLFTGPRGTGKTSSARILAKSLNCLNSDK-P----TPEPCGKCELCRAI   84 (620)
T ss_pred             hhccChHHHHHHHHHHHHcCC------CCceEEEECCCCCChHHHHHHHHHHhcCCCcCC-C----CCCCCcccHHHHHH
Confidence            468899999999999886432      235678999999999999999877421110000 0    00111112222222


Q ss_pred             HHHhhcC-----c---cccccHHHHHHHHHHH-hcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCc-hHH
Q 036323          260 IEELEGS-----A---IDLHELNSLLRRIGAN-IAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRK-ETV  329 (583)
Q Consensus       260 l~~l~~~-----~---~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~-~~v  329 (583)
                      .......     .   .....+.++...+... ..+++-++|||+++......++.|+..+......+.+|++|.+ ..+
T Consensus        85 ~~g~h~D~~ei~~~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t~~~~~l  164 (620)
T PRK14948         85 AAGNALDVIEIDAASNTGVDNIRELIERAQFAPVQARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATTDPQRV  164 (620)
T ss_pred             hcCCCccEEEEeccccCCHHHHHHHHHHHhhChhcCCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEeCChhhh
Confidence            2211110     0   0111222222222111 1245568999999766656677787777654445555544443 333


Q ss_pred             Hhhh-cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhh
Q 036323          330 ARMM-ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTI  390 (583)
Q Consensus       330 ~~~~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~  390 (583)
                      ...+ .....+++.+++.++....+...+...+....    .+.+..|++.++|.+..+..+
T Consensus       165 lpTIrSRc~~~~f~~l~~~ei~~~L~~ia~kegi~is----~~al~~La~~s~G~lr~A~~l  222 (620)
T PRK14948        165 LPTIISRCQRFDFRRIPLEAMVQHLSEIAEKESIEIE----PEALTLVAQRSQGGLRDAESL  222 (620)
T ss_pred             hHHHHhheeEEEecCCCHHHHHHHHHHHHHHhCCCCC----HHHHHHHHHHcCCCHHHHHHH
Confidence            3322 23567888999999988888776543222111    345778999999988655443

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=98.17  E-value=6.9e-05  Score=81.35  Aligned_cols=194  Identities=13%  Similarity=0.160  Sum_probs=112.5

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      -.+++|-+.-++.|...+....      -.+.+.++|+.|+||||+|+.+++...-......       .++..-...+.
T Consensus        15 f~diiGqe~iv~~L~~~i~~~~------i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~-------~pC~~C~~C~~   81 (563)
T PRK06647         15 FNSLEGQDFVVETLKHSIESNK------IANAYIFSGPRGVGKTSSARAFARCLNCVNGPTP-------MPCGECSSCKS   81 (563)
T ss_pred             HHHccCcHHHHHHHHHHHHcCC------CCeEEEEECCCCCCHHHHHHHHHHhhccccCCCC-------CCCccchHHHH
Confidence            3478999999999999996432      3567889999999999999998774211110000       00000001111


Q ss_pred             HHHH-------hhcCc-cccccHHHHHHHHHHH-hcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCc-hH
Q 036323          259 TIEE-------LEGSA-IDLHELNSLLRRIGAN-IAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRK-ET  328 (583)
Q Consensus       259 il~~-------l~~~~-~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~-~~  328 (583)
                      +...       +.+.. ....++.++.+.+... ..+++-++|+|+++..+...++.|...+......+.+|++|.. ..
T Consensus        82 i~~~~~~dv~~idgas~~~vddIr~l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~tte~~k  161 (563)
T PRK06647         82 IDNDNSLDVIEIDGASNTSVQDVRQIKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEVHK  161 (563)
T ss_pred             HHcCCCCCeEEecCcccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEecCChHH
Confidence            1110       00000 1111222222222211 2355668999999766655677777777655556666655543 34


Q ss_pred             HHhhh-cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhh
Q 036323          329 VARMM-ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKT  389 (583)
Q Consensus       329 v~~~~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~  389 (583)
                      +...+ .....+++.+++.++....+.+.+...+..-    -.+.+..|++.++|.+..+..
T Consensus       162 L~~tI~SRc~~~~f~~l~~~el~~~L~~i~~~egi~i----d~eAl~lLa~~s~GdlR~als  219 (563)
T PRK06647        162 LPATIKSRCQHFNFRLLSLEKIYNMLKKVCLEDQIKY----EDEALKWIAYKSTGSVRDAYT  219 (563)
T ss_pred             hHHHHHHhceEEEecCCCHHHHHHHHHHHHHHcCCCC----CHHHHHHHHHHcCCCHHHHHH
Confidence            43322 2256789999999999888887764333222    255677789999998764443

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=98.17  E-value=7.5e-05  Score=78.70  Aligned_cols=160  Identities=13%  Similarity=0.103  Sum_probs=92.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccC--ceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNF--EIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIA  285 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f--~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~  285 (583)
                      ...+.|+|.+|+|||+|++.+++..  ....  ..+++++.      .++...+...+...     ..+....    .+.
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~~l--~~~~~~~~v~yi~~------~~~~~~~~~~~~~~-----~~~~~~~----~~~  198 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGNEI--LENNPNAKVVYVSS------EKFTNDFVNALRNN-----KMEEFKE----KYR  198 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHH--HHhCCCCcEEEEEH------HHHHHHHHHHHHcC-----CHHHHHH----HHH
Confidence            4568899999999999999999843  2222  23445542      33444455444322     1222222    222


Q ss_pred             CCceeEEEcCCCcccccc--hHhhHHhhcc-CCCCceEEEecCc-hHH--------HhhhcCCCeEEcCCCChHHHHHHH
Q 036323          286 GQKFFMVLDNLWTDDYRK--WEPFRNCLMN-GLRGSKILITTRK-ETV--------ARMMESTDIVYVQGLSELECWSLF  353 (583)
Q Consensus       286 ~k~~LlVlDdv~~~~~~~--~~~l~~~l~~-~~~gs~IlvTtR~-~~v--------~~~~~~~~~~~l~~L~~~ea~~Lf  353 (583)
                      + .-+|||||++......  .+.+...+.. ...+..+|+||.. +..        ...+.....+++.+.+.++-..++
T Consensus       199 ~-~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~~p~~l~~l~~~l~SRl~~g~~v~i~~pd~~~r~~il  277 (405)
T TIGR00362       199 S-VDLLLIDDIQFLAGKERTQEEFFHTFNALHENGKQIVLTSDRPPKELPGLEERLRSRFEWGLVVDIEPPDLETRLAIL  277 (405)
T ss_pred             h-CCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCCCHHHHhhhhhhhhhhccCCeEEEeCCCCHHHHHHHH
Confidence            2 3489999996422111  1223333322 1235567887764 221        122223457899999999999999


Q ss_pred             HHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhh
Q 036323          354 RRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKT  389 (583)
Q Consensus       354 ~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~  389 (583)
                      .+.+......-    -+++...|++.+.|.+-.+.-
T Consensus       278 ~~~~~~~~~~l----~~e~l~~ia~~~~~~~r~l~~  309 (405)
T TIGR00362       278 QKKAEEEGLEL----PDEVLEFIAKNIRSNVRELEG  309 (405)
T ss_pred             HHHHHHcCCCC----CHHHHHHHHHhcCCCHHHHHH
Confidence            98874432211    256677888888887665443

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

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=98.17  E-value=3.1e-05  Score=78.79  Aligned_cols=150  Identities=13%  Similarity=0.152  Sum_probs=87.1

Q ss_pred             cCCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHH
Q 036323          178 DVSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAK  257 (583)
Q Consensus       178 ~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  257 (583)
                      .-.+++|.+...+.+..++...      ....++.++|++|+|||++|+.+++..  ...   ...++.+. .. ....+
T Consensus        19 ~~~~~~~~~~~~~~l~~~~~~~------~~~~~lll~G~~G~GKT~la~~l~~~~--~~~---~~~i~~~~-~~-~~~i~   85 (316)
T PHA02544         19 TIDECILPAADKETFKSIVKKG------RIPNMLLHSPSPGTGKTTVAKALCNEV--GAE---VLFVNGSD-CR-IDFVR   85 (316)
T ss_pred             cHHHhcCcHHHHHHHHHHHhcC------CCCeEEEeeCcCCCCHHHHHHHHHHHh--Ccc---ceEeccCc-cc-HHHHH
Confidence            3467899999999999998643      245688889999999999999998742  111   23334333 11 11111


Q ss_pred             HHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcc-cccchHhhHHhhccCCCCceEEEecCchH-HHhhh-c
Q 036323          258 ATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTD-DYRKWEPFRNCLMNGLRGSKILITTRKET-VARMM-E  334 (583)
Q Consensus       258 ~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~-~~~~~~~l~~~l~~~~~gs~IlvTtR~~~-v~~~~-~  334 (583)
                      ..+....             ...  .+.+.+-+||||++... .......+...+.....++.+|+||.... +...+ .
T Consensus        86 ~~l~~~~-------------~~~--~~~~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~~l~~~l~s  150 (316)
T PHA02544         86 NRLTRFA-------------STV--SLTGGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKNGIIEPLRS  150 (316)
T ss_pred             HHHHHHH-------------Hhh--cccCCCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCChhhchHHHHh
Confidence            1111110             000  01234568999999654 22223335444554556778888886543 11111 2


Q ss_pred             CCCeEEcCCCChHHHHHHHHH
Q 036323          335 STDIVYVQGLSELECWSLFRR  355 (583)
Q Consensus       335 ~~~~~~l~~L~~~ea~~Lf~~  355 (583)
                      ....+.+...+.++..+++..
T Consensus       151 R~~~i~~~~p~~~~~~~il~~  171 (316)
T PHA02544        151 RCRVIDFGVPTKEEQIEMMKQ  171 (316)
T ss_pred             hceEEEeCCCCHHHHHHHHHH
Confidence            245677777888877766554

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

Probab=98.15  E-value=4.9e-05  Score=72.67  Aligned_cols=269  Identities=13%  Similarity=0.112  Sum_probs=138.3

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      -.+|+|.++-+++|.=.+....  ......--+.++|++|.||||||.-+++...  ..+.    +.-.....       
T Consensus        25 l~efiGQ~~vk~~L~ifI~AAk--~r~e~lDHvLl~GPPGlGKTTLA~IIA~Emg--vn~k----~tsGp~le-------   89 (332)
T COG2255          25 LDEFIGQEKVKEQLQIFIKAAK--KRGEALDHVLLFGPPGLGKTTLAHIIANELG--VNLK----ITSGPALE-------   89 (332)
T ss_pred             HHHhcChHHHHHHHHHHHHHHH--hcCCCcCeEEeeCCCCCcHHHHHHHHHHHhc--CCeE----eccccccc-------
Confidence            4579999998888887775432  1345677899999999999999999998432  2221    11111101       


Q ss_pred             HHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhc--------cCCCCce-----------
Q 036323          259 TIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLM--------NGLRGSK-----------  319 (583)
Q Consensus       259 il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~--------~~~~gs~-----------  319 (583)
                                ...|   +...|.. | ...=+|++|.++..+...-+-+...+.        ..+++++           
T Consensus        90 ----------K~gD---laaiLt~-L-e~~DVLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLppFTL  154 (332)
T COG2255          90 ----------KPGD---LAAILTN-L-EEGDVLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLPPFTL  154 (332)
T ss_pred             ----------Chhh---HHHHHhc-C-CcCCeEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCccceEeccCCCeeE
Confidence                      1111   2221211 1 233466677775543222121222211        1122222           


Q ss_pred             EEEecCchHHHhhhcC--CCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhhhhhhccC
Q 036323          320 ILITTRKETVARMMES--TDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQFK  397 (583)
Q Consensus       320 IlvTtR~~~v~~~~~~--~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~~~L~~~  397 (583)
                      |=.|||.-.+...+..  .-+.+++--+.+|-.+...+.+..-...-    -++.+.+|+++..|-|--..-+-+..   
T Consensus       155 IGATTr~G~lt~PLrdRFGi~~rlefY~~~eL~~Iv~r~a~~l~i~i----~~~~a~eIA~rSRGTPRIAnRLLrRV---  227 (332)
T COG2255         155 IGATTRAGMLTNPLRDRFGIIQRLEFYTVEELEEIVKRSAKILGIEI----DEEAALEIARRSRGTPRIANRLLRRV---  227 (332)
T ss_pred             eeeccccccccchhHHhcCCeeeeecCCHHHHHHHHHHHHHHhCCCC----ChHHHHHHHHhccCCcHHHHHHHHHH---
Confidence            3358886555443332  45677888899999999988773322211    25567889999999997544333322   


Q ss_pred             CCHHHHHHHHhhhccccccccCCCcchhhccccCChHHhHHHHhhhccCCCCcccChHHHHHHHHHhccccccCCchHHH
Q 036323          398 RTKEEWQSALDSEMWQLEEFEGGLSAPLFLSYNDLPFEIKRCFSYCAIFPKSSYLKKDELVKLWMAQGYIVLKGNNEMKV  477 (583)
Q Consensus       398 ~~~~~w~~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~~~k~cf~~lsifp~~~~i~~~~Li~~W~aeg~i~~~~~~~~e~  477 (583)
                         .++..+.....-. ....+.....|..--..|+...++.+..+.-.-.+-++..+.+...-       +....+.|+
T Consensus       228 ---RDfa~V~~~~~I~-~~ia~~aL~~L~Vd~~GLd~~D~k~L~~li~~f~GgPVGl~tia~~l-------ge~~~TiEd  296 (332)
T COG2255         228 ---RDFAQVKGDGDID-RDIADKALKMLDVDELGLDEIDRKYLRALIEQFGGGPVGLDTIAAAL-------GEDRDTIED  296 (332)
T ss_pred             ---HHHHHHhcCCccc-HHHHHHHHHHhCcccccccHHHHHHHHHHHHHhCCCCccHHHHHHHh-------cCchhHHHH
Confidence               2232222211000 00001112223332333444444444433322222234444443221       123346666


Q ss_pred             HHHHHHHHHhhcccccceecC
Q 036323          478 IGLEYFDCLASRSFYQQFVKD  498 (583)
Q Consensus       478 ~~~~~l~~L~~rsll~~~~~~  498 (583)
                      +-|-|   |++.||+|....+
T Consensus       297 v~EPy---Liq~gfi~RTpRG  314 (332)
T COG2255         297 VIEPY---LIQQGFIQRTPRG  314 (332)
T ss_pred             HHhHH---HHHhchhhhCCCc
Confidence            66665   7899999976553

>PRK06620 hypothetical protein; Validated

Probab=98.14  E-value=2.8e-05  Score=73.95  Aligned_cols=135  Identities=10%  Similarity=0.008  Sum_probs=79.8

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQK  288 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~  288 (583)
                      +.+.|+|++|+|||+|++.+++...  .     .++.  ....              .       +       +.. ...
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~~--~-----~~~~--~~~~--------------~-------~-------~~~-~~~   86 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLSN--A-----YIIK--DIFF--------------N-------E-------EIL-EKY   86 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhccC--C-----EEcc--hhhh--------------c-------h-------hHH-hcC
Confidence            5789999999999999999887432  1     1111  0000              0       0       001 123


Q ss_pred             eeEEEcCCCcccccchHhhHHhhcc-CCCCceEEEecCchH-------HHhhhcCCCeEEcCCCChHHHHHHHHHHhccC
Q 036323          289 FFMVLDNLWTDDYRKWEPFRNCLMN-GLRGSKILITTRKET-------VARMMESTDIVYVQGLSELECWSLFRRFALSG  360 (583)
Q Consensus       289 ~LlVlDdv~~~~~~~~~~l~~~l~~-~~~gs~IlvTtR~~~-------v~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~  360 (583)
                      -+|++||++.-..   ..+...+.. ...|..||+|++...       ....+...-++++++++.++-..++.+.+...
T Consensus        87 d~lliDdi~~~~~---~~lf~l~N~~~e~g~~ilits~~~p~~l~l~~L~SRl~~gl~~~l~~pd~~~~~~~l~k~~~~~  163 (214)
T PRK06620         87 NAFIIEDIENWQE---PALLHIFNIINEKQKYLLLTSSDKSRNFTLPDLSSRIKSVLSILLNSPDDELIKILIFKHFSIS  163 (214)
T ss_pred             CEEEEeccccchH---HHHHHHHHHHHhcCCEEEEEcCCCccccchHHHHHHHhCCceEeeCCCCHHHHHHHHHHHHHHc
Confidence            5789999952211   123222221 134668999887432       22334446689999999999888888776422


Q ss_pred             CCCCCCchHHHHHHHHhhhCCCCccchh
Q 036323          361 RTPSECDQLEGIGRGIVRKCKGLPLAAK  388 (583)
Q Consensus       361 ~~~~~~~~~~~~~~~I~~~c~GlPLai~  388 (583)
                      ...    --+++.+-|++.+.|.--.+.
T Consensus       164 ~l~----l~~ev~~~L~~~~~~d~r~l~  187 (214)
T PRK06620        164 SVT----ISRQIIDFLLVNLPREYSKII  187 (214)
T ss_pred             CCC----CCHHHHHHHHHHccCCHHHHH
Confidence            111    125677778888877554443

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

Probab=98.12  E-value=3.3e-05  Score=73.25  Aligned_cols=130  Identities=18%  Similarity=0.224  Sum_probs=79.0

Q ss_pred             ccccccCCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCCh
Q 036323          173 STSLIDVSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDE  252 (583)
Q Consensus       173 ~~~~~~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  252 (583)
                      .+.++....++|-|.+++.|++....--   ......-+.++|..|+|||+|++.+.+...-++    .--|.+.     
T Consensus        20 ~~~~~~l~~L~Gie~Qk~~l~~Nt~~Fl---~G~pannvLL~G~rGtGKSSlVkall~~y~~~G----LRlIev~-----   87 (249)
T PF05673_consen   20 HPDPIRLDDLIGIERQKEALIENTEQFL---QGLPANNVLLWGARGTGKSSLVKALLNEYADQG----LRLIEVS-----   87 (249)
T ss_pred             CCCCCCHHHhcCHHHHHHHHHHHHHHHH---cCCCCcceEEecCCCCCHHHHHHHHHHHHhhcC----ceEEEEC-----
Confidence            3445566789999999999988654332   223455677899999999999999887311111    1112222     


Q ss_pred             HHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCC-cccccchHhhHHhhccC----CCCceEEEecCch
Q 036323          253 FNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLW-TDDYRKWEPFRNCLMNG----LRGSKILITTRKE  327 (583)
Q Consensus       253 ~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~-~~~~~~~~~l~~~l~~~----~~gs~IlvTtR~~  327 (583)
                                    ..+..++..+.+.|+.  ...+|+|++||+- +.+...+..|+..|..+    +.+..|-.||..+
T Consensus        88 --------------k~~L~~l~~l~~~l~~--~~~kFIlf~DDLsFe~~d~~yk~LKs~LeGgle~~P~NvliyATSNRR  151 (249)
T PF05673_consen   88 --------------KEDLGDLPELLDLLRD--RPYKFILFCDDLSFEEGDTEYKALKSVLEGGLEARPDNVLIYATSNRR  151 (249)
T ss_pred             --------------HHHhccHHHHHHHHhc--CCCCEEEEecCCCCCCCcHHHHHHHHHhcCccccCCCcEEEEEecchh
Confidence                          1233444555555553  4579999999983 33334566677766432    2344455566555


Q ss_pred             HHH
Q 036323          328 TVA  330 (583)
Q Consensus       328 ~v~  330 (583)
                      .+.
T Consensus       152 HLv  154 (249)
T PF05673_consen  152 HLV  154 (249)
T ss_pred             hcc
Confidence            443

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=98.11  E-value=0.0001  Score=78.12  Aligned_cols=161  Identities=12%  Similarity=0.054  Sum_probs=94.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCcccccc-Cc-eEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINN-FE-IRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIA  285 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~-f~-~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~  285 (583)
                      ...+.|+|.+|+|||+|++.+++.  .... .. .++|++.      .++...+...+...     ..+.    +.+.+.
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~~--l~~~~~~~~v~yi~~------~~f~~~~~~~~~~~-----~~~~----f~~~~~  192 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGNY--VVQNEPDLRVMYITS------EKFLNDLVDSMKEG-----KLNE----FREKYR  192 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHHH--HHHhCCCCeEEEEEH------HHHHHHHHHHHhcc-----cHHH----HHHHHH
Confidence            445899999999999999999984  3222 22 3555543      34555555555322     1122    222233


Q ss_pred             CCceeEEEcCCCccc-ccch-HhhHHhhcc-CCCCceEEEecC-chHHH--------hhhcCCCeEEcCCCChHHHHHHH
Q 036323          286 GQKFFMVLDNLWTDD-YRKW-EPFRNCLMN-GLRGSKILITTR-KETVA--------RMMESTDIVYVQGLSELECWSLF  353 (583)
Q Consensus       286 ~k~~LlVlDdv~~~~-~~~~-~~l~~~l~~-~~~gs~IlvTtR-~~~v~--------~~~~~~~~~~l~~L~~~ea~~Lf  353 (583)
                      .+.-+|+|||++... ...+ +.+...+.. ...|..||+||. .+.-.        ..+.....+.+++.+.+.-..++
T Consensus       193 ~~~dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~~k~iIitsd~~p~~l~~l~~rL~SR~~~gl~v~i~~pd~e~r~~IL  272 (440)
T PRK14088        193 KKVDVLLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEETRKKIA  272 (440)
T ss_pred             hcCCEEEEechhhhcCcHHHHHHHHHHHHHHHHcCCeEEEECCCCHHHHHHHHHHHhhHHhcCceEeeCCCCHHHHHHHH
Confidence            356689999996321 1111 223333321 123456888874 33221        12333568899999999999999


Q ss_pred             HHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhh
Q 036323          354 RRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKT  389 (583)
Q Consensus       354 ~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~  389 (583)
                      .+.+......    --+++...|++.+.|.--.+.-
T Consensus       273 ~~~~~~~~~~----l~~ev~~~Ia~~~~~~~R~L~g  304 (440)
T PRK14088        273 RKMLEIEHGE----LPEEVLNFVAENVDDNLRRLRG  304 (440)
T ss_pred             HHHHHhcCCC----CCHHHHHHHHhccccCHHHHHH
Confidence            9887432221    1256778888888886554443

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

Probab=98.10  E-value=1.5e-05  Score=82.46  Aligned_cols=120  Identities=11%  Similarity=0.101  Sum_probs=75.6

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      ..++++.+..++.+...|...         +.+.++|++|+|||++|+.+++.......|..+.|+.+....+..++...
T Consensus       174 l~d~~i~e~~le~l~~~L~~~---------~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI~G  244 (459)
T PRK11331        174 LNDLFIPETTIETILKRLTIK---------KNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFIQG  244 (459)
T ss_pred             hhcccCCHHHHHHHHHHHhcC---------CCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHhcc
Confidence            346788899999999998543         36778999999999999999886544556788889999887775554432


Q ss_pred             HHHHhhcCccccccH-HHHHHHHHHHh--cCCceeEEEcCCCcccccc-hHhhHHhh
Q 036323          259 TIEELEGSAIDLHEL-NSLLRRIGANI--AGQKFFMVLDNLWTDDYRK-WEPFRNCL  311 (583)
Q Consensus       259 il~~l~~~~~~~~~~-~~~~~~l~~~l--~~k~~LlVlDdv~~~~~~~-~~~l~~~l  311 (583)
                      .    ......-.-. .-..+.+....  .+++++||+|++...+... +..+...+
T Consensus       245 ~----rP~~vgy~~~~G~f~~~~~~A~~~p~~~~vliIDEINRani~kiFGel~~lL  297 (459)
T PRK11331        245 Y----RPNGVGFRRKDGIFYNFCQQAKEQPEKKYVFIIDEINRANLSKVFGEVMMLM  297 (459)
T ss_pred             c----CCCCCCeEecCchHHHHHHHHHhcccCCcEEEEehhhccCHHHhhhhhhhhc
Confidence            2    1111110000 11222222222  2468999999996554333 33444333

>CHL00181 cbbX CbbX; Provisional

Probab=98.09  E-value=0.00019  Score=71.41  Aligned_cols=136  Identities=12%  Similarity=0.060  Sum_probs=73.0

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQ  287 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  287 (583)
                      ...+.++|++|+|||++|+.+++.....+.-...-|+.++.    ..    +.....+..  .   ......+...   .
T Consensus        59 ~~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~----~~----l~~~~~g~~--~---~~~~~~l~~a---~  122 (287)
T CHL00181         59 GLHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTR----DD----LVGQYIGHT--A---PKTKEVLKKA---M  122 (287)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecH----HH----HHHHHhccc--h---HHHHHHHHHc---c
Confidence            34578999999999999999976321111111112444441    11    222221111  0   1111222221   2


Q ss_pred             ceeEEEcCCCcc---------cccchHhhHHhhccCCCCceEEEecCchHHHhhh--------cCCCeEEcCCCChHHHH
Q 036323          288 KFFMVLDNLWTD---------DYRKWEPFRNCLMNGLRGSKILITTRKETVARMM--------ESTDIVYVQGLSELECW  350 (583)
Q Consensus       288 ~~LlVlDdv~~~---------~~~~~~~l~~~l~~~~~gs~IlvTtR~~~v~~~~--------~~~~~~~l~~L~~~ea~  350 (583)
                      .-+|+||++..-         ..+....|...+.....+.+||+++........+        .....+.+++++.+|..
T Consensus       123 ggVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~~~~~~vI~ag~~~~~~~~~~~np~L~sR~~~~i~F~~~t~~el~  202 (287)
T CHL00181        123 GGVLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQRDDLVVIFAGYKDRMDKFYESNPGLSSRIANHVDFPDYTPEELL  202 (287)
T ss_pred             CCEEEEEccchhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhcCHHHHHhCCceEEcCCcCHHHHH
Confidence            359999999541         1112233444444444566777777643332111        12457999999999999


Q ss_pred             HHHHHHhcc
Q 036323          351 SLFRRFALS  359 (583)
Q Consensus       351 ~Lf~~~a~~  359 (583)
                      +++...+-.
T Consensus       203 ~I~~~~l~~  211 (287)
T CHL00181        203 QIAKIMLEE  211 (287)
T ss_pred             HHHHHHHHH
Confidence            998887643

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=98.08  E-value=5.6e-05  Score=78.87  Aligned_cols=161  Identities=14%  Similarity=0.152  Sum_probs=89.2

Q ss_pred             ccCCceeechhHHHHHHHHhhcCCCC------CCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCC
Q 036323          177 IDVSEVRGRDEEMRSIKSMLLCQGSD------QQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPF  250 (583)
Q Consensus       177 ~~~~~~vGR~~e~~~l~~~L~~~~~~------~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~  250 (583)
                      .....+.|+++.+++|.+.+..+-..      .+-..++-|.++|++|+|||+||+.+++..  ...     |+.++.  
T Consensus       128 ~~~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~--~~~-----~i~v~~--  198 (389)
T PRK03992        128 VTYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHET--NAT-----FIRVVG--  198 (389)
T ss_pred             CCHHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHh--CCC-----EEEeeh--
Confidence            33457899999999998876422100      011345678899999999999999999842  222     222221  


Q ss_pred             ChHHHHHHHHHHhhcCccccccHHHHHHHHHHH-hcCCceeEEEcCCCcc-----------cccchHhhHHhhcc-----
Q 036323          251 DEFNVAKATIEELEGSAIDLHELNSLLRRIGAN-IAGQKFFMVLDNLWTD-----------DYRKWEPFRNCLMN-----  313 (583)
Q Consensus       251 ~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~-----------~~~~~~~l~~~l~~-----  313 (583)
                        ..+    .....+.      .......+.+. -...+.+|+||+++.-           +......+...+..     
T Consensus       199 --~~l----~~~~~g~------~~~~i~~~f~~a~~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~  266 (389)
T PRK03992        199 --SEL----VQKFIGE------GARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFD  266 (389)
T ss_pred             --HHH----hHhhccc------hHHHHHHHHHHHHhcCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccC
Confidence              111    1111100      01122222222 2346789999999531           01111223333311     


Q ss_pred             CCCCceEEEecCchHHHh-hh-c---CCCeEEcCCCChHHHHHHHHHHhc
Q 036323          314 GLRGSKILITTRKETVAR-MM-E---STDIVYVQGLSELECWSLFRRFAL  358 (583)
Q Consensus       314 ~~~gs~IlvTtR~~~v~~-~~-~---~~~~~~l~~L~~~ea~~Lf~~~a~  358 (583)
                      ...+..||.||....... .+ .   -...+++++.+.++-.++|+.+..
T Consensus       267 ~~~~v~VI~aTn~~~~ld~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~  316 (389)
T PRK03992        267 PRGNVKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTR  316 (389)
T ss_pred             CCCCEEEEEecCChhhCCHHHcCCccCceEEEECCCCHHHHHHHHHHHhc
Confidence            123556777776543221 11 1   145789999999999999998764

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=98.07  E-value=0.00012  Score=78.11  Aligned_cols=160  Identities=13%  Similarity=0.095  Sum_probs=93.9

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccC--ceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHh
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNF--EIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANI  284 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f--~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l  284 (583)
                      ....+.|+|.+|+|||+|++.+++.  ....+  ..+++++..      .+...+...+...     ..+..    .+.+
T Consensus       147 ~~~~l~l~G~~G~GKThL~~ai~~~--~~~~~~~~~v~yi~~~------~~~~~~~~~~~~~-----~~~~~----~~~~  209 (450)
T PRK00149        147 AYNPLFIYGGVGLGKTHLLHAIGNY--ILEKNPNAKVVYVTSE------KFTNDFVNALRNN-----TMEEF----KEKY  209 (450)
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHHH--HHHhCCCCeEEEEEHH------HHHHHHHHHHHcC-----cHHHH----HHHH
Confidence            3456889999999999999999984  33332  234455432      3334444444321     11222    2233


Q ss_pred             cCCceeEEEcCCCccccc--chHhhHHhhcc-CCCCceEEEecCchH---------HHhhhcCCCeEEcCCCChHHHHHH
Q 036323          285 AGQKFFMVLDNLWTDDYR--KWEPFRNCLMN-GLRGSKILITTRKET---------VARMMESTDIVYVQGLSELECWSL  352 (583)
Q Consensus       285 ~~k~~LlVlDdv~~~~~~--~~~~l~~~l~~-~~~gs~IlvTtR~~~---------v~~~~~~~~~~~l~~L~~~ea~~L  352 (583)
                      . +.-+|||||++.....  ..+.+...+.. ...|..||+||....         +...+.....+++.+.+.++-..+
T Consensus       210 ~-~~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~~~~iiits~~~p~~l~~l~~~l~SRl~~gl~v~i~~pd~~~r~~i  288 (450)
T PRK00149        210 R-SVDVLLIDDIQFLAGKERTQEEFFHTFNALHEAGKQIVLTSDRPPKELPGLEERLRSRFEWGLTVDIEPPDLETRIAI  288 (450)
T ss_pred             h-cCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHHhHhcCCeeEEecCCCHHHHHHH
Confidence            3 3458999999542211  11233333321 123455788776431         122333456899999999999999


Q ss_pred             HHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchh
Q 036323          353 FRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAK  388 (583)
Q Consensus       353 f~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~  388 (583)
                      +.+.+-.....    --+++...|++.+.|..-.+.
T Consensus       289 l~~~~~~~~~~----l~~e~l~~ia~~~~~~~R~l~  320 (450)
T PRK00149        289 LKKKAEEEGID----LPDEVLEFIAKNITSNVRELE  320 (450)
T ss_pred             HHHHHHHcCCC----CCHHHHHHHHcCcCCCHHHHH
Confidence            99887432211    125678889999998776544

>TIGR00767 rho transcription termination factor Rho

Probab=98.06  E-value=9.8e-06  Score=82.52  Aligned_cols=90  Identities=18%  Similarity=0.126  Sum_probs=61.2

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCC--CChHHHHHHHHHHhhcCcccc--cc----HHHHHH
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDP--FDEFNVAKATIEELEGSAIDL--HE----LNSLLR  278 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~--~~~~~~~~~il~~l~~~~~~~--~~----~~~~~~  278 (583)
                      ....++|+|++|+|||||++.+++.... ++|+..+|+.+.+.  .++.++++.++..+-....+.  ..    .....+
T Consensus       167 ~Gq~~~IvG~~g~GKTtL~~~i~~~I~~-nhfdv~v~VlLIgER~~EVtDLqrsIlg~Vvast~d~p~~~~~~va~~v~e  245 (415)
T TIGR00767       167 KGQRGLIVAPPKAGKTVLLQKIAQAITR-NHPEVELIVLLIDERPEEVTDMQRSVKGEVVASTFDEPASRHVQVAEMVIE  245 (415)
T ss_pred             CCCEEEEECCCCCChhHHHHHHHHhhcc-cCCceEEEEEEcCCCCccHHHHHHHhhceEEEecCCCChHHHHHHHHHHHH
Confidence            4567899999999999999999986433 37999999999865  678888888854333221111  11    112222


Q ss_pred             HHHHH-hcCCceeEEEcCCC
Q 036323          279 RIGAN-IAGQKFFMVLDNLW  297 (583)
Q Consensus       279 ~l~~~-l~~k~~LlVlDdv~  297 (583)
                      ..... -.+++++|++|++.
T Consensus       246 ~Ae~~~~~GkdVVLlIDEit  265 (415)
T TIGR00767       246 KAKRLVEHKKDVVILLDSIT  265 (415)
T ss_pred             HHHHHHHcCCCeEEEEEChh
Confidence            22222 25899999999994

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

>CHL00095 clpC Clp protease ATP binding subunit

Probab=98.06  E-value=2.9e-05  Score=88.76  Aligned_cols=154  Identities=20%  Similarity=0.177  Sum_probs=84.3

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCcc---ccccC-ceEEEEEeCCCCChHHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDND---VINNF-EIRVRVCVSDPFDEFNV  255 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~---~~~~f-~~~~wv~~~~~~~~~~~  255 (583)
                      ..++||+++++++++.|....       ..-+.++|++|+|||++|+.++....   +.... ...+|. +    +...+
T Consensus       179 ~~~igr~~ei~~~~~~L~r~~-------~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~-l----~~~~l  246 (821)
T CHL00095        179 DPVIGREKEIERVIQILGRRT-------KNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVIT-L----DIGLL  246 (821)
T ss_pred             CCCCCcHHHHHHHHHHHcccc-------cCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEE-e----eHHHH
Confidence            468999999999999996543       33456999999999999998877421   11111 233442 1    11111


Q ss_pred             HHHHHHHhhcCccccccHHHHHHHHHHHh-cCCceeEEEcCCCccc-------ccchHh-hHHhhccCCCCceEEEecCc
Q 036323          256 AKATIEELEGSAIDLHELNSLLRRIGANI-AGQKFFMVLDNLWTDD-------YRKWEP-FRNCLMNGLRGSKILITTRK  326 (583)
Q Consensus       256 ~~~il~~l~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~-------~~~~~~-l~~~l~~~~~gs~IlvTtR~  326 (583)
                             +.+.. -..+.+..+..+.+.+ ..++.+|++|+++.-.       ...... |...+..  ...++|.+|..
T Consensus       247 -------~ag~~-~~ge~e~rl~~i~~~~~~~~~~ILfiDEih~l~~~g~~~g~~~~a~lLkp~l~r--g~l~~IgaTt~  316 (821)
T CHL00095        247 -------LAGTK-YRGEFEERLKRIFDEIQENNNIILVIDEVHTLIGAGAAEGAIDAANILKPALAR--GELQCIGATTL  316 (821)
T ss_pred             -------hccCC-CccHHHHHHHHHHHHHHhcCCeEEEEecHHHHhcCCCCCCcccHHHHhHHHHhC--CCcEEEEeCCH
Confidence                   11111 1122222222222222 3568999999995310       011222 2222222  12455655554


Q ss_pred             hHHHh------h-hcCCCeEEcCCCChHHHHHHHHH
Q 036323          327 ETVAR------M-MESTDIVYVQGLSELECWSLFRR  355 (583)
Q Consensus       327 ~~v~~------~-~~~~~~~~l~~L~~~ea~~Lf~~  355 (583)
                      .....      . ......+.+...+.++...++..
T Consensus       317 ~ey~~~ie~D~aL~rRf~~I~v~ep~~~e~~aILr~  352 (821)
T CHL00095        317 DEYRKHIEKDPALERRFQPVYVGEPSVEETIEILFG  352 (821)
T ss_pred             HHHHHHHhcCHHHHhcceEEecCCCCHHHHHHHHHH
Confidence            44321      1 12256788999999998888764

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=98.05  E-value=5.4e-05  Score=74.67  Aligned_cols=162  Identities=13%  Similarity=0.095  Sum_probs=80.2

Q ss_pred             ceeechhHHHHHHHHhhcC--------CCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCCh
Q 036323          181 EVRGRDEEMRSIKSMLLCQ--------GSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDE  252 (583)
Q Consensus       181 ~~vGR~~e~~~l~~~L~~~--------~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  252 (583)
                      .++|.+..+++|.+.....        .+-...+....+.++|++|+||||+|+.+++.....+......++.++.    
T Consensus         7 ~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l~~~~~~~~~~~v~~~~----   82 (261)
T TIGR02881         7 RMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLFKEMNVLSKGHLIEVER----   82 (261)
T ss_pred             HhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHHHhcCcccCCceEEecH----
Confidence            4788877766665432211        0001123456788999999999999999876311111111112233221    


Q ss_pred             HHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCccc--------ccchHhhHHhhccCCCCceEEEec
Q 036323          253 FNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDD--------YRKWEPFRNCLMNGLRGSKILITT  324 (583)
Q Consensus       253 ~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--------~~~~~~l~~~l~~~~~gs~IlvTt  324 (583)
                      .++    .....+.     ........+...   ..-+|+||+++.-.        .+..+.+...+........+++++
T Consensus        83 ~~l----~~~~~g~-----~~~~~~~~~~~a---~~~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~~~~~~~vila~  150 (261)
T TIGR02881        83 ADL----VGEYIGH-----TAQKTREVIKKA---LGGVLFIDEAYSLARGGEKDFGKEAIDTLVKGMEDNRNEFVLILAG  150 (261)
T ss_pred             HHh----hhhhccc-----hHHHHHHHHHhc---cCCEEEEechhhhccCCccchHHHHHHHHHHHHhccCCCEEEEecC
Confidence            111    1111000     011112222221   23589999996421        112333444443433344555665


Q ss_pred             CchHHHh------hhc-C-CCeEEcCCCChHHHHHHHHHHhc
Q 036323          325 RKETVAR------MME-S-TDIVYVQGLSELECWSLFRRFAL  358 (583)
Q Consensus       325 R~~~v~~------~~~-~-~~~~~l~~L~~~ea~~Lf~~~a~  358 (583)
                      .......      .+. . ...+++++++.++-.+++.+.+.
T Consensus       151 ~~~~~~~~~~~~p~L~sRf~~~i~f~~~~~~el~~Il~~~~~  192 (261)
T TIGR02881       151 YSDEMDYFLSLNPGLRSRFPISIDFPDYTVEELMEIAERMVK  192 (261)
T ss_pred             CcchhHHHHhcChHHHhccceEEEECCCCHHHHHHHHHHHHH
Confidence            4332211      111 1 34688999999999999988764

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

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=98.05  E-value=0.00013  Score=72.66  Aligned_cols=133  Identities=14%  Similarity=0.081  Sum_probs=71.4

Q ss_pred             EEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCce
Q 036323          210 IISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKF  289 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~  289 (583)
                      -+.++|++|+|||++|+.+++.....+......|+.++.    .+    +...+.+..  .   ......+.+.   ..-
T Consensus        60 ~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~----~~----l~~~~~g~~--~---~~~~~~~~~a---~~g  123 (284)
T TIGR02880        60 HMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVTR----DD----LVGQYIGHT--A---PKTKEILKRA---MGG  123 (284)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEecH----HH----HhHhhcccc--h---HHHHHHHHHc---cCc
Confidence            578999999999999977665311111111112444432    11    222222211  1   1111222221   336


Q ss_pred             eEEEcCCCcc---------cccchHhhHHhhccCCCCceEEEecCchHHHhhh--c------CCCeEEcCCCChHHHHHH
Q 036323          290 FMVLDNLWTD---------DYRKWEPFRNCLMNGLRGSKILITTRKETVARMM--E------STDIVYVQGLSELECWSL  352 (583)
Q Consensus       290 LlVlDdv~~~---------~~~~~~~l~~~l~~~~~gs~IlvTtR~~~v~~~~--~------~~~~~~l~~L~~~ea~~L  352 (583)
                      +|+||++..-         ....+..|...+.....+.+||+++.........  .      ....+++++++.+|-..+
T Consensus       124 vL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le~~~~~~~vI~a~~~~~~~~~~~~np~L~sR~~~~i~fp~l~~edl~~I  203 (284)
T TIGR02880       124 VLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQRDDLVVILAGYKDRMDSFFESNPGFSSRVAHHVDFPDYSEAELLVI  203 (284)
T ss_pred             EEEEechhhhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhhCHHHHhhCCcEEEeCCcCHHHHHHH
Confidence            8999999521         1122344555555545566777776543222111  1      145789999999999999


Q ss_pred             HHHHhc
Q 036323          353 FRRFAL  358 (583)
Q Consensus       353 f~~~a~  358 (583)
                      +...+-
T Consensus       204 ~~~~l~  209 (284)
T TIGR02880       204 AGLMLK  209 (284)
T ss_pred             HHHHHH
Confidence            888763

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.

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=98.04  E-value=0.00021  Score=75.54  Aligned_cols=154  Identities=15%  Similarity=0.059  Sum_probs=86.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQ  287 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  287 (583)
                      ...+.|+|++|+|||+|++.+++..  ......+++++      ...+...+...+...     ..    ..++..+. +
T Consensus       141 ~npl~L~G~~G~GKTHLl~Ai~~~l--~~~~~~v~yi~------~~~f~~~~~~~l~~~-----~~----~~f~~~~~-~  202 (445)
T PRK12422        141 FNPIYLFGPEGSGKTHLMQAAVHAL--RESGGKILYVR------SELFTEHLVSAIRSG-----EM----QRFRQFYR-N  202 (445)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHHH--HHcCCCEEEee------HHHHHHHHHHHHhcc-----hH----HHHHHHcc-c
Confidence            4568899999999999999999843  22222234443      233444444444321     11    12333332 4


Q ss_pred             ceeEEEcCCCcccccc--hHhhHHhhcc-CCCCceEEEecCc-hH--------HHhhhcCCCeEEcCCCChHHHHHHHHH
Q 036323          288 KFFMVLDNLWTDDYRK--WEPFRNCLMN-GLRGSKILITTRK-ET--------VARMMESTDIVYVQGLSELECWSLFRR  355 (583)
Q Consensus       288 ~~LlVlDdv~~~~~~~--~~~l~~~l~~-~~~gs~IlvTtR~-~~--------v~~~~~~~~~~~l~~L~~~ea~~Lf~~  355 (583)
                      .-+|++||+.......  .+.+...+.. ...|..||+||.. +.        +...+.....+.+.+++.++-..++.+
T Consensus       203 ~dvLiIDDiq~l~~k~~~qeelf~l~N~l~~~~k~IIlts~~~p~~l~~l~~rL~SR~~~Gl~~~l~~pd~e~r~~iL~~  282 (445)
T PRK12422        203 VDALFIEDIEVFSGKGATQEEFFHTFNSLHTEGKLIVISSTCAPQDLKAMEERLISRFEWGIAIPLHPLTKEGLRSFLER  282 (445)
T ss_pred             CCEEEEcchhhhcCChhhHHHHHHHHHHHHHCCCcEEEecCCCHHHHhhhHHHHHhhhcCCeEEecCCCCHHHHHHHHHH
Confidence            4589999985432211  1223333321 1235578888754 22        122233457889999999999999988


Q ss_pred             HhccCCCCCCCchHHHHHHHHhhhCCCC
Q 036323          356 FALSGRTPSECDQLEGIGRGIVRKCKGL  383 (583)
Q Consensus       356 ~a~~~~~~~~~~~~~~~~~~I~~~c~Gl  383 (583)
                      .+-.....    --+++...|+..+.|.
T Consensus       283 k~~~~~~~----l~~evl~~la~~~~~d  306 (445)
T PRK12422        283 KAEALSIR----IEETALDFLIEALSSN  306 (445)
T ss_pred             HHHHcCCC----CCHHHHHHHHHhcCCC
Confidence            77432211    1245566676666654

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

Probab=98.04  E-value=3.9e-05  Score=74.11  Aligned_cols=183  Identities=14%  Similarity=0.152  Sum_probs=112.5

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceE-EEEEeCCCCChHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIR-VRVCVSDPFDEFNVAK  257 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~-~wv~~~~~~~~~~~~~  257 (583)
                      -.+++|.+..++.|.+.+...       ..+....+|++|.|||+-|..+++..--.+.|.++ +-.++|..-... +.+
T Consensus        35 ~de~~gQe~vV~~L~~a~~~~-------~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSderGis-vvr  106 (346)
T KOG0989|consen   35 FDELAGQEHVVQVLKNALLRR-------ILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERGIS-VVR  106 (346)
T ss_pred             HHhhcchHHHHHHHHHHHhhc-------CCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhccccccccc-chh
Confidence            357899999999999999652       46788899999999999998887643333445443 223444322111 000


Q ss_pred             HHHHHhhcCccccccHHHHHHHHHHHh--cCCc-eeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCc-hHHHhhh
Q 036323          258 ATIEELEGSAIDLHELNSLLRRIGANI--AGQK-FFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRK-ETVARMM  333 (583)
Q Consensus       258 ~il~~l~~~~~~~~~~~~~~~~l~~~l--~~k~-~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~-~~v~~~~  333 (583)
                      .          ...+...+........  ..++ -++|||+++....+.|..++..+......++.|+.+.. ..+...+
T Consensus       107 ~----------Kik~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii~pi  176 (346)
T KOG0989|consen  107 E----------KIKNFAKLTVLLKRSDGYPCPPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILICNYLSRIIRPL  176 (346)
T ss_pred             h----------hhcCHHHHhhccccccCCCCCcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEcCChhhCChHH
Confidence            0          0111111111110000  1123 38899999887778999999888776666665544433 2222222


Q ss_pred             -cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCC
Q 036323          334 -ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGL  383 (583)
Q Consensus       334 -~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~Gl  383 (583)
                       .....+..++|.+++...-+...+-.++..-+    .+..+.|++.++|-
T Consensus       177 ~SRC~KfrFk~L~d~~iv~rL~~Ia~~E~v~~d----~~al~~I~~~S~Gd  223 (346)
T KOG0989|consen  177 VSRCQKFRFKKLKDEDIVDRLEKIASKEGVDID----DDALKLIAKISDGD  223 (346)
T ss_pred             HhhHHHhcCCCcchHHHHHHHHHHHHHhCCCCC----HHHHHHHHHHcCCc
Confidence             12456888999999999888888755443333    45567789999884

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=98.04  E-value=0.00016  Score=78.76  Aligned_cols=193  Identities=14%  Similarity=0.145  Sum_probs=109.7

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      -.+++|.+..++.|.+.+....      -.+.+.++|+.|+|||++|+.+.+...-...-+       ..+++.......
T Consensus        15 f~~viGq~~v~~~L~~~i~~~~------~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~-------~~pC~~C~~C~~   81 (559)
T PRK05563         15 FEDVVGQEHITKTLKNAIKQGK------ISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPD-------GEPCNECEICKA   81 (559)
T ss_pred             HHhccCcHHHHHHHHHHHHcCC------CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCC-------CCCCCccHHHHH
Confidence            4578999999999999986543      356777899999999999988865311100000       011111122222


Q ss_pred             HHHHhhcC-----c---cccccHHHHHHHHHHH-hcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEE-ecCchH
Q 036323          259 TIEELEGS-----A---IDLHELNSLLRRIGAN-IAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILI-TTRKET  328 (583)
Q Consensus       259 il~~l~~~-----~---~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~Ilv-TtR~~~  328 (583)
                      +.......     .   .....+.++...+... ..++.-++|+|+++.-....+..|...+......+.+|+ ||....
T Consensus        82 i~~g~~~dv~eidaas~~~vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt~~~k  161 (559)
T PRK05563         82 ITNGSLMDVIEIDAASNNGVDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPHK  161 (559)
T ss_pred             HhcCCCCCeEEeeccccCCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeCChhh
Confidence            21111000     0   0111122222222211 135566889999976555567777777755444555554 444443


Q ss_pred             HHhhh-cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchh
Q 036323          329 VARMM-ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAK  388 (583)
Q Consensus       329 v~~~~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~  388 (583)
                      +...+ .....+++.+++.++....+...+-..+...+    .+.+..|++.++|.+..+.
T Consensus       162 i~~tI~SRc~~~~f~~~~~~ei~~~L~~i~~~egi~i~----~~al~~ia~~s~G~~R~al  218 (559)
T PRK05563        162 IPATILSRCQRFDFKRISVEDIVERLKYILDKEGIEYE----DEALRLIARAAEGGMRDAL  218 (559)
T ss_pred             CcHHHHhHheEEecCCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHH
Confidence            33322 23567889999999998888876643322122    4556778888888776433

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

Probab=98.04  E-value=8.6e-05  Score=73.82  Aligned_cols=167  Identities=18%  Similarity=0.204  Sum_probs=103.2

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      ++.|.+|+.++..+..++....    ..-+..|.|.|-+|.|||.+.+.+++...     ...+|+++-+.++..-++..
T Consensus         5 ~~~v~~Re~qi~~L~~Llg~~~----~~~PS~~~iyG~sgTGKT~~~r~~l~~~n-----~~~vw~n~~ecft~~~lle~   75 (438)
T KOG2543|consen    5 EPNVPCRESQIRRLKSLLGNNS----CTIPSIVHIYGHSGTGKTYLVRQLLRKLN-----LENVWLNCVECFTYAILLEK   75 (438)
T ss_pred             ccCccchHHHHHHHHHHhCCCC----cccceeEEEeccCCCchhHHHHHHHhhcC-----CcceeeehHHhccHHHHHHH
Confidence            5678999999999998885443    23456679999999999999999998541     13589999999999999999


Q ss_pred             HHHHhhcCcccc-------ccHHHHHHHHHH--Hhc--CCceeEEEcCCCcccccchHh-hHHh---hcc-CCCCceEEE
Q 036323          259 TIEELEGSAIDL-------HELNSLLRRIGA--NIA--GQKFFMVLDNLWTDDYRKWEP-FRNC---LMN-GLRGSKILI  322 (583)
Q Consensus       259 il~~l~~~~~~~-------~~~~~~~~~l~~--~l~--~k~~LlVlDdv~~~~~~~~~~-l~~~---l~~-~~~gs~Ilv  322 (583)
                      |+........+.       .+.......+.+  ...  ++.++|||||++.  ..+.+. +...   +.. .....-+|+
T Consensus        76 IL~~~~~~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~--lrD~~a~ll~~l~~L~el~~~~~i~ii  153 (438)
T KOG2543|consen   76 ILNKSQLADKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADA--LRDMDAILLQCLFRLYELLNEPTIVII  153 (438)
T ss_pred             HHHHhccCCCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHh--hhccchHHHHHHHHHHHHhCCCceEEE
Confidence            999985222111       122223333333  112  4589999999943  222222 1111   111 112233344


Q ss_pred             ecCc--hHH-HhhhcC--CCeEEcCCCChHHHHHHHHHH
Q 036323          323 TTRK--ETV-ARMMES--TDIVYVQGLSELECWSLFRRF  356 (583)
Q Consensus       323 TtR~--~~v-~~~~~~--~~~~~l~~L~~~ea~~Lf~~~  356 (583)
                      ++-.  +.. ...++.  .-++..+.-+.+|...++.+.
T Consensus       154 ls~~~~e~~y~~n~g~~~i~~l~fP~Ys~~e~~~Il~~~  192 (438)
T KOG2543|consen  154 LSAPSCEKQYLINTGTLEIVVLHFPQYSVEETQVILSRD  192 (438)
T ss_pred             EeccccHHHhhcccCCCCceEEecCCCCHHHHHHHHhcC
Confidence            4332  222 221333  345566777888888877653

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=98.03  E-value=0.00022  Score=76.94  Aligned_cols=161  Identities=12%  Similarity=0.047  Sum_probs=92.6

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQ  287 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  287 (583)
                      ...+.|+|..|+|||.|++.+++.......-..+++++.      .++...+...+...     ..+.    +++.+. +
T Consensus       314 ~NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yita------eef~~el~~al~~~-----~~~~----f~~~y~-~  377 (617)
T PRK14086        314 YNPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSS------EEFTNEFINSIRDG-----KGDS----FRRRYR-E  377 (617)
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeH------HHHHHHHHHHHHhc-----cHHH----HHHHhh-c
Confidence            345899999999999999999984221111123344442      33444444443321     1122    222222 2


Q ss_pred             ceeEEEcCCCcccc-cchH-hhHHhhcc-CCCCceEEEecCch---------HHHhhhcCCCeEEcCCCChHHHHHHHHH
Q 036323          288 KFFMVLDNLWTDDY-RKWE-PFRNCLMN-GLRGSKILITTRKE---------TVARMMESTDIVYVQGLSELECWSLFRR  355 (583)
Q Consensus       288 ~~LlVlDdv~~~~~-~~~~-~l~~~l~~-~~~gs~IlvTtR~~---------~v~~~~~~~~~~~l~~L~~~ea~~Lf~~  355 (583)
                      .=+|||||+..... ..|. .|...+.. ...|..|||||...         .+...+...-.+++.+.+.+.-..++.+
T Consensus       378 ~DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~~P~eL~~l~~rL~SRf~~GLvv~I~~PD~EtR~aIL~k  457 (617)
T PRK14086        378 MDILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSDRPPKQLVTLEDRLRNRFEWGLITDVQPPELETRIAILRK  457 (617)
T ss_pred             CCEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecCCChHhhhhccHHHHhhhhcCceEEcCCCCHHHHHHHHHH
Confidence            35899999964322 1222 23333322 23356688888752         2333345577899999999999999998


Q ss_pred             HhccCCCCCCCchHHHHHHHHhhhCCCCccchh
Q 036323          356 FALSGRTPSECDQLEGIGRGIVRKCKGLPLAAK  388 (583)
Q Consensus       356 ~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~  388 (583)
                      .+......-    -+++..-|++.+.+..-.|.
T Consensus       458 ka~~r~l~l----~~eVi~yLa~r~~rnvR~Le  486 (617)
T PRK14086        458 KAVQEQLNA----PPEVLEFIASRISRNIRELE  486 (617)
T ss_pred             HHHhcCCCC----CHHHHHHHHHhccCCHHHHH
Confidence            874432221    25667777777776544433

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=98.01  E-value=0.00015  Score=73.56  Aligned_cols=97  Identities=11%  Similarity=0.095  Sum_probs=66.8

Q ss_pred             CCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCchH-HHhhh-cCCCeEEcCCCChHHHHHHHHHHhccCCCC
Q 036323          286 GQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKET-VARMM-ESTDIVYVQGLSELECWSLFRRFALSGRTP  363 (583)
Q Consensus       286 ~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~~-v~~~~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~  363 (583)
                      +++-++|||+++..+....+.|...+.....++.+|+||.+.. +...+ +....+.+.+++.+++.+.+..... .   
T Consensus       105 ~~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc~~~~~~~~~~~~~~~~L~~~~~-~---  180 (328)
T PRK05707        105 GGRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQACPLPSNEESLQWLQQALP-E---  180 (328)
T ss_pred             CCCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhceeeeCCCcCHHHHHHHHHHhcc-c---
Confidence            4445667899987777778888888866556777777776653 33332 2367899999999999988876531 1   


Q ss_pred             CCCchHHHHHHHHhhhCCCCccchhhh
Q 036323          364 SECDQLEGIGRGIVRKCKGLPLAAKTI  390 (583)
Q Consensus       364 ~~~~~~~~~~~~I~~~c~GlPLai~~~  390 (583)
                      ..    .+.+..++..++|.|+....+
T Consensus       181 ~~----~~~~~~~l~la~Gsp~~A~~l  203 (328)
T PRK05707        181 SD----ERERIELLTLAGGSPLRALQL  203 (328)
T ss_pred             CC----hHHHHHHHHHcCCCHHHHHHH
Confidence            11    233456789999999755444

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=98.00  E-value=0.00011  Score=74.18  Aligned_cols=197  Identities=15%  Similarity=0.085  Sum_probs=111.8

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccc-------------cccCceEEEEEe
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDV-------------INNFEIRVRVCV  246 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~-------------~~~f~~~~wv~~  246 (583)
                      .+++|.+..++.+...+..+.      -.+...++|+.|+||+++|..+.+..--             ...++-..|+.-
T Consensus         4 ~~iiGq~~~~~~L~~~i~~~r------l~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~hPDl~~i~p   77 (314)
T PRK07399          4 ANLIGQPLAIELLTAAIKQNR------IAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNHPDLLWVEP   77 (314)
T ss_pred             HHhCCHHHHHHHHHHHHHhCC------CCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCCCCEEEEec
Confidence            367899999999999986442      3578899999999999999776542100             111222334421


Q ss_pred             CCCCChHHHHHHHHHHhh--cCccccccHHHHHHHHHHHh-----cCCceeEEEcCCCcccccchHhhHHhhccCCCCce
Q 036323          247 SDPFDEFNVAKATIEELE--GSAIDLHELNSLLRRIGANI-----AGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSK  319 (583)
Q Consensus       247 ~~~~~~~~~~~~il~~l~--~~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~  319 (583)
                      .....-..+-..-+...+  ......-.++++ +.+.+.+     .+++-++|+|+++..+....+.|+..+....+..-
T Consensus        78 ~~~~~g~~~~~~~~~~~~~~~~~~~~I~id~i-r~i~~~l~~~p~~~~~kVvII~~ae~m~~~aaNaLLK~LEEPp~~~f  156 (314)
T PRK07399         78 TYQHQGKLITASEAEEAGLKRKAPPQIRLEQI-REIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEPGNGTL  156 (314)
T ss_pred             cccccccccchhhhhhccccccccccCcHHHH-HHHHHHHccCcccCCceEEEEEchhhcCHHHHHHHHHHHhCCCCCeE
Confidence            100000000001111111  001111112221 2233333     35566999999977666677778888855443444


Q ss_pred             EEEecCchHHHhhhc-CCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhh
Q 036323          320 ILITTRKETVARMME-STDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTI  390 (583)
Q Consensus       320 IlvTtR~~~v~~~~~-~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~  390 (583)
                      |++|+....+...+. ....+++.+++.++..+.+.+.....   ..    ......++..++|.|..+...
T Consensus       157 ILi~~~~~~Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~~~~~---~~----~~~~~~l~~~a~Gs~~~al~~  221 (314)
T PRK07399        157 ILIAPSPESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLGDEE---IL----NINFPELLALAQGSPGAAIAN  221 (314)
T ss_pred             EEEECChHhCcHHHHhhceEEecCCCCHHHHHHHHHHhhccc---cc----hhHHHHHHHHcCCCHHHHHHH
Confidence            444544444443333 36789999999999999998864211   10    111356889999999766543

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

Probab=97.96  E-value=0.00043  Score=65.58  Aligned_cols=182  Identities=18%  Similarity=0.207  Sum_probs=106.2

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeC-CCCChHHHHHHHHHHhhcCccc--cccHHHHHHHHHH
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVS-DPFDEFNVAKATIEELEGSAID--LHELNSLLRRIGA  282 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~-~~~~~~~~~~~il~~l~~~~~~--~~~~~~~~~~l~~  282 (583)
                      .+.+++.|+|.-|+|||.+++.......  +  +.++-+.+. ...+...+...++..+...+..  ....+...+.|..
T Consensus        49 d~qg~~~vtGevGsGKTv~~Ral~~s~~--~--d~~~~v~i~~~~~s~~~~~~ai~~~l~~~p~~~~~~~~e~~~~~L~a  124 (269)
T COG3267          49 DGQGILAVTGEVGSGKTVLRRALLASLN--E--DQVAVVVIDKPTLSDATLLEAIVADLESQPKVNVNAVLEQIDRELAA  124 (269)
T ss_pred             cCCceEEEEecCCCchhHHHHHHHHhcC--C--CceEEEEecCcchhHHHHHHHHHHHhccCccchhHHHHHHHHHHHHH
Confidence            3456999999999999999995443211  1  111213333 3446677788888888763221  1122333333333


Q ss_pred             Hh-cCCc-eeEEEcCCCcccccchHhhHHhhccCCCC---ceEEEecCch-------HHHhhhc-CCCe-EEcCCCChHH
Q 036323          283 NI-AGQK-FFMVLDNLWTDDYRKWEPFRNCLMNGLRG---SKILITTRKE-------TVARMME-STDI-VYVQGLSELE  348 (583)
Q Consensus       283 ~l-~~k~-~LlVlDdv~~~~~~~~~~l~~~l~~~~~g---s~IlvTtR~~-------~v~~~~~-~~~~-~~l~~L~~~e  348 (583)
                      .. ++++ ..+++|+.+....+..+.++........+   -+|+..-..+       .+..... .... |++.|++.++
T Consensus       125 l~~~g~r~v~l~vdEah~L~~~~le~Lrll~nl~~~~~~~l~ivL~Gqp~L~~~lr~~~l~e~~~R~~ir~~l~P~~~~~  204 (269)
T COG3267         125 LVKKGKRPVVLMVDEAHDLNDSALEALRLLTNLEEDSSKLLSIVLIGQPKLRPRLRLPVLRELEQRIDIRIELPPLTEAE  204 (269)
T ss_pred             HHHhCCCCeEEeehhHhhhChhHHHHHHHHHhhcccccCceeeeecCCcccchhhchHHHHhhhheEEEEEecCCcChHH
Confidence            33 4666 89999999776666666655433221111   2233332211       0111111 1334 8999999999


Q ss_pred             HHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhhhh
Q 036323          349 CWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGS  392 (583)
Q Consensus       349 a~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~~  392 (583)
                      ...++.....+...+ .+-.-.+....|.....|.|.+|..++.
T Consensus       205 t~~yl~~~Le~a~~~-~~l~~~~a~~~i~~~sqg~P~lin~~~~  247 (269)
T COG3267         205 TGLYLRHRLEGAGLP-EPLFSDDALLLIHEASQGIPRLINNLAT  247 (269)
T ss_pred             HHHHHHHHHhccCCC-cccCChhHHHHHHHHhccchHHHHHHHH
Confidence            999988876544322 2112245567799999999999988764

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

Probab=97.94  E-value=0.00011  Score=82.20  Aligned_cols=156  Identities=13%  Similarity=0.131  Sum_probs=85.2

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCcc---ccccC-ceEEEEEeCCCCChHHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDND---VINNF-EIRVRVCVSDPFDEFNV  255 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~---~~~~f-~~~~wv~~~~~~~~~~~  255 (583)
                      ..++||+.++.++++.|....       ..-+.++|++|+|||++|+.+++...   +...+ ++.+|..     +..  
T Consensus       186 ~~liGR~~ei~~~i~iL~r~~-------~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l-----~~~--  251 (758)
T PRK11034        186 DPLIGREKELERAIQVLCRRR-------KNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSL-----DIG--  251 (758)
T ss_pred             CcCcCCCHHHHHHHHHHhccC-------CCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEec-----cHH--
Confidence            468999999999999996532       23446899999999999999886321   11111 3334321     111  


Q ss_pred             HHHHHHHhhcCccccccHHHHHHHHHHHh-cCCceeEEEcCCCcc--------cccchHhhHHhhccCCCCceEEEecCc
Q 036323          256 AKATIEELEGSAIDLHELNSLLRRIGANI-AGQKFFMVLDNLWTD--------DYRKWEPFRNCLMNGLRGSKILITTRK  326 (583)
Q Consensus       256 ~~~il~~l~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~--------~~~~~~~l~~~l~~~~~gs~IlvTtR~  326 (583)
                        .++   .+. .-..+.+.....+.+.+ +.++.+|+||+++.-        ...+...+..++... ...++|-+|..
T Consensus       252 --~ll---aG~-~~~Ge~e~rl~~l~~~l~~~~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L~~-g~i~vIgATt~  324 (758)
T PRK11034        252 --SLL---AGT-KYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSS-GKIRVIGSTTY  324 (758)
T ss_pred             --HHh---ccc-chhhhHHHHHHHHHHHHHhcCCCEEEeccHHHHhccCCCCCcHHHHHHHHHHHHhC-CCeEEEecCCh
Confidence              111   111 01112222222222222 346789999999531        011222222222221 23445555544


Q ss_pred             hHHHhh-------hcCCCeEEcCCCChHHHHHHHHHH
Q 036323          327 ETVARM-------MESTDIVYVQGLSELECWSLFRRF  356 (583)
Q Consensus       327 ~~v~~~-------~~~~~~~~l~~L~~~ea~~Lf~~~  356 (583)
                      ......       ......+.+++++.++..+++...
T Consensus       325 ~E~~~~~~~D~AL~rRFq~I~v~ePs~~~~~~IL~~~  361 (758)
T PRK11034        325 QEFSNIFEKDRALARRFQKIDITEPSIEETVQIINGL  361 (758)
T ss_pred             HHHHHHhhccHHHHhhCcEEEeCCCCHHHHHHHHHHH
Confidence            332111       122568999999999999999864

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

Probab=97.93  E-value=2.9e-05  Score=67.70  Aligned_cols=21  Identities=43%  Similarity=0.434  Sum_probs=19.4

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |.|+|++|+|||++|+.+++.
T Consensus         1 ill~G~~G~GKT~l~~~la~~   21 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQY   21 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHH
T ss_pred             CEEECcCCCCeeHHHHHHHhh
Confidence            579999999999999999985

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 ....

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.93  E-value=0.00013  Score=83.69  Aligned_cols=155  Identities=19%  Similarity=0.188  Sum_probs=82.7

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccc---c-CceEEE-EEeCCCCChHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVIN---N-FEIRVR-VCVSDPFDEFN  254 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~---~-f~~~~w-v~~~~~~~~~~  254 (583)
                      ..++||+.++.+++..|....       ..-+.++|++|+|||++|+.+........   . ....+| ++++      .
T Consensus       173 ~~~igr~~ei~~~~~~l~r~~-------~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~~~------~  239 (852)
T TIGR03346       173 DPVIGRDEEIRRTIQVLSRRT-------KNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALDMG------A  239 (852)
T ss_pred             CcCCCcHHHHHHHHHHHhcCC-------CCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEeeHH------H
Confidence            468999999999999996543       33455899999999999998877421110   0 112222 2211      1


Q ss_pred             HHHHHHHHhhcCccccccHHHHHHHHHHHh-c-CCceeEEEcCCCccc-----ccchHhhHHhh-ccCCCC-ceEEEecC
Q 036323          255 VAKATIEELEGSAIDLHELNSLLRRIGANI-A-GQKFFMVLDNLWTDD-----YRKWEPFRNCL-MNGLRG-SKILITTR  325 (583)
Q Consensus       255 ~~~~il~~l~~~~~~~~~~~~~~~~l~~~l-~-~k~~LlVlDdv~~~~-----~~~~~~l~~~l-~~~~~g-s~IlvTtR  325 (583)
                          ++   .+. .-..+.+..+..+.+.+ . +++.+|++|+++.-.     .... .....| +....| .++|.+|.
T Consensus       240 ----l~---a~~-~~~g~~e~~l~~~l~~~~~~~~~~ILfIDEih~l~~~g~~~~~~-d~~~~Lk~~l~~g~i~~IgaTt  310 (852)
T TIGR03346       240 ----LI---AGA-KYRGEFEERLKAVLNEVTKSEGQIILFIDELHTLVGAGKAEGAM-DAGNMLKPALARGELHCIGATT  310 (852)
T ss_pred             ----Hh---hcc-hhhhhHHHHHHHHHHHHHhcCCCeEEEeccHHHhhcCCCCcchh-HHHHHhchhhhcCceEEEEeCc
Confidence                11   000 00112222222222222 2 468999999996421     0011 111112 112223 34555554


Q ss_pred             chHHHh-------hhcCCCeEEcCCCChHHHHHHHHHH
Q 036323          326 KETVAR-------MMESTDIVYVQGLSELECWSLFRRF  356 (583)
Q Consensus       326 ~~~v~~-------~~~~~~~~~l~~L~~~ea~~Lf~~~  356 (583)
                      ......       .......+.+...+.++...++...
T Consensus       311 ~~e~r~~~~~d~al~rRf~~i~v~~p~~~~~~~iL~~~  348 (852)
T TIGR03346       311 LDEYRKYIEKDAALERRFQPVFVDEPTVEDTISILRGL  348 (852)
T ss_pred             HHHHHHHhhcCHHHHhcCCEEEeCCCCHHHHHHHHHHH
Confidence            443211       1122567889999999999988765

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.

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.85  E-value=0.0002  Score=82.03  Aligned_cols=45  Identities=29%  Similarity=0.388  Sum_probs=37.5

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..++||+.++.+++..|....       ..-+.++|++|+|||+||+.+...
T Consensus       178 ~~vigr~~ei~~~i~iL~r~~-------~~n~lL~G~pGvGKT~l~~~la~~  222 (857)
T PRK10865        178 DPVIGRDEEIRRTIQVLQRRT-------KNNPVLIGEPGVGKTAIVEGLAQR  222 (857)
T ss_pred             CcCCCCHHHHHHHHHHHhcCC-------cCceEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999996543       335569999999999999988774

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.75  E-value=0.00018  Score=63.02  Aligned_cols=87  Identities=21%  Similarity=0.058  Sum_probs=44.9

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCC-
Q 036323          209 QIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQ-  287 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k-  287 (583)
                      ..+.|+|++|+||||+++.++.....  ....++++..+...........  ...................+.+..... 
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~~--~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGP--PGGGVIYIDGEDILEEVLDQLL--LIIVGGKKASGSGELRLRLALALARKLK   78 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccCC--CCCCEEEECCEEccccCHHHHH--hhhhhccCCCCCHHHHHHHHHHHHHhcC
Confidence            57889999999999999999885322  2223455544433222211111  011111111111222222333333333 


Q ss_pred             ceeEEEcCCCcc
Q 036323          288 KFFMVLDNLWTD  299 (583)
Q Consensus       288 ~~LlVlDdv~~~  299 (583)
                      ..+|++|+++..
T Consensus        79 ~~viiiDei~~~   90 (148)
T smart00382       79 PDVLILDEITSL   90 (148)
T ss_pred             CCEEEEECCccc
Confidence            489999999654

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.

>PRK08116 hypothetical protein; Validated

Probab=97.75  E-value=0.00014  Score=71.80  Aligned_cols=103  Identities=19%  Similarity=0.225  Sum_probs=58.6

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQK  288 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~  288 (583)
                      ..+.|+|.+|+|||.||..+++..  ......++++++      .+++..+........  ..+...+.    +.+.+-.
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~l--~~~~~~v~~~~~------~~ll~~i~~~~~~~~--~~~~~~~~----~~l~~~d  180 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANEL--IEKGVPVIFVNF------PQLLNRIKSTYKSSG--KEDENEII----RSLVNAD  180 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHH--HHcCCeEEEEEH------HHHHHHHHHHHhccc--cccHHHHH----HHhcCCC
Confidence            357899999999999999999853  222334555553      334444444433211  11222222    2233333


Q ss_pred             eeEEEcCCCcccccchHh--hHHhhcc-CCCCceEEEecCc
Q 036323          289 FFMVLDNLWTDDYRKWEP--FRNCLMN-GLRGSKILITTRK  326 (583)
Q Consensus       289 ~LlVlDdv~~~~~~~~~~--l~~~l~~-~~~gs~IlvTtR~  326 (583)
                       ||||||+.......|..  +...+.. -..+..+|+||..
T Consensus       181 -lLviDDlg~e~~t~~~~~~l~~iin~r~~~~~~~IiTsN~  220 (268)
T PRK08116        181 -LLILDDLGAERDTEWAREKVYNIIDSRYRKGLPTIVTTNL  220 (268)
T ss_pred             -EEEEecccCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCC
Confidence             89999995544445543  4333332 2345679999874

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=97.72  E-value=0.00095  Score=67.08  Aligned_cols=93  Identities=10%  Similarity=0.058  Sum_probs=66.4

Q ss_pred             CCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCch-HHHhhh-cCCCeEEcCCCChHHHHHHHHHHhccCCCC
Q 036323          286 GQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKE-TVARMM-ESTDIVYVQGLSELECWSLFRRFALSGRTP  363 (583)
Q Consensus       286 ~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~-~v~~~~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~  363 (583)
                      ++.=++|+|+++..+....+.|...|..-..++.+|++|.+. .+...+ +....+.+.+++.+++.+.+....   .  
T Consensus       107 ~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTI~SRCq~~~~~~~~~~~~~~~L~~~~---~--  181 (319)
T PRK06090        107 NGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIVSRCQQWVVTPPSTAQAMQWLKGQG---I--  181 (319)
T ss_pred             CCceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhcceeEeCCCCCHHHHHHHHHHcC---C--
Confidence            445589999998777777888888887766677777666654 344333 336789999999999998886532   1  


Q ss_pred             CCCchHHHHHHHHhhhCCCCccchhhh
Q 036323          364 SECDQLEGIGRGIVRKCKGLPLAAKTI  390 (583)
Q Consensus       364 ~~~~~~~~~~~~I~~~c~GlPLai~~~  390 (583)
                      .       ....+++.++|.|+....+
T Consensus       182 ~-------~~~~~l~l~~G~p~~A~~~  201 (319)
T PRK06090        182 T-------VPAYALKLNMGSPLKTLAM  201 (319)
T ss_pred             c-------hHHHHHHHcCCCHHHHHHH
Confidence            1       1245789999999976544

>PRK10536 hypothetical protein; Provisional

Probab=97.72  E-value=0.00072  Score=65.05  Aligned_cols=137  Identities=16%  Similarity=0.154  Sum_probs=74.8

Q ss_pred             cCCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEE----eCC-----
Q 036323          178 DVSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVC----VSD-----  248 (583)
Q Consensus       178 ~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~----~~~-----  248 (583)
                      +...+.+|......+..+|..         ..++.+.|++|+|||+||..+..+.-..+.|..++-..    ..+     
T Consensus        53 ~~~~i~p~n~~Q~~~l~al~~---------~~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP~v~~ge~LGfL  123 (262)
T PRK10536         53 DTSPILARNEAQAHYLKAIES---------KQLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPVLQADEDLGFL  123 (262)
T ss_pred             CCccccCCCHHHHHHHHHHhc---------CCeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCCCCCchhhhCcC
Confidence            345577888889999988843         23999999999999999988776422233454333221    111     


Q ss_pred             CCChHH----HHHHHHHHhhcCccccccHHHHHH--------HHHHHhcCCce---eEEEcCCCcccccchHhhHHhhcc
Q 036323          249 PFDEFN----VAKATIEELEGSAIDLHELNSLLR--------RIGANIAGQKF---FMVLDNLWTDDYRKWEPFRNCLMN  313 (583)
Q Consensus       249 ~~~~~~----~~~~il~~l~~~~~~~~~~~~~~~--------~l~~~l~~k~~---LlVlDdv~~~~~~~~~~l~~~l~~  313 (583)
                      +-+..+    .+.-+...|..-. .....+.+..        .=..+++++.+   +||+|.+.+.+.   ..+...+..
T Consensus       124 PG~~~eK~~p~~~pi~D~L~~~~-~~~~~~~~~~~~~~~Iei~~l~ymRGrtl~~~~vIvDEaqn~~~---~~~k~~ltR  199 (262)
T PRK10536        124 PGDIAEKFAPYFRPVYDVLVRRL-GASFMQYCLRPEIGKVEIAPFAYMRGRTFENAVVILDEAQNVTA---AQMKMFLTR  199 (262)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHh-ChHHHHHHHHhccCcEEEecHHHhcCCcccCCEEEEechhcCCH---HHHHHHHhh
Confidence            011111    1222222221100 0011111110        00124566655   999999976554   334444555


Q ss_pred             CCCCceEEEecCch
Q 036323          314 GLRGSKILITTRKE  327 (583)
Q Consensus       314 ~~~gs~IlvTtR~~  327 (583)
                      .+.+|++|+|--..
T Consensus       200 ~g~~sk~v~~GD~~  213 (262)
T PRK10536        200 LGENVTVIVNGDIT  213 (262)
T ss_pred             cCCCCEEEEeCChh
Confidence            66899999987543

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

Probab=97.70  E-value=0.0006  Score=70.10  Aligned_cols=137  Identities=15%  Similarity=0.163  Sum_probs=82.7

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAG  286 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~  286 (583)
                      ....+.|+|..|.|||.|++.+.+.  ...+......+.++    .......+...+...         -....++..  
T Consensus       112 ~~nplfi~G~~GlGKTHLl~Aign~--~~~~~~~a~v~y~~----se~f~~~~v~a~~~~---------~~~~Fk~~y--  174 (408)
T COG0593         112 AYNPLFIYGGVGLGKTHLLQAIGNE--ALANGPNARVVYLT----SEDFTNDFVKALRDN---------EMEKFKEKY--  174 (408)
T ss_pred             cCCcEEEECCCCCCHHHHHHHHHHH--HHhhCCCceEEecc----HHHHHHHHHHHHHhh---------hHHHHHHhh--
Confidence            5778999999999999999999984  33344322222222    233444444443321         223344443  


Q ss_pred             CceeEEEcCCCccc-ccchH-hhHHhhcc-CCCCceEEEecCch---------HHHhhhcCCCeEEcCCCChHHHHHHHH
Q 036323          287 QKFFMVLDNLWTDD-YRKWE-PFRNCLMN-GLRGSKILITTRKE---------TVARMMESTDIVYVQGLSELECWSLFR  354 (583)
Q Consensus       287 k~~LlVlDdv~~~~-~~~~~-~l~~~l~~-~~~gs~IlvTtR~~---------~v~~~~~~~~~~~l~~L~~~ea~~Lf~  354 (583)
                      .-=++++||++--. .+.|. .+...+.. ...|..||+|++..         .+...+...-.+++.+++.+....++.
T Consensus       175 ~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~~~~rL~SR~~~Gl~~~I~~Pd~e~r~aiL~  254 (408)
T COG0593         175 SLDLLLIDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSDRPPKELNGLEDRLRSRLEWGLVVEIEPPDDETRLAILR  254 (408)
T ss_pred             ccCeeeechHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcCCCchhhccccHHHHHHHhceeEEeeCCCCHHHHHHHHH
Confidence            33489999996421 11222 24444432 22344899998642         333445567889999999999999999


Q ss_pred             HHhccC
Q 036323          355 RFALSG  360 (583)
Q Consensus       355 ~~a~~~  360 (583)
                      +.+...
T Consensus       255 kka~~~  260 (408)
T COG0593         255 KKAEDR  260 (408)
T ss_pred             HHHHhc
Confidence            876433

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=97.70  E-value=0.0011  Score=66.80  Aligned_cols=96  Identities=9%  Similarity=0.053  Sum_probs=66.0

Q ss_pred             CCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCc-hHHHhhhc-CCCeEEcCCCChHHHHHHHHHHhccCCCC
Q 036323          286 GQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRK-ETVARMME-STDIVYVQGLSELECWSLFRRFALSGRTP  363 (583)
Q Consensus       286 ~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~-~~v~~~~~-~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~  363 (583)
                      +++-++|||+++..+...-+.|...|..-..++.+|++|.+ ..+...+. ....+.+.+++.+++...+....      
T Consensus       112 g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrSRCq~i~~~~~~~~~~~~~L~~~~------  185 (319)
T PRK08769        112 GIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRSRCQRLEFKLPPAHEALAWLLAQG------  185 (319)
T ss_pred             CCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHhhheEeeCCCcCHHHHHHHHHHcC------
Confidence            45669999999776666667788878666667767766664 33433332 36788999999999988887531      


Q ss_pred             CCCchHHHHHHHHhhhCCCCccchhhhh
Q 036323          364 SECDQLEGIGRGIVRKCKGLPLAAKTIG  391 (583)
Q Consensus       364 ~~~~~~~~~~~~I~~~c~GlPLai~~~~  391 (583)
                      ..    ...+..++..++|.|+....+.
T Consensus       186 ~~----~~~a~~~~~l~~G~p~~A~~~~  209 (319)
T PRK08769        186 VS----ERAAQEALDAARGHPGLAAQWL  209 (319)
T ss_pred             CC----hHHHHHHHHHcCCCHHHHHHHh
Confidence            11    2225568999999998665443

>TIGR00602 rad24 checkpoint protein rad24

Probab=97.70  E-value=0.00029  Score=77.01  Aligned_cols=53  Identities=17%  Similarity=0.280  Sum_probs=41.5

Q ss_pred             ccCCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          177 IDVSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       177 ~~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ....+++|-++.++++..++....  ......+++.|+|++|+||||+++.++..
T Consensus        81 ~~ldel~~~~~ki~~l~~~l~~~~--~~~~~~~illL~GP~GsGKTTl~~~la~~  133 (637)
T TIGR00602        81 ETQHELAVHKKKIEEVETWLKAQV--LENAPKRILLITGPSGCGKSTTIKILSKE  133 (637)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHhcc--cccCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            345679999999999999986543  11223468999999999999999999874

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

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

Probab=97.66  E-value=0.00062  Score=61.79  Aligned_cols=137  Identities=13%  Similarity=0.133  Sum_probs=76.6

Q ss_pred             echhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCcccc------------------ccCceEEEEE
Q 036323          184 GRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVI------------------NNFEIRVRVC  245 (583)
Q Consensus       184 GR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~------------------~~f~~~~wv~  245 (583)
                      |-++..+.|.+.+...      .-...+.++|+.|+||+++|..+.+..--.                  ....-..|+.
T Consensus         1 gq~~~~~~L~~~~~~~------~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~   74 (162)
T PF13177_consen    1 GQEEIIELLKNLIKSG------RLPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIK   74 (162)
T ss_dssp             S-HHHHHHHHHHHHCT------C--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEE
T ss_pred             CcHHHHHHHHHHHHcC------CcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEe
Confidence            5566777788777543      245578999999999999998876531110                  1111222332


Q ss_pred             eCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHh-----cCCceeEEEcCCCcccccchHhhHHhhccCCCCceE
Q 036323          246 VSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANI-----AGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKI  320 (583)
Q Consensus       246 ~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~I  320 (583)
                      -....                  ..-..+++. .+.+.+     .++.=++||||++..+......|+..+.....++.+
T Consensus        75 ~~~~~------------------~~i~i~~ir-~i~~~~~~~~~~~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~f  135 (162)
T PF13177_consen   75 PDKKK------------------KSIKIDQIR-EIIEFLSLSPSEGKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYF  135 (162)
T ss_dssp             TTTSS------------------SSBSHHHHH-HHHHHCTSS-TTSSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEE
T ss_pred             ccccc------------------chhhHHHHH-HHHHHHHHHHhcCCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEE
Confidence            22110                  011222222 222222     234569999999887777888899888877788888


Q ss_pred             EEecCchH-HHhhh-cCCCeEEcCCCC
Q 036323          321 LITTRKET-VARMM-ESTDIVYVQGLS  345 (583)
Q Consensus       321 lvTtR~~~-v~~~~-~~~~~~~l~~L~  345 (583)
                      |++|.+.. +.... .....+.+.+|+
T Consensus       136 iL~t~~~~~il~TI~SRc~~i~~~~ls  162 (162)
T PF13177_consen  136 ILITNNPSKILPTIRSRCQVIRFRPLS  162 (162)
T ss_dssp             EEEES-GGGS-HHHHTTSEEEEE----
T ss_pred             EEEECChHHChHHHHhhceEEecCCCC
Confidence            88888754 33322 235566666654

...

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=97.65  E-value=0.0015  Score=65.80  Aligned_cols=177  Identities=9%  Similarity=0.040  Sum_probs=99.5

Q ss_pred             HHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhh----
Q 036323          189 MRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELE----  264 (583)
Q Consensus       189 ~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~----  264 (583)
                      -+.|.+.+..+      .-.....++|+.|+||+++|..+.+..--.....       ...+..-...+.+...-.    
T Consensus        11 ~~~l~~~~~~~------rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~-------~~~Cg~C~sC~~~~~g~HPD~~   77 (325)
T PRK06871         11 YQQITQAFQQG------LGHHALLFKADSGLGTEQLIRALAQWLMCQTPQG-------DQPCGQCHSCHLFQAGNHPDFH   77 (325)
T ss_pred             HHHHHHHHHcC------CcceeEEeECCCCCCHHHHHHHHHHHHcCCCCCC-------CCCCCCCHHHHHHhcCCCCCEE
Confidence            45566666432      2356788999999999999988755211000000       000011111111111000    


Q ss_pred             ------cCccccccHHHHHHHHHHH-hcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCch-HHHhhh-cC
Q 036323          265 ------GSAIDLHELNSLLRRIGAN-IAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKE-TVARMM-ES  335 (583)
Q Consensus       265 ------~~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~-~v~~~~-~~  335 (583)
                            +.......+.++.+.+... ..+++=++|+|+++..+....+.|+..|.....++.+|++|.+. .+...+ +.
T Consensus        78 ~i~p~~~~~I~id~iR~l~~~~~~~~~~g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~SR  157 (325)
T PRK06871         78 ILEPIDNKDIGVDQVREINEKVSQHAQQGGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSR  157 (325)
T ss_pred             EEccccCCCCCHHHHHHHHHHHhhccccCCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHhh
Confidence                  0001112222222222211 13556688999998777777888888887766777777777654 343332 23


Q ss_pred             CCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccch
Q 036323          336 TDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAA  387 (583)
Q Consensus       336 ~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai  387 (583)
                      ...+.+.+++.++..+.+.....     ..    ...+...++.++|.|+.+
T Consensus       158 C~~~~~~~~~~~~~~~~L~~~~~-----~~----~~~~~~~~~l~~g~p~~A  200 (325)
T PRK06871        158 CQTWLIHPPEEQQALDWLQAQSS-----AE----ISEILTALRINYGRPLLA  200 (325)
T ss_pred             ceEEeCCCCCHHHHHHHHHHHhc-----cC----hHHHHHHHHHcCCCHHHH
Confidence            67899999999999988887541     11    112455788999999633

>TIGR03689 pup_AAA proteasome ATPase

Probab=97.65  E-value=0.00042  Score=73.85  Aligned_cols=170  Identities=11%  Similarity=0.164  Sum_probs=91.5

Q ss_pred             cCCceeechhHHHHHHHHhhcCCC------CCCCCceEEEEEEecCCchHHHHHHHHHcCcccc---ccCceEEEEEeCC
Q 036323          178 DVSEVRGRDEEMRSIKSMLLCQGS------DQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVI---NNFEIRVRVCVSD  248 (583)
Q Consensus       178 ~~~~~vGR~~e~~~l~~~L~~~~~------~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~---~~f~~~~wv~~~~  248 (583)
                      .-..+.|.+..+++|.+.+..+-.      ..+-..++-+.++|++|+|||++|+.+++.....   .......|+++..
T Consensus       180 ~~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl~v~~  259 (512)
T TIGR03689       180 TYADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFLNIKG  259 (512)
T ss_pred             CHHHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeEEeccc
Confidence            345678899999999887642110      0011234568899999999999999999853211   0112334444432


Q ss_pred             CCChHHHHHHHHHHhhcCccccccHHHHHHHHHHH-hcCCceeEEEcCCCccc-------ccch-----HhhHHhhcc--
Q 036323          249 PFDEFNVAKATIEELEGSAIDLHELNSLLRRIGAN-IAGQKFFMVLDNLWTDD-------YRKW-----EPFRNCLMN--  313 (583)
Q Consensus       249 ~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~-------~~~~-----~~l~~~l~~--  313 (583)
                      .    ++    +....+.  ....+..+....++. ..+++++|+||+++.--       ....     ..+...+..  
T Consensus       260 ~----eL----l~kyvGe--te~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~LDgl~  329 (512)
T TIGR03689       260 P----EL----LNKYVGE--TERQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSELDGVE  329 (512)
T ss_pred             h----hh----cccccch--HHHHHHHHHHHHHHHhhcCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHHhcccc
Confidence            1    11    1100000  011122222333322 23578999999996311       0111     223333322  


Q ss_pred             CCCCceEEEecCchHHHh-hh-c---CCCeEEcCCCChHHHHHHHHHHh
Q 036323          314 GLRGSKILITTRKETVAR-MM-E---STDIVYVQGLSELECWSLFRRFA  357 (583)
Q Consensus       314 ~~~gs~IlvTtR~~~v~~-~~-~---~~~~~~l~~L~~~ea~~Lf~~~a  357 (583)
                      ...+..||.||....... .+ .   -...++++..+.++..++|..+.
T Consensus       330 ~~~~ViVI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l  378 (512)
T TIGR03689       330 SLDNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFSKYL  378 (512)
T ss_pred             cCCceEEEeccCChhhCCHhhcCccccceEEEeCCCCHHHHHHHHHHHh
Confidence            123445666665543321 11 1   14568999999999999999876

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.

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=97.65  E-value=0.00083  Score=68.47  Aligned_cols=163  Identities=8%  Similarity=0.035  Sum_probs=90.0

Q ss_pred             ceee-chhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHH
Q 036323          181 EVRG-RDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKAT  259 (583)
Q Consensus       181 ~~vG-R~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  259 (583)
                      .++| -+.-++.|...+...      .-.+...++|+.|+|||++|..+.+..--.......       ........+.+
T Consensus         6 ~i~~~q~~~~~~L~~~~~~~------~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~-------~cg~C~~c~~~   72 (329)
T PRK08058          6 QLTALQPVVVKMLQNSIAKN------RLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVE-------PCGTCTNCKRI   72 (329)
T ss_pred             HHHhhHHHHHHHHHHHHHcC------CCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCC-------CCCcCHHHHHH
Confidence            3456 666777788777543      345677999999999999998875531100000000       00000111111


Q ss_pred             HHHhhcC------ccccccHHHHHHHHHHH----hcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCch-H
Q 036323          260 IEELEGS------AIDLHELNSLLRRIGAN----IAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKE-T  328 (583)
Q Consensus       260 l~~l~~~------~~~~~~~~~~~~~l~~~----l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~-~  328 (583)
                      ...-...      ......++++.+.+...    ..+.+-++|+|++...+....+.|+..+.....++.+|++|.+. .
T Consensus        73 ~~~~hpD~~~i~~~~~~i~id~ir~l~~~~~~~~~~~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~~~Il~t~~~~~  152 (329)
T PRK08058         73 DSGNHPDVHLVAPDGQSIKKDQIRYLKEEFSKSGVESNKKVYIIEHADKMTASAANSLLKFLEEPSGGTTAILLTENKHQ  152 (329)
T ss_pred             hcCCCCCEEEeccccccCCHHHHHHHHHHHhhCCcccCceEEEeehHhhhCHHHHHHHHHHhcCCCCCceEEEEeCChHh
Confidence            0000000      00011122222222111    23455689999997666666777888887666677777777653 3


Q ss_pred             HHhhh-cCCCeEEcCCCChHHHHHHHHHH
Q 036323          329 VARMM-ESTDIVYVQGLSELECWSLFRRF  356 (583)
Q Consensus       329 v~~~~-~~~~~~~l~~L~~~ea~~Lf~~~  356 (583)
                      +...+ .....+++.+++.++....+...
T Consensus       153 ll~TIrSRc~~i~~~~~~~~~~~~~L~~~  181 (329)
T PRK08058        153 ILPTILSRCQVVEFRPLPPESLIQRLQEE  181 (329)
T ss_pred             CcHHHHhhceeeeCCCCCHHHHHHHHHHc
Confidence            33322 23678999999999998887653

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

Probab=97.61  E-value=0.00071  Score=76.64  Aligned_cols=136  Identities=15%  Similarity=0.200  Sum_probs=76.5

Q ss_pred             CceeechhHHHHHHHHhhcCCCC--CCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSD--QQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAK  257 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~--~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  257 (583)
                      ..++|.+..++.|.+.+......  .......++.++|++|+|||+||+.++...     +...+.++.+.......   
T Consensus       454 ~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l-----~~~~~~~d~se~~~~~~---  525 (731)
T TIGR02639       454 AKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEAL-----GVHLERFDMSEYMEKHT---  525 (731)
T ss_pred             cceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHh-----cCCeEEEeCchhhhccc---
Confidence            46889999999988887643210  012234578999999999999999998732     22345555544222111   


Q ss_pred             HHHHHhhcCccccccHHHHHHHHHHHhcCCc-eeEEEcCCCcccccchHhhHHhhccC-----------CCCceEEEecC
Q 036323          258 ATIEELEGSAIDLHELNSLLRRIGANIAGQK-FFMVLDNLWTDDYRKWEPFRNCLMNG-----------LRGSKILITTR  325 (583)
Q Consensus       258 ~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~-~LlVlDdv~~~~~~~~~~l~~~l~~~-----------~~gs~IlvTtR  325 (583)
                        ...+.+.++.....+. ...+.+.++.++ -+|+||+++...++.++.|...+..+           -.++.||+||.
T Consensus       526 --~~~lig~~~gyvg~~~-~~~l~~~~~~~p~~VvllDEieka~~~~~~~Ll~~ld~g~~~d~~g~~vd~~~~iii~Tsn  602 (731)
T TIGR02639       526 --VSRLIGAPPGYVGFEQ-GGLLTEAVRKHPHCVLLLDEIEKAHPDIYNILLQVMDYATLTDNNGRKADFRNVILIMTSN  602 (731)
T ss_pred             --HHHHhcCCCCCcccch-hhHHHHHHHhCCCeEEEEechhhcCHHHHHHHHHhhccCeeecCCCcccCCCCCEEEECCC
Confidence              1112222211111000 112223333344 59999999877766677777666432           12355777775


Q ss_pred             c
Q 036323          326 K  326 (583)
Q Consensus       326 ~  326 (583)
                      .
T Consensus       603 ~  603 (731)
T TIGR02639       603 A  603 (731)
T ss_pred             c
Confidence            3

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

Probab=97.60  E-value=0.00046  Score=72.40  Aligned_cols=159  Identities=13%  Similarity=0.135  Sum_probs=87.1

Q ss_pred             CceeechhHHHHHHHHhhcCCCC------CCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSD------QQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEF  253 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~------~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  253 (583)
                      ..+.|.+..+++|.+.+.-+-..      .+-...+-+.|+|++|+|||+||+.+++.  ....|     +.+...    
T Consensus       183 ~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~e--l~~~f-----i~V~~s----  251 (438)
T PTZ00361        183 ADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANE--TSATF-----LRVVGS----  251 (438)
T ss_pred             HHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHh--hCCCE-----EEEecc----
Confidence            46789999999988877422100      01123456889999999999999999984  33333     222111    


Q ss_pred             HHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCccc--------c--cc-hHhhHHhh---cc--CCCC
Q 036323          254 NVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDD--------Y--RK-WEPFRNCL---MN--GLRG  317 (583)
Q Consensus       254 ~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--------~--~~-~~~l~~~l---~~--~~~g  317 (583)
                      .+.    ....+.     ....+...+.....+.+.+|+||+++.-.        .  .. ...+...+   ..  ...+
T Consensus       252 eL~----~k~~Ge-----~~~~vr~lF~~A~~~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~~~~~  322 (438)
T PTZ00361        252 ELI----QKYLGD-----GPKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDSRGD  322 (438)
T ss_pred             hhh----hhhcch-----HHHHHHHHHHHHHhCCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhcccCC
Confidence            111    111000     00111112222234578899999974210        0  00 11122222   11  2335


Q ss_pred             ceEEEecCchHHHhh-h-c---CCCeEEcCCCChHHHHHHHHHHhc
Q 036323          318 SKILITTRKETVARM-M-E---STDIVYVQGLSELECWSLFRRFAL  358 (583)
Q Consensus       318 s~IlvTtR~~~v~~~-~-~---~~~~~~l~~L~~~ea~~Lf~~~a~  358 (583)
                      ..||+||........ + .   ....+++.+.+.++..++|..+..
T Consensus       323 V~VI~ATNr~d~LDpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~~  368 (438)
T PTZ00361        323 VKVIMATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTS  368 (438)
T ss_pred             eEEEEecCChHHhhHHhccCCeeEEEEEeCCCCHHHHHHHHHHHHh
Confidence            678888876543322 1 1   145788999999999999987753

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

Probab=97.59  E-value=0.001  Score=69.22  Aligned_cols=161  Identities=12%  Similarity=0.138  Sum_probs=87.4

Q ss_pred             ccCCceeechhHHHHHHHHhhcCCC------CCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCC
Q 036323          177 IDVSEVRGRDEEMRSIKSMLLCQGS------DQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPF  250 (583)
Q Consensus       177 ~~~~~~vGR~~e~~~l~~~L~~~~~------~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~  250 (583)
                      +.-.++.|-+..+++|.+.+..+-.      ..+-..++-+.++|++|+|||+||+.+++..  ...|     +.+..  
T Consensus       142 v~~~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l--~~~f-----i~i~~--  212 (398)
T PTZ00454        142 VTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHT--TATF-----IRVVG--  212 (398)
T ss_pred             CCHHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhc--CCCE-----EEEeh--
Confidence            3445788999988888876642110      0011345678899999999999999999842  2222     12211  


Q ss_pred             ChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCccc------c----cc----hHhhHHhhcc--C
Q 036323          251 DEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDD------Y----RK----WEPFRNCLMN--G  314 (583)
Q Consensus       251 ~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~------~----~~----~~~l~~~l~~--~  314 (583)
                        ..+    .....+.     ....+...+.......+.+|+||+++.-.      .    ..    +..+...+..  .
T Consensus       213 --s~l----~~k~~ge-----~~~~lr~lf~~A~~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~~  281 (398)
T PTZ00454        213 --SEF----VQKYLGE-----GPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQ  281 (398)
T ss_pred             --HHH----HHHhcch-----hHHHHHHHHHHHHhcCCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccCC
Confidence              111    1111110     01111222222334678999999985310      0    01    1122222221  2


Q ss_pred             CCCceEEEecCchHHHh-h-hc---CCCeEEcCCCChHHHHHHHHHHh
Q 036323          315 LRGSKILITTRKETVAR-M-ME---STDIVYVQGLSELECWSLFRRFA  357 (583)
Q Consensus       315 ~~gs~IlvTtR~~~v~~-~-~~---~~~~~~l~~L~~~ea~~Lf~~~a  357 (583)
                      ..+..||+||....... . +.   -...++++..+.++..++|....
T Consensus       282 ~~~v~VI~aTN~~d~LDpAllR~GRfd~~I~~~~P~~~~R~~Il~~~~  329 (398)
T PTZ00454        282 TTNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTIT  329 (398)
T ss_pred             CCCEEEEEecCCchhCCHHHcCCCcccEEEEeCCcCHHHHHHHHHHHH
Confidence            24567888887544322 1 11   24568898888888888888665

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.59  E-value=0.00075  Score=77.38  Aligned_cols=139  Identities=16%  Similarity=0.253  Sum_probs=76.6

Q ss_pred             CceeechhHHHHHHHHhhcCCCC--CCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSD--QQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAK  257 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~--~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  257 (583)
                      ..++|.+.-++.+...+......  ..+....++.++|++|+|||+||+.+++..  ...-...+.++++....     .
T Consensus       568 ~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l--~~~~~~~i~id~se~~~-----~  640 (857)
T PRK10865        568 HRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFM--FDSDDAMVRIDMSEFME-----K  640 (857)
T ss_pred             CeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHh--hcCCCcEEEEEhHHhhh-----h
Confidence            46899999999988888643200  011223578899999999999999988632  11112234444443211     1


Q ss_pred             HHHHHhhcCccccccHHHHHHHHHHHhcCC-ceeEEEcCCCcccccchHhhHHhhccC-----------CCCceEEEecC
Q 036323          258 ATIEELEGSAIDLHELNSLLRRIGANIAGQ-KFFMVLDNLWTDDYRKWEPFRNCLMNG-----------LRGSKILITTR  325 (583)
Q Consensus       258 ~il~~l~~~~~~~~~~~~~~~~l~~~l~~k-~~LlVlDdv~~~~~~~~~~l~~~l~~~-----------~~gs~IlvTtR  325 (583)
                      .....+.+.++.....+. ...+.+.++.+ .-+|+||++...+...+..|...+..+           ..++.||+||.
T Consensus       641 ~~~~~LiG~~pgy~g~~~-~g~l~~~v~~~p~~vLllDEieka~~~v~~~Ll~ile~g~l~d~~gr~vd~rn~iiI~TSN  719 (857)
T PRK10865        641 HSVSRLVGAPPGYVGYEE-GGYLTEAVRRRPYSVILLDEVEKAHPDVFNILLQVLDDGRLTDGQGRTVDFRNTVVIMTSN  719 (857)
T ss_pred             hhHHHHhCCCCcccccch-hHHHHHHHHhCCCCeEEEeehhhCCHHHHHHHHHHHhhCceecCCceEEeecccEEEEeCC
Confidence            112223332222111110 01122223223 359999999776666777777766432           12344778887


Q ss_pred             c
Q 036323          326 K  326 (583)
Q Consensus       326 ~  326 (583)
                      .
T Consensus       720 ~  720 (857)
T PRK10865        720 L  720 (857)
T ss_pred             c
Confidence            5

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

Probab=97.59  E-value=0.0025  Score=72.12  Aligned_cols=165  Identities=18%  Similarity=0.228  Sum_probs=90.3

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKAT  259 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  259 (583)
                      ...+|.++-+++|.++|..... .......++.++|++|+||||+++.++..  ....|   +-+..+...+...+...-
T Consensus       322 ~~~~g~~~vK~~i~~~l~~~~~-~~~~~g~~i~l~GppG~GKTtl~~~ia~~--l~~~~---~~i~~~~~~d~~~i~g~~  395 (784)
T PRK10787        322 TDHYGLERVKDRILEYLAVQSR-VNKIKGPILCLVGPPGVGKTSLGQSIAKA--TGRKY---VRMALGGVRDEAEIRGHR  395 (784)
T ss_pred             hhccCHHHHHHHHHHHHHHHHh-cccCCCceEEEECCCCCCHHHHHHHHHHH--hCCCE---EEEEcCCCCCHHHhccch
Confidence            4689999999999988864220 01124558999999999999999999873  22222   123333322322211110


Q ss_pred             HHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccc----hHhhHHhhccC---------------CCCceE
Q 036323          260 IEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRK----WEPFRNCLMNG---------------LRGSKI  320 (583)
Q Consensus       260 l~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~----~~~l~~~l~~~---------------~~gs~I  320 (583)
                       ....+.     ....+.+.+... ...+-+|+||.++......    ...+...+.+.               ..+..+
T Consensus       396 -~~~~g~-----~~G~~~~~l~~~-~~~~~villDEidk~~~~~~g~~~~aLlevld~~~~~~~~d~~~~~~~dls~v~~  468 (784)
T PRK10787        396 -RTYIGS-----MPGKLIQKMAKV-GVKNPLFLLDEIDKMSSDMRGDPASALLEVLDPEQNVAFSDHYLEVDYDLSDVMF  468 (784)
T ss_pred             -hccCCC-----CCcHHHHHHHhc-CCCCCEEEEEChhhcccccCCCHHHHHHHHhccccEEEEecccccccccCCceEE
Confidence             000000     111233333332 2234478899996533221    23444444321               134445


Q ss_pred             EEecCchHHHhh-hcCCCeEEcCCCChHHHHHHHHHHh
Q 036323          321 LITTRKETVARM-MESTDIVYVQGLSELECWSLFRRFA  357 (583)
Q Consensus       321 lvTtR~~~v~~~-~~~~~~~~l~~L~~~ea~~Lf~~~a  357 (583)
                      |.|+....+... ......+++.+++.++-.++.+++.
T Consensus       469 i~TaN~~~i~~aLl~R~~ii~~~~~t~eek~~Ia~~~L  506 (784)
T PRK10787        469 VATSNSMNIPAPLLDRMEVIRLSGYTEDEKLNIAKRHL  506 (784)
T ss_pred             EEcCCCCCCCHHHhcceeeeecCCCCHHHHHHHHHHhh
Confidence            556654433222 2235688999999999888877765

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.57  E-value=0.00086  Score=77.17  Aligned_cols=137  Identities=18%  Similarity=0.280  Sum_probs=78.8

Q ss_pred             CceeechhHHHHHHHHhhcCCCC--CCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSD--QQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAK  257 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~--~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  257 (583)
                      ..++|.+..++.+...+......  .......++.++|++|+|||++|+.+...  ....-...+.++++.......   
T Consensus       565 ~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~--l~~~~~~~i~~d~s~~~~~~~---  639 (852)
T TIGR03346       565 ERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEF--LFDDEDAMVRIDMSEYMEKHS---  639 (852)
T ss_pred             cccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHH--hcCCCCcEEEEechhhcccch---
Confidence            46899999999999988653210  01123467889999999999999998873  111112334445443322111   


Q ss_pred             HHHHHhhcCccccc---cHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccC-----------CCCceEEEe
Q 036323          258 ATIEELEGSAIDLH---ELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNG-----------LRGSKILIT  323 (583)
Q Consensus       258 ~il~~l~~~~~~~~---~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~-----------~~gs~IlvT  323 (583)
                        ...+.+.++...   ....+...++.   ....+|+||++....+..+..|...+..+           ..++.||+|
T Consensus       640 --~~~l~g~~~g~~g~~~~g~l~~~v~~---~p~~vlllDeieka~~~v~~~Ll~~l~~g~l~d~~g~~vd~rn~iiI~T  714 (852)
T TIGR03346       640 --VARLIGAPPGYVGYEEGGQLTEAVRR---KPYSVVLFDEVEKAHPDVFNVLLQVLDDGRLTDGQGRTVDFRNTVIIMT  714 (852)
T ss_pred             --HHHhcCCCCCccCcccccHHHHHHHc---CCCcEEEEeccccCCHHHHHHHHHHHhcCceecCCCeEEecCCcEEEEe
Confidence              122222222211   11222222221   22349999999877777788777777443           134558888


Q ss_pred             cCc
Q 036323          324 TRK  326 (583)
Q Consensus       324 tR~  326 (583)
                      |..
T Consensus       715 Sn~  717 (852)
T TIGR03346       715 SNL  717 (852)
T ss_pred             CCc
Confidence            874

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.

>PRK12377 putative replication protein; Provisional

Probab=97.57  E-value=0.00022  Score=69.12  Aligned_cols=102  Identities=18%  Similarity=0.130  Sum_probs=56.5

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQ  287 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  287 (583)
                      ...+.|+|.+|+|||+||..+++..  ......++++++.      +++..+-.....    ..........    + .+
T Consensus       101 ~~~l~l~G~~GtGKThLa~AIa~~l--~~~g~~v~~i~~~------~l~~~l~~~~~~----~~~~~~~l~~----l-~~  163 (248)
T PRK12377        101 CTNFVFSGKPGTGKNHLAAAIGNRL--LAKGRSVIVVTVP------DVMSRLHESYDN----GQSGEKFLQE----L-CK  163 (248)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH--HHcCCCeEEEEHH------HHHHHHHHHHhc----cchHHHHHHH----h-cC
Confidence            3578899999999999999999853  2333334555543      344443333211    1111222222    2 35


Q ss_pred             ceeEEEcCCCcccccchHh--hHHhhcc-CCCCceEEEecCc
Q 036323          288 KFFMVLDNLWTDDYRKWEP--FRNCLMN-GLRGSKILITTRK  326 (583)
Q Consensus       288 ~~LlVlDdv~~~~~~~~~~--l~~~l~~-~~~gs~IlvTtR~  326 (583)
                      .-||||||+.......|..  |...+.. -.+...+||||..
T Consensus       164 ~dLLiIDDlg~~~~s~~~~~~l~~ii~~R~~~~~ptiitSNl  205 (248)
T PRK12377        164 VDLLVLDEIGIQRETKNEQVVLNQIIDRRTASMRSVGMLTNL  205 (248)
T ss_pred             CCEEEEcCCCCCCCCHHHHHHHHHHHHHHHhcCCCEEEEcCC
Confidence            5699999995544445543  3333332 1223447888763

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=97.57  E-value=0.0023  Score=63.05  Aligned_cols=41  Identities=20%  Similarity=0.156  Sum_probs=27.6

Q ss_pred             EEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHH
Q 036323          210 IISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNV  255 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~  255 (583)
                      .|.|.|++|+|||+||+.+.+.  ...   ..+.+++....+..++
T Consensus        23 ~vLL~G~~GtGKT~lA~~la~~--lg~---~~~~i~~~~~~~~~dl   63 (262)
T TIGR02640        23 PVHLRGPAGTGKTTLAMHVARK--RDR---PVMLINGDAELTTSDL   63 (262)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHH--hCC---CEEEEeCCccCCHHHH
Confidence            5669999999999999999862  211   2345555555444444

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).

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

Probab=97.56  E-value=0.0022  Score=65.73  Aligned_cols=204  Identities=12%  Similarity=0.104  Sum_probs=118.5

Q ss_pred             chhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHH-HHHHcCccccccCceEEEEEeCCC---CChHHHHHHHH
Q 036323          185 RDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLA-QLAYNDNDVINNFEIRVRVCVSDP---FDEFNVAKATI  260 (583)
Q Consensus       185 R~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa-~~v~~~~~~~~~f~~~~wv~~~~~---~~~~~~~~~il  260 (583)
                      |.+.+++|..||.+..       -..|.|.|+-|+||+.|+ .++..+.+.      ++.+++.+-   .+...+...+.
T Consensus         1 R~e~~~~L~~wL~e~~-------~TFIvV~GPrGSGK~elV~d~~L~~r~~------vL~IDC~~i~~ar~D~~~I~~lA   67 (431)
T PF10443_consen    1 RKEAIEQLKSWLNENP-------NTFIVVQGPRGSGKRELVMDHVLKDRKN------VLVIDCDQIVKARGDAAFIKNLA   67 (431)
T ss_pred             CchHHHHHHHHHhcCC-------CeEEEEECCCCCCccHHHHHHHHhCCCC------EEEEEChHhhhccChHHHHHHHH
Confidence            6678899999997654       468999999999999999 888775322      455554321   12223333333


Q ss_pred             HHhh-----------------------cCccc-cccHHH--------HHHHHHH-------------------Hhc---C
Q 036323          261 EELE-----------------------GSAID-LHELNS--------LLRRIGA-------------------NIA---G  286 (583)
Q Consensus       261 ~~l~-----------------------~~~~~-~~~~~~--------~~~~l~~-------------------~l~---~  286 (583)
                      .+++                       +.... ..+.+.        ....|++                   +|+   .
T Consensus        68 ~qvGY~PvFsw~nSiss~IDLa~qGltGqKaGfSes~e~Ql~~IL~~t~~ALr~ial~~~~~~~~~~~l~e~~yl~~hPe  147 (431)
T PF10443_consen   68 SQVGYFPVFSWMNSISSFIDLAVQGLTGQKAGFSESLETQLKKILQTTATALRDIALSNRKKDDKDANLKEEDYLEAHPE  147 (431)
T ss_pred             HhcCCCcchHHHHHHHHHHHHHHhhccccccCCCCChHHHHHHHHHHHHHHHHHHHHHhhhccccccccCchhhhhhCCc
Confidence            3322                       11111 111111        1111111                   011   1


Q ss_pred             CceeEEEcCCCccccc---chHhhHH---hhccCCCCceEEEecCchHHHh----hhc--CCCeEEcCCCChHHHHHHHH
Q 036323          287 QKFFMVLDNLWTDDYR---KWEPFRN---CLMNGLRGSKILITTRKETVAR----MME--STDIVYVQGLSELECWSLFR  354 (583)
Q Consensus       287 k~~LlVlDdv~~~~~~---~~~~l~~---~l~~~~~gs~IlvTtR~~~v~~----~~~--~~~~~~l~~L~~~ea~~Lf~  354 (583)
                      ++=+|||||.-.....   .|+.|..   .|.. .+=.+||++|-+.....    .+.  ..+.+.|...+++.|..+..
T Consensus       148 ~~PVVVIdnF~~k~~~~~~iy~~laeWAa~Lv~-~nIAHVIFlT~dv~~~k~LskaLPn~vf~tI~L~Das~~~Ak~yV~  226 (431)
T PF10443_consen  148 RRPVVVIDNFLHKAEENDFIYDKLAEWAASLVQ-NNIAHVIFLTDDVSYSKPLSKALPNRVFKTISLSDASPESAKQYVL  226 (431)
T ss_pred             cCCEEEEcchhccCcccchHHHHHHHHHHHHHh-cCccEEEEECCCCchhhhHHHhCCCCceeEEeecCCCHHHHHHHHH
Confidence            2568999998442111   1222221   1222 23456787776654333    332  26788899999999999999


Q ss_pred             HHhccCCCC------------CCC----chHHHHHHHHhhhCCCCccchhhhhhhhccCCCHHH
Q 036323          355 RFALSGRTP------------SEC----DQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEE  402 (583)
Q Consensus       355 ~~a~~~~~~------------~~~----~~~~~~~~~I~~~c~GlPLai~~~~~~L~~~~~~~~  402 (583)
                      .+.......            ...    .....-....+..+||--.-|..+++.++...++++
T Consensus       227 ~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~eld~~i~~LGGRltDLe~lvrRiksGe~p~~  290 (431)
T PF10443_consen  227 SQLDEDTEDSSDSKESNEQNKNDKSAENEKDLAELDECIEPLGGRLTDLEFLVRRIKSGESPEE  290 (431)
T ss_pred             HHhcccccccccccccccccccccccccccchHHHHHHHHHcCCcHHHHHHHHHHHHcCCCHHH
Confidence            887433110            000    123344566889999999999999999998876653

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 [].

>CHL00176 ftsH cell division protein; Validated

Probab=97.55  E-value=0.0012  Score=72.85  Aligned_cols=179  Identities=14%  Similarity=0.145  Sum_probs=94.5

Q ss_pred             CCceeechhHHHHHHHH---hhcCCC--CCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChH
Q 036323          179 VSEVRGRDEEMRSIKSM---LLCQGS--DQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEF  253 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~---L~~~~~--~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  253 (583)
                      -.++.|.++..+++.+.   |..+..  .-+....+-+.++|++|+|||+||+.+++...       .-|+.++..    
T Consensus       182 f~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~~-------~p~i~is~s----  250 (638)
T CHL00176        182 FRDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAE-------VPFFSISGS----  250 (638)
T ss_pred             HHhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHhC-------CCeeeccHH----
Confidence            34678877666555544   332210  00112345688999999999999999987421       122333211    


Q ss_pred             HHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCccc----------ccchHh-hHHhh---cc--CCCC
Q 036323          254 NVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDD----------YRKWEP-FRNCL---MN--GLRG  317 (583)
Q Consensus       254 ~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~----------~~~~~~-l~~~l---~~--~~~g  317 (583)
                      ++.    ....+.     ....+...+.......+++|+||+++.-.          ...+.. +...+   ..  ...+
T Consensus       251 ~f~----~~~~g~-----~~~~vr~lF~~A~~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~~~~  321 (638)
T CHL00176        251 EFV----EMFVGV-----GAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGNKG  321 (638)
T ss_pred             HHH----HHhhhh-----hHHHHHHHHHHHhcCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccCCCC
Confidence            111    111000     11122233344446788999999995321          111222 22222   11  2345


Q ss_pred             ceEEEecCchHHHh-hh-c---CCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCC
Q 036323          318 SKILITTRKETVAR-MM-E---STDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKG  382 (583)
Q Consensus       318 s~IlvTtR~~~v~~-~~-~---~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~G  382 (583)
                      ..||.||....... .+ .   -...+.+...+.++-.++++.++....   ..+  ......|++.+.|
T Consensus       322 ViVIaaTN~~~~LD~ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~~~---~~~--d~~l~~lA~~t~G  386 (638)
T CHL00176        322 VIVIAATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARNKK---LSP--DVSLELIARRTPG  386 (638)
T ss_pred             eeEEEecCchHhhhhhhhccccCceEEEECCCCHHHHHHHHHHHHhhcc---cch--hHHHHHHHhcCCC
Confidence            56676776543322 11 1   246788999999999999988764311   111  2234567788777

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=97.55  E-value=0.0017  Score=70.34  Aligned_cols=209  Identities=14%  Similarity=0.125  Sum_probs=104.2

Q ss_pred             ccCCceeechhHHHHHHHHhh---cCCC--CCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCC
Q 036323          177 IDVSEVRGRDEEMRSIKSMLL---CQGS--DQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFD  251 (583)
Q Consensus       177 ~~~~~~vGR~~e~~~l~~~L~---~~~~--~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  251 (583)
                      +.-.+++|-+..++++.+.+.   .+..  ..+....+-+.++|++|+|||+||+.+++...  ..     ++.++.   
T Consensus        52 ~~~~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~--~~-----~~~i~~---  121 (495)
T TIGR01241        52 VTFKDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAG--VP-----FFSISG---  121 (495)
T ss_pred             CCHHHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcC--CC-----eeeccH---
Confidence            334578898877666655443   1100  00112345588999999999999999987421  12     222221   


Q ss_pred             hHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCccc----------ccchHh----hHHhhc--cCC
Q 036323          252 EFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDD----------YRKWEP----FRNCLM--NGL  315 (583)
Q Consensus       252 ~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~----------~~~~~~----l~~~l~--~~~  315 (583)
                       .++    .....+.     ....+...+.......+.+|+||+++.-.          ...+..    +...+.  ...
T Consensus       122 -~~~----~~~~~g~-----~~~~l~~~f~~a~~~~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~~  191 (495)
T TIGR01241       122 -SDF----VEMFVGV-----GASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTN  191 (495)
T ss_pred             -HHH----HHHHhcc-----cHHHHHHHHHHHHhcCCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccCC
Confidence             111    1111110     11122223333334678999999994311          011222    222221  122


Q ss_pred             CCceEEEecCchHHH-hhh----cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCC-ccchhh
Q 036323          316 RGSKILITTRKETVA-RMM----ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGL-PLAAKT  389 (583)
Q Consensus       316 ~gs~IlvTtR~~~v~-~~~----~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~Gl-PLai~~  389 (583)
                      .+..||.||...... ..+    .-...+++...+.++-.++|..+...... .....    ...|++.+.|. +-.|..
T Consensus       192 ~~v~vI~aTn~~~~ld~al~r~gRfd~~i~i~~Pd~~~R~~il~~~l~~~~~-~~~~~----l~~la~~t~G~sgadl~~  266 (495)
T TIGR01241       192 TGVIVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKKL-APDVD----LKAVARRTPGFSGADLAN  266 (495)
T ss_pred             CCeEEEEecCChhhcCHHHhcCCcceEEEEcCCCCHHHHHHHHHHHHhcCCC-Ccchh----HHHHHHhCCCCCHHHHHH
Confidence            345566667654321 111    12467889988888888888877632211 11111    34677777763 333433


Q ss_pred             hhh---h--hccC---CCHHHHHHHHhhh
Q 036323          390 IGS---L--LQFK---RTKEEWQSALDSE  410 (583)
Q Consensus       390 ~~~---~--L~~~---~~~~~w~~~l~~~  410 (583)
                      +..   .  .+.+   -+.+.....++..
T Consensus       267 l~~eA~~~a~~~~~~~i~~~~l~~a~~~~  295 (495)
T TIGR01241       267 LLNEAALLAARKNKTEITMNDIEEAIDRV  295 (495)
T ss_pred             HHHHHHHHHHHcCCCCCCHHHHHHHHHHH
Confidence            322   1  1111   1556666666554

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.

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

Probab=97.52  E-value=0.00026  Score=78.00  Aligned_cols=138  Identities=17%  Similarity=0.298  Sum_probs=84.3

Q ss_pred             CceeechhHHHHHHHHhhcCCCC--CCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSD--QQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAK  257 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~--~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  257 (583)
                      ..++|.+.-+..+.+.+.....+  .......+....|+.|||||.||+.++..  .-+.=+..+-++.|....     +
T Consensus       491 ~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~--Lfg~e~aliR~DMSEy~E-----k  563 (786)
T COG0542         491 KRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEA--LFGDEQALIRIDMSEYME-----K  563 (786)
T ss_pred             cceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHH--hcCCCccceeechHHHHH-----H
Confidence            57899999999999988644321  12345668888999999999999888762  111013344444443221     1


Q ss_pred             HHHHHhhcCccccccHHHHHHHHHHHhcCCce-eEEEcCCCcccccchHhhHHhhccC----C-------CCceEEEecC
Q 036323          258 ATIEELEGSAIDLHELNSLLRRIGANIAGQKF-FMVLDNLWTDDYRKWEPFRNCLMNG----L-------RGSKILITTR  325 (583)
Q Consensus       258 ~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~-LlVlDdv~~~~~~~~~~l~~~l~~~----~-------~gs~IlvTtR  325 (583)
                      --.+.|-+.++.--..++ -..|-+..+.++| +|.||.+....++.++.|...|..+    +       .++-||+||.
T Consensus       564 HsVSrLIGaPPGYVGyee-GG~LTEaVRr~PySViLlDEIEKAHpdV~nilLQVlDdGrLTD~~Gr~VdFrNtiIImTSN  642 (786)
T COG0542         564 HSVSRLIGAPPGYVGYEE-GGQLTEAVRRKPYSVILLDEIEKAHPDVFNLLLQVLDDGRLTDGQGRTVDFRNTIIIMTSN  642 (786)
T ss_pred             HHHHHHhCCCCCCceecc-ccchhHhhhcCCCeEEEechhhhcCHHHHHHHHHHhcCCeeecCCCCEEecceeEEEEecc
Confidence            223344444443222221 2234445567887 8889999877777777777776543    2       2456777776

>TIGR00763 lon ATP-dependent protease La

Probab=97.51  E-value=0.014  Score=66.60  Aligned_cols=165  Identities=15%  Similarity=0.179  Sum_probs=84.8

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKAT  259 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  259 (583)
                      ..++|.++-+++|.+++..... .......++.++|++|+|||++|+.+++.  ....|-   -++++...+..++..  
T Consensus       320 ~~~~G~~~~k~~i~~~~~~~~~-~~~~~~~~lll~GppG~GKT~lAk~iA~~--l~~~~~---~i~~~~~~~~~~i~g--  391 (775)
T TIGR00763       320 EDHYGLKKVKERILEYLAVQKL-RGKMKGPILCLVGPPGVGKTSLGKSIAKA--LNRKFV---RFSLGGVRDEAEIRG--  391 (775)
T ss_pred             hhcCChHHHHHHHHHHHHHHHh-hcCCCCceEEEECCCCCCHHHHHHHHHHH--hcCCeE---EEeCCCcccHHHHcC--
Confidence            3578999999998887643210 01123458999999999999999999884  222331   122232222221110  


Q ss_pred             HHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccc----hHhhHHhhcc--------C-------CCCceE
Q 036323          260 IEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRK----WEPFRNCLMN--------G-------LRGSKI  320 (583)
Q Consensus       260 l~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~----~~~l~~~l~~--------~-------~~gs~I  320 (583)
                        .  ...-.......+.+.+.... .++-+|+||.++......    ...|...+..        .       ..+..+
T Consensus       392 --~--~~~~~g~~~g~i~~~l~~~~-~~~~villDEidk~~~~~~~~~~~aLl~~ld~~~~~~f~d~~~~~~~d~s~v~~  466 (775)
T TIGR00763       392 --H--RRTYVGAMPGRIIQGLKKAK-TKNPLFLLDEIDKIGSSFRGDPASALLEVLDPEQNNAFSDHYLDVPFDLSKVIF  466 (775)
T ss_pred             --C--CCceeCCCCchHHHHHHHhC-cCCCEEEEechhhcCCccCCCHHHHHHHhcCHHhcCccccccCCceeccCCEEE
Confidence              0  00000011122333333332 233478999985532211    1223332221        0       123344


Q ss_pred             EEecCchH-HHhh-hcCCCeEEcCCCChHHHHHHHHHHh
Q 036323          321 LITTRKET-VARM-MESTDIVYVQGLSELECWSLFRRFA  357 (583)
Q Consensus       321 lvTtR~~~-v~~~-~~~~~~~~l~~L~~~ea~~Lf~~~a  357 (583)
                      |.||.... +... ......+++.+++.++-.+++..+.
T Consensus       467 I~TtN~~~~i~~~L~~R~~vi~~~~~~~~e~~~I~~~~l  505 (775)
T TIGR00763       467 IATANSIDTIPRPLLDRMEVIELSGYTEEEKLEIAKKYL  505 (775)
T ss_pred             EEecCCchhCCHHHhCCeeEEecCCCCHHHHHHHHHHHH
Confidence            55555432 1111 2235688999999998888877653

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.

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=97.49  E-value=0.0027  Score=64.65  Aligned_cols=94  Identities=13%  Similarity=0.063  Sum_probs=65.5

Q ss_pred             CCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCch-HHHhhh-cCCCeEEcCCCChHHHHHHHHHHhccCCCC
Q 036323          286 GQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKE-TVARMM-ESTDIVYVQGLSELECWSLFRRFALSGRTP  363 (583)
Q Consensus       286 ~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~-~v~~~~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~  363 (583)
                      +++=++|+|+++..+...-+.|+..|..-..++.+|++|.+. .+...+ +....+.+.+++.+++...+....  +   
T Consensus       107 g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIrSRCq~~~~~~~~~~~~~~~L~~~~--~---  181 (334)
T PRK07993        107 GGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLRSRCRLHYLAPPPEQYALTWLSREV--T---  181 (334)
T ss_pred             CCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhccccccCCCCCHHHHHHHHHHcc--C---
Confidence            566699999997777667778888887766677777666654 344332 335678999999999988876532  1   


Q ss_pred             CCCchHHHHHHHHhhhCCCCccchh
Q 036323          364 SECDQLEGIGRGIVRKCKGLPLAAK  388 (583)
Q Consensus       364 ~~~~~~~~~~~~I~~~c~GlPLai~  388 (583)
                      ..    .+.+..+++.++|.|....
T Consensus       182 ~~----~~~a~~~~~la~G~~~~Al  202 (334)
T PRK07993        182 MS----QDALLAALRLSAGAPGAAL  202 (334)
T ss_pred             CC----HHHHHHHHHHcCCCHHHHH
Confidence            11    2235678999999996443

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

Probab=97.47  E-value=0.00025  Score=75.10  Aligned_cols=189  Identities=14%  Similarity=0.180  Sum_probs=114.5

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKAT  259 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  259 (583)
                      ++++|.+.-...|...+....      -.......|+-|+||||+|+-++.-..-..      | ....++..-...+.|
T Consensus        16 ~evvGQe~v~~~L~nal~~~r------i~hAYlfsG~RGvGKTt~Ari~AkalNC~~------~-~~~ePC~~C~~Ck~I   82 (515)
T COG2812          16 DDVVGQEHVVKTLSNALENGR------IAHAYLFSGPRGVGKTTIARILAKALNCEN------G-PTAEPCGKCISCKEI   82 (515)
T ss_pred             HHhcccHHHHHHHHHHHHhCc------chhhhhhcCCCCcCchhHHHHHHHHhcCCC------C-CCCCcchhhhhhHhh
Confidence            467999999999999996543      345567899999999999988765211110      0 111122222222222


Q ss_pred             HHHh--------hcCccccccHHHHHHHHHHHh-cCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCc-hHH
Q 036323          260 IEEL--------EGSAIDLHELNSLLRRIGANI-AGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRK-ETV  329 (583)
Q Consensus       260 l~~l--------~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~-~~v  329 (583)
                      -..-        ..+.....++.++.+.+.-.- .++.=+.|+|.|+-.....|+.|+..|.....+...|+.|.+ ..+
T Consensus        83 ~~g~~~DviEiDaASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATTe~~Ki  162 (515)
T COG2812          83 NEGSLIDVIEIDAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEPQKI  162 (515)
T ss_pred             hcCCcccchhhhhhhccChHHHHHHHHHhccCCccccceEEEEecHHhhhHHHHHHHhcccccCccCeEEEEecCCcCcC
Confidence            2210        001112223333333322211 244458999999877777899988888766666666665554 444


Q ss_pred             Hh-hhcCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCcc
Q 036323          330 AR-MMESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPL  385 (583)
Q Consensus       330 ~~-~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPL  385 (583)
                      .. .+.....|.+..++.++-...+...+.......+    .+....|++...|...
T Consensus       163 p~TIlSRcq~f~fkri~~~~I~~~L~~i~~~E~I~~e----~~aL~~ia~~a~Gs~R  215 (515)
T COG2812         163 PNTILSRCQRFDFKRLDLEEIAKHLAAILDKEGINIE----EDALSLIARAAEGSLR  215 (515)
T ss_pred             chhhhhccccccccCCCHHHHHHHHHHHHHhcCCccC----HHHHHHHHHHcCCChh
Confidence            33 2344788999999999999988888755444333    4455667777777554

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

Probab=97.45  E-value=0.0054  Score=62.59  Aligned_cols=168  Identities=10%  Similarity=0.110  Sum_probs=94.2

Q ss_pred             chhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCcccc--ccC---ceEEEEEeCCCCChHHHHHHH
Q 036323          185 RDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVI--NNF---EIRVRVCVSDPFDEFNVAKAT  259 (583)
Q Consensus       185 R~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~--~~f---~~~~wv~~~~~~~~~~~~~~i  259 (583)
                      |+.-.+.|.+.+....    .....+|+|.|.=|+|||++.+.+.+.....  ..+   ..-.|...........++..|
T Consensus         1 ~~~~a~~la~~I~~~~----~~~~~~IgL~G~WGsGKSs~l~~l~~~L~~~~~~~~~~i~fn~w~~~~~~~~~~~~~~~l   76 (325)
T PF07693_consen    1 RKPYAKALAEIIKNPD----SDDPFVIGLYGEWGSGKSSFLNMLKEELKEDNKEKYIFIYFNAWEYDGEDDLWASFLEEL   76 (325)
T ss_pred             ChHHHHHHHHHHhccC----CCCCeEEEEECCCCCCHHHHHHHHHHHHhcccccceeeEEEccccCCCcchHHHHHHHHH
Confidence            3445677777776542    2568899999999999999999987743332  112   122333333222233444444


Q ss_pred             HHHhhcCcc------------------------------------------------------------------ccccH
Q 036323          260 IEELEGSAI------------------------------------------------------------------DLHEL  273 (583)
Q Consensus       260 l~~l~~~~~------------------------------------------------------------------~~~~~  273 (583)
                      ..++.....                                                                  ...+.
T Consensus        77 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  156 (325)
T PF07693_consen   77 FDQLEKHFGSKKIKLYAKKKLKSLKIKFKIKINLSKAIPLALIGLPALILAVAIAKLKAELKNAFKSLEEKFLKKLKKEV  156 (325)
T ss_pred             HHHHHHhcCccchhHHHhhhhhhhhceeeeeeecceeehHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHhhhhhHHH
Confidence            443322100                                                                  00011


Q ss_pred             HHHHHHHHHHhc--CCceeEEEcCCCcccccchHhhHHhhcc--CCCCceEEEecCchHHHhhhcC--------------
Q 036323          274 NSLLRRIGANIA--GQKFFMVLDNLWTDDYRKWEPFRNCLMN--GLRGSKILITTRKETVARMMES--------------  335 (583)
Q Consensus       274 ~~~~~~l~~~l~--~k~~LlVlDdv~~~~~~~~~~l~~~l~~--~~~gs~IlvTtR~~~v~~~~~~--------------  335 (583)
                      +.....+.+.+.  ++|.++|+||++..+++....+...+..  ..++..+|+..-...+...+..              
T Consensus       157 ~~~~~~~~~~l~~~~~~iViiIDdLDR~~~~~i~~~l~~ik~~~~~~~i~~Il~~D~~~l~~ai~~~~~~~~~~~~~~~y  236 (325)
T PF07693_consen  157 EELISKIKKKLKESKKRIVIIIDDLDRCSPEEIVELLEAIKLLLDFPNIIFILAFDPEILEKAIEKNYGEGFDEIDGREY  236 (325)
T ss_pred             HHHHHHHHHhhhcCCceEEEEEcchhcCCcHHHHHHHHHHHHhcCCCCeEEEEEecHHHHHHHHHhhcCcccccccHHHH
Confidence            113334444443  5789999999987666655554444432  3367777776655544432211              


Q ss_pred             -----CCeEEcCCCChHHHHHHHHHH
Q 036323          336 -----TDIVYVQGLSELECWSLFRRF  356 (583)
Q Consensus       336 -----~~~~~l~~L~~~ea~~Lf~~~  356 (583)
                           ..++.+++++..+-..+|...
T Consensus       237 LeKiiq~~~~lP~~~~~~~~~~~~~~  262 (325)
T PF07693_consen  237 LEKIIQVPFSLPPPSPSDLERYLNEL  262 (325)
T ss_pred             HHhhcCeEEEeCCCCHHHHHHHHHHH
Confidence                 245777888877766666555

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 [].

>PRK08181 transposase; Validated

Probab=97.44  E-value=0.00038  Score=68.31  Aligned_cols=101  Identities=18%  Similarity=0.093  Sum_probs=54.3

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQK  288 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~  288 (583)
                      .-+.|+|++|+|||.||..+.+..  ......++|+++      .+++..+.....     ..........+     .+.
T Consensus       107 ~nlll~Gp~GtGKTHLa~Aia~~a--~~~g~~v~f~~~------~~L~~~l~~a~~-----~~~~~~~l~~l-----~~~  168 (269)
T PRK08181        107 ANLLLFGPPGGGKSHLAAAIGLAL--IENGWRVLFTRT------TDLVQKLQVARR-----ELQLESAIAKL-----DKF  168 (269)
T ss_pred             ceEEEEecCCCcHHHHHHHHHHHH--HHcCCceeeeeH------HHHHHHHHHHHh-----CCcHHHHHHHH-----hcC
Confidence            358899999999999999988742  222223445443      344444432211     11222222222     234


Q ss_pred             eeEEEcCCCcccccchH--hhHHhhccCCCCceEEEecCch
Q 036323          289 FFMVLDNLWTDDYRKWE--PFRNCLMNGLRGSKILITTRKE  327 (583)
Q Consensus       289 ~LlVlDdv~~~~~~~~~--~l~~~l~~~~~gs~IlvTtR~~  327 (583)
                      =||||||+.......+.  .+...+.....+..+||||...
T Consensus       169 dLLIIDDlg~~~~~~~~~~~Lf~lin~R~~~~s~IiTSN~~  209 (269)
T PRK08181        169 DLLILDDLAYVTKDQAETSVLFELISARYERRSILITANQP  209 (269)
T ss_pred             CEEEEeccccccCCHHHHHHHHHHHHHHHhCCCEEEEcCCC
Confidence            59999999544333332  2444443221123588888743

>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.41  E-value=0.0024  Score=66.81  Aligned_cols=118  Identities=22%  Similarity=0.215  Sum_probs=72.6

Q ss_pred             EEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCce
Q 036323          210 IISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKF  289 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~  289 (583)
                      ++.|.|+-++|||||++.+...  ..+.   .+++..-+......-+.                 +....+...-..++.
T Consensus        39 i~~i~GpR~~GKTtll~~l~~~--~~~~---~iy~~~~d~~~~~~~l~-----------------d~~~~~~~~~~~~~~   96 (398)
T COG1373          39 IILILGPRQVGKTTLLKLLIKG--LLEE---IIYINFDDLRLDRIELL-----------------DLLRAYIELKEREKS   96 (398)
T ss_pred             EEEEECCccccHHHHHHHHHhh--CCcc---eEEEEecchhcchhhHH-----------------HHHHHHHHhhccCCc
Confidence            9999999999999999777663  1111   44444322111111111                 111111111122778


Q ss_pred             eEEEcCCCcccccchHhhHHhhccCCCCceEEEecCchHHHh-----hh-cCCCeEEcCCCChHHHHHH
Q 036323          290 FMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKETVAR-----MM-ESTDIVYVQGLSELECWSL  352 (583)
Q Consensus       290 LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~~v~~-----~~-~~~~~~~l~~L~~~ea~~L  352 (583)
                      +|+||.|..  ...|......+.+..+. +|++|+-+.....     .+ +....+++.||+..|-..+
T Consensus        97 yifLDEIq~--v~~W~~~lk~l~d~~~~-~v~itgsss~ll~~~~~~~L~GR~~~~~l~PlSF~Efl~~  162 (398)
T COG1373          97 YIFLDEIQN--VPDWERALKYLYDRGNL-DVLITGSSSSLLSKEISESLAGRGKDLELYPLSFREFLKL  162 (398)
T ss_pred             eEEEecccC--chhHHHHHHHHHccccc-eEEEECCchhhhccchhhhcCCCceeEEECCCCHHHHHhh
Confidence            999999954  46899877777776555 7888877654432     22 2367889999999887654

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.41  E-value=0.0025  Score=59.79  Aligned_cols=123  Identities=20%  Similarity=0.267  Sum_probs=74.7

Q ss_pred             cccCCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHH
Q 036323          176 LIDVSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNV  255 (583)
Q Consensus       176 ~~~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~  255 (583)
                      .++-..++|-|...+.|++....-.   .+....-|.+||.-|+|||+|++.+.+.  +....-.  -|.|..       
T Consensus        56 ~i~L~~l~Gvd~qk~~L~~NT~~F~---~G~pANnVLLwGaRGtGKSSLVKA~~~e--~~~~glr--LVEV~k-------  121 (287)
T COG2607          56 PIDLADLVGVDRQKEALVRNTEQFA---EGLPANNVLLWGARGTGKSSLVKALLNE--YADEGLR--LVEVDK-------  121 (287)
T ss_pred             CcCHHHHhCchHHHHHHHHHHHHHH---cCCcccceEEecCCCCChHHHHHHHHHH--HHhcCCe--EEEEcH-------
Confidence            3445678999999998887654322   1233456789999999999999999883  3333322  122221       


Q ss_pred             HHHHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCC-cccccchHhhHHhhccC---CCCceEEEecCc
Q 036323          256 AKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLW-TDDYRKWEPFRNCLMNG---LRGSKILITTRK  326 (583)
Q Consensus       256 ~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~-~~~~~~~~~l~~~l~~~---~~gs~IlvTtR~  326 (583)
                                  .+..++..+...|+.  ..+||+|..||+- +.+...+..+...|..+   .+...++..|.+
T Consensus       122 ------------~dl~~Lp~l~~~Lr~--~~~kFIlFcDDLSFe~gd~~yK~LKs~LeG~ve~rP~NVl~YATSN  182 (287)
T COG2607         122 ------------EDLATLPDLVELLRA--RPEKFILFCDDLSFEEGDDAYKALKSALEGGVEGRPANVLFYATSN  182 (287)
T ss_pred             ------------HHHhhHHHHHHHHhc--CCceEEEEecCCCCCCCchHHHHHHHHhcCCcccCCCeEEEEEecC
Confidence                        122233334444443  4689999999983 33445677788777542   333344444443

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

Probab=97.41  E-value=0.0046  Score=61.45  Aligned_cols=182  Identities=15%  Similarity=0.182  Sum_probs=97.4

Q ss_pred             ccCCceeechhHHHHHHHHhhcCCCC------CCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCC
Q 036323          177 IDVSEVRGRDEEMRSIKSMLLCQGSD------QQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPF  250 (583)
Q Consensus       177 ~~~~~~vGR~~e~~~l~~~L~~~~~~------~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~  250 (583)
                      .....+=|-++.+++|.+...-+-..      -+-..++=|.++|++|.|||-||++|+++  ....|     +.+... 
T Consensus       148 vtY~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~--T~AtF-----IrvvgS-  219 (406)
T COG1222         148 VTYEDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQ--TDATF-----IRVVGS-  219 (406)
T ss_pred             CChhhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhc--cCceE-----EEeccH-
Confidence            34456678999999998876432200      01245677889999999999999999994  43334     333221 


Q ss_pred             ChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhc-CCceeEEEcCCCc-----------ccccchHhhH---Hhhcc--
Q 036323          251 DEFNVAKATIEELEGSAIDLHELNSLLRRIGANIA-GQKFFMVLDNLWT-----------DDYRKWEPFR---NCLMN--  313 (583)
Q Consensus       251 ~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~-~k~~LlVlDdv~~-----------~~~~~~~~l~---~~l~~--  313 (583)
                             ++.+..-+..      ..+.+.+.+..+ ..+.+|++|.++.           .+.+....+.   ..+..  
T Consensus       220 -------ElVqKYiGEG------aRlVRelF~lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD  286 (406)
T COG1222         220 -------ELVQKYIGEG------ARLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFD  286 (406)
T ss_pred             -------HHHHHHhccc------hHHHHHHHHHHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCC
Confidence                   1222111111      224444444433 4689999999843           1111122222   33322  


Q ss_pred             CCCCceEEEecCchHHHhh--hcC---CCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCc
Q 036323          314 GLRGSKILITTRKETVARM--MES---TDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLP  384 (583)
Q Consensus       314 ~~~gs~IlvTtR~~~v~~~--~~~---~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlP  384 (583)
                      ...+.+||..|...+....  +.+   ...++++.-+.+.-.++|+-+.-.-. ....-+++    .|++.|.|.-
T Consensus       287 ~~~nvKVI~ATNR~D~LDPALLRPGR~DRkIEfplPd~~gR~~Il~IHtrkM~-l~~dvd~e----~la~~~~g~s  357 (406)
T COG1222         287 PRGNVKVIMATNRPDILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKMN-LADDVDLE----LLARLTEGFS  357 (406)
T ss_pred             CCCCeEEEEecCCccccChhhcCCCcccceeecCCCCHHHHHHHHHHHhhhcc-CccCcCHH----HHHHhcCCCc
Confidence            2345788988876544321  122   56778774444445566665542211 12222333    3666666643

>PRK13531 regulatory ATPase RavA; Provisional

Probab=97.40  E-value=0.00053  Score=71.86  Aligned_cols=155  Identities=14%  Similarity=0.148  Sum_probs=82.4

Q ss_pred             ceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHH-
Q 036323          181 EVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKAT-  259 (583)
Q Consensus       181 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i-  259 (583)
                      .++||++.++.+...+....         -|.|.|++|+|||+||+.+.........|... -+..+   ...+++..+ 
T Consensus        21 ~i~gre~vI~lll~aalag~---------hVLL~GpPGTGKT~LAraLa~~~~~~~~F~~~-~~~ft---tp~DLfG~l~   87 (498)
T PRK13531         21 GLYERSHAIRLCLLAALSGE---------SVFLLGPPGIAKSLIARRLKFAFQNARAFEYL-MTRFS---TPEEVFGPLS   87 (498)
T ss_pred             hccCcHHHHHHHHHHHccCC---------CEEEECCCChhHHHHHHHHHHHhcccCcceee-eeeec---CcHHhcCcHH
Confidence            47999999999999887554         67899999999999999998732222233211 01111   111221111 


Q ss_pred             HHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccCC---------CCceEEEecCchHHH
Q 036323          260 IEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGL---------RGSKILITTRKETVA  330 (583)
Q Consensus       260 l~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~---------~gs~IlvTtR~~~v~  330 (583)
                      +.....    ...   ........+. ..-+|++|+++.........|...+....         -..++++++.++-..
T Consensus        88 i~~~~~----~g~---f~r~~~G~L~-~A~lLfLDEI~rasp~~QsaLLeam~Er~~t~g~~~~~lp~rfiv~ATN~LPE  159 (498)
T PRK13531         88 IQALKD----EGR---YQRLTSGYLP-EAEIVFLDEIWKAGPAILNTLLTAINERRFRNGAHEEKIPMRLLVTASNELPE  159 (498)
T ss_pred             Hhhhhh----cCc---hhhhcCCccc-cccEEeecccccCCHHHHHHHHHHHHhCeEecCCeEEeCCCcEEEEECCCCcc
Confidence            111000    000   0000101111 12289999998877767777776663211         123455554443211


Q ss_pred             ------hhhcC-CCeEEcCCCChHHH-HHHHHHH
Q 036323          331 ------RMMES-TDIVYVQGLSELEC-WSLFRRF  356 (583)
Q Consensus       331 ------~~~~~-~~~~~l~~L~~~ea-~~Lf~~~  356 (583)
                            ..+.. .-.+.+++++.++. .+++...
T Consensus       160 ~g~~leAL~DRFliri~vp~l~~~~~e~~lL~~~  193 (498)
T PRK13531        160 ADSSLEALYDRMLIRLWLDKVQDKANFRSMLTSQ  193 (498)
T ss_pred             cCCchHHhHhhEEEEEECCCCCchHHHHHHHHcc
Confidence                  11111 33577899985444 7777653

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=97.37  E-value=0.00055  Score=78.27  Aligned_cols=137  Identities=19%  Similarity=0.250  Sum_probs=77.1

Q ss_pred             CceeechhHHHHHHHHhhcCCCC--CCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSD--QQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAK  257 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~--~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  257 (583)
                      ..++|.+.-++.+.+.+......  .......++.++|++|+|||.||+.+...  .-+.....+-++++.....     
T Consensus       566 ~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~--l~~~~~~~~~~dmse~~~~-----  638 (852)
T TIGR03345       566 ERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAEL--LYGGEQNLITINMSEFQEA-----  638 (852)
T ss_pred             CeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHH--HhCCCcceEEEeHHHhhhh-----
Confidence            57899999999999988543210  12234558899999999999999887663  1111122222333321111     


Q ss_pred             HHHHHhhcCcccc---ccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccCC-----------CCceEEEe
Q 036323          258 ATIEELEGSAIDL---HELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGL-----------RGSKILIT  323 (583)
Q Consensus       258 ~il~~l~~~~~~~---~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~IlvT  323 (583)
                      .-...+.+.++.-   .....+...++   +...-+|+||++...++..++.|...+..+.           .++.||+|
T Consensus       639 ~~~~~l~g~~~gyvg~~~~g~L~~~v~---~~p~svvllDEieka~~~v~~~Llq~ld~g~l~d~~Gr~vd~~n~iiI~T  715 (852)
T TIGR03345       639 HTVSRLKGSPPGYVGYGEGGVLTEAVR---RKPYSVVLLDEVEKAHPDVLELFYQVFDKGVMEDGEGREIDFKNTVILLT  715 (852)
T ss_pred             hhhccccCCCCCcccccccchHHHHHH---hCCCcEEEEechhhcCHHHHHHHHHHhhcceeecCCCcEEeccccEEEEe
Confidence            0111222222211   11112333333   2345699999997776666777776665442           45667777


Q ss_pred             cCc
Q 036323          324 TRK  326 (583)
Q Consensus       324 tR~  326 (583)
                      |..
T Consensus       716 SNl  718 (852)
T TIGR03345       716 SNA  718 (852)
T ss_pred             CCC
Confidence            764

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.

>PRK07952 DNA replication protein DnaC; Validated

Probab=97.36  E-value=0.0011  Score=64.08  Aligned_cols=103  Identities=14%  Similarity=0.144  Sum_probs=56.6

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQ  287 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  287 (583)
                      ...+.++|.+|+|||+||..+++...  ..-..+++++      ..+++..+-.....   .....+.+..    .+. +
T Consensus        99 ~~~~~l~G~~GtGKThLa~aia~~l~--~~g~~v~~it------~~~l~~~l~~~~~~---~~~~~~~~l~----~l~-~  162 (244)
T PRK07952         99 IASFIFSGKPGTGKNHLAAAICNELL--LRGKSVLIIT------VADIMSAMKDTFSN---SETSEEQLLN----DLS-N  162 (244)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHH--hcCCeEEEEE------HHHHHHHHHHHHhh---ccccHHHHHH----Hhc-c
Confidence            35788999999999999999988532  2223445553      33344443333211   1112222222    233 3


Q ss_pred             ceeEEEcCCCcccccchHh--hHHhhcc-CCCCceEEEecCc
Q 036323          288 KFFMVLDNLWTDDYRKWEP--FRNCLMN-GLRGSKILITTRK  326 (583)
Q Consensus       288 ~~LlVlDdv~~~~~~~~~~--l~~~l~~-~~~gs~IlvTtR~  326 (583)
                      .=||||||+.......|..  +...+.. -.....+||||..
T Consensus       163 ~dlLvIDDig~~~~s~~~~~~l~~Ii~~Ry~~~~~tiitSNl  204 (244)
T PRK07952        163 VDLLVIDEIGVQTESRYEKVIINQIVDRRSSSKRPTGMLTNS  204 (244)
T ss_pred             CCEEEEeCCCCCCCCHHHHHHHHHHHHHHHhCCCCEEEeCCC
Confidence            4589999996655556664  3333322 1223457777763

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=97.36  E-value=0.0028  Score=64.45  Aligned_cols=93  Identities=12%  Similarity=0.105  Sum_probs=64.4

Q ss_pred             CCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCc-hHHHhhh-cCCCeEEcCCCChHHHHHHHHHHhccCCCC
Q 036323          286 GQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRK-ETVARMM-ESTDIVYVQGLSELECWSLFRRFALSGRTP  363 (583)
Q Consensus       286 ~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~-~~v~~~~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~  363 (583)
                      ++.-++|+|+++..+....+.|...|..-.+++.+|++|.+ ..+...+ +....+.+.+++.++..+.+....   .  
T Consensus       131 ~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~LLpTI~SRcq~i~~~~~~~~~~~~~L~~~~---~--  205 (342)
T PRK06964        131 GGARVVVLYPAEALNVAAANALLKTLEEPPPGTVFLLVSARIDRLLPTILSRCRQFPMTVPAPEAAAAWLAAQG---V--  205 (342)
T ss_pred             CCceEEEEechhhcCHHHHHHHHHHhcCCCcCcEEEEEECChhhCcHHHHhcCEEEEecCCCHHHHHHHHHHcC---C--
Confidence            44558999999887777888888888776667766655554 4444332 336789999999999998887642   1  


Q ss_pred             CCCchHHHHHHHHhhhCCCCccchhhh
Q 036323          364 SECDQLEGIGRGIVRKCKGLPLAAKTI  390 (583)
Q Consensus       364 ~~~~~~~~~~~~I~~~c~GlPLai~~~  390 (583)
                      .   .    ...++..++|.|+....+
T Consensus       206 ~---~----~~~~l~~~~Gsp~~Al~~  225 (342)
T PRK06964        206 A---D----ADALLAEAGGAPLAALAL  225 (342)
T ss_pred             C---h----HHHHHHHcCCCHHHHHHH
Confidence            1   1    123577889999755443

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

Probab=97.35  E-value=0.0005  Score=63.36  Aligned_cols=100  Identities=22%  Similarity=0.297  Sum_probs=50.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQ  287 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  287 (583)
                      ..-+.|+|.+|+|||.||..+.+... ...+ .+.|++.      .+    ++..+..... ....+.....+    . +
T Consensus        47 ~~~l~l~G~~G~GKThLa~ai~~~~~-~~g~-~v~f~~~------~~----L~~~l~~~~~-~~~~~~~~~~l----~-~  108 (178)
T PF01695_consen   47 GENLILYGPPGTGKTHLAVAIANEAI-RKGY-SVLFITA------SD----LLDELKQSRS-DGSYEELLKRL----K-R  108 (178)
T ss_dssp             --EEEEEESTTSSHHHHHHHHHHHHH-HTT---EEEEEH------HH----HHHHHHCCHC-CTTHCHHHHHH----H-T
T ss_pred             CeEEEEEhhHhHHHHHHHHHHHHHhc-cCCc-ceeEeec------Cc----eecccccccc-ccchhhhcCcc----c-c
Confidence            45688999999999999998887422 2222 3455553      23    3344433321 11222233322    2 3


Q ss_pred             ceeEEEcCCCcccccchHh--hHHhhccC-CCCceEEEecCc
Q 036323          288 KFFMVLDNLWTDDYRKWEP--FRNCLMNG-LRGSKILITTRK  326 (583)
Q Consensus       288 ~~LlVlDdv~~~~~~~~~~--l~~~l~~~-~~gs~IlvTtR~  326 (583)
                      .=||||||+-......|..  +...+... .++ .+||||.-
T Consensus       109 ~dlLilDDlG~~~~~~~~~~~l~~ii~~R~~~~-~tIiTSN~  149 (178)
T PF01695_consen  109 VDLLILDDLGYEPLSEWEAELLFEIIDERYERK-PTIITSNL  149 (178)
T ss_dssp             SSCEEEETCTSS---HHHHHCTHHHHHHHHHT--EEEEEESS
T ss_pred             ccEecccccceeeecccccccchhhhhHhhccc-CeEeeCCC
Confidence            4588999996544444432  33333221 223 47788874

They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.

>PRK08939 primosomal protein DnaI; Reviewed

Probab=97.34  E-value=0.0011  Score=66.58  Aligned_cols=121  Identities=11%  Similarity=0.164  Sum_probs=68.8

Q ss_pred             echhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHh
Q 036323          184 GRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEEL  263 (583)
Q Consensus       184 GR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l  263 (583)
                      +|........+++..-.   .....+-+.|+|..|+|||.||..+++... ...+. +.+++++      .++..+-...
T Consensus       135 ~~~~~~~~~~~fi~~~~---~~~~~~gl~L~G~~G~GKThLa~Aia~~l~-~~g~~-v~~~~~~------~l~~~lk~~~  203 (306)
T PRK08939        135 DRLDALMAALDFLEAYP---PGEKVKGLYLYGDFGVGKSYLLAAIANELA-KKGVS-STLLHFP------EFIRELKNSI  203 (306)
T ss_pred             HHHHHHHHHHHHHHHhh---ccCCCCeEEEECCCCCCHHHHHHHHHHHHH-HcCCC-EEEEEHH------HHHHHHHHHH
Confidence            45555555555554322   112345788999999999999999998532 22233 4455543      3444444443


Q ss_pred             hcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHh--hHHhh-ccC-CCCceEEEecC
Q 036323          264 EGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEP--FRNCL-MNG-LRGSKILITTR  325 (583)
Q Consensus       264 ~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~--l~~~l-~~~-~~gs~IlvTtR  325 (583)
                      ...     +....+..+     .+-=||||||+..+....|..  +...+ ... ..+..+|+||.
T Consensus       204 ~~~-----~~~~~l~~l-----~~~dlLiIDDiG~e~~s~~~~~~ll~~Il~~R~~~~~~ti~TSN  259 (306)
T PRK08939        204 SDG-----SVKEKIDAV-----KEAPVLMLDDIGAEQMSSWVRDEVLGVILQYRMQEELPTFFTSN  259 (306)
T ss_pred             hcC-----cHHHHHHHh-----cCCCEEEEecCCCccccHHHHHHHHHHHHHHHHHCCCeEEEECC
Confidence            211     122222222     245599999997666667754  44433 222 24556888886

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.34  E-value=0.0017  Score=63.31  Aligned_cols=81  Identities=14%  Similarity=0.226  Sum_probs=49.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccc--cccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDV--INNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIA  285 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~--~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~  285 (583)
                      -++|.++|+||.|||+|++.+++...+  .+.|....-+.+..    ..++...+..      ....+..+.+.+.+.++
T Consensus       177 NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEins----hsLFSKWFsE------SgKlV~kmF~kI~ELv~  246 (423)
T KOG0744|consen  177 NRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEINS----HSLFSKWFSE------SGKLVAKMFQKIQELVE  246 (423)
T ss_pred             eeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEEeh----hHHHHHHHhh------hhhHHHHHHHHHHHHHh
Confidence            578999999999999999999987544  34454444444332    2233332222      12234556667777776


Q ss_pred             CCce--eEEEcCCCc
Q 036323          286 GQKF--FMVLDNLWT  298 (583)
Q Consensus       286 ~k~~--LlVlDdv~~  298 (583)
                      ++..  .+.+|.|.+
T Consensus       247 d~~~lVfvLIDEVES  261 (423)
T KOG0744|consen  247 DRGNLVFVLIDEVES  261 (423)
T ss_pred             CCCcEEEEEeHHHHH
Confidence            6653  455888843

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

Probab=97.32  E-value=0.0021  Score=72.14  Aligned_cols=135  Identities=15%  Similarity=0.193  Sum_probs=75.7

Q ss_pred             CceeechhHHHHHHHHhhcCCCC--CCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSD--QQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAK  257 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~--~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  257 (583)
                      ..++|.++.++.|.+.+......  ........+.++|++|+|||+||+.+....  .   ...+.++++.......   
T Consensus       458 ~~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l--~---~~~i~id~se~~~~~~---  529 (758)
T PRK11034        458 MLVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL--G---IELLRFDMSEYMERHT---  529 (758)
T ss_pred             ceEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHh--C---CCcEEeechhhccccc---
Confidence            35899999999999888632100  012334578999999999999999998742  1   1233445443222111   


Q ss_pred             HHHHHhhcCccccccHHHHHHHHHHHhcC-CceeEEEcCCCcccccchHhhHHhhccCC-----------CCceEEEecC
Q 036323          258 ATIEELEGSAIDLHELNSLLRRIGANIAG-QKFFMVLDNLWTDDYRKWEPFRNCLMNGL-----------RGSKILITTR  325 (583)
Q Consensus       258 ~il~~l~~~~~~~~~~~~~~~~l~~~l~~-k~~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~IlvTtR  325 (583)
                        ...+.+.++.-...+ ....+.+.+.. ...+|+||++.....+.++.|...+..+.           .++-||+||.
T Consensus       530 --~~~LiG~~~gyvg~~-~~g~L~~~v~~~p~sVlllDEieka~~~v~~~LLq~ld~G~ltd~~g~~vd~rn~iiI~TsN  606 (758)
T PRK11034        530 --VSRLIGAPPGYVGFD-QGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNLLLQVMDNGTLTDNNGRKADFRNVVLVMTTN  606 (758)
T ss_pred             --HHHHcCCCCCccccc-ccchHHHHHHhCCCcEEEeccHhhhhHHHHHHHHHHHhcCeeecCCCceecCCCcEEEEeCC
Confidence              222322222111000 00112222333 34699999998777667777776664321           2444777775

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

Probab=97.30  E-value=0.00035  Score=65.32  Aligned_cols=130  Identities=22%  Similarity=0.207  Sum_probs=61.7

Q ss_pred             echhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeC----CCC-----ChHH
Q 036323          184 GRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVS----DPF-----DEFN  254 (583)
Q Consensus       184 GR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~----~~~-----~~~~  254 (583)
                      .+..+.....+.|..         ..++.+.|++|+|||.||....-+.-..+.|+.++++.-.    +..     +..+
T Consensus         4 p~~~~Q~~~~~al~~---------~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~~~~~lGflpG~~~e   74 (205)
T PF02562_consen    4 PKNEEQKFALDALLN---------NDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPVEAGEDLGFLPGDLEE   74 (205)
T ss_dssp             --SHHHHHHHHHHHH----------SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--TT----SS------
T ss_pred             CCCHHHHHHHHHHHh---------CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCCCCccccccCCCCHHH
Confidence            445566677777753         4499999999999999997776554344778777766421    110     0000


Q ss_pred             ----HHHHHHHHhhcCccccccHHHHHHHH------HHHhcCC---ceeEEEcCCCcccccchHhhHHhhccCCCCceEE
Q 036323          255 ----VAKATIEELEGSAIDLHELNSLLRRI------GANIAGQ---KFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKIL  321 (583)
Q Consensus       255 ----~~~~il~~l~~~~~~~~~~~~~~~~l------~~~l~~k---~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~Il  321 (583)
                          .+.-+...+..-. .....+.+.+.=      ..+++|+   ..++|+|++.+....++..+   +...+.||++|
T Consensus        75 K~~p~~~p~~d~l~~~~-~~~~~~~~~~~~~Ie~~~~~~iRGrt~~~~~iIvDEaQN~t~~~~k~i---lTR~g~~skii  150 (205)
T PF02562_consen   75 KMEPYLRPIYDALEELF-GKEKLEELIQNGKIEIEPLAFIRGRTFDNAFIIVDEAQNLTPEELKMI---LTRIGEGSKII  150 (205)
T ss_dssp             ---TTTHHHHHHHTTTS--TTCHHHHHHTTSEEEEEGGGGTT--B-SEEEEE-SGGG--HHHHHHH---HTTB-TT-EEE
T ss_pred             HHHHHHHHHHHHHHHHh-ChHhHHHHhhcCeEEEEehhhhcCccccceEEEEecccCCCHHHHHHH---HcccCCCcEEE
Confidence                1111222221110 111122221100      0133454   35999999977655555554   55567799999


Q ss_pred             EecCc
Q 036323          322 ITTRK  326 (583)
Q Consensus       322 vTtR~  326 (583)
                      ++--.
T Consensus       151 ~~GD~  155 (205)
T PF02562_consen  151 ITGDP  155 (205)
T ss_dssp             EEE--
T ss_pred             EecCc
Confidence            98754

; GO: 0005524 ATP binding; PDB: 3B85_A.

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=97.28  E-value=0.00052  Score=65.64  Aligned_cols=37  Identities=22%  Similarity=0.253  Sum_probs=28.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEe
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCV  246 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~  246 (583)
                      .-.++|+|..|+|||||+..+..+  ....|..+++++-
T Consensus        13 ~fr~viIG~sGSGKT~li~~lL~~--~~~~f~~I~l~t~   49 (241)
T PF04665_consen   13 PFRMVIIGKSGSGKTTLIKSLLYY--LRHKFDHIFLITP   49 (241)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHh--hcccCCEEEEEec
Confidence            335679999999999999998874  6667877766643

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

>PRK06526 transposase; Provisional

Probab=97.27  E-value=0.0007  Score=66.08  Aligned_cols=101  Identities=15%  Similarity=0.075  Sum_probs=51.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQ  287 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  287 (583)
                      ..-+.|+|++|+|||+||..+..... ...+. +.|+      +..+++..+.....     ...   +...+...  .+
T Consensus        98 ~~nlll~Gp~GtGKThLa~al~~~a~-~~g~~-v~f~------t~~~l~~~l~~~~~-----~~~---~~~~l~~l--~~  159 (254)
T PRK06526         98 KENVVFLGPPGTGKTHLAIGLGIRAC-QAGHR-VLFA------TAAQWVARLAAAHH-----AGR---LQAELVKL--GR  159 (254)
T ss_pred             CceEEEEeCCCCchHHHHHHHHHHHH-HCCCc-hhhh------hHHHHHHHHHHHHh-----cCc---HHHHHHHh--cc
Confidence            34688999999999999999876422 12222 2232      22334443332211     111   11223222  23


Q ss_pred             ceeEEEcCCCcccccchH--hhHHhhcc-CCCCceEEEecCch
Q 036323          288 KFFMVLDNLWTDDYRKWE--PFRNCLMN-GLRGSKILITTRKE  327 (583)
Q Consensus       288 ~~LlVlDdv~~~~~~~~~--~l~~~l~~-~~~gs~IlvTtR~~  327 (583)
                      .-||||||+.......+.  .+...+.. ...++ +|+||..+
T Consensus       160 ~dlLIIDD~g~~~~~~~~~~~L~~li~~r~~~~s-~IitSn~~  201 (254)
T PRK06526        160 YPLLIVDEVGYIPFEPEAANLFFQLVSSRYERAS-LIVTSNKP  201 (254)
T ss_pred             CCEEEEcccccCCCCHHHHHHHHHHHHHHHhcCC-EEEEcCCC
Confidence            469999999543322222  23333322 22344 88888754

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.26  E-value=0.0013  Score=75.50  Aligned_cols=139  Identities=15%  Similarity=0.245  Sum_probs=77.5

Q ss_pred             CceeechhHHHHHHHHhhcCCCC--CCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSD--QQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAK  257 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~--~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  257 (583)
                      ..++|.+.-++.|.+.+......  ........+.++|++|+|||+||+.+.+.  .-..-...+-++.+.......+  
T Consensus       509 ~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~--l~~~~~~~~~~d~s~~~~~~~~--  584 (821)
T CHL00095        509 KRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASY--FFGSEDAMIRLDMSEYMEKHTV--  584 (821)
T ss_pred             CcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHH--hcCCccceEEEEchhccccccH--
Confidence            57899999999998888533210  11223456779999999999999888762  1111122334444432221111  


Q ss_pred             HHHHHhhcCccccccHHHHHHHHHHHhcCCc-eeEEEcCCCcccccchHhhHHhhccC-----------CCCceEEEecC
Q 036323          258 ATIEELEGSAIDLHELNSLLRRIGANIAGQK-FFMVLDNLWTDDYRKWEPFRNCLMNG-----------LRGSKILITTR  325 (583)
Q Consensus       258 ~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~-~LlVlDdv~~~~~~~~~~l~~~l~~~-----------~~gs~IlvTtR  325 (583)
                         ..+.+.++.-...++ ...+.+.+..++ .+++||++...++..++.|...+..+           ...+.+|+||.
T Consensus       585 ---~~l~g~~~gyvg~~~-~~~l~~~~~~~p~~VvllDeieka~~~v~~~Llq~le~g~~~d~~g~~v~~~~~i~I~Tsn  660 (821)
T CHL00095        585 ---SKLIGSPPGYVGYNE-GGQLTEAVRKKPYTVVLFDEIEKAHPDIFNLLLQILDDGRLTDSKGRTIDFKNTLIIMTSN  660 (821)
T ss_pred             ---HHhcCCCCcccCcCc-cchHHHHHHhCCCeEEEECChhhCCHHHHHHHHHHhccCceecCCCcEEecCceEEEEeCC
Confidence               111122211111000 112333444455 48999999877777777777766543           23566777776


Q ss_pred             c
Q 036323          326 K  326 (583)
Q Consensus       326 ~  326 (583)
                      .
T Consensus       661 ~  661 (821)
T CHL00095        661 L  661 (821)
T ss_pred             c
Confidence            4

>PRK06921 hypothetical protein; Provisional

Probab=97.25  E-value=0.0013  Score=64.67  Aligned_cols=99  Identities=18%  Similarity=0.229  Sum_probs=53.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCcccccc-CceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINN-FEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAG  286 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~-f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~  286 (583)
                      ...+.++|.+|+|||+||..+++..  ... ...+++++..      +++..+....          ......+. .+ .
T Consensus       117 ~~~l~l~G~~G~GKThLa~aia~~l--~~~~g~~v~y~~~~------~l~~~l~~~~----------~~~~~~~~-~~-~  176 (266)
T PRK06921        117 KNSIALLGQPGSGKTHLLTAAANEL--MRKKGVPVLYFPFV------EGFGDLKDDF----------DLLEAKLN-RM-K  176 (266)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHH--hhhcCceEEEEEHH------HHHHHHHHHH----------HHHHHHHH-Hh-c
Confidence            4578899999999999999999853  222 3345566532      2333322211          11111122 22 2


Q ss_pred             CceeEEEcCCCc-----ccccchHh--hHHhhcc-CCCCceEEEecCc
Q 036323          287 QKFFMVLDNLWT-----DDYRKWEP--FRNCLMN-GLRGSKILITTRK  326 (583)
Q Consensus       287 k~~LlVlDdv~~-----~~~~~~~~--l~~~l~~-~~~gs~IlvTtR~  326 (583)
                      +-=||||||+..     +....|..  +...+.. -..+..+||||..
T Consensus       177 ~~dlLiIDDl~~~~~g~e~~t~~~~~~lf~iin~R~~~~k~tIitsn~  224 (266)
T PRK06921        177 KVEVLFIDDLFKPVNGKPRATEWQIEQMYSVLNYRYLNHKPILISSEL  224 (266)
T ss_pred             CCCEEEEeccccccCCCccCCHHHHHHHHHHHHHHHHCCCCEEEECCC
Confidence            345999999932     22234443  4443322 1234557888863

>PRK09183 transposase/IS protein; Provisional

Probab=97.22  E-value=0.0014  Score=64.33  Aligned_cols=101  Identities=14%  Similarity=0.113  Sum_probs=51.4

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQ  287 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  287 (583)
                      ...+.|+|++|+|||+||..++.... ...+ .+.+++      ..++...+......     ..   +...+... ..+
T Consensus       102 ~~~v~l~Gp~GtGKThLa~al~~~a~-~~G~-~v~~~~------~~~l~~~l~~a~~~-----~~---~~~~~~~~-~~~  164 (259)
T PRK09183        102 NENIVLLGPSGVGKTHLAIALGYEAV-RAGI-KVRFTT------AADLLLQLSTAQRQ-----GR---YKTTLQRG-VMA  164 (259)
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHHH-HcCC-eEEEEe------HHHHHHHHHHHHHC-----Cc---HHHHHHHH-hcC
Confidence            34677999999999999999876321 1222 223333      22333333222111     11   11222222 234


Q ss_pred             ceeEEEcCCCcccccchH--hhHHhhcc-CCCCceEEEecCc
Q 036323          288 KFFMVLDNLWTDDYRKWE--PFRNCLMN-GLRGSKILITTRK  326 (583)
Q Consensus       288 ~~LlVlDdv~~~~~~~~~--~l~~~l~~-~~~gs~IlvTtR~  326 (583)
                      .-++|+||+.......+.  .+...+.. -..++ +|+||..
T Consensus       165 ~dlLiiDdlg~~~~~~~~~~~lf~li~~r~~~~s-~iiTsn~  205 (259)
T PRK09183        165 PRLLIIDEIGYLPFSQEEANLFFQVIAKRYEKGS-MILTSNL  205 (259)
T ss_pred             CCEEEEcccccCCCChHHHHHHHHHHHHHHhcCc-EEEecCC
Confidence            569999999643333332  24433322 12344 7888874

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

Probab=97.22  E-value=0.011  Score=63.63  Aligned_cols=205  Identities=14%  Similarity=0.117  Sum_probs=117.8

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCcc------ccccCceEEEEEeCCCCCh
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDND------VINNFEIRVRVCVSDPFDE  252 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~------~~~~f~~~~wv~~~~~~~~  252 (583)
                      +..+-+|+.|..+|.+.+...-.  ..+..+.+-|.|.+|+|||..+..|.+...      .-..|+ .+.++.-.-...
T Consensus       395 p~sLpcRe~E~~~I~~f~~~~i~--~~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~-yveINgm~l~~~  471 (767)
T KOG1514|consen  395 PESLPCRENEFSEIEDFLRSFIS--DQGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFD-YVEINGLRLASP  471 (767)
T ss_pred             cccccchhHHHHHHHHHHHhhcC--CCCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCcc-EEEEcceeecCH
Confidence            34567999999999998865431  124456999999999999999999877421      122343 345565556678


Q ss_pred             HHHHHHHHHHhhcCccccccHHHHHHHHHHHhc-----CCceeEEEcCCCcccccchHhhHHhhcc-CCCCceEEEecCc
Q 036323          253 FNVAKATIEELEGSAIDLHELNSLLRRIGANIA-----GQKFFMVLDNLWTDDYRKWEPFRNCLMN-GLRGSKILITTRK  326 (583)
Q Consensus       253 ~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~-----~k~~LlVlDdv~~~~~~~~~~l~~~l~~-~~~gs~IlvTtR~  326 (583)
                      .+++..|...+.+.....   ....+.|..+..     .+.+++++|+++.--....+-+...|.+ ..++++++|-+=.
T Consensus       472 ~~~Y~~I~~~lsg~~~~~---~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~QdVlYn~fdWpt~~~sKLvvi~Ia  548 (767)
T KOG1514|consen  472 REIYEKIWEALSGERVTW---DAALEALNFRFTVPKPKRSTTVVLIDELDILVTRSQDVLYNIFDWPTLKNSKLVVIAIA  548 (767)
T ss_pred             HHHHHHHHHhcccCcccH---HHHHHHHHHhhccCCCCCCCEEEEeccHHHHhcccHHHHHHHhcCCcCCCCceEEEEec
Confidence            899999999998764321   122333433332     3568889998733111122334444544 4567776664421


Q ss_pred             --hHHHh-----hhc---CCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhh
Q 036323          327 --ETVAR-----MME---STDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTI  390 (583)
Q Consensus       327 --~~v~~-----~~~---~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~  390 (583)
                        -+...     ...   ....+...|-+..+-.++......+. ........+-++++|+.-.|-.-.|+.+.
T Consensus       549 NTmdlPEr~l~nrvsSRlg~tRi~F~pYth~qLq~Ii~~RL~~~-~~f~~~aielvarkVAavSGDaRraldic  621 (767)
T KOG1514|consen  549 NTMDLPERLLMNRVSSRLGLTRICFQPYTHEQLQEIISARLKGL-DAFENKAIELVARKVAAVSGDARRALDIC  621 (767)
T ss_pred             ccccCHHHHhccchhhhccceeeecCCCCHHHHHHHHHHhhcch-hhcchhHHHHHHHHHHhccccHHHHHHHH
Confidence              11111     111   13456677777777777776665332 11222233334455555445444444444

>PRK08118 topology modulation protein; Reviewed

Probab=97.22  E-value=0.00014  Score=66.27  Aligned_cols=34  Identities=26%  Similarity=0.405  Sum_probs=27.0

Q ss_pred             EEEEEecCCchHHHHHHHHHcCcccc-ccCceEEE
Q 036323          210 IISMVGMGGIGKTTLAQLAYNDNDVI-NNFEIRVR  243 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~~~~~-~~f~~~~w  243 (583)
                      -|.|+|++|+||||||+.+++..... -+|+..+|
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~   37 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFW   37 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCceecchhhc
Confidence            57899999999999999999864443 45666665

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=97.21  E-value=0.0021  Score=65.49  Aligned_cols=145  Identities=17%  Similarity=0.128  Sum_probs=82.5

Q ss_pred             ceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccc-------------------cCceE
Q 036323          181 EVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVIN-------------------NFEIR  241 (583)
Q Consensus       181 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~-------------------~f~~~  241 (583)
                      .++|-+....++..+.....     .....+.++|++|+||||+|..+.+...-..                   .+..+
T Consensus         2 ~~~~~~~~~~~l~~~~~~~~-----~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~   76 (325)
T COG0470           2 ELVPWQEAVKRLLVQALESG-----RLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDF   76 (325)
T ss_pred             CcccchhHHHHHHHHHHhcC-----CCCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCce
Confidence            35677778888888886432     2344699999999999999988876421100                   11223


Q ss_pred             EEEEeCCCCC---hHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccCCCCc
Q 036323          242 VRVCVSDPFD---EFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGS  318 (583)
Q Consensus       242 ~wv~~~~~~~---~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs  318 (583)
                      ..++.++...   ..+..+.+.+.......                .++.-++++|+++....+.-..++..+......+
T Consensus        77 lel~~s~~~~~~i~~~~vr~~~~~~~~~~~----------------~~~~kviiidead~mt~~A~nallk~lEep~~~~  140 (325)
T COG0470          77 LELNPSDLRKIDIIVEQVRELAEFLSESPL----------------EGGYKVVIIDEADKLTEDAANALLKTLEEPPKNT  140 (325)
T ss_pred             EEecccccCCCcchHHHHHHHHHHhccCCC----------------CCCceEEEeCcHHHHhHHHHHHHHHHhccCCCCe
Confidence            3333333222   12222222222211110                2566799999997655555566766666666778


Q ss_pred             eEEEecCch-HHHhhhcC-CCeEEcCCCCh
Q 036323          319 KILITTRKE-TVARMMES-TDIVYVQGLSE  346 (583)
Q Consensus       319 ~IlvTtR~~-~v~~~~~~-~~~~~l~~L~~  346 (583)
                      .+|++|... .+...+.+ ...+.+.+.+.
T Consensus       141 ~~il~~n~~~~il~tI~SRc~~i~f~~~~~  170 (325)
T COG0470         141 RFILITNDPSKILPTIRSRCQRIRFKPPSR  170 (325)
T ss_pred             EEEEEcCChhhccchhhhcceeeecCCchH
Confidence            888888743 33322222 55667776333

>PRK04296 thymidine kinase; Provisional

Probab=97.18  E-value=0.00079  Score=62.90  Aligned_cols=113  Identities=10%  Similarity=-0.028  Sum_probs=60.4

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccc--cccHHHHHHHHHHHhcC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAID--LHELNSLLRRIGANIAG  286 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~--~~~~~~~~~~l~~~l~~  286 (583)
                      .++.|+|..|.||||++..+...  ...+...++.+.  ..++.......+.+.++.....  .....++...+.+ ..+
T Consensus         3 ~i~litG~~GsGKTT~~l~~~~~--~~~~g~~v~i~k--~~~d~~~~~~~i~~~lg~~~~~~~~~~~~~~~~~~~~-~~~   77 (190)
T PRK04296          3 KLEFIYGAMNSGKSTELLQRAYN--YEERGMKVLVFK--PAIDDRYGEGKVVSRIGLSREAIPVSSDTDIFELIEE-EGE   77 (190)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHH--HHHcCCeEEEEe--ccccccccCCcEecCCCCcccceEeCChHHHHHHHHh-hCC
Confidence            47889999999999999887763  222222233332  1112122222344444322111  2234455555554 334


Q ss_pred             CceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCchH
Q 036323          287 QKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKET  328 (583)
Q Consensus       287 k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~~  328 (583)
                      +.-+||+|.+.--+.++...+...+  ...|..|++|.++..
T Consensus        78 ~~dvviIDEaq~l~~~~v~~l~~~l--~~~g~~vi~tgl~~~  117 (190)
T PRK04296         78 KIDCVLIDEAQFLDKEQVVQLAEVL--DDLGIPVICYGLDTD  117 (190)
T ss_pred             CCCEEEEEccccCCHHHHHHHHHHH--HHcCCeEEEEecCcc
Confidence            5569999999432222233333332  345788999988744

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

Probab=97.18  E-value=0.0007  Score=72.80  Aligned_cols=166  Identities=17%  Similarity=0.187  Sum_probs=92.8

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      ..+-+|-++-.++|++.|.-.. -...-..++++++|++|+|||+|++.+++  .....|-   -+.++.--+..++-.-
T Consensus       322 d~dHYGLekVKeRIlEyLAV~~-l~~~~kGpILcLVGPPGVGKTSLgkSIA~--al~Rkfv---R~sLGGvrDEAEIRGH  395 (782)
T COG0466         322 DKDHYGLEKVKERILEYLAVQK-LTKKLKGPILCLVGPPGVGKTSLGKSIAK--ALGRKFV---RISLGGVRDEAEIRGH  395 (782)
T ss_pred             cccccCchhHHHHHHHHHHHHH-HhccCCCcEEEEECCCCCCchhHHHHHHH--HhCCCEE---EEecCccccHHHhccc
Confidence            3567899999999999985432 01223457999999999999999999988  3444442   2344443333322100


Q ss_pred             HHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCccccc----chHhhHHhhcc-CCC------------CceE-
Q 036323          259 TIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYR----KWEPFRNCLMN-GLR------------GSKI-  320 (583)
Q Consensus       259 il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~----~~~~l~~~l~~-~~~------------gs~I-  320 (583)
                      =-..+      ..-...+++.+++. +.++=|++||.++....+    .-..++..|.+ .++            =|.| 
T Consensus       396 RRTYI------GamPGrIiQ~mkka-~~~NPv~LLDEIDKm~ss~rGDPaSALLEVLDPEQN~~F~DhYLev~yDLS~Vm  468 (782)
T COG0466         396 RRTYI------GAMPGKIIQGMKKA-GVKNPVFLLDEIDKMGSSFRGDPASALLEVLDPEQNNTFSDHYLEVPYDLSKVM  468 (782)
T ss_pred             ccccc------ccCChHHHHHHHHh-CCcCCeEEeechhhccCCCCCChHHHHHhhcCHhhcCchhhccccCccchhheE
Confidence            00000      11112344444443 456678999998542211    11223333322 111            1333 


Q ss_pred             EEecCc-hH-H-HhhhcCCCeEEcCCCChHHHHHHHHHHh
Q 036323          321 LITTRK-ET-V-ARMMESTDIVYVQGLSELECWSLFRRFA  357 (583)
Q Consensus       321 lvTtR~-~~-v-~~~~~~~~~~~l~~L~~~ea~~Lf~~~a  357 (583)
                      .|||-| -+ . +..+....++++.+-+++|=.++-+++.
T Consensus       469 FiaTANsl~tIP~PLlDRMEiI~lsgYt~~EKl~IAk~~L  508 (782)
T COG0466         469 FIATANSLDTIPAPLLDRMEVIRLSGYTEDEKLEIAKRHL  508 (782)
T ss_pred             EEeecCccccCChHHhcceeeeeecCCChHHHHHHHHHhc
Confidence            344433 22 2 2233446789999999999887777665

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=97.16  E-value=0.0019  Score=62.09  Aligned_cols=87  Identities=17%  Similarity=0.145  Sum_probs=51.0

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHH----hhcC-----ccccccHHHH
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEE----LEGS-----AIDLHELNSL  276 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~----l~~~-----~~~~~~~~~~  276 (583)
                      ....++.|+|.+|+|||++|.+++..  ....-..++|++.. .++...+ .++...    +...     .....+....
T Consensus        21 ~~g~i~~i~G~~GsGKT~l~~~la~~--~~~~~~~v~yi~~e-~~~~~r~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (225)
T PRK09361         21 ERGTITQIYGPPGSGKTNICLQLAVE--AAKNGKKVIYIDTE-GLSPERF-KQIAGEDFEELLSNIIIFEPSSFEEQSEA   96 (225)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH--HHHCCCeEEEEECC-CCCHHHH-HHHHhhChHhHhhCeEEEeCCCHHHHHHH
Confidence            45779999999999999999888764  22334567899887 4444433 233322    1000     0111122223


Q ss_pred             HHHHHHHhcCCceeEEEcCC
Q 036323          277 LRRIGANIAGQKFFMVLDNL  296 (583)
Q Consensus       277 ~~~l~~~l~~k~~LlVlDdv  296 (583)
                      ...+...+..+.-++|+|.+
T Consensus        97 i~~~~~~~~~~~~lvVIDsi  116 (225)
T PRK09361         97 IRKAEKLAKENVGLIVLDSA  116 (225)
T ss_pred             HHHHHHHHHhcccEEEEeCc
Confidence            34444444456668888887

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

Probab=97.16  E-value=0.018  Score=62.21  Aligned_cols=166  Identities=13%  Similarity=0.145  Sum_probs=90.3

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      ...-+|.++-.++|.+++.-.. -.++-+.++++.+|++|||||++|+.++.-  ....|.   -++++.-.+..++-.-
T Consensus       410 deDHYgm~dVKeRILEfiAV~k-Lrgs~qGkIlCf~GPPGVGKTSI~kSIA~A--LnRkFf---RfSvGG~tDvAeIkGH  483 (906)
T KOG2004|consen  410 DEDHYGMEDVKERILEFIAVGK-LRGSVQGKILCFVGPPGVGKTSIAKSIARA--LNRKFF---RFSVGGMTDVAEIKGH  483 (906)
T ss_pred             cccccchHHHHHHHHHHHHHHh-hcccCCCcEEEEeCCCCCCcccHHHHHHHH--hCCceE---EEeccccccHHhhccc
Confidence            4567899999999999986432 113456789999999999999999999873  333332   2345544444332110


Q ss_pred             HHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccc---c-chHhhHHhhcc-CC------------CCceEE
Q 036323          259 TIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDY---R-KWEPFRNCLMN-GL------------RGSKIL  321 (583)
Q Consensus       259 il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~---~-~~~~l~~~l~~-~~------------~gs~Il  321 (583)
                      =-..+      ..-...+++.|+.. +-.+=|+.||.|+.-..   . .-..|+..|.+ .+            -=|+|+
T Consensus       484 RRTYV------GAMPGkiIq~LK~v-~t~NPliLiDEvDKlG~g~qGDPasALLElLDPEQNanFlDHYLdVp~DLSkVL  556 (906)
T KOG2004|consen  484 RRTYV------GAMPGKIIQCLKKV-KTENPLILIDEVDKLGSGHQGDPASALLELLDPEQNANFLDHYLDVPVDLSKVL  556 (906)
T ss_pred             ceeee------ccCChHHHHHHHhh-CCCCceEEeehhhhhCCCCCCChHHHHHHhcChhhccchhhhccccccchhheE
Confidence            00000      11123345555544 33455788888843110   0 11123333321 11            125565


Q ss_pred             EecCchHH----HhhhcCCCeEEcCCCChHHHHHHHHHHh
Q 036323          322 ITTRKETV----ARMMESTDIVYVQGLSELECWSLFRRFA  357 (583)
Q Consensus       322 vTtR~~~v----~~~~~~~~~~~l~~L~~~ea~~Lf~~~a  357 (583)
                      +......+    .........|+|.+-..+|-..+-.++.
T Consensus       557 FicTAN~idtIP~pLlDRMEvIelsGYv~eEKv~IA~~yL  596 (906)
T KOG2004|consen  557 FICTANVIDTIPPPLLDRMEVIELSGYVAEEKVKIAERYL  596 (906)
T ss_pred             EEEeccccccCChhhhhhhheeeccCccHHHHHHHHHHhh
Confidence            43321111    1112335688888888888776666554

>PRK04132 replication factor C small subunit; Provisional

Probab=97.16  E-value=0.0074  Score=68.12  Aligned_cols=155  Identities=13%  Similarity=0.014  Sum_probs=95.7

Q ss_pred             cCCchHHHHHHHHHcCccccccC-ceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEc
Q 036323          216 MGGIGKTTLAQLAYNDNDVINNF-EIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLD  294 (583)
Q Consensus       216 ~gGiGKTtLa~~v~~~~~~~~~f-~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlD  294 (583)
                      +.++||||+|..++++. ..+.+ ..++-++.++..... ..++++..+....+.              -..+.-++|||
T Consensus       574 Ph~lGKTT~A~ala~~l-~g~~~~~~~lElNASd~rgid-~IR~iIk~~a~~~~~--------------~~~~~KVvIID  637 (846)
T PRK04132        574 PTVLHNTTAALALAREL-FGENWRHNFLELNASDERGIN-VIREKVKEFARTKPI--------------GGASFKIIFLD  637 (846)
T ss_pred             CCcccHHHHHHHHHHhh-hcccccCeEEEEeCCCcccHH-HHHHHHHHHHhcCCc--------------CCCCCEEEEEE
Confidence            78899999999999852 11222 235556666544433 333333332211100              01245699999


Q ss_pred             CCCcccccchHhhHHhhccCCCCceEEEecCch-HHHhhhc-CCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHH
Q 036323          295 NLWTDDYRKWEPFRNCLMNGLRGSKILITTRKE-TVARMME-STDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGI  372 (583)
Q Consensus       295 dv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~-~v~~~~~-~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~  372 (583)
                      +++..+......|+..+......+++|++|.+. .+...+. ....+.+.+++.++-...+...+...+..-    ..+.
T Consensus       638 EaD~Lt~~AQnALLk~lEep~~~~~FILi~N~~~kIi~tIrSRC~~i~F~~ls~~~i~~~L~~I~~~Egi~i----~~e~  713 (846)
T PRK04132        638 EADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGLEL----TEEG  713 (846)
T ss_pred             CcccCCHHHHHHHHHHhhCCCCCeEEEEEeCChhhCchHHhhhceEEeCCCCCHHHHHHHHHHHHHhcCCCC----CHHH
Confidence            998776667777877776544566666666553 3333322 267899999999998888877654322111    1456


Q ss_pred             HHHHhhhCCCCccchhhh
Q 036323          373 GRGIVRKCKGLPLAAKTI  390 (583)
Q Consensus       373 ~~~I~~~c~GlPLai~~~  390 (583)
                      ...|++.|+|.+..+..+
T Consensus       714 L~~Ia~~s~GDlR~AIn~  731 (846)
T PRK04132        714 LQAILYIAEGDMRRAINI  731 (846)
T ss_pred             HHHHHHHcCCCHHHHHHH
Confidence            778999999988654433

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=97.14  E-value=0.0018  Score=61.60  Aligned_cols=87  Identities=15%  Similarity=0.182  Sum_probs=52.0

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHh----hcC-----ccccccHHHH
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEEL----EGS-----AIDLHELNSL  276 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l----~~~-----~~~~~~~~~~  276 (583)
                      +...++.|+|.+|+|||+++.+++..  ....-..++|++... ++...+.+ +....    ...     ..+..+....
T Consensus        10 ~~g~i~~i~G~~GsGKT~l~~~~~~~--~~~~g~~v~yi~~e~-~~~~rl~~-~~~~~~~~~~~~i~~~~~~~~~~~~~~   85 (209)
T TIGR02237        10 ERGTITQIYGPPGSGKTNICMILAVN--AARQGKKVVYIDTEG-LSPERFKQ-IAEDRPERALSNFIVFEVFDFDEQGVA   85 (209)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH--HHhCCCeEEEEECCC-CCHHHHHH-HHHhChHHHhcCEEEEECCCHHHHHHH
Confidence            55789999999999999999888763  223346789999875 55544333 32221    000     0111222233


Q ss_pred             HHHHHHHhcC-CceeEEEcCC
Q 036323          277 LRRIGANIAG-QKFFMVLDNL  296 (583)
Q Consensus       277 ~~~l~~~l~~-k~~LlVlDdv  296 (583)
                      ...+.+.+.. +.-+||+|.+
T Consensus        86 ~~~l~~~~~~~~~~lvVIDSi  106 (209)
T TIGR02237        86 IQKTSKFIDRDSASLVVVDSF  106 (209)
T ss_pred             HHHHHHHHhhcCccEEEEeCc
Confidence            4444444433 4558888887

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

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=97.14  E-value=0.0027  Score=61.47  Aligned_cols=90  Identities=17%  Similarity=0.125  Sum_probs=53.7

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCcccccc----CceEEEEEeCCCCChHHHHHHHHHHhhcCcc------------c
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINN----FEIRVRVCVSDPFDEFNVAKATIEELEGSAI------------D  269 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~----f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~------------~  269 (583)
                      ....++.|+|.+|+|||+|+.+++........    -..++|++....++...+ .++++.......            .
T Consensus        17 ~~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl-~~~~~~~~~~~~~~~~~i~~~~~~~   95 (235)
T cd01123          17 ETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERL-VQIAERFGLDPEEVLDNIYVARAYN   95 (235)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHH-HHHHHHhccChHhHhcCEEEEecCC
Confidence            45679999999999999999988743222221    357899998777665443 333333322110            1


Q ss_pred             cccHHHHHHHHHHHhc-C-CceeEEEcCC
Q 036323          270 LHELNSLLRRIGANIA-G-QKFFMVLDNL  296 (583)
Q Consensus       270 ~~~~~~~~~~l~~~l~-~-k~~LlVlDdv  296 (583)
                      ..+.......+...+. . +.-|||+|.+
T Consensus        96 ~~~l~~~l~~l~~~l~~~~~~~liVIDSi  124 (235)
T cd01123          96 SDHQLQLLEELEAILIESSRIKLVIVDSV  124 (235)
T ss_pred             HHHHHHHHHHHHHHHhhcCCeeEEEEeCc
Confidence            1222333344444443 3 5568899988

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 .

>PRK07261 topology modulation protein; Provisional

Probab=97.13  E-value=0.0013  Score=60.35  Aligned_cols=22  Identities=36%  Similarity=0.573  Sum_probs=19.6

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .|.|+|++|+||||||+.+...
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~   23 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQH   23 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            4789999999999999998764

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.13  E-value=0.0099  Score=61.83  Aligned_cols=150  Identities=16%  Similarity=0.182  Sum_probs=84.5

Q ss_pred             CCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHh
Q 036323          205 TNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANI  284 (583)
Q Consensus       205 ~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l  284 (583)
                      ......+.+.|++|+|||+||..++..    ..|+.+--++-.+-....               .......+.....+.-
T Consensus       535 ~s~lvSvLl~Gp~~sGKTaLAA~iA~~----S~FPFvKiiSpe~miG~s---------------EsaKc~~i~k~F~DAY  595 (744)
T KOG0741|consen  535 RSPLVSVLLEGPPGSGKTALAAKIALS----SDFPFVKIISPEDMIGLS---------------ESAKCAHIKKIFEDAY  595 (744)
T ss_pred             cCcceEEEEecCCCCChHHHHHHHHhh----cCCCeEEEeChHHccCcc---------------HHHHHHHHHHHHHHhh
Confidence            345677889999999999999998863    456544322211100000               1111122223333344


Q ss_pred             cCCceeEEEcCCCcccccch------------HhhHHhhccC-CCCce--EEEecCchHHHhhhcC----CCeEEcCCCC
Q 036323          285 AGQKFFMVLDNLWTDDYRKW------------EPFRNCLMNG-LRGSK--ILITTRKETVARMMES----TDIVYVQGLS  345 (583)
Q Consensus       285 ~~k~~LlVlDdv~~~~~~~~------------~~l~~~l~~~-~~gs~--IlvTtR~~~v~~~~~~----~~~~~l~~L~  345 (583)
                      +..--.||+||+..  .-+|            ..|...|... ..|-|  |+-||....+...|+-    ...|+++.++
T Consensus       596 kS~lsiivvDdiEr--LiD~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~i~~~F~~~i~Vpnl~  673 (744)
T KOG0741|consen  596 KSPLSIIVVDDIER--LLDYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMGILDCFSSTIHVPNLT  673 (744)
T ss_pred             cCcceEEEEcchhh--hhcccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcCHHHhhhheeecCccC
Confidence            55667999999943  1222            2233333222 23333  4557777778777654    5678899998


Q ss_pred             h-HHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhC
Q 036323          346 E-LECWSLFRRFALSGRTPSECDQLEGIGRGIVRKC  380 (583)
Q Consensus       346 ~-~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c  380 (583)
                      . ++..+.++..-     ...+.+.+.++.+...+|
T Consensus       674 ~~~~~~~vl~~~n-----~fsd~~~~~~~~~~~~~~  704 (744)
T KOG0741|consen  674 TGEQLLEVLEELN-----IFSDDEVRAIAEQLLSKK  704 (744)
T ss_pred             chHHHHHHHHHcc-----CCCcchhHHHHHHHhccc
Confidence            7 67777776642     122334455666666666

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

Probab=97.12  E-value=0.0016  Score=72.02  Aligned_cols=155  Identities=20%  Similarity=0.197  Sum_probs=83.3

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCc---cccccC--ceEEEEEeCCCCChHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDN---DVINNF--EIRVRVCVSDPFDEFN  254 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~---~~~~~f--~~~~wv~~~~~~~~~~  254 (583)
                      ..++||++|+.++++.|....     .+-+  .++|.+|||||+++.-++...   .+....  ..++-++         
T Consensus       170 DPvIGRd~EI~r~iqIL~RR~-----KNNP--vLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sLD---------  233 (786)
T COG0542         170 DPVIGRDEEIRRTIQILSRRT-----KNNP--VLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLD---------  233 (786)
T ss_pred             CCCcChHHHHHHHHHHHhccC-----CCCC--eEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEec---------
Confidence            468999999999999997654     2222  367999999999987666521   111111  1111111         


Q ss_pred             HHHHHHHHhhcCccccccHHHHHHHHHHHh-cCCceeEEEcCCCcc-------c--ccchHhhHHhhccCCCCceEEEec
Q 036323          255 VAKATIEELEGSAIDLHELNSLLRRIGANI-AGQKFFMVLDNLWTD-------D--YRKWEPFRNCLMNGLRGSKILITT  324 (583)
Q Consensus       255 ~~~~il~~l~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~-------~--~~~~~~l~~~l~~~~~gs~IlvTt  324 (583)
                          +..-+.+. .-..+.++....+.+.+ +.++.+|++|.++.-       .  .+.-+.|...|..+. --.|=.||
T Consensus       234 ----~g~LvAGa-kyRGeFEeRlk~vl~ev~~~~~vILFIDEiHtiVGAG~~~G~a~DAaNiLKPaLARGe-L~~IGATT  307 (786)
T COG0542         234 ----LGSLVAGA-KYRGEFEERLKAVLKEVEKSKNVILFIDEIHTIVGAGATEGGAMDAANLLKPALARGE-LRCIGATT  307 (786)
T ss_pred             ----HHHHhccc-cccCcHHHHHHHHHHHHhcCCCeEEEEechhhhcCCCcccccccchhhhhHHHHhcCC-eEEEEecc
Confidence                11111111 11233444444444433 345899999998641       0  111222333333322 12244555


Q ss_pred             CchHH--Hh----hhcCCCeEEcCCCChHHHHHHHHHH
Q 036323          325 RKETV--AR----MMESTDIVYVQGLSELECWSLFRRF  356 (583)
Q Consensus       325 R~~~v--~~----~~~~~~~~~l~~L~~~ea~~Lf~~~  356 (583)
                      -++--  ..    .......+.+...+.+++..+++..
T Consensus       308 ~~EYRk~iEKD~AL~RRFQ~V~V~EPs~e~ti~ILrGl  345 (786)
T COG0542         308 LDEYRKYIEKDAALERRFQKVLVDEPSVEDTIAILRGL  345 (786)
T ss_pred             HHHHHHHhhhchHHHhcCceeeCCCCCHHHHHHHHHHH
Confidence            44311  10    1123678889999999998888643

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=97.11  E-value=0.0038  Score=63.26  Aligned_cols=71  Identities=10%  Similarity=0.074  Sum_probs=47.3

Q ss_pred             CCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCchH-HHhhhc-CCCeEEcCCCChHHHHHHHHHH
Q 036323          286 GQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKET-VARMME-STDIVYVQGLSELECWSLFRRF  356 (583)
Q Consensus       286 ~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~~-v~~~~~-~~~~~~l~~L~~~ea~~Lf~~~  356 (583)
                      +++-++|+|++..-+......+...+.....++.+|++|.+.. +...+. ....+.+.+++.+++.+.+...
T Consensus       112 ~~~kV~iiEp~~~Ld~~a~naLLk~LEep~~~~~~Ilvth~~~~ll~ti~SRc~~~~~~~~~~~~~~~~L~~~  184 (325)
T PRK08699        112 GGLRVILIHPAESMNLQAANSLLKVLEEPPPQVVFLLVSHAADKVLPTIKSRCRKMVLPAPSHEEALAYLRER  184 (325)
T ss_pred             CCceEEEEechhhCCHHHHHHHHHHHHhCcCCCEEEEEeCChHhChHHHHHHhhhhcCCCCCHHHHHHHHHhc
Confidence            3444667788876666666667777755445666777776643 333322 2577889999999998888653

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

Probab=97.10  E-value=0.0025  Score=59.37  Aligned_cols=45  Identities=16%  Similarity=0.255  Sum_probs=36.4

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHc
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      -.++||-++.++++.-.-.+       ++.+-+.|.||+|+||||-+..+++
T Consensus        26 l~dIVGNe~tv~rl~via~~-------gnmP~liisGpPG~GKTTsi~~LAr   70 (333)
T KOG0991|consen   26 LQDIVGNEDTVERLSVIAKE-------GNMPNLIISGPPGTGKTTSILCLAR   70 (333)
T ss_pred             HHHhhCCHHHHHHHHHHHHc-------CCCCceEeeCCCCCchhhHHHHHHH
Confidence            45789999999988876643       4577788999999999998877766

>cd01394 radB RadB

Probab=97.08  E-value=0.0029  Score=60.50  Aligned_cols=43  Identities=14%  Similarity=0.052  Sum_probs=31.6

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCC
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPF  250 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~  250 (583)
                      ....++.|.|.+|+||||||.+++..  ....-..++|++....+
T Consensus        17 ~~g~i~~i~G~~GsGKT~l~~~~a~~--~~~~g~~v~yi~~e~~~   59 (218)
T cd01394          17 ERGTVTQVYGPPGTGKTNIAIQLAVE--TAGQGKKVAYIDTEGLS   59 (218)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHH--HHhcCCeEEEEECCCCC
Confidence            55789999999999999999988763  22223456778765444

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

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=97.07  E-value=0.011  Score=59.61  Aligned_cols=26  Identities=23%  Similarity=0.404  Sum_probs=24.0

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcC
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+..++|+|++|+|||.+|+.+++.
T Consensus       146 k~PlgllL~GPPGcGKTllAraiA~e  171 (413)
T PLN00020        146 KVPLILGIWGGKGQGKSFQCELVFKK  171 (413)
T ss_pred             CCCeEEEeeCCCCCCHHHHHHHHHHH
Confidence            56789999999999999999999985

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=97.07  E-value=0.0071  Score=59.56  Aligned_cols=173  Identities=17%  Similarity=0.194  Sum_probs=96.2

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcC-ccccccCceEEEEEeCCCCCh-HHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYND-NDVINNFEIRVRVCVSDPFDE-FNVA  256 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~-~~~~~~f~~~~wv~~~~~~~~-~~~~  256 (583)
                      ...++|-.++...+-.++...-   -.+...-|.|+|+.|.|||+|......+ .++.++|   +-|...+..-. .-.+
T Consensus        23 ~~~l~g~~~~~~~l~~~lkqt~---~~gEsnsviiigprgsgkT~li~~~Ls~~q~~~E~~---l~v~Lng~~~~dk~al   96 (408)
T KOG2228|consen   23 HINLFGVQDEQKHLSELLKQTI---LHGESNSVIIIGPRGSGKTILIDTRLSDIQENGENF---LLVRLNGELQTDKIAL   96 (408)
T ss_pred             CcceeehHHHHHHHHHHHHHHH---HhcCCCceEEEccCCCCceEeeHHHHhhHHhcCCeE---EEEEECccchhhHHHH
Confidence            4468898888888888875432   1234557789999999999999888775 2233333   33444433222 2234


Q ss_pred             HHHHHHhh----cCccccccHHHHHHHHHHHhc------CCceeEEEcCCCcccccchHh-hHHhh---c-cCCCCceEE
Q 036323          257 KATIEELE----GSAIDLHELNSLLRRIGANIA------GQKFFMVLDNLWTDDYRKWEP-FRNCL---M-NGLRGSKIL  321 (583)
Q Consensus       257 ~~il~~l~----~~~~~~~~~~~~~~~l~~~l~------~k~~LlVlDdv~~~~~~~~~~-l~~~l---~-~~~~gs~Il  321 (583)
                      +.|..++.    .......+..+....+...|+      +-++++|+|.++-.-...-.. +-..+   . ...|-|.|-
T Consensus        97 ~~I~rql~~e~~~~~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Piciig  176 (408)
T KOG2228|consen   97 KGITRQLALELNRIVKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSARAPICIIG  176 (408)
T ss_pred             HHHHHHHHHHHhhhheeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhcCCCeEEEE
Confidence            44444443    222223333334444444443      235788888774321111111 22222   1 245567788


Q ss_pred             EecCchHH---HhhhcC---CC-eEEcCCCChHHHHHHHHHHh
Q 036323          322 ITTRKETV---ARMMES---TD-IVYVQGLSELECWSLFRRFA  357 (583)
Q Consensus       322 vTtR~~~v---~~~~~~---~~-~~~l~~L~~~ea~~Lf~~~a  357 (583)
                      +|||-...   ...+.+   .. ++-+++++-++...++++..
T Consensus       177 ~Ttrld~lE~LEKRVKSRFshr~I~m~~~~~l~~yv~l~r~ll  219 (408)
T KOG2228|consen  177 VTTRLDILELLEKRVKSRFSHRVIFMLPSLPLGDYVDLYRKLL  219 (408)
T ss_pred             eeccccHHHHHHHHHHhhcccceeeccCCCChHHHHHHHHHHh
Confidence            99996422   222222   23 44567788888888888865

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=97.05  E-value=0.0021  Score=69.78  Aligned_cols=44  Identities=30%  Similarity=0.502  Sum_probs=36.1

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHc
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .+++|.+..++.+...+....       ..-+.|+|++|+|||++|+.+++
T Consensus        65 ~~iiGqs~~i~~l~~al~~~~-------~~~vLi~Ge~GtGKt~lAr~i~~  108 (531)
T TIGR02902        65 DEIIGQEEGIKALKAALCGPN-------PQHVIIYGPPGVGKTAAARLVLE  108 (531)
T ss_pred             HHeeCcHHHHHHHHHHHhCCC-------CceEEEECCCCCCHHHHHHHHHH
Confidence            468999999999998774332       34567999999999999999976

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.

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

Probab=97.05  E-value=0.00051  Score=60.55  Aligned_cols=108  Identities=13%  Similarity=0.127  Sum_probs=62.9

Q ss_pred             eechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccc-cccCceEEEEEeCCCCChHHHHHHHHH
Q 036323          183 RGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDV-INNFEIRVRVCVSDPFDEFNVAKATIE  261 (583)
Q Consensus       183 vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~-~~~f~~~~wv~~~~~~~~~~~~~~il~  261 (583)
                      ||+...++++.+.+..-.     .....|.|+|..|+||+++|+.++..... ...|...   ++... +          
T Consensus         1 vG~S~~~~~l~~~l~~~a-----~~~~pvli~GE~GtGK~~~A~~lh~~~~~~~~~~~~~---~~~~~-~----------   61 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLA-----KSSSPVLITGEPGTGKSLLARALHRYSGRANGPFIVI---DCASL-P----------   61 (138)
T ss_dssp             --SCHHHHHHHHHHHHHH-----CSSS-EEEECCTTSSHHHHHHCCHHTTTTCCS-CCCC---CHHCT-C----------
T ss_pred             CCCCHHHHHHHHHHHHHh-----CCCCcEEEEcCCCCCHHHHHHHHHhhcCccCCCeEEe---chhhC-c----------
Confidence            466667777777665432     23456789999999999999998874322 1122211   11100 0          


Q ss_pred             HhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccC-CCCceEEEecCch
Q 036323          262 ELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNG-LRGSKILITTRKE  327 (583)
Q Consensus       262 ~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~-~~gs~IlvTtR~~  327 (583)
                                     .+.+..   .+.-.|+|+|+..-+......+...+... ....|+|.||...
T Consensus        62 ---------------~~~l~~---a~~gtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~RlI~ss~~~  110 (138)
T PF14532_consen   62 ---------------AELLEQ---AKGGTLYLKNIDRLSPEAQRRLLDLLKRQERSNVRLIASSSQD  110 (138)
T ss_dssp             ---------------HHHHHH---CTTSEEEEECGCCS-HHHHHHHHHHHHHCTTTTSEEEEEECC-
T ss_pred             ---------------HHHHHH---cCCCEEEECChHHCCHHHHHHHHHHHHhcCCCCeEEEEEeCCC
Confidence                           111111   25557889999776666666677777543 5678999998743

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

Probab=97.05  E-value=0.0037  Score=60.14  Aligned_cols=91  Identities=15%  Similarity=0.042  Sum_probs=53.5

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccc----cCceEEEEEeCCCCChHHHHHHHHHHhhcCc---------ccccc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVIN----NFEIRVRVCVSDPFDEFNVAKATIEELEGSA---------IDLHE  272 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~----~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~---------~~~~~  272 (583)
                      ....++.|+|.+|+|||+||..++.......    .=..++|++....++...+ .++........         ....+
T Consensus        17 ~~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~~~~~~rl-~~~~~~~~~~~~~~~~~i~~~~~~~   95 (226)
T cd01393          17 PTGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEGAFRPERL-VQLAVRFGLDPEEVLDNIYVARPYN   95 (226)
T ss_pred             cCCcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCCCCCHHHH-HHHHHHhccchhhhhccEEEEeCCC
Confidence            4567999999999999999988875321111    1145789888776665443 33333322110         01233


Q ss_pred             HHHHHHHHHHHhc----CCceeEEEcCCC
Q 036323          273 LNSLLRRIGANIA----GQKFFMVLDNLW  297 (583)
Q Consensus       273 ~~~~~~~l~~~l~----~k~~LlVlDdv~  297 (583)
                      .+++...+.....    .+.-|+|+|.+.
T Consensus        96 ~~~~~~~l~~~~~~~~~~~~~lvVIDsis  124 (226)
T cd01393          96 GEQQLEIVEELERIMSSGRVDLVVVDSVA  124 (226)
T ss_pred             HHHHHHHHHHHHHHhhcCCeeEEEEcCcc
Confidence            4444444444432    344589999973

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.

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

Probab=97.04  E-value=0.00033  Score=61.78  Aligned_cols=88  Identities=23%  Similarity=0.186  Sum_probs=46.8

Q ss_pred             EEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCcee
Q 036323          211 ISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFF  290 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~L  290 (583)
                      |.|+|++|+|||+||+.++..  ..   ....-+.++...+..++....--. ...  .......+...+     .+..+
T Consensus         2 vlL~G~~G~GKt~l~~~la~~--~~---~~~~~i~~~~~~~~~dl~g~~~~~-~~~--~~~~~~~l~~a~-----~~~~i   68 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAAL--LG---RPVIRINCSSDTTEEDLIGSYDPS-NGQ--FEFKDGPLVRAM-----RKGGI   68 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHH--HT---CEEEEEE-TTTSTHHHHHCEEET--TTT--TCEEE-CCCTTH-----HEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHH--hh---cceEEEEeccccccccceeeeeec-ccc--cccccccccccc-----cceeE
Confidence            679999999999999999873  21   123335666666666544321111 000  000000011111     17889


Q ss_pred             EEEcCCCcccccchHhhHHhh
Q 036323          291 MVLDNLWTDDYRKWEPFRNCL  311 (583)
Q Consensus       291 lVlDdv~~~~~~~~~~l~~~l  311 (583)
                      +|||++...+...+..+...+
T Consensus        69 l~lDEin~a~~~v~~~L~~ll   89 (139)
T PF07728_consen   69 LVLDEINRAPPEVLESLLSLL   89 (139)
T ss_dssp             EEESSCGG--HHHHHTTHHHH
T ss_pred             EEECCcccCCHHHHHHHHHHH
Confidence            999999655555555555554

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.

>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51

Probab=97.04  E-value=0.0023  Score=62.62  Aligned_cols=90  Identities=22%  Similarity=0.220  Sum_probs=53.8

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccc----cCceEEEEEeCCCCChHHHHHHHHHHhhcCcc------------c
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVIN----NFEIRVRVCVSDPFDEFNVAKATIEELEGSAI------------D  269 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~----~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~------------~  269 (583)
                      ....+.=|+|.+|+|||.|+.+++-......    .=..++|++-...++...+. +|++.......            +
T Consensus        36 ~~g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~-~i~~~~~~~~~~~l~~I~v~~~~~  114 (256)
T PF08423_consen   36 PTGSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQ-QIAERFGLDPEEILDNIFVIRVFD  114 (256)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHH-HHHHHTTS-HHHHHHTEEEEE-SS
T ss_pred             CCCcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHH-HHhhccccccchhhhceeeeecCC
Confidence            3456889999999999999987764322221    22468999998888877664 45555432211            1


Q ss_pred             cccHHHHHHHHHHHhc-CCceeEEEcCC
Q 036323          270 LHELNSLLRRIGANIA-GQKFFMVLDNL  296 (583)
Q Consensus       270 ~~~~~~~~~~l~~~l~-~k~~LlVlDdv  296 (583)
                      ..+...++..+...+. .+--|||+|.+
T Consensus       115 ~~~l~~~L~~l~~~l~~~~ikLIVIDSI  142 (256)
T PF08423_consen  115 LEELLELLEQLPKLLSESKIKLIVIDSI  142 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHSCEEEEEEETS
T ss_pred             HHHHHHHHHHHHhhccccceEEEEecch
Confidence            1222233333333343 33458889987

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 ....

>PRK06835 DNA replication protein DnaC; Validated

Probab=97.02  E-value=0.0019  Score=65.47  Aligned_cols=102  Identities=18%  Similarity=0.199  Sum_probs=55.0

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQK  288 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~  288 (583)
                      ..+.++|.+|+|||+||..+++..  ...-..++++++.      +++..+...-...   ..+.......    +. .-
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~l--~~~g~~V~y~t~~------~l~~~l~~~~~~~---~~~~~~~~~~----l~-~~  247 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKEL--LDRGKSVIYRTAD------ELIEILREIRFNN---DKELEEVYDL----LI-NC  247 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHH--HHCCCeEEEEEHH------HHHHHHHHHHhcc---chhHHHHHHH----hc-cC
Confidence            568999999999999999998853  2222345565543      2333332211111   1111111222    22 23


Q ss_pred             eeEEEcCCCcccccchHh--hHHhhcc-CCCCceEEEecCc
Q 036323          289 FFMVLDNLWTDDYRKWEP--FRNCLMN-GLRGSKILITTRK  326 (583)
Q Consensus       289 ~LlVlDdv~~~~~~~~~~--l~~~l~~-~~~gs~IlvTtR~  326 (583)
                      =||||||+.......|..  +...+.. -..+..+||||..
T Consensus       248 DLLIIDDlG~e~~t~~~~~~Lf~iin~R~~~~k~tIiTSNl  288 (329)
T PRK06835        248 DLLIIDDLGTEKITEFSKSELFNLINKRLLRQKKMIISTNL  288 (329)
T ss_pred             CEEEEeccCCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCC
Confidence            489999996554444432  4444432 1234568888874

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.02  E-value=0.0058  Score=69.49  Aligned_cols=182  Identities=13%  Similarity=0.077  Sum_probs=92.4

Q ss_pred             cCCceeechhHHHHHHHHhhcCCCC------CCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCC
Q 036323          178 DVSEVRGRDEEMRSIKSMLLCQGSD------QQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFD  251 (583)
Q Consensus       178 ~~~~~vGR~~e~~~l~~~L~~~~~~------~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  251 (583)
                      .-.++.|.+..+++|.+++...-..      -+-...+.+.|+|++|+|||+||+.+++..  ...|   +.++.+    
T Consensus       176 ~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~--~~~~---i~i~~~----  246 (733)
T TIGR01243       176 TYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEA--GAYF---ISINGP----  246 (733)
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHh--CCeE---EEEecH----
Confidence            3446889999999998877432100      011234568899999999999999998842  2222   222211    


Q ss_pred             hHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccc-----------cchHhhHHhhccC-CCCce
Q 036323          252 EFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDY-----------RKWEPFRNCLMNG-LRGSK  319 (583)
Q Consensus       252 ~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~-----------~~~~~l~~~l~~~-~~gs~  319 (583)
                        .+.    ....     ......+...+.......+.+|+||++.....           .....+...+... ..+..
T Consensus       247 --~i~----~~~~-----g~~~~~l~~lf~~a~~~~p~il~iDEid~l~~~r~~~~~~~~~~~~~~Ll~~ld~l~~~~~v  315 (733)
T TIGR01243       247 --EIM----SKYY-----GESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRGRV  315 (733)
T ss_pred             --HHh----cccc-----cHHHHHHHHHHHHHHhcCCcEEEeehhhhhcccccCCcchHHHHHHHHHHHHhhccccCCCE
Confidence              110    0000     00111222223333345678999999843110           0122233333221 22333


Q ss_pred             EEE-ecCchH-HHhhhc----CCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCc
Q 036323          320 ILI-TTRKET-VARMME----STDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLP  384 (583)
Q Consensus       320 Ilv-TtR~~~-v~~~~~----~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlP  384 (583)
                      ++| ||.... +...+.    -...+.+...+.++-.+++....-... .....    ....+++.+.|.-
T Consensus       316 ivI~atn~~~~ld~al~r~gRfd~~i~i~~P~~~~R~~Il~~~~~~~~-l~~d~----~l~~la~~t~G~~  381 (733)
T TIGR01243       316 IVIGATNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTRNMP-LAEDV----DLDKLAEVTHGFV  381 (733)
T ss_pred             EEEeecCChhhcCHHHhCchhccEEEEeCCcCHHHHHHHHHHHhcCCC-Ccccc----CHHHHHHhCCCCC
Confidence            444 444332 211111    134677888888888888886542111 11111    2355777777754

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.

>smart00763 AAA_PrkA PrkA AAA domain

Probab=97.00  E-value=0.00062  Score=68.84  Aligned_cols=50  Identities=18%  Similarity=0.271  Sum_probs=41.5

Q ss_pred             ceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          181 EVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       181 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      +++|-++.++++++++.... .+.....+++.|+|++|+||||||+.+.+.
T Consensus        52 ~~~G~~~~i~~lv~~l~~~a-~g~~~~r~il~L~GPPGsGKStla~~La~~  101 (361)
T smart00763       52 DFFGMEEAIERFVNYFKSAA-QGLEERKQILYLLGPVGGGKSSLVECLKRG  101 (361)
T ss_pred             hccCcHHHHHHHHHHHHHHH-hcCCCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            79999999999999997654 112345689999999999999999999874

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

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.00  E-value=0.01  Score=67.43  Aligned_cols=180  Identities=13%  Similarity=0.141  Sum_probs=92.8

Q ss_pred             CCceeechhHHHHHHHHhhcCCCC------CCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCCh
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSD------QQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDE  252 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~------~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  252 (583)
                      -..+.|.+..+++|.+.+..+-..      .+-..++-+.++|++|+|||+||+.+++..  ...|     +.+...   
T Consensus       452 ~~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~--~~~f-----i~v~~~---  521 (733)
T TIGR01243       452 WSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATES--GANF-----IAVRGP---  521 (733)
T ss_pred             hhhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhc--CCCE-----EEEehH---
Confidence            346788888888777766421100      011234568899999999999999999842  2222     222210   


Q ss_pred             HHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcc------c-cc-----chHhhHHhhcc--CCCCc
Q 036323          253 FNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTD------D-YR-----KWEPFRNCLMN--GLRGS  318 (583)
Q Consensus       253 ~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~------~-~~-----~~~~l~~~l~~--~~~gs  318 (583)
                           .++....+.     ....+.......-...+.+|+||+++.-      . ..     ....+...+..  ...+.
T Consensus       522 -----~l~~~~vGe-----se~~i~~~f~~A~~~~p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~~~~~~v  591 (733)
T TIGR01243       522 -----EILSKWVGE-----SEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQELSNV  591 (733)
T ss_pred             -----HHhhcccCc-----HHHHHHHHHHHHHhcCCEEEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhcccCCCCE
Confidence                 111111110     0111222222223456799999998431      0 00     11223333322  22345


Q ss_pred             eEEEecCchHHHh-h-h---cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCC
Q 036323          319 KILITTRKETVAR-M-M---ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGL  383 (583)
Q Consensus       319 ~IlvTtR~~~v~~-~-~---~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~Gl  383 (583)
                      .||.||..+.... . +   .-...+.++..+.++-.++|+.+..... .....+    ...+++.|.|.
T Consensus       592 ~vI~aTn~~~~ld~allRpgRfd~~i~v~~Pd~~~R~~i~~~~~~~~~-~~~~~~----l~~la~~t~g~  656 (733)
T TIGR01243       592 VVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSMP-LAEDVD----LEELAEMTEGY  656 (733)
T ss_pred             EEEEeCCChhhCCHhhcCCCccceEEEeCCcCHHHHHHHHHHHhcCCC-CCccCC----HHHHHHHcCCC
Confidence            5666776554322 1 1   1256788888888888888876542211 111122    24466777764

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.

>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]

Probab=96.99  E-value=0.0015  Score=64.90  Aligned_cols=136  Identities=23%  Similarity=0.245  Sum_probs=72.2

Q ss_pred             eeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcC-ccccccCceEEE----EEeCCCC------
Q 036323          182 VRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYND-NDVINNFEIRVR----VCVSDPF------  250 (583)
Q Consensus       182 ~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~-~~~~~~f~~~~w----v~~~~~~------  250 (583)
                      +-+|..+..--.++|+.++       ...|.+.|.+|.|||-||....-. ...++.|..++-    +.++++.      
T Consensus       226 i~prn~eQ~~ALdlLld~d-------I~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~KiiVtRp~vpvG~dIGfLPG~  298 (436)
T COG1875         226 IRPRNAEQRVALDLLLDDD-------IDLVSLGGKAGTGKTLLALAAGLEQVLERKRYRKIIVTRPTVPVGEDIGFLPGT  298 (436)
T ss_pred             cCcccHHHHHHHHHhcCCC-------CCeEEeeccCCccHhHHHHHHHHHHHHHHhhhceEEEecCCcCcccccCcCCCc
Confidence            3457777777777886554       889999999999999988554211 122334433221    2223221      


Q ss_pred             ---ChHHHHHHHHHHhhcCc-cccccHHHHHHHHH---------HHhcCC---ceeEEEcCCCcccccchHhhHHhhccC
Q 036323          251 ---DEFNVAKATIEELEGSA-IDLHELNSLLRRIG---------ANIAGQ---KFFMVLDNLWTDDYRKWEPFRNCLMNG  314 (583)
Q Consensus       251 ---~~~~~~~~il~~l~~~~-~~~~~~~~~~~~l~---------~~l~~k---~~LlVlDdv~~~~~~~~~~l~~~l~~~  314 (583)
                         .+.-.++.|...+..-. .+......+...+.         .+.+|+   +-++|+|.+.+-.+.+   +...+...
T Consensus       299 eEeKm~PWmq~i~DnLE~L~~~~~~~~~~l~~~l~~~~iev~alt~IRGRSl~~~FiIIDEaQNLTphe---ikTiltR~  375 (436)
T COG1875         299 EEEKMGPWMQAIFDNLEVLFSPNEPGDRALEEILSRGRIEVEALTYIRGRSLPDSFIIIDEAQNLTPHE---LKTILTRA  375 (436)
T ss_pred             hhhhccchHHHHHhHHHHHhcccccchHHHHHHHhccceeeeeeeeecccccccceEEEehhhccCHHH---HHHHHHhc
Confidence               11112233332222110 01111112222211         123444   3589999997654444   44456677


Q ss_pred             CCCceEEEecCch
Q 036323          315 LRGSKILITTRKE  327 (583)
Q Consensus       315 ~~gs~IlvTtR~~  327 (583)
                      +.||||+.|.-..
T Consensus       376 G~GsKIVl~gd~a  388 (436)
T COG1875         376 GEGSKIVLTGDPA  388 (436)
T ss_pred             cCCCEEEEcCCHH
Confidence            8899999987633

>PHA00729 NTP-binding motif containing protein

Probab=96.99  E-value=0.0053  Score=58.15  Aligned_cols=25  Identities=32%  Similarity=0.294  Sum_probs=21.7

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ....|.|+|.+|+||||||..+.+.
T Consensus        16 ~f~nIlItG~pGvGKT~LA~aLa~~   40 (226)
T PHA00729         16 GFVSAVIFGKQGSGKTTYALKVARD   40 (226)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHH
Confidence            3567889999999999999998873

>PTZ00494 tuzin-like protein; Provisional

Probab=96.97  E-value=0.046  Score=56.23  Aligned_cols=171  Identities=13%  Similarity=0.172  Sum_probs=105.6

Q ss_pred             cccccCCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChH
Q 036323          174 TSLIDVSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEF  253 (583)
Q Consensus       174 ~~~~~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  253 (583)
                      ..+..+..+|.|+.|-..+.+.|....    ...++++.+.|.-|.||++|.+.......     -..++|++...   +
T Consensus       365 ~a~a~~~~~V~R~~eE~~vRqvL~qld----~aHPRIvV~TG~~GcGKSslcRsAvrkE~-----~paV~VDVRg~---E  432 (664)
T PTZ00494        365 LAAAAEAFEVRREDEEALVRSVLTQMA----PSHPRIVALAGGSGGGRCVPCRRAVRVEG-----VALVHVDVGGT---E  432 (664)
T ss_pred             ccccccccccchhhHHHHHHHHHhhcc----CCCCcEEEEecCCCCCchHHHHHHHHHcC-----CCeEEEEecCC---c
Confidence            344567789999999888888886554    46789999999999999999988776322     23567887754   4


Q ss_pred             HHHHHHHHHhhcCcccc-cc----HHHHHHHHHHHhcCCceeEEEcCCCccc-ccchHhhHHhhccCCCCceEEEecCch
Q 036323          254 NVAKATIEELEGSAIDL-HE----LNSLLRRIGANIAGQKFFMVLDNLWTDD-YRKWEPFRNCLMNGLRGSKILITTRKE  327 (583)
Q Consensus       254 ~~~~~il~~l~~~~~~~-~~----~~~~~~~l~~~l~~k~~LlVlDdv~~~~-~~~~~~l~~~l~~~~~gs~IlvTtR~~  327 (583)
                      +.++.+.+.++.+..+. .|    +.+....-+....++.-+||+-=-...+ ...+++. ..|.....-|+|++----+
T Consensus       433 DtLrsVVKALgV~nve~CGDlLdFI~ea~~~A~~~~~g~~P~lVlkLREGssL~RVYnE~-vaLacDrRlCHvv~EVplE  511 (664)
T PTZ00494        433 DTLRSVVRALGVSNVEVCGDLLGFVEEAMRGATVKASDGVPFLVMRLREGSDLGRVYGEV-VSLVSDCQACHIVLAVPMK  511 (664)
T ss_pred             chHHHHHHHhCCCChhhhccHHHHHHHHHHHHHHhcCCCCCEEEEEeccCCcHHHHHHHH-HHHHccchhheeeeechHh
Confidence            56788888888775432 22    2222222333344565566653221111 1112221 1233444567777755444


Q ss_pred             HHHhh---hcCCCeEEcCCCChHHHHHHHHHHh
Q 036323          328 TVARM---MESTDIVYVQGLSELECWSLFRRFA  357 (583)
Q Consensus       328 ~v~~~---~~~~~~~~l~~L~~~ea~~Lf~~~a  357 (583)
                      .+...   +.....|.+++++..+|.++-.+..
T Consensus       512 SLT~~n~~LPRLDFy~VPnFSr~QAf~YtqH~l  544 (664)
T PTZ00494        512 ALTPLNVSSRRLDFYCIPPFSRRQAFAYAEHTL  544 (664)
T ss_pred             hhchhhccCccceeEecCCcCHHHHHHHHhccc
Confidence            33221   1225678899999999988876643

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=96.94  E-value=0.0086  Score=56.82  Aligned_cols=178  Identities=16%  Similarity=0.147  Sum_probs=96.3

Q ss_pred             CCceeechhHHH---HHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHH
Q 036323          179 VSEVRGRDEEMR---SIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNV  255 (583)
Q Consensus       179 ~~~~vGR~~e~~---~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~  255 (583)
                      -.+++|.++...   -|++.|..+. .-++..++-|..+|++|.|||.+|+.+.+...+  .|     +.+.       .
T Consensus       120 ~ddViGqEeAK~kcrli~~yLenPe-~Fg~WAPknVLFyGppGTGKTm~Akalane~kv--p~-----l~vk-------a  184 (368)
T COG1223         120 LDDVIGQEEAKRKCRLIMEYLENPE-RFGDWAPKNVLFYGPPGTGKTMMAKALANEAKV--PL-----LLVK-------A  184 (368)
T ss_pred             HhhhhchHHHHHHHHHHHHHhhChH-HhcccCcceeEEECCCCccHHHHHHHHhcccCC--ce-----EEec-------h
Confidence            357889876653   4566665543 223567889999999999999999999995332  22     1111       1


Q ss_pred             HHHHHHHhhcCccccccHHHHHHHHHH-HhcCCceeEEEcCCCccc------------ccchHhhHHhhc--cCCCCceE
Q 036323          256 AKATIEELEGSAIDLHELNSLLRRIGA-NIAGQKFFMVLDNLWTDD------------YRKWEPFRNCLM--NGLRGSKI  320 (583)
Q Consensus       256 ~~~il~~l~~~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~~------------~~~~~~l~~~l~--~~~~gs~I  320 (583)
                      .+-|.+..+..       ...+..+-+ .-+.-++++.||.++--.            .+..+.|+.-+.  ..+.|...
T Consensus       185 t~liGehVGdg-------ar~Ihely~rA~~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~eneGVvt  257 (368)
T COG1223         185 TELIGEHVGDG-------ARRIHELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEGVVT  257 (368)
T ss_pred             HHHHHHHhhhH-------HHHHHHHHHHHHhcCCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccCCceEE
Confidence            11122222211       111222222 223568999999874210            111223333332  13446555


Q ss_pred             EEecCchHHHhh-hcC--CCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCC
Q 036323          321 LITTRKETVARM-MES--TDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGL  383 (583)
Q Consensus       321 lvTtR~~~v~~~-~~~--~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~Gl  383 (583)
                      |-.|.+...... ..+  ...++...-+++|-.+++..++-.-..+-     ..-.+.++++.+|+
T Consensus       258 IaaTN~p~~LD~aiRsRFEeEIEF~LP~~eEr~~ile~y~k~~Plpv-----~~~~~~~~~~t~g~  318 (368)
T COG1223         258 IAATNRPELLDPAIRSRFEEEIEFKLPNDEERLEILEYYAKKFPLPV-----DADLRYLAAKTKGM  318 (368)
T ss_pred             EeecCChhhcCHHHHhhhhheeeeeCCChHHHHHHHHHHHHhCCCcc-----ccCHHHHHHHhCCC
Confidence            666665544322 222  45677777888888888888773222111     11134566777664

>PRK05541 adenylylsulfate kinase; Provisional

Probab=96.93  E-value=0.004  Score=57.38  Aligned_cols=37  Identities=24%  Similarity=0.399  Sum_probs=27.9

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEE
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRV  244 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv  244 (583)
                      ....+|.++|++|+||||+|+.+++.  ....+...+++
T Consensus         5 ~~~~~I~i~G~~GsGKst~a~~l~~~--l~~~~~~~~~~   41 (176)
T PRK05541          5 PNGYVIWITGLAGSGKTTIAKALYER--LKLKYSNVIYL   41 (176)
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHHHH--HHHcCCcEEEE
Confidence            34569999999999999999999873  33445455555

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.91  E-value=0.0071  Score=61.83  Aligned_cols=114  Identities=12%  Similarity=0.067  Sum_probs=57.1

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCC-CChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDP-FDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIA  285 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~  285 (583)
                      ..++|+|+|++|+||||++..++.... ...+ .+..++.... ....+-+....+.++.+.....+...+...+...-.
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~~L~-~~Gk-kVglI~aDt~RiaAvEQLk~yae~lgipv~v~~d~~~L~~aL~~lk~  317 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAWQFH-GKKK-TVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKE  317 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHHHH-HcCC-cEEEEecCCcchHHHHHHHHHhhhcCCcEEecCCHHHHHHHHHHHHh
Confidence            457999999999999999988876322 1222 2334443221 122333344334444332222344455555544322


Q ss_pred             C-CceeEEEcCCCccc--ccchHhhHHhhccCCCCceEEE
Q 036323          286 G-QKFFMVLDNLWTDD--YRKWEPFRNCLMNGLRGSKILI  322 (583)
Q Consensus       286 ~-k~~LlVlDdv~~~~--~~~~~~l~~~l~~~~~gs~Ilv  322 (583)
                      . +.=++++|-.-...  ......+...+....+...++|
T Consensus       318 ~~~~DvVLIDTaGRs~kd~~lm~EL~~~lk~~~PdevlLV  357 (436)
T PRK11889        318 EARVDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLT  357 (436)
T ss_pred             ccCCCEEEEeCccccCcCHHHHHHHHHHHhhcCCCeEEEE
Confidence            1 23478888874321  2234445444433333333443

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=96.91  E-value=0.0092  Score=53.45  Aligned_cols=117  Identities=15%  Similarity=0.047  Sum_probs=60.9

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCC---CCChHHHHHHHHHHh-----hcC-----ccccc---c
Q 036323          209 QIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSD---PFDEFNVAKATIEEL-----EGS-----AIDLH---E  272 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~---~~~~~~~~~~il~~l-----~~~-----~~~~~---~  272 (583)
                      ..|-|++..|.||||+|....-.  ...+=..+.++..-.   .......++.+- .+     +..     .....   .
T Consensus         3 G~i~vy~g~G~Gkt~~a~g~~~r--a~~~g~~v~~vQFlKg~~~~gE~~~l~~l~-~v~~~~~g~~~~~~~~~~~~~~~~   79 (159)
T cd00561           3 GLIQVYTGNGKGKTTAALGLALR--ALGHGYRVGVVQFLKGGWKYGELKALERLP-NIEIHRMGRGFFWTTENDEEDIAA   79 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH--HHHCCCeEEEEEEeCCCCccCHHHHHHhCC-CcEEEECCCCCccCCCChHHHHHH
Confidence            46778888999999999666542  222222233333322   223333333320 00     000     00011   1


Q ss_pred             HHHHHHHHHHHhcCC-ceeEEEcCCCcc---cccchHhhHHhhccCCCCceEEEecCchH
Q 036323          273 LNSLLRRIGANIAGQ-KFFMVLDNLWTD---DYRKWEPFRNCLMNGLRGSKILITTRKET  328 (583)
Q Consensus       273 ~~~~~~~l~~~l~~k-~~LlVlDdv~~~---~~~~~~~l~~~l~~~~~gs~IlvTtR~~~  328 (583)
                      .....+..++.+... -=|||||++-..   ..-..+.+...+.....+.-+|+|.|+..
T Consensus        80 a~~~~~~a~~~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~~p  139 (159)
T cd00561          80 AAEGWAFAKEAIASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRNAP  139 (159)
T ss_pred             HHHHHHHHHHHHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCCCC
Confidence            122333344444443 459999998321   22245567777766677888999999843

This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=96.90  E-value=0.0016  Score=63.62  Aligned_cols=82  Identities=13%  Similarity=0.148  Sum_probs=48.2

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAG  286 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~  286 (583)
                      +..-+.++|.+|+|||.||..+.+...  ..--.+.++++      .++..++.......        .....|.+.+ .
T Consensus       104 ~~~nl~l~G~~G~GKThLa~Ai~~~l~--~~g~sv~f~~~------~el~~~Lk~~~~~~--------~~~~~l~~~l-~  166 (254)
T COG1484         104 RGENLVLLGPPGVGKTHLAIAIGNELL--KAGISVLFITA------PDLLSKLKAAFDEG--------RLEEKLLREL-K  166 (254)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHHHH--HcCCeEEEEEH------HHHHHHHHHHHhcC--------chHHHHHHHh-h
Confidence            455788999999999999999998533  22233455543      34555554444321        1112222211 1


Q ss_pred             CceeEEEcCCCcccccchH
Q 036323          287 QKFFMVLDNLWTDDYRKWE  305 (583)
Q Consensus       287 k~~LlVlDdv~~~~~~~~~  305 (583)
                      +-=||||||+-......|.
T Consensus       167 ~~dlLIiDDlG~~~~~~~~  185 (254)
T COG1484         167 KVDLLIIDDIGYEPFSQEE  185 (254)
T ss_pred             cCCEEEEecccCccCCHHH
Confidence            2349999999665555554

>PRK12608 transcription termination factor Rho; Provisional

Probab=96.89  E-value=0.0042  Score=63.16  Aligned_cols=102  Identities=19%  Similarity=0.199  Sum_probs=61.7

Q ss_pred             HHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCce-EEEEEeCC-CCChHHHHHHHHHHhhc
Q 036323          188 EMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEI-RVRVCVSD-PFDEFNVAKATIEELEG  265 (583)
Q Consensus       188 e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~-~~wv~~~~-~~~~~~~~~~il~~l~~  265 (583)
                      ...++++.+..-.      ...-+.|+|.+|+|||||++.+++... .++-+. ++|+.+.+ ..++.++++.+...+..
T Consensus       119 ~~~RvID~l~PiG------kGQR~LIvG~pGtGKTTLl~~la~~i~-~~~~dv~~vv~lIgER~~EV~df~~~i~~~Vva  191 (380)
T PRK12608        119 LSMRVVDLVAPIG------KGQRGLIVAPPRAGKTVLLQQIAAAVA-ANHPEVHLMVLLIDERPEEVTDMRRSVKGEVYA  191 (380)
T ss_pred             hhHhhhhheeecC------CCceEEEECCCCCCHHHHHHHHHHHHH-hcCCCceEEEEEecCCCCCHHHHHHHHhhhEEe
Confidence            3455777775332      334568999999999999999887421 112233 36666655 44667777877776664


Q ss_pred             Ccccccc-----HHHHHHHHHHHh--cCCceeEEEcCC
Q 036323          266 SAIDLHE-----LNSLLRRIGANI--AGQKFFMVLDNL  296 (583)
Q Consensus       266 ~~~~~~~-----~~~~~~~l~~~l--~~k~~LlVlDdv  296 (583)
                      ...+...     .......+.+++  ++++++||+|++
T Consensus       192 st~de~~~~~~~v~~~~~~~Ae~f~~~GkdVVLvlDsl  229 (380)
T PRK12608        192 STFDRPPDEHIRVAELVLERAKRLVEQGKDVVILLDSL  229 (380)
T ss_pred             ecCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEeCc
Confidence            4322111     111111222222  588999999999

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

Probab=96.87  E-value=0.0028  Score=57.73  Aligned_cols=127  Identities=18%  Similarity=0.135  Sum_probs=66.4

Q ss_pred             eeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHH
Q 036323          182 VRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIE  261 (583)
Q Consensus       182 ~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~  261 (583)
                      ++|....+.++.+.+..-.     ....-|.|+|..|+||+.+|+.+++....  .-...+-|+++.- +...    +-.
T Consensus         1 liG~s~~m~~~~~~~~~~a-----~~~~pVlI~GE~GtGK~~lA~~IH~~s~r--~~~pfi~vnc~~~-~~~~----~e~   68 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAA-----SSDLPVLITGETGTGKELLARAIHNNSPR--KNGPFISVNCAAL-PEEL----LES   68 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHT-----TSTS-EEEECSTTSSHHHHHHHHHHCSTT--TTS-EEEEETTTS--HHH----HHH
T ss_pred             CEeCCHHHHHHHHHHHHHh-----CCCCCEEEEcCCCCcHHHHHHHHHHhhhc--ccCCeEEEehhhh-hcch----hhh
Confidence            3677778888887775543     22345669999999999999999984221  1122233444432 2222    223


Q ss_pred             HhhcCccc-----cccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccC------C-----CCceEEEecC
Q 036323          262 ELEGSAID-----LHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNG------L-----RGSKILITTR  325 (583)
Q Consensus       262 ~l~~~~~~-----~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~------~-----~gs~IlvTtR  325 (583)
                      .+.+....     ......+..      ....=.|+||++..-.......|...+..+      .     ...|||.||.
T Consensus        69 ~LFG~~~~~~~~~~~~~~G~l~------~A~~GtL~Ld~I~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~st~  142 (168)
T PF00158_consen   69 ELFGHEKGAFTGARSDKKGLLE------QANGGTLFLDEIEDLPPELQAKLLRVLEEGKFTRLGSDKPVPVDVRIIASTS  142 (168)
T ss_dssp             HHHEBCSSSSTTTSSEBEHHHH------HTTTSEEEEETGGGS-HHHHHHHHHHHHHSEEECCTSSSEEE--EEEEEEES
T ss_pred             hhhccccccccccccccCCcee------eccceEEeecchhhhHHHHHHHHHHHHhhchhccccccccccccceEEeecC
Confidence            33332111     011111111      123447899999765555555566665321      1     2568888887


Q ss_pred             c
Q 036323          326 K  326 (583)
Q Consensus       326 ~  326 (583)
                      .
T Consensus       143 ~  143 (168)
T PF00158_consen  143 K  143 (168)
T ss_dssp             S
T ss_pred             c
Confidence            4

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 ....

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

Probab=96.86  E-value=0.0062  Score=58.34  Aligned_cols=208  Identities=13%  Similarity=0.112  Sum_probs=114.3

Q ss_pred             ceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCc---cc-cccCceEEEEEeCCC-------
Q 036323          181 EVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDN---DV-INNFEIRVRVCVSDP-------  249 (583)
Q Consensus       181 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~---~~-~~~f~~~~wv~~~~~-------  249 (583)
                      .+.++++....+.....       .+..+-..++|++|.||-|.+..+.+..   .+ +-.-+..-|.+-+..       
T Consensus        14 ~l~~~~e~~~~Lksl~~-------~~d~PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~~tpS~kklEistv   86 (351)
T KOG2035|consen   14 ELIYHEELANLLKSLSS-------TGDFPHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTFTTPSKKKLEISTV   86 (351)
T ss_pred             hcccHHHHHHHHHHhcc-------cCCCCeEEEECCCCCCchhhHHHHHHHHhCCCchheeeeeEEEecCCCceEEEEEe
Confidence            35677777777766553       2347788899999999999886554431   11 112233344432221       


Q ss_pred             ---C-----------ChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCce-eEEEcCCCcccccchHhhHHhhccC
Q 036323          250 ---F-----------DEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKF-FMVLDNLWTDDYRKWEPFRNCLMNG  314 (583)
Q Consensus       250 ---~-----------~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~-LlVlDdv~~~~~~~~~~l~~~l~~~  314 (583)
                         .           ...-+.+++++.+....+-..            -..+.| ++|+-.+++-..+....|+.....-
T Consensus        87 sS~yHlEitPSDaG~~DRvViQellKevAQt~qie~------------~~qr~fKvvvi~ead~LT~dAQ~aLRRTMEkY  154 (351)
T KOG2035|consen   87 SSNYHLEITPSDAGNYDRVVIQELLKEVAQTQQIET------------QGQRPFKVVVINEADELTRDAQHALRRTMEKY  154 (351)
T ss_pred             cccceEEeChhhcCcccHHHHHHHHHHHHhhcchhh------------ccccceEEEEEechHhhhHHHHHHHHHHHHHH
Confidence               1           112233444444332211000            012344 5666666443333444566655555


Q ss_pred             CCCceEEEecCch--HHHhhhcCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhhhh
Q 036323          315 LRGSKILITTRKE--TVARMMESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGS  392 (583)
Q Consensus       315 ~~gs~IlvTtR~~--~v~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~~  392 (583)
                      ...+|+|+...+.  -....-...-.+.+...+++|-...+...+-.++-.-  |  .+++.+|+++++|+-.-.-.+..
T Consensus       155 s~~~RlIl~cns~SriIepIrSRCl~iRvpaps~eeI~~vl~~v~~kE~l~l--p--~~~l~rIa~kS~~nLRrAllmlE  230 (351)
T KOG2035|consen  155 SSNCRLILVCNSTSRIIEPIRSRCLFIRVPAPSDEEITSVLSKVLKKEGLQL--P--KELLKRIAEKSNRNLRRALLMLE  230 (351)
T ss_pred             hcCceEEEEecCcccchhHHhhheeEEeCCCCCHHHHHHHHHHHHHHhcccC--c--HHHHHHHHHHhcccHHHHHHHHH
Confidence            5678888754431  1111112245688999999999999998875443321  2  67899999999997554444433


Q ss_pred             hhccCC----------CHHHHHHHHhhhc
Q 036323          393 LLQFKR----------TKEEWQSALDSEM  411 (583)
Q Consensus       393 ~L~~~~----------~~~~w~~~l~~~~  411 (583)
                      .++.+.          ..-+|+-++.+..
T Consensus       231 ~~~~~n~~~~a~~~~i~~~dWe~~i~e~a  259 (351)
T KOG2035|consen  231 AVRVNNEPFTANSQVIPKPDWEIYIQEIA  259 (351)
T ss_pred             HHHhccccccccCCCCCCccHHHHHHHHH
Confidence            332221          2347877766544

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

Probab=96.86  E-value=0.0037  Score=67.39  Aligned_cols=89  Identities=17%  Similarity=0.194  Sum_probs=58.7

Q ss_pred             CCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHh
Q 036323          205 TNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANI  284 (583)
Q Consensus       205 ~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l  284 (583)
                      .+.-+++.++|++|.||||||.-++++.    .| .++=+++|+.-+...+-..|...+.......             .
T Consensus       323 RP~kKilLL~GppGlGKTTLAHViAkqa----GY-sVvEINASDeRt~~~v~~kI~~avq~~s~l~-------------a  384 (877)
T KOG1969|consen  323 RPPKKILLLCGPPGLGKTTLAHVIAKQA----GY-SVVEINASDERTAPMVKEKIENAVQNHSVLD-------------A  384 (877)
T ss_pred             CCccceEEeecCCCCChhHHHHHHHHhc----Cc-eEEEecccccccHHHHHHHHHHHHhhccccc-------------c
Confidence            4567899999999999999999988743    22 2566777877666666655555544332110             1


Q ss_pred             cCCceeEEEcCCCcccccchHhhHHhh
Q 036323          285 AGQKFFMVLDNLWTDDYRKWEPFRNCL  311 (583)
Q Consensus       285 ~~k~~LlVlDdv~~~~~~~~~~l~~~l  311 (583)
                      .+++.-||+|.++.......+.++..+
T Consensus       385 dsrP~CLViDEIDGa~~~~Vdvilslv  411 (877)
T KOG1969|consen  385 DSRPVCLVIDEIDGAPRAAVDVILSLV  411 (877)
T ss_pred             CCCcceEEEecccCCcHHHHHHHHHHH
Confidence            267888999999654433345555544

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.86  E-value=0.023  Score=60.26  Aligned_cols=160  Identities=14%  Similarity=0.213  Sum_probs=85.1

Q ss_pred             cCCceeechhHHHHHHHHhhcCCCCC-----CCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCCh
Q 036323          178 DVSEVRGRDEEMRSIKSMLLCQGSDQ-----QTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDE  252 (583)
Q Consensus       178 ~~~~~vGR~~e~~~l~~~L~~~~~~~-----~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  252 (583)
                      .-..+=|.+..+.+|.+++..-..+.     +-..++-|.++|++|+|||.||+.++++..+       -++.++.+   
T Consensus       188 ~f~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~v-------Pf~~isAp---  257 (802)
T KOG0733|consen  188 SFSDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGV-------PFLSISAP---  257 (802)
T ss_pred             chhhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCC-------ceEeecch---
Confidence            34567789999988888876432100     1134567889999999999999999985332       22333321   


Q ss_pred             HHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccc-----------cchHhhHHhhcc---C-CCC
Q 036323          253 FNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDY-----------RKWEPFRNCLMN---G-LRG  317 (583)
Q Consensus       253 ~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~-----------~~~~~l~~~l~~---~-~~g  317 (583)
                           +|+..+.+     .+.+.+.+...+.-..-+++++||+++--.+           ....+|...+..   . ..|
T Consensus       258 -----eivSGvSG-----ESEkkiRelF~~A~~~aPcivFiDeIDAI~pkRe~aqreMErRiVaQLlt~mD~l~~~~~~g  327 (802)
T KOG0733|consen  258 -----EIVSGVSG-----ESEKKIRELFDQAKSNAPCIVFIDEIDAITPKREEAQREMERRIVAQLLTSMDELSNEKTKG  327 (802)
T ss_pred             -----hhhcccCc-----ccHHHHHHHHHHHhccCCeEEEeecccccccchhhHHHHHHHHHHHHHHHhhhcccccccCC
Confidence                 12222221     1122222333334456799999999843111           112233333311   1 112


Q ss_pred             ceEEE---ecCchHHHhhh---cC-CCeEEcCCCChHHHHHHHHHHh
Q 036323          318 SKILI---TTRKETVARMM---ES-TDIVYVQGLSELECWSLFRRFA  357 (583)
Q Consensus       318 s~Ilv---TtR~~~v~~~~---~~-~~~~~l~~L~~~ea~~Lf~~~a  357 (583)
                      -.|||   |+|...+-..+   +. .+.|.+.--+..+-.+++...+
T Consensus       328 ~~VlVIgATnRPDslDpaLRRaGRFdrEI~l~vP~e~aR~~IL~~~~  374 (802)
T KOG0733|consen  328 DPVLVIGATNRPDSLDPALRRAGRFDREICLGVPSETAREEILRIIC  374 (802)
T ss_pred             CCeEEEecCCCCcccCHHHhccccccceeeecCCchHHHHHHHHHHH
Confidence            22332   45544332222   22 4567777777666666666554

>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=96.85  E-value=0.0008  Score=57.68  Aligned_cols=22  Identities=36%  Similarity=0.460  Sum_probs=20.1

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      +|.|.|++|+||||+|+.+.+.
T Consensus         1 vI~I~G~~gsGKST~a~~La~~   22 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAER   22 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999999873

...

>CHL00195 ycf46 Ycf46; Provisional

Probab=96.84  E-value=0.0085  Score=64.01  Aligned_cols=160  Identities=17%  Similarity=0.113  Sum_probs=81.9

Q ss_pred             CceeechhHHHHHHHHhhcC---CCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQ---GSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVA  256 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~---~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~  256 (583)
                      .++.|.+..++.+......-   ....+-..++-|.++|++|+|||.+|+.+.+..  .-.|   +-++.+.        
T Consensus       228 ~dvgGl~~lK~~l~~~~~~~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~--~~~~---~~l~~~~--------  294 (489)
T CHL00195        228 SDIGGLDNLKDWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDW--QLPL---LRLDVGK--------  294 (489)
T ss_pred             HHhcCHHHHHHHHHHHHHHhhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHh--CCCE---EEEEhHH--------
Confidence            45778776666555432110   000012345678899999999999999998842  1121   1122111        


Q ss_pred             HHHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCccc-------cc-ch----HhhHHhhccCCCCceEEEec
Q 036323          257 KATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDD-------YR-KW----EPFRNCLMNGLRGSKILITT  324 (583)
Q Consensus       257 ~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~-------~~-~~----~~l~~~l~~~~~gs~IlvTt  324 (583)
                        +.....+.  ..   ..+.+.+...-...+++|+||+++..-       .. .-    ..+...+.....+..||.||
T Consensus       295 --l~~~~vGe--se---~~l~~~f~~A~~~~P~IL~IDEID~~~~~~~~~~d~~~~~rvl~~lL~~l~~~~~~V~vIaTT  367 (489)
T CHL00195        295 --LFGGIVGE--SE---SRMRQMIRIAEALSPCILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLSEKKSPVFVVATA  367 (489)
T ss_pred             --hcccccCh--HH---HHHHHHHHHHHhcCCcEEEehhhhhhhccccCCCCchHHHHHHHHHHHHHhcCCCceEEEEec
Confidence              11100000  01   111122222223578999999985310       00 01    11222223333445566677


Q ss_pred             CchHH-Hhhh----cCCCeEEcCCCChHHHHHHHHHHhcc
Q 036323          325 RKETV-ARMM----ESTDIVYVQGLSELECWSLFRRFALS  359 (583)
Q Consensus       325 R~~~v-~~~~----~~~~~~~l~~L~~~ea~~Lf~~~a~~  359 (583)
                      ..... ...+    .-...+.++..+.++-.++|..+...
T Consensus       368 N~~~~Ld~allR~GRFD~~i~v~lP~~~eR~~Il~~~l~~  407 (489)
T CHL00195        368 NNIDLLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQK  407 (489)
T ss_pred             CChhhCCHHHhCCCcCCeEEEeCCcCHHHHHHHHHHHHhh
Confidence            65432 1111    12567888888999999999887643

>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea

Probab=96.84  E-value=0.012  Score=54.43  Aligned_cols=120  Identities=15%  Similarity=0.115  Sum_probs=63.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeC--CCCChHHHH------HHHHHHhhcCc------cccccH
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVS--DPFDEFNVA------KATIEELEGSA------IDLHEL  273 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~--~~~~~~~~~------~~il~~l~~~~------~~~~~~  273 (583)
                      ..+++|+|..|+|||||.+.++..   .....+.+++.-.  ...+.....      .++++.++...      ...+.-
T Consensus        25 G~~~~l~G~nGsGKStLl~~i~G~---~~~~~G~v~~~g~~~~~~~~~~~~~~i~~~~q~l~~~gl~~~~~~~~~~LS~G  101 (180)
T cd03214          25 GEIVGILGPNGAGKSTLLKTLAGL---LKPSSGEILLDGKDLASLSPKELARKIAYVPQALELLGLAHLADRPFNELSGG  101 (180)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC---CCCCCcEEEECCEECCcCCHHHHHHHHhHHHHHHHHcCCHhHhcCCcccCCHH
Confidence            458999999999999999999873   2223344443211  111221111      11333333211      111222


Q ss_pred             HHHHHHHHHHhcCCceeEEEcCCCc-ccccchHhhHHhhccC-CC-CceEEEecCchHHH
Q 036323          274 NSLLRRIGANIAGQKFFMVLDNLWT-DDYRKWEPFRNCLMNG-LR-GSKILITTRKETVA  330 (583)
Q Consensus       274 ~~~~~~l~~~l~~k~~LlVlDdv~~-~~~~~~~~l~~~l~~~-~~-gs~IlvTtR~~~v~  330 (583)
                      +...-.+...+-..+-++++|+.-. -|......+...+... .. |..||++|.+....
T Consensus       102 ~~qrl~laral~~~p~llllDEP~~~LD~~~~~~~~~~l~~~~~~~~~tiii~sh~~~~~  161 (180)
T cd03214         102 ERQRVLLARALAQEPPILLLDEPTSHLDIAHQIELLELLRRLARERGKTVVMVLHDLNLA  161 (180)
T ss_pred             HHHHHHHHHHHhcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHHH
Confidence            2223345555667888999999743 2222333444444332 22 66788888876654

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.

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=96.84  E-value=0.0078  Score=58.28  Aligned_cols=87  Identities=18%  Similarity=0.144  Sum_probs=53.6

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCc------------------
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSA------------------  267 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~------------------  267 (583)
                      +...++.|.|.+|+|||+|+.++...  ...+=..++|++..+.  ..++.+++ .+++-..                  
T Consensus        23 ~~g~~~~i~G~~GsGKt~l~~~~~~~--~~~~g~~~~y~~~e~~--~~~~~~~~-~~~g~~~~~~~~~g~l~i~~~~~~~   97 (234)
T PRK06067         23 PFPSLILIEGDHGTGKSVLSQQFVYG--ALKQGKKVYVITTENT--SKSYLKQM-ESVKIDISDFFLWGYLRIFPLNTEG   97 (234)
T ss_pred             cCCcEEEEECCCCCChHHHHHHHHHH--HHhCCCEEEEEEcCCC--HHHHHHHH-HHCCCChhHHHhCCCceEEeccccc
Confidence            56789999999999999999998653  1122346788887654  34444432 2222110                  


Q ss_pred             --cccccHHHHHHHHHHHhcC-CceeEEEcCCC
Q 036323          268 --IDLHELNSLLRRIGANIAG-QKFFMVLDNLW  297 (583)
Q Consensus       268 --~~~~~~~~~~~~l~~~l~~-k~~LlVlDdv~  297 (583)
                        ....+.+.+...+.+.+.. +.-++|+|.+-
T Consensus        98 ~~~~~~~~~~ll~~l~~~i~~~~~~~iviDs~t  130 (234)
T PRK06067         98 FEWNSTLANKLLELIIEFIKSKREDVIIIDSLT  130 (234)
T ss_pred             cccCcchHHHHHHHHHHHHHhcCCCEEEEecHH
Confidence              0112335566666666654 56689999974

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=96.83  E-value=0.0042  Score=55.93  Aligned_cols=39  Identities=28%  Similarity=0.207  Sum_probs=28.3

Q ss_pred             EEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCC
Q 036323          210 IISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPF  250 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~  250 (583)
                      ++.|+|.+|+|||+++..+....  ...-..++|++.....
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            36799999999999999987742  2233456777766543

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.

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=96.80  E-value=0.0084  Score=54.93  Aligned_cols=117  Identities=15%  Similarity=0.116  Sum_probs=59.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCC--CCChHHHHHHHHHHhhc--Cccc----------cccH
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSD--PFDEFNVAKATIEELEG--SAID----------LHEL  273 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~--~~~~~~~~~~il~~l~~--~~~~----------~~~~  273 (583)
                      ..+++|+|..|.|||||.+.++.-.   ....+.+++.-..  .......    ...+.-  +...          .+.-
T Consensus        28 G~~~~l~G~nGsGKstLl~~i~G~~---~~~~G~i~~~g~~~~~~~~~~~----~~~i~~~~~~~~~~~~t~~e~lLS~G  100 (171)
T cd03228          28 GEKVAIVGPSGSGKSTLLKLLLRLY---DPTSGEILIDGVDLRDLDLESL----RKNIAYVPQDPFLFSGTIRENILSGG  100 (171)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHcCC---CCCCCEEEECCEEhhhcCHHHH----HhhEEEEcCCchhccchHHHHhhCHH
Confidence            4589999999999999999998732   2223333332110  0000000    011110  0000          1111


Q ss_pred             HHHHHHHHHHhcCCceeEEEcCCCc-ccccchHhhHHhhccCCCCceEEEecCchHHHh
Q 036323          274 NSLLRRIGANIAGQKFFMVLDNLWT-DDYRKWEPFRNCLMNGLRGSKILITTRKETVAR  331 (583)
Q Consensus       274 ~~~~~~l~~~l~~k~~LlVlDdv~~-~~~~~~~~l~~~l~~~~~gs~IlvTtR~~~v~~  331 (583)
                      +...-.+...+-.++-+|++|+... -|......+...+.....+..||++|.+.....
T Consensus       101 ~~~rl~la~al~~~p~llllDEP~~gLD~~~~~~l~~~l~~~~~~~tii~~sh~~~~~~  159 (171)
T cd03228         101 QRQRIAIARALLRDPPILILDEATSALDPETEALILEALRALAKGKTVIVIAHRLSTIR  159 (171)
T ss_pred             HHHHHHHHHHHhcCCCEEEEECCCcCCCHHHHHHHHHHHHHhcCCCEEEEEecCHHHHH
Confidence            1122234455567788999999743 222233344444433233567888888776654

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.

>PHA02244 ATPase-like protein

Probab=96.80  E-value=0.0067  Score=61.56  Aligned_cols=22  Identities=23%  Similarity=0.306  Sum_probs=19.6

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      -|.|+|++|+|||+||+.++..
T Consensus       121 PVLL~GppGtGKTtLA~aLA~~  142 (383)
T PHA02244        121 PVFLKGGAGSGKNHIAEQIAEA  142 (383)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4678999999999999999874

>PRK13695 putative NTPase; Provisional

Probab=96.79  E-value=0.0021  Score=59.14  Aligned_cols=22  Identities=36%  Similarity=0.398  Sum_probs=19.4

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .++|+|.+|+|||||++.+++.
T Consensus         2 ~i~ltG~~G~GKTTll~~i~~~   23 (174)
T PRK13695          2 KIGITGPPGVGKTTLVLKIAEL   23 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3789999999999999998764

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=96.78  E-value=0.015  Score=52.84  Aligned_cols=61  Identities=18%  Similarity=0.180  Sum_probs=39.2

Q ss_pred             HHHHHHHHHHHhcCCceeEEEcCCCc--ccccchHhhHHhhc-cCCCCceEEEecCchHHHhhhc
Q 036323          273 LNSLLRRIGANIAGQKFFMVLDNLWT--DDYRKWEPFRNCLM-NGLRGSKILITTRKETVARMME  334 (583)
Q Consensus       273 ~~~~~~~l~~~l~~k~~LlVlDdv~~--~~~~~~~~l~~~l~-~~~~gs~IlvTtR~~~v~~~~~  334 (583)
                      -++..-.+.+.+-+++-+|+-|.--.  +....|+-+ ..|. -+..|+.||++|-+......+.
T Consensus       141 GEQQRvaIARAiV~~P~vLlADEPTGNLDp~~s~~im-~lfeeinr~GtTVl~ATHd~~lv~~~~  204 (223)
T COG2884         141 GEQQRVAIARAIVNQPAVLLADEPTGNLDPDLSWEIM-RLFEEINRLGTTVLMATHDLELVNRMR  204 (223)
T ss_pred             hHHHHHHHHHHHccCCCeEeecCCCCCCChHHHHHHH-HHHHHHhhcCcEEEEEeccHHHHHhcc
Confidence            34444456666778899999996421  222345543 3343 3567999999999988876653

>PRK06696 uridine kinase; Validated

Probab=96.76  E-value=0.0017  Score=62.46  Aligned_cols=44  Identities=18%  Similarity=0.286  Sum_probs=35.9

Q ss_pred             echhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          184 GRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       184 GR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .|++-+++|.+.+....    .+.+.+|+|.|.+|+||||||+.+...
T Consensus         2 ~~~~~~~~la~~~~~~~----~~~~~iI~I~G~sgsGKSTlA~~L~~~   45 (223)
T PRK06696          2 SRKQLIKELAEHILTLN----LTRPLRVAIDGITASGKTTFADELAEE   45 (223)
T ss_pred             cHHHHHHHHHHHHHHhC----CCCceEEEEECCCCCCHHHHHHHHHHH
Confidence            46777888888886533    346889999999999999999999873

>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=96.76  E-value=0.0015  Score=59.82  Aligned_cols=40  Identities=23%  Similarity=0.261  Sum_probs=28.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCcccc-ccCceEEEEEeCCC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVI-NNFEIRVRVCVSDP  249 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~-~~f~~~~wv~~~~~  249 (583)
                      ..++.+.|+.|+|||.||+.+.+.  .. +.....+-++.+..
T Consensus         3 ~~~~ll~GpsGvGKT~la~~la~~--l~~~~~~~~~~~d~s~~   43 (171)
T PF07724_consen    3 KSNFLLAGPSGVGKTELAKALAEL--LFVGSERPLIRIDMSEY   43 (171)
T ss_dssp             SEEEEEESSTTSSHHHHHHHHHHH--HT-SSCCEEEEEEGGGH
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHH--hccCCccchHHHhhhcc
Confidence            467889999999999999998873  22 33445555666543

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 ....

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=96.76  E-value=0.0074  Score=60.81  Aligned_cols=59  Identities=15%  Similarity=0.108  Sum_probs=41.2

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCcccc----ccCceEEEEEeCCCCChHHHHHHHHHHhhc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVI----NNFEIRVRVCVSDPFDEFNVAKATIEELEG  265 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~----~~f~~~~wv~~~~~~~~~~~~~~il~~l~~  265 (583)
                      +..+++-|+|.+|+|||+|+.+++-.....    ..=..++|++....++...+. ++++.++.
T Consensus        94 ~~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~-~~a~~~g~  156 (313)
T TIGR02238        94 ESMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIR-AIAERFGV  156 (313)
T ss_pred             cCCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHH-HHHHHcCC
Confidence            557899999999999999998766321211    112468999998888877654 34555543

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.

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

Probab=96.75  E-value=0.0033  Score=63.13  Aligned_cols=84  Identities=19%  Similarity=0.133  Sum_probs=53.8

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCc-----cccccHHHHHHHH
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSA-----IDLHELNSLLRRI  280 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~-----~~~~~~~~~~~~l  280 (583)
                      +..+++-|+|++|+||||||.+++..  ....-..++|++..+.++..     .++.++...     ..+.+.++....+
T Consensus        53 p~G~iteI~Gp~GsGKTtLal~~~~~--~~~~g~~~vyId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~i~  125 (325)
T cd00983          53 PKGRIIEIYGPESSGKTTLALHAIAE--AQKLGGTVAFIDAEHALDPV-----YAKKLGVDLDNLLISQPDTGEQALEIA  125 (325)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCCEEEECccccHHHH-----HHHHcCCCHHHheecCCCCHHHHHHHH
Confidence            56779999999999999999887753  22334567888887766543     233333221     1223445555555


Q ss_pred             HHHhc-CCceeEEEcCC
Q 036323          281 GANIA-GQKFFMVLDNL  296 (583)
Q Consensus       281 ~~~l~-~k~~LlVlDdv  296 (583)
                      ...++ +..-+||+|.+
T Consensus       126 ~~li~s~~~~lIVIDSv  142 (325)
T cd00983         126 DSLVRSGAVDLIVVDSV  142 (325)
T ss_pred             HHHHhccCCCEEEEcch
Confidence            55444 34569999997

RecA couples ATP hydrolysis to DNA strand exchange.

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.73  E-value=0.022  Score=60.45  Aligned_cols=155  Identities=19%  Similarity=0.281  Sum_probs=84.6

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQ  287 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  287 (583)
                      +.-|.++|++|+|||-||++|+|.  ..-+|     +.+..+    +++...   .+ .     +...+.+..++.-..-
T Consensus       545 PsGvLL~GPPGCGKTLlAKAVANE--ag~NF-----isVKGP----ELlNkY---VG-E-----SErAVR~vFqRAR~sa  604 (802)
T KOG0733|consen  545 PSGVLLCGPPGCGKTLLAKAVANE--AGANF-----ISVKGP----ELLNKY---VG-E-----SERAVRQVFQRARASA  604 (802)
T ss_pred             CCceEEeCCCCccHHHHHHHHhhh--ccCce-----EeecCH----HHHHHH---hh-h-----HHHHHHHHHHHhhcCC
Confidence            556889999999999999999994  44444     333221    111111   11 0     1111222222233467


Q ss_pred             ceeEEEcCCCc-----ccccc------hHhhHHhhc--cCCCCceEEEecCchHHHhh--hcC---CCeEEcCCCChHHH
Q 036323          288 KFFMVLDNLWT-----DDYRK------WEPFRNCLM--NGLRGSKILITTRKETVARM--MES---TDIVYVQGLSELEC  349 (583)
Q Consensus       288 ~~LlVlDdv~~-----~~~~~------~~~l~~~l~--~~~~gs~IlvTtR~~~v~~~--~~~---~~~~~l~~L~~~ea  349 (583)
                      +++|+||.++.     .+...      .++|+.-+.  ....|..||-.|..+++...  +.+   ...+.++.-+.+|-
T Consensus       605 PCVIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPDiIDpAiLRPGRlDk~LyV~lPn~~eR  684 (802)
T KOG0733|consen  605 PCVIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGLEERRGVYVIAATNRPDIIDPAILRPGRLDKLLYVGLPNAEER  684 (802)
T ss_pred             CeEEEecchhhcCcccCCCCchhHHHHHHHHHHHhcccccccceEEEeecCCCcccchhhcCCCccCceeeecCCCHHHH
Confidence            99999999853     11112      223333332  23456677776665554321  222   56777888888999


Q ss_pred             HHHHHHHhccCCCC-CCCchHHHHHHHHhhhCCCCc
Q 036323          350 WSLFRRFALSGRTP-SECDQLEGIGRGIVRKCKGLP  384 (583)
Q Consensus       350 ~~Lf~~~a~~~~~~-~~~~~~~~~~~~I~~~c~GlP  384 (583)
                      .++++........+ ...-++.++++  ..+|.|.-
T Consensus       685 ~~ILK~~tkn~k~pl~~dVdl~eia~--~~~c~gft  718 (802)
T KOG0733|consen  685 VAILKTITKNTKPPLSSDVDLDEIAR--NTKCEGFT  718 (802)
T ss_pred             HHHHHHHhccCCCCCCcccCHHHHhh--cccccCCc
Confidence            99998877532222 22235555543  24455543

>TIGR02012 tigrfam_recA protein RecA

Probab=96.73  E-value=0.0036  Score=62.81  Aligned_cols=85  Identities=19%  Similarity=0.121  Sum_probs=54.0

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCc-----cccccHHHHHHHH
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSA-----IDLHELNSLLRRI  280 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~-----~~~~~~~~~~~~l  280 (583)
                      +..+++-|+|++|+||||||.+++..  ....-..++|++..+.++..     .++.++...     ..+...++....+
T Consensus        53 p~G~iteI~G~~GsGKTtLaL~~~~~--~~~~g~~v~yId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~~~  125 (321)
T TIGR02012        53 PRGRIIEIYGPESSGKTTLALHAIAE--AQKAGGTAAFIDAEHALDPV-----YARKLGVDIDNLLVSQPDTGEQALEIA  125 (321)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEEcccchhHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHH
Confidence            56789999999999999999887763  22333456788877655542     233333221     1223445555555


Q ss_pred             HHHhc-CCceeEEEcCCC
Q 036323          281 GANIA-GQKFFMVLDNLW  297 (583)
Q Consensus       281 ~~~l~-~k~~LlVlDdv~  297 (583)
                      ....+ +..-++|+|.+-
T Consensus       126 ~~li~~~~~~lIVIDSv~  143 (321)
T TIGR02012       126 ETLVRSGAVDIIVVDSVA  143 (321)
T ss_pred             HHHhhccCCcEEEEcchh
Confidence            55443 456699999983

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.

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

Probab=96.72  E-value=0.011  Score=57.05  Aligned_cols=126  Identities=17%  Similarity=0.113  Sum_probs=72.8

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCC-----CCChHHHHHHHHHHhhcCcc-------ccccHH
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSD-----PFDEFNVAKATIEELEGSAI-------DLHELN  274 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-----~~~~~~~~~~il~~l~~~~~-------~~~~~~  274 (583)
                      ...+++|+|.+|+|||||++.+..   ....-.+.+++.-.+     .....+...++++.++....       +.+.-+
T Consensus        38 ~ge~~glVGESG~GKSTlgr~i~~---L~~pt~G~i~f~g~~i~~~~~~~~~~~v~elL~~Vgl~~~~~~ryPhelSGGQ  114 (268)
T COG4608          38 EGETLGLVGESGCGKSTLGRLILG---LEEPTSGEILFEGKDITKLSKEERRERVLELLEKVGLPEEFLYRYPHELSGGQ  114 (268)
T ss_pred             CCCEEEEEecCCCCHHHHHHHHHc---CcCCCCceEEEcCcchhhcchhHHHHHHHHHHHHhCCCHHHhhcCCcccCchh
Confidence            345899999999999999999987   333333444443221     11223345555665553321       112222


Q ss_pred             HHHHHHHHHhcCCceeEEEcCCCccc-ccchHhhHHhhcc--CCCCceEEEecCchHHHhhhcC
Q 036323          275 SLLRRIGANIAGQKFFMVLDNLWTDD-YRKWEPFRNCLMN--GLRGSKILITTRKETVARMMES  335 (583)
Q Consensus       275 ~~~~~l~~~l~~k~~LlVlDdv~~~~-~~~~~~l~~~l~~--~~~gs~IlvTtR~~~v~~~~~~  335 (583)
                      .-.-.+.+.|.-++-++|.|..-+.- ...-.++...|..  ...|...+..|-+-.+...+..
T Consensus       115 rQRi~IARALal~P~liV~DEpvSaLDvSiqaqIlnLL~dlq~~~~lt~lFIsHDL~vv~~isd  178 (268)
T COG4608         115 RQRIGIARALALNPKLIVADEPVSALDVSVQAQILNLLKDLQEELGLTYLFISHDLSVVRYISD  178 (268)
T ss_pred             hhhHHHHHHHhhCCcEEEecCchhhcchhHHHHHHHHHHHHHHHhCCeEEEEEEEHHhhhhhcc
Confidence            22234556677889999999974422 1122334444432  2346778888888888776544

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=96.71  E-value=0.0035  Score=57.27  Aligned_cols=153  Identities=18%  Similarity=0.166  Sum_probs=74.6

Q ss_pred             EEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHH---HHHHHHHHHhcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELN---SLLRRIGANIAG  286 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~---~~~~~l~~~l~~  286 (583)
                      ++.|.|.+|+|||++|..+.....  .   ..+++.-... ...+....+.......+..-...+   .+...+..... 
T Consensus         3 ~ili~G~~~sGKS~~a~~l~~~~~--~---~~~~iat~~~-~~~e~~~ri~~h~~~R~~~w~t~E~~~~l~~~i~~~~~-   75 (170)
T PRK05800          3 LILVTGGARSGKSRFAERLAAQSG--L---QVLYIATAQP-FDDEMAARIAHHRQRRPAHWQTVEEPLDLAELLRADAA-   75 (170)
T ss_pred             EEEEECCCCccHHHHHHHHHHHcC--C---CcEeCcCCCC-ChHHHHHHHHHHHhcCCCCCeEecccccHHHHHHhhcC-
Confidence            688999999999999999876311  1   1233333332 233455555444443322211111   23333433333 


Q ss_pred             CceeEEEcCCCc--c-----cc-cchHh----hHHhhccCCCCceEEEecCchHHHhhhcCCCeEEcCCCChHHHHHHHH
Q 036323          287 QKFFMVLDNLWT--D-----DY-RKWEP----FRNCLMNGLRGSKILITTRKETVARMMESTDIVYVQGLSELECWSLFR  354 (583)
Q Consensus       287 k~~LlVlDdv~~--~-----~~-~~~~~----l~~~l~~~~~gs~IlvTtR~~~v~~~~~~~~~~~l~~L~~~ea~~Lf~  354 (583)
                      +.-++++|.+-.  .     +. ..|..    +...+.  ..+..+|+|+...            -.+..+.++.-..|.
T Consensus        76 ~~~~VlID~Lt~~~~n~l~~~~~~~~~~~l~~li~~L~--~~~~tvVlVs~Ev------------g~g~vp~~~~~r~~~  141 (170)
T PRK05800         76 PGRCVLVDCLTTWVTNLLFEEGEEAIAAEIDALLAALQ--QLPAKIILVTNEV------------GMGIVPEYRLGRHFR  141 (170)
T ss_pred             CCCEEEehhHHHHHHHHhcccchHHHHHHHHHHHHHHH--cCCCCEEEEEcCC------------cccccCCCHHHHHHH
Confidence            233789998721  0     10 12222    222222  3455567776421            122333444445555


Q ss_pred             HHhccCCCCCCCchHHHHHHHHhhhCCCCccchh
Q 036323          355 RFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAK  388 (583)
Q Consensus       355 ~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~  388 (583)
                      ..++     ..+..+...++++..-..|+|+-++
T Consensus       142 d~lG-----~lnq~la~~ad~V~~v~~Gi~~~lK  170 (170)
T PRK05800        142 DIAG-----RLNQQLAAAADEVYLVVAGLPLKLK  170 (170)
T ss_pred             HHHH-----HHHHHHHHHCCEEEEEeCCCcEecC
Confidence            5542     1222344445555666678887653

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=96.69  E-value=0.0046  Score=57.09  Aligned_cols=118  Identities=15%  Similarity=0.085  Sum_probs=59.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhc--C-------------cccccc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEG--S-------------AIDLHE  272 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~--~-------------~~~~~~  272 (583)
                      ..+++|.|..|+|||||++.+..-.   ....+.+++.-.   +.......+-..+.-  +             ....+.
T Consensus        28 Ge~~~i~G~nGsGKStLl~~l~G~~---~~~~G~i~~~g~---~~~~~~~~~~~~i~~~~q~~~~~~~tv~~~i~~~LS~  101 (178)
T cd03247          28 GEKIALLGRSGSGKSTLLQLLTGDL---KPQQGEITLDGV---PVSDLEKALSSLISVLNQRPYLFDTTLRNNLGRRFSG  101 (178)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhccC---CCCCCEEEECCE---EHHHHHHHHHhhEEEEccCCeeecccHHHhhcccCCH
Confidence            4589999999999999999998742   112223332211   111110001111100  0             001111


Q ss_pred             HHHHHHHHHHHhcCCceeEEEcCCCcc-cccchHhhHHhhccCCCCceEEEecCchHHHh
Q 036323          273 LNSLLRRIGANIAGQKFFMVLDNLWTD-DYRKWEPFRNCLMNGLRGSKILITTRKETVAR  331 (583)
Q Consensus       273 ~~~~~~~l~~~l~~k~~LlVlDdv~~~-~~~~~~~l~~~l~~~~~gs~IlvTtR~~~v~~  331 (583)
                      -+...-.+...+-.++-++++|+.... |....+.+...+.....+..||++|.+.....
T Consensus       102 G~~qrv~laral~~~p~~lllDEP~~~LD~~~~~~l~~~l~~~~~~~tii~~sh~~~~~~  161 (178)
T cd03247         102 GERQRLALARILLQDAPIVLLDEPTVGLDPITERQLLSLIFEVLKDKTLIWITHHLTGIE  161 (178)
T ss_pred             HHHHHHHHHHHHhcCCCEEEEECCcccCCHHHHHHHHHHHHHHcCCCEEEEEecCHHHHH
Confidence            122223344555677889999997432 22223334444433234677888888876654

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.

>PRK09354 recA recombinase A; Provisional

Probab=96.68  E-value=0.0062  Score=61.70  Aligned_cols=84  Identities=18%  Similarity=0.144  Sum_probs=55.0

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCc-----cccccHHHHHHHH
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSA-----IDLHELNSLLRRI  280 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~-----~~~~~~~~~~~~l  280 (583)
                      +..+++-|+|++|+||||||.+++..  ....-..++|++....++..     .++.++...     ..+...++....+
T Consensus        58 p~G~IteI~G~~GsGKTtLal~~~~~--~~~~G~~~~yId~E~s~~~~-----~a~~lGvdld~lli~qp~~~Eq~l~i~  130 (349)
T PRK09354         58 PRGRIVEIYGPESSGKTTLALHAIAE--AQKAGGTAAFIDAEHALDPV-----YAKKLGVDIDNLLVSQPDTGEQALEIA  130 (349)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEECCccchHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHH
Confidence            56789999999999999999888763  23334567899887776642     233333221     1123345555555


Q ss_pred             HHHhc-CCceeEEEcCC
Q 036323          281 GANIA-GQKFFMVLDNL  296 (583)
Q Consensus       281 ~~~l~-~k~~LlVlDdv  296 (583)
                      ...++ +..-+||+|.+
T Consensus       131 ~~li~s~~~~lIVIDSv  147 (349)
T PRK09354        131 DTLVRSGAVDLIVVDSV  147 (349)
T ss_pred             HHHhhcCCCCEEEEeCh
Confidence            55543 45669999998

>TIGR01817 nifA Nif-specific regulatory protein

Probab=96.68  E-value=0.0098  Score=65.12  Aligned_cols=134  Identities=14%  Similarity=0.106  Sum_probs=74.1

Q ss_pred             cCCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHH
Q 036323          178 DVSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAK  257 (583)
Q Consensus       178 ~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  257 (583)
                      ....++|....+.++.+.+..-.     .....|.|+|..|+|||++|+.+++.....  -...+.+++.....  ..+.
T Consensus       194 ~~~~liG~s~~~~~~~~~~~~~a-----~~~~pvli~Ge~GtGK~~lA~~ih~~s~r~--~~pfv~i~c~~~~~--~~~~  264 (534)
T TIGR01817       194 KEDGIIGKSPAMRQVVDQARVVA-----RSNSTVLLRGESGTGKELIAKAIHYLSPRA--KRPFVKVNCAALSE--TLLE  264 (534)
T ss_pred             ccCceEECCHHHHHHHHHHHHHh-----CcCCCEEEECCCCccHHHHHHHHHHhCCCC--CCCeEEeecCCCCH--HHHH
Confidence            45689999999999988876443     234467799999999999999998742211  11234445543211  2221


Q ss_pred             HHHHHhhcCcccc-cc-HHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccCC-----------CCceEEEec
Q 036323          258 ATIEELEGSAIDL-HE-LNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGL-----------RGSKILITT  324 (583)
Q Consensus       258 ~il~~l~~~~~~~-~~-~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~IlvTt  324 (583)
                         ..+.+..... .. .......+   .....-.|+||++..-.......|...+..+.           ...+||.||
T Consensus       265 ---~~lfg~~~~~~~~~~~~~~g~~---~~a~~GtL~ldei~~L~~~~Q~~Ll~~l~~~~~~~~~~~~~~~~~~riI~~s  338 (534)
T TIGR01817       265 ---SELFGHEKGAFTGAIAQRKGRF---ELADGGTLFLDEIGEISPAFQAKLLRVLQEGEFERVGGNRTLKVDVRLVAAT  338 (534)
T ss_pred             ---HHHcCCCCCccCCCCcCCCCcc---cccCCCeEEEechhhCCHHHHHHHHHHHhcCcEEECCCCceEeecEEEEEeC
Confidence               1222211100 00 00000000   01234568999997665556666766664321           135788877


Q ss_pred             Cc
Q 036323          325 RK  326 (583)
Q Consensus       325 R~  326 (583)
                      ..
T Consensus       339 ~~  340 (534)
T TIGR01817       339 NR  340 (534)
T ss_pred             CC
Confidence            54

This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=96.67  E-value=0.036  Score=55.62  Aligned_cols=42  Identities=14%  Similarity=0.116  Sum_probs=30.6

Q ss_pred             ceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          181 EVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       181 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .++=.......+...+...         +.|.|.|.+|+||||+|+.++..
T Consensus        46 ~y~f~~~~~~~vl~~l~~~---------~~ilL~G~pGtGKTtla~~lA~~   87 (327)
T TIGR01650        46 AYLFDKATTKAICAGFAYD---------RRVMVQGYHGTGKSTHIEQIAAR   87 (327)
T ss_pred             CccCCHHHHHHHHHHHhcC---------CcEEEEeCCCChHHHHHHHHHHH
Confidence            3444444566677777432         35889999999999999999873

This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.

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

Probab=96.66  E-value=0.025  Score=62.30  Aligned_cols=185  Identities=15%  Similarity=0.124  Sum_probs=101.5

Q ss_pred             CCceeechh---HHHHHHHHhhcCCCC--CCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChH
Q 036323          179 VSEVRGRDE---EMRSIKSMLLCQGSD--QQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEF  253 (583)
Q Consensus       179 ~~~~vGR~~---e~~~l~~~L~~~~~~--~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  253 (583)
                      -.++.|-++   |++++++.|..+.-.  -+..-++=+.++|++|+|||-||++++....       +-|+.++..    
T Consensus       310 FkDVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEAg-------VPF~svSGS----  378 (774)
T KOG0731|consen  310 FKDVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEAG-------VPFFSVSGS----  378 (774)
T ss_pred             cccccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhcccC-------CceeeechH----
Confidence            346777764   566666667544200  0123466788999999999999999998533       334444432    


Q ss_pred             HHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCccc---------------ccchHhhHHhhccCCC--
Q 036323          254 NVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDD---------------YRKWEPFRNCLMNGLR--  316 (583)
Q Consensus       254 ~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~---------------~~~~~~l~~~l~~~~~--  316 (583)
                          +..+.+.+..  ...+.++...-   -.+.++++.+|++....               ...++++..-+.....  
T Consensus       379 ----EFvE~~~g~~--asrvr~lf~~a---r~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~~~  449 (774)
T KOG0731|consen  379 ----EFVEMFVGVG--ASRVRDLFPLA---RKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFETSK  449 (774)
T ss_pred             ----HHHHHhcccc--hHHHHHHHHHh---hccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCcCCC
Confidence                2222222221  22222222221   24568899999874311               1123333333322222  


Q ss_pred             CceEEEecCchHHHhh--hcC---CCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccch
Q 036323          317 GSKILITTRKETVARM--MES---TDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAA  387 (583)
Q Consensus       317 gs~IlvTtR~~~v~~~--~~~---~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai  387 (583)
                      +..+|-+|+..++...  +.+   ...+.++.-+..+..++|.-++-.....   .+..++.+ |+..+-|.+=|.
T Consensus       450 ~vi~~a~tnr~d~ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~~~~---~e~~dl~~-~a~~t~gf~gad  521 (774)
T KOG0731|consen  450 GVIVLAATNRPDILDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKKKLD---DEDVDLSK-LASLTPGFSGAD  521 (774)
T ss_pred             cEEEEeccCCccccCHHhcCCCccccceeccCCchhhhHHHHHHHhhccCCC---cchhhHHH-HHhcCCCCcHHH
Confidence            2333445554444321  122   5678888888889999999887433222   23345555 888888877553

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

Probab=96.66  E-value=0.0085  Score=67.31  Aligned_cols=122  Identities=17%  Similarity=0.205  Sum_probs=73.9

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCC-CceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQT-NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~-~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      ..++|.++.+..|.+.+.....+-.+ .....+.+.|+.|+|||.||+.+...  +-+..+..+-++.+..      .. 
T Consensus       562 ~~V~gQ~eAv~aIa~AI~~sr~gl~~~~~~awflflGpdgvGKt~lAkaLA~~--~Fgse~~~IriDmse~------~e-  632 (898)
T KOG1051|consen  562 ERVIGQDEAVAAIAAAIRRSRAGLKDPNPDAWFLFLGPDGVGKTELAKALAEY--VFGSEENFIRLDMSEF------QE-  632 (898)
T ss_pred             hhccchHHHHHHHHHHHHhhhcccCCCCCCeEEEEECCCchhHHHHHHHHHHH--HcCCccceEEechhhh------hh-
Confidence            46788888888888888765421112 25667889999999999999888762  3333344444554432      22 


Q ss_pred             HHHHhhcCccccccHHHHHHHHHHHhcCCce-eEEEcCCCcccccchHhhHHhhc
Q 036323          259 TIEELEGSAIDLHELNSLLRRIGANIAGQKF-FMVLDNLWTDDYRKWEPFRNCLM  312 (583)
Q Consensus       259 il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~-LlVlDdv~~~~~~~~~~l~~~l~  312 (583)
                       ...+.+.++.-.. .+....|.+.++.++| +|+||||...+......+...+.
T Consensus       633 -vskligsp~gyvG-~e~gg~LteavrrrP~sVVLfdeIEkAh~~v~n~llq~lD  685 (898)
T KOG1051|consen  633 -VSKLIGSPPGYVG-KEEGGQLTEAVKRRPYSVVLFEEIEKAHPDVLNILLQLLD  685 (898)
T ss_pred             -hhhccCCCccccc-chhHHHHHHHHhcCCceEEEEechhhcCHHHHHHHHHHHh
Confidence             3333333322111 1123356666677776 77799997766655555555553

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=96.65  E-value=0.0098  Score=60.58  Aligned_cols=45  Identities=13%  Similarity=0.124  Sum_probs=33.9

Q ss_pred             eeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          182 VRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       182 ~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ++|+...+.++.+.+..-.     ....-|.|+|..|+||+++|+.+++.
T Consensus         1 liG~S~~m~~~~~~~~~~a-----~~~~pVLI~GE~GtGK~~lAr~iH~~   45 (329)
T TIGR02974         1 LIGESNAFLEVLEQVSRLA-----PLDRPVLIIGERGTGKELIAARLHYL   45 (329)
T ss_pred             CCcCCHHHHHHHHHHHHHh-----CCCCCEEEECCCCChHHHHHHHHHHh
Confidence            4677777777777765443     23456789999999999999999864

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

>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=96.64  E-value=0.0057  Score=57.28  Aligned_cols=87  Identities=14%  Similarity=0.078  Sum_probs=50.2

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCC-CCChHHHHHHHHHHhhcCcc---ccccHHHHH-HHHHH
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSD-PFDEFNVAKATIEELEGSAI---DLHELNSLL-RRIGA  282 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~il~~l~~~~~---~~~~~~~~~-~~l~~  282 (583)
                      ++++.++|+.|+||||.+.+++.....+  -..+..++... .....+.++...+.++.+..   ...+...+. +.+.+
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~~~~--~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~~~~~~~~~~~~~~l~~   78 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARLKLK--GKKVALISADTYRIGAVEQLKTYAEILGVPFYVARTESDPAEIAREALEK   78 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHHHHT--T--EEEEEESTSSTHHHHHHHHHHHHHTEEEEESSTTSCHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHHhhc--cccceeecCCCCCccHHHHHHHHHHHhccccchhhcchhhHHHHHHHHHH
Confidence            4689999999999998887776532222  33455566532 33556677777888775522   122223333 33433


Q ss_pred             HhcCCceeEEEcCC
Q 036323          283 NIAGQKFFMVLDNL  296 (583)
Q Consensus       283 ~l~~k~~LlVlDdv  296 (583)
                      .-..+.=++++|-.
T Consensus        79 ~~~~~~D~vlIDT~   92 (196)
T PF00448_consen   79 FRKKGYDLVLIDTA   92 (196)
T ss_dssp             HHHTTSSEEEEEE-
T ss_pred             HhhcCCCEEEEecC
Confidence            32233348888876

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 ....

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=96.62  E-value=0.016  Score=51.43  Aligned_cols=105  Identities=16%  Similarity=0.135  Sum_probs=57.3

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQ  287 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  287 (583)
                      ..+++|+|..|.|||||++.+....   ....+.+|++-..             .+.-.. +.+.-+...-.+...+-.+
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~~---~~~~G~i~~~~~~-------------~i~~~~-~lS~G~~~rv~laral~~~   88 (144)
T cd03221          26 GDRIGLVGRNGAGKSTLLKLIAGEL---EPDEGIVTWGSTV-------------KIGYFE-QLSGGEKMRLALAKLLLEN   88 (144)
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCCC---CCCceEEEECCeE-------------EEEEEc-cCCHHHHHHHHHHHHHhcC
Confidence            4589999999999999999998732   2233444432100             000000 0111122222344555667


Q ss_pred             ceeEEEcCCCc-ccccchHhhHHhhccCCCCceEEEecCchHHHh
Q 036323          288 KFFMVLDNLWT-DDYRKWEPFRNCLMNGLRGSKILITTRKETVAR  331 (583)
Q Consensus       288 ~~LlVlDdv~~-~~~~~~~~l~~~l~~~~~gs~IlvTtR~~~v~~  331 (583)
                      +-++++|+... -|......+...+...  +..||++|.+.....
T Consensus        89 p~illlDEP~~~LD~~~~~~l~~~l~~~--~~til~~th~~~~~~  131 (144)
T cd03221          89 PNLLLLDEPTNHLDLESIEALEEALKEY--PGTVILVSHDRYFLD  131 (144)
T ss_pred             CCEEEEeCCccCCCHHHHHHHHHHHHHc--CCEEEEEECCHHHHH
Confidence            78999999743 2223344454444433  246788887765543

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.

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=96.62  E-value=0.011  Score=60.26  Aligned_cols=59  Identities=17%  Similarity=0.060  Sum_probs=41.6

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCcccc----ccCceEEEEEeCCCCChHHHHHHHHHHhhc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVI----NNFEIRVRVCVSDPFDEFNVAKATIEELEG  265 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~----~~f~~~~wv~~~~~~~~~~~~~~il~~l~~  265 (583)
                      ....++-|+|.+|+|||+|+.+++-.....    ..-..++|++....++...+.+ +++.++.
T Consensus       124 ~~G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~-ia~~~g~  186 (344)
T PLN03187        124 ETRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVP-IAERFGM  186 (344)
T ss_pred             CCCeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHH-HHHHcCC
Confidence            566789999999999999998876322221    1124689999998888777544 4555543

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

Probab=96.61  E-value=0.01  Score=53.87  Aligned_cols=117  Identities=12%  Similarity=0.099  Sum_probs=62.1

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCC--CChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDP--FDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIA  285 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~--~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~  285 (583)
                      ..+++|.|..|+|||||.+.++..   .....+.+++.-..-  .+..+...   ..++-. .+.+.-+...-.+...+-
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~i~G~---~~~~~G~v~~~g~~~~~~~~~~~~~---~~i~~~-~qLS~G~~qrl~laral~   98 (163)
T cd03216          26 GEVHALLGENGAGKSTLMKILSGL---YKPDSGEILVDGKEVSFASPRDARR---AGIAMV-YQLSVGERQMVEIARALA   98 (163)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC---CCCCCeEEEECCEECCcCCHHHHHh---cCeEEE-EecCHHHHHHHHHHHHHh
Confidence            458999999999999999999873   223444555432111  11111111   011100 112222223334555566


Q ss_pred             CCceeEEEcCCCc-ccccchHhhHHhhcc-CCCCceEEEecCchHHHh
Q 036323          286 GQKFFMVLDNLWT-DDYRKWEPFRNCLMN-GLRGSKILITTRKETVAR  331 (583)
Q Consensus       286 ~k~~LlVlDdv~~-~~~~~~~~l~~~l~~-~~~gs~IlvTtR~~~v~~  331 (583)
                      .++-++++|+.-. -|......+...+.. ...|..||++|.+.....
T Consensus        99 ~~p~illlDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~~~~  146 (163)
T cd03216          99 RNARLLILDEPTAALTPAEVERLFKVIRRLRAQGVAVIFISHRLDEVF  146 (163)
T ss_pred             cCCCEEEEECCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHHH
Confidence            7788999999743 222233344444432 233667888888766443

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.

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.60  E-value=0.04  Score=59.53  Aligned_cols=162  Identities=15%  Similarity=0.041  Sum_probs=85.5

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCC--ChHHHHHHHHHHhhcCccccccHHHHHHHHHHHh
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPF--DEFNVAKATIEELEGSAIDLHELNSLLRRIGANI  284 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~--~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l  284 (583)
                      ...-|.|.|..|+|||+||+.+++... +++.-.+..++++.-.  ....+++.                 +.....+.+
T Consensus       430 ~~~~Ill~G~~GsGKT~L~kal~~~~~-k~~~~hv~~v~Cs~l~~~~~e~iQk~-----------------l~~vfse~~  491 (952)
T KOG0735|consen  430 RHGNILLNGPKGSGKTNLVKALFDYYS-KDLIAHVEIVSCSTLDGSSLEKIQKF-----------------LNNVFSEAL  491 (952)
T ss_pred             ccccEEEeCCCCCCHhHHHHHHHHHhc-cccceEEEEEechhccchhHHHHHHH-----------------HHHHHHHHH
Confidence            455788999999999999999998644 4455556666665421  11111111                 122333455


Q ss_pred             cCCceeEEEcCCCc------ccccchHh----hHHhh----c-cCCCCc--eEEEecCchHHHh-hhcC----CCeEEcC
Q 036323          285 AGQKFFMVLDNLWT------DDYRKWEP----FRNCL----M-NGLRGS--KILITTRKETVAR-MMES----TDIVYVQ  342 (583)
Q Consensus       285 ~~k~~LlVlDdv~~------~~~~~~~~----l~~~l----~-~~~~gs--~IlvTtR~~~v~~-~~~~----~~~~~l~  342 (583)
                      .-.+-+|||||++-      .+..+|..    +...+    . ....+.  .+|.|.....-.. .+..    ...+.|.
T Consensus       492 ~~~PSiIvLDdld~l~~~s~~e~~q~~~~~~rla~flnqvi~~y~~~~~~ia~Iat~qe~qtl~~~L~s~~~Fq~~~~L~  571 (952)
T KOG0735|consen  492 WYAPSIIVLDDLDCLASASSNENGQDGVVSERLAAFLNQVIKIYLKRNRKIAVIATGQELQTLNPLLVSPLLFQIVIALP  571 (952)
T ss_pred             hhCCcEEEEcchhhhhccCcccCCcchHHHHHHHHHHHHHHHHHHccCcEEEEEEechhhhhcChhhcCccceEEEEecC
Confidence            67899999999842      11122321    11111    1 122333  3455554432221 1111    3456788


Q ss_pred             CCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCC-Cccchhhh
Q 036323          343 GLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKG-LPLAAKTI  390 (583)
Q Consensus       343 ~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~G-lPLai~~~  390 (583)
                      ++...+-.++++... ....   .....+...-+..+|+| .|.-+.++
T Consensus       572 ap~~~~R~~IL~~~~-s~~~---~~~~~~dLd~ls~~TEGy~~~DL~if  616 (952)
T KOG0735|consen  572 APAVTRRKEILTTIF-SKNL---SDITMDDLDFLSVKTEGYLATDLVIF  616 (952)
T ss_pred             CcchhHHHHHHHHHH-Hhhh---hhhhhHHHHHHHHhcCCccchhHHHH
Confidence            888877777766543 2211   11112233447788876 45555544

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.59  E-value=0.008  Score=62.17  Aligned_cols=24  Identities=29%  Similarity=0.303  Sum_probs=21.3

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...++.|+|++|+||||++..++.
T Consensus       222 ~~~vi~lvGptGvGKTTtaaKLA~  245 (432)
T PRK12724        222 QRKVVFFVGPTGSGKTTSIAKLAA  245 (432)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            357899999999999999988876

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=96.58  E-value=0.0072  Score=60.17  Aligned_cols=88  Identities=15%  Similarity=0.082  Sum_probs=45.4

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCC-ChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPF-DEFNVAKATIEELEGSAIDLHELNSLLRRIGANIA  285 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~  285 (583)
                      ..++++|+|++|+||||++..++........-..+..++..... ...+.+....+.++.......+...+...+... .
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D~~r~~a~eql~~~~~~~~~p~~~~~~~~~l~~~l~~~-~  271 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITTDTYRIGAVEQLKTYAKILGVPVKVARDPKELRKALDRL-R  271 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECCccchhHHHHHHHHHHHhCCceeccCCHHHHHHHHHHc-c
Confidence            46799999999999999998887642222111234455543211 122333333333333322223334444444433 3


Q ss_pred             CCceeEEEcCC
Q 036323          286 GQKFFMVLDNL  296 (583)
Q Consensus       286 ~k~~LlVlDdv  296 (583)
                      + .=+|++|..
T Consensus       272 ~-~d~vliDt~  281 (282)
T TIGR03499       272 D-KDLILIDTA  281 (282)
T ss_pred             C-CCEEEEeCC
Confidence            2 347777753

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=96.56  E-value=0.0091  Score=54.42  Aligned_cols=150  Identities=13%  Similarity=0.151  Sum_probs=74.4

Q ss_pred             EEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcC--Cc
Q 036323          211 ISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAG--QK  288 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~--k~  288 (583)
                      +.|.|.+|+|||++|.++...     ....++++.-...++. ++...|.......+...... +....+.+.+..  +.
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~-----~~~~~~y~at~~~~d~-em~~rI~~H~~~R~~~w~t~-E~~~~l~~~l~~~~~~   74 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAE-----LGGPVTYIATAEAFDD-EMAERIARHRKRRPAHWRTI-ETPRDLVSALKELDPG   74 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHh-----cCCCeEEEEccCcCCH-HHHHHHHHHHHhCCCCceEe-ecHHHHHHHHHhcCCC
Confidence            679999999999999988763     1234556655555543 34444443322222221111 112223333321  34


Q ss_pred             eeEEEcCCCc--cc-----c--------cchHhhHHhhccCCCCceEEEecCchHHHhhhcCCCeEEcCCCChHHHHHHH
Q 036323          289 FFMVLDNLWT--DD-----Y--------RKWEPFRNCLMNGLRGSKILITTRKETVARMMESTDIVYVQGLSELECWSLF  353 (583)
Q Consensus       289 ~LlVlDdv~~--~~-----~--------~~~~~l~~~l~~~~~gs~IlvTtR~~~v~~~~~~~~~~~l~~L~~~ea~~Lf  353 (583)
                      -.+++|.+-.  .+     .        ..+..+...+.  ..+..+|++|..            +-.+..+.+..-..|
T Consensus        75 ~~VLIDclt~~~~n~l~~~~~~~~~~~~~~i~~l~~~l~--~~~~~~viVsnE------------vG~g~vp~~~~~r~f  140 (169)
T cd00544          75 DVVLIDCLTLWVTNLLFADLEEWEAAIADEIDALLAAVR--NKPGTLILVSNE------------VGLGVVPENALGRRF  140 (169)
T ss_pred             CEEEEEcHhHHHHHhCCCccccchhHHHHHHHHHHHHHH--cCCCcEEEEECC------------cCCCCCCCCHHHHHH
Confidence            4799998721  10     0        01111222222  245556666642            113344455555666


Q ss_pred             HHHhccCCCCCCCchHHHHHHHHhhhCCCCccc
Q 036323          354 RRFALSGRTPSECDQLEGIGRGIVRKCKGLPLA  386 (583)
Q Consensus       354 ~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLa  386 (583)
                      ...++.     .+..+...+++++.-..|+|+-
T Consensus       141 ~d~lG~-----lnq~la~~ad~v~~vv~Gip~~  168 (169)
T cd00544         141 RDELGR-----LNQRLAALADEVYLVVSGIPLK  168 (169)
T ss_pred             HHHHHH-----HHHHHHHHCCEEEEEECCccee
Confidence            665531     2223444455555666777764

CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=96.52  E-value=0.0074  Score=61.48  Aligned_cols=134  Identities=12%  Similarity=0.047  Sum_probs=71.7

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKAT  259 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  259 (583)
                      ..++|+...+.++.+.+..-.     ....-|.|+|..|+||+++|+.++......  -...+.+++.... ...+...+
T Consensus         6 ~~liG~S~~~~~~~~~i~~~a-----~~~~pVlI~GE~GtGK~~lA~~iH~~s~r~--~~pfv~v~c~~~~-~~~~~~~l   77 (326)
T PRK11608          6 DNLLGEANSFLEVLEQVSRLA-----PLDKPVLIIGERGTGKELIASRLHYLSSRW--QGPFISLNCAALN-ENLLDSEL   77 (326)
T ss_pred             CccEECCHHHHHHHHHHHHHh-----CCCCCEEEECCCCCcHHHHHHHHHHhCCcc--CCCeEEEeCCCCC-HHHHHHHH
Confidence            358999998988888876543     234467899999999999999998632111  1223344555422 12112222


Q ss_pred             HHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccCC-----------CCceEEEecCc
Q 036323          260 IEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGL-----------RGSKILITTRK  326 (583)
Q Consensus       260 l~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~IlvTtR~  326 (583)
                      +..-........  ......+.   ....=.|+|||+..-.......|...+..+.           ...+||.||..
T Consensus        78 fg~~~~~~~g~~--~~~~g~l~---~a~gGtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~g~~~~~~~~~RiI~~s~~  150 (326)
T PRK11608         78 FGHEAGAFTGAQ--KRHPGRFE---RADGGTLFLDELATAPMLVQEKLLRVIEYGELERVGGSQPLQVNVRLVCATNA  150 (326)
T ss_pred             ccccccccCCcc--cccCCchh---ccCCCeEEeCChhhCCHHHHHHHHHHHhcCcEEeCCCCceeeccEEEEEeCch
Confidence            111000000000  00001111   1233468899997655555666666664321           13678887764

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=96.50  E-value=0.014  Score=59.52  Aligned_cols=58  Identities=16%  Similarity=0.088  Sum_probs=40.8

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCcccc---c-cCceEEEEEeCCCCChHHHHHHHHHHhh
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVI---N-NFEIRVRVCVSDPFDEFNVAKATIEELE  264 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~---~-~f~~~~wv~~~~~~~~~~~~~~il~~l~  264 (583)
                      ....++-|+|.+|+|||+|+..++-.....   + .-..++|++....++...+ .++++.++
T Consensus       121 ~~g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl-~qia~~~~  182 (342)
T PLN03186        121 ETGSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRL-IQIAERFG  182 (342)
T ss_pred             cCceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHH-HHHHHHcC
Confidence            457789999999999999998776432211   1 1136899999988887765 44555554

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=96.50  E-value=0.012  Score=59.50  Aligned_cols=58  Identities=17%  Similarity=0.065  Sum_probs=39.2

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCcccc---c-cCceEEEEEeCCCCChHHHHHHHHHHhh
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVI---N-NFEIRVRVCVSDPFDEFNVAKATIEELE  264 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~---~-~f~~~~wv~~~~~~~~~~~~~~il~~l~  264 (583)
                      ....++.|+|.+|+|||+|+..++......   + .-..++|++....++... +.++.+.++
T Consensus        94 ~~g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~f~~~R-l~~ia~~~~  155 (316)
T TIGR02239        94 ETGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPER-LLAIAERYG  155 (316)
T ss_pred             CCCeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCCCCHHH-HHHHHHHcC
Confidence            457899999999999999998886522111   1 113578999887777665 334444443

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).

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

Probab=96.50  E-value=0.02  Score=53.64  Aligned_cols=107  Identities=19%  Similarity=0.181  Sum_probs=51.0

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHh---
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANI---  284 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l---  284 (583)
                      -+++.|.|.+|+||||++..+......  .-..++++ ...    ......+.+..+..   ...+..........-   
T Consensus        18 ~~~~~l~G~aGtGKT~~l~~~~~~~~~--~g~~v~~~-apT----~~Aa~~L~~~~~~~---a~Ti~~~l~~~~~~~~~~   87 (196)
T PF13604_consen   18 DRVSVLQGPAGTGKTTLLKALAEALEA--AGKRVIGL-APT----NKAAKELREKTGIE---AQTIHSFLYRIPNGDDEG   87 (196)
T ss_dssp             CSEEEEEESTTSTHHHHHHHHHHHHHH--TT--EEEE-ESS----HHHHHHHHHHHTS----EEEHHHHTTEECCEECCS
T ss_pred             CeEEEEEECCCCCHHHHHHHHHHHHHh--CCCeEEEE-CCc----HHHHHHHHHhhCcc---hhhHHHHHhcCCcccccc
Confidence            357889999999999999887763222  21222333 221    12222333333211   111111111000000   


Q ss_pred             ---cCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCc
Q 036323          285 ---AGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRK  326 (583)
Q Consensus       285 ---~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~  326 (583)
                         ..+.-+||+|++.-.+...+..+......  .|+++|+.--.
T Consensus        88 ~~~~~~~~vliVDEasmv~~~~~~~ll~~~~~--~~~klilvGD~  130 (196)
T PF13604_consen   88 RPELPKKDVLIVDEASMVDSRQLARLLRLAKK--SGAKLILVGDP  130 (196)
T ss_dssp             SCC-TSTSEEEESSGGG-BHHHHHHHHHHS-T---T-EEEEEE-T
T ss_pred             cccCCcccEEEEecccccCHHHHHHHHHHHHh--cCCEEEEECCc
Confidence               13346999999966555556555554433  47788776543

>cd01133 F1-ATPase_beta F1 ATP synthase beta subunit, nucleotide-binding domain

Probab=96.47  E-value=0.01  Score=58.00  Aligned_cols=88  Identities=18%  Similarity=0.178  Sum_probs=51.8

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccC-ceEEEEEeCCCCC-hHHHHHHHHHHhhcC-------cccccc-----
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNF-EIRVRVCVSDPFD-EFNVAKATIEELEGS-------AIDLHE-----  272 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f-~~~~wv~~~~~~~-~~~~~~~il~~l~~~-------~~~~~~-----  272 (583)
                      +.+-++|.|.+|+|||||++.+++.  +..+| +.++++-+.+... ..++...+...-...       ..+...     
T Consensus        68 ~GQr~~If~~~G~GKTtLa~~i~~~--i~~~~~~~~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~  145 (274)
T cd01133          68 KGGKIGLFGGAGVGKTVLIMELINN--IAKAHGGYSVFAGVGERTREGNDLYHEMKESGVLSKTALVYGQMNEPPGARAR  145 (274)
T ss_pred             cCCEEEEecCCCCChhHHHHHHHHH--HHhcCCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHH
Confidence            4567889999999999999999984  44445 4455566655443 344444444321110       001100     


Q ss_pred             HHHHHHHHHHHh---cCCceeEEEcCC
Q 036323          273 LNSLLRRIGANI---AGQKFFMVLDNL  296 (583)
Q Consensus       273 ~~~~~~~l~~~l---~~k~~LlVlDdv  296 (583)
                      .....-.+.+++   +++.+||++||+
T Consensus       146 ~~~~a~~~AEyfr~~~g~~Vl~~~Dsl  172 (274)
T cd01133         146 VALTGLTMAEYFRDEEGQDVLLFIDNI  172 (274)
T ss_pred             HHHHHHHHHHHHHHhcCCeEEEEEeCh
Confidence            111222344444   388999999998

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.

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=96.47  E-value=0.016  Score=53.20  Aligned_cols=115  Identities=12%  Similarity=0.154  Sum_probs=60.3

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCc---ccccc---Cc--eEEEEEeCCCCChHHHHHHHHHHhhcCcc-------ccc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDN---DVINN---FE--IRVRVCVSDPFDEFNVAKATIEELEGSAI-------DLH  271 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~---~~~~~---f~--~~~wv~~~~~~~~~~~~~~il~~l~~~~~-------~~~  271 (583)
                      ...+++|+|+.|+|||||.+.+..+.   .+...   |.  .+.|+  .+        .+.+..++....       ..+
T Consensus        20 ~G~~~~l~G~nG~GKSTLl~~il~~~G~v~~~~~~~~~~~~~~~~~--~q--------~~~l~~~~L~~~~~~~~~~~LS   89 (176)
T cd03238          20 LNVLVVVTGVSGSGKSTLVNEGLYASGKARLISFLPKFSRNKLIFI--DQ--------LQFLIDVGLGYLTLGQKLSTLS   89 (176)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhhcCCcEEECCcccccccccEEEE--hH--------HHHHHHcCCCccccCCCcCcCC
Confidence            34589999999999999999886321   11111   10  12222  11        344555543211       111


Q ss_pred             cHHHHHHHHHHHhcCC--ceeEEEcCCCc-ccccchHhhHHhhcc-CCCCceEEEecCchHHHh
Q 036323          272 ELNSLLRRIGANIAGQ--KFFMVLDNLWT-DDYRKWEPFRNCLMN-GLRGSKILITTRKETVAR  331 (583)
Q Consensus       272 ~~~~~~~~l~~~l~~k--~~LlVlDdv~~-~~~~~~~~l~~~l~~-~~~gs~IlvTtR~~~v~~  331 (583)
                      .-+...-.+...+-.+  +-++++|+.-. -+......+...+.. ...|..||++|.+.....
T Consensus        90 gGq~qrl~laral~~~~~p~llLlDEPt~~LD~~~~~~l~~~l~~~~~~g~tvIivSH~~~~~~  153 (176)
T cd03238          90 GGELQRVKLASELFSEPPGTLFILDEPSTGLHQQDINQLLEVIKGLIDLGNTVILIEHNLDVLS  153 (176)
T ss_pred             HHHHHHHHHHHHHhhCCCCCEEEEeCCcccCCHHHHHHHHHHHHHHHhCCCEEEEEeCCHHHHH
Confidence            1122222344455556  77889998733 222233334444432 124677888888876654

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.

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=96.47  E-value=0.027  Score=53.36  Aligned_cols=60  Identities=15%  Similarity=0.142  Sum_probs=37.2

Q ss_pred             HHHHHHHHHHhcCCceeEEEcCCCc-ccccchHhhHHhhcc--CCCCceEEEecCchHHHhhh
Q 036323          274 NSLLRRIGANIAGQKFFMVLDNLWT-DDYRKWEPFRNCLMN--GLRGSKILITTRKETVARMM  333 (583)
Q Consensus       274 ~~~~~~l~~~l~~k~~LlVlDdv~~-~~~~~~~~l~~~l~~--~~~gs~IlvTtR~~~v~~~~  333 (583)
                      +.-.-.+.+.|-..+-+|+-|+--. -|...-+.+...+..  ...|..||+.|-++.++..+
T Consensus       147 qqQRVAIARAL~~~P~iilADEPTgnLD~~t~~~V~~ll~~~~~~~g~tii~VTHd~~lA~~~  209 (226)
T COG1136         147 QQQRVAIARALINNPKIILADEPTGNLDSKTAKEVLELLRELNKERGKTIIMVTHDPELAKYA  209 (226)
T ss_pred             HHHHHHHHHHHhcCCCeEEeeCccccCChHHHHHHHHHHHHHHHhcCCEEEEEcCCHHHHHhC
Confidence            3334456667778888999997521 122222334444433  24577899999999998854

>COG4618 ArpD ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]

Probab=96.46  E-value=0.022  Score=59.29  Aligned_cols=23  Identities=35%  Similarity=0.575  Sum_probs=20.2

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...++|+|++|+||||||+.+.-
T Consensus       362 G~~lgIIGPSgSGKSTLaR~lvG  384 (580)
T COG4618         362 GEALGIIGPSGSGKSTLARLLVG  384 (580)
T ss_pred             CceEEEECCCCccHHHHHHHHHc
Confidence            45899999999999999998854

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=96.45  E-value=0.032  Score=50.81  Aligned_cols=115  Identities=12%  Similarity=-0.008  Sum_probs=59.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEE-------EeCCCCCh--HHHHHHHHHHhhcCccccccHHHHHH
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRV-------CVSDPFDE--FNVAKATIEELEGSAIDLHELNSLLR  278 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv-------~~~~~~~~--~~~~~~il~~l~~~~~~~~~~~~~~~  278 (583)
                      ..+++|+|..|.|||||++.+..-...   ..+.+++       .+.+....  ..+...+.-.   .....+.-+...-
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~G~~~~---~~G~i~~~~~~~i~~~~q~~~~~~~tv~~nl~~~---~~~~LS~G~~~rv  100 (166)
T cd03223          27 GDRLLITGPSGTGKSSLFRALAGLWPW---GSGRIGMPEGEDLLFLPQRPYLPLGTLREQLIYP---WDDVLSGGEQQRL  100 (166)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCCC---CCceEEECCCceEEEECCCCccccccHHHHhhcc---CCCCCCHHHHHHH
Confidence            458999999999999999999874211   1121111       12222211  1222222110   1112222233333


Q ss_pred             HHHHHhcCCceeEEEcCCCc-ccccchHhhHHhhccCCCCceEEEecCchHHH
Q 036323          279 RIGANIAGQKFFMVLDNLWT-DDYRKWEPFRNCLMNGLRGSKILITTRKETVA  330 (583)
Q Consensus       279 ~l~~~l~~k~~LlVlDdv~~-~~~~~~~~l~~~l~~~~~gs~IlvTtR~~~v~  330 (583)
                      .+...+-.++=++++|+--. -|......+...+...  +..||++|.+....
T Consensus       101 ~laral~~~p~~lllDEPt~~LD~~~~~~l~~~l~~~--~~tiiivsh~~~~~  151 (166)
T cd03223         101 AFARLLLHKPKFVFLDEATSALDEESEDRLYQLLKEL--GITVISVGHRPSLW  151 (166)
T ss_pred             HHHHHHHcCCCEEEEECCccccCHHHHHHHHHHHHHh--CCEEEEEeCChhHH
Confidence            45555667788999998633 1222333344444332  35688888776554

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

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.43  E-value=0.035  Score=57.46  Aligned_cols=90  Identities=11%  Similarity=0.078  Sum_probs=51.2

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCcccc--ccCceEEEEEeCCC-CChHHHHHHHHHHhhcCccccccHHHHHHHHHHH
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVI--NNFEIRVRVCVSDP-FDEFNVAKATIEELEGSAIDLHELNSLLRRIGAN  283 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~--~~f~~~~wv~~~~~-~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~  283 (583)
                      ..++|.++|+.|+||||.+..++......  .+-..+..+++... ....+.+....+.++.+.....+...+...+...
T Consensus       173 ~~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~~~~~~~~l~~~L~~~  252 (388)
T PRK12723        173 KKRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPVKAIESFKDLKEEITQS  252 (388)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcceEeeCcHHHHHHHHHHh
Confidence            46799999999999999998887632211  11123444444321 1223335555555554433333445555555443


Q ss_pred             hcCCceeEEEcCCCc
Q 036323          284 IAGQKFFMVLDNLWT  298 (583)
Q Consensus       284 l~~k~~LlVlDdv~~  298 (583)
                        .+.-++++|.+-.
T Consensus       253 --~~~DlVLIDTaGr  265 (388)
T PRK12723        253 --KDFDLVLVDTIGK  265 (388)
T ss_pred             --CCCCEEEEcCCCC
Confidence              3456899999843

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

Probab=96.43  E-value=0.023  Score=52.25  Aligned_cols=103  Identities=17%  Similarity=0.074  Sum_probs=55.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEE------eCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHH
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVC------VSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIG  281 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~------~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~  281 (583)
                      ..+++|+|..|+|||||.+.+..-.   ....+.+++.      +.+...                  .+.-+...-.+.
T Consensus        25 Ge~~~l~G~nGsGKSTLl~~l~Gl~---~p~~G~i~~~g~~i~~~~q~~~------------------LSgGq~qrv~la   83 (177)
T cd03222          25 GEVIGIVGPNGTGKTTAVKILAGQL---IPNGDNDEWDGITPVYKPQYID------------------LSGGELQRVAIA   83 (177)
T ss_pred             CCEEEEECCCCChHHHHHHHHHcCC---CCCCcEEEECCEEEEEEcccCC------------------CCHHHHHHHHHH
Confidence            4599999999999999999988632   1222222221      111111                  111122223344


Q ss_pred             HHhcCCceeEEEcCCCcc-cccchHhhHHhhccC-CC-CceEEEecCchHHHh
Q 036323          282 ANIAGQKFFMVLDNLWTD-DYRKWEPFRNCLMNG-LR-GSKILITTRKETVAR  331 (583)
Q Consensus       282 ~~l~~k~~LlVlDdv~~~-~~~~~~~l~~~l~~~-~~-gs~IlvTtR~~~v~~  331 (583)
                      ..+..++-++++|+.-.. |......+...+... .. +..||++|.+.....
T Consensus        84 ral~~~p~lllLDEPts~LD~~~~~~l~~~l~~~~~~~~~tiiivsH~~~~~~  136 (177)
T cd03222          84 AALLRNATFYLFDEPSAYLDIEQRLNAARAIRRLSEEGKKTALVVEHDLAVLD  136 (177)
T ss_pred             HHHhcCCCEEEEECCcccCCHHHHHHHHHHHHHHHHcCCCEEEEEECCHHHHH
Confidence            555667889999987431 222233333444321 12 356777777765544

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.

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

Probab=96.42  E-value=0.023  Score=59.30  Aligned_cols=55  Identities=27%  Similarity=0.347  Sum_probs=38.6

Q ss_pred             Cceeech---hHHHHHHHHhhcCCC--CCCCCceEEEEEEecCCchHHHHHHHHHcCccc
Q 036323          180 SEVRGRD---EEMRSIKSMLLCQGS--DQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDV  234 (583)
Q Consensus       180 ~~~vGR~---~e~~~l~~~L~~~~~--~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~  234 (583)
                      .++-|-|   .|+++|++.|..+..  .-+..-++-|.++|++|.|||-||+.++....+
T Consensus       304 ~dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~V  363 (752)
T KOG0734|consen  304 EDVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAGV  363 (752)
T ss_pred             ccccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccCC
Confidence            3455655   577888888865531  001234567889999999999999999985443

>cd01131 PilT Pilus retraction ATPase PilT

Probab=96.41  E-value=0.0064  Score=57.20  Aligned_cols=111  Identities=14%  Similarity=0.147  Sum_probs=57.1

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQK  288 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~  288 (583)
                      .++.|+|+.|+||||++..+...  ...+....++. +.++...  ........+.... -..+.....+.++..+...+
T Consensus         2 GlilI~GptGSGKTTll~~ll~~--~~~~~~~~i~t-~e~~~E~--~~~~~~~~i~q~~-vg~~~~~~~~~i~~aLr~~p   75 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDY--INKNKTHHILT-IEDPIEF--VHESKRSLINQRE-VGLDTLSFENALKAALRQDP   75 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH--hhhcCCcEEEE-EcCCccc--cccCccceeeecc-cCCCccCHHHHHHHHhcCCc
Confidence            47899999999999999887763  22222333332 2221110  0000000000000 01112234556677777778


Q ss_pred             eeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCchHHH
Q 036323          289 FFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKETVA  330 (583)
Q Consensus       289 ~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~~v~  330 (583)
                      =++++|.+-  +.+....+..   ....|..++.|+-...+.
T Consensus        76 d~ii~gEir--d~e~~~~~l~---~a~~G~~v~~t~Ha~~~~  112 (198)
T cd01131          76 DVILVGEMR--DLETIRLALT---AAETGHLVMSTLHTNSAA  112 (198)
T ss_pred             CEEEEcCCC--CHHHHHHHHH---HHHcCCEEEEEecCCcHH
Confidence            899999994  3333333222   223466677777655444

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.

>PRK08233 hypothetical protein; Provisional

Probab=96.39  E-value=0.0092  Score=55.12  Aligned_cols=24  Identities=33%  Similarity=0.497  Sum_probs=21.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+|+|.|.+|+||||||..+...
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~   26 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHK   26 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhh
Confidence            478999999999999999999874

>PTZ00035 Rad51 protein; Provisional

Probab=96.38  E-value=0.024  Score=57.82  Aligned_cols=58  Identities=16%  Similarity=0.070  Sum_probs=38.9

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCcccc---c-cCceEEEEEeCCCCChHHHHHHHHHHhh
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVI---N-NFEIRVRVCVSDPFDEFNVAKATIEELE  264 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~---~-~f~~~~wv~~~~~~~~~~~~~~il~~l~  264 (583)
                      ....++.|+|.+|+|||+|+..++-.....   . .-..++|++....++... +.++.+.++
T Consensus       116 ~~G~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~~f~~er-i~~ia~~~g  177 (337)
T PTZ00035        116 ETGSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPER-IVQIAERFG  177 (337)
T ss_pred             CCCeEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEccCCCCHHH-HHHHHHHhC
Confidence            567899999999999999998886432211   1 123567998877766665 334444443

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=96.38  E-value=0.013  Score=66.12  Aligned_cols=132  Identities=16%  Similarity=0.148  Sum_probs=72.9

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKAT  259 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  259 (583)
                      ..++|+...+..+.+.+..-.     ....-|.|+|..|+|||++|+.+++.....  -...+.+++.... . ..+.. 
T Consensus       376 ~~liG~S~~~~~~~~~~~~~a-----~~~~pVLI~GE~GTGK~~lA~~ih~~s~r~--~~~~v~i~c~~~~-~-~~~~~-  445 (686)
T PRK15429        376 GEIIGRSEAMYSVLKQVEMVA-----QSDSTVLILGETGTGKELIARAIHNLSGRN--NRRMVKMNCAAMP-A-GLLES-  445 (686)
T ss_pred             cceeecCHHHHHHHHHHHHHh-----CCCCCEEEECCCCcCHHHHHHHHHHhcCCC--CCCeEEEecccCC-h-hHhhh-
Confidence            468999998888877765432     234468899999999999999998743211  1233444544321 1 11111 


Q ss_pred             HHHhhcCcccc--ccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccCC-----------CCceEEEecCc
Q 036323          260 IEELEGSAIDL--HELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGL-----------RGSKILITTRK  326 (583)
Q Consensus       260 l~~l~~~~~~~--~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~IlvTtR~  326 (583)
                        .+.+.....  .........+.   ....=.|+|||+..-.......|...+....           .+.+||.||..
T Consensus       446 --~lfg~~~~~~~g~~~~~~g~le---~a~~GtL~Ldei~~L~~~~Q~~L~~~l~~~~~~~~g~~~~~~~~~RiI~~t~~  520 (686)
T PRK15429        446 --DLFGHERGAFTGASAQRIGRFE---LADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKIIQTDVRLIAATNR  520 (686)
T ss_pred             --hhcCcccccccccccchhhHHH---hcCCCeEEEechhhCCHHHHHHHHHHHHhCCEEeCCCCCcccceEEEEEeCCC
Confidence              122211100  00000111111   1234579999997655555666666663321           34588888764

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

Probab=96.36  E-value=0.039  Score=51.30  Aligned_cols=58  Identities=17%  Similarity=0.149  Sum_probs=34.9

Q ss_pred             HHHHHHHHhcCCceeEEEcCCCcc-cccchHhhHHhhcc-CCCCceEEEecCchHHHhhh
Q 036323          276 LLRRIGANIAGQKFFMVLDNLWTD-DYRKWEPFRNCLMN-GLRGSKILITTRKETVARMM  333 (583)
Q Consensus       276 ~~~~l~~~l~~k~~LlVlDdv~~~-~~~~~~~l~~~l~~-~~~gs~IlvTtR~~~v~~~~  333 (583)
                      -.-.+.+.|.-++=++.||..-+. |++....+...+.. ...|-..|+.|-.-..|..+
T Consensus       143 QRVAIARALaM~P~vmLFDEPTSALDPElv~EVL~vm~~LA~eGmTMivVTHEM~FAr~V  202 (240)
T COG1126         143 QRVAIARALAMDPKVMLFDEPTSALDPELVGEVLDVMKDLAEEGMTMIIVTHEMGFAREV  202 (240)
T ss_pred             HHHHHHHHHcCCCCEEeecCCcccCCHHHHHHHHHHHHHHHHcCCeEEEEechhHHHHHh
Confidence            333566667778889999998542 23333334333332 34577777778776666654

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

Probab=96.34  E-value=0.025  Score=57.76  Aligned_cols=105  Identities=19%  Similarity=0.160  Sum_probs=57.1

Q ss_pred             ceEEEEEEecCCchHH-HHHHHHHcCccccccCceEEEEEeCC-CCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHh
Q 036323          207 TVQIISMVGMGGIGKT-TLAQLAYNDNDVINNFEIRVRVCVSD-PFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANI  284 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKT-tLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l  284 (583)
                      +.++|.++|+.|+||| |||+..+......++ ..+..++... .....+-++...+-++.+-.-..+..++...+... 
T Consensus       202 ~~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~-~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~vv~~~~el~~ai~~l-  279 (407)
T COG1419         202 QKRVIALVGPTGVGKTTTLAKLAARYVMLKKK-KKVAIITTDTYRIGAVEQLKTYADIMGVPLEVVYSPKELAEAIEAL-  279 (407)
T ss_pred             cCcEEEEECCCCCcHHHHHHHHHHHHHhhccC-cceEEEEeccchhhHHHHHHHHHHHhCCceEEecCHHHHHHHHHHh-
Confidence            4789999999999999 566655543211222 2344555433 22445556666666666644444555555554433 


Q ss_pred             cCCceeEEEcCCCcc--cccchHhhHHhhccC
Q 036323          285 AGQKFFMVLDNLWTD--DYRKWEPFRNCLMNG  314 (583)
Q Consensus       285 ~~k~~LlVlDdv~~~--~~~~~~~l~~~l~~~  314 (583)
                      ++. =+|.+|-+-..  |......+...+...
T Consensus       280 ~~~-d~ILVDTaGrs~~D~~~i~el~~~~~~~  310 (407)
T COG1419         280 RDC-DVILVDTAGRSQYDKEKIEELKELIDVS  310 (407)
T ss_pred             hcC-CEEEEeCCCCCccCHHHHHHHHHHHhcc
Confidence            333 46667776432  222344455555443

>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity

Probab=96.34  E-value=0.013  Score=53.81  Aligned_cols=118  Identities=18%  Similarity=0.132  Sum_probs=59.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhh---cCc---cc--------cccH
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELE---GSA---ID--------LHEL  273 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~---~~~---~~--------~~~~  273 (583)
                      ..+++|+|..|.|||||.+.++...   ....+.++++-.......   ..+...+.   ...   ..        .+.-
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~~---~~~~G~i~~~g~~~~~~~---~~~~~~i~~~~q~~~~~~~~tv~~~~~LS~G   99 (173)
T cd03230          26 GEIYGLLGPNGAGKTTLIKIILGLL---KPDSGEIKVLGKDIKKEP---EEVKRRIGYLPEEPSLYENLTVRENLKLSGG   99 (173)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCC---CCCCeEEEECCEEcccch---HhhhccEEEEecCCccccCCcHHHHhhcCHH
Confidence            4589999999999999999998732   122333433211000000   00000010   000   00        1111


Q ss_pred             HHHHHHHHHHhcCCceeEEEcCCCc-ccccchHhhHHhhccC-CCCceEEEecCchHHHh
Q 036323          274 NSLLRRIGANIAGQKFFMVLDNLWT-DDYRKWEPFRNCLMNG-LRGSKILITTRKETVAR  331 (583)
Q Consensus       274 ~~~~~~l~~~l~~k~~LlVlDdv~~-~~~~~~~~l~~~l~~~-~~gs~IlvTtR~~~v~~  331 (583)
                      +...-.+...+..++=++++|+.-. -|......+...+... ..|..||++|.+.....
T Consensus       100 ~~qrv~laral~~~p~illlDEPt~~LD~~~~~~l~~~l~~~~~~g~tiii~th~~~~~~  159 (173)
T cd03230         100 MKQRLALAQALLHDPELLILDEPTSGLDPESRREFWELLRELKKEGKTILLSSHILEEAE  159 (173)
T ss_pred             HHHHHHHHHHHHcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHCCCEEEEECCCHHHHH
Confidence            1222245556667888999999743 1222233344444321 23677888888876554

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.

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.31  E-value=0.012  Score=60.51  Aligned_cols=88  Identities=10%  Similarity=0.082  Sum_probs=49.2

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCC-CCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSD-PFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAG  286 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~  286 (583)
                      ..++.++|+.|+||||++..+............+..++... .....+.+....+.++.......+..++...+.+ +.+
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l~~~l~~-l~~  215 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVHAVKDGGDLQLALAE-LRN  215 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceEecCCcccHHHHHHH-hcC
Confidence            46899999999999999988876321111123344554322 2234455555555555443222222333333333 344


Q ss_pred             CceeEEEcCCC
Q 036323          287 QKFFMVLDNLW  297 (583)
Q Consensus       287 k~~LlVlDdv~  297 (583)
                      + -++++|..-
T Consensus       216 ~-DlVLIDTaG  225 (374)
T PRK14722        216 K-HMVLIDTIG  225 (374)
T ss_pred             C-CEEEEcCCC
Confidence            4 566799884

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=96.31  E-value=0.029  Score=56.85  Aligned_cols=57  Identities=18%  Similarity=0.113  Sum_probs=39.9

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccc----cCceEEEEEeCCCCChHHHHHHHHHHh
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVIN----NFEIRVRVCVSDPFDEFNVAKATIEEL  263 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~----~f~~~~wv~~~~~~~~~~~~~~il~~l  263 (583)
                      ....++-|+|.+|+|||+|+.+++.......    .-..++|++....++...+. ++++.+
T Consensus        93 ~~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~-~~~~~~  153 (310)
T TIGR02236        93 ETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIM-QMAEAR  153 (310)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHH-HHHHHc
Confidence            4578999999999999999988875422211    11268999998887776544 344443

This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=96.31  E-value=0.017  Score=53.06  Aligned_cols=117  Identities=17%  Similarity=0.182  Sum_probs=58.6

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCC--CCChHHHHHHHHHHhhc--Cccc----------cccH
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSD--PFDEFNVAKATIEELEG--SAID----------LHEL  273 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~--~~~~~~~~~~il~~l~~--~~~~----------~~~~  273 (583)
                      ..+++|+|..|+|||||.+.++.-.   ....+.++++-..  .......    ...+.-  +...          .+.-
T Consensus        28 Ge~~~i~G~nGsGKStLl~~l~G~~---~~~~G~i~~~g~~~~~~~~~~~----~~~i~~~~q~~~~~~~tv~~~lLS~G  100 (173)
T cd03246          28 GESLAIIGPSGSGKSTLARLILGLL---RPTSGRVRLDGADISQWDPNEL----GDHVGYLPQDDELFSGSIAENILSGG  100 (173)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcc---CCCCCeEEECCEEcccCCHHHH----HhheEEECCCCccccCcHHHHCcCHH
Confidence            4589999999999999999998631   2222333322110  0011111    111110  0000          1111


Q ss_pred             HHHHHHHHHHhcCCceeEEEcCCCc-ccccchHhhHHhhcc-CCCCceEEEecCchHHHh
Q 036323          274 NSLLRRIGANIAGQKFFMVLDNLWT-DDYRKWEPFRNCLMN-GLRGSKILITTRKETVAR  331 (583)
Q Consensus       274 ~~~~~~l~~~l~~k~~LlVlDdv~~-~~~~~~~~l~~~l~~-~~~gs~IlvTtR~~~v~~  331 (583)
                      +...-.+...+-.++-++++|+... -|......+...+.. ...|..||++|.+.....
T Consensus       101 ~~qrv~la~al~~~p~~lllDEPt~~LD~~~~~~l~~~l~~~~~~~~tii~~sh~~~~~~  160 (173)
T cd03246         101 QRQRLGLARALYGNPRILVLDEPNSHLDVEGERALNQAIAALKAAGATRIVIAHRPETLA  160 (173)
T ss_pred             HHHHHHHHHHHhcCCCEEEEECCccccCHHHHHHHHHHHHHHHhCCCEEEEEeCCHHHHH
Confidence            1222234445566777999999743 222223334444432 123667888888776554

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

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=96.27  E-value=0.014  Score=59.71  Aligned_cols=109  Identities=18%  Similarity=0.162  Sum_probs=63.3

Q ss_pred             ceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHH
Q 036323          181 EVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATI  260 (583)
Q Consensus       181 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il  260 (583)
                      .++|+++.+..+...+....         -+.+.|.+|+|||+||+.+...  ..   ....++.+.......++.....
T Consensus        25 ~~~g~~~~~~~~l~a~~~~~---------~vll~G~PG~gKT~la~~lA~~--l~---~~~~~i~~t~~l~p~d~~G~~~   90 (329)
T COG0714          25 VVVGDEEVIELALLALLAGG---------HVLLEGPPGVGKTLLARALARA--LG---LPFVRIQCTPDLLPSDLLGTYA   90 (329)
T ss_pred             eeeccHHHHHHHHHHHHcCC---------CEEEECCCCccHHHHHHHHHHH--hC---CCeEEEecCCCCCHHHhcCchh
Confidence            37888888888877776543         6789999999999999999873  22   2334556666555554433222


Q ss_pred             HHhh---cCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhh
Q 036323          261 EELE---GSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCL  311 (583)
Q Consensus       261 ~~l~---~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l  311 (583)
                      -...   .......+ .-+       ..+-+.++++|.++...+.....+...+
T Consensus        91 ~~~~~~~~~~~~~~~-gpl-------~~~~~~ill~DEInra~p~~q~aLl~~l  136 (329)
T COG0714          91 YAALLLEPGEFRFVP-GPL-------FAAVRVILLLDEINRAPPEVQNALLEAL  136 (329)
T ss_pred             HhhhhccCCeEEEec-CCc-------ccccceEEEEeccccCCHHHHHHHHHHH
Confidence            1111   00000000 000       0011159999999876655555555554

>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=96.27  E-value=0.092  Score=52.97  Aligned_cols=49  Identities=27%  Similarity=0.167  Sum_probs=34.1

Q ss_pred             eEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccch
Q 036323          338 IVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAA  387 (583)
Q Consensus       338 ~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai  387 (583)
                      ++++++++.+|+..++..+.-.+.... ....+...+++.-..+|+|.-+
T Consensus       258 ~i~v~~~s~~E~~~ll~yy~~~~~l~~-~~~~~~~~e~~~~~s~GNp~el  306 (309)
T PF10236_consen  258 PIEVPRLSKEEARSLLEYYADSGWLRS-RVDEELVLEKLFLSSNGNPREL  306 (309)
T ss_pred             eEEeCCCCHHHHHHHHHHHHHCCcccc-CCCCHHHHHHHHHhcCCCHHHh
Confidence            789999999999999998764433221 1222445666777779998643

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of conserved proteins which were originally described as death-associated-protein-3 (DAP-3). The proteins carry a P-loop DNA-binding motif, and induce apoptosis []. DAP3 has been shown to be a pro-apoptotic factor in the mitochondrial matrix [] and to be crucial for mitochondrial biogenesis and so has also been designated as MRP-S29 (mitochondrial ribosomal protein subunit 29).

>PRK07667 uridine kinase; Provisional

Probab=96.27  E-value=0.0054  Score=57.45  Aligned_cols=38  Identities=16%  Similarity=0.231  Sum_probs=29.6

Q ss_pred             HHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          189 MRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       189 ~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .+.|.+.+....     +...+|+|.|.+|+||||+|+.+...
T Consensus         3 ~~~~~~~~~~~~-----~~~~iIgI~G~~gsGKStla~~L~~~   40 (193)
T PRK07667          3 TNELINIMKKHK-----ENRFILGIDGLSRSGKTTFVANLKEN   40 (193)
T ss_pred             HHHHHHHHHhcC-----CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            456666665443     45689999999999999999998773

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=96.26  E-value=0.0042  Score=66.22  Aligned_cols=49  Identities=27%  Similarity=0.330  Sum_probs=39.1

Q ss_pred             ceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHc
Q 036323          181 EVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       181 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      +++|.++.+++|++.|.... .+-....+++.++|++|+||||||+.+.+
T Consensus        77 d~yGlee~ieriv~~l~~Aa-~gl~~~~~IL~LvGPpG~GKSsLa~~la~  125 (644)
T PRK15455         77 EFYGMEEAIEQIVSYFRHAA-QGLEEKKQILYLLGPVGGGKSSLAERLKS  125 (644)
T ss_pred             cccCcHHHHHHHHHHHHHHH-HhcCCCCceEEEecCCCCCchHHHHHHHH
Confidence            58999999999999993221 01124567999999999999999999876

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=96.25  E-value=0.022  Score=61.28  Aligned_cols=60  Identities=20%  Similarity=0.297  Sum_probs=42.6

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEE
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVC  245 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~  245 (583)
                      .+++--.+-++++..||...-  .+....+++.+.|++|+||||.++.+++..    .|+..=|.+
T Consensus        19 ~eLavhkkKv~eV~~wl~~~~--~~~~~~~iLlLtGP~G~GKtttv~~La~el----g~~v~Ew~n   78 (519)
T PF03215_consen   19 DELAVHKKKVEEVRSWLEEMF--SGSSPKRILLLTGPSGCGKTTTVKVLAKEL----GFEVQEWIN   78 (519)
T ss_pred             HHhhccHHHHHHHHHHHHHHh--ccCCCcceEEEECCCCCCHHHHHHHHHHHh----CCeeEEecC
Confidence            345555667888999987532  122346699999999999999999998742    355555654

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=96.25  E-value=0.14  Score=51.29  Aligned_cols=134  Identities=9%  Similarity=0.025  Sum_probs=78.0

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCc--------cccccCceEEEEEe-CCCCChHHHHHHHHHHhhcCccccccHHHHH
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDN--------DVINNFEIRVRVCV-SDPFDEFNVAKATIEELEGSAIDLHELNSLL  277 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~--------~~~~~f~~~~wv~~-~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~  277 (583)
                      -.++..++|..|.||+++|..+.+..        ....|-+...+++. .......++ +++.+.+...+          
T Consensus        17 l~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d~~g~~i~vd~I-r~l~~~~~~~~----------   85 (299)
T PRK07132         17 ISHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDIFDKDLSKSEF-LSAINKLYFSS----------   85 (299)
T ss_pred             CCeEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEeccCCCcCCHHHH-HHHHHHhccCC----------
Confidence            45677899999999999998876531        01111112223321 111111111 12222221110          


Q ss_pred             HHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCc-hHHHhh-hcCCCeEEcCCCChHHHHHHHHH
Q 036323          278 RRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRK-ETVARM-MESTDIVYVQGLSELECWSLFRR  355 (583)
Q Consensus       278 ~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~-~~v~~~-~~~~~~~~l~~L~~~ea~~Lf~~  355 (583)
                           .-.+.+=++|+|++...+....+.|...+...+.++.+|++|.+ ..+... ......+++.+++.++....+..
T Consensus        86 -----~~~~~~KvvII~~~e~m~~~a~NaLLK~LEEPp~~t~~il~~~~~~kll~TI~SRc~~~~f~~l~~~~l~~~l~~  160 (299)
T PRK07132         86 -----FVQSQKKILIIKNIEKTSNSLLNALLKTIEEPPKDTYFLLTTKNINKVLPTIVSRCQVFNVKEPDQQKILAKLLS  160 (299)
T ss_pred             -----cccCCceEEEEecccccCHHHHHHHHHHhhCCCCCeEEEEEeCChHhChHHHHhCeEEEECCCCCHHHHHHHHHH
Confidence                 00146778999998665555677788888776677777765544 344433 23377899999999998877765


Q ss_pred             H
Q 036323          356 F  356 (583)
Q Consensus       356 ~  356 (583)
                      .
T Consensus       161 ~  161 (299)
T PRK07132        161 K  161 (299)
T ss_pred             c
Confidence            3

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=96.24  E-value=0.023  Score=59.73  Aligned_cols=87  Identities=16%  Similarity=0.100  Sum_probs=45.5

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCC-CCChHHHHHHHHHHhhcCccc---cccHHHHHHHHHH
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSD-PFDEFNVAKATIEELEGSAID---LHELNSLLRRIGA  282 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~il~~l~~~~~~---~~~~~~~~~~l~~  282 (583)
                      .+.+|.++|.+|+||||++..++..... ..+ .+.-+++.. .....+.+..+...++.+...   ..+.........+
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L~~-~g~-kV~lV~~D~~R~aa~eQL~~la~~~gvp~~~~~~~~d~~~i~~~al~  171 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYFKK-KGL-KVGLVAADTYRPAAYDQLKQLAEKIGVPFYGDPDNKDAVEIAKEGLE  171 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHH-cCC-eEEEecCCCCCHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHHH
Confidence            4679999999999999999888764322 223 233333322 112344455555555433111   1222222222222


Q ss_pred             HhcCCceeEEEcCC
Q 036323          283 NIAGQKFFMVLDNL  296 (583)
Q Consensus       283 ~l~~k~~LlVlDdv  296 (583)
                      .+.+. -++|+|..
T Consensus       172 ~~~~~-DvVIIDTA  184 (437)
T PRK00771        172 KFKKA-DVIIVDTA  184 (437)
T ss_pred             HhhcC-CEEEEECC
Confidence            22333 56777776

>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]

Probab=96.21  E-value=0.022  Score=55.94  Aligned_cols=89  Identities=16%  Similarity=0.089  Sum_probs=57.9

Q ss_pred             CCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHH-hhc---C-ccccccHHHHHHH
Q 036323          205 TNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEE-LEG---S-AIDLHELNSLLRR  279 (583)
Q Consensus       205 ~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~-l~~---~-~~~~~~~~~~~~~  279 (583)
                      -+..+++=|+|+.|+||||||.+++-.  .+..-..++|++..+.+++..+.. +... +..   . +.....-..+...
T Consensus        57 l~~g~ItEiyG~~gsGKT~lal~~~~~--aq~~g~~a~fIDtE~~l~p~r~~~-l~~~~~d~l~v~~~~~~e~q~~i~~~  133 (279)
T COG0468          57 LPRGRITEIYGPESSGKTTLALQLVAN--AQKPGGKAAFIDTEHALDPERAKQ-LGVDLLDNLLVSQPDTGEQQLEIAEK  133 (279)
T ss_pred             cccceEEEEecCCCcchhhHHHHHHHH--hhcCCCeEEEEeCCCCCCHHHHHH-HHHhhhcceeEecCCCHHHHHHHHHH
Confidence            367889999999999999999887653  333444789999999888775433 3333 221   1 1222223334444


Q ss_pred             HHHHhcCCceeEEEcCC
Q 036323          280 IGANIAGQKFFMVLDNL  296 (583)
Q Consensus       280 l~~~l~~k~~LlVlDdv  296 (583)
                      +......+--|+|+|.+
T Consensus       134 ~~~~~~~~i~LvVVDSv  150 (279)
T COG0468         134 LARSGAEKIDLLVVDSV  150 (279)
T ss_pred             HHHhccCCCCEEEEecC
Confidence            44444444669999998

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.21  E-value=0.031  Score=58.88  Aligned_cols=87  Identities=11%  Similarity=0.077  Sum_probs=45.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCC-ChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPF-DEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAG  286 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~  286 (583)
                      .+++.++|++|+||||++..++........-..+..++....- ...+.+....+.++.+.....+...+...+... . 
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~~r~~a~eqL~~~a~~~~vp~~~~~~~~~l~~~l~~~-~-  298 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDTYRIGAVEQLKTYAKIMGIPVEVVYDPKELAKALEQL-R-  298 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCccHHHHHHHHHHHHHHhCCceEccCCHHhHHHHHHHh-C-
Confidence            4699999999999999988776532201222345555543211 111223333333333322223334455555432 2 


Q ss_pred             CceeEEEcCC
Q 036323          287 QKFFMVLDNL  296 (583)
Q Consensus       287 k~~LlVlDdv  296 (583)
                      ..=+|++|..
T Consensus       299 ~~DlVlIDt~  308 (424)
T PRK05703        299 DCDVILIDTA  308 (424)
T ss_pred             CCCEEEEeCC
Confidence            3468899976

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

Probab=96.21  E-value=0.019  Score=53.21  Aligned_cols=37  Identities=24%  Similarity=0.143  Sum_probs=26.1

Q ss_pred             EEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCC
Q 036323          210 IISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSD  248 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~  248 (583)
                      ++.|.|.+|+|||+|+.++.....  ..=..++|++...
T Consensus         1 ~~li~G~~G~GKT~l~~~~~~~~~--~~g~~v~~~s~e~   37 (187)
T cd01124           1 STLLSGGPGTGKTTFALQFLYAGL--ARGEPGLYVTLEE   37 (187)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHH--HCCCcEEEEECCC
Confidence            367999999999999988766321  2224467777654

A related protein is found in archaea.

>PRK05439 pantothenate kinase; Provisional

Probab=96.20  E-value=0.021  Score=57.08  Aligned_cols=26  Identities=31%  Similarity=0.387  Sum_probs=23.0

Q ss_pred             CCceEEEEEEecCCchHHHHHHHHHc
Q 036323          205 TNTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       205 ~~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .+.+-+|+|.|.+|+||||+|+.+..
T Consensus        83 ~~~~~iIgIaG~~gsGKSTla~~L~~  108 (311)
T PRK05439         83 QKVPFIIGIAGSVAVGKSTTARLLQA  108 (311)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            35678999999999999999988766

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=96.15  E-value=0.017  Score=62.63  Aligned_cols=133  Identities=14%  Similarity=0.131  Sum_probs=74.9

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      ...++|+...++++.+.+..-.     ....-|.|+|..|+|||++|+.+++.....  -...+.+++..-.+  ..+. 
T Consensus       186 ~~~iig~s~~~~~~~~~i~~~a-----~~~~pVlI~Ge~GtGK~~~A~~ih~~s~r~--~~p~v~v~c~~~~~--~~~e-  255 (509)
T PRK05022        186 EGEMIGQSPAMQQLKKEIEVVA-----ASDLNVLILGETGVGKELVARAIHAASPRA--DKPLVYLNCAALPE--SLAE-  255 (509)
T ss_pred             CCceeecCHHHHHHHHHHHHHh-----CCCCcEEEECCCCccHHHHHHHHHHhCCcC--CCCeEEEEcccCCh--HHHH-
Confidence            5678999999999988886544     334578899999999999999998742211  12334455554321  1111 


Q ss_pred             HHHHhhcCcccc--ccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccCC-----------CCceEEEecC
Q 036323          259 TIEELEGSAIDL--HELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGL-----------RGSKILITTR  325 (583)
Q Consensus       259 il~~l~~~~~~~--~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~IlvTtR  325 (583)
                        ..+.+.....  .........+.   ....=.|+||++..-.......|...+..+.           .+.+||.||.
T Consensus       256 --~~lfG~~~g~~~ga~~~~~g~~~---~a~gGtL~ldeI~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~~t~  330 (509)
T PRK05022        256 --SELFGHVKGAFTGAISNRSGKFE---LADGGTLFLDEIGELPLALQAKLLRVLQYGEIQRVGSDRSLRVDVRVIAATN  330 (509)
T ss_pred             --HHhcCccccccCCCcccCCcchh---hcCCCEEEecChhhCCHHHHHHHHHHHhcCCEeeCCCCcceecceEEEEecC
Confidence              1222211100  00000000011   1223357999997665555666666664321           2458888876


Q ss_pred             c
Q 036323          326 K  326 (583)
Q Consensus       326 ~  326 (583)
                      .
T Consensus       331 ~  331 (509)
T PRK05022        331 R  331 (509)
T ss_pred             C
Confidence            4

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=96.14  E-value=0.037  Score=53.64  Aligned_cols=49  Identities=16%  Similarity=0.212  Sum_probs=33.6

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      +...++.|.|.+|+|||+||.++...  ....-..++|++...  +..++.+.
T Consensus        19 ~~gs~~lI~G~pGsGKT~la~~~l~~--~~~~ge~~lyvs~ee--~~~~i~~~   67 (237)
T TIGR03877        19 PERNVVLLSGGPGTGKSIFSQQFLWN--GLQMGEPGIYVALEE--HPVQVRRN   67 (237)
T ss_pred             cCCeEEEEEcCCCCCHHHHHHHHHHH--HHHcCCcEEEEEeeC--CHHHHHHH
Confidence            56789999999999999999887552  112345577887654  34444443

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.

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=96.13  E-value=0.042  Score=55.83  Aligned_cols=57  Identities=19%  Similarity=0.176  Sum_probs=39.9

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCcccccc----CceEEEEEeCCCCChHHHHHHHHHHh
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINN----FEIRVRVCVSDPFDEFNVAKATIEEL  263 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~----f~~~~wv~~~~~~~~~~~~~~il~~l  263 (583)
                      +...++-|+|.+|+|||+|+.+++........    =..++|++....++...+.+ +++.+
T Consensus       100 ~~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~-~~~~~  160 (317)
T PRK04301        100 ETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQ-MAEAL  160 (317)
T ss_pred             cCCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHH-HHHHc
Confidence            45779999999999999999888754222111    14789999988777766543 34444

>PRK14974 cell division protein FtsY; Provisional

Probab=96.12  E-value=0.04  Score=55.92  Aligned_cols=89  Identities=21%  Similarity=0.147  Sum_probs=45.8

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCC--ChHHHHHHHHHHhhcCcc---ccccHHH-HHHHH
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPF--DEFNVAKATIEELEGSAI---DLHELNS-LLRRI  280 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~--~~~~~~~~il~~l~~~~~---~~~~~~~-~~~~l  280 (583)
                      ++.++.++|++|+||||++..++.... ...+. ++.+.. +.+  ...+.+......++....   ...+... +...+
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~~l~-~~g~~-V~li~~-Dt~R~~a~eqL~~~a~~lgv~v~~~~~g~dp~~v~~~ai  215 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAYYLK-KNGFS-VVIAAG-DTFRAGAIEQLEEHAERLGVKVIKHKYGADPAAVAYDAI  215 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHH-HcCCe-EEEecC-CcCcHHHHHHHHHHHHHcCCceecccCCCCHHHHHHHHH
Confidence            468999999999999998877775321 12232 333332 222  223344555555543311   1112222 22333


Q ss_pred             HHHhcCCceeEEEcCCCc
Q 036323          281 GANIAGQKFFMVLDNLWT  298 (583)
Q Consensus       281 ~~~l~~k~~LlVlDdv~~  298 (583)
                      ........-++++|-.-.
T Consensus       216 ~~~~~~~~DvVLIDTaGr  233 (336)
T PRK14974        216 EHAKARGIDVVLIDTAGR  233 (336)
T ss_pred             HHHHhCCCCEEEEECCCc
Confidence            322222233899998843

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

Probab=96.11  E-value=0.063  Score=50.89  Aligned_cols=56  Identities=18%  Similarity=0.201  Sum_probs=32.8

Q ss_pred             HHHHHhcCCceeEEEcCCCcc-cccchHhhHHhhcc--CCCCceEEEecCchHHHhhhc
Q 036323          279 RIGANIAGQKFFMVLDNLWTD-DYRKWEPFRNCLMN--GLRGSKILITTRKETVARMME  334 (583)
Q Consensus       279 ~l~~~l~~k~~LlVlDdv~~~-~~~~~~~l~~~l~~--~~~gs~IlvTtR~~~v~~~~~  334 (583)
                      .+.+.|.-++=+||+|..-+. |......+...|..  ...+-.+|+.|-+-.+...++
T Consensus       151 aIARAL~~~PklLIlDEptSaLD~siQa~IlnlL~~l~~~~~lt~l~IsHdl~~v~~~c  209 (252)
T COG1124         151 AIARALIPEPKLLILDEPTSALDVSVQAQILNLLLELKKERGLTYLFISHDLALVEHMC  209 (252)
T ss_pred             HHHHHhccCCCEEEecCchhhhcHHHHHHHHHHHHHHHHhcCceEEEEeCcHHHHHHHh
Confidence            455667778889999997432 11122223333322  344667888888877666543

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=96.10  E-value=0.024  Score=56.32  Aligned_cols=25  Identities=32%  Similarity=0.414  Sum_probs=21.6

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+.+|+|.|..|+||||+|+.+..
T Consensus        60 ~~p~IIGIaG~~GSGKSTlar~L~~   84 (290)
T TIGR00554        60 KIPYIISIAGSVAVGKSTTARILQA   84 (290)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4578999999999999999977644

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.

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=96.10  E-value=0.042  Score=52.96  Aligned_cols=50  Identities=18%  Similarity=0.054  Sum_probs=30.9

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHH
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKAT  259 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  259 (583)
                      +...++.|.|.+|+||||||.+++... .+.. ..+++++...  +..++.+.+
T Consensus        22 ~~g~~~~i~G~~G~GKTtl~~~~~~~~-~~~g-~~~~yi~~e~--~~~~~~~~~   71 (230)
T PRK08533         22 PAGSLILIEGDESTGKSILSQRLAYGF-LQNG-YSVSYVSTQL--TTTEFIKQM   71 (230)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHH-HhCC-CcEEEEeCCC--CHHHHHHHH
Confidence            345699999999999999986665431 1222 3345665332  344555554

>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=96.05  E-value=0.019  Score=54.93  Aligned_cols=22  Identities=32%  Similarity=0.418  Sum_probs=19.7

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      +|+|.|.+|+||||||+.+...
T Consensus         1 IigI~G~sGSGKTTla~~L~~~   22 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQAL   22 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHH
Confidence            5899999999999999988763

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

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=96.05  E-value=0.058  Score=51.95  Aligned_cols=41  Identities=15%  Similarity=0.163  Sum_probs=29.7

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCC
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSD  248 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~  248 (583)
                      +...++.|.|.+|+|||+|+..+....  ...-..++|++...
T Consensus        18 ~~G~~~~i~G~~G~GKT~l~~~~~~~~--~~~g~~~~~is~e~   58 (229)
T TIGR03881        18 PRGFFVAVTGEPGTGKTIFCLHFAYKG--LRDGDPVIYVTTEE   58 (229)
T ss_pred             cCCeEEEEECCCCCChHHHHHHHHHHH--HhcCCeEEEEEccC
Confidence            456799999999999999998876431  12234677887644

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.

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=96.03  E-value=0.048  Score=52.94  Aligned_cols=21  Identities=29%  Similarity=0.456  Sum_probs=18.4

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 036323          210 IISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      +..|+|++|+|||+|+..++-
T Consensus         3 ~~ll~g~~G~GKS~lal~la~   23 (239)
T cd01125           3 VSALVAPGGTGKSSLLLVLAL   23 (239)
T ss_pred             eeEEEcCCCCCHHHHHHHHHH
Confidence            567999999999999988765

RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.

>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=96.02  E-value=0.068  Score=49.45  Aligned_cols=24  Identities=29%  Similarity=0.502  Sum_probs=21.4

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+++|+|..|+|||||.+.+..-
T Consensus        26 G~~~~i~G~nGsGKSTLl~~l~G~   49 (182)
T cd03215          26 GEIVGIAGLVGNGQTELAEALFGL   49 (182)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999999863

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.

>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=96.02  E-value=0.0047  Score=53.32  Aligned_cols=21  Identities=38%  Similarity=0.542  Sum_probs=19.0

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |.|.|.+|+||||+|+++...
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            689999999999999998874

...

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=95.98  E-value=0.067  Score=59.70  Aligned_cols=159  Identities=17%  Similarity=0.144  Sum_probs=79.7

Q ss_pred             CceeechhHHHHHHHHhhcCCCC-----CCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSD-----QQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFN  254 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~-----~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~  254 (583)
                      ..+.|-+...+++.+.+......     ....-.+-|.|+|++|+|||++|+.+++..  ...|   +.++.++      
T Consensus       152 ~di~g~~~~~~~l~~i~~~~~~~~~~~~~~~~~~~gill~G~~G~GKt~~~~~~a~~~--~~~f---~~is~~~------  220 (644)
T PRK10733        152 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA--KVPF---FTISGSD------  220 (644)
T ss_pred             HHHcCHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHc--CCCE---EEEehHH------
Confidence            35667666555555443221100     001123348899999999999999998742  2222   1222211      


Q ss_pred             HHHHHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCccc----------ccchHhhHHhh----cc--CCCCc
Q 036323          255 VAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDD----------YRKWEPFRNCL----MN--GLRGS  318 (583)
Q Consensus       255 ~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~----------~~~~~~l~~~l----~~--~~~gs  318 (583)
                      +    .....+.     ....+...+.......+++|+||+++.-.          ...+......+    ..  ...+.
T Consensus       221 ~----~~~~~g~-----~~~~~~~~f~~a~~~~P~IifIDEiD~l~~~r~~~~~g~~~~~~~~ln~lL~~mdg~~~~~~v  291 (644)
T PRK10733        221 F----VEMFVGV-----GASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGI  291 (644)
T ss_pred             h----HHhhhcc-----cHHHHHHHHHHHHhcCCcEEEehhHhhhhhccCCCCCCCchHHHHHHHHHHHhhhcccCCCCe
Confidence            1    1111100     01112222233334578999999985421          01122222222    11  22345


Q ss_pred             eEEEecCchHHHhh--hc---CCCeEEcCCCChHHHHHHHHHHhc
Q 036323          319 KILITTRKETVARM--ME---STDIVYVQGLSELECWSLFRRFAL  358 (583)
Q Consensus       319 ~IlvTtR~~~v~~~--~~---~~~~~~l~~L~~~ea~~Lf~~~a~  358 (583)
                      .+|.||..++....  ..   -...+.+...+.++-.+++..+..
T Consensus       292 ivIaaTN~p~~lD~Al~RpgRfdr~i~v~~Pd~~~R~~Il~~~~~  336 (644)
T PRK10733        292 IVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMR  336 (644)
T ss_pred             eEEEecCChhhcCHHHhCCcccceEEEcCCCCHHHHHHHHHHHhh
Confidence            55667766543221  11   146778888888888888877653

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=95.98  E-value=0.013  Score=55.01  Aligned_cols=78  Identities=21%  Similarity=0.215  Sum_probs=43.4

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHh--hcCccccccHHHHHHHHHHH
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEEL--EGSAIDLHELNSLLRRIGAN  283 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l--~~~~~~~~~~~~~~~~l~~~  283 (583)
                      .++.+|+|.|.+|+||||+|+.++..  ...+.  +.-++....+...+. .......  .-..+...+.+-+.+.|...
T Consensus         6 ~~~iiIgIaG~SgSGKTTva~~l~~~--~~~~~--~~~I~~D~YYk~~~~-~~~~~~~~~n~d~p~A~D~dLl~~~L~~L   80 (218)
T COG0572           6 EKVIIIGIAGGSGSGKTTVAKELSEQ--LGVEK--VVVISLDDYYKDQSH-LPFEERNKINYDHPEAFDLDLLIEHLKDL   80 (218)
T ss_pred             CceEEEEEeCCCCCCHHHHHHHHHHH--hCcCc--ceEeeccccccchhh-cCHhhcCCcCccChhhhcHHHHHHHHHHH
Confidence            45789999999999999999999883  22221  111221111110000 0000011  11123455677777888888


Q ss_pred             hcCCc
Q 036323          284 IAGQK  288 (583)
Q Consensus       284 l~~k~  288 (583)
                      +++++
T Consensus        81 ~~g~~   85 (218)
T COG0572          81 KQGKP   85 (218)
T ss_pred             HcCCc
Confidence            87777

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=95.97  E-value=0.07  Score=52.85  Aligned_cols=55  Identities=15%  Similarity=0.097  Sum_probs=36.8

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhh
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELE  264 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~  264 (583)
                      ...++.|.|.+|+||||++.+++.+.. ..+-..++|+++..  +..++...+...+.
T Consensus        29 ~g~~~~i~g~~G~GKT~l~~~~~~~~~-~~~g~~vl~iS~E~--~~~~~~~r~~~~~~   83 (271)
T cd01122          29 KGELIILTAGTGVGKTTFLREYALDLI-TQHGVRVGTISLEE--PVVRTARRLLGQYA   83 (271)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHH-HhcCceEEEEEccc--CHHHHHHHHHHHHh
Confidence            345888999999999999988876421 22134577887655  34556666655443

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=95.96  E-value=0.0057  Score=53.86  Aligned_cols=24  Identities=33%  Similarity=0.380  Sum_probs=21.0

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .--|.|.|++|+|||||++.+.+.
T Consensus         5 ~mki~ITG~PGvGKtTl~~ki~e~   28 (179)
T COG1618           5 AMKIFITGRPGVGKTTLVLKIAEK   28 (179)
T ss_pred             ceEEEEeCCCCccHHHHHHHHHHH
Confidence            456889999999999999999874

>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=95.94  E-value=0.022  Score=52.51  Aligned_cols=24  Identities=29%  Similarity=0.426  Sum_probs=21.4

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+++|+|..|+|||||++.+...
T Consensus        26 G~~~~i~G~nGsGKSTLl~~l~G~   49 (178)
T cd03229          26 GEIVALLGPSGSGKSTLLRCIAGL   49 (178)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999999863

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.

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.93  E-value=0.061  Score=54.95  Aligned_cols=91  Identities=14%  Similarity=0.026  Sum_probs=53.1

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCC-CChHHHHHHHHHHhhcCccccccHHHHHHHHHHHh
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDP-FDEFNVAKATIEELEGSAIDLHELNSLLRRIGANI  284 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l  284 (583)
                      ...+++.|+|+.|+||||++..++.....  .-..+.+++.... ....+.++...+.++.+.....+..++...+...-
T Consensus       204 ~~~~ii~lvGptGvGKTTt~akLA~~l~~--~g~~V~lItaDtyR~gAveQLk~yae~lgvpv~~~~dp~dL~~al~~l~  281 (407)
T PRK12726        204 SNHRIISLIGQTGVGKTTTLVKLGWQLLK--QNRTVGFITTDTFRSGAVEQFQGYADKLDVELIVATSPAELEEAVQYMT  281 (407)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHHHH--cCCeEEEEeCCccCccHHHHHHHHhhcCCCCEEecCCHHHHHHHHHHHH
Confidence            45789999999999999999888764211  1123555665332 22344555555555543222344455555554332


Q ss_pred             c-CCceeEEEcCCCc
Q 036323          285 A-GQKFFMVLDNLWT  298 (583)
Q Consensus       285 ~-~k~~LlVlDdv~~  298 (583)
                      . +..=++++|-.-.
T Consensus       282 ~~~~~D~VLIDTAGr  296 (407)
T PRK12726        282 YVNCVDHILIDTVGR  296 (407)
T ss_pred             hcCCCCEEEEECCCC
Confidence            1 3446888998743

>PF00154 RecA: recA bacterial DNA recombination protein; InterPro: IPR013765 The recA gene product is a multifunctional enzyme that plays a role in homologous recombination, DNA repair and induction of the SOS response []

Probab=95.91  E-value=0.014  Score=58.57  Aligned_cols=84  Identities=20%  Similarity=0.098  Sum_probs=51.3

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCcc-----ccccHHHHHHHH
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAI-----DLHELNSLLRRI  280 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~-----~~~~~~~~~~~l  280 (583)
                      +..+++-|+|+.|+||||||..+...  .+..-..++|++..+.++..     .++.++....     .+...++....+
T Consensus        51 p~G~ivEi~G~~ssGKttLaL~~ia~--~q~~g~~~a~ID~e~~ld~~-----~a~~lGvdl~rllv~~P~~~E~al~~~  123 (322)
T PF00154_consen   51 PRGRIVEIYGPESSGKTTLALHAIAE--AQKQGGICAFIDAEHALDPE-----YAESLGVDLDRLLVVQPDTGEQALWIA  123 (322)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHH--HHHTT-EEEEEESSS---HH-----HHHHTT--GGGEEEEE-SSHHHHHHHH
T ss_pred             ccCceEEEeCCCCCchhhhHHHHHHh--hhcccceeEEecCcccchhh-----HHHhcCccccceEEecCCcHHHHHHHH
Confidence            45679999999999999999888763  33445668999988776653     3344443321     123345555555


Q ss_pred             HHHhcCC-ceeEEEcCC
Q 036323          281 GANIAGQ-KFFMVLDNL  296 (583)
Q Consensus       281 ~~~l~~k-~~LlVlDdv  296 (583)
                      ..+++.. .-++|+|-|
T Consensus       124 e~lirsg~~~lVVvDSv  140 (322)
T PF00154_consen  124 EQLIRSGAVDLVVVDSV  140 (322)
T ss_dssp             HHHHHTTSESEEEEE-C
T ss_pred             HHHhhcccccEEEEecC
Confidence            5555443 458899988

In homologous recombination, the protein functions as a DNA-dependent ATPase, promoting synapsis, heteroduplex formation and strand exchange between homologous DNAs []. RecA also acts as a protease cofactor that promotes autodigestion of the lexA product and phage repressors. The proteolytic inactivation of the lexA repressor by an activated form of recA may cause a derepression of the 20 or so genes involved in the SOS response, which regulates DNA repair, induced mutagenesis, delayed cell division and prophage induction in response to DNA damage []. RecA is a protein of about 350 amino-acid residues. Its sequence is very well conserved [, , ] among eubacterial species. It is also found in the chloroplast of plants []. RecA-like proteins are found in archaea and diverse eukaryotic organisms, like fission yeast, mouse or human. In the filament visualised by X-ray crystallography, beta-strand 3, the loop C-terminal to beta-strand 2, and alpha-helix D of the core domain form one surface that packs against alpha-helix A and beta-strand 0 (the N-terminal domain) of an adjacent monomer during polymerisation []. The core ATP-binding site domain is well conserved, with 14 invariant residues. It contains the nucleotide binding loop between beta-strand 1 and alpha-helix C. The Escherichia coli sequence GPESSGKT matches the consensus sequence of amino acids (G/A)XXXXGK(T/S) for the Walker A box (also referred to as the P-loop) found in a number of nucleoside triphosphate (NTP)-binding proteins. Another nucleotide binding motif, the Walker B box is found at beta-strand 4 in the RecA structure. The Walker B box is characterised by four hydrophobic amino acids followed by an acidic residue (usually aspartate). Nucleotide specificity and additional ATP binding interactions are contributed by the amino acid residues at beta-strand 2 and the loop C-terminal to that strand, all of which are greater than 90% conserved among bacterial RecA proteins.; GO: 0003697 single-stranded DNA binding, 0005524 ATP binding, 0006281 DNA repair; PDB: 2IN0_A 1MO3_A 3IFJ_A 2IN8_A 2IMZ_B 1G18_A 1MO4_A 3IGD_A 2L8L_A 2IN9_A ....

>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1)

Probab=95.90  E-value=0.093  Score=49.62  Aligned_cols=24  Identities=33%  Similarity=0.490  Sum_probs=21.1

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...+++|.|..|+|||||++.+..
T Consensus        33 ~G~~~~i~G~nGsGKSTLl~~l~G   56 (207)
T cd03369          33 AGEKIGIVGRTGAGKSTLILALFR   56 (207)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            345899999999999999999875

NFT1 belongs to the MRP (mulrtidrug resisitance-associated protein) family of ABC transporters. Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions such as glutathione, glucuronate, and sulfate.

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.89  E-value=0.052  Score=58.30  Aligned_cols=52  Identities=21%  Similarity=0.245  Sum_probs=35.9

Q ss_pred             CceeechhHHHHHHHHhhcCCCC------CCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSD------QQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~------~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .++=|-++-..+|.+....+-..      -+-..++-|.++|+||+|||++|+.+.+.
T Consensus       434 ~dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne  491 (693)
T KOG0730|consen  434 DDIGGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANE  491 (693)
T ss_pred             hhccCHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhh
Confidence            34555777777776655433200      01245778889999999999999999983

>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=95.88  E-value=0.0066  Score=53.62  Aligned_cols=21  Identities=38%  Similarity=0.510  Sum_probs=19.3

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 036323          210 IISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      +|.++|++|+||||+|+.+..
T Consensus         1 lii~~G~pgsGKSt~a~~l~~   21 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLAK   21 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            578999999999999999885

...

>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=95.88  E-value=0.05  Score=49.80  Aligned_cols=22  Identities=41%  Similarity=0.511  Sum_probs=19.4

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ++.++|++|+||||++..+...
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~   23 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALY   23 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6789999999999999888763

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.

>PRK10867 signal recognition particle protein; Provisional

Probab=95.86  E-value=0.029  Score=58.92  Aligned_cols=24  Identities=42%  Similarity=0.502  Sum_probs=20.6

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .+.+|.++|.+|+||||++..++.
T Consensus        99 ~p~vI~~vG~~GsGKTTtaakLA~  122 (433)
T PRK10867         99 PPTVIMMVGLQGAGKTTTAGKLAK  122 (433)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHH
Confidence            468999999999999998876655

>TIGR00959 ffh signal recognition particle protein

Probab=95.86  E-value=0.029  Score=58.87  Aligned_cols=25  Identities=36%  Similarity=0.368  Sum_probs=21.5

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .+.++.++|.+|+||||+|..++..
T Consensus        98 ~p~vi~~vG~~GsGKTTtaakLA~~  122 (428)
T TIGR00959        98 PPTVILMVGLQGSGKTTTCGKLAYY  122 (428)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHH
Confidence            4679999999999999998777653

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.

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=95.86  E-value=0.051  Score=58.95  Aligned_cols=132  Identities=14%  Similarity=0.114  Sum_probs=73.4

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHH-HHHHHHHHh
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNS-LLRRIGANI  284 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~-~~~~l~~~l  284 (583)
                      ...+.+.++|++|.|||.||+.+++.  ...+|-.     +...        .++...      ....+. +........
T Consensus       274 ~~~~giLl~GpPGtGKT~lAkava~~--~~~~fi~-----v~~~--------~l~sk~------vGesek~ir~~F~~A~  332 (494)
T COG0464         274 RPPKGVLLYGPPGTGKTLLAKAVALE--SRSRFIS-----VKGS--------ELLSKW------VGESEKNIRELFEKAR  332 (494)
T ss_pred             CCCCeeEEECCCCCCHHHHHHHHHhh--CCCeEEE-----eeCH--------HHhccc------cchHHHHHHHHHHHHH
Confidence            44568999999999999999999983  3333422     2111        111100      011111 222233333


Q ss_pred             cCCceeEEEcCCCc-----c-c-c----cchHhhHHhhcc--CCCCceEEEecCchHHHhh--h---cCCCeEEcCCCCh
Q 036323          285 AGQKFFMVLDNLWT-----D-D-Y----RKWEPFRNCLMN--GLRGSKILITTRKETVARM--M---ESTDIVYVQGLSE  346 (583)
Q Consensus       285 ~~k~~LlVlDdv~~-----~-~-~----~~~~~l~~~l~~--~~~gs~IlvTtR~~~v~~~--~---~~~~~~~l~~L~~  346 (583)
                      +..+++|++|.+..     . + .    .....+...+..  ...+..||-||..+.....  .   .-...+.+.+-+.
T Consensus       333 ~~~p~iiFiDEiDs~~~~r~~~~~~~~~r~~~~lL~~~d~~e~~~~v~vi~aTN~p~~ld~a~lR~gRfd~~i~v~~pd~  412 (494)
T COG0464         333 KLAPSIIFIDEIDSLASGRGPSEDGSGRRVVGQLLTELDGIEKAEGVLVIAATNRPDDLDPALLRPGRFDRLIYVPLPDL  412 (494)
T ss_pred             cCCCcEEEEEchhhhhccCCCCCchHHHHHHHHHHHHhcCCCccCceEEEecCCCccccCHhhcccCccceEeecCCCCH
Confidence            57899999999843     1 0 0    122333333322  2334445555554433221  1   1256788999999


Q ss_pred             HHHHHHHHHHhc
Q 036323          347 LECWSLFRRFAL  358 (583)
Q Consensus       347 ~ea~~Lf~~~a~  358 (583)
                      ++..+.|+.+..
T Consensus       413 ~~r~~i~~~~~~  424 (494)
T COG0464         413 EERLEIFKIHLR  424 (494)
T ss_pred             HHHHHHHHHHhc
Confidence            999999998874

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.85  E-value=0.037  Score=58.95  Aligned_cols=89  Identities=16%  Similarity=0.053  Sum_probs=45.7

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCC-CCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSD-PFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIA  285 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~  285 (583)
                      ...+++|+|.+|+||||++..+............+..++... .....+.+......++.......+...+...+... .
T Consensus       349 ~G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLIdtDtyRigA~EQLk~ya~iLgv~v~~a~d~~~L~~aL~~l-~  427 (559)
T PRK12727        349 RGGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGREQLHSYGRQLGIAVHEADSAESLLDLLERL-R  427 (559)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEecccccccHHHHHHHhhcccCceeEecCcHHHHHHHHHHh-c
Confidence            457999999999999999988765321111122344444321 11122223333333332222223334444444432 3


Q ss_pred             CCceeEEEcCCC
Q 036323          286 GQKFFMVLDNLW  297 (583)
Q Consensus       286 ~k~~LlVlDdv~  297 (583)
                       ..-+|++|..-
T Consensus       428 -~~DLVLIDTaG  438 (559)
T PRK12727        428 -DYKLVLIDTAG  438 (559)
T ss_pred             -cCCEEEecCCC
Confidence             34588899873

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=95.84  E-value=0.087  Score=47.84  Aligned_cols=119  Identities=18%  Similarity=0.036  Sum_probs=61.6

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceE--EEEEeCCCCChHHHHHHHHHH---hhcC-----cccc---ccHH
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIR--VRVCVSDPFDEFNVAKATIEE---LEGS-----AIDL---HELN  274 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~--~wv~~~~~~~~~~~~~~il~~---l~~~-----~~~~---~~~~  274 (583)
                      ...|-|++..|.||||.|..+.-.. ....+.+.  =|+.-.........+..+.-.   .+..     .+..   ....
T Consensus         5 ~Gli~v~~g~GkGKtt~a~g~a~ra-~~~g~~v~ivQFlKg~~~~GE~~~l~~~~~~~~~~g~g~~~~~~~~~~~~~~~~   83 (173)
T TIGR00708         5 RGIIIVHTGNGKGKTTAAFGMALRA-LGHGKKVGVIQFIKGAWPNGERAAFEPHGVEFQVMGTGFTWETQNREADTAIAK   83 (173)
T ss_pred             ccEEEEECCCCCChHHHHHHHHHHH-HHCCCeEEEEEEecCCcccChHHHHHhcCcEEEECCCCCeecCCCcHHHHHHHH
Confidence            3577788889999999996665421 11222221  123322222333343332000   0000     0001   1122


Q ss_pred             HHHHHHHHHhcCCc-eeEEEcCCCc---ccccchHhhHHhhccCCCCceEEEecCch
Q 036323          275 SLLRRIGANIAGQK-FFMVLDNLWT---DDYRKWEPFRNCLMNGLRGSKILITTRKE  327 (583)
Q Consensus       275 ~~~~~l~~~l~~k~-~LlVlDdv~~---~~~~~~~~l~~~l~~~~~gs~IlvTtR~~  327 (583)
                      ......++.+...+ =|||||.+-.   ...-..+.+...+...+.+.-||+|-|+.
T Consensus        84 ~~~~~a~~~l~~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evVlTGR~~  140 (173)
T TIGR00708        84 AAWQHAKEMLADPELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRGC  140 (173)
T ss_pred             HHHHHHHHHHhcCCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEEEECCCC
Confidence            33344445554444 4999999832   11223456667676667788999999975

Alternate name: corrinoid adenosyltransferase.

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

Probab=95.82  E-value=0.0065  Score=56.96  Aligned_cols=22  Identities=45%  Similarity=0.522  Sum_probs=20.1

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ||+|.|.+|+||||+|+.+...
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~   22 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQI   22 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999998763

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 ....

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=95.81  E-value=0.047  Score=52.63  Aligned_cols=52  Identities=17%  Similarity=0.195  Sum_probs=32.5

Q ss_pred             HHHHHHhcCCceeEEEcCCCc-cccc---chHhhHHhhccCCCCceEEEecCchHHHh
Q 036323          278 RRIGANIAGQKFFMVLDNLWT-DDYR---KWEPFRNCLMNGLRGSKILITTRKETVAR  331 (583)
Q Consensus       278 ~~l~~~l~~k~~LlVlDdv~~-~~~~---~~~~l~~~l~~~~~gs~IlvTtR~~~v~~  331 (583)
                      -.|.+.|..++=||+||.-.. -|..   ..-.+...+...  |+.||++|-+-....
T Consensus       148 V~lARAL~~~p~lllLDEP~~gvD~~~~~~i~~lL~~l~~e--g~tIl~vtHDL~~v~  203 (254)
T COG1121         148 VLLARALAQNPDLLLLDEPFTGVDVAGQKEIYDLLKELRQE--GKTVLMVTHDLGLVM  203 (254)
T ss_pred             HHHHHHhccCCCEEEecCCcccCCHHHHHHHHHHHHHHHHC--CCEEEEEeCCcHHhH
Confidence            356667788899999998532 1222   223333333332  889999999866544

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=95.81  E-value=0.17  Score=50.14  Aligned_cols=59  Identities=8%  Similarity=0.058  Sum_probs=39.6

Q ss_pred             CCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCc-hHHHhhh-cCCCeEEcCCC
Q 036323          286 GQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRK-ETVARMM-ESTDIVYVQGL  344 (583)
Q Consensus       286 ~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~-~~v~~~~-~~~~~~~l~~L  344 (583)
                      ++.-++|+|+++..+.+.++.++..+.....++.+|++|.+ ..+.... +....+.+.++
T Consensus        94 ~~~kv~ii~~ad~mt~~AaNaLLK~LEEPp~~~~fiL~~~~~~~ll~TI~SRcq~~~~~~~  154 (290)
T PRK05917         94 SPYKIYIIHEADRMTLDAISAFLKVLEDPPQHGVIILTSAKPQRLPPTIRSRSLSIHIPME  154 (290)
T ss_pred             CCceEEEEechhhcCHHHHHHHHHHhhcCCCCeEEEEEeCChhhCcHHHHhcceEEEccch
Confidence            45568999999877777888888888776667766666665 4443332 22456666655

>cd03244 ABCC_MRP_domain2 Domain 2 of the ABC subfamily C

Probab=95.81  E-value=0.09  Score=50.28  Aligned_cols=24  Identities=25%  Similarity=0.380  Sum_probs=21.2

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+++|+|..|+|||||++.+...
T Consensus        30 Ge~~~i~G~nGsGKSTLl~~l~G~   53 (221)
T cd03244          30 GEKVGIVGRTGSGKSSLLLALFRL   53 (221)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHcC
Confidence            458999999999999999998753

This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminus, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resistance lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=95.80  E-value=0.055  Score=51.25  Aligned_cols=61  Identities=10%  Similarity=0.009  Sum_probs=35.5

Q ss_pred             HHHhcCCceeEEEcCCCc-ccccchHhhHHhhcc-CCCCceEEEecCchHHHhhhcCCCeEEcCCC
Q 036323          281 GANIAGQKFFMVLDNLWT-DDYRKWEPFRNCLMN-GLRGSKILITTRKETVARMMESTDIVYVQGL  344 (583)
Q Consensus       281 ~~~l~~k~~LlVlDdv~~-~~~~~~~~l~~~l~~-~~~gs~IlvTtR~~~v~~~~~~~~~~~l~~L  344 (583)
                      ...+-.++-++++|+.-. -|......+...+.. ...|..||++|.+......   .+.+.+..+
T Consensus       139 a~al~~~p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~tiii~sH~~~~~~~---~~~~~~~~~  201 (207)
T PRK13539        139 ARLLVSNRPIWILDEPTAALDAAAVALFAELIRAHLAQGGIVIAATHIPLGLPG---ARELDLGPF  201 (207)
T ss_pred             HHHHhcCCCEEEEeCCcccCCHHHHHHHHHHHHHHHHCCCEEEEEeCCchhhcc---CcEEeecCc
Confidence            344455678999998743 222233444444432 2246678888887665543   566666553

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=95.78  E-value=0.071  Score=50.97  Aligned_cols=24  Identities=29%  Similarity=0.508  Sum_probs=21.4

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+++|+|..|+|||||++.++.-
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~Gl   51 (220)
T cd03263          28 GEIFGLLGHNGAGKTTTLKMLTGE   51 (220)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999999763

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.

>TIGR00235 udk uridine kinase

Probab=95.78  E-value=0.0079  Score=57.02  Aligned_cols=26  Identities=38%  Similarity=0.477  Sum_probs=23.0

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcC
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      +...+|+|+|++|+|||||++.+...
T Consensus         4 ~~g~vi~I~G~sGsGKSTl~~~l~~~   29 (207)
T TIGR00235         4 PKGIIIGIGGGSGSGKTTVARKIYEQ   29 (207)
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHHHH
Confidence            45689999999999999999999863

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

>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component

Probab=95.77  E-value=0.067  Score=50.35  Aligned_cols=25  Identities=28%  Similarity=0.461  Sum_probs=22.0

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...+++|+|..|.|||||.+.+...
T Consensus        25 ~Ge~~~i~G~nGsGKStLl~~l~G~   49 (200)
T cd03217          25 KGEVHALMGPNGSGKSTLAKTIMGH   49 (200)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCC
Confidence            3469999999999999999998874

Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under stressful conditions. The SUF system is made of six proteins: SufC is an atypical cytoplasmic ABC-ATPase, which forms a complex with SufB and SufD; SufA plays the role of a scaffold protein for assembly of iron-sulfur clusters and delivery to target proteins; SufS is a cysteine desulfurase which mobilizes the sulfur atom from cysteine and provides it to the cluster; SufE has no associated function yet.

>PTZ00301 uridine kinase; Provisional

Probab=95.76  E-value=0.015  Score=55.11  Aligned_cols=23  Identities=26%  Similarity=0.494  Sum_probs=20.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+|+|.|.+|+||||||+.+.+
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~   25 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVS   25 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHH
Confidence            46899999999999999988865

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

Probab=95.74  E-value=0.0099  Score=58.72  Aligned_cols=34  Identities=29%  Similarity=0.392  Sum_probs=25.6

Q ss_pred             HHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          190 RSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       190 ~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+++.+...        .+-+.++|++|+|||++++...+.
T Consensus        23 ~~ll~~l~~~--------~~pvLl~G~~GtGKT~li~~~l~~   56 (272)
T PF12775_consen   23 SYLLDLLLSN--------GRPVLLVGPSGTGKTSLIQNFLSS   56 (272)
T ss_dssp             HHHHHHHHHC--------TEEEEEESSTTSSHHHHHHHHHHC
T ss_pred             HHHHHHHHHc--------CCcEEEECCCCCchhHHHHhhhcc
Confidence            4555555543        346689999999999999998864

>PRK05480 uridine/cytidine kinase; Provisional

Probab=95.74  E-value=0.008  Score=57.08  Aligned_cols=26  Identities=38%  Similarity=0.578  Sum_probs=23.1

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcC
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .+..+|+|.|.+|+|||||++.+...
T Consensus         4 ~~~~iI~I~G~sGsGKTTl~~~l~~~   29 (209)
T PRK05480          4 KKPIIIGIAGGSGSGKTTVASTIYEE   29 (209)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            35779999999999999999998874

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=95.71  E-value=0.043  Score=53.91  Aligned_cols=41  Identities=15%  Similarity=0.181  Sum_probs=29.7

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCC
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSD  248 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~  248 (583)
                      +...++.|.|.+|+|||++|.+++....  ..-..+++++...
T Consensus        34 p~gs~~lI~G~pGtGKT~l~~qf~~~~a--~~Ge~vlyis~Ee   74 (259)
T TIGR03878        34 PAYSVINITGVSDTGKSLMVEQFAVTQA--SRGNPVLFVTVES   74 (259)
T ss_pred             ECCcEEEEEcCCCCCHHHHHHHHHHHHH--hCCCcEEEEEecC
Confidence            4567999999999999999988765311  1223567777754

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein

Probab=95.69  E-value=0.12  Score=49.78  Aligned_cols=24  Identities=38%  Similarity=0.472  Sum_probs=21.2

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+++|+|..|+|||||.+.+..-
T Consensus        29 G~~~~i~G~nGsGKSTLl~~l~G~   52 (229)
T cd03254          29 GETVAIVGPTGAGKTTLINLLMRF   52 (229)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            458999999999999999999763

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.

>cd03233 ABC_PDR_domain1 The pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters

Probab=95.68  E-value=0.13  Score=48.58  Aligned_cols=25  Identities=24%  Similarity=0.328  Sum_probs=21.8

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...+++|+|..|+|||||++.+..-
T Consensus        32 ~Ge~~~i~G~nGsGKSTLl~~l~G~   56 (202)
T cd03233          32 PGEMVLVLGRPGSGCSTLLKALANR   56 (202)
T ss_pred             CCcEEEEECCCCCCHHHHHHHhccc
Confidence            3469999999999999999998764

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.

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=95.68  E-value=0.13  Score=50.76  Aligned_cols=114  Identities=15%  Similarity=0.052  Sum_probs=58.1

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCc-c------cc-ccHHHHHH
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSA-I------DL-HELNSLLR  278 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~-~------~~-~~~~~~~~  278 (583)
                      ...-++|+|..|+|||||.+.+....   ......+++.-.+ ....+...++......-+ .      +. .+... ..
T Consensus       110 ~~~~~~i~g~~g~GKttl~~~l~~~~---~~~~G~i~~~g~~-v~~~d~~~ei~~~~~~~~q~~~~~r~~v~~~~~k-~~  184 (270)
T TIGR02858       110 RVLNTLIISPPQCGKTTLLRDLARIL---STGISQLGLRGKK-VGIVDERSEIAGCVNGVPQHDVGIRTDVLDGCPK-AE  184 (270)
T ss_pred             CeeEEEEEcCCCCCHHHHHHHHhCcc---CCCCceEEECCEE-eecchhHHHHHHHhcccccccccccccccccchH-HH
Confidence            35789999999999999999998742   2223333332111 000011122222211110 0      00 01111 11


Q ss_pred             HHHHHh-cCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCchHHH
Q 036323          279 RIGANI-AGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKETVA  330 (583)
Q Consensus       279 ~l~~~l-~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~~v~  330 (583)
                      .+...+ ...+=++++|.+-  ..+.+..+...+   ..|..+|+||-+..+.
T Consensus       185 ~~~~~i~~~~P~villDE~~--~~e~~~~l~~~~---~~G~~vI~ttH~~~~~  232 (270)
T TIGR02858       185 GMMMLIRSMSPDVIVVDEIG--REEDVEALLEAL---HAGVSIIATAHGRDVE  232 (270)
T ss_pred             HHHHHHHhCCCCEEEEeCCC--cHHHHHHHHHHH---hCCCEEEEEechhHHH
Confidence            122222 2478899999983  333444444444   2477899999876554

Members of this protein are the stage III sporulation protein AA, encoded by one of several genes in the spoIIIA locus. It seems that this protein is found in a species if and only if that species is capable of endospore formation.

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

Probab=95.67  E-value=0.017  Score=53.06  Aligned_cols=22  Identities=36%  Similarity=0.451  Sum_probs=19.8

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .|.|.|.+|+||||+|+.+.+.
T Consensus         2 riiilG~pGaGK~T~A~~La~~   23 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKK   23 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            3679999999999999999884

>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars

Probab=95.66  E-value=0.0075  Score=45.94  Aligned_cols=22  Identities=36%  Similarity=0.542  Sum_probs=19.5

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ++.|.|.+|+||||+++.+.+.
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~   22 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQ   22 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999988874

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.

>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]

Probab=95.66  E-value=0.092  Score=56.35  Aligned_cols=127  Identities=20%  Similarity=0.243  Sum_probs=68.8

Q ss_pred             eEEEEEEecCCchHHH-HHHHHHcCccccccC--ceEEEEEeCCCCChHHHHHHHHHHhhcCcc----------cc----
Q 036323          208 VQIISMVGMGGIGKTT-LAQLAYNDNDVINNF--EIRVRVCVSDPFDEFNVAKATIEELEGSAI----------DL----  270 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTt-La~~v~~~~~~~~~f--~~~~wv~~~~~~~~~~~~~~il~~l~~~~~----------~~----  270 (583)
                      ..||.|+|..|+|||| |++.+|.+     .|  .+.+-.+-........+.+.+.+.++..-.          +.    
T Consensus       371 n~vvvivgETGSGKTTQl~QyL~ed-----GY~~~GmIGcTQPRRvAAiSVAkrVa~EM~~~lG~~VGYsIRFEdvT~~~  445 (1042)
T KOG0924|consen  371 NQVVVIVGETGSGKTTQLAQYLYED-----GYADNGMIGCTQPRRVAAISVAKRVAEEMGVTLGDTVGYSIRFEDVTSED  445 (1042)
T ss_pred             CcEEEEEecCCCCchhhhHHHHHhc-----ccccCCeeeecCchHHHHHHHHHHHHHHhCCccccccceEEEeeecCCCc
Confidence            4599999999999995 67777774     22  122222223333445667777777754311          00    


Q ss_pred             ------ccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhh---ccCCCCceEEEecCc---hHHHhhhcCCCe
Q 036323          271 ------HELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCL---MNGLRGSKILITTRK---ETVARMMESTDI  338 (583)
Q Consensus       271 ------~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l---~~~~~gs~IlvTtR~---~~v~~~~~~~~~  338 (583)
                            .+---+.+.|.+..-.|=-.||+|.+++... .-+.+...|   ......-++||||-.   ...+..++....
T Consensus       446 T~IkymTDGiLLrEsL~d~~L~kYSviImDEAHERsl-NtDilfGllk~~larRrdlKliVtSATm~a~kf~nfFgn~p~  524 (1042)
T KOG0924|consen  446 TKIKYMTDGILLRESLKDRDLDKYSVIIMDEAHERSL-NTDILFGLLKKVLARRRDLKLIVTSATMDAQKFSNFFGNCPQ  524 (1042)
T ss_pred             eeEEEeccchHHHHHhhhhhhhheeEEEechhhhccc-chHHHHHHHHHHHHhhccceEEEeeccccHHHHHHHhCCCce
Confidence                  1111233334443334556899999965322 112222222   233457899999875   445555554333


Q ss_pred             EE
Q 036323          339 VY  340 (583)
Q Consensus       339 ~~  340 (583)
                      +.
T Consensus       525 f~  526 (1042)
T KOG0924|consen  525 FT  526 (1042)
T ss_pred             ee
Confidence            33

>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR)

Probab=95.66  E-value=0.13  Score=48.09  Aligned_cols=25  Identities=24%  Similarity=0.389  Sum_probs=21.8

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...+++|.|..|.|||||.+.+..-
T Consensus        34 ~Ge~~~l~G~nGsGKStLl~~i~Gl   58 (194)
T cd03213          34 PGELTAIMGPSGAGKSTLLNALAGR   58 (194)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCC
Confidence            3568999999999999999999863

DR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. Compared to other members of the ABC transporter subfamilies, the ABCG transporter family is composed of proteins that have an ATP-binding cassette domain at the N-terminus and a TM (transmembrane) domain at the C-terminus.

>PRK06762 hypothetical protein; Provisional

Probab=95.66  E-value=0.0082  Score=54.65  Aligned_cols=24  Identities=33%  Similarity=0.455  Sum_probs=21.5

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      +.+|.|+|++|+||||+|+.+.+.
T Consensus         2 ~~li~i~G~~GsGKST~A~~L~~~   25 (166)
T PRK06762          2 TTLIIIRGNSGSGKTTIAKQLQER   25 (166)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999999873

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

Probab=95.66  E-value=0.011  Score=57.46  Aligned_cols=67  Identities=22%  Similarity=0.261  Sum_probs=47.5

Q ss_pred             HHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHH
Q 036323          190 RSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIE  261 (583)
Q Consensus       190 ~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~  261 (583)
                      .+|+..+...     .++..+|+|.|.||+|||||...+.......++--.++=|+-|++++--.++-+=++
T Consensus        38 ~~ll~~l~p~-----tG~a~viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlAVDPSSp~TGGsiLGDRiR  104 (323)
T COG1703          38 RELLRALYPR-----TGNAHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLAVDPSSPFTGGSILGDRIR  104 (323)
T ss_pred             HHHHHHHhhc-----CCCCcEEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEEECCCCCCCCccccccHhh
Confidence            4556566443     367889999999999999999888775545555556666777777776666554443

>cd00267 ABC_ATPase ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=95.65  E-value=0.038  Score=49.70  Aligned_cols=119  Identities=16%  Similarity=0.101  Sum_probs=61.3

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQ  287 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  287 (583)
                      ..+++|+|..|.|||||.+.+....   ......+++.........  .......+.-.. +.+.-+...-.+...+...
T Consensus        25 g~~~~i~G~nGsGKStll~~l~g~~---~~~~G~i~~~~~~~~~~~--~~~~~~~i~~~~-qlS~G~~~r~~l~~~l~~~   98 (157)
T cd00267          25 GEIVALVGPNGSGKSTLLRAIAGLL---KPTSGEILIDGKDIAKLP--LEELRRRIGYVP-QLSGGQRQRVALARALLLN   98 (157)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC---CCCccEEEECCEEcccCC--HHHHHhceEEEe-eCCHHHHHHHHHHHHHhcC
Confidence            3689999999999999999998732   233444444322111100  001111111100 0111122223345555667


Q ss_pred             ceeEEEcCCCc-ccccchHhhHHhhcc-CCCCceEEEecCchHHHhh
Q 036323          288 KFFMVLDNLWT-DDYRKWEPFRNCLMN-GLRGSKILITTRKETVARM  332 (583)
Q Consensus       288 ~~LlVlDdv~~-~~~~~~~~l~~~l~~-~~~gs~IlvTtR~~~v~~~  332 (583)
                      +-++++|+... -|......+...+.. ...+..+|++|.+......
T Consensus        99 ~~i~ilDEp~~~lD~~~~~~l~~~l~~~~~~~~tii~~sh~~~~~~~  145 (157)
T cd00267          99 PDLLLLDEPTSGLDPASRERLLELLRELAEEGRTVIIVTHDPELAEL  145 (157)
T ss_pred             CCEEEEeCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHHHH
Confidence            88999999743 122223334443432 1125678888887766554

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.

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=95.64  E-value=0.043  Score=52.85  Aligned_cols=26  Identities=31%  Similarity=0.420  Sum_probs=23.3

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcC
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ....+++|.|++|+|||||++.+...
T Consensus        31 ~~~~iigi~G~~GsGKTTl~~~L~~~   56 (229)
T PRK09270         31 QRRTIVGIAGPPGAGKSTLAEFLEAL   56 (229)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            56789999999999999999988863

>cd03253 ABCC_ATM1_transporter ATM1 is an ABC transporter that is expressed in the mitochondria

Probab=95.62  E-value=0.13  Score=49.74  Aligned_cols=53  Identities=13%  Similarity=0.141  Sum_probs=31.9

Q ss_pred             HHHHhcCCceeEEEcCCCc-ccccchHhhHHhhccCCCCceEEEecCchHHHhh
Q 036323          280 IGANIAGQKFFMVLDNLWT-DDYRKWEPFRNCLMNGLRGSKILITTRKETVARM  332 (583)
Q Consensus       280 l~~~l~~k~~LlVlDdv~~-~~~~~~~~l~~~l~~~~~gs~IlvTtR~~~v~~~  332 (583)
                      +...+-.++-+|+||+... -|......+...+.....|..||++|.+......
T Consensus       148 la~aL~~~p~llllDEP~~~LD~~~~~~l~~~l~~~~~~~tiii~sh~~~~~~~  201 (236)
T cd03253         148 IARAILKNPPILLLDEATSALDTHTEREIQAALRDVSKGRTTIVIAHRLSTIVN  201 (236)
T ss_pred             HHHHHhcCCCEEEEeCCcccCCHHHHHHHHHHHHHhcCCCEEEEEcCCHHHHHh
Confidence            4445566788999999743 2222334455555432236678888887766543

Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to mitochondrial DNA, and decreased levels of cytosolic heme proteins. 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.

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=95.61  E-value=0.018  Score=54.83  Aligned_cols=23  Identities=17%  Similarity=0.212  Sum_probs=20.4

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .+++.|+|+.|.|||||.+.+..
T Consensus        29 ~~~~~itGpNg~GKStlLk~i~~   51 (213)
T cd03281          29 PSIMVITGPNSSGKSVYLKQVAL   51 (213)
T ss_pred             ceEEEEECCCCCChHHHHHHHHH
Confidence            47889999999999999988863

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

>PRK00889 adenylylsulfate kinase; Provisional

Probab=95.61  E-value=0.084  Score=48.45  Aligned_cols=25  Identities=28%  Similarity=0.397  Sum_probs=22.0

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...++.|+|++|+||||+|+.+...
T Consensus         3 ~g~~i~~~G~~GsGKST~a~~la~~   27 (175)
T PRK00889          3 RGVTVWFTGLSGAGKTTIARALAEK   27 (175)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3569999999999999999998874

>cd03245 ABCC_bacteriocin_exporters ABC-type bacteriocin exporters

Probab=95.61  E-value=0.12  Score=49.49  Aligned_cols=25  Identities=28%  Similarity=0.377  Sum_probs=21.7

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...+++|+|+.|+|||||++.+..-
T Consensus        29 ~G~~~~i~G~nGsGKSTLl~~i~G~   53 (220)
T cd03245          29 AGEKVAIIGRVGSGKSTLLKLLAGL   53 (220)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3568999999999999999998763

Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two glycine residues in positions -1 and -2. A dedicated ATP-binding cassette (ABC) transporter is responsible for the proteolytic cleavage of the leader peptides and subsequent translocation of the bacteriocins across the cytoplasmic membrane.

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=95.59  E-value=0.016  Score=50.23  Aligned_cols=41  Identities=22%  Similarity=0.154  Sum_probs=29.5

Q ss_pred             hHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCc
Q 036323          187 EEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDN  232 (583)
Q Consensus       187 ~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~  232 (583)
                      ++..++-+.|...-     ....+|.+.|.-|+||||+++.+++..
T Consensus         6 ~~t~~l~~~l~~~l-----~~~~~i~l~G~lGaGKTtl~~~l~~~l   46 (133)
T TIGR00150         6 KAMDKFGKAFAKPL-----DFGTVVLLKGDLGAGKTTLVQGLLQGL   46 (133)
T ss_pred             HHHHHHHHHHHHhC-----CCCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            44555555554322     234589999999999999999998753

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.

>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=95.58  E-value=0.017  Score=55.39  Aligned_cols=64  Identities=22%  Similarity=0.223  Sum_probs=37.2

Q ss_pred             HHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHH
Q 036323          188 EMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVA  256 (583)
Q Consensus       188 e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~  256 (583)
                      +..++++.+....     ++..+|+|.|+||+|||||...+....+..++=-.++=|+-|.+++--.++
T Consensus        14 ~~~~ll~~l~~~~-----g~a~~iGiTG~PGaGKSTli~~l~~~~~~~g~~VaVlAVDPSSp~tGGAlL   77 (266)
T PF03308_consen   14 EARELLKRLYPHT-----GRAHVIGITGPPGAGKSTLIDALIRELRERGKRVAVLAVDPSSPFTGGALL   77 (266)
T ss_dssp             HHHHHHHHHGGGT-----T-SEEEEEEE-TTSSHHHHHHHHHHHHHHTT--EEEEEE-GGGGCC---SS
T ss_pred             HHHHHHHHHHhhc-----CCceEEEeeCCCCCcHHHHHHHHHHHHhhcCCceEEEEECCCCCCCCCccc
Confidence            4556666665433     457899999999999999998887643333333345555555555544433

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.

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=95.57  E-value=0.11  Score=49.00  Aligned_cols=24  Identities=42%  Similarity=0.559  Sum_probs=21.3

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+++|+|+.|+|||||.+.++.-
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~l~Gl   49 (205)
T cd03226          26 GEIIALTGKNGAGKTTLAKILAGL   49 (205)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            458999999999999999999763

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.

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=95.57  E-value=0.093  Score=48.39  Aligned_cols=118  Identities=17%  Similarity=0.012  Sum_probs=62.2

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCC---CCChHHHHHHHH--HH--hhcC-----cccc---cc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSD---PFDEFNVAKATI--EE--LEGS-----AIDL---HE  272 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~---~~~~~~~~~~il--~~--l~~~-----~~~~---~~  272 (583)
                      ...|.|+|..|-||||.|..+.-.  ...+=..+..+..-.   .......+..+-  .-  .+..     ....   ..
T Consensus        22 ~g~v~v~~g~GkGKtt~a~g~a~r--a~g~G~~V~ivQFlKg~~~~GE~~~l~~l~~v~~~~~g~~~~~~~~~~~e~~~~   99 (191)
T PRK05986         22 KGLLIVHTGNGKGKSTAAFGMALR--AVGHGKKVGVVQFIKGAWSTGERNLLEFGGGVEFHVMGTGFTWETQDRERDIAA   99 (191)
T ss_pred             CCeEEEECCCCCChHHHHHHHHHH--HHHCCCeEEEEEEecCCCccCHHHHHhcCCCcEEEECCCCCcccCCCcHHHHHH
Confidence            468889999999999999665442  111111222222221   223333333210  00  0000     0011   11


Q ss_pred             HHHHHHHHHHHhcCCc-eeEEEcCCCc---ccccchHhhHHhhccCCCCceEEEecCch
Q 036323          273 LNSLLRRIGANIAGQK-FFMVLDNLWT---DDYRKWEPFRNCLMNGLRGSKILITTRKE  327 (583)
Q Consensus       273 ~~~~~~~l~~~l~~k~-~LlVlDdv~~---~~~~~~~~l~~~l~~~~~gs~IlvTtR~~  327 (583)
                      ........++.+...+ =|||||.+-.   ...-..+.+...+...+.+.-||+|-|+.
T Consensus       100 ~~~~~~~a~~~l~~~~ydlvVLDEi~~Al~~gli~~eevi~~L~~rp~~~evVlTGR~~  158 (191)
T PRK05986        100 AREGWEEAKRMLADESYDLVVLDELTYALKYGYLDVEEVLEALNARPGMQHVVITGRGA  158 (191)
T ss_pred             HHHHHHHHHHHHhCCCCCEEEEehhhHHHHCCCccHHHHHHHHHcCCCCCEEEEECCCC
Confidence            2233444455554444 4999999832   11224556777776667788999999975

>PRK04328 hypothetical protein; Provisional

Probab=95.56  E-value=0.05  Score=53.12  Aligned_cols=42  Identities=19%  Similarity=0.194  Sum_probs=30.6

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCC
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDP  249 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~  249 (583)
                      +...++.|.|.+|+|||+|+.++...  ....-...+|++....
T Consensus        21 p~gs~ili~G~pGsGKT~l~~~fl~~--~~~~ge~~lyis~ee~   62 (249)
T PRK04328         21 PERNVVLLSGGPGTGKSIFSQQFLWN--GLQMGEPGVYVALEEH   62 (249)
T ss_pred             cCCcEEEEEcCCCCCHHHHHHHHHHH--HHhcCCcEEEEEeeCC
Confidence            45779999999999999999887653  1122345678877653

>PRK06547 hypothetical protein; Provisional

Probab=95.55  E-value=0.017  Score=52.93  Aligned_cols=26  Identities=31%  Similarity=0.311  Sum_probs=23.1

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcC
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ....+|+|.|.+|+||||+|+.+.+.
T Consensus        13 ~~~~~i~i~G~~GsGKTt~a~~l~~~   38 (172)
T PRK06547         13 GGMITVLIDGRSGSGKTTLAGALAAR   38 (172)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            45789999999999999999999774

>cd03251 ABCC_MsbA MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins

Probab=95.55  E-value=0.17  Score=48.91  Aligned_cols=25  Identities=32%  Similarity=0.437  Sum_probs=21.4

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...+++|+|..|+|||||++.++.-
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   51 (234)
T cd03251          27 AGETVALVGPSGSGKSTLVNLIPRF   51 (234)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcc
Confidence            3458999999999999999998753

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.

>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=95.54  E-value=0.015  Score=51.96  Aligned_cols=36  Identities=25%  Similarity=0.178  Sum_probs=25.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEE
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVC  245 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~  245 (583)
                      ..+|-|+|.+|+||||||+.+.+.  ....-..+.+++
T Consensus         2 g~vIwltGlsGsGKtTlA~~L~~~--L~~~g~~~~~LD   37 (156)
T PF01583_consen    2 GFVIWLTGLSGSGKTTLARALERR--LFARGIKVYLLD   37 (156)
T ss_dssp             -EEEEEESSTTSSHHHHHHHHHHH--HHHTTS-EEEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEec
Confidence            468999999999999999999874  333333445554

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 ....

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=95.52  E-value=0.063  Score=53.06  Aligned_cols=89  Identities=17%  Similarity=0.113  Sum_probs=47.0

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCCh--HHHHHHHHHHhhcCc---cccccH-HHHHHH
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDE--FNVAKATIEELEGSA---IDLHEL-NSLLRR  279 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~--~~~~~~il~~l~~~~---~~~~~~-~~~~~~  279 (583)
                      ...+++.++|++|+||||++..++...  ...-..+.+++... +..  .+-+....+..+...   ....+. ......
T Consensus        70 ~~~~vi~l~G~~G~GKTTt~akLA~~l--~~~g~~V~li~~D~-~r~~a~~ql~~~~~~~~i~~~~~~~~~dp~~~~~~~  146 (272)
T TIGR00064        70 NKPNVILFVGVNGVGKTTTIAKLANKL--KKQGKSVLLAAGDT-FRAAAIEQLEEWAKRLGVDVIKQKEGADPAAVAFDA  146 (272)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHH--HhcCCEEEEEeCCC-CCHHHHHHHHHHHHhCCeEEEeCCCCCCHHHHHHHH
Confidence            346899999999999999998887632  22223455555432 221  233333444443221   011122 222333


Q ss_pred             HHHHhcCCceeEEEcCCC
Q 036323          280 IGANIAGQKFFMVLDNLW  297 (583)
Q Consensus       280 l~~~l~~k~~LlVlDdv~  297 (583)
                      +........=++++|-.-
T Consensus       147 l~~~~~~~~D~ViIDT~G  164 (272)
T TIGR00064       147 IQKAKARNIDVVLIDTAG  164 (272)
T ss_pred             HHHHHHCCCCEEEEeCCC
Confidence            444334445588889873

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.

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=95.52  E-value=0.08  Score=52.04  Aligned_cols=89  Identities=13%  Similarity=0.124  Sum_probs=45.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCC-ChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhc-
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPF-DEFNVAKATIEELEGSAIDLHELNSLLRRIGANIA-  285 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~-  285 (583)
                      ..+++++|.+|+||||++..+....  ...-..+.+++..... .....+....+.++.......+...+...+...-. 
T Consensus        75 ~~~i~~~G~~g~GKTtl~~~l~~~l--~~~~~~v~~i~~D~~ri~~~~ql~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~  152 (270)
T PRK06731         75 VQTIALIGPTGVGKTTTLAKMAWQF--HGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEE  152 (270)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHHHH--HHcCCeEEEEecCCCCHHHHHHHHHHhhhcCceEEecCCHHHHHHHHHHHHhc
Confidence            4689999999999999998876532  1111234445443221 12222233333333221122333444444433212 


Q ss_pred             CCceeEEEcCCCc
Q 036323          286 GQKFFMVLDNLWT  298 (583)
Q Consensus       286 ~k~~LlVlDdv~~  298 (583)
                      .+.=++++|..-.
T Consensus       153 ~~~D~ViIDt~Gr  165 (270)
T PRK06731        153 ARVDYILIDTAGK  165 (270)
T ss_pred             CCCCEEEEECCCC
Confidence            2456889998743

>cd03220 ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export

Probab=95.48  E-value=0.11  Score=49.93  Aligned_cols=24  Identities=33%  Similarity=0.455  Sum_probs=21.5

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+++|.|..|+|||||++.+...
T Consensus        48 Ge~~~i~G~nGsGKSTLl~~l~G~   71 (224)
T cd03220          48 GERIGLIGRNGAGKSTLLRLLAGI   71 (224)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999999873

Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and teichoic acids have been shown to be exported by ABC transporters. A typical system is made of a conserved integral membrane and an ABC. In addition to these proteins, capsular polysaccharide exporter systems require two 'accessory' proteins to perform their function: a periplasmic (E.coli) or a lipid-anchored outer membrane protein called OMA (Neisseria meningitidis and Haemophilus influenzae) and a cytoplasmic membrane protein MPA2.

>cd03282 ABC_MSH4_euk MutS4 homolog in eukaryotes

Probab=95.47  E-value=0.028  Score=52.96  Aligned_cols=118  Identities=14%  Similarity=0.140  Sum_probs=57.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCcccc-------ccHHHHHHHH
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDL-------HELNSLLRRI  280 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~-------~~~~~~~~~l  280 (583)
                      .+++.|.|+.|.||||+.+.+.... +..+.  ..++....  ....+...++..+.......       .+..++.. +
T Consensus        29 ~~~~~l~G~n~~GKstll~~i~~~~-~la~~--G~~vpa~~--~~l~~~d~I~~~~~~~d~~~~~~S~fs~e~~~~~~-i  102 (204)
T cd03282          29 SRFHIITGPNMSGKSTYLKQIALLA-IMAQI--GCFVPAEY--ATLPIFNRLLSRLSNDDSMERNLSTFASEMSETAY-I  102 (204)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH-HHHHc--CCCcchhh--cCccChhheeEecCCccccchhhhHHHHHHHHHHH-H
Confidence            4789999999999999998875421 11111  11111110  01122223333332221110       01112211 1


Q ss_pred             HHHhcCCceeEEEcCCCccc-ccc----hHhhHHhhccCCCCceEEEecCchHHHhhhc
Q 036323          281 GANIAGQKFFMVLDNLWTDD-YRK----WEPFRNCLMNGLRGSKILITTRKETVARMME  334 (583)
Q Consensus       281 ~~~l~~k~~LlVlDdv~~~~-~~~----~~~l~~~l~~~~~gs~IlvTtR~~~v~~~~~  334 (583)
                      .. +..++-|+++|...... ..+    ...+...+..  .|+.+|++|-....+..+.
T Consensus       103 l~-~~~~~~lvllDE~~~gt~~~~~~~l~~~il~~l~~--~~~~~i~~TH~~~l~~~~~  158 (204)
T cd03282         103 LD-YADGDSLVLIDELGRGTSSADGFAISLAILECLIK--KESTVFFATHFRDIAAILG  158 (204)
T ss_pred             HH-hcCCCcEEEeccccCCCCHHHHHHHHHHHHHHHHh--cCCEEEEECChHHHHHHhh
Confidence            11 23567899999974321 111    1122333332  3788999999988876554

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

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

Probab=95.47  E-value=0.036  Score=49.42  Aligned_cols=22  Identities=32%  Similarity=0.576  Sum_probs=19.5

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ++.|+|.+|+||||||+.+...
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~   22 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEK   22 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHH
Confidence            4789999999999999998773

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

>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=95.46  E-value=0.18  Score=48.75  Aligned_cols=24  Identities=33%  Similarity=0.595  Sum_probs=21.2

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...+++|+|..|+|||||++.+..
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~G   50 (237)
T cd03252          27 PGEVVGIVGRSGSGKSTLTKLIQR   50 (237)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            345899999999999999999875

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.

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=95.45  E-value=0.051  Score=60.81  Aligned_cols=85  Identities=18%  Similarity=0.099  Sum_probs=55.4

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCcc-----ccccHHHHHHHH
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAI-----DLHELNSLLRRI  280 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~-----~~~~~~~~~~~l  280 (583)
                      +..+++-|.|.+|+|||||+.+++..  ....-..++|++..+.++..     .+++++....     .....+.....+
T Consensus        58 p~GsiteI~G~~GsGKTtLal~~~~~--a~~~G~~v~yId~E~t~~~~-----~A~~lGvDl~~llv~~~~~~E~~l~~i  130 (790)
T PRK09519         58 PRGRVIEIYGPESSGKTTVALHAVAN--AQAAGGVAAFIDAEHALDPD-----YAKKLGVDTDSLLVSQPDTGEQALEIA  130 (790)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEECCccchhHH-----HHHHcCCChhHeEEecCCCHHHHHHHH
Confidence            55789999999999999999776552  22223457898887766632     4555554321     223345555555


Q ss_pred             HHHhc-CCceeEEEcCCC
Q 036323          281 GANIA-GQKFFMVLDNLW  297 (583)
Q Consensus       281 ~~~l~-~k~~LlVlDdv~  297 (583)
                      ...++ ++.-|||+|.+-
T Consensus       131 ~~lv~~~~~~LVVIDSI~  148 (790)
T PRK09519        131 DMLIRSGALDIVVIDSVA  148 (790)
T ss_pred             HHHhhcCCCeEEEEcchh
Confidence            55554 356699999984

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=95.45  E-value=0.067  Score=55.28  Aligned_cols=84  Identities=19%  Similarity=0.158  Sum_probs=49.3

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCcc-----ccccHHHHHHHH
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAI-----DLHELNSLLRRI  280 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~-----~~~~~~~~~~~l  280 (583)
                      ....++.|.|.+|+|||||+.+++..  ....-..++|++....  ...+ ..-+..++....     ...+.+.+.+.+
T Consensus        80 ~~GslvLI~G~pG~GKStLllq~a~~--~a~~g~~VlYvs~EEs--~~qi-~~Ra~rlg~~~~~l~l~~e~~le~I~~~i  154 (372)
T cd01121          80 VPGSVILIGGDPGIGKSTLLLQVAAR--LAKRGGKVLYVSGEES--PEQI-KLRADRLGISTENLYLLAETNLEDILASI  154 (372)
T ss_pred             cCCeEEEEEeCCCCCHHHHHHHHHHH--HHhcCCeEEEEECCcC--HHHH-HHHHHHcCCCcccEEEEccCcHHHHHHHH
Confidence            34579999999999999999988763  2222245677765432  2222 222334433221     123344444444


Q ss_pred             HHHhcCCceeEEEcCCC
Q 036323          281 GANIAGQKFFMVLDNLW  297 (583)
Q Consensus       281 ~~~l~~k~~LlVlDdv~  297 (583)
                      .   ..+.-+||+|.+.
T Consensus       155 ~---~~~~~lVVIDSIq  168 (372)
T cd01121         155 E---ELKPDLVIIDSIQ  168 (372)
T ss_pred             H---hcCCcEEEEcchH
Confidence            3   2466789999983

This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=95.45  E-value=0.034  Score=60.50  Aligned_cols=135  Identities=16%  Similarity=0.057  Sum_probs=70.5

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      -..++|....+.++.+.+..-.     .....|.|+|..|+||+.||+.++.....  .-...+.+++..-.  ...+. 
T Consensus       203 f~~~ig~s~~~~~~~~~~~~~A-----~~~~pvlI~GE~GtGK~~lA~aiH~~s~r--~~~pfv~inca~~~--~~~~e-  272 (520)
T PRK10820        203 FSQIVAVSPKMRQVVEQARKLA-----MLDAPLLITGDTGTGKDLLAYACHLRSPR--GKKPFLALNCASIP--DDVVE-  272 (520)
T ss_pred             ccceeECCHHHHHHHHHHHHHh-----CCCCCEEEECCCCccHHHHHHHHHHhCCC--CCCCeEEeccccCC--HHHHH-
Confidence            3468999988888877764322     12334779999999999999998753211  11223445554432  12221 


Q ss_pred             HHHHhhcCcccc-ccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccCC-----------CCceEEEecCc
Q 036323          259 TIEELEGSAIDL-HELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGL-----------RGSKILITTRK  326 (583)
Q Consensus       259 il~~l~~~~~~~-~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~IlvTtR~  326 (583)
                        ..+.+..... ........-+.+  ....=.|+||+++.-.......|...+..+.           ...+||.||..
T Consensus       273 --~elFG~~~~~~~~~~~~~~g~~e--~a~~GtL~LdeI~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~vRiI~st~~  348 (520)
T PRK10820        273 --SELFGHAPGAYPNALEGKKGFFE--QANGGSVLLDEIGEMSPRMQAKLLRFLNDGTFRRVGEDHEVHVDVRVICATQK  348 (520)
T ss_pred             --HHhcCCCCCCcCCcccCCCChhh--hcCCCEEEEeChhhCCHHHHHHHHHHHhcCCcccCCCCcceeeeeEEEEecCC
Confidence              1222211100 000000000000  1223457899997655555566666664321           13478887764


Q ss_pred             h
Q 036323          327 E  327 (583)
Q Consensus       327 ~  327 (583)
                      .
T Consensus       349 ~  349 (520)
T PRK10820        349 N  349 (520)
T ss_pred             C
Confidence            3

>TIGR03740 galliderm_ABC gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit

Probab=95.42  E-value=0.18  Score=48.29  Aligned_cols=24  Identities=25%  Similarity=0.426  Sum_probs=21.2

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+++|+|..|+|||||.+.+...
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~l~G~   49 (223)
T TIGR03740        26 NSVYGLLGPNGAGKSTLLKMITGI   49 (223)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999998763

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.

>PTZ00088 adenylate kinase 1; Provisional

Probab=95.40  E-value=0.016  Score=55.72  Aligned_cols=22  Identities=32%  Similarity=0.548  Sum_probs=19.5

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      -|.|.|++|+||||+|+.+.+.
T Consensus         8 rIvl~G~PGsGK~T~a~~La~~   29 (229)
T PTZ00088          8 KIVLFGAPGVGKGTFAEILSKK   29 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            3889999999999999998773

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=95.40  E-value=0.11  Score=58.30  Aligned_cols=24  Identities=33%  Similarity=0.527  Sum_probs=20.9

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ....|+|+|..|+|||||++.+..
T Consensus       498 ~Ge~vaIvG~SGsGKSTL~KLL~g  521 (709)
T COG2274         498 PGEKVAIVGRSGSGKSTLLKLLLG  521 (709)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            345899999999999999999854

>cd03231 ABC_CcmA_heme_exporter CcmA, the ATP-binding component of the bacterial CcmAB transporter

Probab=95.39  E-value=0.13  Score=48.31  Aligned_cols=25  Identities=28%  Similarity=0.363  Sum_probs=21.6

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...+++|+|..|.|||||.+.+..-
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~G~   49 (201)
T cd03231          25 AGEALQVTGPNGSGKTTLLRILAGL   49 (201)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3568999999999999999988753

The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH). CcmE is a periplasmic heme chaperone that binds heme covalently and transfers it onto apocytochrome c in the presence of CcmF, CcmG, and CcmH. The CcmAB proteins represent an ABC transporter and the CcmCD proteins participate in heme transfer to CcmE.

>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance

Probab=95.38  E-value=0.081  Score=50.07  Aligned_cols=24  Identities=29%  Similarity=0.455  Sum_probs=21.3

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...+++|+|..|+|||||.+.+..
T Consensus        25 ~G~~~~i~G~nGsGKSTLl~~l~G   48 (208)
T cd03268          25 KGEIYGFLGPNGAGKTTTMKIILG   48 (208)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhC
Confidence            346899999999999999999975

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.

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=95.38  E-value=0.13  Score=48.67  Aligned_cols=21  Identities=33%  Similarity=0.583  Sum_probs=19.9

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 036323          210 IISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      +++|+|..|+|||||++.++.
T Consensus        27 ~~~i~G~nGsGKSTLl~~l~G   47 (211)
T cd03264          27 MYGLLGPNGAGKTTLMRILAT   47 (211)
T ss_pred             cEEEECCCCCCHHHHHHHHhC
Confidence            899999999999999999975

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.

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=95.37  E-value=0.1  Score=50.03  Aligned_cols=42  Identities=21%  Similarity=0.262  Sum_probs=30.1

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCC
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDP  249 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~  249 (583)
                      +...++.|.|.+|+|||++|.+++..  ....=..+++++....
T Consensus        14 ~~g~~~li~G~~G~GKt~~~~~~~~~--~~~~g~~~~y~s~e~~   55 (224)
T TIGR03880        14 PEGHVIVVIGEYGTGKTTFSLQFLYQ--GLKNGEKAMYISLEER   55 (224)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH--HHhCCCeEEEEECCCC
Confidence            45679999999999999999888753  1122245677777653

This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=95.36  E-value=0.036  Score=48.94  Aligned_cols=44  Identities=23%  Similarity=0.271  Sum_probs=32.0

Q ss_pred             EEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGS  266 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~  266 (583)
                      +|.|.|++|+||||+|+.+.++....    .         .+.-.++++|++..+.+
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~gl~----~---------vsaG~iFR~~A~e~gms   45 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHLGLK----L---------VSAGTIFREMARERGMS   45 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHhCCc----e---------eeccHHHHHHHHHcCCC
Confidence            68899999999999999998842211    0         12335788888877654

>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]

Probab=95.34  E-value=0.13  Score=58.17  Aligned_cols=130  Identities=17%  Similarity=0.149  Sum_probs=76.7

Q ss_pred             hhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhc
Q 036323          186 DEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEG  265 (583)
Q Consensus       186 ~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~  265 (583)
                      .....+|.+.+..         ..++.|.|..|+||||-.-+++-+.-.  .....+-+.-........+...+.+.++.
T Consensus        52 ~~~~~~i~~ai~~---------~~vvii~getGsGKTTqlP~~lle~g~--~~~g~I~~tQPRRlAArsvA~RvAeel~~  120 (845)
T COG1643          52 TAVRDEILKAIEQ---------NQVVIIVGETGSGKTTQLPQFLLEEGL--GIAGKIGCTQPRRLAARSVAERVAEELGE  120 (845)
T ss_pred             HHHHHHHHHHHHh---------CCEEEEeCCCCCChHHHHHHHHHhhhc--ccCCeEEecCchHHHHHHHHHHHHHHhCC
Confidence            3467888888843         459999999999999998776653221  12234444444445666778888888876


Q ss_pred             Cccc-------------------cccHHHHHHHHH-HHhcCCceeEEEcCCCcccccchHhhHHh----hccCCCCceEE
Q 036323          266 SAID-------------------LHELNSLLRRIG-ANIAGQKFFMVLDNLWTDDYRKWEPFRNC----LMNGLRGSKIL  321 (583)
Q Consensus       266 ~~~~-------------------~~~~~~~~~~l~-~~l~~k~~LlVlDdv~~~~~~~~~~l~~~----l~~~~~gs~Il  321 (583)
                      ...+                   ......+.+.++ +.+-.+=-.+|+|.+++... .-+-++..    +....+.-|||
T Consensus       121 ~~G~~VGY~iRfe~~~s~~Trik~mTdGiLlrei~~D~~Ls~ys~vIiDEaHERSl-~tDilLgllk~~~~~rr~DLKiI  199 (845)
T COG1643         121 KLGETVGYSIRFESKVSPRTRIKVMTDGILLREIQNDPLLSGYSVVIIDEAHERSL-NTDILLGLLKDLLARRRDDLKLI  199 (845)
T ss_pred             CcCceeeEEEEeeccCCCCceeEEeccHHHHHHHhhCcccccCCEEEEcchhhhhH-HHHHHHHHHHHHHhhcCCCceEE
Confidence            4210                   112344444444 22233445899999976432 11222222    22233358999


Q ss_pred             EecCch
Q 036323          322 ITTRKE  327 (583)
Q Consensus       322 vTtR~~  327 (583)
                      |+|-.-
T Consensus       200 imSATl  205 (845)
T COG1643         200 IMSATL  205 (845)
T ss_pred             EEeccc
Confidence            998754

>PRK06002 fliI flagellum-specific ATP synthase; Validated

Probab=95.33  E-value=0.061  Score=56.39  Aligned_cols=87  Identities=14%  Similarity=0.158  Sum_probs=48.2

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcC------cccccc-----HHH
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGS------AIDLHE-----LNS  275 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~------~~~~~~-----~~~  275 (583)
                      ....++|+|..|+|||||++.+....   .....++++.-....+..++....+......      ..+...     ...
T Consensus       164 ~Gqri~I~G~SGsGKTTLL~~Ia~l~---~pd~gvv~liGergrev~e~~~~~l~~~r~rtI~vV~qsd~~~~~r~~~~~  240 (450)
T PRK06002        164 AGQRIGIFAGSGVGKSTLLAMLARAD---AFDTVVIALVGERGREVREFLEDTLADNLKKAVAVVATSDESPMMRRLAPL  240 (450)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC---CCCeeeeeecccCCccHHHHhHHHHHHhhCCeEEEEEcCCCCHHHHHHHHH
Confidence            35579999999999999999887632   1223445544333444544444443332111      011100     111


Q ss_pred             HHHHHHHHh--cCCceeEEEcCC
Q 036323          276 LLRRIGANI--AGQKFFMVLDNL  296 (583)
Q Consensus       276 ~~~~l~~~l--~~k~~LlVlDdv  296 (583)
                      ..-.+.+++  +++.+||++||+
T Consensus       241 ~a~~iAEyfrd~G~~Vll~~Dsl  263 (450)
T PRK06002        241 TATAIAEYFRDRGENVLLIVDSV  263 (450)
T ss_pred             HHHHHHHHHHHcCCCEEEeccch
Confidence            122233333  488999999998

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=95.32  E-value=0.13  Score=50.04  Aligned_cols=25  Identities=32%  Similarity=0.561  Sum_probs=22.0

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...+++|+|..|+|||||++.+...
T Consensus        24 ~Ge~~~i~G~NGsGKSTLlk~L~G~   48 (246)
T cd03237          24 ESEVIGILGPNGIGKTTFIKMLAGV   48 (246)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3468999999999999999999774

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.

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=95.28  E-value=0.055  Score=55.06  Aligned_cols=95  Identities=16%  Similarity=0.137  Sum_probs=57.8

Q ss_pred             HHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCcc
Q 036323          189 MRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAI  268 (583)
Q Consensus       189 ~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~  268 (583)
                      ..++-..|-..     --...++.|-|.+|||||||..++..+  ....- .+++|+-.+.  ... .+--...++....
T Consensus        79 ~~EldRVLGGG-----~V~Gs~iLIgGdPGIGKSTLLLQva~~--lA~~~-~vLYVsGEES--~~Q-iklRA~RL~~~~~  147 (456)
T COG1066          79 IEELDRVLGGG-----LVPGSVILIGGDPGIGKSTLLLQVAAR--LAKRG-KVLYVSGEES--LQQ-IKLRADRLGLPTN  147 (456)
T ss_pred             hHHHHhhhcCC-----cccccEEEEccCCCCCHHHHHHHHHHH--HHhcC-cEEEEeCCcC--HHH-HHHHHHHhCCCcc
Confidence            45555555322     134568999999999999999998874  33333 5666665443  222 2223445543322


Q ss_pred             -----ccccHHHHHHHHHHHhcCCceeEEEcCCC
Q 036323          269 -----DLHELNSLLRRIGANIAGQKFFMVLDNLW  297 (583)
Q Consensus       269 -----~~~~~~~~~~~l~~~l~~k~~LlVlDdv~  297 (583)
                           ...+++.+.+.+.+   .++-|+|+|-+.
T Consensus       148 ~l~l~aEt~~e~I~~~l~~---~~p~lvVIDSIQ  178 (456)
T COG1066         148 NLYLLAETNLEDIIAELEQ---EKPDLVVIDSIQ  178 (456)
T ss_pred             ceEEehhcCHHHHHHHHHh---cCCCEEEEeccc
Confidence                 23456666655554   688899999984

>PRK03839 putative kinase; Provisional

Probab=95.27  E-value=0.012  Score=54.28  Aligned_cols=22  Identities=41%  Similarity=0.711  Sum_probs=20.0

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .|.|.|++|+||||+++.+++.
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~   23 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEK   23 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999999884

>cd03249 ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1

Probab=95.26  E-value=0.29  Score=47.34  Aligned_cols=25  Identities=28%  Similarity=0.414  Sum_probs=21.9

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...+++|+|..|+|||||++.+..-
T Consensus        28 ~Ge~~~l~G~nGsGKSTLl~~i~G~   52 (238)
T cd03249          28 PGKTVALVGSSGCGKSTVVSLLERF   52 (238)
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHhcc
Confidence            3469999999999999999999763

In fact, the yeast MDL1 (multidrug resistance-like protein 1) and MDL2 (multidrug resistance-like protein 2) transporters are also included in this CD. MDL1 is an ATP-dependent permease that acts as a high-copy suppressor of ATM1 and is thought to have a role in resistance to oxidative stress. Interestingly, subfamily B is more closely related to the carboxyl-terminal component of subfamily C than the two halves of ABCC molecules are with one another.

>PRK06217 hypothetical protein; Validated

Probab=95.26  E-value=0.06  Score=49.85  Aligned_cols=23  Identities=30%  Similarity=0.349  Sum_probs=20.4

Q ss_pred             EEEEEecCCchHHHHHHHHHcCc
Q 036323          210 IISMVGMGGIGKTTLAQLAYNDN  232 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~~  232 (583)
                      .|.|.|.+|+||||||+.+....
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l   25 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERL   25 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            48899999999999999998753

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=95.25  E-value=0.025  Score=48.15  Aligned_cols=47  Identities=21%  Similarity=0.328  Sum_probs=32.2

Q ss_pred             ceeechhHH----HHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          181 EVRGRDEEM----RSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       181 ~~vGR~~e~----~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      +++|..-..    +.|...+...    ...++-|++.+|.+|+|||.+++.++++
T Consensus        26 ~l~GQhla~~~v~~ai~~~l~~~----~p~KpLVlSfHG~tGtGKn~v~~liA~~   76 (127)
T PF06309_consen   26 NLFGQHLAVEVVVNAIKGHLANP----NPRKPLVLSFHGWTGTGKNFVSRLIAEH   76 (127)
T ss_pred             HccCcHHHHHHHHHHHHHHHcCC----CCCCCEEEEeecCCCCcHHHHHHHHHHH
Confidence            345554444    4444455333    3567889999999999999988777654

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

>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic

Probab=95.23  E-value=0.055  Score=54.89  Aligned_cols=21  Identities=29%  Similarity=0.389  Sum_probs=18.7

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      +.+.|++|+||||+++.+.+.
T Consensus         2 ~~l~Gl~GaGKST~~~~l~~~   22 (340)
T TIGR03575         2 CVLCGLPAAGKSTLARSLSAT   22 (340)
T ss_pred             eEEECCCCCCHHHHHHHHHHH
Confidence            578999999999999988864

Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents eukaryotic proteins with this activity.

>TIGR01069 mutS2 MutS2 family protein

Probab=95.23  E-value=0.013  Score=66.25  Aligned_cols=23  Identities=17%  Similarity=0.148  Sum_probs=20.4

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .+++.|+|+.|.|||||.+.+..
T Consensus       322 ~~~liItGpNg~GKSTlLK~i~~  344 (771)
T TIGR01069       322 KRVLAITGPNTGGKTVTLKTLGL  344 (771)
T ss_pred             ceEEEEECCCCCCchHHHHHHHH
Confidence            47899999999999999988754

Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.

>PRK04040 adenylate kinase; Provisional

Probab=95.21  E-value=0.015  Score=54.11  Aligned_cols=24  Identities=29%  Similarity=0.612  Sum_probs=21.4

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+|+|+|++|+||||+++.+.+.
T Consensus         2 ~~~i~v~G~pG~GKtt~~~~l~~~   25 (188)
T PRK04040          2 MKVVVVTGVPGVGKTTVLNKALEK   25 (188)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHH
Confidence            458999999999999999998873

>KOG3928 consensus Mitochondrial ribosome small subunit component, mediator of apoptosis DAP3 [Translation, ribosomal structure and biogenesis]

Probab=95.18  E-value=0.43  Score=48.67  Aligned_cols=60  Identities=13%  Similarity=0.025  Sum_probs=35.3

Q ss_pred             cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhhhhhh
Q 036323          334 ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLL  394 (583)
Q Consensus       334 ~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~~~L  394 (583)
                      ....++++...+.+|+.++..-+.-..-.....+ -++--+++.-..+|+|--+..++..+
T Consensus       401 qpf~pi~v~nYt~~E~~~~i~YYl~~nwl~kkv~-~Ee~~kql~fLSngNP~l~~~lca~~  460 (461)
T KOG3928|consen  401 QPFVPIEVENYTLDEFEALIDYYLQSNWLLKKVP-GEENIKQLYFLSNGNPSLMERLCAFL  460 (461)
T ss_pred             cCcCccccCCCCHHHHHHHHHHHHHhhHHHhhcC-cccchhhhhhhcCCCHHHHHHHHHhc
Confidence            3466788999999999888766542211110001 02334556777789996555555443

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=95.18  E-value=0.015  Score=54.10  Aligned_cols=23  Identities=35%  Similarity=0.401  Sum_probs=21.1

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .++|.|.|++|+||||+|+.+..
T Consensus         3 ~~ii~i~G~~GsGKsTl~~~l~~   25 (188)
T TIGR01360         3 CKIIFIVGGPGSGKGTQCEKIVE   25 (188)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            56899999999999999999886

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.

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=95.17  E-value=0.081  Score=49.31  Aligned_cols=41  Identities=24%  Similarity=0.242  Sum_probs=26.5

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccC--------ceEEEEEeCCC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYNDNDVINNF--------EIRVRVCVSDP  249 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f--------~~~~wv~~~~~  249 (583)
                      .++.|.|.+|+|||+++..+.........|        ..++|++....
T Consensus        33 ~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~   81 (193)
T PF13481_consen   33 ELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS   81 (193)
T ss_dssp             SEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS-
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC
Confidence            488899999999999998876542222222        35677776654

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=95.15  E-value=0.19  Score=47.80  Aligned_cols=25  Identities=28%  Similarity=0.304  Sum_probs=21.7

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...+++|+|..|.|||||.+.+...
T Consensus        36 ~Ge~~~i~G~nGsGKSTLl~~i~G~   60 (214)
T PRK13543         36 AGEALLVQGDNGAGKTTLLRVLAGL   60 (214)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCC
Confidence            3458999999999999999999764

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

Probab=95.15  E-value=0.42  Score=52.50  Aligned_cols=173  Identities=17%  Similarity=0.146  Sum_probs=0.0

Q ss_pred             echhHHHHHHHHhhc-----CCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          184 GRDEEMRSIKSMLLC-----QGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       184 GR~~e~~~l~~~L~~-----~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      |-++-+.+|.+-+.-     .-...+-.+..=|.++|++|.|||-||++|+..-.       .-|++|-.+        +
T Consensus       676 GLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATEcs-------L~FlSVKGP--------E  740 (953)
T KOG0736|consen  676 GLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATECS-------LNFLSVKGP--------E  740 (953)
T ss_pred             CHHHHHHHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhhce-------eeEEeecCH--------H


Q ss_pred             HHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCc---------ccccchHhhHHhh--------ccCCCCceEE
Q 036323          259 TIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWT---------DDYRKWEPFRNCL--------MNGLRGSKIL  321 (583)
Q Consensus       259 il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~---------~~~~~~~~l~~~l--------~~~~~gs~Il  321 (583)
                      ++..--++  ...++.+..++-+..   ++++|.||.+++         +.-...+.+.+.|        .....+.-||
T Consensus       741 LLNMYVGq--SE~NVR~VFerAR~A---~PCVIFFDELDSlAP~RG~sGDSGGVMDRVVSQLLAELDgls~~~s~~VFVi  815 (953)
T KOG0736|consen  741 LLNMYVGQ--SEENVREVFERARSA---APCVIFFDELDSLAPNRGRSGDSGGVMDRVVSQLLAELDGLSDSSSQDVFVI  815 (953)
T ss_pred             HHHHHhcc--hHHHHHHHHHHhhcc---CCeEEEeccccccCccCCCCCCccccHHHHHHHHHHHhhcccCCCCCceEEE


Q ss_pred             EecCchHHHhh--hcC---CCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhC
Q 036323          322 ITTRKETVARM--MES---TDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKC  380 (583)
Q Consensus       322 vTtR~~~v~~~--~~~---~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c  380 (583)
                      =.|..+++...  +.+   .+.+.+++=+++++..=..+..-..-.-.+.-.+.+    |+++|
T Consensus       816 GATNRPDLLDpALLRPGRFDKLvyvG~~~d~esk~~vL~AlTrkFkLdedVdL~e----iAk~c  875 (953)
T KOG0736|consen  816 GATNRPDLLDPALLRPGRFDKLVYVGPNEDAESKLRVLEALTRKFKLDEDVDLVE----IAKKC  875 (953)
T ss_pred             ecCCCccccChhhcCCCccceeEEecCCccHHHHHHHHHHHHHHccCCCCcCHHH----HHhhC

>PRK09544 znuC high-affinity zinc transporter ATPase; Reviewed

Probab=95.14  E-value=0.17  Score=49.55  Aligned_cols=25  Identities=28%  Similarity=0.525  Sum_probs=21.9

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...+++|+|..|+|||||++.++.-
T Consensus        29 ~Ge~~~I~G~NGsGKSTLl~~i~Gl   53 (251)
T PRK09544         29 PGKILTLLGPNGAGKSTLVRVVLGL   53 (251)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCC
Confidence            3458999999999999999999864

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

Probab=95.12  E-value=0.025  Score=55.73  Aligned_cols=23  Identities=30%  Similarity=0.291  Sum_probs=18.0

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      +.|.|+|.||+||||+|+.+...
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~~   24 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKKY   24 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHHH
T ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Confidence            57899999999999999998773

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

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

Probab=95.12  E-value=0.027  Score=54.14  Aligned_cols=86  Identities=23%  Similarity=0.247  Sum_probs=50.4

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCcccccc-CceEEEEEeCCCCChHHHHHHHHHHhhcC---------------ccc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINN-FEIRVRVCVSDPFDEFNVAKATIEELEGS---------------AID  269 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~-f~~~~wv~~~~~~~~~~~~~~il~~l~~~---------------~~~  269 (583)
                      +...++.|.|.+|+|||+|+.++...  .... =..++|++...+  ...+.+.+- .++-.               ...
T Consensus        17 p~gs~~li~G~~GsGKT~l~~q~l~~--~~~~~ge~vlyvs~ee~--~~~l~~~~~-s~g~d~~~~~~~g~l~~~d~~~~   91 (226)
T PF06745_consen   17 PKGSVVLISGPPGSGKTTLALQFLYN--GLKNFGEKVLYVSFEEP--PEELIENMK-SFGWDLEEYEDSGKLKIIDAFPE   91 (226)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHH--HHHHHT--EEEEESSS---HHHHHHHHH-TTTS-HHHHHHTTSEEEEESSGG
T ss_pred             CCCcEEEEEeCCCCCcHHHHHHHHHH--hhhhcCCcEEEEEecCC--HHHHHHHHH-HcCCcHHHHhhcCCEEEEecccc
Confidence            45679999999999999999887642  2222 345677777553  333333322 22211               001


Q ss_pred             -----cccHHHHHHHHHHHhcC-CceeEEEcCC
Q 036323          270 -----LHELNSLLRRIGANIAG-QKFFMVLDNL  296 (583)
Q Consensus       270 -----~~~~~~~~~~l~~~l~~-k~~LlVlDdv  296 (583)
                           ..+.+.+...+.+.++. +...+|+|.+
T Consensus        92 ~~~~~~~~~~~l~~~i~~~i~~~~~~~vVIDsl  124 (226)
T PF06745_consen   92 RIGWSPNDLEELLSKIREAIEELKPDRVVIDSL  124 (226)
T ss_dssp             GST-TSCCHHHHHHHHHHHHHHHTSSEEEEETH
T ss_pred             cccccccCHHHHHHHHHHHHHhcCCCEEEEECH
Confidence                 23566666776666553 4478888986

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 ....

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR

Probab=95.11  E-value=0.056  Score=58.51  Aligned_cols=47  Identities=17%  Similarity=0.303  Sum_probs=37.7

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..++|....++++.+.+..-.     ....-|.|.|..|+||+.+|+.+++.
T Consensus       212 ~~iiG~S~~m~~~~~~i~~~A-----~~~~pVLI~GE~GTGKe~lA~~IH~~  258 (526)
T TIGR02329       212 DDLLGASAPMEQVRALVRLYA-----RSDATVLILGESGTGKELVAQAIHQL  258 (526)
T ss_pred             hheeeCCHHHHHHHHHHHHHh-----CCCCcEEEECCCCcCHHHHHHHHHHh
Confidence            458999998888888775433     23457889999999999999999874

At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=95.09  E-value=0.082  Score=52.20  Aligned_cols=26  Identities=27%  Similarity=0.327  Sum_probs=23.5

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcC
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .+..++.|.|.+|+|||||...+.+.
T Consensus       102 ~~~~~v~l~G~pGsGKTTLl~~l~~~  127 (290)
T PRK10463        102 RKQLVLNLVSSPGSGKTTLLTETLMR  127 (290)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            46889999999999999999998874

>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters

Probab=95.09  E-value=0.11  Score=48.47  Aligned_cols=23  Identities=30%  Similarity=0.472  Sum_probs=21.1

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|..|+|||||++.++.
T Consensus        33 Ge~~~l~G~nGsGKSTLl~~l~G   55 (192)
T cd03232          33 GTLTALMGESGAGKTTLLDVLAG   55 (192)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhC
Confidence            46899999999999999999986

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.

>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.05  E-value=0.47  Score=49.13  Aligned_cols=154  Identities=12%  Similarity=0.078  Sum_probs=79.2

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQK  288 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~  288 (583)
                      |--.++|+||.|||+++.++++..    .|+. +=+.++...+-.+ ++.++..                      ...+
T Consensus       236 RGYLLYGPPGTGKSS~IaAmAn~L----~ydI-ydLeLt~v~~n~d-Lr~LL~~----------------------t~~k  287 (457)
T KOG0743|consen  236 RGYLLYGPPGTGKSSFIAAMANYL----NYDI-YDLELTEVKLDSD-LRHLLLA----------------------TPNK  287 (457)
T ss_pred             ccceeeCCCCCCHHHHHHHHHhhc----CCce-EEeeeccccCcHH-HHHHHHh----------------------CCCC
Confidence            445699999999999999999853    2332 1122222111111 2222221                      2345


Q ss_pred             eeEEEcCCCcc--------c-----c-----cchHhhHHhhc----cCCCCceEEEecCchHHHh--hhcC---CCeEEc
Q 036323          289 FFMVLDNLWTD--------D-----Y-----RKWEPFRNCLM----NGLRGSKILITTRKETVAR--MMES---TDIVYV  341 (583)
Q Consensus       289 ~LlVlDdv~~~--------~-----~-----~~~~~l~~~l~----~~~~gs~IlvTtR~~~v~~--~~~~---~~~~~l  341 (583)
                      -+|||.|++-.        .     .     -.+.-|+..+.    .++.---||+||...+-..  .+.+   ...+++
T Consensus       288 SIivIEDIDcs~~l~~~~~~~~~~~~~~~~~VTlSGLLNfiDGlwSscg~ERIivFTTNh~EkLDPALlRpGRmDmhI~m  367 (457)
T KOG0743|consen  288 SILLIEDIDCSFDLRERRKKKKENFEGDLSRVTLSGLLNFLDGLWSSCGDERIIVFTTNHKEKLDPALLRPGRMDMHIYM  367 (457)
T ss_pred             cEEEEeecccccccccccccccccccCCcceeehHHhhhhhccccccCCCceEEEEecCChhhcCHhhcCCCcceeEEEc
Confidence            56677776321        0     0     11222333331    1221223556776543221  1122   456788


Q ss_pred             CCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhhhhhhccC
Q 036323          342 QGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQFK  397 (583)
Q Consensus       342 ~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~~~L~~~  397 (583)
                      .-=+.+.-..|+..+.....   .+    .+..+|.+...|.-+.=..++..|-.+
T Consensus       368 gyCtf~~fK~La~nYL~~~~---~h----~L~~eie~l~~~~~~tPA~V~e~lm~~  416 (457)
T KOG0743|consen  368 GYCTFEAFKTLASNYLGIEE---DH----RLFDEIERLIEETEVTPAQVAEELMKN  416 (457)
T ss_pred             CCCCHHHHHHHHHHhcCCCC---Cc----chhHHHHHHhhcCccCHHHHHHHHhhc
Confidence            88889999999999874322   22    234455555566655556666555433

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=95.04  E-value=0.11  Score=56.16  Aligned_cols=98  Identities=18%  Similarity=0.140  Sum_probs=54.8

Q ss_pred             HHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCc-
Q 036323          189 MRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSA-  267 (583)
Q Consensus       189 ~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~-  267 (583)
                      +..|-++|...     =....++.|.|.+|+|||||+.+++...  ..+-..++++...+  +...+...+ +.++-.. 
T Consensus       249 i~~lD~~lgGG-----~~~gs~~li~G~~G~GKt~l~~~f~~~~--~~~ge~~~y~s~eE--s~~~i~~~~-~~lg~~~~  318 (484)
T TIGR02655       249 VVRLDEMCGGG-----FFKDSIILATGATGTGKTLLVSKFLENA--CANKERAILFAYEE--SRAQLLRNA-YSWGIDFE  318 (484)
T ss_pred             hHhHHHHhcCC-----ccCCcEEEEECCCCCCHHHHHHHHHHHH--HHCCCeEEEEEeeC--CHHHHHHHH-HHcCCChH
Confidence            34555555332     2567799999999999999998887642  22233456666544  333444332 3333211 


Q ss_pred             --------------cccccHHHHHHHHHHHhcC-CceeEEEcCC
Q 036323          268 --------------IDLHELNSLLRRIGANIAG-QKFFMVLDNL  296 (583)
Q Consensus       268 --------------~~~~~~~~~~~~l~~~l~~-k~~LlVlDdv  296 (583)
                                    +.....++....+.+.+.. +.-++|+|.+
T Consensus       319 ~~~~~g~l~~~~~~p~~~~~~~~~~~i~~~i~~~~~~~vvIDsi  362 (484)
T TIGR02655       319 EMEQQGLLKIICAYPESAGLEDHLQIIKSEIADFKPARIAIDSL  362 (484)
T ss_pred             HHhhCCcEEEEEcccccCChHHHHHHHHHHHHHcCCCEEEEcCH
Confidence                          1112234455555555533 4457778876

Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.

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

Probab=95.03  E-value=0.012  Score=49.31  Aligned_cols=21  Identities=48%  Similarity=0.577  Sum_probs=18.5

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |.|+|.+|+|||+||..++.+
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~   21 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKD   21 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999998774

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

>PRK13647 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=95.03  E-value=0.18  Score=50.06  Aligned_cols=24  Identities=25%  Similarity=0.243  Sum_probs=21.4

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+++|+|..|+|||||++.+..-
T Consensus        31 Ge~~~i~G~nGsGKSTLl~~l~Gl   54 (274)
T PRK13647         31 GSKTALLGPNGAGKSTLLLHLNGI   54 (274)
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcC
Confidence            469999999999999999999753

>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=95.02  E-value=0.014  Score=49.92  Aligned_cols=27  Identities=33%  Similarity=0.501  Sum_probs=18.2

Q ss_pred             EEEEecCCchHHHHHHHHHcCccccccCc
Q 036323          211 ISMVGMGGIGKTTLAQLAYNDNDVINNFE  239 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~~~~~~~f~  239 (583)
                      |.|.|.+|+|||++|+.++.  .....|.
T Consensus         2 vLleg~PG~GKT~la~~lA~--~~~~~f~   28 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALAR--SLGLSFK   28 (131)
T ss_dssp             EEEES---HHHHHHHHHHHH--HTT--EE
T ss_pred             EeeECCCccHHHHHHHHHHH--HcCCcee
Confidence            67999999999999999988  3555554

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.

>TIGR03522 GldA_ABC_ATP gliding motility-associated ABC transporter ATP-binding subunit GldA

Probab=95.01  E-value=0.17  Score=50.99  Aligned_cols=25  Identities=24%  Similarity=0.409  Sum_probs=21.8

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...+++|+|+.|.|||||.+.+...
T Consensus        27 ~Gei~~l~G~NGaGKTTLl~~l~Gl   51 (301)
T TIGR03522        27 KGRIVGFLGPNGAGKSTTMKIITGY   51 (301)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCC
Confidence            3468999999999999999999763

Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldA is an ABC transporter ATP-binding protein (pfam00005) linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockouts of GldA abolish the gliding phenotype. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Bacteroidetes with members of this protein family appear to have all of the genes associated with gliding motility.

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.00  E-value=0.19  Score=52.65  Aligned_cols=88  Identities=14%  Similarity=0.186  Sum_probs=44.3

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCC-CCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSD-PFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIA  285 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~  285 (583)
                      ...+++++|+.|+||||++..+............+..+.... .....+.+....+.++.+.....+..++...+.. +.
T Consensus       190 ~g~vi~lvGpnG~GKTTtlakLA~~~~~~~~~~~v~~i~~d~~rigalEQL~~~a~ilGvp~~~v~~~~dl~~al~~-l~  268 (420)
T PRK14721        190 QGGVYALIGPTGVGKTTTTAKLAARAVIRHGADKVALLTTDSYRIGGHEQLRIYGKLLGVSVRSIKDIADLQLMLHE-LR  268 (420)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecCCcchhHHHHHHHHHHHcCCceecCCCHHHHHHHHHH-hc
Confidence            457999999999999999987765211111122333333222 1223333444444444333222333333333332 33


Q ss_pred             CCceeEEEcCC
Q 036323          286 GQKFFMVLDNL  296 (583)
Q Consensus       286 ~k~~LlVlDdv  296 (583)
                      + .-++++|-.
T Consensus       269 ~-~d~VLIDTa  278 (420)
T PRK14721        269 G-KHMVLIDTV  278 (420)
T ss_pred             C-CCEEEecCC
Confidence            3 346777765

>PRK00131 aroK shikimate kinase; Reviewed

Probab=94.99  E-value=0.017  Score=52.86  Aligned_cols=24  Identities=29%  Similarity=0.457  Sum_probs=21.5

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...|.|+|++|+||||+|+.+...
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~~   27 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAKR   27 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHH
Confidence            458999999999999999999874

>COG2401 ABC-type ATPase fused to a predicted acetyltransferase domain [General function prediction only]

Probab=94.98  E-value=0.039  Score=56.04  Aligned_cols=63  Identities=8%  Similarity=0.109  Sum_probs=36.5

Q ss_pred             HHHHHHHHhcCCceeEEEcCCCccc-ccchHhhHHhhcc--CCCCceEEEecCchHHHhhhcCCCe
Q 036323          276 LLRRIGANIAGQKFFMVLDNLWTDD-YRKWEPFRNCLMN--GLRGSKILITTRKETVARMMESTDI  338 (583)
Q Consensus       276 ~~~~l~~~l~~k~~LlVlDdv~~~~-~~~~~~l~~~l~~--~~~gs~IlvTtR~~~v~~~~~~~~~  338 (583)
                      -...|...+.+++-++++|.+...- .-.--.+...+..  ...|+.+++.|+.+++.+.+.+...
T Consensus       514 eR~KLAkllaerpn~~~iDEF~AhLD~~TA~rVArkiselaRe~giTlivvThrpEv~~AL~PD~l  579 (593)
T COG2401         514 ERAKLAKLLAERPNVLLIDEFAAHLDELTAVRVARKISELAREAGITLIVVTHRPEVGNALRPDTL  579 (593)
T ss_pred             HHHHHHHHHhcCCCcEEhhhhhhhcCHHHHHHHHHHHHHHHHHhCCeEEEEecCHHHHhccCCcee
Confidence            3445667778888899999873311 0011112222322  1257777887887888777655443

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=94.96  E-value=0.099  Score=57.27  Aligned_cols=25  Identities=28%  Similarity=0.401  Sum_probs=21.8

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      +....++|+|+.|+|||||++.+..
T Consensus       359 ~~G~~vaIvG~SGsGKSTLl~lL~g  383 (529)
T TIGR02868       359 PPGERVAILGPSGSGKSTLLMLLTG  383 (529)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhc
Confidence            3456899999999999999999875

The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.

>PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional

Probab=94.95  E-value=0.15  Score=48.57  Aligned_cols=24  Identities=33%  Similarity=0.401  Sum_probs=21.6

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+++|+|+.|+|||||.+.++.-
T Consensus        13 Ge~~~l~G~NGsGKSTLlk~i~Gl   36 (213)
T PRK15177         13 HEHIGILAAPGSGKTTLTRLLCGL   36 (213)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999863

>PF13479 AAA_24: AAA domain

Probab=94.94  E-value=0.081  Score=50.33  Aligned_cols=20  Identities=45%  Similarity=0.408  Sum_probs=17.8

Q ss_pred             EEEEEEecCCchHHHHHHHH
Q 036323          209 QIISMVGMGGIGKTTLAQLA  228 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v  228 (583)
                      -.+.|+|.+|+||||+|..+
T Consensus         4 ~~~lIyG~~G~GKTt~a~~~   23 (213)
T PF13479_consen    4 IKILIYGPPGSGKTTLAASL   23 (213)
T ss_pred             eEEEEECCCCCCHHHHHHhC
Confidence            46789999999999999876

>PF05659 RPW8: Arabidopsis broad-spectrum mildew resistance protein RPW8; InterPro: IPR008808 This entry represents the RPW8 domain found in several broad-spectrum mildew resistance proteins from Arabidopsis thaliana and other dicots

Probab=94.94  E-value=0.68  Score=40.93  Aligned_cols=83  Identities=10%  Similarity=0.202  Sum_probs=63.2

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHHHHHhhccc-CchHHHHHHHHHHHhhhchHhHH
Q 036323            2 VDAIVSAVLEQLISVAAKEANEGVRLAVGVGQEVEKLKRNFQAIQAVLHDAEHRQV-REEGVRLWLDQLKDASYNMEDVL   80 (583)
Q Consensus         2 a~~~~~~~~~~l~~~l~~~~~~e~~~~~~v~~~i~~L~~~l~~i~~~l~~ae~~~~-~~~~~~~Wl~~lr~~ayd~eD~l   80 (583)
                      ||.+.+++++.+.+.|...+.+...-....+.-+++|..++++|.-++++.+.-+. -+..-+.=++++.+..-++++++
T Consensus         3 ~eL~~gaalG~~~~eLlk~v~~~~~k~~~fk~~l~~L~sTl~~i~P~i~eI~~~~~eld~~~~ee~e~L~~~L~~g~~LV   82 (147)
T PF05659_consen    3 AELVGGAALGAVFGELLKAVIDASKKSLSFKSILKRLESTLESIIPIIKEIDKLNVELDRPRQEEIERLKELLEKGKELV   82 (147)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHhhhHHHHHHHHhhhcCCchhHHHHHHHHHHHHHHHHH
Confidence            56667777777777777777777777777888899999999999999998887432 23332555778888888899988


Q ss_pred             HHHH
Q 036323           81 DEWI   84 (583)
Q Consensus        81 D~~~   84 (583)
                      +.|.
T Consensus        83 ~k~s   86 (147)
T PF05659_consen   83 EKCS   86 (147)
T ss_pred             HHhc
Confidence            8874

Plant disease resistance (R) genes control the recognition of specific pathogens and activate subsequent defence responses. The R protein-mediated defences typically involve a rapid, localized necrosis, or hypersensitive response (HR), at the site of infection, and the localised formation of antimicrobial chemicals and proteins that restrict growth of the pathogen. The A. thaliana locus Resistance to Powdery Mildew 8 (RPW8) contains two naturally polymorphic, dominant R genes: RPW8.1 and RPW8.2, which individually control resistance to a broad range of powdery mildew pathogens. They induce localised, salicylic acid-dependent defences similar to those induced by R genes that control specific resistance. Apparently, broad-spectrum resistance mediated by RPW8 uses the same mechanisms as specific resistance [, ]. RPW8.1 and RPW8.2 share similarity with an ~150 amino acid module forming the N terminus of a group of disease resistance proteins, which have a nucleotide-binding site (NBS) and leucine-rich repeats (LRRs) [, ]. The RPW8 domain sequences contain a predicted N-terminal transmembrane (TM) region or possibly a signal peptide, and a coiled-coil (CC) motif [].

>cd03289 ABCC_CFTR2 The CFTR subfamily domain 2

Probab=94.93  E-value=0.31  Score=48.36  Aligned_cols=24  Identities=29%  Similarity=0.325  Sum_probs=21.3

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+++|+|..|.|||||.+.++.-
T Consensus        30 Ge~~~IvG~nGsGKSTLl~~L~gl   53 (275)
T cd03289          30 GQRVGLLGRTGSGKSTLLSAFLRL   53 (275)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhhh
Confidence            458999999999999999999763

The cystic fibrosis transmembrane regulator (CFTR), the product of the gene mutated in patients with cystic fibrosis, has adapted the ABC transporter structural motif to form a tightly regulated anion channel at the apical surface of many epithelia. Use of the term assembly of a functional ion channel implies the coming together of subunits or at least smaller not-yet functional components of the active whole. In fact, on the basis of current knowledge only the CFTR polypeptide itself is required to form an ATP- and protein kinase A-dependent low-conductance chloride channel of the type present in the apical membrane of many epithelial cells. CFTR displays the typical organization (IM-ABC)2 and carries a characteristic hydrophilic R-domain that separates IM1-ABC1 from IM2-ABC2.

>PRK15453 phosphoribulokinase; Provisional

Probab=94.91  E-value=0.11  Score=51.02  Aligned_cols=25  Identities=28%  Similarity=0.387  Sum_probs=22.0

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .+..+|+|.|.+|+||||+|+.+.+
T Consensus         3 ~k~piI~ItG~SGsGKTTva~~l~~   27 (290)
T PRK15453          3 AKHPIIAVTGSSGAGTTTVKRAFEK   27 (290)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            3467999999999999999998875

>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=94.91  E-value=0.029  Score=56.44  Aligned_cols=51  Identities=22%  Similarity=0.324  Sum_probs=42.9

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHc
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...|+|.++.+++|++.+.... .+.+..-+++.++|+.|.|||||+..+.+
T Consensus        60 ~~~~~G~~~~i~~lV~~fk~AA-~g~~~~krIl~L~GPvg~GKSsl~~~Lk~  110 (358)
T PF08298_consen   60 EDEFYGMEETIERLVNYFKSAA-QGLEERKRILLLLGPVGGGKSSLAELLKR  110 (358)
T ss_pred             cccccCcHHHHHHHHHHHHHHH-hccCccceEEEEECCCCCCHHHHHHHHHH
Confidence            3579999999999999987654 22356788999999999999999988876

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

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

Probab=94.91  E-value=0.019  Score=53.03  Aligned_cols=23  Identities=39%  Similarity=0.548  Sum_probs=20.5

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .+++|+|++|+|||||++.+...
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~   24 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARAR   24 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            37899999999999999998774

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.

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=94.91  E-value=0.015  Score=53.80  Aligned_cols=21  Identities=24%  Similarity=0.317  Sum_probs=19.3

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 036323          210 IISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      +|.|+|++|+||||+|+.+..
T Consensus         1 ~i~i~G~pGsGKst~a~~la~   21 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVE   21 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            578999999999999999887

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.

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes

Probab=94.91  E-value=0.19  Score=47.24  Aligned_cols=22  Identities=23%  Similarity=0.134  Sum_probs=20.0

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ++++|+|+.|.|||||.+.+..
T Consensus        26 ~~~~ltGpNg~GKSTllr~i~~   47 (199)
T cd03283          26 NGILITGSNMSGKSTFLRTIGV   47 (199)
T ss_pred             cEEEEECCCCCChHHHHHHHHH
Confidence            7999999999999999988764

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form slid

>PRK00625 shikimate kinase; Provisional

Probab=94.91  E-value=0.017  Score=52.82  Aligned_cols=22  Identities=23%  Similarity=0.326  Sum_probs=19.6

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .|.|+|++|+||||+++.+.+.
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~   23 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKF   23 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3789999999999999999773

>TIGR03498 FliI_clade3 flagellar protein export ATPase FliI

Probab=94.89  E-value=0.081  Score=55.31  Aligned_cols=87  Identities=15%  Similarity=0.186  Sum_probs=46.6

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcC-------ccccccH-----H
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGS-------AIDLHEL-----N  274 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~-------~~~~~~~-----~  274 (583)
                      ....++|+|..|+|||||++.+.....   ....++...-.+.-...++....+..-...       ..+....     .
T Consensus       139 ~Gq~i~I~G~sG~GKTtLl~~I~~~~~---~~~gvi~~iGer~~ev~~~~~~~l~~~~~~~tvvv~atsd~~~~~r~~a~  215 (418)
T TIGR03498       139 RGQRLGIFAGSGVGKSTLLSMLARNTD---ADVVVIALVGERGREVREFLEDDLGEEGLKRSVVVVATSDESPLMRRQAA  215 (418)
T ss_pred             CCcEEEEECCCCCChHHHHHHHhCCCC---CCEEEEEEEeeechHHHHHHHHhhhccccceeEEEEECCCCCHHHHHHHH
Confidence            345789999999999999998887422   122233222222333444444433321111       0011111     1


Q ss_pred             HHHHHHHHHh--cCCceeEEEcCC
Q 036323          275 SLLRRIGANI--AGQKFFMVLDNL  296 (583)
Q Consensus       275 ~~~~~l~~~l--~~k~~LlVlDdv  296 (583)
                      ...-.+.+++  +++++||++||+
T Consensus       216 ~~a~~iAEyfrd~G~~Vll~~Dsl  239 (418)
T TIGR03498       216 YTATAIAEYFRDQGKDVLLLMDSV  239 (418)
T ss_pred             HHHHHHHHHHHHcCCCEEEeccch
Confidence            1222234444  578999999998

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=94.89  E-value=0.075  Score=59.59  Aligned_cols=131  Identities=17%  Similarity=0.127  Sum_probs=69.9

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKAT  259 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  259 (583)
                      +.++|....+.++.+.+..-.     ....-|.|+|..|+||+++|+.+++.....  -...+.+++..-. ...+... 
T Consensus       325 ~~l~g~s~~~~~~~~~~~~~a-----~~~~pvli~Ge~GtGK~~~A~~ih~~s~r~--~~pfv~vnc~~~~-~~~~~~e-  395 (638)
T PRK11388        325 DHMPQDSPQMRRLIHFGRQAA-----KSSFPVLLCGEEGVGKALLAQAIHNESERA--AGPYIAVNCQLYP-DEALAEE-  395 (638)
T ss_pred             cceEECCHHHHHHHHHHHHHh-----CcCCCEEEECCCCcCHHHHHHHHHHhCCcc--CCCeEEEECCCCC-hHHHHHH-
Confidence            457899988888887775433     223347899999999999999998742111  1122334544332 1222222 


Q ss_pred             HHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccCC-----------CCceEEEecCc
Q 036323          260 IEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGL-----------RGSKILITTRK  326 (583)
Q Consensus       260 l~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~IlvTtR~  326 (583)
                         +.+....... ......+   -....=.|+||++..........|...+..+.           ...+||.||..
T Consensus       396 ---lfg~~~~~~~-~~~~g~~---~~a~~GtL~ldei~~l~~~~Q~~Ll~~l~~~~~~~~~~~~~~~~~~riI~~t~~  466 (638)
T PRK11388        396 ---FLGSDRTDSE-NGRLSKF---ELAHGGTLFLEKVEYLSPELQSALLQVLKTGVITRLDSRRLIPVDVRVIATTTA  466 (638)
T ss_pred             ---hcCCCCcCcc-CCCCCce---eECCCCEEEEcChhhCCHHHHHHHHHHHhcCcEEeCCCCceEEeeEEEEEeccC
Confidence               2221100000 0000000   01234469999997655555666666664321           13467777654

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=94.89  E-value=0.016  Score=54.55  Aligned_cols=21  Identities=43%  Similarity=0.582  Sum_probs=19.3

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 036323          210 IISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      +|+|.|.+|+|||||++.+..
T Consensus         1 iigi~G~~GsGKSTl~~~l~~   21 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIE   21 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999876

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.

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

Probab=94.87  E-value=0.022  Score=54.49  Aligned_cols=29  Identities=38%  Similarity=0.420  Sum_probs=24.3

Q ss_pred             CCceEEEEEEecCCchHHHHHHHHHcCcc
Q 036323          205 TNTVQIISMVGMGGIGKTTLAQLAYNDND  233 (583)
Q Consensus       205 ~~~~~vv~I~G~gGiGKTtLa~~v~~~~~  233 (583)
                      ..++.+|.++||+|+||||..+.++.+..
T Consensus        16 ~~~p~~ilVvGMAGSGKTTF~QrL~~hl~   44 (366)
T KOG1532|consen   16 IQRPVIILVVGMAGSGKTTFMQRLNSHLH   44 (366)
T ss_pred             ccCCcEEEEEecCCCCchhHHHHHHHHHh
Confidence            35677889999999999999999987533

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=94.87  E-value=0.06  Score=55.68  Aligned_cols=52  Identities=25%  Similarity=0.284  Sum_probs=36.9

Q ss_pred             CceeechhHHHHHHHHhhcC-------CCCCCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          180 SEVRGRDEEMRSIKSMLLCQ-------GSDQQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~-------~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..++|.++.++.+.-.+...       ..-.....++-|.++|++|+|||+||+.+...
T Consensus        12 ~~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~   70 (441)
T TIGR00390        12 KYIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKL   70 (441)
T ss_pred             hhccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHH
Confidence            45789888888887666532       00001123467889999999999999999874

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.

>PF00006 ATP-synt_ab: ATP synthase alpha/beta family, nucleotide-binding domain This Pfam entry corresponds to chains a,b,c,d,e and f; InterPro: IPR000194 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane

Probab=94.81  E-value=0.084  Score=50.06  Aligned_cols=48  Identities=23%  Similarity=0.270  Sum_probs=32.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCC-ChHHHHHHH
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPF-DEFNVAKAT  259 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i  259 (583)
                      ..-++|.|.+|+|||+|+..+.++.    .-+.++++.+.+.. ...++.+.+
T Consensus        15 Gqr~~I~g~~g~GKt~Ll~~i~~~~----~~d~~V~~~iGer~~Ev~~~~~~~   63 (215)
T PF00006_consen   15 GQRIGIFGGAGVGKTVLLQEIANNQ----DADVVVYALIGERGREVTEFIEEL   63 (215)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHC----TTTEEEEEEESECHHHHHHHHHHH
T ss_pred             CCEEEEEcCcccccchhhHHHHhcc----cccceeeeeccccchhHHHHHHHH
Confidence            3578899999999999999998753    22344777776543 334444444

ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The F-ATPases (or F1F0-ATPases), V-ATPases (or V1V0-ATPases) and A-ATPases (or A1A0-ATPases) are composed of two linked complexes: the F1, V1 or A1 complex contains the catalytic core that synthesizes/hydrolyses ATP, and the F0, V0 or A0 complex that forms the membrane-spanning pore. The F-, V- and A-ATPases all contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, ]. In F-ATPases, there are three copies each of the alpha and beta subunits that form the catalytic core of the F1 complex, while the remaining F1 subunits (gamma, delta, epsilon) form part of the stalks. There is a substrate-binding site on each of the alpha and beta subunits, those on the beta subunits being catalytic, while those on the alpha subunits are regulatory. The alpha and beta subunits form a cylinder that is attached to the central stalk. The alpha/beta subunits undergo a sequence of conformational changes leading to the formation of ATP from ADP, which are induced by the rotation of the gamma subunit, itself driven by the movement of protons through the F0 complex C subunit []. In V- and A-ATPases, the alpha/A and beta/B subunits of the V1 or A1 complex are homologous to the alpha and beta subunits in the F1 complex of F-ATPases, except that the alpha subunit is catalytic and the beta subunit is regulatory. The structure of the alpha and beta subunits is almost identical. Each subunit consists of a N-terminal beta-barrel, a central domain containing the nucleotide-binding site and a C-terminal alpha bundle domain []. This entry represents the central domain. It is found in the alpha and beta subunits from F1, V1, and A1 complexes, as well as in flagellar ATPase and the termination factor Rho. ; GO: 0005524 ATP binding; PDB: 3OEE_N 2HLD_W 3FKS_N 3OE7_O 3OFN_M 2XOK_D 3OEH_V 2WPD_F 3ZRY_D 2OBL_A ....

>PRK05973 replicative DNA helicase; Provisional

Probab=94.80  E-value=0.13  Score=49.38  Aligned_cols=49  Identities=16%  Similarity=0.061  Sum_probs=31.9

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      ....++.|.|.+|+|||+++.++.....  ..-..+++++....  ..++...
T Consensus        62 ~~Gsl~LIaG~PG~GKT~lalqfa~~~a--~~Ge~vlyfSlEes--~~~i~~R  110 (237)
T PRK05973         62 KPGDLVLLGARPGHGKTLLGLELAVEAM--KSGRTGVFFTLEYT--EQDVRDR  110 (237)
T ss_pred             CCCCEEEEEeCCCCCHHHHHHHHHHHHH--hcCCeEEEEEEeCC--HHHHHHH
Confidence            3456889999999999999988766421  22234666665543  3444444

>cd01136 ATPase_flagellum-secretory_path_III Flagellum-specific ATPase/type III secretory pathway virulence-related protein

Probab=94.80  E-value=0.13  Score=51.84  Aligned_cols=86  Identities=15%  Similarity=0.193  Sum_probs=46.9

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeC-CCCChHHHHHHHHHHhhcC-------cccccc-----H
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVS-DPFDEFNVAKATIEELEGS-------AIDLHE-----L  273 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~-~~~~~~~~~~~il~~l~~~-------~~~~~~-----~  273 (583)
                      ....++|+|..|+|||||.+.+.+...    -+..+..-+. +..+..++....+..-...       ..+...     .
T Consensus        68 ~Gqri~I~G~sG~GKTtLl~~Ia~~~~----~~~~vi~~iGer~~ev~~~~~~~~~~~~l~rtvvv~~t~d~~~~~r~~~  143 (326)
T cd01136          68 KGQRLGIFAGSGVGKSTLLGMIARGTT----ADVNVIALIGERGREVREFIEKDLGEEGLKRSVVVVATSDESPLLRVKA  143 (326)
T ss_pred             CCcEEEEECCCCCChHHHHHHHhCCCC----CCEEEEEEEecCCccHHHHHHHHHhcCccceEEEEEcCCCCCHHHHHHH
Confidence            345789999999999999999887422    1233333333 2334444444444332111       011100     1


Q ss_pred             HHHHHHHHHHh--cCCceeEEEcCC
Q 036323          274 NSLLRRIGANI--AGQKFFMVLDNL  296 (583)
Q Consensus       274 ~~~~~~l~~~l--~~k~~LlVlDdv  296 (583)
                      ....-.+.+++  +++.+||++||+
T Consensus       144 ~~~a~~~AEyfr~~g~~Vll~~Dsl  168 (326)
T cd01136         144 AYTATAIAEYFRDQGKDVLLLMDSL  168 (326)
T ss_pred             HHHHHHHHHHHHHcCCCeEEEeccc
Confidence            11122233333  588999999998

This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they both are proton driven rotary molecular devices. However, the main function of the bacterial flagellar motor is to rotate the flagellar filament for cell motility. Intracellular pathogens such as Salmonella and Chlamydia also have proteins which are similar to the flagellar-specific ATPase, but function in the secretion of virulence-related proteins via the type III secretory pathway.

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=94.80  E-value=0.028  Score=51.16  Aligned_cols=25  Identities=24%  Similarity=0.420  Sum_probs=22.4

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...+++|+|..|+|||||++.+...
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~   29 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPA   29 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHH
Confidence            4679999999999999999998864

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=94.80  E-value=0.02  Score=52.63  Aligned_cols=23  Identities=26%  Similarity=0.361  Sum_probs=20.9

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ++|.+.|++|+||||+|+.+...
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~   25 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSV   25 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHh
Confidence            58999999999999999999874

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

>PRK11823 DNA repair protein RadA; Provisional

Probab=94.78  E-value=0.13  Score=54.75  Aligned_cols=84  Identities=18%  Similarity=0.132  Sum_probs=49.5

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCcc-----ccccHHHHHHHH
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAI-----DLHELNSLLRRI  280 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~-----~~~~~~~~~~~l  280 (583)
                      ....++.|.|.+|+|||||+.+++....  ..-..++|++....  ...+.. -++.++....     ...+.+.+...+
T Consensus        78 ~~Gs~~lI~G~pG~GKTtL~lq~a~~~a--~~g~~vlYvs~Ees--~~qi~~-ra~rlg~~~~~l~~~~e~~l~~i~~~i  152 (446)
T PRK11823         78 VPGSVVLIGGDPGIGKSTLLLQVAARLA--AAGGKVLYVSGEES--ASQIKL-RAERLGLPSDNLYLLAETNLEAILATI  152 (446)
T ss_pred             cCCEEEEEECCCCCCHHHHHHHHHHHHH--hcCCeEEEEEcccc--HHHHHH-HHHHcCCChhcEEEeCCCCHHHHHHHH
Confidence            3466999999999999999998876422  22235677776543  222222 2344433211     123445554444


Q ss_pred             HHHhcCCceeEEEcCCC
Q 036323          281 GANIAGQKFFMVLDNLW  297 (583)
Q Consensus       281 ~~~l~~k~~LlVlDdv~  297 (583)
                      .   +.+.-++|+|.+.
T Consensus       153 ~---~~~~~lVVIDSIq  166 (446)
T PRK11823        153 E---EEKPDLVVIDSIQ  166 (446)
T ss_pred             H---hhCCCEEEEechh
Confidence            3   2356699999984

>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=94.78  E-value=0.04  Score=49.40  Aligned_cols=35  Identities=23%  Similarity=0.479  Sum_probs=29.6

Q ss_pred             hHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          187 EEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       187 ~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      +.+++|.+.|.         + ++++++|..|+|||||+..+..+
T Consensus        24 ~g~~~l~~~l~---------~-k~~vl~G~SGvGKSSLiN~L~~~   58 (161)
T PF03193_consen   24 EGIEELKELLK---------G-KTSVLLGQSGVGKSSLINALLPE   58 (161)
T ss_dssp             TTHHHHHHHHT---------T-SEEEEECSTTSSHHHHHHHHHTS
T ss_pred             cCHHHHHHHhc---------C-CEEEEECCCCCCHHHHHHHHHhh
Confidence            45788888883         2 68999999999999999999885

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.

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

Probab=94.77  E-value=0.019  Score=51.25  Aligned_cols=22  Identities=32%  Similarity=0.564  Sum_probs=19.5

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ++.|+|++|+||||+|+.+...
T Consensus         1 li~l~G~~GsGKST~a~~l~~~   22 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAER   22 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhh
Confidence            4689999999999999998874

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

>cd04159 Arl10_like Arl10-like subfamily

Probab=94.75  E-value=0.13  Score=45.61  Aligned_cols=21  Identities=38%  Similarity=0.597  Sum_probs=19.2

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |+|+|.+|+|||||.+.+...
T Consensus         2 i~i~G~~~~GKssl~~~l~~~   22 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAGG   22 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHccC
Confidence            689999999999999999775

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.

>COG1131 CcmA ABC-type multidrug transport system, ATPase component [Defense mechanisms]

Probab=94.74  E-value=0.41  Score=47.92  Aligned_cols=25  Identities=32%  Similarity=0.452  Sum_probs=22.0

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...++++.|+.|+|||||.+.+..-
T Consensus        30 ~Gei~gllG~NGAGKTTllk~l~gl   54 (293)
T COG1131          30 PGEIFGLLGPNGAGKTTLLKILAGL   54 (293)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCC
Confidence            3469999999999999999999763

>cd03240 ABC_Rad50 The catalytic domains of Rad50 are similar to the ATP-binding cassette of ABC transporters, but are not associated with membrane-spanning domains

Probab=94.73  E-value=0.14  Score=48.27  Aligned_cols=52  Identities=13%  Similarity=0.216  Sum_probs=31.4

Q ss_pred             HHHHhcCCceeEEEcCCCcc-cccchH-hhHHhhccCC-C-CceEEEecCchHHHh
Q 036323          280 IGANIAGQKFFMVLDNLWTD-DYRKWE-PFRNCLMNGL-R-GSKILITTRKETVAR  331 (583)
Q Consensus       280 l~~~l~~k~~LlVlDdv~~~-~~~~~~-~l~~~l~~~~-~-gs~IlvTtR~~~v~~  331 (583)
                      +...+..++-++++|+.... +..... .+...+.... . |..||++|.+.....
T Consensus       132 la~al~~~p~illlDEP~~~LD~~~~~~~l~~~l~~~~~~~~~~iiiitH~~~~~~  187 (204)
T cd03240         132 LAETFGSNCGILALDEPTTNLDEENIEESLAEIIEERKSQKNFQLIVITHDEELVD  187 (204)
T ss_pred             HHHHhccCCCEEEEcCCccccCHHHHHHHHHHHHHHHHhccCCEEEEEEecHHHHh
Confidence            44556678899999998432 222334 4444443322 2 556888888776654

The conserved ATP-binding motifs common to Rad50 and the ABC transporter family include the Walker A and Walker B motifs, the Q loop, a histidine residue in the switch region, a D-loop, and a conserved LSGG sequence. This conserved sequence, LSGG, is the most specific and characteristic motif of this family and is thus known as the ABC signature sequence.

>TIGR02314 ABC_MetN D-methionine ABC transporter, ATP-binding protein

Probab=94.72  E-value=0.15  Score=52.12  Aligned_cols=24  Identities=33%  Similarity=0.398  Sum_probs=21.2

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+++|+|+.|+|||||.+.+..-
T Consensus        31 Gei~gIiG~sGaGKSTLlr~I~gl   54 (343)
T TIGR02314        31 GQIYGVIGASGAGKSTLIRCVNLL   54 (343)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            458999999999999999999753

Members of this family are the ATP-binding protein of the D-methionine ABC transporter complex. Known members belong to the Proteobacteria.

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

Probab=94.72  E-value=0.018  Score=53.26  Aligned_cols=22  Identities=41%  Similarity=0.531  Sum_probs=19.9

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      +|+|.|.+|+||||||+.+...
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~   22 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRI   22 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5889999999999999999874

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.

>TIGR03411 urea_trans_UrtD urea ABC transporter, ATP-binding protein UrtD

Probab=94.72  E-value=0.3  Score=47.42  Aligned_cols=24  Identities=25%  Similarity=0.440  Sum_probs=21.2

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+++|.|..|+|||||.+.++..
T Consensus        28 Ge~~~l~G~nGsGKSTLl~~l~G~   51 (242)
T TIGR03411        28 GELRVIIGPNGAGKTTMMDVITGK   51 (242)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999998753

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.

>cd03248 ABCC_TAP TAP, the Transporter Associated with Antigen Processing; TAP is essential for peptide delivery from the cytosol into the lumen of the endoplasmic reticulum (ER), where these peptides are loaded on major histocompatibility complex (MHC) I molecules

Probab=94.71  E-value=0.36  Score=46.25  Aligned_cols=25  Identities=32%  Similarity=0.436  Sum_probs=21.7

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...+++|+|..|+|||||++.++.-
T Consensus        39 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   63 (226)
T cd03248          39 PGEVTALVGPSGSGKSTVVALLENF   63 (226)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3558999999999999999998763

Loaded MHC I leave the ER and display their antigenic cargo on the cell surface to cytotoxic T cells. Subsequently, virus-infected or malignantly transformed cells can be eliminated. TAP belongs to the large family of ATP-binding cassette (ABC) transporters, which translocate a vast variety of solutes across membranes.

>PRK13537 nodulation ABC transporter NodI; Provisional

Probab=94.71  E-value=0.26  Score=49.77  Aligned_cols=24  Identities=25%  Similarity=0.356  Sum_probs=21.4

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+++|.|+.|.|||||.+.++.-
T Consensus        33 Gei~gllGpNGaGKSTLl~~l~Gl   56 (306)
T PRK13537         33 GECFGLLGPNGAGKTTTLRMLLGL   56 (306)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcC
Confidence            458999999999999999999763

>TIGR00416 sms DNA repair protein RadA

Probab=94.71  E-value=0.18  Score=53.66  Aligned_cols=96  Identities=16%  Similarity=0.063  Sum_probs=53.6

Q ss_pred             HHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCcc
Q 036323          189 MRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAI  268 (583)
Q Consensus       189 ~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~  268 (583)
                      +..|-+.|...     -....++.|.|.+|+|||||+.++.....  ..-..++|++....  ...+.. -+..++....
T Consensus        80 i~~LD~vLgGG-----i~~GsvilI~G~pGsGKTTL~lq~a~~~a--~~g~kvlYvs~EEs--~~qi~~-ra~rlg~~~~  149 (454)
T TIGR00416        80 FGELDRVLGGG-----IVPGSLILIGGDPGIGKSTLLLQVACQLA--KNQMKVLYVSGEES--LQQIKM-RAIRLGLPEP  149 (454)
T ss_pred             cHHHHHHhcCC-----ccCCeEEEEEcCCCCCHHHHHHHHHHHHH--hcCCcEEEEECcCC--HHHHHH-HHHHcCCChH
Confidence            45555555322     24567999999999999999998866422  12134677765433  222221 1223322211


Q ss_pred             -----ccccHHHHHHHHHHHhcCCceeEEEcCCC
Q 036323          269 -----DLHELNSLLRRIGANIAGQKFFMVLDNLW  297 (583)
Q Consensus       269 -----~~~~~~~~~~~l~~~l~~k~~LlVlDdv~  297 (583)
                           ...+.+.+...+.+   .+.-++|+|.+.
T Consensus       150 ~l~~~~e~~~~~I~~~i~~---~~~~~vVIDSIq  180 (454)
T TIGR00416       150 NLYVLSETNWEQICANIEE---ENPQACVIDSIQ  180 (454)
T ss_pred             HeEEcCCCCHHHHHHHHHh---cCCcEEEEecch
Confidence                 12344444444432   356689999984

The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).

>PRK14269 phosphate ABC transporter ATP-binding protein; Provisional

Probab=94.71  E-value=0.32  Score=47.33  Aligned_cols=23  Identities=26%  Similarity=0.475  Sum_probs=20.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|..|+|||||.+.++.
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~G   50 (246)
T PRK14269         28 NKITALIGASGCGKSTFLRCFNR   50 (246)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            45899999999999999999976

>cd03250 ABCC_MRP_domain1 Domain 1 of the ABC subfamily C

Probab=94.70  E-value=0.55  Score=44.19  Aligned_cols=25  Identities=24%  Similarity=0.449  Sum_probs=21.9

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...+++|.|..|.|||||++.+..-
T Consensus        30 ~G~~~~i~G~nG~GKSTLl~~i~G~   54 (204)
T cd03250          30 KGELVAIVGPVGSGKSSLLSALLGE   54 (204)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCc
Confidence            3558999999999999999999874

This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.

>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]

Probab=94.70  E-value=0.027  Score=49.97  Aligned_cols=23  Identities=30%  Similarity=0.673  Sum_probs=20.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..++.|+|.+|+||||+.+.+..
T Consensus         4 ~kvvvitGVpGvGKTTVl~~~~~   26 (189)
T COG2019           4 RKVVVITGVPGVGKTTVLKIALK   26 (189)
T ss_pred             ceEEEEEcCCCCChHHHHHHHHH
Confidence            68999999999999999987766

>PRK13545 tagH teichoic acids export protein ATP-binding subunit; Provisional

Probab=94.69  E-value=0.33  Score=52.11  Aligned_cols=24  Identities=33%  Similarity=0.614  Sum_probs=21.5

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+++|+|..|+|||||++.++.-
T Consensus        50 GEivgIiGpNGSGKSTLLkiLaGL   73 (549)
T PRK13545         50 GEIVGIIGLNGSGKSTLSNLIAGV   73 (549)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhCC
Confidence            458999999999999999999874

>TIGR01188 drrA daunorubicin resistance ABC transporter ATP-binding subunit

Probab=94.69  E-value=0.23  Score=50.10  Aligned_cols=24  Identities=25%  Similarity=0.378  Sum_probs=21.3

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+++|+|+.|+|||||.+.+..-
T Consensus        19 Ge~~~l~G~NGaGKSTLl~~l~Gl   42 (302)
T TIGR01188        19 GEVFGFLGPNGAGKTTTIRMLTTL   42 (302)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999999763

This model describes daunorubicin resistance ABC transporter, ATP binding subunit in bacteria and archaea. This model is restricted in its scope to preferentially recognize the ATP binding subunit associated with effux of the drug, daunorubicin. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporter is the obligatory coupling of ATP hydrolysis to substrate translocation. The minimal configuration of bacterial ABC transport system: an ATPase or ATP binding subunit; An integral membrane protein; a hydrophilic polypetpide, which likely functions as substrate binding protein. In eukaryotes proteins of similar function include p-gyco proteins, multidrug resistance protein etc.

>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=94.68  E-value=0.46  Score=44.77  Aligned_cols=25  Identities=28%  Similarity=0.401  Sum_probs=21.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDN  232 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~  232 (583)
                      .-+-+|-|+.|+||||||..+.-++
T Consensus        30 GEvhaiMGPNGsGKSTLa~~i~G~p   54 (251)
T COG0396          30 GEVHAIMGPNGSGKSTLAYTIMGHP   54 (251)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCC
Confidence            4578899999999999999997765

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=94.68  E-value=0.22  Score=48.35  Aligned_cols=60  Identities=13%  Similarity=0.083  Sum_probs=35.2

Q ss_pred             HHHHHHHHHhcCCceeEEEcCCCc-ccccchHhhHHhhcc--CCCCceEEEecCchHHHhhhc
Q 036323          275 SLLRRIGANIAGQKFFMVLDNLWT-DDYRKWEPFRNCLMN--GLRGSKILITTRKETVARMME  334 (583)
Q Consensus       275 ~~~~~l~~~l~~k~~LlVlDdv~~-~~~~~~~~l~~~l~~--~~~gs~IlvTtR~~~v~~~~~  334 (583)
                      ...-.+...|..++=+|+||.--+ -|....-.+...+..  ...|..||+++-+.+.+...+
T Consensus       144 rQrv~iArALaQ~~~iLLLDEPTs~LDi~~Q~evl~ll~~l~~~~~~tvv~vlHDlN~A~rya  206 (258)
T COG1120         144 RQRVLIARALAQETPILLLDEPTSHLDIAHQIEVLELLRDLNREKGLTVVMVLHDLNLAARYA  206 (258)
T ss_pred             HHHHHHHHHHhcCCCEEEeCCCccccCHHHHHHHHHHHHHHHHhcCCEEEEEecCHHHHHHhC
Confidence            334455666777888999998632 111111223333322  245778999999988776543

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=94.67  E-value=0.022  Score=52.79  Aligned_cols=24  Identities=42%  Similarity=0.523  Sum_probs=21.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+|+|-||-|+||||||+.+.++
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~   27 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEH   27 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHH
Confidence            468999999999999999999885

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=94.67  E-value=0.11  Score=57.98  Aligned_cols=24  Identities=29%  Similarity=0.411  Sum_probs=21.2

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+++++|+.|+||||++..++..
T Consensus       185 g~Vi~lVGpnGvGKTTTiaKLA~~  208 (767)
T PRK14723        185 GGVLALVGPTGVGKTTTTAKLAAR  208 (767)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHhh
Confidence            579999999999999999888763

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=94.67  E-value=0.07  Score=54.76  Aligned_cols=111  Identities=16%  Similarity=0.159  Sum_probs=59.1

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQ  287 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  287 (583)
                      ...+.|.|+.|+||||+...+.+.  +..+....++. +.++...  ..... ..+........+.......++..|...
T Consensus       122 ~g~ili~G~tGSGKTT~l~al~~~--i~~~~~~~i~t-iEdp~E~--~~~~~-~~~i~q~evg~~~~~~~~~l~~~lr~~  195 (343)
T TIGR01420       122 RGLILVTGPTGSGKSTTLASMIDY--INKNAAGHIIT-IEDPIEY--VHRNK-RSLINQREVGLDTLSFANALRAALRED  195 (343)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHh--hCcCCCCEEEE-EcCChhh--hccCc-cceEEccccCCCCcCHHHHHHHhhccC
Confidence            468999999999999999988763  33333344433 2222111  00000 000000000111123556677778888


Q ss_pred             ceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCchHH
Q 036323          288 KFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKETV  329 (583)
Q Consensus       288 ~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~~v  329 (583)
                      +=.|++|.+-  +.+.+...   +.....|..++.|.-....
T Consensus       196 pd~i~vgEir--d~~~~~~~---l~aa~tGh~v~~T~Ha~~~  232 (343)
T TIGR01420       196 PDVILIGEMR--DLETVELA---LTAAETGHLVFGTLHTNSA  232 (343)
T ss_pred             CCEEEEeCCC--CHHHHHHH---HHHHHcCCcEEEEEcCCCH
Confidence            9999999994  33344432   2233446666666654433

This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.

>PRK05922 type III secretion system ATPase; Validated

Probab=94.64  E-value=0.15  Score=53.32  Aligned_cols=86  Identities=16%  Similarity=0.189  Sum_probs=47.4

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCC-CCChHHHHHHHHHHhhcCc-------ccccc-----H
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSD-PFDEFNVAKATIEELEGSA-------IDLHE-----L  273 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~il~~l~~~~-------~~~~~-----~  273 (583)
                      ....++|+|..|+|||||.+.+.+..    ..+..+.+-++. .....+.+.+.........       .+...     .
T Consensus       156 ~GqrigI~G~nG~GKSTLL~~Ia~~~----~~d~gvi~liGerg~ev~eyl~q~~~~~~~~rTVlv~atsd~~~~~r~~a  231 (434)
T PRK05922        156 KGQRIGVFSEPGSGKSSLLSTIAKGS----KSTINVIALIGERGREVREYIEQHKEGLAAQRTIIIASPAHETAPTKVIA  231 (434)
T ss_pred             CCcEEEEECCCCCChHHHHHHHhccC----CCCceEEEEeCCCCchHHHHHHHHHhhccccceEEEEECCCCCHHHHHHH
Confidence            34568999999999999999998742    123333333333 2233444444443322211       01000     1


Q ss_pred             HHHHHHHHHHh--cCCceeEEEcCC
Q 036323          274 NSLLRRIGANI--AGQKFFMVLDNL  296 (583)
Q Consensus       274 ~~~~~~l~~~l--~~k~~LlVlDdv  296 (583)
                      ....-.+.+++  +++++||++||+
T Consensus       232 ~~~a~tiAEyfrd~G~~VLl~~Dsl  256 (434)
T PRK05922        232 GRAAMTIAEYFRDQGHRVLFIMDSL  256 (434)
T ss_pred             HHHHHHHHHHHHHcCCCEEEeccch
Confidence            11222334444  589999999999

>TIGR03263 guanyl_kin guanylate kinase

Probab=94.61  E-value=0.025  Score=52.19  Aligned_cols=23  Identities=30%  Similarity=0.589  Sum_probs=20.9

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ++++|+|++|+|||||++.+.+.
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~~   24 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLEE   24 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHcc
Confidence            47899999999999999999873

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.

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

Probab=94.61  E-value=0.033  Score=57.23  Aligned_cols=77  Identities=18%  Similarity=0.215  Sum_probs=46.8

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccc----cccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHH
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDV----INNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIG  281 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~----~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~  281 (583)
                      ..++=+-|+|..|.|||.|...+|+...+    +-||.              .....+-+.+.........+    ..+.
T Consensus        60 ~~~~GlYl~G~vG~GKT~Lmd~f~~~lp~~~k~R~HFh--------------~Fm~~vh~~l~~~~~~~~~l----~~va  121 (362)
T PF03969_consen   60 PPPKGLYLWGPVGRGKTMLMDLFYDSLPIKRKRRVHFH--------------EFMLDVHSRLHQLRGQDDPL----PQVA  121 (362)
T ss_pred             CCCceEEEECCCCCchhHHHHHHHHhCCcccccccccc--------------HHHHHHHHHHHHHhCCCccH----HHHH
Confidence            45778889999999999999999986433    22332              23334444433222122222    2333


Q ss_pred             HHhcCCceeEEEcCCCccc
Q 036323          282 ANIAGQKFFMVLDNLWTDD  300 (583)
Q Consensus       282 ~~l~~k~~LlVlDdv~~~~  300 (583)
                      +.+.++..||.||.+.-.|
T Consensus       122 ~~l~~~~~lLcfDEF~V~D  140 (362)
T PF03969_consen  122 DELAKESRLLCFDEFQVTD  140 (362)
T ss_pred             HHHHhcCCEEEEeeeeccc
Confidence            4456677799999985443

AFG1 also has substantial homology to these proteins outside the ATPase domain []. This family of proteins contains a P-loop motif.; GO: 0005524 ATP binding

>cd03300 ABC_PotA_N PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D

Probab=94.60  E-value=0.2  Score=48.35  Aligned_cols=24  Identities=33%  Similarity=0.454  Sum_probs=21.6

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+++|+|..|.|||||.+.++..
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~l~g~   49 (232)
T cd03300          26 GEFFTLLGPSGCGKTTLLRLIAGF   49 (232)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            468999999999999999999764

PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required for homodimerization with PotA and heterdimerization with PotB. 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.

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=94.59  E-value=0.13  Score=47.98  Aligned_cols=23  Identities=39%  Similarity=0.471  Sum_probs=21.0

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..|+|.|..|+||||+++.+.+.
T Consensus         4 ~~IvieG~~GsGKsT~~~~L~~~   26 (195)
T TIGR00041         4 MFIVIEGIDGAGKTTQANLLKKL   26 (195)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            57999999999999999999874

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.

>COG4181 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]

Probab=94.57  E-value=0.49  Score=42.50  Aligned_cols=83  Identities=19%  Similarity=0.149  Sum_probs=50.1

Q ss_pred             ChHHHHHHHHHHhhcC------ccccccHHHHHHHHHHHhcCCceeEEEcCCC----cccccchHhhHHhhccCCCCceE
Q 036323          251 DEFNVAKATIEELEGS------AIDLHELNSLLRRIGANIAGQKFFMVLDNLW----TDDYRKWEPFRNCLMNGLRGSKI  320 (583)
Q Consensus       251 ~~~~~~~~il~~l~~~------~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~----~~~~~~~~~l~~~l~~~~~gs~I  320 (583)
                      +.....+.++.+++..      +.+.+.-++..-.|.+.+..++-+|+-|.--    ...-....++.-.+ ....|+..
T Consensus       122 ~~~~~A~~lL~~vGLg~Rl~HyP~qLSGGEQQRVAiARAfa~~P~vLfADEPTGNLD~~Tg~~iaDLlF~l-nre~G~Tl  200 (228)
T COG4181         122 DSRAGAKALLEAVGLGKRLTHYPAQLSGGEQQRVALARAFAGRPDVLFADEPTGNLDRATGDKIADLLFAL-NRERGTTL  200 (228)
T ss_pred             cHHHHHHHHHHHhCcccccccCccccCchHHHHHHHHHHhcCCCCEEeccCCCCCcchhHHHHHHHHHHHH-hhhcCceE
Confidence            3445566667766543      2233444455556777788889999988652    11112333333222 34568888


Q ss_pred             EEecCchHHHhhhc
Q 036323          321 LITTRKETVARMME  334 (583)
Q Consensus       321 lvTtR~~~v~~~~~  334 (583)
                      ++.|-++.++..|.
T Consensus       201 VlVTHD~~LA~Rc~  214 (228)
T COG4181         201 VLVTHDPQLAARCD  214 (228)
T ss_pred             EEEeCCHHHHHhhh
Confidence            99999999887654

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

Probab=94.56  E-value=0.032  Score=51.66  Aligned_cols=37  Identities=30%  Similarity=0.357  Sum_probs=28.2

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEe
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCV  246 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~  246 (583)
                      .+++.|+|+.|+|||||++.+..  .....|...++.+-
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~--~~~~~~~~~v~~TT   38 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQ--EFPDKFGRVVSHTT   38 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHH--HSTTTEEEEEEEES
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH--hcccccccceeecc
Confidence            46889999999999999999988  34456654554443

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 ....

>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=94.56  E-value=0.022  Score=52.58  Aligned_cols=22  Identities=36%  Similarity=0.588  Sum_probs=19.8

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      +|+|.|.+|+||||||+.+...
T Consensus         1 ii~i~G~sgsGKttla~~l~~~   22 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQ   22 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999998863

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

>COG4133 CcmA ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]

Probab=94.55  E-value=0.52  Score=43.04  Aligned_cols=22  Identities=32%  Similarity=0.542  Sum_probs=19.7

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+.|.|..|+|||||.+.++-
T Consensus        29 e~~~i~G~NG~GKTtLLRilaG   50 (209)
T COG4133          29 EALQITGPNGAGKTTLLRILAG   50 (209)
T ss_pred             CEEEEECCCCCcHHHHHHHHHc
Confidence            4788999999999999999865

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=94.55  E-value=0.084  Score=55.74  Aligned_cols=90  Identities=13%  Similarity=0.081  Sum_probs=53.7

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCC-ChHHHHHHHHHHhhcC-------cccccc-----
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPF-DEFNVAKATIEELEGS-------AIDLHE-----  272 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~il~~l~~~-------~~~~~~-----  272 (583)
                      ....-++|.|.+|+|||||+..+.++... .+-+.++++-+.+.. ...++...+...-...       ..+...     
T Consensus       141 gkGQR~gIfa~~G~GKt~Ll~~~~~~~~~-~~~dv~V~~liGER~rEv~ef~~~~~~~~~l~rsvvv~atsd~~~~~R~~  219 (461)
T PRK12597        141 AKGGKTGLFGGAGVGKTVLMMELIFNISK-QHSGSSVFAGVGERSREGHELYHEMKESGVLDKTVMVYGQMNEPPGARMR  219 (461)
T ss_pred             ccCCEEEeecCCCCChhHHHHHHHHHHHh-hCCCEEEEEcCCcchHHHHHHHHHHHhcCCcceeEEEecCCCCCHHHHHH
Confidence            34567899999999999999888875322 245777777766543 3444555544321110       001111     


Q ss_pred             HHHHHHHHHHHh---cCCceeEEEcCC
Q 036323          273 LNSLLRRIGANI---AGQKFFMVLDNL  296 (583)
Q Consensus       273 ~~~~~~~l~~~l---~~k~~LlVlDdv  296 (583)
                      .......+.+++   +++++||++||+
T Consensus       220 a~~~a~tiAEyfrd~~G~~VLl~~Dsl  246 (461)
T PRK12597        220 VVLTGLTIAEYLRDEEKEDVLLFIDNI  246 (461)
T ss_pred             HHHHHHHHHHHHHHhcCCceEEEeccc
Confidence            112223344555   378999999999

>PRK10923 glnG nitrogen regulation protein NR(I); Provisional

Probab=94.54  E-value=0.1  Score=56.29  Aligned_cols=47  Identities=15%  Similarity=0.241  Sum_probs=36.4

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..++|+...+.++.+.+....     .....|.|+|.+|+|||++|+.+++.
T Consensus       138 ~~lig~s~~~~~l~~~~~~~~-----~~~~~vli~Ge~GtGK~~lA~~ih~~  184 (469)
T PRK10923        138 TDIIGEAPAMQDVFRIIGRLS-----RSSISVLINGESGTGKELVAHALHRH  184 (469)
T ss_pred             ccceecCHHHHHHHHHHHHHh-----ccCCeEEEEeCCCCcHHHHHHHHHhc
Confidence            458999888888877764332     23446789999999999999999874

>PRK07276 DNA polymerase III subunit delta'; Validated

Probab=94.53  E-value=0.82  Score=45.42  Aligned_cols=69  Identities=14%  Similarity=0.146  Sum_probs=46.7

Q ss_pred             CCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCch-HHHhhhcC-CCeEEcCCCChHHHHHHHHH
Q 036323          286 GQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKE-TVARMMES-TDIVYVQGLSELECWSLFRR  355 (583)
Q Consensus       286 ~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~-~v~~~~~~-~~~~~l~~L~~~ea~~Lf~~  355 (583)
                      +++-++|+|+++..+....+.|...+.....++.+|++|.+. .+...+.+ ...+.+.+ +.++..+.+..
T Consensus       103 ~~~kV~II~~ad~m~~~AaNaLLKtLEEPp~~t~~iL~t~~~~~lLpTI~SRcq~i~f~~-~~~~~~~~L~~  173 (290)
T PRK07276        103 GKQQVFIIKDADKMHVNAANSLLKVIEEPQSEIYIFLLTNDENKVLPTIKSRTQIFHFPK-NEAYLIQLLEQ  173 (290)
T ss_pred             CCcEEEEeehhhhcCHHHHHHHHHHhcCCCCCeEEEEEECChhhCchHHHHcceeeeCCC-cHHHHHHHHHH
Confidence            556699999998777778888888887766667677666554 44433333 56777766 66666666543

>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=94.53  E-value=0.028  Score=47.68  Aligned_cols=22  Identities=32%  Similarity=0.548  Sum_probs=19.6

Q ss_pred             EEEEecCCchHHHHHHHHHcCc
Q 036323          211 ISMVGMGGIGKTTLAQLAYNDN  232 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~~  232 (583)
                      |.|+|..|+|||||.+.++...
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            6799999999999999998753

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.

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=94.53  E-value=0.11  Score=55.13  Aligned_cols=88  Identities=10%  Similarity=0.107  Sum_probs=45.1

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCC-CCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSD-PFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAG  286 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~  286 (583)
                      ..|++++|+.|+||||++..++...........+..++... .....+-+....+.++.......+..+....+. .+.+
T Consensus       256 g~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~~Dt~RigA~EQLr~~AeilGVpv~~~~~~~Dl~~aL~-~L~d  334 (484)
T PRK06995        256 GGVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLTTDSYRIGGHEQLRIYGKILGVPVHAVKDAADLRLALS-ELRN  334 (484)
T ss_pred             CcEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEeCCccchhHHHHHHHHHHHhCCCeeccCCchhHHHHHH-hccC
Confidence            47999999999999999988876322121112334444322 122334444444444433222222222222222 2333


Q ss_pred             CceeEEEcCCC
Q 036323          287 QKFFMVLDNLW  297 (583)
Q Consensus       287 k~~LlVlDdv~  297 (583)
                      + -.+++|-.-
T Consensus       335 ~-d~VLIDTaG  344 (484)
T PRK06995        335 K-HIVLIDTIG  344 (484)
T ss_pred             C-CeEEeCCCC
Confidence            3 477788763

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional

Probab=94.51  E-value=0.089  Score=56.99  Aligned_cols=47  Identities=19%  Similarity=0.351  Sum_probs=37.8

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..++|....++++.+.+..-.     .....|.|.|..|+||+.+|+.+++.
T Consensus       219 ~~iiG~S~~m~~~~~~i~~~A-----~s~~pVLI~GE~GTGKe~~A~~IH~~  265 (538)
T PRK15424        219 GDLLGQSPQMEQVRQTILLYA-----RSSAAVLIQGETGTGKELAAQAIHRE  265 (538)
T ss_pred             hheeeCCHHHHHHHHHHHHHh-----CCCCcEEEECCCCCCHHHHHHHHHHh
Confidence            458999998888888875432     23457889999999999999999874

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=94.50  E-value=0.12  Score=54.08  Aligned_cols=25  Identities=32%  Similarity=0.411  Sum_probs=21.6

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+.+|.++|.+|+||||++..++.
T Consensus        98 ~~~~vi~lvG~~GvGKTTtaaKLA~  122 (429)
T TIGR01425        98 GKQNVIMFVGLQGSGKTTTCTKLAY  122 (429)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3468999999999999999988765

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.

>cd03236 ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 of RNase L inhibitor

Probab=94.49  E-value=0.25  Score=48.35  Aligned_cols=25  Identities=32%  Similarity=0.537  Sum_probs=21.7

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...+++|+|..|.|||||.+.++.-
T Consensus        25 ~Ge~~~IvG~nGsGKSTLlk~l~Gl   49 (255)
T cd03236          25 EGQVLGLVGPNGIGKSTALKILAGK   49 (255)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3559999999999999999998763

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, RLIs 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.

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=94.46  E-value=0.21  Score=53.74  Aligned_cols=135  Identities=13%  Similarity=0.100  Sum_probs=69.4

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKAT  259 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  259 (583)
                      ..++|......++...+....     .....+.|.|..|+||+++|+.+......  .....+-+++...  ..+.+...
T Consensus       134 ~~lig~s~~~~~v~~~i~~~a-----~~~~~vli~Ge~GtGK~~~A~~ih~~~~~--~~~~~~~~~c~~~--~~~~~~~~  204 (463)
T TIGR01818       134 AELIGEAPAMQEVFRAIGRLS-----RSDITVLINGESGTGKELVARALHRHSPR--ANGPFIALNMAAI--PKDLIESE  204 (463)
T ss_pred             cceeecCHHHHHHHHHHHHHh-----CcCCeEEEECCCCCCHHHHHHHHHHhCCC--CCCCeEEEeCCCC--CHHHHHHH
Confidence            357888777777777665432     22345789999999999999999874221  1122233344332  12222222


Q ss_pred             HHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccCC-----------CCceEEEecCch
Q 036323          260 IEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGL-----------RGSKILITTRKE  327 (583)
Q Consensus       260 l~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~IlvTtR~~  327 (583)
                      +   .+........ ..............-.|+||++..-.......|...+..+.           .+.+||+||...
T Consensus       205 l---fg~~~~~~~~-~~~~~~g~~~~a~~gtl~l~ei~~l~~~~q~~ll~~l~~~~~~~~~~~~~~~~~~rii~~~~~~  279 (463)
T TIGR01818       205 L---FGHEKGAFTG-ANTRRQGRFEQADGGTLFLDEIGDMPLDAQTRLLRVLADGEFYRVGGRTPIKVDVRIVAATHQN  279 (463)
T ss_pred             h---cCCCCCCCCC-cccCCCCcEEECCCCeEEEEchhhCCHHHHHHHHHHHhcCcEEECCCCceeeeeeEEEEeCCCC
Confidence            2   2211100000 00000000011223458999997655555666666554321           245788888643

This model represents NtrC, a DNA-binding response regulator that is phosphorylated by NtrB and interacts with sigma-54. NtrC usually controls the expression of glutamine synthase, GlnA, and may be called GlnL, GlnG, etc.

>PRK11160 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=94.46  E-value=0.29  Score=54.17  Aligned_cols=24  Identities=33%  Similarity=0.494  Sum_probs=21.4

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ....++|+|..|.|||||++.+..
T Consensus       365 ~G~~~aivG~sGsGKSTL~~ll~g  388 (574)
T PRK11160        365 AGEKVALLGRTGCGKSTLLQLLTR  388 (574)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            456899999999999999999876

>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed

Probab=94.46  E-value=0.023  Score=64.59  Aligned_cols=23  Identities=17%  Similarity=0.140  Sum_probs=20.1

Q ss_pred             ceEEEEEEecCCchHHHHHHHHH
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAY  229 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~  229 (583)
                      ..+++.|+|+.+.||||+.+.+.
T Consensus       326 ~~~~~iITGpN~gGKTt~lktig  348 (782)
T PRK00409        326 DKTVLVITGPNTGGKTVTLKTLG  348 (782)
T ss_pred             CceEEEEECCCCCCcHHHHHHHH
Confidence            45788999999999999998874

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

Probab=94.46  E-value=0.026  Score=51.39  Aligned_cols=21  Identities=38%  Similarity=0.572  Sum_probs=18.0

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |.|+|.+|+|||||++.+++.
T Consensus         2 i~iTG~pG~GKTTll~k~i~~   22 (168)
T PF03266_consen    2 IFITGPPGVGKTTLLKKVIEE   22 (168)
T ss_dssp             EEEES-TTSSHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHH
Confidence            679999999999999998764

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.

>PRK13657 cyclic beta-1,2-glucan ABC transporter; Provisional

Probab=94.46  E-value=0.3  Score=54.22  Aligned_cols=24  Identities=38%  Similarity=0.515  Sum_probs=20.9

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ....++|+|..|+|||||++.+..
T Consensus       360 ~G~~v~IvG~sGsGKSTLl~lL~g  383 (588)
T PRK13657        360 PGQTVAIVGPTGAGKSTLINLLQR  383 (588)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            345899999999999999998865

>PRK08972 fliI flagellum-specific ATP synthase; Validated

Probab=94.45  E-value=0.11  Score=54.24  Aligned_cols=86  Identities=15%  Similarity=0.166  Sum_probs=49.4

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCC-hHHHHHHHHHHhhcC-------cccccc-----H
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFD-EFNVAKATIEELEGS-------AIDLHE-----L  273 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~-~~~~~~~il~~l~~~-------~~~~~~-----~  273 (583)
                      ....++|+|..|+|||||++.+++..    ..+.++..-+.+... ..++...++..-...       ..+...     .
T Consensus       161 ~GqrigI~G~sG~GKSTLL~~I~~~~----~~dv~Vi~lIGER~rEv~efi~~~l~~~~l~rtvvv~atsd~p~~~R~~a  236 (444)
T PRK08972        161 KGQRMGLFAGSGVGKSVLLGMMTRGT----TADVIVVGLVGERGREVKEFIEEILGEEGRARSVVVAAPADTSPLMRLKG  236 (444)
T ss_pred             CCCEEEEECCCCCChhHHHHHhccCC----CCCEEEEEEEcCChHHHHHHHHHhhccCCcccEEEEEECCCCCHHHHHHH
Confidence            34578999999999999999998632    224555566655433 344444443331111       001111     1


Q ss_pred             HHHHHHHHHHh--cCCceeEEEcCC
Q 036323          274 NSLLRRIGANI--AGQKFFMVLDNL  296 (583)
Q Consensus       274 ~~~~~~l~~~l--~~k~~LlVlDdv  296 (583)
                      ....-.+.+++  +++++||++||+
T Consensus       237 ~~~A~tiAEyfrd~G~~VLl~~Dsl  261 (444)
T PRK08972        237 CETATTIAEYFRDQGLNVLLLMDSL  261 (444)
T ss_pred             HHHHHHHHHHHHHcCCCEEEEEcCh
Confidence            11122233444  589999999999

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

Probab=94.45  E-value=0.042  Score=54.10  Aligned_cols=42  Identities=19%  Similarity=0.165  Sum_probs=34.7

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCC
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDP  249 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~  249 (583)
                      +..+++.|.|.+|+|||+++.++...  ...+...++||+....
T Consensus        21 p~g~~~lI~G~pGsGKT~f~~qfl~~--~~~~ge~vlyvs~~e~   62 (260)
T COG0467          21 PRGSVVLITGPPGTGKTIFALQFLYE--GAREGEPVLYVSTEES   62 (260)
T ss_pred             cCCcEEEEEcCCCCcHHHHHHHHHHH--HHhcCCcEEEEEecCC
Confidence            56789999999999999999888773  4455778999988764

>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]

Probab=94.43  E-value=0.1  Score=50.85  Aligned_cols=51  Identities=16%  Similarity=0.259  Sum_probs=35.8

Q ss_pred             ceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          181 EVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       181 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .++|..--.+.++..+.+--.+....++-+++.+|.+|+||.-.++.++++
T Consensus        83 ~lfGQHla~~~Vv~alk~~~~n~~p~KPLvLSfHG~tGTGKN~Va~iiA~n  133 (344)
T KOG2170|consen   83 ALFGQHLAKQLVVNALKSHWANPNPRKPLVLSFHGWTGTGKNYVAEIIAEN  133 (344)
T ss_pred             HhhchHHHHHHHHHHHHHHhcCCCCCCCeEEEecCCCCCchhHHHHHHHHH
Confidence            456665555555555543222224567889999999999999999888775

>PRK11650 ugpC glycerol-3-phosphate transporter ATP-binding subunit; Provisional

Probab=94.43  E-value=0.2  Score=51.61  Aligned_cols=23  Identities=35%  Similarity=0.550  Sum_probs=20.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||.+.++.
T Consensus        30 Ge~~~llG~sGsGKSTLLr~iaG   52 (356)
T PRK11650         30 GEFIVLVGPSGCGKSTLLRMVAG   52 (356)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHC
Confidence            45899999999999999999976

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=94.42  E-value=0.22  Score=48.26  Aligned_cols=53  Identities=9%  Similarity=0.039  Sum_probs=35.2

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHH
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEE  262 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~  262 (583)
                      ...++.|.|.+|+|||+++.+++.+... .+=..++|++...  +..++...++..
T Consensus        12 ~G~l~lI~G~~G~GKT~~~~~~~~~~~~-~~g~~vly~s~E~--~~~~~~~r~~~~   64 (242)
T cd00984          12 PGDLIIIAARPSMGKTAFALNIAENIAK-KQGKPVLFFSLEM--SKEQLLQRLLAS   64 (242)
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHH-hCCCceEEEeCCC--CHHHHHHHHHHH
Confidence            4568999999999999999887664222 2123466666554  455666666544

The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.

>PRK00300 gmk guanylate kinase; Provisional

Probab=94.42  E-value=0.029  Score=53.01  Aligned_cols=25  Identities=28%  Similarity=0.408  Sum_probs=22.1

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...+++|+|++|+|||||++.++..
T Consensus         4 ~g~~i~i~G~sGsGKstl~~~l~~~   28 (205)
T PRK00300          4 RGLLIVLSGPSGAGKSTLVKALLER   28 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhh
Confidence            3568999999999999999999874

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

Probab=94.41  E-value=0.093  Score=49.32  Aligned_cols=103  Identities=12%  Similarity=0.093  Sum_probs=48.2

Q ss_pred             CCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCcc---ccccHHHHHHHHH
Q 036323          205 TNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAI---DLHELNSLLRRIG  281 (583)
Q Consensus       205 ~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~---~~~~~~~~~~~l~  281 (583)
                      ...+.++.|.|.+|+||||++..+.....    ....+.++...--........+... .....   .......+...+.
T Consensus        12 ~~~P~~~i~aG~~GsGKSt~~~~~~~~~~----~~~~v~i~~D~~r~~~p~~~~~~~~-~~~~~~~~~~~~a~~~~~~~~   86 (199)
T PF06414_consen   12 QEKPTLIIIAGQPGSGKSTLARQLLEEFG----GGGIVVIDADEFRQFHPDYDELLKA-DPDEASELTQKEASRLAEKLI   86 (199)
T ss_dssp             -SS-EEEEEES-TTSTTHHHHHHHHHHT-----TT-SEEE-GGGGGGGSTTHHHHHHH-HCCCTHHHHHHHHHHHHHHHH
T ss_pred             ccCCEEEEEeCCCCCCHHHHHHHhhhhcc----CCCeEEEehHHHHHhccchhhhhhh-hhhhhHHHHHHHHHHHHHHHH
Confidence            36788999999999999999998876311    2344555432211111112222222 11111   1122334555666


Q ss_pred             HHhcCCceeEEEcCCCcccccchHhhHHhhcc
Q 036323          282 ANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMN  313 (583)
Q Consensus       282 ~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~  313 (583)
                      +..-.+++=+|+|..-.. ......+...+..
T Consensus        87 ~~a~~~~~nii~E~tl~~-~~~~~~~~~~~k~  117 (199)
T PF06414_consen   87 EYAIENRYNIIFEGTLSN-PSKLRKLIREAKA  117 (199)
T ss_dssp             HHHHHCT--EEEE--TTS-SHHHHHHHHHHHC
T ss_pred             HHHHHcCCCEEEecCCCC-hhHHHHHHHHHHc
Confidence            666677778888987432 2233334444544

It has subsequently been found in a number of other proteins, such as polynucleotide kinase and 2',3'-cyclic-nucleotide 3'-phosphodiesterase. It appears to function as a kinase domain [, ].; GO: 0005524 ATP binding, 0016301 kinase activity; PDB: 2P5T_H 1GVN_B 3Q8X_D.

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=94.41  E-value=0.17  Score=51.16  Aligned_cols=26  Identities=31%  Similarity=0.420  Sum_probs=22.6

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcC
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ....+++++|++|+||||++..++..
T Consensus       112 ~~~~vi~lvGpnGsGKTTt~~kLA~~  137 (318)
T PRK10416        112 KKPFVILVVGVNGVGKTTTIGKLAHK  137 (318)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHH
Confidence            35689999999999999999888764

>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=94.41  E-value=0.024  Score=50.11  Aligned_cols=22  Identities=41%  Similarity=0.600  Sum_probs=19.8

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      +|.|.|.+|+||||+|+.+...
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~   22 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKK   22 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5789999999999999998863

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

Probab=94.40  E-value=0.033  Score=49.02  Aligned_cols=39  Identities=23%  Similarity=0.304  Sum_probs=26.9

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSD  248 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~  248 (583)
                      ++|.|+|..|+|||||++.+.+.. .+..+...+..+...
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l-~~~g~~v~~ik~~~~   39 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINEL-KRRGYRVAVIKHTDH   39 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHH-HHTT--EEEEEE-ST
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH-hHcCCceEEEEEccC
Confidence            479999999999999999998853 224455555565544

>PRK08149 ATP synthase SpaL; Validated

Probab=94.39  E-value=0.17  Score=53.00  Aligned_cols=86  Identities=12%  Similarity=0.216  Sum_probs=48.2

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCC-CCChHHHHHHHHHHhhcC-------cccccc-----H
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSD-PFDEFNVAKATIEELEGS-------AIDLHE-----L  273 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~il~~l~~~-------~~~~~~-----~  273 (583)
                      ....++|+|.+|+|||||...+++...    -+.++...+.. ..+..++....+......       ..+...     .
T Consensus       150 ~Gq~i~I~G~sG~GKTTLl~~i~~~~~----~dv~v~g~Ig~rg~ev~e~~~~~l~~~~~~~~~vV~~~sd~p~~~r~~a  225 (428)
T PRK08149        150 VGQRMGIFASAGCGKTSLMNMLIEHSE----ADVFVIGLIGERGREVTEFVESLRASSRREKCVLVYATSDFSSVDRCNA  225 (428)
T ss_pred             cCCEEEEECCCCCChhHHHHHHhcCCC----CCeEEEEEEeeCCccHHHHHHHHhhcccccceEEEEECCCCCHHHHHhH
Confidence            455789999999999999999987422    22333333332 234445555555432211       011111     1


Q ss_pred             HHHHHHHHHHh--cCCceeEEEcCC
Q 036323          274 NSLLRRIGANI--AGQKFFMVLDNL  296 (583)
Q Consensus       274 ~~~~~~l~~~l--~~k~~LlVlDdv  296 (583)
                      ......+.+++  +++++||++||+
T Consensus       226 ~~~a~tiAE~fr~~G~~Vll~~Dsl  250 (428)
T PRK08149        226 ALVATTVAEYFRDQGKRVVLFIDSM  250 (428)
T ss_pred             HHHHHHHHHHHHHcCCCEEEEccch
Confidence            11222233333  589999999999

>PRK03846 adenylylsulfate kinase; Provisional

Probab=94.39  E-value=0.034  Score=52.24  Aligned_cols=25  Identities=24%  Similarity=0.376  Sum_probs=22.5

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .+..+|.|+|++|+||||||+.+..
T Consensus        22 ~~~~~i~i~G~~GsGKSTla~~l~~   46 (198)
T PRK03846         22 HKGVVLWFTGLSGSGKSTVAGALEE   46 (198)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4567999999999999999999877

>PRK15115 response regulator GlrR; Provisional

Probab=94.32  E-value=0.11  Score=55.64  Aligned_cols=46  Identities=22%  Similarity=0.185  Sum_probs=33.0

Q ss_pred             ceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          181 EVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       181 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .++|....+.++.+....-.     .....|.|.|.+|+|||++|+.+.+.
T Consensus       135 ~lig~s~~~~~~~~~~~~~a-----~~~~~vli~Ge~GtGk~~lA~~ih~~  180 (444)
T PRK15115        135 AIVTRSPLMLRLLEQARMVA-----QSDVSVLINGQSGTGKEILAQAIHNA  180 (444)
T ss_pred             cccccCHHHHHHHHHHHhhc-----cCCCeEEEEcCCcchHHHHHHHHHHh
Confidence            46787777776666553322     22345679999999999999999874

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=94.32  E-value=0.034  Score=52.04  Aligned_cols=24  Identities=25%  Similarity=0.401  Sum_probs=21.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+|.|.|.+|+||||+|+.+...
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~   26 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARH   26 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHh
Confidence            468999999999999999999874

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

Probab=94.32  E-value=0.031  Score=50.06  Aligned_cols=20  Identities=40%  Similarity=0.735  Sum_probs=18.3

Q ss_pred             EEEEEecCCchHHHHHHHHH
Q 036323          210 IISMVGMGGIGKTTLAQLAY  229 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~  229 (583)
                      .|+|.|.||+||||++..+.
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            58899999999999998876

>PRK08927 fliI flagellum-specific ATP synthase; Validated

Probab=94.31  E-value=0.17  Score=52.98  Aligned_cols=86  Identities=15%  Similarity=0.186  Sum_probs=48.8

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCC-hHHHHHHHHHHhhcC-------ccccccH-----
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFD-EFNVAKATIEELEGS-------AIDLHEL-----  273 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~-~~~~~~~il~~l~~~-------~~~~~~~-----  273 (583)
                      ....++|+|..|+|||||++.+++...    .+.++++-+..... ..++....+..-+..       ..+....     
T Consensus       157 ~Gqri~I~G~sG~GKTtLL~~I~~~~~----~d~~v~~~iGER~rEv~ef~~~~l~~~~l~rsvvv~atsd~~~~~r~~a  232 (442)
T PRK08927        157 RGQRMGIFAGSGVGKSVLLSMLARNAD----ADVSVIGLIGERGREVQEFLQDDLGPEGLARSVVVVATSDEPALMRRQA  232 (442)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhccC----CCEEEEEEEecCcHHHHHHHHHHhhccCceeEEEEEECCCCCHHHHHHH
Confidence            456789999999999999999987422    23445555555433 334444343321111       0011111     


Q ss_pred             HHHHHHHHHHh--cCCceeEEEcCC
Q 036323          274 NSLLRRIGANI--AGQKFFMVLDNL  296 (583)
Q Consensus       274 ~~~~~~l~~~l--~~k~~LlVlDdv  296 (583)
                      ....-.+.+++  +++.+||++||+
T Consensus       233 ~~~a~tiAEyfrd~G~~Vll~~Dsl  257 (442)
T PRK08927        233 AYLTLAIAEYFRDQGKDVLCLMDSV  257 (442)
T ss_pred             HHHHHHHHHHHHHCCCcEEEEEeCc
Confidence            11222233444  588999999999

>PRK06793 fliI flagellum-specific ATP synthase; Validated

Probab=94.31  E-value=0.16  Score=53.21  Aligned_cols=88  Identities=16%  Similarity=0.179  Sum_probs=49.1

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcC-------cccc-c----cHH
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGS-------AIDL-H----ELN  274 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~-------~~~~-~----~~~  274 (583)
                      ....++|.|..|+|||||+..++.....   ...++...-.+.....+.+...+..-+..       ..+. .    ...
T Consensus       155 ~Gqri~I~G~sG~GKTtLl~~Ia~~~~~---~~gvI~~iGerg~ev~e~~~~~l~~~gl~~tvvv~~tsd~s~~~r~ra~  231 (432)
T PRK06793        155 IGQKIGIFAGSGVGKSTLLGMIAKNAKA---DINVISLVGERGREVKDFIRKELGEEGMRKSVVVVATSDESHLMQLRAA  231 (432)
T ss_pred             CCcEEEEECCCCCChHHHHHHHhccCCC---CeEEEEeCCCCcccHHHHHHHHhhhcccceeEEEEECCCCCHHHHHHHH
Confidence            4557899999999999999999875321   12233322223345555655554432211       0011 0    111


Q ss_pred             HHHHHHHHHh--cCCceeEEEcCCC
Q 036323          275 SLLRRIGANI--AGQKFFMVLDNLW  297 (583)
Q Consensus       275 ~~~~~l~~~l--~~k~~LlVlDdv~  297 (583)
                      .....+.+++  ++++.||++||+-
T Consensus       232 ~~a~~iAEyfr~~G~~VLlilDslT  256 (432)
T PRK06793        232 KLATSIAEYFRDQGNNVLLMMDSVT  256 (432)
T ss_pred             HHHHHHHHHHHHcCCcEEEEecchH
Confidence            2222333333  4789999999983

>PRK14738 gmk guanylate kinase; Provisional

Probab=94.29  E-value=0.041  Score=52.05  Aligned_cols=25  Identities=16%  Similarity=0.323  Sum_probs=22.5

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...+.+.|+|++|+|||||++.+..
T Consensus        11 ~~~~~ivi~GpsG~GK~tl~~~L~~   35 (206)
T PRK14738         11 AKPLLVVISGPSGVGKDAVLARMRE   35 (206)
T ss_pred             CCCeEEEEECcCCCCHHHHHHHHHh
Confidence            5678899999999999999999875

>COG3840 ThiQ ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]

Probab=94.29  E-value=0.53  Score=42.72  Aligned_cols=36  Identities=22%  Similarity=0.270  Sum_probs=26.1

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEE
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVC  245 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~  245 (583)
                      ...+++|.|++|.|||||...++.-   ...-.+.+|++
T Consensus        24 ~ge~vAi~GpSGaGKSTLLnLIAGF---~~P~~G~i~i~   59 (231)
T COG3840          24 AGEIVAILGPSGAGKSTLLNLIAGF---ETPASGEILIN   59 (231)
T ss_pred             CCcEEEEECCCCccHHHHHHHHHhc---cCCCCceEEEc
Confidence            3468999999999999999988752   12223456664

>PRK11432 fbpC ferric transporter ATP-binding subunit; Provisional

Probab=94.27  E-value=0.25  Score=50.88  Aligned_cols=23  Identities=30%  Similarity=0.547  Sum_probs=20.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||.+.+..
T Consensus        32 Ge~~~llGpsGsGKSTLLr~IaG   54 (351)
T PRK11432         32 GTMVTLLGPSGCGKTTVLRLVAG   54 (351)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHC
Confidence            45899999999999999999976

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

Probab=94.26  E-value=0.17  Score=49.74  Aligned_cols=81  Identities=19%  Similarity=0.196  Sum_probs=43.6

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQ  287 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  287 (583)
                      ..++.|.|..|+||||++..+.+.  +...-..++  .+.++....  +.. ..++....   .........++..|+..
T Consensus        80 ~GlilisG~tGSGKTT~l~all~~--i~~~~~~ii--tiEdp~E~~--~~~-~~q~~v~~---~~~~~~~~~l~~~lR~~  149 (264)
T cd01129          80 HGIILVTGPTGSGKTTTLYSALSE--LNTPEKNII--TVEDPVEYQ--IPG-INQVQVNE---KAGLTFARGLRAILRQD  149 (264)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhh--hCCCCCeEE--EECCCceec--CCC-ceEEEeCC---cCCcCHHHHHHHHhccC
Confidence            458999999999999999888663  221111222  222221100  000 00111010   00113455667777888


Q ss_pred             ceeEEEcCCCc
Q 036323          288 KFFMVLDNLWT  298 (583)
Q Consensus       288 ~~LlVlDdv~~  298 (583)
                      +=.|+++++-+
T Consensus       150 PD~i~vgEiR~  160 (264)
T cd01129         150 PDIIMVGEIRD  160 (264)
T ss_pred             CCEEEeccCCC
Confidence            88999999943

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.

>PRK14737 gmk guanylate kinase; Provisional

Probab=94.26  E-value=0.037  Score=51.41  Aligned_cols=25  Identities=20%  Similarity=0.388  Sum_probs=22.4

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...+|.|+|++|+|||||++.+...
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~~   27 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLEE   27 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhc
Confidence            4678999999999999999999874

>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B

Probab=94.26  E-value=0.22  Score=48.77  Aligned_cols=90  Identities=12%  Similarity=0.046  Sum_probs=53.0

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccc--cccCceEEEEEeCCCC-ChHHHHHHHHHHhhcC-------cccccc----
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDV--INNFEIRVRVCVSDPF-DEFNVAKATIEELEGS-------AIDLHE----  272 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~--~~~f~~~~wv~~~~~~-~~~~~~~~il~~l~~~-------~~~~~~----  272 (583)
                      .-+-++|.|-.|+|||+|+..+.++...  +.+-+.++++-+.+.. ...++...+...-...       ..+...    
T Consensus        68 ~GQR~gIfgg~GvGKt~L~~~i~~~~~~~~~~~~~v~V~~~IGeR~rev~e~~~~~~~~~~l~~tv~v~~t~~~~~~~r~  147 (276)
T cd01135          68 RGQKIPIFSGSGLPHNELAAQIARQAGVVGEEENFAVVFAAMGITMEDARFFKDDFEETGALERVVLFLNLANDPTIERI  147 (276)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHhhhccccCCCCEEEEEEeccccHHHHHHHHHhhhcCCcceEEEEEecCCCCHHHHH
Confidence            4557799999999999999988875321  1234677788777654 3445555554431111       001111    


Q ss_pred             -HHHHHHHHHHHh---cCCceeEEEcCC
Q 036323          273 -LNSLLRRIGANI---AGQKFFMVLDNL  296 (583)
Q Consensus       273 -~~~~~~~l~~~l---~~k~~LlVlDdv  296 (583)
                       .....-.+.+++   +++++|+++||+
T Consensus       148 ~a~~~a~aiAEyfrd~~g~~VLl~~D~l  175 (276)
T cd01135         148 ITPRMALTTAEYLAYEKGKHVLVILTDM  175 (276)
T ss_pred             HHHHHHHHHHHHHHhccCCeEEEEEcCh
Confidence             111222344444   278999999998

These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria. This subfamily consists of the non-catalytic beta subunit.

>TIGR03496 FliI_clade1 flagellar protein export ATPase FliI

Probab=94.26  E-value=0.13  Score=53.71  Aligned_cols=86  Identities=15%  Similarity=0.183  Sum_probs=46.3

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCC-ChHHHHHHHHHHhhcC-------cccccc-----H
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPF-DEFNVAKATIEELEGS-------AIDLHE-----L  273 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~il~~l~~~-------~~~~~~-----~  273 (583)
                      ....++|+|..|+|||||.+.+.+...    .+..+...+.... ...++...+...-...       ..+...     .
T Consensus       136 ~Gq~~~I~G~sG~GKTtLl~~I~~~~~----~~~~vi~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~tsd~~~~~r~~a  211 (411)
T TIGR03496       136 RGQRMGIFAGSGVGKSTLLGMMARYTE----ADVVVVGLIGERGREVKEFIEDILGEEGLARSVVVAATADESPLMRLRA  211 (411)
T ss_pred             cCcEEEEECCCCCCHHHHHHHHhcCCC----CCEEEEEEEecChHHHHHHHHHHhhCCCcceEEEEEECCCCCHHHHHHH
Confidence            345789999999999999998887422    2333344444432 2333333333221100       011100     1


Q ss_pred             HHHHHHHHHHh--cCCceeEEEcCC
Q 036323          274 NSLLRRIGANI--AGQKFFMVLDNL  296 (583)
Q Consensus       274 ~~~~~~l~~~l--~~k~~LlVlDdv  296 (583)
                      ....-.+.+++  +++++||++||+
T Consensus       212 ~~~a~tiAEyfr~~G~~Vll~~Dsl  236 (411)
T TIGR03496       212 AFYATAIAEYFRDQGKDVLLLMDSL  236 (411)
T ss_pred             HHHHHHHHHHHHHCCCCEEEEEeCh
Confidence            11122233343  588999999998

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=94.22  E-value=0.27  Score=45.47  Aligned_cols=25  Identities=28%  Similarity=0.429  Sum_probs=22.1

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...++.|.|.+|+||||+|+.+...
T Consensus        17 ~~~~i~i~G~~GsGKstla~~l~~~   41 (184)
T TIGR00455        17 RGVVIWLTGLSGSGKSTIANALEKK   41 (184)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4579999999999999999998863

Important residue (active site in E.coli) is residue 100 of the seed alignment.

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=94.22  E-value=0.12  Score=57.26  Aligned_cols=74  Identities=16%  Similarity=0.150  Sum_probs=46.6

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccc-cCceEEEEEeCCCCChHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVIN-NFEIRVRVCVSDPFDEFNVAK  257 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~-~f~~~~wv~~~~~~~~~~~~~  257 (583)
                      -.+++|.++.++.+...+...         +.+.++|++|+||||+|+.+.+.  ... .|...+++.-+ ..+...++.
T Consensus        17 ~~~viG~~~a~~~l~~a~~~~---------~~~ll~G~pG~GKT~la~~la~~--l~~~~~~~~~~~~n~-~~~~~~~~~   84 (608)
T TIGR00764        17 IDQVIGQEEAVEIIKKAAKQK---------RNVLLIGEPGVGKSMLAKAMAEL--LPDEELEDILVYPNP-EDPNMPRIV   84 (608)
T ss_pred             HhhccCHHHHHHHHHHHHHcC---------CCEEEECCCCCCHHHHHHHHHHH--cCchhheeEEEEeCC-CCCchHHHH
Confidence            357899998888888777432         25559999999999999999874  322 33333333222 223344455


Q ss_pred             HHHHHhh
Q 036323          258 ATIEELE  264 (583)
Q Consensus       258 ~il~~l~  264 (583)
                      .+...++
T Consensus        85 ~v~~~~g   91 (608)
T TIGR00764        85 EVPAGEG   91 (608)
T ss_pred             HHHHhhc
Confidence            5555444

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

>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=94.22  E-value=0.35  Score=49.86  Aligned_cols=75  Identities=20%  Similarity=0.171  Sum_probs=42.5

Q ss_pred             HHHHHHHhhcCCCCC--CCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEe-CCCCChHHHHHHHHHHhhc
Q 036323          189 MRSIKSMLLCQGSDQ--QTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCV-SDPFDEFNVAKATIEELEG  265 (583)
Q Consensus       189 ~~~l~~~L~~~~~~~--~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~-~~~~~~~~~~~~il~~l~~  265 (583)
                      .++|++.|.....+.  ....+.+|..+|.-|+||||-|-.+++..+. ..+.. .-|++ ...+...+-++.+.++.+.
T Consensus        79 ~eELv~llG~~~~~~~l~~~~P~vImmvGLQGsGKTTt~~KLA~~lkk-~~~kv-llVaaD~~RpAA~eQL~~La~q~~v  156 (451)
T COG0541          79 YEELVKLLGGENSELNLAKKPPTVILMVGLQGSGKTTTAGKLAKYLKK-KGKKV-LLVAADTYRPAAIEQLKQLAEQVGV  156 (451)
T ss_pred             HHHHHHHhCCCCcccccCCCCCeEEEEEeccCCChHhHHHHHHHHHHH-cCCce-EEEecccCChHHHHHHHHHHHHcCC
Confidence            456666665321111  1345789999999999999999877764322 22222 22221 2223444556666666554

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=94.22  E-value=0.065  Score=48.74  Aligned_cols=24  Identities=33%  Similarity=0.551  Sum_probs=22.0

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..++.|.|++|+|||||++.++.+
T Consensus         4 G~l~vlsgPSG~GKsTl~k~L~~~   27 (191)
T COG0194           4 GLLIVLSGPSGVGKSTLVKALLED   27 (191)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhh
Confidence            468899999999999999999985

>PRK12678 transcription termination factor Rho; Provisional

Probab=94.21  E-value=0.095  Score=56.07  Aligned_cols=86  Identities=23%  Similarity=0.190  Sum_probs=45.9

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEE-EeCCCCChHHHHHHHHHHhhc----C-cccc----ccHHHH
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRV-CVSDPFDEFNVAKATIEELEG----S-AIDL----HELNSL  276 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv-~~~~~~~~~~~~~~il~~l~~----~-~~~~----~~~~~~  276 (583)
                      .-.-.+|+|.+|+|||||++.+.+... ..+-++.++| -+.+.....   ..+-+.+..    . ....    .....+
T Consensus       415 kGQR~LIvgpp~aGKTtLL~~IAn~i~-~n~~~~~~ivvLIgERpeEV---tdm~rsVkgeVVasT~D~p~~~~~~~a~~  490 (672)
T PRK12678        415 KGQRGLIVSPPKAGKTTILQNIANAIT-TNNPECHLMVVLVDERPEEV---TDMQRSVKGEVIASTFDRPPSDHTTVAEL  490 (672)
T ss_pred             cCCEeEEeCCCCCCHHHHHHHHHHHHh-hcCCCeEEEEEEEeCchhhH---HHHHHhccceEEEECCCCCHHHHHHHHHH
Confidence            455678999999999999999988421 1223344333 344332221   122222211    1 1111    111222


Q ss_pred             HHHHHHHh--cCCceeEEEcCC
Q 036323          277 LRRIGANI--AGQKFFMVLDNL  296 (583)
Q Consensus       277 ~~~l~~~l--~~k~~LlVlDdv  296 (583)
                      .-.+.+++  .++.+||++|++
T Consensus       491 ai~~Ae~fre~G~dVlillDSl  512 (672)
T PRK12678        491 AIERAKRLVELGKDVVVLLDSI  512 (672)
T ss_pred             HHHHHHHHHHcCCCEEEEEeCc
Confidence            22333444  588999999998

>PRK13947 shikimate kinase; Provisional

Probab=94.21  E-value=0.031  Score=51.04  Aligned_cols=22  Identities=32%  Similarity=0.480  Sum_probs=19.7

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      -|.|+|++|+||||+|+.+.+.
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~   24 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATT   24 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Confidence            4789999999999999999873

>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=94.20  E-value=0.33  Score=49.09  Aligned_cols=34  Identities=6%  Similarity=-0.101  Sum_probs=26.5

Q ss_pred             HHHHHHHhhccHHHHHHHHHHHHHHHHHHHHHhh
Q 036323           21 ANEGVRLAVGVGQEVEKLKRNFQAIQAVLHDAEH   54 (583)
Q Consensus        21 ~~~e~~~~~~v~~~i~~L~~~l~~i~~~l~~ae~   54 (583)
                      +..++.++.+...-...++.-+..|+..+..+..
T Consensus        12 ~ar~~al~G~~d~~~~~~~g~~~~~~r~l~s~~d   45 (491)
T KOG0738|consen   12 LAREYALLGNYDSAGIYYRGLLYLMNRYLVSTGD   45 (491)
T ss_pred             HHHHHHHhcCcchhHHHHHhHHHHHHHHHhccCC
Confidence            3467888888888888888888888888876553

>COG2842 Uncharacterized ATPase, putative transposase [General function prediction only]

Probab=94.19  E-value=0.37  Score=47.13  Aligned_cols=121  Identities=15%  Similarity=0.137  Sum_probs=72.4

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      .+.|+|-.. ..++..++....     ...+.+.|+|+.|+|||+-++.+++.      ....+-+..+..++...+...
T Consensus        71 ~~~~l~tkt-~r~~~~~~~~A~-----k~g~l~~vyg~~g~gKt~a~~~y~~s------~p~~~l~~~~p~~~a~~~i~~  138 (297)
T COG2842          71 APDFLETKT-VRRIFFRTRPAS-----KTGSLVVVYGYAGLGKTQAAKNYAPS------NPNALLIEADPSYTALVLILI  138 (297)
T ss_pred             cccccccch-hHhHhhhhhhhh-----hcCceEEEeccccchhHHHHHhhccc------CccceeecCChhhHHHHHHHH
Confidence            345665543 233444443222     33448889999999999999999883      122223344555555555555


Q ss_pred             HHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhcc
Q 036323          259 TIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMN  313 (583)
Q Consensus       259 il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~  313 (583)
                      +.........  .........+...+.+..-++++|+...-....++.+......
T Consensus       139 i~~~~~~~~~--~~~~d~~~~~~~~l~~~~~~iivDEA~~L~~~ale~lr~i~d~  191 (297)
T COG2842         139 ICAAAFGATD--GTINDLTERLMIRLRDTVRLIIVDEADRLPYRALEELRRIHDK  191 (297)
T ss_pred             HHHHHhcccc--hhHHHHHHHHHHHHccCcceeeeehhhccChHHHHHHHHHHHh
Confidence            5555544422  2233445555566688888999999876656666666654433

>PF04548 AIG1: AIG1 family; InterPro: IPR006703 This entry represents a domain found in Arabidopsis protein AIG1 which appears to be involved in plant resistance to bacteria

Probab=94.18  E-value=0.36  Score=45.82  Aligned_cols=22  Identities=27%  Similarity=0.440  Sum_probs=19.3

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      -|.++|..|+||||++..+...
T Consensus         2 ~IlllG~tGsGKSs~~N~ilg~   23 (212)
T PF04548_consen    2 RILLLGKTGSGKSSLGNSILGK   23 (212)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            3679999999999999998765

The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 (avrRpt2-induced gene) exhibits RPS2- and avrRpt2-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2 []. The domain is also apparently found in a number of mammalian proteins, for example the rat immune-associated nucleotide 4 protein. ; GO: 0005525 GTP binding; PDB: 3LXX_A 3BB4_A 3DEF_A 3BB3_A 2J3E_A 3V70_B 3BB1_A 1H65_B 2XTP_A 3P1J_C ....

>PF03796 DnaB_C: DnaB-like helicase C terminal domain; InterPro: IPR007694 The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork

Probab=94.16  E-value=0.27  Score=48.34  Aligned_cols=56  Identities=16%  Similarity=0.187  Sum_probs=38.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGS  266 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~  266 (583)
                      ..++.|-|.+|+|||++|..++.+...... ..++|++..  .+..++...++.....-
T Consensus        19 g~L~vi~a~pg~GKT~~~l~ia~~~a~~~~-~~vly~SlE--m~~~~l~~R~la~~s~v   74 (259)
T PF03796_consen   19 GELTVIAARPGVGKTAFALQIALNAALNGG-YPVLYFSLE--MSEEELAARLLARLSGV   74 (259)
T ss_dssp             T-EEEEEESTTSSHHHHHHHHHHHHHHTTS-SEEEEEESS--S-HHHHHHHHHHHHHTS
T ss_pred             CcEEEEEecccCCchHHHHHHHHHHHHhcC-CeEEEEcCC--CCHHHHHHHHHHHhhcc
Confidence            458889999999999999988875333222 456666543  46677888887777544

Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis. ; GO: 0003678 DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1Q57_E 1E0K_D 1E0J_B 1CR2_A 1CR4_A 1CR1_A 1CR0_A 1MI8_A 2R6D_B 2R6C_C ....

>PRK15064 ABC transporter ATP-binding protein; Provisional

Probab=94.14  E-value=0.38  Score=52.66  Aligned_cols=24  Identities=25%  Similarity=0.441  Sum_probs=21.5

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+++|+|+.|+|||||.+.++..
T Consensus        27 Ge~~~liG~NGsGKSTLl~~l~Gl   50 (530)
T PRK15064         27 GNRYGLIGANGCGKSTFMKILGGD   50 (530)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999999864

>COG5635 Predicted NTPase (NACHT family) [Signal transduction mechanisms]

Probab=94.14  E-value=0.052  Score=62.51  Aligned_cols=138  Identities=16%  Similarity=0.165  Sum_probs=71.5

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCc--cccccCceEEEEEeCCCC----ChH--HHHHHHHHHhhcCccccccHHHHHHH
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDN--DVINNFEIRVRVCVSDPF----DEF--NVAKATIEELEGSAIDLHELNSLLRR  279 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~--~~~~~f~~~~wv~~~~~~----~~~--~~~~~il~~l~~~~~~~~~~~~~~~~  279 (583)
                      ..-+.|+|.+|+||||+.+.+.-..  +....=+..+++.+....    ...  .+..-+...+......    ......
T Consensus       222 ~~~~~Ilg~pGsGKTtfl~~lA~~~~~~~~~~~~vpi~~~l~~~~~~~~~~~q~~~~~~l~~~~~~~~~~----~~~~~~  297 (824)
T COG5635         222 YAKLLILGAPGSGKTTFLQRLALWLAQRTLEPEDVPIFLLLNAFALARKFEKQLSLIDYLAEELFSQGIA----KQLIEA  297 (824)
T ss_pred             hhheeeecCCCCCceehHHHHHHHhccCcCCcccCceeeechhHHHhhhhHhhccHHHHHHHHHhccCCc----chhhHH
Confidence            4478899999999999998875421  111112233444332110    011  1112222222222111    112222


Q ss_pred             HHHHhcCCceeEEEcCCCcccccch----HhhHHhhccCCCCceEEEecCchHHHhhhcCCCeEEcCCCChHHHH
Q 036323          280 IGANIAGQKFFMVLDNLWTDDYRKW----EPFRNCLMNGLRGSKILITTRKETVARMMESTDIVYVQGLSELECW  350 (583)
Q Consensus       280 l~~~l~~k~~LlVlDdv~~~~~~~~----~~l~~~l~~~~~gs~IlvTtR~~~v~~~~~~~~~~~l~~L~~~ea~  350 (583)
                      ..++++..++++++|.+.......-    ..+.. +...-+.+.+|+|+|....-........+++..+.++.-.
T Consensus       298 ~~e~l~~g~~llLlDGlDe~~~~~~~~~~~~i~~-f~~~~~~~~~iltcR~~~~~~~~~~f~~~ei~~~~~~~i~  371 (824)
T COG5635         298 HQELLKTGKLLLLLDGLDELEPKNQRALIREINK-FLQEYPDAQVLLTCRPDTYKEEFKGFAVFEIYKFLDLQIN  371 (824)
T ss_pred             HHHHHhccchhhHhhccchhhhhhHHHHHHHHHH-HhhhccCCeEEEEeccchhhhhhhhhhhccchhhhHHHHH
Confidence            2567788999999999854322211    11212 2233457889999997655544444555666666665544

>CHL00206 ycf2 Ycf2; Provisional

Probab=94.13  E-value=0.56  Score=57.01  Aligned_cols=26  Identities=19%  Similarity=0.310  Sum_probs=22.8

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDN  232 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~  232 (583)
                      .++-|.++|++|+|||.||++++.+.
T Consensus      1629 pPKGILLiGPPGTGKTlLAKALA~es 1654 (2281)
T CHL00206       1629 PSRGILVIGSIGTGRSYLVKYLATNS 1654 (2281)
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHhc
Confidence            45678899999999999999999863

>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family

Probab=94.13  E-value=0.034  Score=51.61  Aligned_cols=21  Identities=19%  Similarity=0.146  Sum_probs=18.3

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 036323          210 IISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ++.|+|+.|.||||+.+.+.-
T Consensus         1 ~~~ltG~N~~GKst~l~~i~~   21 (185)
T smart00534        1 VVIITGPNMGGKSTYLRQVGL   21 (185)
T ss_pred             CEEEECCCCCcHHHHHHHHHH
Confidence            467999999999999988863

>TIGR02857 CydD thiol reductant ABC exporter, CydD subunit

Probab=94.12  E-value=0.48  Score=51.87  Aligned_cols=24  Identities=33%  Similarity=0.520  Sum_probs=21.3

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ....++|+|..|+|||||++.+..
T Consensus       347 ~G~~~~ivG~sGsGKSTL~~ll~g  370 (529)
T TIGR02857       347 PGERVALVGPSGAGKSTLLNLLLG  370 (529)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            456899999999999999999865

Unfortunately, the gene symbol nomenclature adopted based on this operon in B. subtilis assigns cydC to the third gene in the operon where this gene is actually homologous to the E. coli cydD gene. We have chosen to name all homologs in this family in accordance with the precedence of publication of the E. coli name, CydD

>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]

Probab=94.12  E-value=0.22  Score=47.60  Aligned_cols=52  Identities=21%  Similarity=0.253  Sum_probs=36.2

Q ss_pred             CCceeechhHHHHHHHHhhcCCC------CCCCCceEEEEEEecCCchHHHHHHHHHc
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGS------DQQTNTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~------~~~~~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .+.+=|=.+++++|.+...-+--      .-+-..++-|.++|++|.|||-+|+.|+|
T Consensus       176 y~dvggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravan  233 (435)
T KOG0729|consen  176 YSDVGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVAN  233 (435)
T ss_pred             cccccchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhc
Confidence            34566777888888776532210      00123456788999999999999999999

>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=94.12  E-value=0.46  Score=52.82  Aligned_cols=25  Identities=36%  Similarity=0.402  Sum_probs=21.7

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ....++|+|..|+|||||++.+...
T Consensus       375 ~G~~vaIvG~SGsGKSTL~~lL~g~  399 (588)
T PRK11174        375 AGQRIALVGPSGAGKTSLLNALLGF  399 (588)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4568999999999999999988763

>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=94.11  E-value=0.14  Score=49.84  Aligned_cols=77  Identities=16%  Similarity=0.045  Sum_probs=41.8

Q ss_pred             EEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCC--hHHHHHHHHHHhh----cCc--cccccHHHHHHHHH
Q 036323          210 IISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFD--EFNVAKATIEELE----GSA--IDLHELNSLLRRIG  281 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~--~~~~~~~il~~l~----~~~--~~~~~~~~~~~~l~  281 (583)
                      +|+|.|.+|+||||+++.+.......+  ..+..++......  -...-..+.....    -..  ++..+.+.+.+.++
T Consensus         1 IIgItG~SGSGKTTv~~~l~~~l~~~g--~~v~vI~~D~yyr~~r~~~~~~~~~a~~~~~nfdHf~PeAnd~dlL~~~l~   78 (277)
T cd02029           1 VIAVTGSSGAGTTTVKRAFEHIFAREG--IHPAVVEGDSFHRYERMEMKMAIAEALDAGRNFSHFGPEANLFDLLEELFR   78 (277)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHhcC--CceEEEeccccccCCchhHHHHHHHHhhcCCCCCCCCcccccHHHHHHHHH
Confidence            589999999999999998876321111  1233343322222  1122222222211    112  45667777777787


Q ss_pred             HHhcCCc
Q 036323          282 ANIAGQK  288 (583)
Q Consensus       282 ~~l~~k~  288 (583)
                      .+.+++.
T Consensus        79 ~L~~g~~   85 (277)
T cd02029          79 TYGETGR   85 (277)
T ss_pred             HHHcCCC
Confidence            7776654

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.

>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain

Probab=94.11  E-value=0.11  Score=50.79  Aligned_cols=86  Identities=17%  Similarity=0.148  Sum_probs=46.2

Q ss_pred             ceEEEEEEecCCchHHHHH-HHHHcCccccccCceE-EEEEeCCCC-ChHHHHHHHHHHhhcC-------ccccccHHH-
Q 036323          207 TVQIISMVGMGGIGKTTLA-QLAYNDNDVINNFEIR-VRVCVSDPF-DEFNVAKATIEELEGS-------AIDLHELNS-  275 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa-~~v~~~~~~~~~f~~~-~wv~~~~~~-~~~~~~~~il~~l~~~-------~~~~~~~~~-  275 (583)
                      +-+-++|.|.+|+|||+|| ..+.+..    +-+.+ +++-+.+.. ...++.+.+...-...       ..+...... 
T Consensus        68 rGQr~~Ifg~~g~GKt~L~l~~i~~~~----~~~v~~V~~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~  143 (274)
T cd01132          68 RGQRELIIGDRQTGKTAIAIDTIINQK----GKKVYCIYVAIGQKASTVAQVVKTLEEHGAMEYTIVVAATASDPAPLQY  143 (274)
T ss_pred             cCCEEEeeCCCCCCccHHHHHHHHHhc----CCCeEEEEEecccchHHHHHHHHHHHhcCccceeEEEEeCCCCchhHHH
Confidence            4557889999999999996 6565531    23334 555555543 3444555544321110       001111110 


Q ss_pred             ----HHHHHHHHh--cCCceeEEEcCC
Q 036323          276 ----LLRRIGANI--AGQKFFMVLDNL  296 (583)
Q Consensus       276 ----~~~~l~~~l--~~k~~LlVlDdv  296 (583)
                          ..-.+.+++  +++.+||++||+
T Consensus       144 ~a~~~a~aiAE~fr~~G~~Vlvl~Dsl  170 (274)
T cd01132         144 LAPYTGCAMGEYFMDNGKHALIIYDDL  170 (274)
T ss_pred             HHHHHHHHHHHHHHHCCCCEEEEEcCh
Confidence                112222322  588999999999

The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The alpha subunit of the F1 ATP synthase can bind nucleotides, but is non-catalytic.

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=94.11  E-value=0.038  Score=51.38  Aligned_cols=23  Identities=26%  Similarity=0.420  Sum_probs=20.6

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .++.|+|+.|+|||||++.+...
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~   25 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQR   25 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcc
Confidence            37899999999999999999774

>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=94.11  E-value=0.047  Score=45.32  Aligned_cols=22  Identities=36%  Similarity=0.345  Sum_probs=19.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHH
Q 036323          208 VQIISMVGMGGIGKTTLAQLAY  229 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~  229 (583)
                      ...++|.|++|+|||||+..+.
T Consensus        15 ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          15 KVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             CEEEEEEcCCCCCHHHHHHHhh
Confidence            4688999999999999999876

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

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=94.09  E-value=0.034  Score=48.86  Aligned_cols=22  Identities=32%  Similarity=0.610  Sum_probs=19.6

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .++|+|+.|+|||||++.+...
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~~   22 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLEE   22 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHhc
Confidence            3689999999999999999874

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.

>PRK13949 shikimate kinase; Provisional

Probab=94.08  E-value=0.035  Score=50.73  Aligned_cols=22  Identities=41%  Similarity=0.499  Sum_probs=19.9

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      -|.|+|++|+||||+++.+++.
T Consensus         3 ~I~liG~~GsGKstl~~~La~~   24 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALARE   24 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5889999999999999999874

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=94.08  E-value=0.13  Score=55.60  Aligned_cols=130  Identities=18%  Similarity=0.178  Sum_probs=0.0

Q ss_pred             EEEEecCCchHHHHHHHH--------------------HcCccccccC---ceEEEEEeCCCCChHHHHHHHHHHhhcCc
Q 036323          211 ISMVGMGGIGKTTLAQLA--------------------YNDNDVINNF---EIRVRVCVSDPFDEFNVAKATIEELEGSA  267 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v--------------------~~~~~~~~~f---~~~~wv~~~~~~~~~~~~~~il~~l~~~~  267 (583)
                      |+|+|+.|+|||||.+.+                    |-++....-+   ...-|+.-..+.......+..+..+.-..
T Consensus       351 iaiiG~NG~GKSTLlk~l~g~~~~~~G~v~~g~~v~igyf~Q~~~~l~~~~t~~d~l~~~~~~~~e~~~r~~L~~f~F~~  430 (530)
T COG0488         351 IAIVGPNGAGKSTLLKLLAGELGPLSGTVKVGETVKIGYFDQHRDELDPDKTVLEELSEGFPDGDEQEVRAYLGRFGFTG  430 (530)
T ss_pred             EEEECCCCCCHHHHHHHHhhhcccCCceEEeCCceEEEEEEehhhhcCccCcHHHHHHhhCccccHHHHHHHHHHcCCCh


Q ss_pred             c-------ccccHHHHHHHHHHHhcCCceeEEEcCCCc-ccccchHhhHHhhccCCCCceEEEecCchHHHhhhcCCCeE
Q 036323          268 I-------DLHELNSLLRRIGANIAGQKFFMVLDNLWT-DDYRKWEPFRNCLMNGLRGSKILITTRKETVARMMESTDIV  339 (583)
Q Consensus       268 ~-------~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~-~~~~~~~~l~~~l~~~~~gs~IlvTtR~~~v~~~~~~~~~~  339 (583)
                      .       ..+.-+...-.|...+-.++-+||||.--+ -|.+..+.|...|.... |+ ||+.|-++.....+. ..++
T Consensus       431 ~~~~~~v~~LSGGEk~Rl~La~ll~~~pNvLiLDEPTNhLDi~s~~aLe~aL~~f~-Gt-vl~VSHDr~Fl~~va-~~i~  507 (530)
T COG0488         431 EDQEKPVGVLSGGEKARLLLAKLLLQPPNLLLLDEPTNHLDIESLEALEEALLDFE-GT-VLLVSHDRYFLDRVA-TRIW  507 (530)
T ss_pred             HHHhCchhhcCHhHHHHHHHHHHhccCCCEEEEcCCCccCCHHHHHHHHHHHHhCC-Ce-EEEEeCCHHHHHhhc-ceEE


Q ss_pred             EcCC
Q 036323          340 YVQG  343 (583)
Q Consensus       340 ~l~~  343 (583)
                      .+.+
T Consensus       508 ~~~~  511 (530)
T COG0488         508 LVED  511 (530)
T ss_pred             EEcC

>PRK07594 type III secretion system ATPase SsaN; Validated

Probab=94.07  E-value=0.17  Score=53.03  Aligned_cols=86  Identities=20%  Similarity=0.272  Sum_probs=48.2

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCC-CChHHHHHHHHHHhhcC-------ccccccHHH---
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDP-FDEFNVAKATIEELEGS-------AIDLHELNS---  275 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~il~~l~~~-------~~~~~~~~~---  275 (583)
                      ....++|+|..|+|||||.+.+.+..    +.+..++..+... ....+.+.+....-...       ..+....+.   
T Consensus       154 ~GqrigI~G~sG~GKSTLL~~I~~~~----~~d~~vi~~iGeRgrEv~efl~~~~~~~~~~rtv~vv~tsd~p~~~r~~a  229 (433)
T PRK07594        154 EGQRVGIFSAPGVGKSTLLAMLCNAP----DADSNVLVLIGERGREVREFIDFTLSEETRKRCVIVVATSDRPALERVRA  229 (433)
T ss_pred             CCCEEEEECCCCCCccHHHHHhcCCC----CCCEEEEEEECCCchHHHHHHHHhhccCCcceEEEEEECCCCCHHHHHHH
Confidence            45688999999999999999988742    2344455555443 33445455443211000       001111111   


Q ss_pred             --HHHHHHHHh--cCCceeEEEcCC
Q 036323          276 --LLRRIGANI--AGQKFFMVLDNL  296 (583)
Q Consensus       276 --~~~~l~~~l--~~k~~LlVlDdv  296 (583)
                        ..-.+.+++  +++++||++||+
T Consensus       230 ~~~a~tiAEyfrd~G~~VLl~~Dsl  254 (433)
T PRK07594        230 LFVATTIAEFFRDNGKRVVLLADSL  254 (433)
T ss_pred             HHHHHHHHHHHHHCCCcEEEEEeCH
Confidence              122233444  588999999999

>PRK07721 fliI flagellum-specific ATP synthase; Validated

Probab=94.06  E-value=0.2  Score=52.89  Aligned_cols=26  Identities=23%  Similarity=0.374  Sum_probs=22.3

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcC
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .....++|+|..|+|||||++.+...
T Consensus       156 ~~Gq~i~I~G~sG~GKStLl~~I~~~  181 (438)
T PRK07721        156 GKGQRVGIFAGSGVGKSTLMGMIARN  181 (438)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhcc
Confidence            34568999999999999999988874

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

Probab=94.05  E-value=0.24  Score=52.26  Aligned_cols=46  Identities=17%  Similarity=0.258  Sum_probs=32.4

Q ss_pred             hhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          186 DEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       186 ~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .+-+.++..||..-..-...-+.+++.|+|++|+||||.++.++..
T Consensus        88 kkKI~eVk~WL~~~~~~~~~l~~~iLLltGPsGcGKSTtvkvLske  133 (634)
T KOG1970|consen   88 KKKISEVKQWLKQVAEFTPKLGSRILLLTGPSGCGKSTTVKVLSKE  133 (634)
T ss_pred             HHhHHHHHHHHHHHHHhccCCCceEEEEeCCCCCCchhHHHHHHHh
Confidence            3457788888861100012245679999999999999999988763

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

Probab=94.03  E-value=0.13  Score=53.26  Aligned_cols=52  Identities=25%  Similarity=0.302  Sum_probs=37.4

Q ss_pred             CceeechhHHHHHHHHhhcC-------CCCCCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          180 SEVRGRDEEMRSIKSMLLCQ-------GSDQQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~-------~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..++|.++.++.+..++...       .........+.+.++|++|+|||+||+.+...
T Consensus        15 ~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~   73 (443)
T PRK05201         15 KYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKL   73 (443)
T ss_pred             cccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHH
Confidence            45889999998888777431       00001112467899999999999999998874

>TIGR03258 PhnT 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT

Probab=94.03  E-value=0.3  Score=50.42  Aligned_cols=24  Identities=29%  Similarity=0.458  Sum_probs=21.2

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+++|+|+.|+|||||.+.++.-
T Consensus        31 Ge~~~llGpsGsGKSTLLr~iaGl   54 (362)
T TIGR03258        31 GELLALIGKSGCGKTTLLRAIAGF   54 (362)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999999863

This ATP-binding component of an ABC transport system is found in Salmonella and Burkholderia lineages in the vicinity of enzymes for the breakdown of 2-aminoethylphosphonate.

>PRK14530 adenylate kinase; Provisional

Probab=94.03  E-value=0.036  Score=52.87  Aligned_cols=21  Identities=29%  Similarity=0.313  Sum_probs=19.4

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 036323          210 IISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .|.|+|++|+||||+|+.+..
T Consensus         5 ~I~i~G~pGsGKsT~~~~La~   25 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLAE   25 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            588999999999999999876

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=93.99  E-value=0.84  Score=49.83  Aligned_cols=180  Identities=17%  Similarity=0.182  Sum_probs=93.3

Q ss_pred             CceeechhHHHHHHHHhhcCCCCC------CCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQ------QTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEF  253 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~------~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  253 (583)
                      .++-|..+.++.|.+.+..+....      .-....-|.++|++|+|||-||..+.....       .-++++-.+    
T Consensus       667 ~digg~~~~k~~l~~~i~~P~kyp~if~~~plr~~~giLLyGppGcGKT~la~a~a~~~~-------~~fisvKGP----  735 (952)
T KOG0735|consen  667 EDIGGLFEAKKVLEEVIEWPSKYPQIFANCPLRLRTGILLYGPPGCGKTLLASAIASNSN-------LRFISVKGP----  735 (952)
T ss_pred             eecccHHHHHHHHHHHHhccccchHHHhhCCcccccceEEECCCCCcHHHHHHHHHhhCC-------eeEEEecCH----
Confidence            355677777777777776554110      112334588999999999999999887321       123455432    


Q ss_pred             HHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCccc-----------ccchHhhHHhhc--cCCCCceE
Q 036323          254 NVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDD-----------YRKWEPFRNCLM--NGLRGSKI  320 (583)
Q Consensus       254 ~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~-----------~~~~~~l~~~l~--~~~~gs~I  320 (583)
                      +++.   +.++.+.   .+   ......+.-.-++++|.||.+++-.           ....+++...+.  .+-.|.-|
T Consensus       736 ElL~---KyIGaSE---q~---vR~lF~rA~~a~PCiLFFDEfdSiAPkRGhDsTGVTDRVVNQlLTelDG~Egl~GV~i  806 (952)
T KOG0735|consen  736 ELLS---KYIGASE---QN---VRDLFERAQSAKPCILFFDEFDSIAPKRGHDSTGVTDRVVNQLLTELDGAEGLDGVYI  806 (952)
T ss_pred             HHHH---HHhcccH---HH---HHHHHHHhhccCCeEEEeccccccCcccCCCCCCchHHHHHHHHHhhccccccceEEE
Confidence            2222   2222221   11   2222223335689999999986411           112344444442  23456666


Q ss_pred             EE-ecCchHHHhh-hcC---CCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCc
Q 036323          321 LI-TTRKETVARM-MES---TDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLP  384 (583)
Q Consensus       321 lv-TtR~~~v~~~-~~~---~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlP  384 (583)
                      +. |||..-+-.. +.+   .+.+.-+.-+..+-.++|....-.-. ...+-+    .+.++.++.|..
T Consensus       807 ~aaTsRpdliDpALLRpGRlD~~v~C~~P~~~eRl~il~~ls~s~~-~~~~vd----l~~~a~~T~g~t  870 (952)
T KOG0735|consen  807 LAATSRPDLIDPALLRPGRLDKLVYCPLPDEPERLEILQVLSNSLL-KDTDVD----LECLAQKTDGFT  870 (952)
T ss_pred             EEecCCccccCHhhcCCCccceeeeCCCCCcHHHHHHHHHHhhccC-Cccccc----hHHHhhhcCCCc
Confidence            65 5554322111 122   34444455556667777776542111 112222    344666666654

>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=93.99  E-value=0.083  Score=49.29  Aligned_cols=42  Identities=26%  Similarity=0.373  Sum_probs=30.9

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHc
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..++|.+..+..|.-....         ..-+.++|.+|+|||+||+.+-.
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            4678888888777766642         35788999999999999998854

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.

>TIGR03375 type_I_sec_LssB type I secretion system ATPase, LssB family

Probab=93.98  E-value=0.34  Score=55.06  Aligned_cols=24  Identities=29%  Similarity=0.455  Sum_probs=21.0

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ....++|+|..|+|||||++.+..
T Consensus       490 ~G~~iaIvG~sGsGKSTLlklL~g  513 (694)
T TIGR03375       490 PGEKVAIIGRIGSGKSTLLKLLLG  513 (694)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            345899999999999999998865

Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion. This model is related to models TIGR01842 and TIGR01846, and to bacteriocin ABC transporters that cleave their substrates during export.

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=93.98  E-value=0.031  Score=50.61  Aligned_cols=21  Identities=29%  Similarity=0.531  Sum_probs=18.6

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |.|+|++|+||||+|+.+.+.
T Consensus         1 i~l~G~~GsGKSTla~~l~~~   21 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHR   21 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHh
Confidence            468999999999999998874

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.

>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

Probab=93.98  E-value=0.44  Score=51.71  Aligned_cols=58  Identities=24%  Similarity=0.302  Sum_probs=38.9

Q ss_pred             ccCCceeechhHHH---HHHHHhhcCCCC--CCCCceEEEEEEecCCchHHHHHHHHHcCccc
Q 036323          177 IDVSEVRGRDEEMR---SIKSMLLCQGSD--QQTNTVQIISMVGMGGIGKTTLAQLAYNDNDV  234 (583)
Q Consensus       177 ~~~~~~vGR~~e~~---~l~~~L~~~~~~--~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~  234 (583)
                      +...++-|.++.++   ++++.|.++..-  -+..-++-|.++|++|.|||.||+.+.....+
T Consensus       147 v~F~DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA~V  209 (596)
T COG0465         147 VTFADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGV  209 (596)
T ss_pred             cChhhhcCcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhcccCC
Confidence            34456788776554   555555543210  01245677899999999999999999986444

>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=93.96  E-value=0.066  Score=46.76  Aligned_cols=24  Identities=33%  Similarity=0.443  Sum_probs=21.2

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+++|+|..|+|||||.+.++..
T Consensus        11 g~~~~i~G~nGsGKStLl~~l~g~   34 (137)
T PF00005_consen   11 GEIVAIVGPNGSGKSTLLKALAGL   34 (137)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHTTS
T ss_pred             CCEEEEEccCCCccccceeeeccc
Confidence            348999999999999999999873

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 ....

>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=93.95  E-value=0.038  Score=49.35  Aligned_cols=21  Identities=43%  Similarity=0.664  Sum_probs=18.9

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |.|+|++|+||||+|+.+...
T Consensus         2 i~l~G~~GsGKstla~~la~~   22 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKA   22 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHH
Confidence            679999999999999999863

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.

---

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	583
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	1e-101
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	6e-94
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-46
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-06
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	2e-20
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	8e-13

>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 =  317 bits (814), Expect = e-101
 Identities = 75/501 (14%), Positives = 158/501 (31%), Gaps = 68/501 (13%)

Query: 51  DAEHRQVREEGVRLWLDQLKDASYNMEDVLDEWITARLKRQTEGVDHDNALVRDKKKKKK 110
           DA+ R      ++      KD       ++D  I+            +   VR++  +++
Sbjct: 2   DAKARNCL---LQHREALEKD--IKTSYIMDHMISDGFLT-----ISEEEKVRNEPTQQQ 51

Query: 111 KKKKVCSFFPASSCFGFKQVFLHRDIALKIKAINQTLDDIAEQKDMFSFNVINSRGKSEG 170
           +   +               F +  +    K +   L D        S    +  G +  
Sbjct: 52  RAAMLIKMIL-KKDNDSYVSFYNALLHEGYKDLAALLHDGIPVVSSSSGK-DSVSGITSY 109

Query: 171 MQ----STSLIDVSEV-RGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLA 225
           ++       +     V   R + + +I+  L      +       +++ GM G GK+ LA
Sbjct: 110 VRTVLCEGGVPQRPVVFVTRKKLVNAIQQKLS-----KLKGEPGWVTIHGMAGCGKSVLA 164

Query: 226 QLAYNDNDVINNFEIRVR--VCVSDPFDEFNVAK------ATIEELEGSAIDLHELNSLL 277
             A  D+ ++          V V        + K         ++   S      +    
Sbjct: 165 AEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMKLQNLCTRLDQDESFSQRLPLNIEEAK 224

Query: 278 RRIGANIAGQ--KFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKETVARMMES 335
            R+   +  +  +  ++LD++W       + F +         +IL+TTR ++V   +  
Sbjct: 225 DRLRILMLRKHPRSLLILDDVWDSWV--LKAFDS-------QCQILLTTRDKSVTDSVMG 275

Query: 336 TDIVYV--QGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSL 393
              V      L + +   +   F        +   L      I+++CKG PL    IG+L
Sbjct: 276 PKYVVPVESSLGKEKGLEILSLFVNM-----KKADLPEQAHSIIKECKGSPLVVSLIGAL 330

Query: 394 LQFKR-TKEEWQSALDSEMWQLEEFEGGLSAP-----LFLSYNDLPFEIKRCFSYCAIFP 447
           L+      E +   L ++ ++                + +S   L  +IK  ++  +I  
Sbjct: 331 LRDFPNRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQ 390

Query: 448 KSSYLKKDELVKLWMAQGYIVLKGNNEMKVIGLEYFDCLASRSFYQQFVKDDDNMVIGCT 507
           K   +    L  LW  +                +      ++S       D +       
Sbjct: 391 KDVKVPTKVLCILWDMETE-----------EVEDILQEFVNKSLLFC---DRNGKSFRYY 436

Query: 508 MHDVVHDFAQSLTNNECVALE 528
           +HD+  DF      ++   L 
Sbjct: 437 LHDLQVDFLTEKNCSQLQDLH 457

>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 =  297 bits (762), Expect = 6e-94
 Identities = 77/554 (13%), Positives = 163/554 (29%), Gaps = 63/554 (11%)

Query: 48  VLHDAEHRQVREEGVRLWLDQLKDASYNMEDVLDEWITARLKRQTEGVDHDNALVRDKKK 107
            L  A  R + +   R  L  L+  +   ED  +       + +           R    
Sbjct: 9   ALSTAHTRLIHDFEPRDALTYLEGKNIFTEDHSELISKMSTRLE-----------RIANF 57

Query: 108 KKKKKKKVCSFFPASSCFGFKQVFLHRDIALKIKAINQTLDDIAEQKDMFSFNVINSRGK 167
            +  +++     P    F +       D       +   +D    + D+    VI  +  
Sbjct: 58  LRIYRRQASELGPLIDFFNYNNQSHLADF------LEDYIDFAINEPDLLRPVVIAPQFS 111

Query: 168 SEGMQ----STSLIDVSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTT 223
            + +       ++        R+  +  +   L              + + G  G GK+ 
Sbjct: 112 RQMLDRKLLLGNVPKQMTCYIREYHVDRVIKKLDEMCDLDSF----FLFLHGRAGSGKSV 167

Query: 224 LAQLAYNDNDVI--NNFEIRVRVCVSDPFDEFNVAK--------ATIEELEGSAIDLHEL 273
           +A  A + +D +   N++  V +  S    +              + ++L       H  
Sbjct: 168 IASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVT 227

Query: 274 NSLLRR--IGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKETVAR 331
           + +L+R    A I       V D++  ++  +W              + L+TTR   ++ 
Sbjct: 228 SVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQ--------ELRLRCLVTTRDVEISN 279

Query: 332 MMEST-DIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTI 390
               T + + V  L   EC+     + +        ++ E +    +    G P      
Sbjct: 280 AASQTCEFIEVTSLEIDECYDFLEAYGMPM---PVGEKEEDVLNKTIELSSGNPATLMMF 336

Query: 391 GSLLQFKRTKEEWQ-------SALDSEMWQLEEFEGGLSAPLFLSYNDLPFEIKRCFSYC 443
               + K  ++  Q         L             L+  L      L  E +   ++ 
Sbjct: 337 FKSCEPKTFEKMAQLNNKLESRGLVGVECITPYSYKSLAMALQRCVEVLSDEDRSALAFA 396

Query: 444 AIFPKSSYLKKDELVKLWMAQGYIVLKGNNEMKVIGLEYFDCLASRSFYQQFVKDDDNMV 503
            + P    +       +      I      ++     +    L+ R      +      V
Sbjct: 397 VVMPPGVDIPVKLWSCVIPVD--ICSNEEEQLDDEVADRLKRLSKRGA---LLSGKRMPV 451

Query: 504 IGCTMHDVVHDFAQSLTNNECVALEVHGDEEPLSLI--NNSQDKLRHSISVLDKVASFPV 561
           +   +  ++H F + + + + +A  +   E+ L  I  NN     RH  S   K      
Sbjct: 452 LTFKIDHIIHMFLKHVVDAQTIANGISILEQRLLEIGNNNVSVPERHIPSHFQKFRRSSA 511

Query: 562 SIFNAKKLRSLLIR 575
           S    K     +IR
Sbjct: 512 SEMYPKTTEETVIR 525

>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 =  173 bits (439), Expect = 6e-46
 Identities = 85/629 (13%), Positives = 187/629 (29%), Gaps = 204/629 (32%)

Query: 35  VEKLKRNF------QAIQAVLHDAEHRQV-----REEGVRLWLDQLKDASYN-----MED 78
            +    NF         +++L   E   +        G       L           +E+
Sbjct: 26  EDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEE 85

Query: 79  VLD---EWITARLKRQTEGVDHDNALVRDKKKKKKKKKKVCSFFPASSCFGFKQVFLHRD 135
           VL    +++ + +K +        +++     +++ +                   L+ D
Sbjct: 86  VLRINYKFLMSPIKTEQR----QPSMMTRMYIEQRDR-------------------LYND 122

Query: 136 IALKIKAINQTLDDIAEQKDMFSFNVINSRGKSEGMQSTSLIDVSEVRGRDEEMRSIKSM 195
                   NQ             +NV                       R +    ++  
Sbjct: 123 --------NQVFAK---------YNV----------------------SRLQPYLKLRQA 143

Query: 196 LLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFE-----IRVRVCVSDPF 250
           L       +    + + + G+ G GKT +A        V    +     + ++ C S   
Sbjct: 144 L------LELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSP-- 195

Query: 251 DE---------FNVAKATIEELEGSA---IDLHELNSLLRRIGANIAGQKFFMVLDNLWT 298
           +          + +        + S+   + +H + + LRR+  +   +   +VL N+  
Sbjct: 196 ETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQ- 254

Query: 299 DDYRKWEPFR-NCLMNGLRGSKILITTRKETVARMMESTDIVYV------QGLSELECWS 351
            + + W  F  +C        KIL+TTR + V   + +    ++        L+  E  S
Sbjct: 255 -NAKAWNAFNLSC--------KILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKS 305

Query: 352 LFRRFALSGRT---PSECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQ-FKRTKEEWQSAL 407
           L  ++ L  R    P E                  P     I   ++    T + W+   
Sbjct: 306 LLLKY-LDCRPQDLPRE-------------VLTTNPRRLSIIAESIRDGLATWDNWK--- 348

Query: 408 DSEMWQLEEFEGGLSAPLFLSYNDL-PFEIKRCFSYCAIFPKSSYLKKDELVKLWMAQGY 466
                +L          +  S N L P E ++ F   ++FP S+++    L  +W     
Sbjct: 349 HVNCDKLTTI-------IESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFD--- 398

Query: 467 IVLKGNNEMKVIGLEYFDCLASR----------SFYQQFVKDDDNMVIGCTMHDVVHD-- 514
             +  ++ M V+   +   L  +          S Y +     +N      +H  + D  
Sbjct: 399 --VIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEY---ALHRSIVDHY 453

Query: 515 -FAQSLTNNECVALEV----------HGDEEPLSLINNSQD----------------KLR 547
              ++  +++ +   +          H     L  I + +                 K+R
Sbjct: 454 NIPKTFDSDDLIPPYLDQYFYSHIGHH-----LKNIEHPERMTLFRMVFLDFRFLEQKIR 508

Query: 548 HSISVLDKVASFPVSIFNAKKLRSLLIRS 576
           H  +  +   S   ++   K  +  +  +
Sbjct: 509 HDSTAWNASGSILNTLQQLKFYKPYICDN 537

>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 = 48.3 bits (114), Expect = 6e-06
 Identities = 35/292 (11%), Positives = 87/292 (29%), Gaps = 75/292 (25%)

Query: 4   AIVSAVLEQLISVAAKEANEGVRLAVG-VGQEV---------------EKLKRNFQAIQA 47
           +++   L+       +E        +  + + +               +KL    ++   
Sbjct: 305 SLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLN 364

Query: 48  VLHDAEHRQ------VREEGV--------RLWLDQLKDASYNMEDVLDEWITARL--KRQ 91
           VL  AE+R+      V              +W D       ++  V+++     L  K+ 
Sbjct: 365 VLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFD---VIKSDVMVVVNKLHKYSLVEKQP 421

Query: 92  TEGVDHDNALVRDKKKKKKKK----KKVCSFFPASSCF-GFKQVFLHRD------IALKI 140
            E      ++  + K K + +    + +   +     F     +  + D      I   +
Sbjct: 422 KESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHL 481

Query: 141 KAINQTLDDIAEQKDMFS-----FNVINSR----GKSEGMQSTSLIDVSEVR-------- 183
           K I        E+  +F      F  +  +      +     + L  + +++        
Sbjct: 482 KNIEH-----PERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICD 536

Query: 184 --GRDEEM-RSIKSMLLCQGSD----QQTNTVQIISMVGMGGIGKTTLAQLA 228
              + E +  +I   L     +    + T+ ++I  M     I +    Q+ 
Sbjct: 537 NDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEAIFEEAHKQVQ 588

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A* Length = 1249

 Score = 94.9 bits (236), Expect = 2e-20
 Identities = 74/483 (15%), Positives = 157/483 (32%), Gaps = 66/483 (13%)

Query: 59  EEGVRLWLDQLKDA---SYNMEDVLDEWITARLKRQTEGVDHDNALVRDKKKKKKKKKKV 115
           +   R  L Q ++A         ++D  I+  +         +   V+ +  + ++   +
Sbjct: 2   DAKARNCLLQHREALEKDIKTSYIMDHMISNGVLS-----VIEEEKVKSQATQYQRAAAL 56

Query: 116 CSFFPASSCFGFKQVF---LHRDIALKIKAINQTLDDIAEQKDMFSFNVINSRGKSEGMQ 172
                      +   +   LH         +   L  ++      +   I S  ++   +
Sbjct: 57  IKMILNKDNCAYISFYNALLHEGYKDLAALLQSGLPLVSSSSGKDTDGGITSFVRTVLCE 116

Query: 173 STSLIDVSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDN 232
                       R + + +I+  L     +        +++ GM G GK+ LA  A  D+
Sbjct: 117 GGVPQRPVIFVTRKKLVHAIQQKLWKLNGEPG-----WVTIYGMAGCGKSVLAAEAVRDH 171

Query: 233 DVINN--------FEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANI 284
            ++            I  +          N+     +E   S      +     R+   +
Sbjct: 172 SLLEGCFSGGVHWVSIGKQDKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLM 231

Query: 285 AGQ--KFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTR-KETVARMMESTDIVYV 341
             +  +  ++LD++W             L       +IL+TTR K     +M    +V V
Sbjct: 232 LRKHPRSLLILDDVWD---------PWVLKAFDNQCQILLTTRDKSVTDSVMGPKHVVPV 282

Query: 342 Q-GLSELECWSLFRRFALSGRT--PSECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQ--- 395
           + GL   +   +   F    +   P+E          I+++CKG PL    IG+LL+   
Sbjct: 283 ESGLGREKGLEILSLFVNMKKEDLPAEAHS-------IIKECKGSPLVVSLIGALLRDFP 335

Query: 396 --FKRTKEEWQSALDSEMWQLEEFE-GGLSAPLFLSYNDLPFEIKRCFSYCAIFPKSSYL 452
             +     + Q+     + +   ++   L   + +S   L  +IK  ++  +I  K   +
Sbjct: 336 NRWAYYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKV 395

Query: 453 KKDELVKLWMAQGYIVLKGNNEMKVIGLEYFDCLASRSFYQQFVKDDDNMVIGCTMHDVV 512
               L  LW  +   V            +      ++S       + +       +HD+ 
Sbjct: 396 PTKVLCVLWDLETEEV-----------EDILQEFVNKSL---LFCNRNGKSFCYYLHDLQ 441

Query: 513 HDF 515
            DF
Sbjct: 442 VDF 444

>3qfl_A MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-binding domain, L rich repeat containing receptors, protein binding; 2.00A {Hordeum vulgare} Length = 115

 Score = 64.1 bits (156), Expect = 8e-13
 Identities = 26/134 (19%), Positives = 53/134 (39%), Gaps = 23/134 (17%)

Query: 6   VSAVLEQLISVAAKEANEGVRLAVGVGQEVEKLKRNFQAIQAVLHDAEHRQVRE--EGVR 63
           +S ++ +L  +  +E      L  GV + +E L +  +++ A L         +     +
Sbjct: 3   ISNLIPKLGELLTEEFK----LHKGVKKNIEDLGKELESMNAALIKIGEVPREQLDSQDK 58

Query: 64  LWLDQLKDASYNMEDVLDEWITARLKRQTEGVDHDNALVRDKKKKKKKKKKVCSFFPASS 123
           LW D++++ SY +EDV+D+++                +  D  K      K       ++
Sbjct: 59  LWADEVRELSYVIEDVVDKFL----------------VQVDGIKSDDNNNKFKGLMKRTT 102

Query: 124 CFGFKQVFLHRDIA 137
               K+V     IA
Sbjct: 103 EL-LKKVKHKHGIA 115

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	583
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	100.0
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	100.0
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	100.0
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	100.0
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	99.76
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.76
2fna_A	357	Conserved hypothetical protein; structural genomic	99.73
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	99.67
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.58
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.57
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.56
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.49
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.42
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.35
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	99.22
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	99.17
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	99.02
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	98.95
2chq_A	319	Replication factor C small subunit; DNA-binding pr	98.87
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	98.84
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	98.8
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	98.79
3bos_A	242	Putative DNA replication factor; P-loop containing	98.74
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	98.69
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	98.58
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	98.58
3pvs_A	447	Replication-associated recombination protein A; ma	98.54
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	98.5
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	98.46
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	98.46
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	98.43
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	98.42
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	98.41
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	98.41
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	98.41
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	98.36
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	98.32
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	98.3
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	98.29
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	98.28
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	98.2
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	98.2
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	98.18
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	98.18
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	98.15
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	98.14
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	98.11
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	98.11
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	98.1
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	98.04
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	98.0
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	98.0
3co5_A	143	Putative two-component system transcriptional RES	97.99
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	97.96
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	97.96
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	97.93
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	97.92
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	97.86
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	97.82
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	97.82
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	97.79
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	97.76
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	97.76
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.75
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	97.74
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	97.73
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.69
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.63
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	97.61
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	97.55
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	97.54
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	97.45
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	97.4
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	97.39
2r44_A	331	Uncharacterized protein; putative ATPase, structur	97.33
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.33
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.29
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.25
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	97.19
2qgz_A	308	Helicase loader, putative primosome component; str	97.17
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	97.08
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	97.08
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	97.07
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	97.01
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	97.01
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	97.0
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	96.95
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	96.94
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	96.92
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	96.89
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	96.88
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	96.72
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	96.7
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	96.69
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	96.63
3io5_A	333	Recombination and repair protein; storage dimer, i	96.53
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	96.48
1xp8_A	366	RECA protein, recombinase A; recombination, radior	96.39
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	96.37
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	96.34
2z43_A	324	DNA repair and recombination protein RADA; archaea	96.33
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.26
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	96.17
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	96.05
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	95.98
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	95.98
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	95.97
1u94_A	356	RECA protein, recombinase A; homologous recombinat	95.97
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	95.88
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	95.88
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	95.83
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	95.81
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	95.8
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	95.74
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	95.7
4a74_A	231	DNA repair and recombination protein RADA; hydrola	95.63
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	95.55
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	95.51
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	95.5
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	95.48
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	95.46
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	95.44
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	95.43
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	95.4
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	95.39
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	95.38
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	95.38
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	95.27
3ice_A	422	Transcription termination factor RHO; transcriptio	95.24
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	95.22
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	95.15
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	95.12
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	95.12
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	95.11
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	95.09
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	95.08
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	95.04
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	95.03
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	94.96
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	94.96
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	94.94
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	94.92
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	94.91
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	94.87
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	94.87
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	94.86
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	94.86
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	94.84
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	94.82
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	94.8
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	94.79
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	94.75
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	94.74
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	94.74
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	94.74
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	94.71
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	94.71
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	94.7
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	94.67
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	94.64
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	94.63
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	94.63
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	94.61
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	94.6
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	94.59
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	94.59
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	94.57
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	94.56
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	94.56
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	94.55
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	94.54
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	94.54
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	94.52
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	94.5
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	94.5
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	94.49
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	94.48
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	94.48
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	94.44
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	94.4
2hf9_A	226	Probable hydrogenase nickel incorporation protein	94.38
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	94.38
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	94.36
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	94.34
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	94.3
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	94.3
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	94.25
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	94.25
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	94.24
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	94.24
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	94.23
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	94.22
2xxa_A	433	Signal recognition particle protein; protein trans	94.22
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	94.22
1via_A	175	Shikimate kinase; structural genomics, transferase	94.18
2vli_A	183	Antibiotic resistance protein; transferase, tunica	94.15
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	94.13
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	94.1
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	94.06
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	94.05
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	94.03
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	94.02
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	94.02
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	94.02
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	94.02
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	94.0
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	93.97
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	93.95
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	93.95
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	93.93
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	93.91
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	93.89
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	93.89
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	93.88
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	93.82
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	93.81
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	93.8
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	93.78
3fwy_A	314	Light-independent protochlorophyllide reductase I	93.78
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	93.77
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	93.77
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	93.76
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	93.75
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	93.72
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	93.69
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	93.68
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	93.68
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	93.67
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	93.67
2r6a_A	454	DNAB helicase, replicative helicase; replication,	93.65
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	93.65
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	93.62
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	93.62
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	93.62
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	93.57
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	93.52
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	93.5
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	93.49
1tue_A	212	Replication protein E1; helicase, replication, E1E	93.45
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	93.45
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	93.45
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	93.43
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	93.41
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	93.4
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	93.33
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	93.29
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	93.29
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	93.24
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	93.23
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	93.1
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	93.08
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	93.08
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	93.04
1b0u_A	262	Histidine permease; ABC transporter, transport pro	93.04
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	93.02
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	92.94
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	92.9
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	92.83
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	92.82
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	92.8
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	92.77
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	92.77
2ged_A	193	SR-beta, signal recognition particle receptor beta	92.74
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	92.66
1ji0_A	240	ABC transporter; ATP binding protein, structural g	92.66
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	92.63
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	92.63
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	92.62
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	92.61
1g6h_A	257	High-affinity branched-chain amino acid transport	92.6
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	92.6
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	92.59
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	92.58
2wji_A	165	Ferrous iron transport protein B homolog; membrane	92.58
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	92.58
1sgw_A	214	Putative ABC transporter; structural genomics, P p	92.56
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	92.54
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	92.54
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	92.53
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	92.52
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	92.52
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	92.51
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	92.48
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	92.46
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	92.45
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	92.44
2xau_A	773	PRE-mRNA-splicing factor ATP-dependent RNA helica;	92.43
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	92.4
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	92.39
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	92.37
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	92.36
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	92.36
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	92.34
2og2_A	359	Putative signal recognition particle receptor; nuc	92.31
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	92.3
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	92.28
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	92.26
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	92.25
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	92.24
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	92.22
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	92.2
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	92.2
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	92.18
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	92.12
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	92.11
2eyu_A	261	Twitching motility protein PILT; pilus retraction	92.09
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	92.06
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	92.03
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	92.03
3l0o_A	427	Transcription termination factor RHO; helicase, RH	92.0
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	92.0
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	91.96
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	91.95
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	91.95
3end_A	307	Light-independent protochlorophyllide reductase ir	91.94
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	91.93
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	91.9
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	91.9
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	91.88
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	91.82
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	91.82
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	91.82
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	91.79
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	91.77
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	91.75
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	91.75
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	91.68
2ghi_A	260	Transport protein; multidrug resistance protein, M	91.65
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	91.54
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	91.51
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	91.5
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	91.46
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	91.4
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	91.39
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	91.39
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	91.38
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	91.35
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	91.33
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	91.33
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	91.28
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	91.25
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	91.22
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	91.2
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	91.13
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	91.11
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	91.11
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	91.08
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	91.02
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	91.0
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	91.0
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	90.97
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	90.95
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	90.94
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	90.89
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	90.89
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	90.89
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	90.84
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	90.82
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	90.8
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	90.79
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	90.77
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	90.73
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	90.7
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	90.68
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	90.68
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	90.67
1nrj_B	218	SR-beta, signal recognition particle receptor beta	90.65
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	90.62
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	90.62
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	90.61
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	90.61
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	90.56
3kta_A	182	Chromosome segregation protein SMC; structural mai	90.53
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	90.52
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	90.52
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	90.51
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	90.49
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	90.48
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	90.48
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	90.46
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	90.4
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	90.38
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	90.37
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	90.36
3vkw_A	446	Replicase large subunit; alpha/beta domain, helica	90.35
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	90.34
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	90.33
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	90.31
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	90.29
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	90.25
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	90.24
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	90.23
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	90.21
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	90.15
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	90.14
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	90.13
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	90.13
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	90.13
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	90.11
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	90.09
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	90.09
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	90.07
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	90.06
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	90.03
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	90.03
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	89.99
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	89.99
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	89.94
3llu_A	196	RAS-related GTP-binding protein C; structural geno	89.94
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	89.91
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	89.89
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	89.86
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	89.86
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	89.84
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	89.83
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	89.83
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	89.81
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	89.8
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	89.78
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	89.77
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	89.75
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	89.74
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	89.73
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	89.69
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	89.67
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	89.62
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	89.61
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	89.6
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	89.59
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	89.56
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	89.54
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	89.54
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	89.52
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	89.5
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	89.48
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	89.48
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	89.48
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	89.47
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	89.47
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	89.47
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	89.47
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	89.46
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	89.45
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	89.43
2ewv_A	372	Twitching motility protein PILT; pilus retraction	89.4
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	89.39
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	89.37
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	89.36
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	89.34
3mfy_A	588	V-type ATP synthase alpha chain; A-type ATP syntha	89.33
2fh5_B	214	SR-beta, signal recognition particle receptor beta	89.32
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	89.29
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	89.25
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	89.21
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	89.2
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	89.19
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	89.15
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	89.15
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	89.1
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	89.08
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	89.02
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	89.0
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	89.0
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	88.96
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	88.95
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	88.92
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	88.91
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	88.91
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	88.88
3ch4_B	202	Pmkase, phosphomevalonate kinase; parallel beta-sh	88.83
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	88.83
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	88.83
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	88.82
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	88.82
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	88.81
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	88.81
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	88.8
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	88.79
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	88.74
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	88.72
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	88.65
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	88.64
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	88.63
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	88.6
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	88.58
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	88.57
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	88.48
3vr4_A	600	V-type sodium ATPase catalytic subunit A; V-ATPase	88.44
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	88.42
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	88.35
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	88.25
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	88.25
3thx_A	934	DNA mismatch repair protein MSH2; ABC family ATPas	88.23
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	88.11
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	88.06
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	88.04
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	88.04
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	87.97
2orv_A	234	Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2	87.91
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	87.89

>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=3.1e-51  Score=446.01  Aligned_cols=316  Identities=16%  Similarity=0.209  Sum_probs=258.3

Q ss_pred             eechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHc--CccccccCceEEEEEeCCCC--ChHHHHHH
Q 036323          183 RGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYN--DNDVINNFEIRVRVCVSDPF--DEFNVAKA  258 (583)
Q Consensus       183 vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~--~~~~~~~f~~~~wv~~~~~~--~~~~~~~~  258 (583)
                      |||+.++++|.++|....    ....++|+|+||||+||||||+++|+  +.++..+|++++|+++++..  +...++..
T Consensus       131 ~GR~~~~~~l~~~L~~~~----~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~~~  206 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMC----DLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTD  206 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHT----TSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhccc----CCCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEEEEEECCCCCCCHHHHHHH
Confidence            599999999999997542    24589999999999999999999998  67899999999999999875  78899999


Q ss_pred             HHHHhhcCcc-------ccccHHHHHHHHHHHhcCC-ceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCchHHH
Q 036323          259 TIEELEGSAI-------DLHELNSLLRRIGANIAGQ-KFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKETVA  330 (583)
Q Consensus       259 il~~l~~~~~-------~~~~~~~~~~~l~~~l~~k-~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~~v~  330 (583)
                      |+.+++....       +..+.+.+...+++.|.++ ||||||||||+.+...|..        .+||+||||||+..++
T Consensus       207 il~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~~~~~~~--------~~gs~ilvTTR~~~v~  278 (549)
T 2a5y_B          207 ILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQ--------ELRLRCLVTTRDVEIS  278 (549)
T ss_dssp             HHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHHHHHH--------HTTCEEEEEESBGGGG
T ss_pred             HHHHHhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCchhhcccc--------cCCCEEEEEcCCHHHH
Confidence            9999986521       1234567788999999996 9999999999754222321        2799999999999999


Q ss_pred             hhhcC-CCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhhhhhhccCCCHHHHHHHHhh
Q 036323          331 RMMES-TDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEEWQSALDS  409 (583)
Q Consensus       331 ~~~~~-~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~~~L~~~~~~~~w~~~l~~  409 (583)
                      ..++. ..+|+|++|+.++||+||.+.++...   .++.+.+++.+|+++|+|+||||+++|+.|+.+ + .+|...+.+
T Consensus       279 ~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~---~~~~~~~~~~~I~~~c~GlPLAl~~~g~~l~~~-~-w~~~~~l~~  353 (549)
T 2a5y_B          279 NAASQTCEFIEVTSLEIDECYDFLEAYGMPMP---VGEKEEDVLNKTIELSSGNPATLMMFFKSCEPK-T-FEKMAQLNN  353 (549)
T ss_dssp             GGCCSCEEEEECCCCCHHHHHHHHHHTSCCCC-----CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSS-S-HHHHHHHHH
T ss_pred             HHcCCCCeEEECCCCCHHHHHHHHHHHhcCCC---CchhHHHHHHHHHHHhCCChHHHHHHHHHhccc-h-HHHHHHhHH
Confidence            87653 46799999999999999999987542   246788899999999999999999999999766 3 344444544


Q ss_pred             hccccccccCCCcchhhccccCChHHhHHHHh-----------hhccCCCCcccChHHHHHHHHHh--ccccccC-CchH
Q 036323          410 EMWQLEEFEGGLSAPLFLSYNDLPFEIKRCFS-----------YCAIFPKSSYLKKDELVKLWMAQ--GYIVLKG-NNEM  475 (583)
Q Consensus       410 ~~~~~~~~~~~i~~~l~~sy~~L~~~~k~cf~-----------~lsifp~~~~i~~~~Li~~W~ae--g~i~~~~-~~~~  475 (583)
                      ..+..  ....+..++.+||++||+++|.||+           |||+||+++.|+    +++|+|+  ||+.... +.++
T Consensus       354 ~l~~~--~~~~i~~~l~~Sy~~L~~~lk~~f~~Ls~~er~l~~~ls~fp~~~~i~----i~~w~a~~~G~i~~~~~~~~~  427 (549)
T 2a5y_B          354 KLESR--GLVGVECITPYSYKSLAMALQRCVEVLSDEDRSALAFAVVMPPGVDIP----VKLWSCVIPVDICSNEEEQLD  427 (549)
T ss_dssp             HHHHH--CSSTTCCCSSSSSSSHHHHHHHHHHTSCHHHHHHTTGGGSSCTTCCEE----HHHHHHHSCC-------CCCT
T ss_pred             Hhhcc--cHHHHHHHHhcccccccHHHHHHHhccchhhhhHhhheeeeCCCCeee----eeeeeeeccceeccCCCCCCH
Confidence            43322  3467999999999999999999999           999999999999    8999999  9998765 6677


Q ss_pred             HHHHHHHHHHHhhcccccceecCCCCcEEEEEEchhHHHHHHHhhccceE
Q 036323          476 KVIGLEYFDCLASRSFYQQFVKDDDNMVIGCTMHDVVHDFAQSLTNNECV  525 (583)
Q Consensus       476 e~~~~~~l~~L~~rsll~~~~~~~~~~~~~~~mHdlv~~~a~~~~~~e~~  525 (583)
                      +++++ ||++|+++|||++...+   ...+|+|||+||+||++++.++++
T Consensus       428 ~~~~~-~l~~L~~rsLl~~~~~~---~~~~~~mHdlv~~~a~~~~~~~~~  473 (549)
T 2a5y_B          428 DEVAD-RLKRLSKRGALLSGKRM---PVLTFKIDHIIHMFLKHVVDAQTI  473 (549)
T ss_dssp             HHHHH-HHHHTTTBSSCSEEECS---SSCEEECCHHHHHHHHTTSCTHHH
T ss_pred             HHHHH-HHHHHHHcCCeeEecCC---CceEEEeChHHHHHHHHHHHHHHH
Confidence            88888 99999999999986543   334799999999999999988775

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=100.00  E-value=8.6e-41  Score=369.29  Aligned_cols=286  Identities=17%  Similarity=0.154  Sum_probs=227.3

Q ss_pred             ceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCce-EEEEEeCCCCChHHHHHHH
Q 036323          181 EVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEI-RVRVCVSDPFDEFNVAKAT  259 (583)
Q Consensus       181 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~-~~wv~~~~~~~~~~~~~~i  259 (583)
                      ..|||+.++++|.++|....      ..++|+|+||||+||||||+++|++.++..+|+. ++|+++++..+...++..+
T Consensus       129 ~~VGRe~eLeeL~elL~~~d------~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~~d~~~IL~~L  202 (1221)
T 1vt4_I          129 YNVSRLQPYLKLRQALLELR------PAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEML  202 (1221)
T ss_dssp             SCCCCHHHHHHHHHHHHHCC------SSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCSSSHHHHHHHH
T ss_pred             CCCCcHHHHHHHHHHHhccC------CCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCCCCHHHHHHHH
Confidence            34999999999999997532      3789999999999999999999987778899986 9999999998888888887


Q ss_pred             HHHhhcCc------c-----ccccHHHHHHHHHHHh---cCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecC
Q 036323          260 IEELEGSA------I-----DLHELNSLLRRIGANI---AGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTR  325 (583)
Q Consensus       260 l~~l~~~~------~-----~~~~~~~~~~~l~~~l---~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR  325 (583)
                      +..+....      .     ...+.+.+...+++.|   .++|+||||||+|+.  ..|+.+    +   +||+||||||
T Consensus       203 l~lL~~i~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd~--eqLe~f----~---pGSRILVTTR  273 (1221)
T 1vt4_I          203 QKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNA--KAWNAF----N---LSCKILLTTR  273 (1221)
T ss_dssp             HHHHHHHCSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCCH--HHHHHH----H---SSCCEEEECS
T ss_pred             HHHHhhcCcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcChH--HHHHhh----C---CCeEEEEecc
Confidence            77543211      0     1234456667777766   689999999999873  355543    2   6899999999


Q ss_pred             chHHHhhhcCCCeEEcC------CCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhhhhhhccCC-
Q 036323          326 KETVARMMESTDIVYVQ------GLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKR-  398 (583)
Q Consensus       326 ~~~v~~~~~~~~~~~l~------~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~~~L~~~~-  398 (583)
                      ++.++..+.....+.++      +|+.+|||+||.+.. +..    .   .++..+|   |+|+||||+++|+.|+.+. 
T Consensus       274 d~~Va~~l~g~~vy~LeL~d~dL~LS~eEA~eLF~~~~-g~~----~---eeL~~eI---CgGLPLALkLaGs~Lr~k~~  342 (1221)
T 1vt4_I          274 FKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYL-DCR----P---QDLPREV---LTTNPRRLSIIAESIRDGLA  342 (1221)
T ss_dssp             CSHHHHHHHHHSSCEEEECSSSSCCCHHHHHHHHHHHH-CCC----T---TTHHHHH---CCCCHHHHHHHHHHHHHSCS
T ss_pred             ChHHHHhcCCCeEEEecCccccCCcCHHHHHHHHHHHc-CCC----H---HHHHHHH---hCCCHHHHHHHHHHHhCCCC
Confidence            99988654443456666      999999999999984 221    1   2233333   9999999999999999885 


Q ss_pred             CHHHHHHHHhhhccccccccCCCcchhhccccCChHHh-HHHHhhhccCCCCcccChHHHHHHHHHhccccccCCchHHH
Q 036323          399 TKEEWQSALDSEMWQLEEFEGGLSAPLFLSYNDLPFEI-KRCFSYCAIFPKSSYLKKDELVKLWMAQGYIVLKGNNEMKV  477 (583)
Q Consensus       399 ~~~~w~~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~~~-k~cf~~lsifp~~~~i~~~~Li~~W~aeg~i~~~~~~~~e~  477 (583)
                      +.++|...          ....+..+|.+||+.||+++ |.||++||+||+++.|+.+.++.+|+++|          ++
T Consensus       343 s~eeW~~~----------~~~~I~aaLelSYd~Lp~eelK~cFL~LAIFPed~~I~~elLa~LW~aeG----------ee  402 (1221)
T 1vt4_I          343 TWDNWKHV----------NCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVI----------KS  402 (1221)
T ss_dssp             SHHHHHHC----------SCHHHHHHHHHHHHHSCTTHHHHHHHHTTSSCTTSCEEHHHHHHHHCSSC----------SH
T ss_pred             CHHHHhcC----------ChhHHHHHHHHHHHhCCHHHHHHHHHHHhCCCCCCCCCHHHHHHHhcCCC----------HH
Confidence            67888653          12457889999999999999 99999999999999999999999998887          13


Q ss_pred             HHHHHHHHHhhcccccceecCCCCcEEEEEEchhHHHHHH
Q 036323          478 IGLEYFDCLASRSFYQQFVKDDDNMVIGCTMHDVVHDFAQ  517 (583)
Q Consensus       478 ~~~~~l~~L~~rsll~~~~~~~~~~~~~~~mHdlv~~~a~  517 (583)
                      .++.+|++|+++|||+...     ...+|+|||++++++.
T Consensus       403 dAe~~L~eLvdRSLLq~d~-----~~~rYrMHDLllELr~  437 (1221)
T 1vt4_I          403 DVMVVVNKLHKYSLVEKQP-----KESTISIPSIYLELKV  437 (1221)
T ss_dssp             HHHHHHHHHHTSSSSSBCS-----SSSEEBCCCHHHHHHH
T ss_pred             HHHHHHHHHHhhCCEEEeC-----CCCEEEehHHHHHHhc
Confidence            5788999999999999731     1237999999999653

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A*

Probab=100.00  E-value=1.2e-39  Score=389.19  Aligned_cols=315  Identities=18%  Similarity=0.217  Sum_probs=248.3

Q ss_pred             ccccCCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccc-cccC-ceEEEEEeCCCCC-
Q 036323          175 SLIDVSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDV-INNF-EIRVRVCVSDPFD-  251 (583)
Q Consensus       175 ~~~~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~-~~~f-~~~~wv~~~~~~~-  251 (583)
                      .+.+++.||||++++++|.++|....     ...++|+|+||||+||||||+++|++.+. ..+| +.++|+++++..+ 
T Consensus       119 ~p~~~~~~vgR~~~~~~l~~~l~~~~-----~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~  193 (1249)
T 3sfz_A          119 VPQRPVIFVTRKKLVHAIQQKLWKLN-----GEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKS  193 (1249)
T ss_dssp             CCCCCSSCCCCHHHHHHHHHHHHTTT-----TSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHH
T ss_pred             CCCCCceeccHHHHHHHHHHHHhhcc-----CCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCch
Confidence            34456789999999999999997543     56899999999999999999999997543 4445 6788999988543 


Q ss_pred             -hHHHHHHHHHHhhcCc----cccccHHHHHHHHHHHhcCC--ceeEEEcCCCcccccchHhhHHhhccCCCCceEEEec
Q 036323          252 -EFNVAKATIEELEGSA----IDLHELNSLLRRIGANIAGQ--KFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITT  324 (583)
Q Consensus       252 -~~~~~~~il~~l~~~~----~~~~~~~~~~~~l~~~l~~k--~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTt  324 (583)
                       ....+..++..+....    ....+.+.+...++..+.++  |+||||||+|+..  .|..       ..+|++|||||
T Consensus       194 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~~--~~~~-------~~~~~~ilvTt  264 (1249)
T 3sfz_A          194 GLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPW--VLKA-------FDNQCQILLTT  264 (1249)
T ss_dssp             HHHHHHHHHHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCHH--HHTT-------TCSSCEEEEEE
T ss_pred             HHHHHHHHHHHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCHH--HHHh-------hcCCCEEEEEc
Confidence             3344666777766542    22456788889999999877  9999999998642  3333       36799999999


Q ss_pred             CchHHHhh-hcCCCeEEcCC-CChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhhhhhhccCCCHHH
Q 036323          325 RKETVARM-MESTDIVYVQG-LSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEE  402 (583)
Q Consensus       325 R~~~v~~~-~~~~~~~~l~~-L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~~~L~~~~~~~~  402 (583)
                      |++.++.. +.....+++.+ |+.++|++||...++..     .+.+.+++++|+++|+|+||||+++|++|+.++  ..
T Consensus       265 R~~~~~~~~~~~~~~~~~~~~l~~~~a~~l~~~~~~~~-----~~~~~~~~~~i~~~~~glPLal~~~~~~l~~~~--~~  337 (1249)
T 3sfz_A          265 RDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMK-----KEDLPAEAHSIIKECKGSPLVVSLIGALLRDFP--NR  337 (1249)
T ss_dssp             SSTTTTTTCCSCBCCEECCSSCCHHHHHHHHHHHHTSC-----STTCCTHHHHHHHHTTTCHHHHHHHHHHHHHSS--SC
T ss_pred             CCHHHHHhhcCCceEEEecCCCCHHHHHHHHHHhhCCC-----hhhCcHHHHHHHHHhCCCHHHHHHHHHHhhcCh--hH
Confidence            99998854 45567899996 99999999999988432     233456789999999999999999999998775  34


Q ss_pred             HHHHHhhhcccc----cc----ccCCCcchhhccccCChHHhHHHHhhhccCCCCcccChHHHHHHHHHhccccccCCch
Q 036323          403 WQSALDSEMWQL----EE----FEGGLSAPLFLSYNDLPFEIKRCFSYCAIFPKSSYLKKDELVKLWMAQGYIVLKGNNE  474 (583)
Q Consensus       403 w~~~l~~~~~~~----~~----~~~~i~~~l~~sy~~L~~~~k~cf~~lsifp~~~~i~~~~Li~~W~aeg~i~~~~~~~  474 (583)
                      |...+.......    ..    ....+..+|.+||+.||+++|.||+|||+||+++.|+.+.++.+|.++          
T Consensus       338 ~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~~~~l~~f~~~~~i~~~~~~~~~~~~----------  407 (1249)
T 3sfz_A          338 WAYYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLWDLE----------  407 (1249)
T ss_dssp             HHHHHHHHHSCCCCCSSCTTCTTHHHHHHHHHHHHHTSCTTTHHHHHHGGGSCTTCCEEHHHHHHHHTCC----------
T ss_pred             HHHHHHHHhhhhhhhcccccccchHHHHHHHHHHHHhCCHHHHHHHHHhCccCCCCeeCHHHHHHHhCCC----------
Confidence            666555432111    11    112477899999999999999999999999999999999999999554          


Q ss_pred             HHHHHHHHHHHHhhcccccceecCCCCcEEEEEEchhHHHHHHHhhccce
Q 036323          475 MKVIGLEYFDCLASRSFYQQFVKDDDNMVIGCTMHDVVHDFAQSLTNNEC  524 (583)
Q Consensus       475 ~e~~~~~~l~~L~~rsll~~~~~~~~~~~~~~~mHdlv~~~a~~~~~~e~  524 (583)
                       ++.++.+|++|+++||++...   ++...+|+||++||+|++..+.++.
T Consensus       408 -~~~~~~~l~~L~~~sl~~~~~---~~~~~~~~~h~l~~~~~~~~~~~~~  453 (1249)
T 3sfz_A          408 -TEEVEDILQEFVNKSLLFCNR---NGKSFCYYLHDLQVDFLTEKNRSQL  453 (1249)
T ss_dssp             -HHHHHHHHHHHHHTTSCEEEE---SSSSEEEECCHHHHHHHHHHTGGGH
T ss_pred             -HHHHHHHHHHHHhccceEEec---CCCceEEEecHHHHHHHHhhhhHHH
Confidence             466889999999999998643   3445679999999999999987663

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=100.00  E-value=2.6e-37  Score=340.64  Aligned_cols=307  Identities=19%  Similarity=0.209  Sum_probs=233.0

Q ss_pred             cCCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccc-cccC-ceEEEEEeCCCCChHHH
Q 036323          178 DVSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDV-INNF-EIRVRVCVSDPFDEFNV  255 (583)
Q Consensus       178 ~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~-~~~f-~~~~wv~~~~~~~~~~~  255 (583)
                      .++.||||+.++++|.++|....     +..++|+|+|+||+||||||.+++++..+ ..+| +.++|++++.. +...+
T Consensus       122 ~~~~~vGR~~~l~~L~~~L~~~~-----~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~-~~~~~  195 (591)
T 1z6t_A          122 RPVVFVTRKKLVNAIQQKLSKLK-----GEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQ-DKSGL  195 (591)
T ss_dssp             CCSSCCCCHHHHHHHHHHHTTST-----TSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESC-CHHHH
T ss_pred             CCCeecccHHHHHHHHHHHhccc-----CCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCC-chHHH
Confidence            45679999999999999996432     45789999999999999999999997655 7789 58999999765 33334


Q ss_pred             HHHH---HHHhhcC----ccccccHHHHHHHHHHHhcC--CceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCc
Q 036323          256 AKAT---IEELEGS----AIDLHELNSLLRRIGANIAG--QKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRK  326 (583)
Q Consensus       256 ~~~i---l~~l~~~----~~~~~~~~~~~~~l~~~l~~--k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~  326 (583)
                      +..+   +..+...    .....+.+.+...+...+.+  +++||||||+|+..  .+.       ...+|++||||||+
T Consensus       196 ~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~~--~l~-------~l~~~~~ilvTsR~  266 (591)
T 1z6t_A          196 LMKLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSW--VLK-------AFDSQCQILLTTRD  266 (591)
T ss_dssp             HHHHHHHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCHH--HHH-------TTCSSCEEEEEESC
T ss_pred             HHHHHHHHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCHH--HHH-------HhcCCCeEEEECCC
Confidence            4333   3344421    12345567778888888876  78999999998632  222       23568999999999


Q ss_pred             hHHHhhhcCCCeEEc---CCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhhhhhhccCCCHHHH
Q 036323          327 ETVARMMESTDIVYV---QGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEEW  403 (583)
Q Consensus       327 ~~v~~~~~~~~~~~l---~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~~~L~~~~~~~~w  403 (583)
                      ..++..+. ...+++   ++|+.+|+++||...++..     .+...+.+.+|+++|+|+||||..+|+.++.++  ..|
T Consensus       267 ~~~~~~~~-~~~~~v~~l~~L~~~ea~~L~~~~~~~~-----~~~~~~~~~~i~~~~~G~PLal~~~a~~l~~~~--~~w  338 (591)
T 1z6t_A          267 KSVTDSVM-GPKYVVPVESSLGKEKGLEILSLFVNMK-----KADLPEQAHSIIKECKGSPLVVSLIGALLRDFP--NRW  338 (591)
T ss_dssp             GGGGTTCC-SCEEEEECCSSCCHHHHHHHHHHHHTSC-----GGGSCTHHHHHHHHHTTCHHHHHHHHHHHHHST--TCH
T ss_pred             cHHHHhcC-CCceEeecCCCCCHHHHHHHHHHHhCCC-----cccccHHHHHHHHHhCCCcHHHHHHHHHHhcCc--hhH
Confidence            98876543 344554   5899999999999988532     122345688999999999999999999998764  357


Q ss_pred             HHHHhhhcccc----c----cccCCCcchhhccccCChHHhHHHHhhhccCCCCcccChHHHHHHHHHhccccccCCchH
Q 036323          404 QSALDSEMWQL----E----EFEGGLSAPLFLSYNDLPFEIKRCFSYCAIFPKSSYLKKDELVKLWMAQGYIVLKGNNEM  475 (583)
Q Consensus       404 ~~~l~~~~~~~----~----~~~~~i~~~l~~sy~~L~~~~k~cf~~lsifp~~~~i~~~~Li~~W~aeg~i~~~~~~~~  475 (583)
                      ...+.......    .    .....+..++..||+.||++.|.||++||+||+++.|+.+.+..+|.++           
T Consensus       339 ~~~l~~l~~~~~~~~~~~~~~~~~~l~~~l~~s~~~L~~~~~~~l~~la~f~~~~~i~~~~l~~l~~~~-----------  407 (591)
T 1z6t_A          339 EYYLKQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCILWDME-----------  407 (591)
T ss_dssp             HHHHHHHHSCCCCCSSCCCSSCCHHHHHHHHHHHHTSCTTTHHHHHHGGGCCTTCCEEHHHHHHHHTCC-----------
T ss_pred             HHHHHHHHHhHHHHhhhccccchHHHHHHHHHHHHhCCHHHHHHHHHccccCCCCccCHHHHHHHhccC-----------
Confidence            76665432211    0    0112467789999999999999999999999999999999999999543           


Q ss_pred             HHHHHHHHHHHhhcccccceecCCCCcEEEEEEchhHHHHHHHhhc
Q 036323          476 KVIGLEYFDCLASRSFYQQFVKDDDNMVIGCTMHDVVHDFAQSLTN  521 (583)
Q Consensus       476 e~~~~~~l~~L~~rsll~~~~~~~~~~~~~~~mHdlv~~~a~~~~~  521 (583)
                      .+.+..++++|+++|||+....   +...+|+||+++|+|++....
T Consensus       408 ~~~~~~~l~~L~~~~Ll~~~~~---~~~~~~~~H~lv~~~~~~~~~  450 (591)
T 1z6t_A          408 TEEVEDILQEFVNKSLLFCDRN---GKSFRYYLHDLQVDFLTEKNC  450 (591)
T ss_dssp             HHHHHHHHHHHHHTTSSEEEEE---TTEEEEECCHHHHHHHHHHTG
T ss_pred             HHHHHHHHHHHHhCcCeEEecC---CCccEEEEcHHHHHHHHhhhh
Confidence            2356889999999999985432   345579999999999988743

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.76  E-value=2.6e-17  Score=168.37  Aligned_cols=294  Identities=12%  Similarity=0.077  Sum_probs=179.9

Q ss_pred             ccccCCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCC----
Q 036323          175 SLIDVSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPF----  250 (583)
Q Consensus       175 ~~~~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~----  250 (583)
                      +...+..|+||+.++++|.+++...         +++.|+|++|+|||||++++++..      . .+|+++....    
T Consensus         7 ~~~~~~~~~gR~~el~~L~~~l~~~---------~~v~i~G~~G~GKT~Ll~~~~~~~------~-~~~~~~~~~~~~~~   70 (350)
T 2qen_A            7 PKTRREDIFDREEESRKLEESLENY---------PLTLLLGIRRVGKSSLLRAFLNER------P-GILIDCRELYAERG   70 (350)
T ss_dssp             CCCSGGGSCSCHHHHHHHHHHHHHC---------SEEEEECCTTSSHHHHHHHHHHHS------S-EEEEEHHHHHHTTT
T ss_pred             CCCChHhcCChHHHHHHHHHHHhcC---------CeEEEECCCcCCHHHHHHHHHHHc------C-cEEEEeeccccccc
Confidence            3345678999999999999998531         589999999999999999998742      1 6777765332    


Q ss_pred             --ChHHHHHHHHHHhhc-----------------C-ccccccHHHHHHHHHHHhcC-CceeEEEcCCCcccc-------c
Q 036323          251 --DEFNVAKATIEELEG-----------------S-AIDLHELNSLLRRIGANIAG-QKFFMVLDNLWTDDY-------R  302 (583)
Q Consensus       251 --~~~~~~~~il~~l~~-----------------~-~~~~~~~~~~~~~l~~~l~~-k~~LlVlDdv~~~~~-------~  302 (583)
                        +...++..+...+..                 . .....+...+...+.+.... ++++|||||+++.+.       .
T Consensus        71 ~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~~~~~~  150 (350)
T 2qen_A           71 HITREELIKELQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGKE  150 (350)
T ss_dssp             CBCHHHHHHHHHHHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTTTTTHH
T ss_pred             CCCHHHHHHHHHHHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCccchhh
Confidence              455556666555432                 0 00123456666666665543 389999999976432       1


Q ss_pred             chHhhHHhhccCCCCceEEEecCchHHHhhh-----------cC-CCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHH
Q 036323          303 KWEPFRNCLMNGLRGSKILITTRKETVARMM-----------ES-TDIVYVQGLSELECWSLFRRFALSGRTPSECDQLE  370 (583)
Q Consensus       303 ~~~~l~~~l~~~~~gs~IlvTtR~~~v~~~~-----------~~-~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~  370 (583)
                      .+..+...+.. .++..+|+|++.......+           +. ...+++.||+.+|+.+++...........    ..
T Consensus       151 ~~~~L~~~~~~-~~~~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~~~~~~~~~----~~  225 (350)
T 2qen_A          151 LLALFAYAYDS-LPNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFLKRGFREVNLDV----PE  225 (350)
T ss_dssp             HHHHHHHHHHH-CTTEEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHHHHHHHHHHHHTTTCCC----CH
T ss_pred             HHHHHHHHHHh-cCCeEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHHHHHHHHHHHHHcCCCC----CH
Confidence            22223332222 2577899998875432111           11 24789999999999999987542211111    14


Q ss_pred             HHHHHHhhhCCCCccchhhhhhhhccCCCHHHHHH-HHhhhccccccccCCCcchhhccccCC---hHHhHHHHhhhccC
Q 036323          371 GIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEEWQS-ALDSEMWQLEEFEGGLSAPLFLSYNDL---PFEIKRCFSYCAIF  446 (583)
Q Consensus       371 ~~~~~I~~~c~GlPLai~~~~~~L~~~~~~~~w~~-~l~~~~~~~~~~~~~i~~~l~~sy~~L---~~~~k~cf~~lsif  446 (583)
                      +.+..|++.|+|+|+++..++..+....+...+.. ..+..           ...+.-.+..+   ++..+..+..++. 
T Consensus       226 ~~~~~i~~~tgG~P~~l~~~~~~~~~~~~~~~~~~~~~~~~-----------~~~~~~~l~~l~~~~~~~~~~l~~la~-  293 (350)
T 2qen_A          226 NEIEEAVELLDGIPGWLVVFGVEYLRNGDFGRAMKRTLEVA-----------KGLIMGELEELRRRSPRYVDILRAIAL-  293 (350)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCHHHHHHHHHHHH-----------HHHHHHHHHHHHHHCHHHHHHHHHHHT-
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHhccccHhHHHHHHHHHH-----------HHHHHHHHHHHHhCChhHHHHHHHHHh-
Confidence            56788999999999999998876432222322221 11110           00011111222   6788999999988 


Q ss_pred             CCCcccChHHHHHHHHHhccccccCCchHHHHHHHHHHHHhhcccccceecCCCCcEEEEE-EchhHHHHHH
Q 036323          447 PKSSYLKKDELVKLWMAQGYIVLKGNNEMKVIGLEYFDCLASRSFYQQFVKDDDNMVIGCT-MHDVVHDFAQ  517 (583)
Q Consensus       447 p~~~~i~~~~Li~~W~aeg~i~~~~~~~~e~~~~~~l~~L~~rsll~~~~~~~~~~~~~~~-mHdlv~~~a~  517 (583)
                       ..  ++...+.....+. .    ++. .......+++.|++.+||....    +   .|. -|++++++.+
T Consensus       294 -g~--~~~~~l~~~~~~~-~----~~~-~~~~~~~~l~~L~~~gli~~~~----~---~y~~~~p~~~~~~~  349 (350)
T 2qen_A          294 -GY--NRWSLIRDYLAVK-G----TKI-PEPRLYALLENLKKMNWIVEED----N---TYKIADPVVATVLR  349 (350)
T ss_dssp             -TC--CSHHHHHHHHHHT-T----CCC-CHHHHHHHHHHHHHTTSEEEET----T---EEEESSHHHHHHHT
T ss_pred             -CC--CCHHHHHHHHHHH-h----CCC-CHHHHHHHHHHHHhCCCEEecC----C---EEEEecHHHHHHHc
Confidence             22  3444554433221 0    011 1234678999999999997541    2   344 5889888764

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=99.76  E-value=2.1e-17  Score=173.19  Aligned_cols=320  Identities=11%  Similarity=0.002  Sum_probs=187.3

Q ss_pred             cCCceeechhHHHHHHHHh-hcCCCCCCCCceEEEEE--EecCCchHHHHHHHHHcCcccc---ccCc-eEEEEEeCCCC
Q 036323          178 DVSEVRGRDEEMRSIKSML-LCQGSDQQTNTVQIISM--VGMGGIGKTTLAQLAYNDNDVI---NNFE-IRVRVCVSDPF  250 (583)
Q Consensus       178 ~~~~~vGR~~e~~~l~~~L-~~~~~~~~~~~~~vv~I--~G~gGiGKTtLa~~v~~~~~~~---~~f~-~~~wv~~~~~~  250 (583)
                      .+..|+||+.++++|.+.| .... .+.....+.+.|  +|++|+|||||++.+++.....   ..+. .++|+++....
T Consensus        20 ~p~~l~gR~~el~~l~~~l~~~~~-~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (412)
T 1w5s_A           20 IPPELRVRRGEAEALARIYLNRLL-SGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAP   98 (412)
T ss_dssp             CCSSCSSSCHHHHHHHHHHHHHHH-TSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCC
T ss_pred             CCCCCCChHHHHHHHHHHHhHHHh-cCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCCC
Confidence            3478999999999999988 4321 000013456666  9999999999999998742211   0122 35788876777


Q ss_pred             ChHHHHHHHHHHhhcCccc-cccHHHHHHHHHHHhc--CCceeEEEcCCCcccc------cchHhhHHhhccC---C--C
Q 036323          251 DEFNVAKATIEELEGSAID-LHELNSLLRRIGANIA--GQKFFMVLDNLWTDDY------RKWEPFRNCLMNG---L--R  316 (583)
Q Consensus       251 ~~~~~~~~il~~l~~~~~~-~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~~------~~~~~l~~~l~~~---~--~  316 (583)
                      +...++..++..++...+. ..+...+...+.+.+.  +++++|||||+|+-..      ..+..+...+...   .  .
T Consensus        99 ~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~~  178 (412)
T 1w5s_A           99 NLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVN  178 (412)
T ss_dssp             SHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCC
T ss_pred             CHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhcccCCCCc
Confidence            8888999999988754321 2234455666666664  6799999999976432      2333333333222   2  3


Q ss_pred             CceEEEecCchHHHhhh--------cC-CCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCC------
Q 036323          317 GSKILITTRKETVARMM--------ES-TDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCK------  381 (583)
Q Consensus       317 gs~IlvTtR~~~v~~~~--------~~-~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~------  381 (583)
                      +..+|+||+...+...+        .. ...+.+.+|+.++++++|...+.......  ....+....|++.|+      
T Consensus       179 ~v~lI~~~~~~~~~~~l~~~~~~~~~~~~~~i~l~~l~~~e~~~ll~~~~~~~~~~~--~~~~~~~~~i~~~~~~~~~~~  256 (412)
T 1w5s_A          179 RIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDT--VWEPRHLELISDVYGEDKGGD  256 (412)
T ss_dssp             BEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCTT--SCCHHHHHHHHHHHCGGGTSC
T ss_pred             eEEEEEEeccccHHHHHhhhcchhhhhcCCeeeeCCCCHHHHHHHHHHHHHhcCCCC--CCChHHHHHHHHHHHHhccCC
Confidence            44578788765533211        11 22399999999999999976542111101  111456778899999      


Q ss_pred             CCccchhhhhhhhc------cC--CCHHHHHHHHhhhccccccccCCCcchhhccccCChHHhHHHHhhhccCC--CCcc
Q 036323          382 GLPLAAKTIGSLLQ------FK--RTKEEWQSALDSEMWQLEEFEGGLSAPLFLSYNDLPFEIKRCFSYCAIFP--KSSY  451 (583)
Q Consensus       382 GlPLai~~~~~~L~------~~--~~~~~w~~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~~~k~cf~~lsifp--~~~~  451 (583)
                      |+|..+..+.....      ..  -+.+.+...+....       .  ...+.-++..||++.+.++..++.+.  .+..
T Consensus       257 G~p~~~~~l~~~a~~~a~~~~~~~i~~~~v~~~~~~~~-------~--~~~~~~~l~~l~~~~~~~l~aia~l~~~~~~~  327 (412)
T 1w5s_A          257 GSARRAIVALKMACEMAEAMGRDSLSEDLVRKAVSENE-------A--ASIQTHELEALSIHELIILRLIAEATLGGMEW  327 (412)
T ss_dssp             CCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHC---------------CCSSSSSCHHHHHHHHHHHHHHHTTCSS
T ss_pred             CcHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHh-------c--cchHHHHHHcCCHHHHHHHHHHHHHHhcCCCC
Confidence            99976655543211      11  13444444433211       0  23455678889999999999888654  2334


Q ss_pred             cChHHHHHHHHHh--ccccccCCchHHHHHHHHHHHHhhcccccceecCCCCcEEEEEEchhH
Q 036323          452 LKKDELVKLWMAQ--GYIVLKGNNEMKVIGLEYFDCLASRSFYQQFVKDDDNMVIGCTMHDVV  512 (583)
Q Consensus       452 i~~~~Li~~W~ae--g~i~~~~~~~~e~~~~~~l~~L~~rsll~~~~~~~~~~~~~~~mHdlv  512 (583)
                      ++...+...+...  .... .. .........+++.|+..+||.....+ .+....|++|.+.
T Consensus       328 ~~~~~~~~~~~~~~~~~~~-~~-~~~~~~~~~~l~~L~~~gli~~~~~~-~~~~g~~~~~~l~  387 (412)
T 1w5s_A          328 INAGLLRQRYEDASLTMYN-VK-PRGYTQYHIYLKHLTSLGLVDAKPSG-RGMRGRTTLFRLA  387 (412)
T ss_dssp             BCHHHHHHHHHHHHHHHSC-CC-CCCHHHHHHHHHHHHHTTSEEEECC--------CCEEEEC
T ss_pred             ccHHHHHHHHHHHHHhhcC-CC-CCCHHHHHHHHHHHHhCCCEEeeccc-CCCCCceeEEEeC
Confidence            5555555544211  0110 01 11123456789999999999865432 1222235555444

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=99.73  E-value=1.3e-16  Score=163.57  Aligned_cols=292  Identities=12%  Similarity=0.061  Sum_probs=175.4

Q ss_pred             ccCCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCC-----CC
Q 036323          177 IDVSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDP-----FD  251 (583)
Q Consensus       177 ~~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-----~~  251 (583)
                      ..+..|+||+++++.|.+ +.       .   +++.|+|++|+|||+|++.+++..  ..   ..+|+++...     .+
T Consensus        10 ~~~~~~~gR~~el~~L~~-l~-------~---~~v~i~G~~G~GKT~L~~~~~~~~--~~---~~~~~~~~~~~~~~~~~   73 (357)
T 2fna_A           10 DNRKDFFDREKEIEKLKG-LR-------A---PITLVLGLRRTGKSSIIKIGINEL--NL---PYIYLDLRKFEERNYIS   73 (357)
T ss_dssp             CSGGGSCCCHHHHHHHHH-TC-------S---SEEEEEESTTSSHHHHHHHHHHHH--TC---CEEEEEGGGGTTCSCCC
T ss_pred             CCHHHhcChHHHHHHHHH-hc-------C---CcEEEECCCCCCHHHHHHHHHHhc--CC---CEEEEEchhhccccCCC
Confidence            356789999999999999 72       1   589999999999999999998742  21   2578887642     34


Q ss_pred             hHHHHHHHHHHhhc-------------C-------c--c-------ccccHHHHHHHHHHHhcCCceeEEEcCCCcccc-
Q 036323          252 EFNVAKATIEELEG-------------S-------A--I-------DLHELNSLLRRIGANIAGQKFFMVLDNLWTDDY-  301 (583)
Q Consensus       252 ~~~~~~~il~~l~~-------------~-------~--~-------~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~-  301 (583)
                      ....+..+...+..             .       .  .       .......+...+.+... ++++|||||+++.+. 
T Consensus        74 ~~~~~~~l~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~-~~~vlvlDe~~~~~~~  152 (357)
T 2fna_A           74 YKDFLLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASK-DNVIIVLDEAQELVKL  152 (357)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCS-SCEEEEEETGGGGGGC
T ss_pred             HHHHHHHHHHHHHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcCC-CCeEEEEECHHHhhcc
Confidence            44455444443321             0       0  0       01234555555554433 499999999976432 


Q ss_pred             --cchHhhHHhhccCCCCceEEEecCchHHHhh----------hc-C-CCeEEcCCCChHHHHHHHHHHhccCCCCCCCc
Q 036323          302 --RKWEPFRNCLMNGLRGSKILITTRKETVARM----------ME-S-TDIVYVQGLSELECWSLFRRFALSGRTPSECD  367 (583)
Q Consensus       302 --~~~~~l~~~l~~~~~gs~IlvTtR~~~v~~~----------~~-~-~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~  367 (583)
                        ..+..+...+....++..+|+|++.......          +. . ...+++.+|+.+|+.+++...........  +
T Consensus       153 ~~~~~~~~l~~~~~~~~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~l~~~~~~~~~~~--~  230 (357)
T 2fna_A          153 RGVNLLPALAYAYDNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDF--K  230 (357)
T ss_dssp             TTCCCHHHHHHHHHHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCC--C
T ss_pred             CchhHHHHHHHHHHcCCCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHHHHHHHHHcCCCC--C
Confidence              2333333333222346789999987653221          11 1 25789999999999999987542111111  1


Q ss_pred             hHHHHHHHHhhhCCCCccchhhhhhhhccCCCHHHHHHH-HhhhccccccccCCCcchhh-ccc--cCChHHhHHHHhhh
Q 036323          368 QLEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEEWQSA-LDSEMWQLEEFEGGLSAPLF-LSY--NDLPFEIKRCFSYC  443 (583)
Q Consensus       368 ~~~~~~~~I~~~c~GlPLai~~~~~~L~~~~~~~~w~~~-l~~~~~~~~~~~~~i~~~l~-~sy--~~L~~~~k~cf~~l  443 (583)
                      .    ...|++.|+|+|+++..++..+....+...|... .+....       .+...+. +.+  ..||+..+..+..+
T Consensus       231 ~----~~~i~~~t~G~P~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~l~~~~~~~l~~l  299 (357)
T 2fna_A          231 D----YEVVYEKIGGIPGWLTYFGFIYLDNKNLDFAINQTLEYAKK-------LILKEFENFLHGREIARKRYLNIMRTL  299 (357)
T ss_dssp             C----HHHHHHHHCSCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHH-------HHHHHHHHHHTTCGGGHHHHHHHHHHH
T ss_pred             c----HHHHHHHhCCCHHHHHHHHHHHccccchHHHHHHHHHHHHH-------HHHHHHHHHhhccccccHHHHHHHHHH
Confidence            1    1679999999999999998876443344444321 111000       0011111 111  16889999999999


Q ss_pred             ccCCCCcccChHHHHHHHH-HhccccccCCchHHHHHHHHHHHHhhcccccceecCCCCcEEEEE-EchhHHHHH
Q 036323          444 AIFPKSSYLKKDELVKLWM-AQGYIVLKGNNEMKVIGLEYFDCLASRSFYQQFVKDDDNMVIGCT-MHDVVHDFA  516 (583)
Q Consensus       444 sifp~~~~i~~~~Li~~W~-aeg~i~~~~~~~~e~~~~~~l~~L~~rsll~~~~~~~~~~~~~~~-mHdlv~~~a  516 (583)
                      |+   +.  +...+....- ..|.      .........+++.|++.+||....    +   .|. -|++++++.
T Consensus       300 a~---g~--~~~~l~~~~~~~~g~------~~~~~~~~~~L~~L~~~gli~~~~----~---~y~f~~~~~~~~l  356 (357)
T 2fna_A          300 SK---CG--KWSDVKRALELEEGI------EISDSEIYNYLTQLTKHSWIIKEG----E---KYCPSEPLISLAF  356 (357)
T ss_dssp             TT---CB--CHHHHHHHHHHHHCS------CCCHHHHHHHHHHHHHTTSEEESS----S---CEEESSHHHHHHT
T ss_pred             Hc---CC--CHHHHHHHHHHhcCC------CCCHHHHHHHHHHHHhCCCEEecC----C---EEEecCHHHHHhh
Confidence            98   21  3444433210 1121      011234568899999999997542    1   244 588998864

>3qfl_A MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-binding domain, L rich repeat containing receptors, protein binding; 2.00A {Hordeum vulgare}

Probab=99.67  E-value=6.7e-17  Score=135.99  Aligned_cols=79  Identities=24%  Similarity=0.457  Sum_probs=70.6

Q ss_pred             HHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHHHHHhhc--ccCchHHHHHHHHHHHhhhchHhHHHHHHHHH
Q 036323           10 LEQLISVAAKEANEGVRLAVGVGQEVEKLKRNFQAIQAVLHDAEHR--QVREEGVRLWLDQLKDASYNMEDVLDEWITAR   87 (583)
Q Consensus        10 ~~~l~~~l~~~~~~e~~~~~~v~~~i~~L~~~l~~i~~~l~~ae~~--~~~~~~~~~Wl~~lr~~ayd~eD~lD~~~~~~   87 (583)
                      ++.++++|++.+.+|+.++.||++++++|+++|++|+++|.+|+.+  +..++.++.|++|||+++||+|||||+|.++.
T Consensus         3 v~~ll~KL~~ll~~E~~l~~gv~~~i~~Lk~eL~~m~a~L~da~~~~~~~~d~~vk~W~~~vrdlaYD~ED~iD~f~~~~   82 (115)
T 3qfl_A            3 ISNLIPKLGELLTEEFKLHKGVKKNIEDLGKELESMNAALIKIGEVPREQLDSQDKLWADEVRELSYVIEDVVDKFLVQV   82 (115)
T ss_dssp             TCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCGGGCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3445566666688999999999999999999999999999999997  56789999999999999999999999999876


Q ss_pred             H
Q 036323           88 L   88 (583)
Q Consensus        88 ~   88 (583)
                      .
T Consensus        83 ~   83 (115)
T 3qfl_A           83 D   83 (115)
T ss_dssp             H
T ss_pred             c
Confidence            3

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.58  E-value=1e-13  Score=143.61  Aligned_cols=297  Identities=12%  Similarity=0.014  Sum_probs=181.3

Q ss_pred             cCCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCcccc----ccCceEEEEEeCCCCChH
Q 036323          178 DVSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVI----NNFEIRVRVCVSDPFDEF  253 (583)
Q Consensus       178 ~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~----~~f~~~~wv~~~~~~~~~  253 (583)
                      .+..|+||+.+++++..++...-   .....+.+.|+|++|+|||+||+.+++.....    +.-...+|+++....+..
T Consensus        17 ~p~~~~gr~~~~~~l~~~l~~~~---~~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~   93 (387)
T 2v1u_A           17 VPDVLPHREAELRRLAEVLAPAL---RGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPY   93 (387)
T ss_dssp             CCSCCTTCHHHHHHHHHTTGGGT---SSCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTSCSHH
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHH---cCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcCCCHH
Confidence            34789999999999999885431   12345688999999999999999998742111    002346788888878888


Q ss_pred             HHHHHHHHHhhcCccc-cccHHHHHHHHHHHh--cCCceeEEEcCCCccccc--chHhhHHhhcc--C---CCCceEEEe
Q 036323          254 NVAKATIEELEGSAID-LHELNSLLRRIGANI--AGQKFFMVLDNLWTDDYR--KWEPFRNCLMN--G---LRGSKILIT  323 (583)
Q Consensus       254 ~~~~~il~~l~~~~~~-~~~~~~~~~~l~~~l--~~k~~LlVlDdv~~~~~~--~~~~l~~~l~~--~---~~gs~IlvT  323 (583)
                      .++..++..++...+. ......+...+.+.+  .+++.+||||+++.-...  ..+.+...+..  .   ..+..+|+|
T Consensus        94 ~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~~~~~~~I~~  173 (387)
T 2v1u_A           94 RVASAIAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLVGI  173 (387)
T ss_dssp             HHHHHHHHHHSCCCCSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----CEEEEE
T ss_pred             HHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcCCCceEEEEEE
Confidence            8999999988654322 223455566666666  356889999999764322  22233332321  1   345677777


Q ss_pred             cCchHHH----hhh-cC--CCeEEcCCCChHHHHHHHHHHhcc--CCCCCCCchHHHHHHHHhhhCC---CCccch-hhh
Q 036323          324 TRKETVA----RMM-ES--TDIVYVQGLSELECWSLFRRFALS--GRTPSECDQLEGIGRGIVRKCK---GLPLAA-KTI  390 (583)
Q Consensus       324 tR~~~v~----~~~-~~--~~~~~l~~L~~~ea~~Lf~~~a~~--~~~~~~~~~~~~~~~~I~~~c~---GlPLai-~~~  390 (583)
                      |+.....    ..+ ..  ...+.+++++.++..+++...+..  ......    .+..+.|++.++   |.|..+ ..+
T Consensus       174 t~~~~~~~~l~~~l~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~G~~r~~~~~l  249 (387)
T 2v1u_A          174 TNSLGFVENLEPRVKSSLGEVELVFPPYTAPQLRDILETRAEEAFNPGVLD----PDVVPLCAALAAREHGDARRALDLL  249 (387)
T ss_dssp             CSCSTTSSSSCHHHHTTTTSEECCBCCCCHHHHHHHHHHHHHHHBCTTTBC----SSHHHHHHHHHHSSSCCHHHHHHHH
T ss_pred             ECCCchHhhhCHHHHhcCCCeEEeeCCCCHHHHHHHHHHHHHhhccCCCCC----HHHHHHHHHHHHHhccCHHHHHHHH
Confidence            7765221    111 11  247899999999999999987532  111111    234566777777   999433 332


Q ss_pred             hhhhc-----c--CCCHHHHHHHHhhhccccccccCCCcchhhccccCChHHhHHHHhhhc-cCCCCcccChHHHHHHHH
Q 036323          391 GSLLQ-----F--KRTKEEWQSALDSEMWQLEEFEGGLSAPLFLSYNDLPFEIKRCFSYCA-IFPKSSYLKKDELVKLWM  462 (583)
Q Consensus       391 ~~~L~-----~--~~~~~~w~~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~~~k~cf~~ls-ifp~~~~i~~~~Li~~W~  462 (583)
                      .....     .  .-+.+.+..++.....          ..+.-++..||++.+..+..+. ++.....+....+.+...
T Consensus       250 ~~a~~~a~~~~~~~i~~~~v~~a~~~~~~----------~~~~~~~~~l~~~~~~~l~a~~~~~~~~~~~~~~~~~~~~~  319 (387)
T 2v1u_A          250 RVAGEIAERRREERVRREHVYSARAEIER----------DRVSEVVRTLPLHAKLVLLSIMMLEDGGRPASTGEIYERYK  319 (387)
T ss_dssp             HHHHHHHHHTTCSCBCHHHHHHHHHHHHH----------HHHHHHHHSSCHHHHHHHHHHHHHSSSSCCEEHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCCcCHHHHHHHHHHHhh----------chHHHHHHcCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHH
Confidence            22211     1  1256777766654321          1355567889988887776665 443223455554444432


Q ss_pred             H----hccccccCCchHHHHHHHHHHHHhhccccccee
Q 036323          463 A----QGYIVLKGNNEMKVIGLEYFDCLASRSFYQQFV  496 (583)
Q Consensus       463 a----eg~i~~~~~~~~e~~~~~~l~~L~~rsll~~~~  496 (583)
                      .    .| +    .......+..+++.|...|++....
T Consensus       320 ~~~~~~~-~----~~~~~~~~~~~l~~L~~~gli~~~~  352 (387)
T 2v1u_A          320 ELTSTLG-L----EHVTLRRVSGIISELDMLGIVKSRV  352 (387)
T ss_dssp             HHHHHTT-C----CCCCHHHHHHHHHHHHHTTSEEEEE
T ss_pred             HHHHhcC-C----CCCCHHHHHHHHHHHHhCCCeEEEe
Confidence            2    12 1    1112345678999999999998754

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=99.57  E-value=1.6e-13  Score=142.30  Aligned_cols=299  Identities=11%  Similarity=0.033  Sum_probs=185.8

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCcccccc-CceEEEEEeCCCCChHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINN-FEIRVRVCVSDPFDEFNVAK  257 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~-f~~~~wv~~~~~~~~~~~~~  257 (583)
                      +..++||+.++++|..++.... .+..+..+.+.|+|++|+|||||++.+++.  .... -...+|++++...+...++.
T Consensus        16 p~~l~gr~~~~~~l~~~l~~~~-~~~~~~~~~~li~G~~G~GKTtl~~~l~~~--~~~~~~~~~~~i~~~~~~~~~~~~~   92 (389)
T 1fnn_A           16 PKRLPHREQQLQQLDILLGNWL-RNPGHHYPRATLLGRPGTGKTVTLRKLWEL--YKDKTTARFVYINGFIYRNFTAIIG   92 (389)
T ss_dssp             CSCCTTCHHHHHHHHHHHHHHH-HSTTSSCCEEEEECCTTSSHHHHHHHHHHH--HTTSCCCEEEEEETTTCCSHHHHHH
T ss_pred             CCCCCChHHHHHHHHHHHHHHH-cCCCCCCCeEEEECCCCCCHHHHHHHHHHH--HhhhcCeeEEEEeCccCCCHHHHHH
Confidence            4779999999999999886521 001123348999999999999999999874  2222 13467788777777888889


Q ss_pred             HHHHHhhcCccc-cccHHHHHHHHHHHhc--CCceeEEEcCCCcccccchHhhHHhhccCC----CCceEEEecCchHHH
Q 036323          258 ATIEELEGSAID-LHELNSLLRRIGANIA--GQKFFMVLDNLWTDDYRKWEPFRNCLMNGL----RGSKILITTRKETVA  330 (583)
Q Consensus       258 ~il~~l~~~~~~-~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~----~gs~IlvTtR~~~v~  330 (583)
                      .++..++...+. ......+...+...+.  +++.+||||+++..+......+...+....    .+..+|++|+.....
T Consensus        93 ~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~~~iI~~~~~~~~~  172 (389)
T 1fnn_A           93 EIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVL  172 (389)
T ss_dssp             HHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHH
T ss_pred             HHHHHhCccCCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECccccchHHHHHHHHHHHhCCCCCcCCEEEEEEECCchHH
Confidence            988888654321 2234455555555553  568899999997654445555555443211    466788887765433


Q ss_pred             hhhc-------CCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhC---------CCCccchhhhhhhh
Q 036323          331 RMME-------STDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKC---------KGLPLAAKTIGSLL  394 (583)
Q Consensus       331 ~~~~-------~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c---------~GlPLai~~~~~~L  394 (583)
                      ..+.       ....+.+.+++.++..+++...+.......  .-..+....|++.+         +|.|..+..+....
T Consensus       173 ~~l~~~~~~r~~~~~i~~~pl~~~~~~~~l~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~~~G~~r~~~~~l~~a  250 (389)
T 1fnn_A          173 NNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEG--SYSEDILQMIADITGAQTPLDTNRGDARLAIDILYRS  250 (389)
T ss_dssp             HTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHBCTT--SSCHHHHHHHHHHHSBSSTTCTTSCCHHHHHHHHHHH
T ss_pred             HHhCHHhhhcCCCceEEeCCCCHHHHHHHHHHHHHhhcCCC--CCCHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHHHH
Confidence            2221       124799999999999999988753211001  11245667788888         78876554443322


Q ss_pred             c------cC--CCHHHHHHHHhhhccccccccCCCcchhhccccCChHHhHHHHhhhccCC---CCcccChHHHHHHHHH
Q 036323          395 Q------FK--RTKEEWQSALDSEMWQLEEFEGGLSAPLFLSYNDLPFEIKRCFSYCAIFP---KSSYLKKDELVKLWMA  463 (583)
Q Consensus       395 ~------~~--~~~~~w~~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~~~k~cf~~lsifp---~~~~i~~~~Li~~W~a  463 (583)
                      .      ..  -+.+....++....          ...+.-.+..||.+.+.++..++.+.   .+..+....+...+..
T Consensus       251 ~~~a~~~~~~~i~~~~v~~~~~~~~----------~~~~~~~l~~l~~~~~~~L~~l~~~~~~~~~~~~~~~~i~~~~~~  320 (389)
T 1fnn_A          251 AYAAQQNGRKHIAPEDVRKSSKEVL----------FGISEEVLIGLPLHEKLFLLAIVRSLKISHTPYITFGDAEESYKI  320 (389)
T ss_dssp             HHHHHHTTCSSCCHHHHHHHHHHHS----------CCCCHHHHHHSCHHHHHHHHHHHHHHHHHCSSCEEHHHHHHHHHH
T ss_pred             HHHHHHhCCCCcCHHHHHHHHHHHh----------hhhHHHHHHcCCHHHHHHHHHHHHHHhhccCCCccHHHHHHHHHH
Confidence            1      11  13444444433221          12234456778888888888777654   2224566666655533


Q ss_pred             ----hccccccCCchHHHHHHHHHHHHhhcccccceec
Q 036323          464 ----QGYIVLKGNNEMKVIGLEYFDCLASRSFYQQFVK  497 (583)
Q Consensus       464 ----eg~i~~~~~~~~e~~~~~~l~~L~~rsll~~~~~  497 (583)
                          .|..    .. .......++++|..+|+|.....
T Consensus       321 ~~~~~~~~----~~-~~~~~~~~l~~L~~~gli~~~~~  353 (389)
T 1fnn_A          321 VCEEYGER----PR-VHSQLWSYLNDLREKGIVETRQN  353 (389)
T ss_dssp             HHHHTTCC----CC-CHHHHHHHHHHHHHTTSSEEEEC
T ss_pred             HHHHcCCC----CC-CHHHHHHHHHHHHhCCCeEEeee
Confidence                1211    11 12346688999999999987654

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=99.56  E-value=2.3e-13  Score=141.00  Aligned_cols=297  Identities=13%  Similarity=0.033  Sum_probs=181.4

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCcccc----cc--CceEEEEEeCCCC-C
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVI----NN--FEIRVRVCVSDPF-D  251 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~----~~--f~~~~wv~~~~~~-~  251 (583)
                      +..|+||+.+++++..++....   .....+.+.|+|++|+|||+||+.+++.....    ..  ....+|+++.... +
T Consensus        19 p~~l~gr~~~~~~l~~~l~~~~---~~~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~   95 (384)
T 2qby_B           19 FKEIPFREDILRDAAIAIRYFV---KNEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGT   95 (384)
T ss_dssp             CSSCTTCHHHHHHHHHHHHHHH---TTCCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHHHHCSC
T ss_pred             CCCCCChHHHHHHHHHHHHHHH---cCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECccCCCC
Confidence            4789999999999998885421   12345689999999999999999998742111    01  3356788877666 7


Q ss_pred             hHHHHHHHHHHhhcCcc--ccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhh-HHhhccCCCCceEEEecCchH
Q 036323          252 EFNVAKATIEELEGSAI--DLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPF-RNCLMNGLRGSKILITTRKET  328 (583)
Q Consensus       252 ~~~~~~~il~~l~~~~~--~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l-~~~l~~~~~gs~IlvTtR~~~  328 (583)
                      ...++..++..+.+...  .......+...+.+.+..++.+|||||++......+..+ ...+.....+..+|+||+...
T Consensus        96 ~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~iI~~t~~~~  175 (384)
T 2qby_B           96 PQAVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRRGGDIVLYQLLRSDANISVIMISNDIN  175 (384)
T ss_dssp             HHHHHHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSSCEEEEEETTHHHHHSTTSHHHHHHHHTSSSCEEEEEECSSTT
T ss_pred             HHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccCCCEEEEECHHHhccCCCCceeHHHHhcCCcceEEEEEECCCc
Confidence            78888888888843322  122335566777777777666999999965433222222 333333226778888888653


Q ss_pred             H----Hhhh-cC-CCeEEcCCCChHHHHHHHHHHhccC-CCCCCCchHHHHHHHHhhhCC---CCcc-chhhhhhhh--c
Q 036323          329 V----ARMM-ES-TDIVYVQGLSELECWSLFRRFALSG-RTPSECDQLEGIGRGIVRKCK---GLPL-AAKTIGSLL--Q  395 (583)
Q Consensus       329 v----~~~~-~~-~~~~~l~~L~~~ea~~Lf~~~a~~~-~~~~~~~~~~~~~~~I~~~c~---GlPL-ai~~~~~~L--~  395 (583)
                      .    ...+ .. ...+++++++.++..++|...+... ......   .+..+.|++.|+   |.|. ++..+-...  .
T Consensus       176 ~~~~l~~~l~sr~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~---~~~~~~i~~~~~~~~G~~r~a~~~l~~a~~~a  252 (384)
T 2qby_B          176 VRDYMEPRVLSSLGPSVIFKPYDAEQLKFILSKYAEYGLIKGTYD---DEILSYIAAISAKEHGDARKAVNLLFRAAQLA  252 (384)
T ss_dssp             TTTTSCHHHHHTCCCEEEECCCCHHHHHHHHHHHHHHTSCTTSCC---SHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHT
T ss_pred             hHhhhCHHHHhcCCCeEEECCCCHHHHHHHHHHHHHhhcccCCcC---HHHHHHHHHHHHhccCCHHHHHHHHHHHHHHh
Confidence            2    1111 11 2489999999999999999875321 111111   334566777777   8887 433332222  1


Q ss_pred             ---cCCCHHHHHHHHhhhccccccccCCCcchhhccccCChHHhHHHHhhhccCCCCcccChHHHHHHHHHhccccccCC
Q 036323          396 ---FKRTKEEWQSALDSEMWQLEEFEGGLSAPLFLSYNDLPFEIKRCFSYCAIFPKSSYLKKDELVKLWMAQGYIVLKGN  472 (583)
Q Consensus       396 ---~~~~~~~w~~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~~~k~cf~~lsifp~~~~i~~~~Li~~W~aeg~i~~~~~  472 (583)
                         ..-+.+.+..++.....          ..+..++..|+++.+..+..++....+-.+. +.....--..| +.    
T Consensus       253 ~~~~~i~~~~v~~~~~~~~~----------~~~~~~~~~l~~~~~~~l~al~~~~~~~~~~-~~~~~~~~~~g-~~----  316 (384)
T 2qby_B          253 SGGGIIRKEHVDKAIVDYEQ----------ERLIEAVKALPFHYKLALRSLIESEDVMSAH-KMYTDLCNKFK-QK----  316 (384)
T ss_dssp             TSSSCCCHHHHHHHHHHHHH----------HHHHHHHHSSCHHHHHHHHHHHTCCBHHHHH-HHHHHHHHHTT-CC----
T ss_pred             cCCCccCHHHHHHHHHHHhc----------chHHHHHHcCCHHHHHHHHHHHHhcccChHH-HHHHHHHHHcC-CC----
Confidence               12367777777665321          2356677889988888777777611101111 11111111112 11    


Q ss_pred             chHHHHHHHHHHHHhhcccccceec
Q 036323          473 NEMKVIGLEYFDCLASRSFYQQFVK  497 (583)
Q Consensus       473 ~~~e~~~~~~l~~L~~rsll~~~~~  497 (583)
                      .........+++.|..+|++.....
T Consensus       317 ~~~~~~~~~~l~~L~~~gli~~~~~  341 (384)
T 2qby_B          317 PLSYRRFSDIISELDMFGIVKIRII  341 (384)
T ss_dssp             CCCHHHHHHHHHHHHHTTSEEEEEE
T ss_pred             CCCHHHHHHHHHHHHhCCCEEEEec
Confidence            1123456788999999999987654

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=99.49  E-value=3.8e-13  Score=139.21  Aligned_cols=297  Identities=13%  Similarity=0.073  Sum_probs=174.5

Q ss_pred             cCCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCcccccc---CceEEEEEeCCCCChHH
Q 036323          178 DVSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINN---FEIRVRVCVSDPFDEFN  254 (583)
Q Consensus       178 ~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~---f~~~~wv~~~~~~~~~~  254 (583)
                      .+..|+||+.+++.|.+++....   .....+.+.|+|++|+|||||++.+++.  ....   -...+|+++....+...
T Consensus        18 ~p~~~~gr~~e~~~l~~~l~~~~---~~~~~~~vli~G~~G~GKTtl~~~l~~~--~~~~~~~~~~~~~i~~~~~~~~~~   92 (386)
T 2qby_A           18 IPDELPHREDQIRKIASILAPLY---REEKPNNIFIYGLTGTGKTAVVKFVLSK--LHKKFLGKFKHVYINTRQIDTPYR   92 (386)
T ss_dssp             CCSCCTTCHHHHHHHHHSSGGGG---GTCCCCCEEEEECTTSSHHHHHHHHHHH--HHHHTCSSCEEEEEEHHHHCSHHH
T ss_pred             CCCCCCChHHHHHHHHHHHHHHH---cCCCCCeEEEECCCCCCHHHHHHHHHHH--HHHHhcCCceEEEEECCCCCCHHH
Confidence            45789999999999999886421   1234568899999999999999999874  3222   23467777766566677


Q ss_pred             HHHHHHHHhhcCcc-ccccHHHHHHHHHHHhc--CCceeEEEcCCCccc----ccchHhhHHhhcc-CCCCceEEEecCc
Q 036323          255 VAKATIEELEGSAI-DLHELNSLLRRIGANIA--GQKFFMVLDNLWTDD----YRKWEPFRNCLMN-GLRGSKILITTRK  326 (583)
Q Consensus       255 ~~~~il~~l~~~~~-~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~----~~~~~~l~~~l~~-~~~gs~IlvTtR~  326 (583)
                      ++..++..++.... ...+...+...+.+.+.  +++.+||||+++...    ...+..+...+.. ...+..+|+||+.
T Consensus        93 ~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~~~~~I~~~~~  172 (386)
T 2qby_A           93 VLADLLESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITND  172 (386)
T ss_dssp             HHHHHTTTTSCCCCSSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC--EEEEEEESC
T ss_pred             HHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcCCCeEEEEEEECC
Confidence            77777776654322 12234455555555554  458999999996532    2223334333322 2335567777776


Q ss_pred             hHHHhhhc-----C--CCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCC---CCccchhhhhhhh-c
Q 036323          327 ETVARMME-----S--TDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCK---GLPLAAKTIGSLL-Q  395 (583)
Q Consensus       327 ~~v~~~~~-----~--~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~---GlPLai~~~~~~L-~  395 (583)
                      ......+.     .  ...+.+++++.++..+++...+.....  ......++...|++.++   |.|..+..+.... .
T Consensus       173 ~~~~~~~~~~~~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~G~~r~~~~ll~~a~~  250 (386)
T 2qby_A          173 VKFVDLLDPRVKSSLSEEEIIFPPYNAEELEDILTKRAQMAFK--PGVLPDNVIKLCAALAAREHGDARRALDLLRVSGE  250 (386)
T ss_dssp             GGGGGGCTTHHHHTTTTEEEEECCCCHHHHHHHHHHHHHHHBC--SSCSCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             CChHhhhCHHHhccCCCeeEEeCCCCHHHHHHHHHHHHHhhcc--CCCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            54322111     1  247999999999999999986531110  01112445666777777   9998444332221 1


Q ss_pred             -----c--CCCHHHHHHHHhhhccccccccCCCcchhhccccCChHHhHHHHhhhccCCC-C-cccChHHHHHHHH--Hh
Q 036323          396 -----F--KRTKEEWQSALDSEMWQLEEFEGGLSAPLFLSYNDLPFEIKRCFSYCAIFPK-S-SYLKKDELVKLWM--AQ  464 (583)
Q Consensus       396 -----~--~~~~~~w~~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~~~k~cf~~lsifp~-~-~~i~~~~Li~~W~--ae  464 (583)
                           .  .-+.+.+..++.....          ..+.-++..||+..+..+..++.+-+ + ..+....+.+...  ++
T Consensus       251 ~a~~~~~~~i~~~~v~~a~~~~~~----------~~~~~~~~~l~~~~~~il~ai~~~~~~g~~~~~~~~l~~~~~~~~~  320 (386)
T 2qby_A          251 IAERMKDTKVKEEYVYMAKEEIER----------DRVRDIILTLPFHSKLVLMAVVSISSEENVVSTTGAVYETYLNICK  320 (386)
T ss_dssp             HHHHTTCSSCCHHHHHHHHHHHHH----------HHHHHHHHTSCHHHHHHHHHHHHHC-----CEEHHHHHHHHHHHHH
T ss_pred             HHHhcCCCccCHHHHHHHHHHHhh----------chHHHHHHcCCHHHHHHHHHHHHHHhcCCCceeHHHHHHHHHHHHH
Confidence                 1  1255666665554321          23555677888888877776663221 1 1233433333221  11


Q ss_pred             --ccccccCCchHHHHHHHHHHHHhhccccccee
Q 036323          465 --GYIVLKGNNEMKVIGLEYFDCLASRSFYQQFV  496 (583)
Q Consensus       465 --g~i~~~~~~~~e~~~~~~l~~L~~rsll~~~~  496 (583)
                        | +.+    ........+++.|...|++....
T Consensus       321 ~~g-~~~----~~~~~~~~~l~~L~~~gli~~~~  349 (386)
T 2qby_A          321 KLG-VEA----VTQRRVSDIINELDMVGILTAKV  349 (386)
T ss_dssp             HHT-CCC----CCHHHHHHHHHHHHHHTSEEEEE
T ss_pred             hcC-CCC----CCHHHHHHHHHHHHhCCCEEEEe
Confidence              2 111    11234567899999999998653

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=99.42  E-value=1.7e-12  Score=124.94  Aligned_cols=199  Identities=11%  Similarity=0.057  Sum_probs=120.6

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      ...++||+.+++.|..++....      ..+.+.|+|++|+||||||+.+++.......+..      ...... .....
T Consensus        22 ~~~~~g~~~~~~~l~~~l~~~~------~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~------~~~~~~-~~~~~   88 (250)
T 1njg_A           22 FADVVGQEHVLTALANGLSLGR------IHHAYLFSGTRGVGKTSIARLLAKGLNCETGITA------TPCGVC-DNCRE   88 (250)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHTC------CCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCS------SCCSCS-HHHHH
T ss_pred             HHHHhCcHHHHHHHHHHHHcCC------CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCC------CCCccc-HHHHH
Confidence            3469999999999999996543      2358899999999999999999874221111100      000000 00001


Q ss_pred             HHHHhhcC-----ccccccHHHHHHHHHHH----hcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCchHH
Q 036323          259 TIEELEGS-----AIDLHELNSLLRRIGAN----IAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKETV  329 (583)
Q Consensus       259 il~~l~~~-----~~~~~~~~~~~~~l~~~----l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~~v  329 (583)
                      +.......     .......+.+...+...    ..+++.+|||||++..+...++.+...+.....+..+|+||+....
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~t~~~~~  168 (250)
T 1njg_A           89 IEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQK  168 (250)
T ss_dssp             HHTTCCSSEEEEETTCGGGHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGG
T ss_pred             HhccCCcceEEecCcccccHHHHHHHHHHhhhchhcCCceEEEEECcccccHHHHHHHHHHHhcCCCceEEEEEeCChHh
Confidence            10000000     00011112222222211    2356799999999775556677777777665667888888876432


Q ss_pred             -Hhh-hcCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhhhhhh
Q 036323          330 -ARM-MESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLL  394 (583)
Q Consensus       330 -~~~-~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~~~L  394 (583)
                       ... ......+++.+++.++..+++...+.......    ..+....|++.|+|+|..+..+...+
T Consensus       169 ~~~~l~~r~~~i~l~~l~~~e~~~~l~~~~~~~~~~~----~~~~~~~l~~~~~G~~~~~~~~~~~~  231 (250)
T 1njg_A          169 LPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAH----EPRALQLLARAAEGSLRDALSLTDQA  231 (250)
T ss_dssp             SCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHTTCCB----CHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CCHHHHHHhhhccCCCCCHHHHHHHHHHHHHhcCCCC----CHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence             111 12246899999999999999998775432211    14557789999999999988776443

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=99.35  E-value=1.3e-11  Score=116.93  Aligned_cols=186  Identities=14%  Similarity=0.052  Sum_probs=116.9

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccC-ceEEEEEeCCCCChHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNF-EIRVRVCVSDPFDEFNVAK  257 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f-~~~~wv~~~~~~~~~~~~~  257 (583)
                      ...++||+..++.+.+++....       .+.+.|+|++|+|||+||+.+++... ...+ ...+.++.+.......+..
T Consensus        16 ~~~~~g~~~~~~~l~~~l~~~~-------~~~~ll~G~~G~GKT~l~~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~   87 (226)
T 2chg_A           16 LDEVVGQDEVIQRLKGYVERKN-------IPHLLFSGPPGTGKTATAIALARDLF-GENWRDNFIEMNASDERGIDVVRH   87 (226)
T ss_dssp             GGGCCSCHHHHHHHHHHHHTTC-------CCCEEEECSTTSSHHHHHHHHHHHHH-GGGGGGGEEEEETTCTTCHHHHHH
T ss_pred             HHHHcCcHHHHHHHHHHHhCCC-------CCeEEEECCCCCCHHHHHHHHHHHHh-ccccccceEEeccccccChHHHHH
Confidence            3568999999999999996543       23388999999999999999987421 1112 1233344433322222111


Q ss_pred             HHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCchHH-Hhh-hcC
Q 036323          258 ATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKETV-ARM-MES  335 (583)
Q Consensus       258 ~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~~v-~~~-~~~  335 (583)
                       .+..+....              ....+++.+|||||++.......+.+...+.....++.+|+||+.... ... ...
T Consensus        88 -~~~~~~~~~--------------~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~l~~r  152 (226)
T 2chg_A           88 -KIKEFARTA--------------PIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSR  152 (226)
T ss_dssp             -HHHHHHTSC--------------CSTTCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTT
T ss_pred             -HHHHHhccc--------------CCCccCceEEEEeChhhcCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcCHHHHHh
Confidence             111111000              001357889999999765545566676666665667788888876432 111 122


Q ss_pred             CCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhhh
Q 036323          336 TDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIG  391 (583)
Q Consensus       336 ~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~  391 (583)
                      ...+++.+++.++..+++...+.......    ..+....|++.++|+|..+..+.
T Consensus       153 ~~~i~~~~~~~~~~~~~l~~~~~~~~~~~----~~~~~~~l~~~~~g~~r~l~~~l  204 (226)
T 2chg_A          153 CAVFRFKPVPKEAMKKRLLEICEKEGVKI----TEDGLEALIYISGGDFRKAINAL  204 (226)
T ss_dssp             SEEEECCCCCHHHHHHHHHHHHHHHTCCB----CHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CceeecCCCCHHHHHHHHHHHHHHcCCCC----CHHHHHHHHHHcCCCHHHHHHHH
Confidence            45899999999999999998764322111    14556778999999999655443

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=99.22  E-value=8.2e-11  Score=118.76  Aligned_cols=268  Identities=13%  Similarity=0.030  Sum_probs=148.8

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      -..|+|++..++.+..++.....  .......+.|+|++|+|||+||+.+++..  ..   ..++++.+......     
T Consensus        11 ~~~~ig~~~~~~~l~~~l~~~~~--~~~~~~~vll~G~~GtGKT~la~~i~~~~--~~---~~~~~~~~~~~~~~-----   78 (324)
T 1hqc_A           11 LDEYIGQERLKQKLRVYLEAAKA--RKEPLEHLLLFGPPGLGKTTLAHVIAHEL--GV---NLRVTSGPAIEKPG-----   78 (324)
T ss_dssp             TTTCCSCHHHHHHHHHHHHHHHH--HCSCCCCCEEECCTTCCCHHHHHHHHHHH--TC---CEEEECTTTCCSHH-----
T ss_pred             HHHhhCHHHHHHHHHHHHHHHHc--cCCCCCcEEEECCCCCCHHHHHHHHHHHh--CC---CEEEEeccccCChH-----
Confidence            45799999999998888753110  01224568899999999999999998732  11   12334333221111     


Q ss_pred             HHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccCC------------------CCceE
Q 036323          259 TIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGL------------------RGSKI  320 (583)
Q Consensus       259 il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~------------------~gs~I  320 (583)
                                      .+...+... ..++.+|+||++..........+...+....                  ++..+
T Consensus        79 ----------------~l~~~l~~~-~~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~  141 (324)
T 1hqc_A           79 ----------------DLAAILANS-LEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTL  141 (324)
T ss_dssp             ----------------HHHHHHTTT-CCTTCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCCCEE
T ss_pred             ----------------HHHHHHHHh-ccCCCEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCCCCEEE
Confidence                            111111111 1356799999996654434444544443211                  23456


Q ss_pred             EEecCchH-HHhhh-cC-CCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhhhhhhcc-
Q 036323          321 LITTRKET-VARMM-ES-TDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQF-  396 (583)
Q Consensus       321 lvTtR~~~-v~~~~-~~-~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~~~L~~-  396 (583)
                      |.||.... +...+ .. ...+.+.+++.++...++...+.......    ..+....|++.|+|+|..+..+...+.. 
T Consensus       142 i~~t~~~~~~~~~l~~R~~~~i~l~~~~~~e~~~~l~~~~~~~~~~~----~~~~~~~l~~~~~G~~r~l~~~l~~~~~~  217 (324)
T 1hqc_A          142 IGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGVRI----TEEAALEIGRRSRGTMRVAKRLFRRVRDF  217 (324)
T ss_dssp             EEEESCCSSCSCSTTTTCSCEEECCCCCHHHHHHHHHHHHHTTTCCC----CHHHHHHHHHHSCSCHHHHHHHHHHHTTT
T ss_pred             EEeCCCcccCCHHHHhcccEEEecCCCCHHHHHHHHHHHHHhcCCCC----CHHHHHHHHHHccCCHHHHHHHHHHHHHH
Confidence            66665432 21111 11 35789999999999999988764332211    2456778999999999887766544321 


Q ss_pred             -----C--CCHHHHHHHHhhhccccccccCCCcchhhccccCChHHhHHHHhhhc-cCCCC----------cccChHHHH
Q 036323          397 -----K--RTKEEWQSALDSEMWQLEEFEGGLSAPLFLSYNDLPFEIKRCFSYCA-IFPKS----------SYLKKDELV  458 (583)
Q Consensus       397 -----~--~~~~~w~~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~~~k~cf~~ls-ifp~~----------~~i~~~~Li  458 (583)
                           .  -+.+....++...               ...+..|+...+..+..+. .|..+          ..+++.++.
T Consensus       218 a~~~~~~~i~~~~~~~~~~~~---------------~~~~~~l~~~e~~~i~~~~~~~~g~~~~~~~~a~~lgi~~~tl~  282 (324)
T 1hqc_A          218 AQVAGEEVITRERALEALAAL---------------GLDELGLEKRDREILEVLILRFGGGPVGLATLATALSEDPGTLE  282 (324)
T ss_dssp             STTTSCSCCCHHHHHHHHHHH---------------TCCTTCCCHHHHHHHHHHHHHSCSSCCCHHHHHHHTTSCHHHHH
T ss_pred             HHHhcCCCCCHHHHHHHHHHh---------------cccccCCCHHHHHHHHHHHHHhcCCCchHHHHHHHhCCCHHHHH
Confidence                 1  1344444444321               1223445555555554333 33222          113444443


Q ss_pred             H----HHHHhccccc-cCCchHHHHHHHHHH-HHhhcccccc
Q 036323          459 K----LWMAQGYIVL-KGNNEMKVIGLEYFD-CLASRSFYQQ  494 (583)
Q Consensus       459 ~----~W~aeg~i~~-~~~~~~e~~~~~~l~-~L~~rsll~~  494 (583)
                      +    +-+..|++.. ..+....+.|.+||+ ++.+|+||||
T Consensus       283 ~~l~~~~i~~~li~~~~~g~~~~~~~~~~~~~~~~~~~~~~~  324 (324)
T 1hqc_A          283 EVHEPYLIRQGLLKRTPRGRVPTELAYRHLGYPPPVGPLLEP  324 (324)
T ss_dssp             HHTHHHHHHTTSEEEETTEEEECHHHHHHTTCCCCC------
T ss_pred             HHHhHHHHHhcchhcCCccceecHHHHHHHhcCCCCCCCCCC
Confidence            3    2456788865 445566788888887 8888988885

>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=99.17  E-value=1.5e-10  Score=116.53  Aligned_cols=186  Identities=13%  Similarity=0.132  Sum_probs=116.1

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccC-ceEEEEEeCCCCChHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNF-EIRVRVCVSDPFDEFNVAK  257 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f-~~~~wv~~~~~~~~~~~~~  257 (583)
                      ...++|++..++.|.+++....       .+.+.|+|++|+|||++|+.+++... ...+ ...++++.+...... ...
T Consensus        20 ~~~~~g~~~~~~~l~~~l~~~~-------~~~~ll~G~~G~GKt~la~~l~~~l~-~~~~~~~~~~~~~~~~~~~~-~i~   90 (323)
T 1sxj_B           20 LSDIVGNKETIDRLQQIAKDGN-------MPHMIISGMPGIGKTTSVHCLAHELL-GRSYADGVLELNASDDRGID-VVR   90 (323)
T ss_dssp             GGGCCSCTHHHHHHHHHHHSCC-------CCCEEEECSTTSSHHHHHHHHHHHHH-GGGHHHHEEEECTTSCCSHH-HHH
T ss_pred             HHHHHCCHHHHHHHHHHHHcCC-------CCeEEEECcCCCCHHHHHHHHHHHhc-CCcccCCEEEecCccccChH-HHH
Confidence            3569999999999999986533       22388999999999999999987421 1111 123344433322211 112


Q ss_pred             HHHHHhhcCccccccHHHHHHHHHHHh-cCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCchH-HHhh-hc
Q 036323          258 ATIEELEGSAIDLHELNSLLRRIGANI-AGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKET-VARM-ME  334 (583)
Q Consensus       258 ~il~~l~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~~-v~~~-~~  334 (583)
                      .++..+....              ..+ .+++.+|||||++......++.+...+.....++.+|+||+... +... ..
T Consensus        91 ~~~~~~~~~~--------------~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~~~~~~l~~~l~s  156 (323)
T 1sxj_B           91 NQIKHFAQKK--------------LHLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQS  156 (323)
T ss_dssp             THHHHHHHBC--------------CCCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHT
T ss_pred             HHHHHHHhcc--------------ccCCCCCceEEEEECcccCCHHHHHHHHHHHhccCCCceEEEEeCChhhchhHHHh
Confidence            2222111000              011 34688999999976555556667776766556778888876542 2121 12


Q ss_pred             CCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccc-hhhhh
Q 036323          335 STDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLA-AKTIG  391 (583)
Q Consensus       335 ~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLa-i~~~~  391 (583)
                      ....+++.+++.++..+++...+...+...    ..+....|++.|+|.|.. +..+.
T Consensus       157 r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~----~~~~~~~l~~~~~G~~r~a~~~l~  210 (323)
T 1sxj_B          157 QCAILRYSKLSDEDVLKRLLQIIKLEDVKY----TNDGLEAIIFTAEGDMRQAINNLQ  210 (323)
T ss_dssp             TSEEEECCCCCHHHHHHHHHHHHHHHTCCB----CHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             hceEEeecCCCHHHHHHHHHHHHHHcCCCC----CHHHHHHHHHHcCCCHHHHHHHHH
Confidence            345899999999999999988764322111    145567899999999954 44443

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=99.02  E-value=1.2e-09  Score=110.10  Aligned_cols=184  Identities=14%  Similarity=0.072  Sum_probs=114.9

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccC-ceEEEEEeCCCCChHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNF-EIRVRVCVSDPFDEFNVAK  257 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f-~~~~wv~~~~~~~~~~~~~  257 (583)
                      -..++|++..++.|..++....       .+.+.|+|++|+|||++|+.+++... ...+ ...+.++.+...... .. 
T Consensus        24 ~~~~~g~~~~~~~l~~~l~~~~-------~~~~ll~G~~G~GKT~la~~l~~~l~-~~~~~~~~~~~~~~~~~~~~-~~-   93 (327)
T 1iqp_A           24 LDDIVGQEHIVKRLKHYVKTGS-------MPHLLFAGPPGVGKTTAALALARELF-GENWRHNFLELNASDERGIN-VI-   93 (327)
T ss_dssp             TTTCCSCHHHHHHHHHHHHHTC-------CCEEEEESCTTSSHHHHHHHHHHHHH-GGGHHHHEEEEETTCHHHHH-TT-
T ss_pred             HHHhhCCHHHHHHHHHHHHcCC-------CCeEEEECcCCCCHHHHHHHHHHHhc-CCcccCceEEeeccccCchH-HH-
Confidence            3468999999999999986543       33488999999999999999987421 1111 112333322210000 00 


Q ss_pred             HHHHHhhcCccccccHHHHHHHHHH---HhcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCchHH-Hhhh
Q 036323          258 ATIEELEGSAIDLHELNSLLRRIGA---NIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKETV-ARMM  333 (583)
Q Consensus       258 ~il~~l~~~~~~~~~~~~~~~~l~~---~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~~v-~~~~  333 (583)
                                      .........   ...+++.++|+|+++......++.+...+.....++++|+||..... ...+
T Consensus        94 ----------------~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l  157 (327)
T 1iqp_A           94 ----------------REKVKEFARTKPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPI  157 (327)
T ss_dssp             ----------------HHHHHHHHHSCCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHH
T ss_pred             ----------------HHHHHHHHhhCCcCCCCCeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCCccccCHHH
Confidence                            011111111   11256789999999765555666777777665667888888865431 1111


Q ss_pred             -cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhhhh
Q 036323          334 -ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGS  392 (583)
Q Consensus       334 -~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~~  392 (583)
                       .....+.+.+++.++...++...+...+..    -..+....|++.++|.|..+..+..
T Consensus       158 ~sr~~~~~~~~l~~~~~~~~l~~~~~~~~~~----~~~~~~~~l~~~~~g~~r~~~~~l~  213 (327)
T 1iqp_A          158 QSRCAIFRFRPLRDEDIAKRLRYIAENEGLE----LTEEGLQAILYIAEGDMRRAINILQ  213 (327)
T ss_dssp             HHTEEEEECCCCCHHHHHHHHHHHHHTTTCE----ECHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HhhCcEEEecCCCHHHHHHHHHHHHHhcCCC----CCHHHHHHHHHHCCCCHHHHHHHHH
Confidence             123478999999999999998876432211    1245677899999999986654443

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=98.95  E-value=7e-09  Score=106.62  Aligned_cols=195  Identities=12%  Similarity=0.142  Sum_probs=115.2

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKAT  259 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  259 (583)
                      ..++||+..++.|...+....      ..+.+.|+|++|+||||+|+.+++.......+.       ...+........+
T Consensus        16 ~~~vg~~~~~~~L~~~l~~~~------~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~-------~~~~~~~~~~~~~   82 (373)
T 1jr3_A           16 ADVVGQEHVLTALANGLSLGR------IHHAYLFSGTRGVGKTSIARLLAKGLNCETGIT-------ATPCGVCDNCREI   82 (373)
T ss_dssp             TTSCSCHHHHHHHHHHHHHTC------CCSEEEEESCTTSSHHHHHHHHHHHHSCTTCSC-------SSCCSSSHHHHHH
T ss_pred             hhccCcHHHHHHHHHHHHhCC------CCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCC-------CCCCcccHHHHHH
Confidence            469999999999999996543      235788999999999999999876422111110       0000000111111


Q ss_pred             HHHh-------hcC-ccccccHHHHHHHHHHH-hcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCchH-H
Q 036323          260 IEEL-------EGS-AIDLHELNSLLRRIGAN-IAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKET-V  329 (583)
Q Consensus       260 l~~l-------~~~-~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~~-v  329 (583)
                      ....       ... .........+...+... ..+++.+||+||++.-+...++.+...+.....+..+|++|.... +
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l  162 (373)
T 1jr3_A           83 EQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKL  162 (373)
T ss_dssp             HTSCCSSCEEEETTCSCCSSCHHHHHHHTTSCCSSSSSEEEEEECGGGSCHHHHHHHHHHHHSCCSSEEEEEEESCGGGS
T ss_pred             hccCCCceEEecccccCCHHHHHHHHHHHhhccccCCeEEEEEECcchhcHHHHHHHHHHHhcCCCceEEEEEeCChHhC
Confidence            1000       000 00112222332222111 135678999999976555566777777765555667777765432 2


Q ss_pred             Hhh-hcCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhhh
Q 036323          330 ARM-MESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIG  391 (583)
Q Consensus       330 ~~~-~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~  391 (583)
                      ... ......+++.+++.++...++...+...+...    ..+....|++.++|.|..+..+.
T Consensus       163 ~~~l~sr~~~i~~~~l~~~~~~~~l~~~~~~~~~~~----~~~a~~~l~~~~~G~~r~~~~~l  221 (373)
T 1jr3_A          163 PVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAH----EPRALQLLARAAEGSLRDALSLT  221 (373)
T ss_dssp             CHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCCB----CHHHHHHHHHHSSSCHHHHHHHH
T ss_pred             cHHHHhheeEeeCCCCCHHHHHHHHHHHHHHcCCCC----CHHHHHHHHHHCCCCHHHHHHHH
Confidence            221 22356899999999999999987653222111    14556789999999999876654

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=98.87  E-value=1.3e-08  Score=102.13  Aligned_cols=183  Identities=13%  Similarity=0.064  Sum_probs=112.1

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccC-ceEEEEEeCCCCChHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNF-EIRVRVCVSDPFDEFNVAK  257 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f-~~~~wv~~~~~~~~~~~~~  257 (583)
                      -.+++|++..++.|.+++....       .+.+.|+|++|+|||++|+.+++... ...+ ...+.++.+......    
T Consensus        16 ~~~~~g~~~~~~~l~~~l~~~~-------~~~~ll~G~~G~GKt~la~~l~~~l~-~~~~~~~~~~~~~~~~~~~~----   83 (319)
T 2chq_A           16 LDEVVGQDEVIQRLKGYVERKN-------IPHLLFSGPPGTGKTATAIALARDLF-GENWRDNFIEMNASDERGID----   83 (319)
T ss_dssp             GGGSCSCHHHHHHHHTTTTTTC-------CCCEEEESSSSSSHHHHHHHHHHHHH-TTCHHHHCEEEETTSTTCTT----
T ss_pred             HHHHhCCHHHHHHHHHHHhCCC-------CCeEEEECcCCcCHHHHHHHHHHHhc-CCcccCCeEEEeCccccChH----
Confidence            3468999999999998885432       33388999999999999999887311 1111 112333433321111    


Q ss_pred             HHHHHhhcCccccccHHHHHHHHHHH--h-cCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCchH-HHhh-
Q 036323          258 ATIEELEGSAIDLHELNSLLRRIGAN--I-AGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKET-VARM-  332 (583)
Q Consensus       258 ~il~~l~~~~~~~~~~~~~~~~l~~~--l-~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~~-v~~~-  332 (583)
                                    ............  + .+++.++|+|+++.-.....+.+...+.....++.+|+||.... +... 
T Consensus        84 --------------~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l  149 (319)
T 2chq_A           84 --------------VVRHKIKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPI  149 (319)
T ss_dssp             --------------TSSHHHHHHHHSCCSSSCCCEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEESCGGGSCHHH
T ss_pred             --------------HHHHHHHHHHhcCCCCCCCceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcchHH
Confidence                          011111111110  1 25678999999966544455666666655556777887776543 2221 


Q ss_pred             hcCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhhh
Q 036323          333 MESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIG  391 (583)
Q Consensus       333 ~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~  391 (583)
                      ......+++.+++.++...++...+...+..-    ..+....|++.++|.|..+....
T Consensus       150 ~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i----~~~~l~~l~~~~~G~~r~~~~~l  204 (319)
T 2chq_A          150 QSRCAVFRFKPVPKEAMKKRLLEICEKEGVKI----TEDGLEALIYISGGDFRKAINAL  204 (319)
T ss_dssp             HTTCEEEECCCCCHHHHHHHHHHHHHTTCCCB----CHHHHHHHHHTTTTCHHHHHHHH
T ss_pred             HhhCeEEEecCCCHHHHHHHHHHHHHHcCCCC----CHHHHHHHHHHcCCCHHHHHHHH
Confidence            12245899999999999999988764332211    24556778999999988655443

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=98.84  E-value=1.6e-08  Score=100.37  Aligned_cols=174  Identities=7%  Similarity=-0.063  Sum_probs=105.4

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccc---cC--ceEEEEEeCCCCChHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVIN---NF--EIRVRVCVSDPFDEFN  254 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~---~f--~~~~wv~~~~~~~~~~  254 (583)
                      ..+.||++|+++|...|...-   ..+....+.|+|++|+|||++++.+++......   ..  -..+.+++....+...
T Consensus        20 ~~L~~Re~E~~~i~~~L~~~i---~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~   96 (318)
T 3te6_A           20 ELLKSQVEDFTRIFLPIYDSL---MSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDA   96 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH---HTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HH
T ss_pred             cccCCHHHHHHHHHHHHHHHh---cCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCHHH
Confidence            347899999999998886432   234567889999999999999999988532111   11  1356777777778888


Q ss_pred             HHHHHHHHhhcCccccccHHHHHHHHHHHh---cCCceeEEEcCCCcccccchHhhHHhhcc-CCCCc--eEEEecCchH
Q 036323          255 VAKATIEELEGSAIDLHELNSLLRRIGANI---AGQKFFMVLDNLWTDDYRKWEPFRNCLMN-GLRGS--KILITTRKET  328 (583)
Q Consensus       255 ~~~~il~~l~~~~~~~~~~~~~~~~l~~~l---~~k~~LlVlDdv~~~~~~~~~~l~~~l~~-~~~gs--~IlvTtR~~~  328 (583)
                      ++..|++++.+...........+..+.+.+   .+++++++||+++.-.  .-+.+...+.. ...++  .||.++...+
T Consensus        97 ~~~~I~~~L~g~~~~~~~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~--~q~~L~~l~~~~~~~~s~~~vI~i~n~~d  174 (318)
T 3te6_A           97 LYEKIWFAISKENLCGDISLEALNFYITNVPKAKKRKTLILIQNPENLL--SEKILQYFEKWISSKNSKLSIICVGGHNV  174 (318)
T ss_dssp             HHHHHHHHHSCCC--CCCCHHHHHHHHHHSCGGGSCEEEEEEECCSSSC--CTHHHHHHHHHHHCSSCCEEEEEECCSSC
T ss_pred             HHHHHHHHhcCCCCCchHHHHHHHHHHHHhhhccCCceEEEEecHHHhh--cchHHHHHHhcccccCCcEEEEEEecCcc
Confidence            999999999654322111122222222222   4668999999995533  22333333321 11222  2333343321


Q ss_pred             -----HHhhhc-C--CCeEEcCCCChHHHHHHHHHHhc
Q 036323          329 -----VARMME-S--TDIVYVQGLSELECWSLFRRFAL  358 (583)
Q Consensus       329 -----v~~~~~-~--~~~~~l~~L~~~ea~~Lf~~~a~  358 (583)
                           +...+. .  ...+.+.|++.+|-.+++.+.+.
T Consensus       175 ~~~~~L~~~v~SR~~~~~i~F~pYt~~el~~Il~~Rl~  212 (318)
T 3te6_A          175 TIREQINIMPSLKAHFTEIKLNKVDKNELQQMIITRLK  212 (318)
T ss_dssp             CCHHHHHTCHHHHTTEEEEECCCCCHHHHHHHHHHHHH
T ss_pred             cchhhcchhhhccCCceEEEeCCCCHHHHHHHHHHHHH
Confidence                 111111 1  25689999999999999988763

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=98.80  E-value=1.8e-07  Score=94.78  Aligned_cols=179  Identities=12%  Similarity=0.110  Sum_probs=106.6

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      -..++|++..++.+..++....  ........|.|+|++|+|||+||+.+++.  ....|   +.++.....        
T Consensus        28 ~~~iiG~~~~~~~l~~~l~~~~--~~~~~~~~vll~G~~GtGKT~la~~ia~~--~~~~~---~~~~~~~~~--------   92 (338)
T 3pfi_A           28 FDGYIGQESIKKNLNVFIAAAK--KRNECLDHILFSGPAGLGKTTLANIISYE--MSANI---KTTAAPMIE--------   92 (338)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHHH--HTTSCCCCEEEECSTTSSHHHHHHHHHHH--TTCCE---EEEEGGGCC--------
T ss_pred             HHHhCChHHHHHHHHHHHHHHH--hcCCCCCeEEEECcCCCCHHHHHHHHHHH--hCCCe---EEecchhcc--------
Confidence            4579999999999998886431  00123456889999999999999999873  22222   223322111        


Q ss_pred             HHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccCC------------------CCceE
Q 036323          259 TIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGL------------------RGSKI  320 (583)
Q Consensus       259 il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~------------------~gs~I  320 (583)
                                   ........+..  ..+..+|+||++..........+...+....                  ++..+
T Consensus        93 -------------~~~~~~~~~~~--~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  157 (338)
T 3pfi_A           93 -------------KSGDLAAILTN--LSEGDILFIDEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPKFTL  157 (338)
T ss_dssp             -------------SHHHHHHHHHT--CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCC---------CCCCCCCCCCCEE
T ss_pred             -------------chhHHHHHHHh--ccCCCEEEEechhhcCHHHHHHHHHHHHhccchhhcccCccccceecCCCCeEE
Confidence                         11111111211  2456799999996654444445555443321                  12445


Q ss_pred             EEecCchH-HHhhh-cC-CCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhhh
Q 036323          321 LITTRKET-VARMM-ES-TDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIG  391 (583)
Q Consensus       321 lvTtR~~~-v~~~~-~~-~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~  391 (583)
                      |.+|.... +...+ .. ...+++.+++.++...++...+.....    ....+....|++.+.|+|-.+..+.
T Consensus       158 i~atn~~~~l~~~L~~R~~~~i~l~~~~~~e~~~il~~~~~~~~~----~~~~~~~~~l~~~~~G~~r~l~~~l  227 (338)
T 3pfi_A          158 IGATTRAGMLSNPLRDRFGMQFRLEFYKDSELALILQKAALKLNK----TCEEKAALEIAKRSRSTPRIALRLL  227 (338)
T ss_dssp             EEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTC----EECHHHHHHHHHTTTTCHHHHHHHH
T ss_pred             EEeCCCccccCHHHHhhcCEEeeCCCcCHHHHHHHHHHHHHhcCC----CCCHHHHHHHHHHHCcCHHHHHHHH
Confidence            55555422 21111 11 367999999999999999887643221    1124567778899999996555443

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=98.79  E-value=2.6e-08  Score=91.57  Aligned_cols=152  Identities=16%  Similarity=0.134  Sum_probs=82.5

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccc---cc--cCceEEEEEeCCCCChH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDV---IN--NFEIRVRVCVSDPFDEF  253 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~---~~--~f~~~~wv~~~~~~~~~  253 (583)
                      ...++||+++++++.+.+...       ..+.+.|+|++|+|||+||+.+++....   ..  .....+++++..     
T Consensus        21 ~~~~~g~~~~~~~l~~~l~~~-------~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----   88 (195)
T 1jbk_A           21 LDPVIGRDEEIRRTIQVLQRR-------TKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGA-----   88 (195)
T ss_dssp             SCCCCSCHHHHHHHHHHHTSS-------SSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHH-----
T ss_pred             ccccccchHHHHHHHHHHhcC-------CCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEEeeHHH-----
Confidence            356899999999999998543       2456789999999999999998874211   00  112233333211     


Q ss_pred             HHHHHHHHHhhcCccccccHHHHHHHHHHHh--cCCceeEEEcCCCccc-------ccc-hHhhHHhhccCCCCceEEEe
Q 036323          254 NVAKATIEELEGSAIDLHELNSLLRRIGANI--AGQKFFMVLDNLWTDD-------YRK-WEPFRNCLMNGLRGSKILIT  323 (583)
Q Consensus       254 ~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l--~~k~~LlVlDdv~~~~-------~~~-~~~l~~~l~~~~~gs~IlvT  323 (583)
                       +        ................+.+.+  .+++.+|||||++...       ... ...+...+ .. .+..+|+|
T Consensus        89 -~--------~~~~~~~~~~~~~~~~~~~~~~~~~~~~vl~iDe~~~l~~~~~~~~~~~~~~~l~~~~-~~-~~~~~i~~  157 (195)
T 1jbk_A           89 -L--------VAGAKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPAL-AR-GELHCVGA  157 (195)
T ss_dssp             -H--------HTTTCSHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHH-HT-TSCCEEEE
T ss_pred             -H--------hccCCccccHHHHHHHHHHHHhhcCCCeEEEEeCHHHHhccCcccchHHHHHHHHHhh-cc-CCeEEEEe
Confidence             0        000001111111112222211  3567899999996532       112 22333333 22 24556776


Q ss_pred             cCchHHHh------h-hcCCCeEEcCCCChHHHHHHH
Q 036323          324 TRKETVAR------M-MESTDIVYVQGLSELECWSLF  353 (583)
Q Consensus       324 tR~~~v~~------~-~~~~~~~~l~~L~~~ea~~Lf  353 (583)
                      |.......      . ......+.+.+++.++..+++
T Consensus       158 ~~~~~~~~~~~~~~~l~~r~~~i~~~~p~~~~~~~il  194 (195)
T 1jbk_A          158 TTLDEYRQYIEKDAALERRFQKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             ECHHHHHHHTTTCHHHHTTEEEEECCCCCHHHHHTTC
T ss_pred             CCHHHHHHHHhcCHHHHHHhceeecCCCCHHHHHHHh
Confidence            66544221      1 122336888999888876543

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=98.74  E-value=2.2e-08  Score=95.87  Aligned_cols=175  Identities=13%  Similarity=0.023  Sum_probs=100.7

Q ss_pred             CCceeech---hHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHH
Q 036323          179 VSEVRGRD---EEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNV  255 (583)
Q Consensus       179 ~~~~vGR~---~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~  255 (583)
                      -..|+|++   ..++.+..++...       ..+.+.|+|++|+|||+||+.+++.  .......+.|+++......   
T Consensus        27 ~~~~~~~~~~~~~~~~l~~~~~~~-------~~~~~ll~G~~G~GKT~la~~l~~~--~~~~~~~~~~~~~~~~~~~---   94 (242)
T 3bos_A           27 FTSYYPAAGNDELIGALKSAASGD-------GVQAIYLWGPVKSGRTHLIHAACAR--ANELERRSFYIPLGIHASI---   94 (242)
T ss_dssp             TTTSCC--CCHHHHHHHHHHHHTC-------SCSEEEEECSTTSSHHHHHHHHHHH--HHHTTCCEEEEEGGGGGGS---
T ss_pred             hhhccCCCCCHHHHHHHHHHHhCC-------CCCeEEEECCCCCCHHHHHHHHHHH--HHHcCCeEEEEEHHHHHHH---
Confidence            34677633   5556666665432       3567889999999999999999874  2222234566665431100   


Q ss_pred             HHHHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccc--hHhhHHhhcc-CCCCc-eEEEecCchH---
Q 036323          256 AKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRK--WEPFRNCLMN-GLRGS-KILITTRKET---  328 (583)
Q Consensus       256 ~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~--~~~l~~~l~~-~~~gs-~IlvTtR~~~---  328 (583)
                             +    ..      .   + +.+ .++.+|||||++......  .+.+...+.. ...+. ++|+||+...   
T Consensus        95 -------~----~~------~---~-~~~-~~~~vliiDe~~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~~~~~~~~~~  152 (242)
T 3bos_A           95 -------S----TA------L---L-EGL-EQFDLICIDDVDAVAGHPLWEEAIFDLYNRVAEQKRGSLIVSASASPMEA  152 (242)
T ss_dssp             -------C----GG------G---G-TTG-GGSSEEEEETGGGGTTCHHHHHHHHHHHHHHHHHCSCEEEEEESSCTTTT
T ss_pred             -------H----HH------H---H-Hhc-cCCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCCeEEEEcCCCHHHH
Confidence                   0    00      0   0 011 456799999996543322  3334443321 11232 3777766321   


Q ss_pred             ------HHhhhcCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhhh
Q 036323          329 ------VARMMESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIG  391 (583)
Q Consensus       329 ------v~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~  391 (583)
                            +...+.....+++.+++.++..+++...+......-    ..+....|++.++|.+-.+..+.
T Consensus       153 ~~~~~~l~~r~~~~~~i~l~~~~~~~~~~~l~~~~~~~~~~~----~~~~~~~l~~~~~g~~r~l~~~l  217 (242)
T 3bos_A          153 GFVLPDLVSRMHWGLTYQLQPMMDDEKLAALQRRAAMRGLQL----PEDVGRFLLNRMARDLRTLFDVL  217 (242)
T ss_dssp             TCCCHHHHHHHHHSEEEECCCCCGGGHHHHHHHHHHHTTCCC----CHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             HHhhhhhhhHhhcCceEEeCCCCHHHHHHHHHHHHHHcCCCC----CHHHHHHHHHHccCCHHHHHHHH
Confidence                  111122236899999999999999988764322111    24566788999999887665443

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.69  E-value=1.3e-07  Score=96.31  Aligned_cols=195  Identities=11%  Similarity=0.071  Sum_probs=112.7

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCc-eEEEEEeCCCCChHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFE-IRVRVCVSDPFDEFNVAK  257 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~-~~~wv~~~~~~~~~~~~~  257 (583)
                      -..++|++..++.|..++....       ...+.|+|++|+||||+|+.+++.......+. ..+.++.+...... .+.
T Consensus        36 ~~~i~g~~~~~~~l~~~l~~~~-------~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~-~~~  107 (353)
T 1sxj_D           36 LDEVTAQDHAVTVLKKTLKSAN-------LPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGIS-IVR  107 (353)
T ss_dssp             TTTCCSCCTTHHHHHHHTTCTT-------CCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHH-HHT
T ss_pred             HHHhhCCHHHHHHHHHHHhcCC-------CCEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEccccccchH-HHH
Confidence            3568999999999999985432       22388999999999999999987421111111 12333333322222 222


Q ss_pred             HHHHHhhcC-ccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCchH-HHhhh-c
Q 036323          258 ATIEELEGS-AIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKET-VARMM-E  334 (583)
Q Consensus       258 ~il~~l~~~-~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~~-v~~~~-~  334 (583)
                      +.+...... .......     .....-.+++-+|++|++..........+...+.......++|++|.... +...+ .
T Consensus       108 ~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~l~s  182 (353)
T 1sxj_D          108 EKVKNFARLTVSKPSKH-----DLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLAS  182 (353)
T ss_dssp             THHHHHHHSCCCCCCTT-----HHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHH
T ss_pred             HHHHHHhhhcccccchh-----hcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcCCCceEEEEeCchhhCcchhhc
Confidence            222221111 0000000     00011123456999999965544455666666655555666777665432 21111 1


Q ss_pred             CCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhh
Q 036323          335 STDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTI  390 (583)
Q Consensus       335 ~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~  390 (583)
                      ....+.+.+++.++....+...+......-    ..+....|++.++|.|..+..+
T Consensus       183 R~~~i~~~~~~~~~~~~~l~~~~~~~~~~i----~~~~l~~l~~~~~G~~r~~~~~  234 (353)
T 1sxj_D          183 QCSKFRFKALDASNAIDRLRFISEQENVKC----DDGVLERILDISAGDLRRGITL  234 (353)
T ss_dssp             HSEEEECCCCCHHHHHHHHHHHHHTTTCCC----CHHHHHHHHHHTSSCHHHHHHH
T ss_pred             cCceEEeCCCCHHHHHHHHHHHHHHhCCCC----CHHHHHHHHHHcCCCHHHHHHH
Confidence            235789999999999999988764322211    1456788999999998865443

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=98.58  E-value=2.6e-07  Score=94.72  Aligned_cols=199  Identities=13%  Similarity=0.085  Sum_probs=106.6

Q ss_pred             CCceeechhHHHH---HHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEe----CCCCC
Q 036323          179 VSEVRGRDEEMRS---IKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCV----SDPFD  251 (583)
Q Consensus       179 ~~~~vGR~~e~~~---l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~----~~~~~  251 (583)
                      ...|+|++..++.   +.+.+....     ...+.+.|+|++|+|||+||+.+++...  .... .+.+..    +....
T Consensus        43 ~~~ivG~~~~~~~l~~l~~~~~~~~-----~~~~~vLl~GppGtGKT~la~~la~~l~--~~~~-~~~~~~~~~~~~~~~  114 (368)
T 3uk6_A           43 SQGMVGQLAARRAAGVVLEMIREGK-----IAGRAVLIAGQPGTGKTAIAMGMAQALG--PDTP-FTAIAGSEIFSLEMS  114 (368)
T ss_dssp             ETTEESCHHHHHHHHHHHHHHHTTC-----CTTCEEEEEESTTSSHHHHHHHHHHHHC--SSCC-EEEEEGGGGSCSSSC
T ss_pred             hhhccChHHHHHHHHHHHHHHHcCC-----CCCCEEEEECCCCCCHHHHHHHHHHHhc--ccCC-cccccchhhhhcccc
Confidence            4579999988766   455554332     2246889999999999999999987432  1111 112221    12223


Q ss_pred             hHHHHHHHHHHhhcC---------------------cc-------c-----cccHHHHHHHHHHHh--cCC----ceeEE
Q 036323          252 EFNVAKATIEELEGS---------------------AI-------D-----LHELNSLLRRIGANI--AGQ----KFFMV  292 (583)
Q Consensus       252 ~~~~~~~il~~l~~~---------------------~~-------~-----~~~~~~~~~~l~~~l--~~k----~~LlV  292 (583)
                      ....+.+.+......                     ..       .     ...............  .++    +.+|+
T Consensus       115 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ld~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~g~~~~~~~vl~  194 (368)
T 3uk6_A          115 KTEALTQAFRRSIGVRIKAGAVHTVSLHEIDVINSRTQGFLALFSGDTGEIKSEVREQINAKVAEWREEGKAEIIPGVLF  194 (368)
T ss_dssp             HHHHHHHHHHHSBEECC------CEEHHHHHHHTC----CCSCC-------CHHHHHHHHHHHHHHHHHTC---CBCEEE
T ss_pred             hhHHHHHHHHHHHHHHhhhhccccccHhhhhhhhcccccchhhccCcccccHHHHHHHHHHHHHHhhhhccccccCceEE
Confidence            333443333321110                     00       0     111112222111111  233    45999


Q ss_pred             EcCCCcccccchHhhHHhhccCCCCceEEEecC-----------c--hHHHh-hhcCCCeEEcCCCChHHHHHHHHHHhc
Q 036323          293 LDNLWTDDYRKWEPFRNCLMNGLRGSKILITTR-----------K--ETVAR-MMESTDIVYVQGLSELECWSLFRRFAL  358 (583)
Q Consensus       293 lDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR-----------~--~~v~~-~~~~~~~~~l~~L~~~ea~~Lf~~~a~  358 (583)
                      ||++...+......+...+....... ++++|.           +  ..+.. .......+.+.+++.++..+++...+.
T Consensus       195 IDEi~~l~~~~~~~L~~~le~~~~~~-~ii~t~~~~~~i~~t~~~~~~~l~~~l~sR~~~i~~~~~~~~e~~~il~~~~~  273 (368)
T 3uk6_A          195 IDEVHMLDIESFSFLNRALESDMAPV-LIMATNRGITRIRGTSYQSPHGIPIDLLDRLLIVSTTPYSEKDTKQILRIRCE  273 (368)
T ss_dssp             EESGGGSBHHHHHHHHHHTTCTTCCE-EEEEESCSEEECBTSSCEEETTCCHHHHTTEEEEEECCCCHHHHHHHHHHHHH
T ss_pred             EhhccccChHHHHHHHHHhhCcCCCe-eeeecccceeeeeccCCCCcccCCHHHHhhccEEEecCCCHHHHHHHHHHHHH
Confidence            99997665555566666554433333 433332           1  11111 112234589999999999999998764


Q ss_pred             cCCCCCCCchHHHHHHHHhhhCC-CCccchhhh
Q 036323          359 SGRTPSECDQLEGIGRGIVRKCK-GLPLAAKTI  390 (583)
Q Consensus       359 ~~~~~~~~~~~~~~~~~I~~~c~-GlPLai~~~  390 (583)
                      .....    -..+....|++.+. |.|..+..+
T Consensus       274 ~~~~~----~~~~~l~~l~~~~~~G~~r~~~~l  302 (368)
T 3uk6_A          274 EEDVE----MSEDAYTVLTRIGLETSLRYAIQL  302 (368)
T ss_dssp             HTTCC----BCHHHHHHHHHHHHHSCHHHHHHH
T ss_pred             HcCCC----CCHHHHHHHHHHhcCCCHHHHHHH
Confidence            32221    12456677888887 777655443

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=98.58  E-value=4.3e-07  Score=95.18  Aligned_cols=182  Identities=13%  Similarity=0.030  Sum_probs=105.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccC--ceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNF--EIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIA  285 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f--~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~  285 (583)
                      ...+.|+|++|+||||||+.+++.  ....+  ..+++++..      .+...+...+....     .    ..+...+.
T Consensus       130 ~~~lll~Gp~G~GKTtLa~aia~~--l~~~~~~~~v~~v~~~------~~~~~~~~~~~~~~-----~----~~~~~~~~  192 (440)
T 2z4s_A          130 YNPLFIYGGVGLGKTHLLQSIGNY--VVQNEPDLRVMYITSE------KFLNDLVDSMKEGK-----L----NEFREKYR  192 (440)
T ss_dssp             SCCEEEECSSSSSHHHHHHHHHHH--HHHHCCSSCEEEEEHH------HHHHHHHHHHHTTC-----H----HHHHHHHT
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH--HHHhCCCCeEEEeeHH------HHHHHHHHHHHccc-----H----HHHHHHhc
Confidence            667899999999999999999873  32232  123444432      33444444443221     1    12223333


Q ss_pred             CCceeEEEcCCCcccc--cchHhhHHhhcc-CCCCceEEEecCch---------HHHhhhcCCCeEEcCCCChHHHHHHH
Q 036323          286 GQKFFMVLDNLWTDDY--RKWEPFRNCLMN-GLRGSKILITTRKE---------TVARMMESTDIVYVQGLSELECWSLF  353 (583)
Q Consensus       286 ~k~~LlVlDdv~~~~~--~~~~~l~~~l~~-~~~gs~IlvTtR~~---------~v~~~~~~~~~~~l~~L~~~ea~~Lf  353 (583)
                      .++-+|+|||++....  ...+.+...+.. ...|..||+||.+.         .+...+.....+.+.+++.++-.+++
T Consensus       193 ~~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~~~~~~iIitt~~~~~~l~~l~~~L~sR~~~g~~i~l~~p~~e~r~~iL  272 (440)
T 2z4s_A          193 KKVDILLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEETRKSIA  272 (440)
T ss_dssp             TTCSEEEEECGGGGSSCHHHHHHHHHHHHHHHTTTCEEEEEESSCGGGCSSCCHHHHHHHHSSBCCBCCCCCHHHHHHHH
T ss_pred             CCCCEEEEeCcccccCChHHHHHHHHHHHHHHHCCCeEEEEECCCHHHHHHHHHHHHhhccCCeEEEeCCCCHHHHHHHH
Confidence            3678999999965332  223334444422 23567788888752         22222333467899999999999999


Q ss_pred             HHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhhhhhh------ccC-CCHHHHHHHHhhh
Q 036323          354 RRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLL------QFK-RTKEEWQSALDSE  410 (583)
Q Consensus       354 ~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~~~L------~~~-~~~~~w~~~l~~~  410 (583)
                      .+.+......-.    .++...|++.++|.+-.+.-+...+      ... -+.+.+..++...
T Consensus       273 ~~~~~~~~~~i~----~e~l~~la~~~~gn~R~l~~~L~~~~~~a~~~~~~It~~~~~~~l~~~  332 (440)
T 2z4s_A          273 RKMLEIEHGELP----EEVLNFVAENVDDNLRRLRGAIIKLLVYKETTGKEVDLKEAILLLKDF  332 (440)
T ss_dssp             HHHHHHHTCCCC----TTHHHHHHHHCCSCHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHTSTT
T ss_pred             HHHHHHcCCCCC----HHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence            887642221111    2346678899999887554332221      111 2566666666543

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=98.54  E-value=6.7e-07  Score=93.64  Aligned_cols=180  Identities=14%  Similarity=0.169  Sum_probs=103.6

Q ss_pred             CCceeechhHH---HHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHH
Q 036323          179 VSEVRGRDEEM---RSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNV  255 (583)
Q Consensus       179 ~~~~vGR~~e~---~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~  255 (583)
                      -..++|.+..+   ..|...+....       ...+.|+|++|+||||||+.+++.  ....|     +.++........
T Consensus        25 l~~ivGq~~~~~~~~~L~~~i~~~~-------~~~vLL~GppGtGKTtlAr~ia~~--~~~~f-----~~l~a~~~~~~~   90 (447)
T 3pvs_A           25 LAQYIGQQHLLAAGKPLPRAIEAGH-------LHSMILWGPPGTGKTTLAEVIARY--ANADV-----ERISAVTSGVKE   90 (447)
T ss_dssp             TTTCCSCHHHHSTTSHHHHHHHHTC-------CCEEEEECSTTSSHHHHHHHHHHH--TTCEE-----EEEETTTCCHHH
T ss_pred             HHHhCCcHHHHhchHHHHHHHHcCC-------CcEEEEECCCCCcHHHHHHHHHHH--hCCCe-----EEEEeccCCHHH
Confidence            45689998888   67777775443       467899999999999999999874  22222     222221111111


Q ss_pred             HHHHHHHhhcCccccccHHHHHHHHHH-HhcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCchH--HHh-
Q 036323          256 AKATIEELEGSAIDLHELNSLLRRIGA-NIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKET--VAR-  331 (583)
Q Consensus       256 ~~~il~~l~~~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~~--v~~-  331 (583)
                      .+.+                 ...... ...+++.+|+||+++.-.....+.|...+..+ .-.-|..||.+..  +.. 
T Consensus        91 ir~~-----------------~~~a~~~~~~~~~~iLfIDEI~~l~~~~q~~LL~~le~~-~v~lI~att~n~~~~l~~a  152 (447)
T 3pvs_A           91 IREA-----------------IERARQNRNAGRRTILFVDEVHRFNKSQQDAFLPHIEDG-TITFIGATTENPSFELNSA  152 (447)
T ss_dssp             HHHH-----------------HHHHHHHHHTTCCEEEEEETTTCC------CCHHHHHTT-SCEEEEEESSCGGGSSCHH
T ss_pred             HHHH-----------------HHHHHHhhhcCCCcEEEEeChhhhCHHHHHHHHHHHhcC-ceEEEecCCCCcccccCHH
Confidence            1111                 111111 12467889999999776555666666666542 2222333555542  111 


Q ss_pred             hhcCCCeEEcCCCChHHHHHHHHHHhccCCCC---CCCchHHHHHHHHhhhCCCCccchhhh
Q 036323          332 MMESTDIVYVQGLSELECWSLFRRFALSGRTP---SECDQLEGIGRGIVRKCKGLPLAAKTI  390 (583)
Q Consensus       332 ~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~---~~~~~~~~~~~~I~~~c~GlPLai~~~  390 (583)
                      .......+.+.+++.++...++.+.+......   ....-..+..+.|++.++|.+-.+..+
T Consensus       153 L~sR~~v~~l~~l~~edi~~il~~~l~~~~~~~~~~~~~i~~~al~~L~~~~~Gd~R~lln~  214 (447)
T 3pvs_A          153 LLSRARVYLLKSLSTEDIEQVLTQAMEDKTRGYGGQDIVLPDETRRAIAELVNGDARRALNT  214 (447)
T ss_dssp             HHTTEEEEECCCCCHHHHHHHHHHHHHCTTTSSTTSSEECCHHHHHHHHHHHCSCHHHHHHH
T ss_pred             HhCceeEEeeCCcCHHHHHHHHHHHHHHHhhhhccccCcCCHHHHHHHHHHCCCCHHHHHHH
Confidence            12235588899999999999998876431110   111123456677888899887755543

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=98.50  E-value=8.5e-07  Score=87.34  Aligned_cols=189  Identities=15%  Similarity=0.117  Sum_probs=101.5

Q ss_pred             ccCCceeechhHHHHHHHHhhcCCCC------CCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCC
Q 036323          177 IDVSEVRGRDEEMRSIKSMLLCQGSD------QQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPF  250 (583)
Q Consensus       177 ~~~~~~vGR~~e~~~l~~~L~~~~~~------~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~  250 (583)
                      .....++|.+..+++|.+.+......      .+-...+.+.|+|++|+|||+||+.+++.  ....   .+.+..+.-.
T Consensus        14 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~--~~~~---~~~v~~~~~~   88 (285)
T 3h4m_A           14 VRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATE--TNAT---FIRVVGSELV   88 (285)
T ss_dssp             CCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHH--TTCE---EEEEEGGGGC
T ss_pred             CCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHH--hCCC---EEEEehHHHH
Confidence            34567999999999999887432000      00023456889999999999999999874  2222   2223322111


Q ss_pred             ChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcc-----------cccchHhhHHhh---c--cC
Q 036323          251 DEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTD-----------DYRKWEPFRNCL---M--NG  314 (583)
Q Consensus       251 ~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~-----------~~~~~~~l~~~l---~--~~  314 (583)
                      .              .. .......+...+......++.+|+||+++.-           +......+...+   .  ..
T Consensus        89 ~--------------~~-~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~  153 (285)
T 3h4m_A           89 K--------------KF-IGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDA  153 (285)
T ss_dssp             C--------------CS-TTHHHHHHHHHHHHHHHTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTCS
T ss_pred             H--------------hc-cchHHHHHHHHHHHHHHcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCCCC
Confidence            0              00 0000111222222233456789999999542           111112232222   2  22


Q ss_pred             CCCceEEEecCchHHHh-h-hc--C-CCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCC-Cccchh
Q 036323          315 LRGSKILITTRKETVAR-M-ME--S-TDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKG-LPLAAK  388 (583)
Q Consensus       315 ~~gs~IlvTtR~~~v~~-~-~~--~-~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~G-lPLai~  388 (583)
                      ..+..||.||....... . ..  . ...+.+.+++.++..+++...+..... .....    ...|++.+.| .|-.|.
T Consensus       154 ~~~~~vI~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~-~~~~~----~~~l~~~~~g~~~~~i~  228 (285)
T 3h4m_A          154 RGDVKIIGATNRPDILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKMNL-AEDVN----LEEIAKMTEGCVGAELK  228 (285)
T ss_dssp             SSSEEEEEECSCGGGBCHHHHSTTSEEEEEECCCCCHHHHHHHHHHHHTTSCB-CTTCC----HHHHHHHCTTCCHHHHH
T ss_pred             CCCEEEEEeCCCchhcCHHHcCCCcCCeEEEECCCCHHHHHHHHHHHHhcCCC-CCcCC----HHHHHHHcCCCCHHHHH
Confidence            34567777887543221 1 11  1 346889999999999999887643221 11112    3456777766 444444


Q ss_pred             hh
Q 036323          389 TI  390 (583)
Q Consensus       389 ~~  390 (583)
                      .+
T Consensus       229 ~l  230 (285)
T 3h4m_A          229 AI  230 (285)
T ss_dssp             HH
T ss_pred             HH
Confidence            33

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.46  E-value=1e-06  Score=94.47  Aligned_cols=196  Identities=12%  Similarity=0.140  Sum_probs=107.8

Q ss_pred             CCceeechhHHHHHHHHhhcCC----------CCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCC
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQG----------SDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSD  248 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~----------~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~  248 (583)
                      -.+++|++..+++|.+++....          ...+.+..+.+.|+|++|+|||+||+.+++..    .+ ..+.++.+.
T Consensus        38 ~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l----~~-~~i~in~s~  112 (516)
T 1sxj_A           38 LQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQEL----GY-DILEQNASD  112 (516)
T ss_dssp             GGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHT----TC-EEEEECTTS
T ss_pred             HHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHc----CC-CEEEEeCCC
Confidence            4579999999999999986410          00001235789999999999999999998843    12 233444444


Q ss_pred             CCChHHHHHHHHHHhhcCccccccHHHHHHHHH--HHhcCCceeEEEcCCCcccccc---hHhhHHhhccCCCCceEEEe
Q 036323          249 PFDEFNVAKATIEELEGSAIDLHELNSLLRRIG--ANIAGQKFFMVLDNLWTDDYRK---WEPFRNCLMNGLRGSKILIT  323 (583)
Q Consensus       249 ~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~--~~l~~k~~LlVlDdv~~~~~~~---~~~l~~~l~~~~~gs~IlvT  323 (583)
                      ..... .....+.......    ..........  ....+++.+|+||+++.-....   +..+...+...  +..||++
T Consensus       113 ~~~~~-~~~~~i~~~~~~~----~~~~~~~~~~~~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~l~~~--~~~iIli  185 (516)
T 1sxj_A          113 VRSKT-LLNAGVKNALDNM----SVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKT--STPLILI  185 (516)
T ss_dssp             CCCHH-HHHHTGGGGTTBC----CSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHHC--SSCEEEE
T ss_pred             cchHH-HHHHHHHHHhccc----cHHHHHhhhhhhhhccCCCeEEEEECCCccchhhHHHHHHHHHHHHhc--CCCEEEE
Confidence            33322 2222222111100    0000000000  0123567899999996532221   24444444332  3335554


Q ss_pred             cCchH---HHhhhcCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCcc-chhhh
Q 036323          324 TRKET---VARMMESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPL-AAKTI  390 (583)
Q Consensus       324 tR~~~---v~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPL-ai~~~  390 (583)
                      +.+..   +.........+.+.+++.++..+++...+......-.    .+....|++.++|.+- ++..+
T Consensus       186 ~~~~~~~~l~~l~~r~~~i~f~~~~~~~~~~~L~~i~~~~~~~i~----~~~l~~la~~s~GdiR~~i~~L  252 (516)
T 1sxj_A          186 CNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLD----PNVIDRLIQTTRGDIRQVINLL  252 (516)
T ss_dssp             ESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCC----TTHHHHHHHHTTTCHHHHHHHH
T ss_pred             EcCCCCccchhhHhceEEEEeCCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCcHHHHHHHH
Confidence            44321   2221222457899999999999998877643322222    2346678899999554 45444

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=98.46  E-value=1.4e-06  Score=87.60  Aligned_cols=180  Identities=14%  Similarity=0.098  Sum_probs=104.6

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      -.+++|.+..++.|.+++....      ...++.+.|++|+|||++|+.+++..  .   ...+.++.+.. . ......
T Consensus        25 ~~~ivg~~~~~~~l~~~l~~~~------~~~~~L~~G~~G~GKT~la~~la~~l--~---~~~~~i~~~~~-~-~~~i~~   91 (324)
T 3u61_B           25 IDECILPAFDKETFKSITSKGK------IPHIILHSPSPGTGKTTVAKALCHDV--N---ADMMFVNGSDC-K-IDFVRG   91 (324)
T ss_dssp             TTTSCCCHHHHHHHHHHHHTTC------CCSEEEECSSTTSSHHHHHHHHHHHT--T---EEEEEEETTTC-C-HHHHHT
T ss_pred             HHHHhCcHHHHHHHHHHHHcCC------CCeEEEeeCcCCCCHHHHHHHHHHHh--C---CCEEEEccccc-C-HHHHHH
Confidence            4578999999999999997432      34678888999999999999998742  1   12344443331 1 111222


Q ss_pred             HHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCccc-ccchHhhHHhhccCCCCceEEEecCchH-HHhhh-cC
Q 036323          259 TIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDD-YRKWEPFRNCLMNGLRGSKILITTRKET-VARMM-ES  335 (583)
Q Consensus       259 il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~-~~~~~~l~~~l~~~~~gs~IlvTtR~~~-v~~~~-~~  335 (583)
                      .+.......               ...+++.+|+||+++.-. ....+.+...+.....+..+|+||.... +...+ ..
T Consensus        92 ~~~~~~~~~---------------~~~~~~~vliiDEi~~l~~~~~~~~L~~~le~~~~~~~iI~~~n~~~~l~~~l~sR  156 (324)
T 3u61_B           92 PLTNFASAA---------------SFDGRQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQSR  156 (324)
T ss_dssp             HHHHHHHBC---------------CCSSCEEEEEEESCCCGGGHHHHHHHHHHHHHHGGGCEEEEEESSGGGSCTTHHHH
T ss_pred             HHHHHHhhc---------------ccCCCCeEEEEECCcccCcHHHHHHHHHHHHhCCCCcEEEEEeCCccccCHHHHhh
Confidence            111111000               012467899999997654 4455556655544344567777776543 11111 11


Q ss_pred             CCeEEcCCCChHHHHHH-------HHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhh
Q 036323          336 TDIVYVQGLSELECWSL-------FRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKT  389 (583)
Q Consensus       336 ~~~~~l~~L~~~ea~~L-------f~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~  389 (583)
                      ...+++.+++.++-.++       +...+......-..   .+....|++.++|.+..+..
T Consensus       157 ~~~i~~~~~~~~e~~~il~~~~~~l~~~~~~~~~~~~~---~~~~~~l~~~~~gd~R~a~~  214 (324)
T 3u61_B          157 CRVITFGQPTDEDKIEMMKQMIRRLTEICKHEGIAIAD---MKVVAALVKKNFPDFRKTIG  214 (324)
T ss_dssp             SEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHTCCBSC---HHHHHHHHHHTCSCTTHHHH
T ss_pred             CcEEEeCCCCHHHHHHHHHHHHHHHHHHHHHcCCCCCc---HHHHHHHHHhCCCCHHHHHH
Confidence            45799999998874333       22222211111111   25667788889888775443

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.43  E-value=8.9e-07  Score=90.11  Aligned_cols=197  Identities=11%  Similarity=0.107  Sum_probs=106.7

Q ss_pred             CCceeechhHHHHHHHHh-hcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCc---cccc-cCce-------------
Q 036323          179 VSEVRGRDEEMRSIKSML-LCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDN---DVIN-NFEI-------------  240 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L-~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~---~~~~-~f~~-------------  240 (583)
                      -..++|.+..++.+.+++ ...      .... +.|+|++|+|||||++.+++..   .... .++.             
T Consensus        13 ~~~~vg~~~~~~~l~~~~~~~~------~~~~-~ll~Gp~G~GKTtl~~~la~~l~~~~~g~i~~~~~~~~~~~~~~~~~   85 (354)
T 1sxj_E           13 LNALSHNEELTNFLKSLSDQPR------DLPH-LLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLEL   85 (354)
T ss_dssp             GGGCCSCHHHHHHHHTTTTCTT------CCCC-EEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------
T ss_pred             HHHhcCCHHHHHHHHHHHhhCC------CCCe-EEEECCCCCCHHHHHHHHHHHHcCCCCCeEEecceeeccccccccee
Confidence            356899999999888877 332      2233 8999999999999998876621   1000 0010             


Q ss_pred             -------EEEEEeCCCC-ChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhc
Q 036323          241 -------RVRVCVSDPF-DEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLM  312 (583)
Q Consensus       241 -------~~wv~~~~~~-~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~  312 (583)
                             .+.+..+... ......++++..+.....-    .... .+.. +.+++-++|||++..-+....+.+...+.
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~----~~~~-~ls~-l~~~~~vlilDE~~~L~~~~~~~L~~~le  159 (354)
T 1sxj_E           86 NVVSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQV----DFQD-SKDG-LAHRYKCVIINEANSLTKDAQAALRRTME  159 (354)
T ss_dssp             CCEECSSEEEECCC----CCHHHHHHHHHHHTTTTC------------------CCEEEEEECTTSSCHHHHHHHHHHHH
T ss_pred             eeecccceEEecHhhcCCcchHHHHHHHHHHHHhccc----cccc-cccc-cCCCCeEEEEeCccccCHHHHHHHHHHHH
Confidence                   0111111100 0000122222222111000    0000 0000 23466799999997755555666777665


Q ss_pred             cCCCCceEEEecCch-HHHhhh-cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhh
Q 036323          313 NGLRGSKILITTRKE-TVARMM-ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTI  390 (583)
Q Consensus       313 ~~~~gs~IlvTtR~~-~v~~~~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~  390 (583)
                      ....++.+|++|.+. .+...+ .....+++.+++.++....+...+...+..-..   .+....|++.++|.+..+..+
T Consensus       160 ~~~~~~~~Il~t~~~~~l~~~l~sR~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~---~~~l~~i~~~~~G~~r~a~~~  236 (354)
T 1sxj_E          160 KYSKNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLET---KDILKRIAQASNGNLRVSLLM  236 (354)
T ss_dssp             HSTTTEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCEECC---SHHHHHHHHHHTTCHHHHHHH
T ss_pred             hhcCCCEEEEEeCCHHHHHHHHHhhceEEecCCcCHHHHHHHHHHHHHHcCCCCCc---HHHHHHHHHHcCCCHHHHHHH
Confidence            545567777777653 222222 224689999999999999998876432211110   234567888999988755544


Q ss_pred             h
Q 036323          391 G  391 (583)
Q Consensus       391 ~  391 (583)
                      .
T Consensus       237 l  237 (354)
T 1sxj_E          237 L  237 (354)
T ss_dssp             H
T ss_pred             H
Confidence            3

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=98.42  E-value=3.8e-06  Score=84.73  Aligned_cols=171  Identities=9%  Similarity=0.050  Sum_probs=103.5

Q ss_pred             hhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccc--------------------cCceEEEEE
Q 036323          186 DEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVIN--------------------NFEIRVRVC  245 (583)
Q Consensus       186 ~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~--------------------~f~~~~wv~  245 (583)
                      ++..+.+...+..+      .-.+.+.++|++|+|||++|+.+.+...-..                    |++ ..++.
T Consensus         8 ~~~~~~l~~~i~~~------~~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d-~~~~~   80 (334)
T 1a5t_A            8 RPDFEKLVASYQAG------RGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPD-YYTLA   80 (334)
T ss_dssp             HHHHHHHHHHHHTT------CCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTT-EEEEC
T ss_pred             HHHHHHHHHHHHcC------CcceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCC-EEEEe
Confidence            45566777777543      2355788999999999999988876321100                    122 12222


Q ss_pred             eCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHh-----cCCceeEEEcCCCcccccchHhhHHhhccCCCCceE
Q 036323          246 VSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANI-----AGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKI  320 (583)
Q Consensus       246 ~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~I  320 (583)
                      ...                  .......+.+. .+.+.+     .+++-++|+|+++.-+....+.|...+.....++.+
T Consensus        81 ~~~------------------~~~~~~i~~ir-~l~~~~~~~~~~~~~kvviIdead~l~~~a~naLLk~lEep~~~~~~  141 (334)
T 1a5t_A           81 PEK------------------GKNTLGVDAVR-EVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWF  141 (334)
T ss_dssp             CCT------------------TCSSBCHHHHH-HHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEE
T ss_pred             ccc------------------cCCCCCHHHHH-HHHHHHhhccccCCcEEEEECchhhcCHHHHHHHHHHhcCCCCCeEE
Confidence            110                  00111122222 122222     356779999999765555566677777665556777


Q ss_pred             EEecCchH-HHhhh-cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhhh
Q 036323          321 LITTRKET-VARMM-ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIG  391 (583)
Q Consensus       321 lvTtR~~~-v~~~~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~  391 (583)
                      |++|.+.. +...+ .....+++.+++.++..+.+....     ..+    .+.+..+++.++|.|..+..+.
T Consensus       142 Il~t~~~~~l~~ti~SRc~~~~~~~~~~~~~~~~L~~~~-----~~~----~~~~~~l~~~s~G~~r~a~~~l  205 (334)
T 1a5t_A          142 FLATREPERLLATLRSRCRLHYLAPPPEQYAVTWLSREV-----TMS----QDALLAALRLSAGSPGAALALF  205 (334)
T ss_dssp             EEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHC-----CCC----HHHHHHHHHHTTTCHHHHHHTT
T ss_pred             EEEeCChHhCcHHHhhcceeeeCCCCCHHHHHHHHHHhc-----CCC----HHHHHHHHHHcCCCHHHHHHHh
Confidence            77666542 32222 235689999999999999998875     111    3455779999999998665544

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=98.41  E-value=8.9e-07  Score=80.79  Aligned_cols=46  Identities=28%  Similarity=0.351  Sum_probs=38.2

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...++||+.+++.+.+.+...       ..+.+.|+|++|+|||+||+.+++.
T Consensus        21 ~~~~~g~~~~~~~l~~~l~~~-------~~~~vll~G~~G~GKT~la~~~~~~   66 (187)
T 2p65_A           21 LDPVIGRDTEIRRAIQILSRR-------TKNNPILLGDPGVGKTAIVEGLAIK   66 (187)
T ss_dssp             SCCCCSCHHHHHHHHHHHTSS-------SSCEEEEESCGGGCHHHHHHHHHHH
T ss_pred             cchhhcchHHHHHHHHHHhCC-------CCCceEEECCCCCCHHHHHHHHHHH
Confidence            346899999999999999543       2456689999999999999998774

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=98.41  E-value=5.6e-06  Score=83.14  Aligned_cols=156  Identities=15%  Similarity=0.109  Sum_probs=87.7

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAG  286 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~  286 (583)
                      ....+.|+|++|+||||||+.+++..... .+ .+++++.      ..+...+...+...     .....    ...+ .
T Consensus        36 ~~~~lll~G~~GtGKT~la~~i~~~~~~~-~~-~~~~i~~------~~~~~~~~~~~~~~-----~~~~~----~~~~-~   97 (324)
T 1l8q_A           36 LYNPIFIYGSVGTGKTHLLQAAGNEAKKR-GY-RVIYSSA------DDFAQAMVEHLKKG-----TINEF----RNMY-K   97 (324)
T ss_dssp             SCSSEEEECSSSSSHHHHHHHHHHHHHHT-TC-CEEEEEH------HHHHHHHHHHHHHT-----CHHHH----HHHH-H
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHHHC-CC-EEEEEEH------HHHHHHHHHHHHcC-----cHHHH----HHHh-c
Confidence            35678899999999999999998742111 11 2344443      23333333333211     11111    1222 2


Q ss_pred             CceeEEEcCCCcccc--cchHhhHHhhcc-CCCCceEEEecCch---------HHHhhhcCCCeEEcCCCChHHHHHHHH
Q 036323          287 QKFFMVLDNLWTDDY--RKWEPFRNCLMN-GLRGSKILITTRKE---------TVARMMESTDIVYVQGLSELECWSLFR  354 (583)
Q Consensus       287 k~~LlVlDdv~~~~~--~~~~~l~~~l~~-~~~gs~IlvTtR~~---------~v~~~~~~~~~~~l~~L~~~ea~~Lf~  354 (583)
                      ++.+|+|||+.....  .....+...+.. ...|..||+||...         .+...+.....+++.+ +.++...++.
T Consensus        98 ~~~vL~iDEi~~l~~~~~~~~~l~~~l~~~~~~~~~iii~~~~~~~~l~~l~~~L~sR~~~~~~i~l~~-~~~e~~~il~  176 (324)
T 1l8q_A           98 SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGGILVEIEL-DNKTRFKIIK  176 (324)
T ss_dssp             TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEEEECCC-CHHHHHHHHH
T ss_pred             CCCEEEEcCcccccCChHHHHHHHHHHHHHHHCCCeEEEEecCChHHHHHhhhHhhhcccCceEEEeCC-CHHHHHHHHH
Confidence            367999999965332  122334443321 12355677777532         1222233346789999 9999999998


Q ss_pred             HHhccCCCCCCCchHHHHHHHHhhhCCCCccc
Q 036323          355 RFALSGRTPSECDQLEGIGRGIVRKCKGLPLA  386 (583)
Q Consensus       355 ~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLa  386 (583)
                      ..+......-.    .++...|++.+ |.+-.
T Consensus       177 ~~~~~~~~~l~----~~~l~~l~~~~-g~~r~  203 (324)
T 1l8q_A          177 EKLKEFNLELR----KEVIDYLLENT-KNVRE  203 (324)
T ss_dssp             HHHHHTTCCCC----HHHHHHHHHHC-SSHHH
T ss_pred             HHHHhcCCCCC----HHHHHHHHHhC-CCHHH
Confidence            87643222111    45567788888 76653

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=98.41  E-value=4.3e-06  Score=81.03  Aligned_cols=189  Identities=11%  Similarity=0.064  Sum_probs=97.8

Q ss_pred             CCceeechhHHHHHHHHhhc---CCC--CCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChH
Q 036323          179 VSEVRGRDEEMRSIKSMLLC---QGS--DQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEF  253 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~---~~~--~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  253 (583)
                      -.+++|.+..++.|.+++..   ...  ..+....+.+.|+|++|+|||+||+.+++.  ....   .+.++.+.-.+..
T Consensus         5 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~--~~~~---~~~~~~~~~~~~~   79 (262)
T 2qz4_A            5 FKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATE--AQVP---FLAMAGAEFVEVI   79 (262)
T ss_dssp             TTSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHH--HTCC---EEEEETTTTSSSS
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHH--hCCC---EEEechHHHHhhc
Confidence            45689998888777665432   110  000123456889999999999999999873  2222   2334433321100


Q ss_pred             HHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcc------------cccch---HhhHHhhcc--CCC
Q 036323          254 NVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTD------------DYRKW---EPFRNCLMN--GLR  316 (583)
Q Consensus       254 ~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~------------~~~~~---~~l~~~l~~--~~~  316 (583)
                                     .......+...+.......+.+|+||+++.-            +....   ..+...+..  ...
T Consensus        80 ---------------~~~~~~~~~~~~~~a~~~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~  144 (262)
T 2qz4_A           80 ---------------GGLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTTD  144 (262)
T ss_dssp             ---------------TTHHHHHHHHHHHHHHHTCSEEEEEECC-------------------CHHHHHHHHHHHTCCTTC
T ss_pred             ---------------cChhHHHHHHHHHHHHhcCCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcCCCC
Confidence                           0001111222222333456789999999642            11111   223222222  223


Q ss_pred             CceEEEecCchHHH-hhh-c--C-CCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCcc-chhhh
Q 036323          317 GSKILITTRKETVA-RMM-E--S-TDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPL-AAKTI  390 (583)
Q Consensus       317 gs~IlvTtR~~~v~-~~~-~--~-~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPL-ai~~~  390 (583)
                      +..||.||...... ..+ .  . ...+.+.+.+.++-.+++...+......   .........+++.+.|.+- .|..+
T Consensus       145 ~~~vi~~tn~~~~ld~~l~~~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~---~~~~~~~~~l~~~~~g~~~~~l~~l  221 (262)
T 2qz4_A          145 HVIVLASTNRADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLKLT---QSSTFYSQRLAELTPGFSGADIANI  221 (262)
T ss_dssp             CEEEEEEESCGGGGGSGGGSTTSCCEEEECCSCCHHHHHHHHHHHHHHTTCC---BTHHHHHHHHHHTCTTCCHHHHHHH
T ss_pred             CEEEEecCCChhhcCHHHhcCCcCCeEEEeCCcCHHHHHHHHHHHHHhCCCC---cchhhHHHHHHHHCCCCCHHHHHHH
Confidence            45666666554321 111 1  1 3577899999999999998876432211   1112234668888887654 44333

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=98.36  E-value=1.7e-06  Score=86.13  Aligned_cols=162  Identities=14%  Similarity=0.080  Sum_probs=88.4

Q ss_pred             ceeechhHHHHHHHHhhcCC--------CCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCCh
Q 036323          181 EVRGRDEEMRSIKSMLLCQG--------SDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDE  252 (583)
Q Consensus       181 ~~vGR~~e~~~l~~~L~~~~--------~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  252 (583)
                      .++|.+..++.|.+.+....        +-........+.|+|++|+|||+||+.+++............++.++..   
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~---  108 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRD---  108 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECGG---
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHH---
Confidence            46888888888776653210        0001234557889999999999999988763211111111122333210   


Q ss_pred             HHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcc---------cccchHhhHHhhccCCCCceEEEe
Q 036323          253 FNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTD---------DYRKWEPFRNCLMNGLRGSKILIT  323 (583)
Q Consensus       253 ~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~---------~~~~~~~l~~~l~~~~~gs~IlvT  323 (583)
                       .        +..... ......+...+...   +..+|+||+++.-         .......|...+.....+..+|+|
T Consensus       109 -~--------l~~~~~-g~~~~~~~~~~~~~---~~~vl~iDEid~l~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~~i~~  175 (309)
T 3syl_A          109 -D--------LVGQYI-GHTAPKTKEVLKRA---MGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENNRDDLVVILA  175 (309)
T ss_dssp             -G--------TCCSST-TCHHHHHHHHHHHH---TTSEEEEETGGGSCCCC---CCTHHHHHHHHHHHHHCTTTCEEEEE
T ss_pred             -H--------hhhhcc-cccHHHHHHHHHhc---CCCEEEEEChhhhccCCCcccccHHHHHHHHHHHhcCCCCEEEEEe
Confidence             0        000000 00011112222221   3569999999632         223345566666655566778888


Q ss_pred             cCchHHHhh------h--cCCCeEEcCCCChHHHHHHHHHHhc
Q 036323          324 TRKETVARM------M--ESTDIVYVQGLSELECWSLFRRFAL  358 (583)
Q Consensus       324 tR~~~v~~~------~--~~~~~~~l~~L~~~ea~~Lf~~~a~  358 (583)
                      |........      +  .....+.+.+++.++-..++...+.
T Consensus       176 ~~~~~~~~~~~~~~~l~~R~~~~i~~~~~~~~~~~~il~~~l~  218 (309)
T 3syl_A          176 GYADRMENFFQSNPGFRSRIAHHIEFPDYSDEELFEIAGHMLD  218 (309)
T ss_dssp             ECHHHHHHHHHHSTTHHHHEEEEEEECCCCHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHhhCHHHHHhCCeEEEcCCcCHHHHHHHHHHHHH
Confidence            765322110      1  1136789999999999999988764

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=98.32  E-value=9.3e-06  Score=79.29  Aligned_cols=172  Identities=14%  Similarity=0.161  Sum_probs=90.7

Q ss_pred             CceeechhHHHHHHH-------HhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCCh
Q 036323          180 SEVRGRDEEMRSIKS-------MLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDE  252 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~-------~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  252 (583)
                      ..++|....++++..       .+...    .....+.+.|+|++|+|||+||+.+++.  ..  +.. +.++.+..   
T Consensus        33 ~~~i~~~~~~~~i~~~~~~l~~~l~~~----~~~~~~~vLl~G~~GtGKT~la~~ia~~--~~--~~~-~~i~~~~~---  100 (272)
T 1d2n_A           33 NGIIKWGDPVTRVLDDGELLVQQTKNS----DRTPLVSVLLEGPPHSGKTALAAKIAEE--SN--FPF-IKICSPDK---  100 (272)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHC----SSCSEEEEEEECSTTSSHHHHHHHHHHH--HT--CSE-EEEECGGG---
T ss_pred             cCCCCccHHHHHHHHHHHHHHHHHhcc----CCCCCeEEEEECCCCCcHHHHHHHHHHH--hC--CCE-EEEeCHHH---
Confidence            356787777666655       33221    1245778999999999999999999884  21  121 22222211   


Q ss_pred             HHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcc------cccc----hHhhHHhhcc---CCCCce
Q 036323          253 FNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTD------DYRK----WEPFRNCLMN---GLRGSK  319 (583)
Q Consensus       253 ~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~------~~~~----~~~l~~~l~~---~~~gs~  319 (583)
                                +.+. ........+...+......++.+|+||+++.-      ....    ...+...+..   ......
T Consensus       101 ----------~~g~-~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~  169 (272)
T 1d2n_A          101 ----------MIGF-SETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLL  169 (272)
T ss_dssp             ----------CTTC-CHHHHHHHHHHHHHHHHTSSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEE
T ss_pred             ----------hcCC-chHHHHHHHHHHHHHHHhcCCcEEEEEChhhhhccCCCChhHHHHHHHHHHHHhcCccCCCCCEE
Confidence                      0000 00001112222233333467889999998432      1111    1223232221   222344


Q ss_pred             EEEecCchHHHhh---hcC-CCeEEcCCCCh-HHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCC
Q 036323          320 ILITTRKETVARM---MES-TDIVYVQGLSE-LECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGL  383 (583)
Q Consensus       320 IlvTtR~~~v~~~---~~~-~~~~~l~~L~~-~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~Gl  383 (583)
                      ||.||........   ... ...+++++++. ++...++....   .  ..    .+....|++.+.|.
T Consensus       170 ii~ttn~~~~l~~~~l~~rf~~~i~~p~l~~r~~i~~i~~~~~---~--~~----~~~~~~l~~~~~g~  229 (272)
T 1d2n_A          170 IIGTTSRKDVLQEMEMLNAFSTTIHVPNIATGEQLLEALELLG---N--FK----DKERTTIAQQVKGK  229 (272)
T ss_dssp             EEEEESCHHHHHHTTCTTTSSEEEECCCEEEHHHHHHHHHHHT---C--SC----HHHHHHHHHHHTTS
T ss_pred             EEEecCChhhcchhhhhcccceEEcCCCccHHHHHHHHHHhcC---C--CC----HHHHHHHHHHhcCC
Confidence            6677776644332   112 45688999988 66666665531   1  11    34466788888884

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=98.30  E-value=8.7e-07  Score=77.79  Aligned_cols=114  Identities=18%  Similarity=0.071  Sum_probs=69.3

Q ss_pred             ceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHH
Q 036323          181 EVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATI  260 (583)
Q Consensus       181 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il  260 (583)
                      .++|+...+.++.+.+..-.     ....-|.|+|.+|+|||++|+.+++..... ... .+ +++....+.        
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a-----~~~~~vll~G~~GtGKt~lA~~i~~~~~~~-~~~-~v-~~~~~~~~~--------   65 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLS-----ETDIAVWLYGAPGTGRMTGARYLHQFGRNA-QGE-FV-YRELTPDNA--------   65 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHT-----TCCSCEEEESSTTSSHHHHHHHHHHSSTTT-TSC-CE-EEECCTTTS--------
T ss_pred             CceeCCHHHHHHHHHHHHHh-----CCCCCEEEECCCCCCHHHHHHHHHHhCCcc-CCC-EE-EECCCCCcc--------
Confidence            57899999999998875432     122347899999999999999998742211 112 23 555543221        


Q ss_pred             HHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCc
Q 036323          261 EELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRK  326 (583)
Q Consensus       261 ~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~  326 (583)
                                ......   +..   ...-+|+||+++.-.......+...+.......++|.||..
T Consensus        66 ----------~~~~~~---~~~---a~~g~l~ldei~~l~~~~q~~Ll~~l~~~~~~~~~I~~t~~  115 (145)
T 3n70_A           66 ----------PQLNDF---IAL---AQGGTLVLSHPEHLTREQQYHLVQLQSQEHRPFRLIGIGDT  115 (145)
T ss_dssp             ----------SCHHHH---HHH---HTTSCEEEECGGGSCHHHHHHHHHHHHSSSCSSCEEEEESS
T ss_pred             ----------hhhhcH---HHH---cCCcEEEEcChHHCCHHHHHHHHHHHhhcCCCEEEEEECCc
Confidence                      011111   111   13457999999765555556666666555556677777764

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.29  E-value=5.6e-06  Score=83.71  Aligned_cols=181  Identities=10%  Similarity=0.097  Sum_probs=103.2

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCc-eEEEEEeCCCCChHHHHHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFE-IRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~-~~~wv~~~~~~~~~~~~~~  258 (583)
                      ..++|.+..++.|...+....       .+.+.++|++|+||||+|+.+++... ...+. .+.-++.+....... .+.
T Consensus        25 ~~~~g~~~~~~~L~~~i~~g~-------~~~~ll~Gp~G~GKTtla~~la~~l~-~~~~~~~~~~~~~~~~~~~~~-ir~   95 (340)
T 1sxj_C           25 DEVYGQNEVITTVRKFVDEGK-------LPHLLFYGPPGTGKTSTIVALAREIY-GKNYSNMVLELNASDDRGIDV-VRN   95 (340)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTC-------CCCEEEECSSSSSHHHHHHHHHHHHH-TTSHHHHEEEECTTSCCSHHH-HHT
T ss_pred             HHhcCcHHHHHHHHHHHhcCC-------CceEEEECCCCCCHHHHHHHHHHHHc-CCCccceEEEEcCcccccHHH-HHH
Confidence            457899988999888886432       22388999999999999999887311 11111 112222222111111 111


Q ss_pred             HHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCchH-HHhhh-cCC
Q 036323          259 TIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKET-VARMM-EST  336 (583)
Q Consensus       259 il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~~-v~~~~-~~~  336 (583)
                      ++..+....              ..+.+.+-++|+|+++.-.....+.|...+......+.+|++|.... +...+ ...
T Consensus        96 ~i~~~~~~~--------------~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~n~~~~i~~~i~sR~  161 (340)
T 1sxj_C           96 QIKDFASTR--------------QIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQC  161 (340)
T ss_dssp             HHHHHHHBC--------------CSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTS
T ss_pred             HHHHHHhhc--------------ccCCCCceEEEEeCCCCCCHHHHHHHHHHHhcCCCCeEEEEEecCccccchhHHhhc
Confidence            111111000              00123467899999965444455666666655455666777665432 21111 224


Q ss_pred             CeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccch
Q 036323          337 DIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAA  387 (583)
Q Consensus       337 ~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai  387 (583)
                      ..+.+.+++.++..+.+...+-.....-    ..+..+.|++.++|.+--+
T Consensus       162 ~~~~~~~l~~~~~~~~l~~~~~~~~~~i----~~~~~~~i~~~s~G~~r~~  208 (340)
T 1sxj_C          162 TRFRFQPLPQEAIERRIANVLVHEKLKL----SPNAEKALIELSNGDMRRV  208 (340)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHHTTTCCB----CHHHHHHHHHHHTTCHHHH
T ss_pred             eeEeccCCCHHHHHHHHHHHHHHcCCCC----CHHHHHHHHHHcCCCHHHH
Confidence            5788999999999888887653222111    1445677888889987643

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=98.28  E-value=1.1e-05  Score=81.00  Aligned_cols=190  Identities=13%  Similarity=0.083  Sum_probs=103.6

Q ss_pred             ccCCceeechhHHHHHHHHhhcCC-----CCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCC
Q 036323          177 IDVSEVRGRDEEMRSIKSMLLCQG-----SDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFD  251 (583)
Q Consensus       177 ~~~~~~vGR~~e~~~l~~~L~~~~-----~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  251 (583)
                      ..-..++|.+..++.|.+.+..+.     ........+-+.|+|++|+|||+||+.+++.  ....|   +.++.+    
T Consensus        15 ~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~--~~~~~---~~v~~~----   85 (322)
T 3eie_A           15 VKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATE--ANSTF---FSVSSS----   85 (322)
T ss_dssp             CCGGGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHH--HTCEE---EEEEHH----
T ss_pred             CCHHHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHH--HCCCE---EEEchH----
Confidence            334678999999999998873110     0001223467889999999999999999873  22222   222221    


Q ss_pred             hHHHHHHHHHHhhcCccccccHHHHHHHH-HHHhcCCceeEEEcCCCccccc-----------chHhhHHhhc---cCCC
Q 036323          252 EFNVAKATIEELEGSAIDLHELNSLLRRI-GANIAGQKFFMVLDNLWTDDYR-----------KWEPFRNCLM---NGLR  316 (583)
Q Consensus       252 ~~~~~~~il~~l~~~~~~~~~~~~~~~~l-~~~l~~k~~LlVlDdv~~~~~~-----------~~~~l~~~l~---~~~~  316 (583)
                        .+    ..    ..  ....+.....+ ...-..++.+|+||++..-...           ....+...+.   ....
T Consensus        86 --~l----~~----~~--~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  153 (322)
T 3eie_A           86 --DL----VS----KW--MGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQ  153 (322)
T ss_dssp             --HH----HT----TT--GGGHHHHHHHHHHHHHHTSSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGGTSCC
T ss_pred             --HH----hh----cc--cchHHHHHHHHHHHHHhcCCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhccccccCC
Confidence              11    11    10  01112222222 2222456789999999542110           1233333332   2334


Q ss_pred             CceEEEecCchHHH-hhh--cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCC-Cccchhhhh
Q 036323          317 GSKILITTRKETVA-RMM--ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKG-LPLAAKTIG  391 (583)
Q Consensus       317 gs~IlvTtR~~~v~-~~~--~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~G-lPLai~~~~  391 (583)
                      +..||.||...... ..+  .-...+.+...+.++-.+++...+........    ......|++.+.| .+-.|..+.
T Consensus       154 ~v~vi~atn~~~~ld~al~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~----~~~l~~la~~t~g~sg~di~~l~  228 (322)
T 3eie_A          154 GVLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPCVLT----KEDYRTLGAMTEGYSGSDIAVVV  228 (322)
T ss_dssp             CEEEEEEESCGGGSCHHHHHHCCEEEECCCCCHHHHHHHHHHHHTTCCCCCC----HHHHHHHHHTTTTCCHHHHHHHH
T ss_pred             ceEEEEecCChhhCCHHHHcccCeEEEeCCCCHHHHHHHHHHHhccCCCCCC----HHHHHHHHHHcCCCCHHHHHHHH
Confidence            55666677653221 111  12456788899999999999987643221111    3345678888887 444454443

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=98.20  E-value=8.6e-05  Score=74.72  Aligned_cols=178  Identities=16%  Similarity=0.179  Sum_probs=95.4

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      -..++|.+..++.+...+....  ........+.|+|++|+||||||+.+++..  ...|.     ..+.....      
T Consensus        24 l~~~~g~~~~~~~l~~~i~~~~--~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l--~~~~~-----~~sg~~~~------   88 (334)
T 1in4_A           24 LDEFIGQENVKKKLSLALEAAK--MRGEVLDHVLLAGPPGLGKTTLAHIIASEL--QTNIH-----VTSGPVLV------   88 (334)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHHH--HHTCCCCCEEEESSTTSSHHHHHHHHHHHH--TCCEE-----EEETTTCC------
T ss_pred             HHHccCcHHHHHHHHHHHHHHH--hcCCCCCeEEEECCCCCcHHHHHHHHHHHh--CCCEE-----EEechHhc------
Confidence            3467898888887776664320  001234678999999999999999998732  11111     11111100      


Q ss_pred             HHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccCC------------------CCceE
Q 036323          259 TIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGL------------------RGSKI  320 (583)
Q Consensus       259 il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~------------------~gs~I  320 (583)
                                .   ...+...+ ..+ .++-++++|++..-.....+.+...+....                  +...+
T Consensus        89 ----------~---~~~l~~~~-~~~-~~~~v~~iDE~~~l~~~~~e~L~~~~~~~~~~i~~~~~~~~~~i~~~l~~~~l  153 (334)
T 1in4_A           89 ----------K---QGDMAAIL-TSL-ERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTL  153 (334)
T ss_dssp             ----------S---HHHHHHHH-HHC-CTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEE
T ss_pred             ----------C---HHHHHHHH-HHc-cCCCEEEEcchhhcCHHHHHHHHHHHHhcccceeeccCcccccccccCCCeEE
Confidence                      0   01111111 111 234577888885433223333332222110                  01122


Q ss_pred             E-EecCchHHHhhhcC--CCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhh
Q 036323          321 L-ITTRKETVARMMES--TDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTI  390 (583)
Q Consensus       321 l-vTtR~~~v~~~~~~--~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~  390 (583)
                      + .|++...+...+..  .-.+.+++.+.++-.+++.+.+......    ...+.+..|++.+.|.|-.+..+
T Consensus       154 i~at~~~~~Ls~~l~sR~~l~~~Ld~~~~~~l~~iL~~~~~~~~~~----~~~~~~~~ia~~~~G~~R~a~~l  222 (334)
T 1in4_A          154 VGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMDVE----IEDAAAEMIAKRSRGTPRIAIRL  222 (334)
T ss_dssp             EEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTCC----BCHHHHHHHHHTSTTCHHHHHHH
T ss_pred             EEecCCcccCCHHHHHhcCceeeCCCCCHHHHHHHHHHHHHHcCCC----cCHHHHHHHHHhcCCChHHHHHH
Confidence            2 34444333222211  2357899999999999998876322211    12456788999999999765444

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=98.20  E-value=1.6e-05  Score=80.98  Aligned_cols=188  Identities=12%  Similarity=0.040  Sum_probs=101.7

Q ss_pred             CCceeechhHHHHHHHHhhcC----CC-CCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQ----GS-DQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEF  253 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~----~~-~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  253 (583)
                      -..++|.+..++.|.+.+...    .. .......+.+.|+|++|+|||+||+.+++..  ..   ..+.++.+.-... 
T Consensus        83 ~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~--~~---~~~~i~~~~l~~~-  156 (357)
T 3d8b_A           83 WEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQS--GA---TFFSISASSLTSK-  156 (357)
T ss_dssp             GGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHHT--TC---EEEEEEGGGGCCS-
T ss_pred             HHHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHHc--CC---eEEEEehHHhhcc-
Confidence            456899999999998887421    00 0001235678899999999999999998732  11   1233444321110 


Q ss_pred             HHHHHHHHHhhcCccccccHHHHHHHHH-HHhcCCceeEEEcCCCcccc-----------cchHhhHHhhcc----CCCC
Q 036323          254 NVAKATIEELEGSAIDLHELNSLLRRIG-ANIAGQKFFMVLDNLWTDDY-----------RKWEPFRNCLMN----GLRG  317 (583)
Q Consensus       254 ~~~~~il~~l~~~~~~~~~~~~~~~~l~-~~l~~k~~LlVlDdv~~~~~-----------~~~~~l~~~l~~----~~~g  317 (583)
                                   .  ..........+. .....++.+|+||+++.-..           .....+...+..    ...+
T Consensus       157 -------------~--~g~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~~  221 (357)
T 3d8b_A          157 -------------W--VGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGATTSSEDR  221 (357)
T ss_dssp             -------------S--TTHHHHHHHHHHHHHHHTCSEEEEEETHHHHTBC------CHHHHHHHHHHHHHHC----CCCC
T ss_pred             -------------c--cchHHHHHHHHHHHHHhcCCeEEEEeCchhhhccCCCCcchHHHHHHHHHHHHHhcccccCCCC
Confidence                         0  001111112222 22235678999999943110           112233333322    1234


Q ss_pred             ceEEEecCchH-HHhhh--cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCC-Cccchhhhh
Q 036323          318 SKILITTRKET-VARMM--ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKG-LPLAAKTIG  391 (583)
Q Consensus       318 s~IlvTtR~~~-v~~~~--~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~G-lPLai~~~~  391 (583)
                      ..||.||.... +...+  .....+.+...+.++..+++...+.......    .......|++.+.| .|-.|..+.
T Consensus       222 v~vI~atn~~~~l~~~l~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~l----~~~~l~~la~~t~G~s~~dl~~l~  295 (357)
T 3d8b_A          222 ILVVGATNRPQEIDEAARRRLVKRLYIPLPEASARKQIVINLMSKEQCCL----SEEEIEQIVQQSDAFSGADMTQLC  295 (357)
T ss_dssp             EEEEEEESCGGGBCHHHHTTCCEEEECCCCCHHHHHHHHHHHHHTSCBCC----CHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             EEEEEecCChhhCCHHHHhhCceEEEeCCcCHHHHHHHHHHHHhhcCCCc----cHHHHHHHHHHcCCCCHHHHHHHH
Confidence            45555665432 21111  1134678889999998888887763221111    13456778888888 455555544

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=98.18  E-value=1.8e-05  Score=80.50  Aligned_cols=189  Identities=12%  Similarity=0.079  Sum_probs=100.7

Q ss_pred             cCCceeechhHHHHHHHHhhcC----CC-CCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCCh
Q 036323          178 DVSEVRGRDEEMRSIKSMLLCQ----GS-DQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDE  252 (583)
Q Consensus       178 ~~~~~vGR~~e~~~l~~~L~~~----~~-~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  252 (583)
                      .-..++|.+..++.|.+.+..+    .. .......+-|.|+|++|+|||+||+.+++..  ...|   +.++.+     
T Consensus        49 ~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~--~~~~---~~v~~~-----  118 (355)
T 2qp9_X           49 KWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEA--NSTF---FSVSSS-----  118 (355)
T ss_dssp             CGGGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHH--TCEE---EEEEHH-----
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHh--CCCE---EEeeHH-----
Confidence            3456899999999998877321    00 0011233467899999999999999999842  2222   222221     


Q ss_pred             HHHHHHHHHHhhcCccccccHHHHHHHH-HHHhcCCceeEEEcCCCccccc-----------chHhhHHhhcc---CCCC
Q 036323          253 FNVAKATIEELEGSAIDLHELNSLLRRI-GANIAGQKFFMVLDNLWTDDYR-----------KWEPFRNCLMN---GLRG  317 (583)
Q Consensus       253 ~~~~~~il~~l~~~~~~~~~~~~~~~~l-~~~l~~k~~LlVlDdv~~~~~~-----------~~~~l~~~l~~---~~~g  317 (583)
                       .+    .....      ...+.....+ ......++.+|+||+++.....           ....+...+..   ...+
T Consensus       119 -~l----~~~~~------g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~~~~~~  187 (355)
T 2qp9_X          119 -DL----VSKWM------GESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQG  187 (355)
T ss_dssp             -HH----HSCC---------CHHHHHHHHHHHHHTSSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC---CC
T ss_pred             -HH----hhhhc------chHHHHHHHHHHHHHHcCCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhcccccCCC
Confidence             11    11000      0011122222 2222457889999999542211           12223333321   2345


Q ss_pred             ceEEEecCchHH-Hhhh--cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCC-Cccchhhhh
Q 036323          318 SKILITTRKETV-ARMM--ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKG-LPLAAKTIG  391 (583)
Q Consensus       318 s~IlvTtR~~~v-~~~~--~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~G-lPLai~~~~  391 (583)
                      ..||.||..... ...+  .....+.+...+.++-.+++...+........    ......|++.+.| .|-.|..+.
T Consensus       188 v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~~~----~~~l~~la~~t~G~sg~dl~~l~  261 (355)
T 2qp9_X          188 VLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPSVLT----KEDYRTLGAMTEGYSGSDIAVVV  261 (355)
T ss_dssp             EEEEEEESCGGGSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTSCBCCC----HHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             eEEEeecCCcccCCHHHHcccCEEEEeCCcCHHHHHHHHHHHHhhCCCCCC----HHHHHHHHHHcCCCCHHHHHHHH
Confidence            556666654421 1111  22456788999999999999887643211111    3345678888888 444455444

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=98.18  E-value=6.9e-05  Score=74.99  Aligned_cols=191  Identities=16%  Similarity=0.102  Sum_probs=101.7

Q ss_pred             cCCceeechhHHHHHHHHhhcC----C-CCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCCh
Q 036323          178 DVSEVRGRDEEMRSIKSMLLCQ----G-SDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDE  252 (583)
Q Consensus       178 ~~~~~vGR~~e~~~l~~~L~~~----~-~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  252 (583)
                      .-..++|.+..++.|.+.+..+    . ........+.+.|+|++|+|||+||+.+++... ...   .+.++.+.-.+ 
T Consensus        10 ~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~-~~~---~~~i~~~~l~~-   84 (322)
T 1xwi_A           10 KWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEAN-NST---FFSISSSDLVS-   84 (322)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHTT-SCE---EEEEECCSSCC-
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHcC-CCc---EEEEEhHHHHh-
Confidence            3457899999888888776321    0 000112346788999999999999999997420 111   22233332111 


Q ss_pred             HHHHHHHHHHhhcCccccccHHHHHHHHH-HHhcCCceeEEEcCCCccccc-----------chHhhHHhhcc---CCCC
Q 036323          253 FNVAKATIEELEGSAIDLHELNSLLRRIG-ANIAGQKFFMVLDNLWTDDYR-----------KWEPFRNCLMN---GLRG  317 (583)
Q Consensus       253 ~~~~~~il~~l~~~~~~~~~~~~~~~~l~-~~l~~k~~LlVlDdv~~~~~~-----------~~~~l~~~l~~---~~~g  317 (583)
                                   ..  ....+.....+. ..-..++.+|+||+++.-...           ....+...+..   ...+
T Consensus        85 -------------~~--~g~~~~~~~~lf~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~~  149 (322)
T 1xwi_A           85 -------------KW--LGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDG  149 (322)
T ss_dssp             -------------SS--CCSCHHHHHHHHHHHHHTSSEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHHHCSSSCCTT
T ss_pred             -------------hh--hhHHHHHHHHHHHHHHhcCCcEEEeecHHHhccccccccchHHHHHHHHHHHHHhcccccCCC
Confidence                         00  001111222222 222457889999999642110           01122222222   2334


Q ss_pred             ceEEEecCchHHH-hhh--cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCC-ccchhhhhh
Q 036323          318 SKILITTRKETVA-RMM--ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGL-PLAAKTIGS  392 (583)
Q Consensus       318 s~IlvTtR~~~v~-~~~--~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~Gl-PLai~~~~~  392 (583)
                      ..||.||...... ..+  .-...+.+...+.++-.+++...........    .......|++.+.|. +-.|..+..
T Consensus       150 v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~l----~~~~l~~la~~t~G~sgadl~~l~~  224 (322)
T 1xwi_A          150 ILVLGATNIPWVLDSAIRRRFEKRIYIPLPEPHARAAMFKLHLGTTQNSL----TEADFRELGRKTDGYSGADISIIVR  224 (322)
T ss_dssp             EEEEEEESCTTTSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTCCBCC----CHHHHHHHHHTCTTCCHHHHHHHHH
T ss_pred             EEEEEecCCcccCCHHHHhhcCeEEEeCCcCHHHHHHHHHHHHhcCCCCC----CHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            5555566543211 111  2235688888999988899988763221111    134467789999886 444555543

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=98.15  E-value=6.3e-05  Score=74.26  Aligned_cols=188  Identities=14%  Similarity=0.102  Sum_probs=99.6

Q ss_pred             cCCceeechhHHHHHHHHhhcCCC-----CCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCCh
Q 036323          178 DVSEVRGRDEEMRSIKSMLLCQGS-----DQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDE  252 (583)
Q Consensus       178 ~~~~~vGR~~e~~~l~~~L~~~~~-----~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  252 (583)
                      .-..++|.+..++.|.+.+..+..     ..-....+.+.|+|++|+|||+||+.+++..  ...   .+.++.+.-.. 
T Consensus        19 ~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~--~~~---~~~i~~~~l~~-   92 (297)
T 3b9p_A           19 EWTDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATEC--SAT---FLNISAASLTS-   92 (297)
T ss_dssp             CGGGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHT--TCE---EEEEESTTTSS-
T ss_pred             CHHHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHh--CCC---eEEeeHHHHhh-
Confidence            345789999999999888743100     0001234678899999999999999998732  211   23334332111 


Q ss_pred             HHHHHHHHHHhhcCccccccHHHHHHH-HHHHhcCCceeEEEcCCCccccc-----------chHhhHHhhccC-----C
Q 036323          253 FNVAKATIEELEGSAIDLHELNSLLRR-IGANIAGQKFFMVLDNLWTDDYR-----------KWEPFRNCLMNG-----L  315 (583)
Q Consensus       253 ~~~~~~il~~l~~~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~~-----------~~~~l~~~l~~~-----~  315 (583)
                                   ..  .......... +......++.+|+||++......           ....+...+...     .
T Consensus        93 -------------~~--~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~  157 (297)
T 3b9p_A           93 -------------KY--VGDGEKLVRALFAVARHMQPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPGNPDG  157 (297)
T ss_dssp             -------------SS--CSCHHHHHHHHHHHHHHTCSEEEEEETGGGTSBCC-----CCSHHHHHHHHHHHHHCC-----
T ss_pred             -------------cc--cchHHHHHHHHHHHHHHcCCcEEEeccHHHhccccccCcchHHHHHHHHHHHHHhcccccCCC
Confidence                         00  0011112222 22222456789999999542110           011222222211     1


Q ss_pred             CCceEEEecCchHH-Hhhh--cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCcc-chhhh
Q 036323          316 RGSKILITTRKETV-ARMM--ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPL-AAKTI  390 (583)
Q Consensus       316 ~gs~IlvTtR~~~v-~~~~--~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPL-ai~~~  390 (583)
                      .+..||.||..... ...+  .....+.+...+.++...++...+.......    .......|++.+.|.+- ++..+
T Consensus       158 ~~v~vi~~tn~~~~l~~~l~~R~~~~i~~~~p~~~~r~~il~~~~~~~~~~~----~~~~~~~la~~~~g~~~~~l~~l  232 (297)
T 3b9p_A          158 DRIVVLAATNRPQELDEAALRRFTKRVYVSLPDEQTRELLLNRLLQKQGSPL----DTEALRRLAKITDGYSGSDLTAL  232 (297)
T ss_dssp             -CEEEEEEESCGGGBCHHHHHHCCEEEECCCCCHHHHHHHHHHHHGGGSCCS----CHHHHHHHHHHTTTCCHHHHHHH
T ss_pred             CcEEEEeecCChhhCCHHHHhhCCeEEEeCCcCHHHHHHHHHHHHHhcCCCC----CHHHHHHHHHHcCCCCHHHHHHH
Confidence            24556666665321 1111  1235677888888888888877653222111    13456678888988775 44444

>2gno_A DNA polymerase III, gamma subunit-related protein; structural genomics, joint center for structural genomics, J protein structure initiative; HET: DNA; 2.00A {Thermotoga maritima} SCOP: a.80.1.1 c.37.1.20

Probab=98.14  E-value=1.7e-05  Score=78.53  Aligned_cols=148  Identities=10%  Similarity=0.018  Sum_probs=92.0

Q ss_pred             echhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCcc-cc-ccCceEEEEEeCC-CCChHHHHHHHH
Q 036323          184 GRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDND-VI-NNFEIRVRVCVSD-PFDEFNVAKATI  260 (583)
Q Consensus       184 GR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~-~~-~~f~~~~wv~~~~-~~~~~~~~~~il  260 (583)
                      |-++.++.|.+.+...       ..+...++|++|+||||+|..+.+... .. .+.+ ..+++.++ ...... .+++.
T Consensus         1 g~~~~~~~L~~~i~~~-------~~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d-~~~l~~~~~~~~id~-ir~li   71 (305)
T 2gno_A            1 GAKDQLETLKRIIEKS-------EGISILINGEDLSYPREVSLELPEYVEKFPPKASD-VLEIDPEGENIGIDD-IRTIK   71 (305)
T ss_dssp             ---CHHHHHHHHHHTC-------SSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTT-EEEECCSSSCBCHHH-HHHHH
T ss_pred             ChHHHHHHHHHHHHCC-------CCcEEEEECCCCCCHHHHHHHHHHhCchhhccCCC-EEEEcCCcCCCCHHH-HHHHH
Confidence            3455667777777432       267889999999999999999876310 11 1233 23444332 122111 22233


Q ss_pred             HHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCch-HHHhhhcCCCeE
Q 036323          261 EELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKE-TVARMMESTDIV  339 (583)
Q Consensus       261 ~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~-~v~~~~~~~~~~  339 (583)
                      +.+...+                ..+++-++|+|+++.-+....+.|...+....+.+.+|++|.++ .+...+.+- .+
T Consensus        72 ~~~~~~p----------------~~~~~kvviIdead~lt~~a~naLLk~LEep~~~t~fIl~t~~~~kl~~tI~SR-~~  134 (305)
T 2gno_A           72 DFLNYSP----------------ELYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSR-VF  134 (305)
T ss_dssp             HHHTSCC----------------SSSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTT-SE
T ss_pred             HHHhhcc----------------ccCCceEEEeccHHHhCHHHHHHHHHHHhCCCCCeEEEEEECChHhChHHHHce-eE
Confidence            3332111                12456799999997766666777888887666677777766543 444444445 99


Q ss_pred             EcCCCChHHHHHHHHHHh
Q 036323          340 YVQGLSELECWSLFRRFA  357 (583)
Q Consensus       340 ~l~~L~~~ea~~Lf~~~a  357 (583)
                      ++.++++++....+.+..
T Consensus       135 ~f~~l~~~~i~~~L~~~~  152 (305)
T 2gno_A          135 RVVVNVPKEFRDLVKEKI  152 (305)
T ss_dssp             EEECCCCHHHHHHHHHHH
T ss_pred             eCCCCCHHHHHHHHHHHh
Confidence            999999999999998875

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=98.11  E-value=5.9e-06  Score=94.04  Aligned_cols=154  Identities=19%  Similarity=0.236  Sum_probs=80.5

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCcc---ccccC--ceEEEEEeCCCCChHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDND---VINNF--EIRVRVCVSDPFDEFN  254 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~---~~~~f--~~~~wv~~~~~~~~~~  254 (583)
                      ..++||+.++.++.+.|....       ...+.|+|++|+|||+||+.+++...   +....  ..+++++++.-..   
T Consensus       170 d~viGr~~~i~~l~~~l~~~~-------~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~l~~---  239 (854)
T 1qvr_A          170 DPVIGRDEEIRRVIQILLRRT-------KNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLA---  239 (854)
T ss_dssp             CCCCSCHHHHHHHHHHHHCSS-------CCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC--------
T ss_pred             cccCCcHHHHHHHHHHHhcCC-------CCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHHhhc---
Confidence            468999999999999996533       33468999999999999999887421   10111  1233333321100   


Q ss_pred             HHHHHHHHhhcCccccccHHHHHHHHHHHh-c-CCceeEEEcCCCccc--------ccchHhhHHhhccCCCCceEEEec
Q 036323          255 VAKATIEELEGSAIDLHELNSLLRRIGANI-A-GQKFFMVLDNLWTDD--------YRKWEPFRNCLMNGLRGSKILITT  324 (583)
Q Consensus       255 ~~~~il~~l~~~~~~~~~~~~~~~~l~~~l-~-~k~~LlVlDdv~~~~--------~~~~~~l~~~l~~~~~gs~IlvTt  324 (583)
                                +. ....+.+.....+...+ . +++.+|+||++..-.        ......+...+..  .+..+|.+|
T Consensus       240 ----------g~-~~~g~~~~~l~~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~g~~~~~~~L~~~l~~--~~i~~I~at  306 (854)
T 1qvr_A          240 ----------GA-KYRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALAR--GELRLIGAT  306 (854)
T ss_dssp             -----------------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHHT--TCCCEEEEE
T ss_pred             ----------cC-ccchHHHHHHHHHHHHHHhcCCCeEEEEecHHHHhccCCccchHHHHHHHHHHHhC--CCeEEEEec
Confidence                      00 00111122222222222 2 367899999996422        1111223333332  234455555


Q ss_pred             CchHH-----Hhhh-cCCCeEEcCCCChHHHHHHHHHH
Q 036323          325 RKETV-----ARMM-ESTDIVYVQGLSELECWSLFRRF  356 (583)
Q Consensus       325 R~~~v-----~~~~-~~~~~~~l~~L~~~ea~~Lf~~~  356 (583)
                      .....     ...+ .....+.+++++.++..+++...
T Consensus       307 ~~~~~~~~~~d~aL~rRf~~i~l~~p~~~e~~~iL~~~  344 (854)
T 1qvr_A          307 TLDEYREIEKDPALERRFQPVYVDEPTVEETISILRGL  344 (854)
T ss_dssp             CHHHHHHHTTCTTTCSCCCCEEECCCCHHHHHHHHHHH
T ss_pred             CchHHhhhccCHHHHhCCceEEeCCCCHHHHHHHHHhh
Confidence            44332     1111 12456899999999999988754

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=98.11  E-value=4.7e-06  Score=75.89  Aligned_cols=121  Identities=15%  Similarity=0.156  Sum_probs=64.8

Q ss_pred             chhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhh
Q 036323          185 RDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELE  264 (583)
Q Consensus       185 R~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~  264 (583)
                      .+..++.+.+++..-.    ......+.|+|++|+|||||++.+++.......+. +++++      ..++...+.....
T Consensus        19 ~~~~~~~~~~~~~~~~----~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~~-~~~~~------~~~~~~~~~~~~~   87 (180)
T 3ec2_A           19 QNRALLTIRVFVHNFN----PEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGIR-GYFFD------TKDLIFRLKHLMD   87 (180)
T ss_dssp             HHHHHHHHHHHHHSCC----GGGCCEEEECCSSSSSHHHHHHHHHHHHHHHSCCC-CCEEE------HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcc----ccCCCEEEEECCCCCCHHHHHHHHHHHHHHHcCCe-EEEEE------HHHHHHHHHHHhc
Confidence            4445555555554332    23356889999999999999999987422111221 23333      3344444444333


Q ss_pred             cCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchH--hhHHhhcc-CCCCceEEEecCc
Q 036323          265 GSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWE--PFRNCLMN-GLRGSKILITTRK  326 (583)
Q Consensus       265 ~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~--~l~~~l~~-~~~gs~IlvTtR~  326 (583)
                      .....     .....+     .++-+|||||++....+.|.  .+...+.. ...|..+|+||..
T Consensus        88 ~~~~~-----~~~~~~-----~~~~llilDE~~~~~~~~~~~~~l~~ll~~~~~~~~~ii~tsn~  142 (180)
T 3ec2_A           88 EGKDT-----KFLKTV-----LNSPVLVLDDLGSERLSDWQRELISYIITYRYNNLKSTIITTNY  142 (180)
T ss_dssp             HTCCS-----HHHHHH-----HTCSEEEEETCSSSCCCHHHHHHHHHHHHHHHHTTCEEEEECCC
T ss_pred             CchHH-----HHHHHh-----cCCCEEEEeCCCCCcCCHHHHHHHHHHHHHHHHcCCCEEEEcCC
Confidence            22111     222222     25679999999743333343  23333322 1246778888873

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=98.10  E-value=3.7e-05  Score=76.21  Aligned_cols=184  Identities=12%  Similarity=0.122  Sum_probs=99.0

Q ss_pred             cCCceeechhHHHHHHHHhhcCCC------CCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCC
Q 036323          178 DVSEVRGRDEEMRSIKSMLLCQGS------DQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFD  251 (583)
Q Consensus       178 ~~~~~vGR~~e~~~l~~~L~~~~~------~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  251 (583)
                      .-..++|.+..+++|.+.+...-.      ...-...+.+.|+|++|+|||+||+.+++..  ...     ++.+.    
T Consensus        13 ~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~--~~~-----~i~v~----   81 (301)
T 3cf0_A           13 TWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC--QAN-----FISIK----   81 (301)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHT--TCE-----EEEEC----
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHh--CCC-----EEEEE----
Confidence            345689999988888887743100      0001235578899999999999999999842  222     22222    


Q ss_pred             hHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccc--------------cchHhhHHhhcc--CC
Q 036323          252 EFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDY--------------RKWEPFRNCLMN--GL  315 (583)
Q Consensus       252 ~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~--------------~~~~~l~~~l~~--~~  315 (583)
                      ...+    .....+..  .....   ..+.......+.+|+||++..-..              .....+...+..  ..
T Consensus        82 ~~~l----~~~~~g~~--~~~~~---~~f~~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~~~~  152 (301)
T 3cf0_A           82 GPEL----LTMWFGES--EANVR---EIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTK  152 (301)
T ss_dssp             HHHH----HHHHHTTC--TTHHH---HHHHHHHHTCSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSSCTT
T ss_pred             hHHH----HhhhcCch--HHHHH---HHHHHHHhcCCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhcccCC
Confidence            1222    22222211  11122   222223345689999999953110              012334444432  23


Q ss_pred             CCceEEEecCchHHH-hh-hc---CCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccc
Q 036323          316 RGSKILITTRKETVA-RM-ME---STDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLA  386 (583)
Q Consensus       316 ~gs~IlvTtR~~~v~-~~-~~---~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLa  386 (583)
                      .+..||.||...... .. +.   -...+.+...+.++-.+++......... .....+    ..+++.+.|.|-+
T Consensus       153 ~~v~vi~atn~~~~ld~al~r~gRf~~~i~i~~p~~~~r~~il~~~l~~~~~-~~~~~~----~~la~~~~g~sg~  223 (301)
T 3cf0_A          153 KNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPV-AKDVDL----EFLAKMTNGFSGA  223 (301)
T ss_dssp             SSEEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCB-CSSCCH----HHHHHTCSSCCHH
T ss_pred             CCEEEEEecCCccccChHHhcCCccceEEecCCcCHHHHHHHHHHHHccCCC-CccchH----HHHHHHcCCCCHH
Confidence            355677777654322 11 12   1357889999999988888877632211 111122    3456667776543

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=98.04  E-value=7.9e-05  Score=76.71  Aligned_cols=190  Identities=12%  Similarity=0.099  Sum_probs=98.9

Q ss_pred             ccCCceeechhHHHHHHHHhhcCCC-----CCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCC
Q 036323          177 IDVSEVRGRDEEMRSIKSMLLCQGS-----DQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFD  251 (583)
Q Consensus       177 ~~~~~~vGR~~e~~~l~~~L~~~~~-----~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  251 (583)
                      ..-..++|.+..++.|..++.....     .......+.+.|+|++|+|||+||+.+++.  ...   ..+.++.+.-..
T Consensus       112 ~~~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~--~~~---~~~~v~~~~l~~  186 (389)
T 3vfd_A          112 VKFDDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAE--SNA---TFFNISAASLTS  186 (389)
T ss_dssp             CCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHH--TTC---EEEEECSCCC--
T ss_pred             CChHHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHh--hcC---cEEEeeHHHhhc
Confidence            3446799999999999988732100     000122467889999999999999999873  211   122333322111


Q ss_pred             hHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCccc-----------ccchHhhHHhhcc----CCC
Q 036323          252 EFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDD-----------YRKWEPFRNCLMN----GLR  316 (583)
Q Consensus       252 ~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~-----------~~~~~~l~~~l~~----~~~  316 (583)
                      .  .       .+      .....+...+...-...+.+|+||+++.-.           ......+...+..    ...
T Consensus       187 ~--~-------~g------~~~~~~~~~~~~a~~~~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~  251 (389)
T 3vfd_A          187 K--Y-------VG------EGEKLVRALFAVARELQPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQSAGDD  251 (389)
T ss_dssp             --------------------CHHHHHHHHHHHHHSSSEEEEEETGGGGC--------CTHHHHHHHHHHHHHHHC-----
T ss_pred             c--c-------cc------hHHHHHHHHHHHHHhcCCeEEEEECchhhcccCCCccchHHHHHHHHHHHHhhcccccCCC
Confidence            0  0       00      000111111222223456799999995320           0111122222221    122


Q ss_pred             CceEEEecCchH-HHhhh-cC-CCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCcc-chhhh
Q 036323          317 GSKILITTRKET-VARMM-ES-TDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPL-AAKTI  390 (583)
Q Consensus       317 gs~IlvTtR~~~-v~~~~-~~-~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPL-ai~~~  390 (583)
                      ...||.||.... +...+ .. ...+.+...+.++..+++...+......    ...+....|++.+.|..- +|..+
T Consensus       252 ~v~vI~atn~~~~l~~~l~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~----l~~~~~~~la~~~~g~~~~~l~~L  325 (389)
T 3vfd_A          252 RVLVMGATNRPQELDEAVLRRFIKRVYVSLPNEETRLLLLKNLLCKQGSP----LTQKELAQLARMTDGYSGSDLTAL  325 (389)
T ss_dssp             CEEEEEEESCGGGCCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCCC----SCHHHHHHHHHHTTTCCHHHHHHH
T ss_pred             CEEEEEecCCchhcCHHHHcCcceEEEcCCcCHHHHHHHHHHHHHhcCCC----CCHHHHHHHHHHcCCCCHHHHHHH
Confidence            345555665432 11111 12 2468899999999999998876332211    123456778888888544 44443

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=98.00  E-value=6.2e-05  Score=78.87  Aligned_cols=191  Identities=15%  Similarity=0.097  Sum_probs=100.1

Q ss_pred             cCCceeechhHHHHHHHHhhcC----CC-CCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCCh
Q 036323          178 DVSEVRGRDEEMRSIKSMLLCQ----GS-DQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDE  252 (583)
Q Consensus       178 ~~~~~vGR~~e~~~l~~~L~~~----~~-~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  252 (583)
                      .-..++|.+..++.|.+.+..+    .. .......+.+.|+|++|+|||+||+.+++..      ....++.++...  
T Consensus       132 ~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~------~~~~~~~v~~~~--  203 (444)
T 2zan_A          132 KWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEA------NNSTFFSISSSD--  203 (444)
T ss_dssp             CGGGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHC------CSSEEEEECCC---
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHc------CCCCEEEEeHHH--
Confidence            3467899999999998877321    00 0011234678899999999999999999842      111233333211  


Q ss_pred             HHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccc-------cchHh----hHHhhcc---CCCCc
Q 036323          253 FNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDY-------RKWEP----FRNCLMN---GLRGS  318 (583)
Q Consensus       253 ~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~-------~~~~~----l~~~l~~---~~~gs  318 (583)
                        +..    ...+.  .......+....   -..++.+|+||++..-..       .....    +...+..   ...+.
T Consensus       204 --l~~----~~~g~--~~~~~~~~f~~a---~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~v  272 (444)
T 2zan_A          204 --LVS----KWLGE--SEKLVKNLFQLA---RENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDGI  272 (444)
T ss_dssp             ----------------CCCTHHHHHHHH---HHSCSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTCSSCCCSSC
T ss_pred             --HHh----hhcch--HHHHHHHHHHHH---HHcCCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhCcccCCCCE
Confidence              111    11011  111222222222   235678999999964210       11112    2222221   13455


Q ss_pred             eEEEecCchHHH-hh-hcC-CCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCC-ccchhhhh
Q 036323          319 KILITTRKETVA-RM-MES-TDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGL-PLAAKTIG  391 (583)
Q Consensus       319 ~IlvTtR~~~v~-~~-~~~-~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~Gl-PLai~~~~  391 (583)
                      .||.||..+... .. ... ...+.+...+.++-..+|...+.......    .......|++.+.|. +-.|..+.
T Consensus       273 ~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~l----~~~~l~~la~~t~G~sgadl~~l~  345 (444)
T 2zan_A          273 LVLGATNIPWVLDSAIRRRFEKRIYIPLPEAHARAAMFRLHLGSTQNSL----TEADFQELGRKTDGYSGADISIIV  345 (444)
T ss_dssp             EEEEEESCGGGSCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCEEC----CHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             EEEecCCCccccCHHHHhhcceEEEeCCcCHHHHHHHHHHHHhcCCCCC----CHHHHHHHHHHcCCCCHHHHHHHH
Confidence            566666544221 11 112 34677888888888888888763221111    133456788888884 44555443

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=98.00  E-value=1e-05  Score=75.07  Aligned_cols=125  Identities=18%  Similarity=0.196  Sum_probs=63.9

Q ss_pred             ceeech----hHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHH
Q 036323          181 EVRGRD----EEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVA  256 (583)
Q Consensus       181 ~~vGR~----~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~  256 (583)
                      +|++.+    ..++.+.+++....   .......+.|+|++|+|||+||+.+++..  ......++++++.      .+.
T Consensus        26 ~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~l~G~~GtGKT~la~~i~~~~--~~~~~~~~~~~~~------~~~   94 (202)
T 2w58_A           26 DVDLNDDGRIKAIRFAERFVAEYE---PGKKMKGLYLHGSFGVGKTYLLAAIANEL--AKRNVSSLIVYVP------ELF   94 (202)
T ss_dssp             SSCCSSHHHHHHHHHHHHHHHHCC---SSCCCCEEEEECSTTSSHHHHHHHHHHHH--HTTTCCEEEEEHH------HHH
T ss_pred             hccCCChhHHHHHHHHHHHHHHhh---hccCCCeEEEECCCCCCHHHHHHHHHHHH--HHcCCeEEEEEhH------HHH
Confidence            455443    34455666665432   11122678899999999999999998742  2223345566543      333


Q ss_pred             HHHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHh--hHH-hhccC-CCCceEEEecCc
Q 036323          257 KATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEP--FRN-CLMNG-LRGSKILITTRK  326 (583)
Q Consensus       257 ~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~--l~~-~l~~~-~~gs~IlvTtR~  326 (583)
                      ..+......     .........+.     +.-+|||||++......|..  +.. .+... ..+..+|+||..
T Consensus        95 ~~~~~~~~~-----~~~~~~~~~~~-----~~~~lilDei~~~~~~~~~~~~ll~~~l~~~~~~~~~~i~tsn~  158 (202)
T 2w58_A           95 RELKHSLQD-----QTMNEKLDYIK-----KVPVLMLDDLGAEAMSSWVRDDVFGPILQYRMFENLPTFFTSNF  158 (202)
T ss_dssp             HHHHHC--------CCCHHHHHHHH-----HSSEEEEEEECCC---CCGGGTTHHHHHHHHHHTTCCEEEEESS
T ss_pred             HHHHHHhcc-----chHHHHHHHhc-----CCCEEEEcCCCCCcCCHHHHHHHHHHHHHHHHhCCCCEEEEcCC
Confidence            333322211     11222333332     22499999996543334322  322 22221 235578888774

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=97.99  E-value=3.6e-06  Score=73.59  Aligned_cols=110  Identities=5%  Similarity=0.011  Sum_probs=62.7

Q ss_pred             ceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHH
Q 036323          181 EVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATI  260 (583)
Q Consensus       181 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il  260 (583)
                      .++|++..++++.+.+....     ....-|.|+|.+|+|||++|+.+++...        -++.+.-. .   +.... 
T Consensus         5 ~~iG~s~~~~~l~~~~~~~~-----~~~~~vll~G~~GtGKt~lA~~i~~~~~--------~~~~~~~~-~---~~~~~-   66 (143)
T 3co5_A            5 DKLGNSAAIQEMNREVEAAA-----KRTSPVFLTGEAGSPFETVARYFHKNGT--------PWVSPARV-E---YLIDM-   66 (143)
T ss_dssp             ---CCCHHHHHHHHHHHHHH-----TCSSCEEEEEETTCCHHHHHGGGCCTTS--------CEECCSST-T---HHHHC-
T ss_pred             CceeCCHHHHHHHHHHHHHh-----CCCCcEEEECCCCccHHHHHHHHHHhCC--------CeEEechh-h---CChHh-
Confidence            57899999988888875422     1123477999999999999999987422        12222211 1   11000 


Q ss_pred             HHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccC-CCCceEEEecCc
Q 036323          261 EELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNG-LRGSKILITTRK  326 (583)
Q Consensus       261 ~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~-~~gs~IlvTtR~  326 (583)
                                      ...+.+.  .+.-.|+||++..........+...+... ..+.++|+||..
T Consensus        67 ----------------~~~~~~~--a~~~~l~lDei~~l~~~~q~~Ll~~l~~~~~~~~~iI~~tn~  115 (143)
T 3co5_A           67 ----------------PMELLQK--AEGGVLYVGDIAQYSRNIQTGITFIIGKAERCRVRVIASCSY  115 (143)
T ss_dssp             ----------------HHHHHHH--TTTSEEEEEECTTCCHHHHHHHHHHHHHHTTTTCEEEEEEEE
T ss_pred             ----------------hhhHHHh--CCCCeEEEeChHHCCHHHHHHHHHHHHhCCCCCEEEEEecCC
Confidence                            1111111  23457899999765544555565555442 345678877763

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A*

Probab=97.96  E-value=9e-05  Score=78.30  Aligned_cols=179  Identities=12%  Similarity=0.070  Sum_probs=97.3

Q ss_pred             CceeechhHHHHHHHHhhcCCCC------CCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSD------QQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEF  253 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~------~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  253 (583)
                      ..++|.+..+++|.+++......      .+....+-|.|+|++|+|||+||+.+++.  ....   .+.++++      
T Consensus       204 ~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~--~~~~---fv~vn~~------  272 (489)
T 3hu3_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANE--TGAF---FFLINGP------  272 (489)
T ss_dssp             GGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHH--CSSE---EEEEEHH------
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHH--hCCC---EEEEEch------
Confidence            46899999999998887532000      00123456889999999999999999873  2222   2233321      


Q ss_pred             HHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccc-----------cchHhhHHhhcc--CCCCceE
Q 036323          254 NVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDY-----------RKWEPFRNCLMN--GLRGSKI  320 (583)
Q Consensus       254 ~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~-----------~~~~~l~~~l~~--~~~gs~I  320 (583)
                          .+...+.     ......+...+.....+++.+|+||+++.-..           .....|...+..  ...+..|
T Consensus       273 ----~l~~~~~-----g~~~~~~~~~f~~A~~~~p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~~~~~~v~v  343 (489)
T 3hu3_A          273 ----EIMSKLA-----GESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIV  343 (489)
T ss_dssp             ----HHHTSCT-----THHHHHHHHHHHHHHHTCSEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHSCTTSCEEE
T ss_pred             ----Hhhhhhc-----chhHHHHHHHHHHHHhcCCcEEEecchhhhccccccccchHHHHHHHHHHHHhhccccCCceEE
Confidence                1111100     01111222333334456788999999932110           112334444432  2334556


Q ss_pred             EEecCchHH-Hhhh----cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCC
Q 036323          321 LITTRKETV-ARMM----ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGL  383 (583)
Q Consensus       321 lvTtR~~~v-~~~~----~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~Gl  383 (583)
                      |.||..... ...+    .....+.+...+.++-.+++...+..... .....+    .++++.+.|.
T Consensus       344 IaaTn~~~~Ld~al~r~gRf~~~i~i~~P~~~eR~~IL~~~~~~~~l-~~~~~l----~~la~~t~g~  406 (489)
T 3hu3_A          344 MAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKL-ADDVDL----EQVANETHGH  406 (489)
T ss_dssp             EEEESCGGGBCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHTTTSCB-CTTCCH----HHHHHTCTTC
T ss_pred             EEecCCccccCHHHhCCCcCceEEEeCCCCHHHHHHHHHHHHhcCCC-cchhhH----HHHHHHccCC
Confidence            666665422 2222    11346889999999999999887632211 111122    4466677664

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=97.96  E-value=4.2e-05  Score=76.03  Aligned_cols=137  Identities=16%  Similarity=0.254  Sum_probs=72.7

Q ss_pred             ceeechhHHHHHHHHhhcCCC--CCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          181 EVRGRDEEMRSIKSMLLCQGS--DQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       181 ~~vGR~~e~~~l~~~L~~~~~--~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      .++|.+..++.+...+.....  .........+.|+|++|+|||++|+.+++.  ....-...+.++++...... ....
T Consensus        18 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~--~~~~~~~~~~~~~~~~~~~~-~~~~   94 (311)
T 4fcw_A           18 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAAT--LFDTEEAMIRIDMTEYMEKH-AVSR   94 (311)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHH--HHSCGGGEEEEEGGGCCSTT-HHHH
T ss_pred             hcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHH--HcCCCcceEEeecccccccc-cHHH
Confidence            478999888888887754310  001123458899999999999999999873  21111223445554332221 1111


Q ss_pred             HHHHhhcCcc--ccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccCC-----------CCceEEEecC
Q 036323          259 TIEELEGSAI--DLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGL-----------RGSKILITTR  325 (583)
Q Consensus       259 il~~l~~~~~--~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~IlvTtR  325 (583)
                      +   ++....  .......+...+.   ....-+|+||++..........|...+....           .++.+|+||.
T Consensus        95 l---~g~~~~~~~~~~~~~~~~~~~---~~~~~vl~lDEi~~l~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~iiI~ttn  168 (311)
T 4fcw_A           95 L---IGAPPGYVGYEEGGQLTEAVR---RRPYSVILFDAIEKAHPDVFNILLQMLDDGRLTDSHGRTVDFRNTVIIMTSN  168 (311)
T ss_dssp             H---HCCCTTSTTTTTCCHHHHHHH---HCSSEEEEEETGGGSCHHHHHHHHHHHHHSEEECTTSCEEECTTEEEEEEES
T ss_pred             h---cCCCCccccccccchHHHHHH---hCCCeEEEEeChhhcCHHHHHHHHHHHhcCEEEcCCCCEEECCCcEEEEecc
Confidence            1   111110  0000011222222   2334699999997655555566666553321           2344777776


Q ss_pred             c
Q 036323          326 K  326 (583)
Q Consensus       326 ~  326 (583)
                      .
T Consensus       169 ~  169 (311)
T 4fcw_A          169 L  169 (311)
T ss_dssp             T
T ss_pred             c
Confidence            5

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=97.93  E-value=2.6e-05  Score=75.75  Aligned_cols=47  Identities=13%  Similarity=0.135  Sum_probs=34.0

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..++|.+..+.++.+.+....     .....|.|+|.+|+|||+||+.+++.
T Consensus         6 ~~~ig~~~~~~~~~~~~~~~~-----~~~~~vll~G~~GtGKt~la~~i~~~   52 (265)
T 2bjv_A            6 DNLLGEANSFLEVLEQVSHLA-----PLDKPVLIIGERGTGKELIASRLHYL   52 (265)
T ss_dssp             ----CCCHHHHHHHHHHHHHT-----TSCSCEEEECCTTSCHHHHHHHHHHT
T ss_pred             ccceeCCHHHHHHHHHHHHHh-----CCCCCEEEECCCCCcHHHHHHHHHHh
Confidence            458999999988887765422     12346779999999999999999874

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=97.92  E-value=1.5e-05  Score=84.08  Aligned_cols=147  Identities=14%  Similarity=0.151  Sum_probs=77.8

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCcc---ccccCce--EEEEEeCCCCChHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDND---VINNFEI--RVRVCVSDPFDEFN  254 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~---~~~~f~~--~~wv~~~~~~~~~~  254 (583)
                      ..++||+.+++.+...|....       ..-+.|+|++|+|||+||+.+++...   +......  .+.++++       
T Consensus       180 d~iiGr~~~i~~l~~~l~r~~-------~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~-------  245 (468)
T 3pxg_A          180 DPVIGRSKEIQRVIEVLSRRT-------KNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMG-------  245 (468)
T ss_dssp             CCCCCCHHHHHHHHHHHHCSS-------SCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC----------
T ss_pred             CCccCcHHHHHHHHHHHhccC-------CCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeCC-------
Confidence            469999999999999996532       23457999999999999999887311   0001111  1122222       


Q ss_pred             HHHHHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCchHHH----
Q 036323          255 VAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKETVA----  330 (583)
Q Consensus       255 ~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~~v~----  330 (583)
                            ....+.  .......+...+   -..++.+|++|.-    .+....|...+..  ...++|.+|......    
T Consensus       246 ------~~~~g~--~e~~~~~~~~~~---~~~~~~iLfiD~~----~~a~~~L~~~L~~--g~v~vI~at~~~e~~~~~~  308 (468)
T 3pxg_A          246 ------TKYRGE--FEDRLKKVMDEI---RQAGNIILFIDAA----IDASNILKPSLAR--GELQCIGATTLDEYRKYIE  308 (468)
T ss_dssp             ---------------CTTHHHHHHHH---HTCCCCEEEECC------------CCCTTS--SSCEEEEECCTTTTHHHHT
T ss_pred             ------ccccch--HHHHHHHHHHHH---HhcCCeEEEEeCc----hhHHHHHHHhhcC--CCEEEEecCCHHHHHHHhh
Confidence                  000000  011122222222   2356789999921    1122223332322  234555555543311    


Q ss_pred             --h-hhcCCCeEEcCCCChHHHHHHHHHHh
Q 036323          331 --R-MMESTDIVYVQGLSELECWSLFRRFA  357 (583)
Q Consensus       331 --~-~~~~~~~~~l~~L~~~ea~~Lf~~~a  357 (583)
                        . .......+.+.+++.++..+++....
T Consensus       309 ~~~al~~Rf~~i~v~~p~~e~~~~iL~~~~  338 (468)
T 3pxg_A          309 KDAALERRFQPIQVDQPSVDESIQILQGLR  338 (468)
T ss_dssp             TCSHHHHSEEEEECCCCCHHHHHHHHHHTT
T ss_pred             cCHHHHHhCccceeCCCCHHHHHHHHHHHH
Confidence              1 11224579999999999999998764

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=97.86  E-value=6.6e-05  Score=74.43  Aligned_cols=52  Identities=23%  Similarity=0.292  Sum_probs=37.3

Q ss_pred             CceeechhHHHHHHHHhhcC--CCCC-----CCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          180 SEVRGRDEEMRSIKSMLLCQ--GSDQ-----QTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~--~~~~-----~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..++|++..++.+...+...  ....     .......+.|+|++|+|||+||+.+++.
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~   73 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKL   73 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            45899999999998877541  0000     0012456789999999999999999873

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A*

Probab=97.82  E-value=8.7e-05  Score=78.06  Aligned_cols=98  Identities=10%  Similarity=0.027  Sum_probs=60.0

Q ss_pred             eeEEEcCCCcccccchHhhHHhhccCCCCceEEEe---------cC----chHHH-hhhcCCCeEEcCCCChHHHHHHHH
Q 036323          289 FFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILIT---------TR----KETVA-RMMESTDIVYVQGLSELECWSLFR  354 (583)
Q Consensus       289 ~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvT---------tR----~~~v~-~~~~~~~~~~l~~L~~~ea~~Lf~  354 (583)
                      -++++|+++.-+.+.++.|...+.......-|+.|         |.    ...+. ........+.+.+++.++..+++.
T Consensus       297 ~VliIDEa~~l~~~a~~aLlk~lEe~~~~~~il~tn~~~~~i~~~~~~~~~~~l~~~i~sR~~~~~~~~~~~~e~~~iL~  376 (456)
T 2c9o_A          297 GVLFVDEVHMLDIECFTYLHRALESSIAPIVIFASNRGNCVIRGTEDITSPHGIPLDLLDRVMIIRTMLYTPQEMKQIIK  376 (456)
T ss_dssp             CEEEEESGGGCBHHHHHHHHHHTTSTTCCEEEEEECCSEEECBTTSSCEEETTCCHHHHTTEEEEECCCCCHHHHHHHHH
T ss_pred             eEEEEechhhcCHHHHHHHHHHhhccCCCEEEEecCCccccccccccccccccCChhHHhhcceeeCCCCCHHHHHHHHH
Confidence            39999999776666777777777554444323345         32    11111 111224557999999999999998


Q ss_pred             HHhccCCCCCCCchHHHHHHHHhhhC-CCCccchhhh
Q 036323          355 RFALSGRTPSECDQLEGIGRGIVRKC-KGLPLAAKTI  390 (583)
Q Consensus       355 ~~a~~~~~~~~~~~~~~~~~~I~~~c-~GlPLai~~~  390 (583)
                      ..+......    -..+....|++.+ .|.|..+..+
T Consensus       377 ~~~~~~~~~----~~~~~~~~i~~~a~~g~~r~a~~l  409 (456)
T 2c9o_A          377 IRAQTEGIN----ISEEALNHLGEIGTKTTLRYSVQL  409 (456)
T ss_dssp             HHHHHHTCC----BCHHHHHHHHHHHHHSCHHHHHHT
T ss_pred             HHHHHhCCC----CCHHHHHHHHHHccCCCHHHHHHH
Confidence            775322111    1144566788888 7877755444

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.82  E-value=0.00042  Score=70.52  Aligned_cols=180  Identities=16%  Similarity=0.132  Sum_probs=96.7

Q ss_pred             cCCceeechhHHHHHHHHhhcCCC------CCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCC
Q 036323          178 DVSEVRGRDEEMRSIKSMLLCQGS------DQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFD  251 (583)
Q Consensus       178 ~~~~~vGR~~e~~~l~~~L~~~~~------~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  251 (583)
                      .-.++.|-++.+++|.+.+.-+-.      ..+-..++-|.++|++|+|||.||+.+++.  ....|   +.+..+.-.+
T Consensus       146 ~~~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e--~~~~f---~~v~~s~l~s  220 (405)
T 4b4t_J          146 TYDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHH--TDCKF---IRVSGAELVQ  220 (405)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHH--HTCEE---EEEEGGGGSC
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHh--hCCCc---eEEEhHHhhc
Confidence            345788999888888776542100      001134567889999999999999999984  22222   2333332111


Q ss_pred             hHHHHHHHHHHhhcCccccccHHHHHHHHH-HHhcCCceeEEEcCCCccc--------c--c----chHhhHHhhcc--C
Q 036323          252 EFNVAKATIEELEGSAIDLHELNSLLRRIG-ANIAGQKFFMVLDNLWTDD--------Y--R----KWEPFRNCLMN--G  314 (583)
Q Consensus       252 ~~~~~~~il~~l~~~~~~~~~~~~~~~~l~-~~l~~k~~LlVlDdv~~~~--------~--~----~~~~l~~~l~~--~  314 (583)
                                    .  -..+.+..++.+. ..-...+++|+||+++.-.        .  .    ....++..+..  .
T Consensus       221 --------------k--~vGese~~vr~lF~~Ar~~aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~  284 (405)
T 4b4t_J          221 --------------K--YIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFET  284 (405)
T ss_dssp             --------------S--STTHHHHHHHHHHHHHHHTCSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTTC
T ss_pred             --------------c--ccchHHHHHHHHHHHHHHhCCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccCC
Confidence                          0  0011111122222 2224578999999985411        0  0    11223333322  2


Q ss_pred             CCCceEEEecCchHHH-hh-h---cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCC
Q 036323          315 LRGSKILITTRKETVA-RM-M---ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGL  383 (583)
Q Consensus       315 ~~gs~IlvTtR~~~v~-~~-~---~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~Gl  383 (583)
                      ..+..||.||..+... .. +   .-...++++..+.++-.++|+.+.-.-.. ...-++    ..|++.|.|.
T Consensus       285 ~~~V~vIaATNrpd~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~l-~~dvdl----~~lA~~t~G~  353 (405)
T 4b4t_J          285 SKNIKIIMATNRLDILDPALLRPGRIDRKIEFPPPSVAARAEILRIHSRKMNL-TRGINL----RKVAEKMNGC  353 (405)
T ss_dssp             CCCEEEEEEESCSSSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSBC-CSSCCH----HHHHHHCCSC
T ss_pred             CCCeEEEeccCChhhCCHhHcCCCcCceEEEcCCcCHHHHHHHHHHHhcCCCC-CccCCH----HHHHHHCCCC
Confidence            3345566677654321 11 1   22578899988888888888876532211 111223    4577777774

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=97.79  E-value=4e-05  Score=76.06  Aligned_cols=47  Identities=17%  Similarity=0.197  Sum_probs=36.8

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..++|+...+.++.+.+....     .....|.|+|.+|+|||++|+.+++.
T Consensus         2 ~~iig~s~~~~~~~~~~~~~a-----~~~~~vLi~Ge~GtGKt~lAr~i~~~   48 (304)
T 1ojl_A            2 SHMIGSSPAMQHLLNEIAMVA-----PSDATVLIHGDSGTGKELVARALHAC   48 (304)
T ss_dssp             -CCCCCSHHHHHHHHHHHHHC-----STTSCEEEESCTTSCHHHHHHHHHHH
T ss_pred             CCcEECCHHHHHHHHHHHHHh-----CCCCcEEEECCCCchHHHHHHHHHHh
Confidence            358999999999888876532     12345779999999999999999873

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.76  E-value=0.00039  Score=71.83  Aligned_cols=181  Identities=15%  Similarity=0.176  Sum_probs=96.4

Q ss_pred             ccCCceeechhHHHHHHHHhhcCCC------CCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCC
Q 036323          177 IDVSEVRGRDEEMRSIKSMLLCQGS------DQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPF  250 (583)
Q Consensus       177 ~~~~~~vGR~~e~~~l~~~L~~~~~------~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~  250 (583)
                      +.-..+.|-++.+++|.+.+..+-.      ..+-..++-|.++|++|+|||.||+.+++.  ....|   +.++.+.-.
T Consensus       178 v~~~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e--~~~~~---~~v~~s~l~  252 (437)
T 4b4t_L          178 ITFDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAAT--IGANF---IFSPASGIV  252 (437)
T ss_dssp             SCSGGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHH--HTCEE---EEEEGGGTC
T ss_pred             CChhHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHH--hCCCE---EEEehhhhc
Confidence            3345788999888888776642100      001234577889999999999999999984  22222   233333221


Q ss_pred             ChHHHHHHHHHHhhcCccccccHHHHHHHH-HHHhcCCceeEEEcCCCccc------cc--------chHhhHHhhcc--
Q 036323          251 DEFNVAKATIEELEGSAIDLHELNSLLRRI-GANIAGQKFFMVLDNLWTDD------YR--------KWEPFRNCLMN--  313 (583)
Q Consensus       251 ~~~~~~~~il~~l~~~~~~~~~~~~~~~~l-~~~l~~k~~LlVlDdv~~~~------~~--------~~~~l~~~l~~--  313 (583)
                      +              ..  ....+.....+ ...-...+++|++|+++.-.      ..        ....++..+..  
T Consensus       253 s--------------k~--~Gese~~ir~~F~~A~~~~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~  316 (437)
T 4b4t_L          253 D--------------KY--IGESARIIREMFAYAKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFD  316 (437)
T ss_dssp             C--------------SS--SSHHHHHHHHHHHHHHHSCSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSS
T ss_pred             c--------------cc--chHHHHHHHHHHHHHHhcCCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhccc
Confidence            1              00  01111122222 22224678999999995310      00        11223333322  


Q ss_pred             CCCCceEEEecCchHHHh-hh-cC---CCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCC
Q 036323          314 GLRGSKILITTRKETVAR-MM-ES---TDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGL  383 (583)
Q Consensus       314 ~~~gs~IlvTtR~~~v~~-~~-~~---~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~Gl  383 (583)
                      ...+..||.||..+.... .+ ..   ...++++..+.++-.++|+.+...-.. ...-++    ..|++.+.|.
T Consensus       317 ~~~~vivI~ATNrp~~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~-~~d~dl----~~lA~~t~G~  386 (437)
T 4b4t_L          317 NLGQTKIIMATNRPDTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKVKK-TGEFDF----EAAVKMSDGF  386 (437)
T ss_dssp             CTTSSEEEEEESSTTSSCTTTTSTTSEEEEECCCCCCHHHHHHHHHHHHHTSCB-CSCCCH----HHHHHTCCSC
T ss_pred             CCCCeEEEEecCCchhhCHHHhCCCccceeeecCCcCHHHHHHHHHHHhcCCCC-CcccCH----HHHHHhCCCC
Confidence            233456777776543321 11 11   346778877888878888776532221 111222    4577788774

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.76  E-value=0.00044  Score=71.28  Aligned_cols=55  Identities=20%  Similarity=0.244  Sum_probs=39.1

Q ss_pred             ccCCceeechhHHHHHHHHhhcCCC------CCCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          177 IDVSEVRGRDEEMRSIKSMLLCQGS------DQQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       177 ~~~~~~vGR~~e~~~l~~~L~~~~~------~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      +.-.++.|-++.+++|.+.+..+-.      ..+-..++-|.++|++|+|||+||+.+++.
T Consensus       169 v~~~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~  229 (428)
T 4b4t_K          169 VTYADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANS  229 (428)
T ss_dssp             CCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHH
T ss_pred             CCHHHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            3445788999988888776642100      001234567889999999999999999984

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.75  E-value=4e-05  Score=86.08  Aligned_cols=157  Identities=17%  Similarity=0.259  Sum_probs=88.7

Q ss_pred             CceeechhHHHHHHHHhhcCCCCC--CCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQ--QTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAK  257 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~--~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  257 (583)
                      ..++|.+..++.+...+.......  .......+.++|++|+|||+||+.+++..  ...-...+.++++......... 
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l--~~~~~~~i~i~~s~~~~~~~~~-  567 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESI--FGDEESMIRIDMSEYMEKHSTS-  567 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHH--HSCTTCEEEEEGGGGCSSCCCC-
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHh--cCCCcceEEEechhcccccccc-
Confidence            468999999988888876432110  11233478999999999999999998732  1111233455554322110000 


Q ss_pred             HHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccC-----------CCCceEEEecCc
Q 036323          258 ATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNG-----------LRGSKILITTRK  326 (583)
Q Consensus       258 ~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~-----------~~gs~IlvTtR~  326 (583)
                                     ...+...++   .....+|+||++..........|...+..+           ..+..||+||..
T Consensus       568 ---------------~~~l~~~~~---~~~~~vl~lDEi~~~~~~~~~~Ll~~le~g~~~~~~g~~~~~~~~~iI~ttn~  629 (758)
T 3pxi_A          568 ---------------GGQLTEKVR---RKPYSVVLLDAIEKAHPDVFNILLQVLEDGRLTDSKGRTVDFRNTILIMTSNV  629 (758)
T ss_dssp             ------------------CHHHHH---HCSSSEEEEECGGGSCHHHHHHHHHHHHHSBCC-----CCBCTTCEEEEEESS
T ss_pred             ---------------cchhhHHHH---hCCCeEEEEeCccccCHHHHHHHHHHhccCeEEcCCCCEeccCCeEEEEeCCC
Confidence                           011111221   123459999999766555566666665432           235678888873


Q ss_pred             h-----HH----Hhhh-----cC-CCeEEcCCCChHHHHHHHHHHh
Q 036323          327 E-----TV----ARMM-----ES-TDIVYVQGLSELECWSLFRRFA  357 (583)
Q Consensus       327 ~-----~v----~~~~-----~~-~~~~~l~~L~~~ea~~Lf~~~a  357 (583)
                      .     .+    ...+     .. ...+.+.+|+.++-..++....
T Consensus       630 ~~~~~~~~~~~~~~~f~p~l~~Rl~~~i~~~~l~~~~~~~i~~~~l  675 (758)
T 3pxi_A          630 GASEKDKVMGELKRAFRPEFINRIDEIIVFHSLEKKHLTEIVSLMS  675 (758)
T ss_dssp             STTCCHHHHHHHHHHSCHHHHTTSSEEEECC--CHHHHHHHHHHHH
T ss_pred             ChhhHHHHHHHHHhhCCHHHHhhCCeEEecCCCCHHHHHHHHHHHH
Confidence            1     11    1111     11 3578899999988887776654

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=97.74  E-value=0.00026  Score=68.20  Aligned_cols=187  Identities=13%  Similarity=0.068  Sum_probs=92.5

Q ss_pred             cCCceeechhHHHHHHHHhh---cCCC--CCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCCh
Q 036323          178 DVSEVRGRDEEMRSIKSMLL---CQGS--DQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDE  252 (583)
Q Consensus       178 ~~~~~vGR~~e~~~l~~~L~---~~~~--~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  252 (583)
                      .-.+++|.+..++++.+.+.   ....  .......+-+.|+|++|+||||||+.+++..  ...|   +.++.+.-...
T Consensus        10 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~--~~~~---~~i~~~~~~~~   84 (257)
T 1lv7_A           10 TFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA--KVPF---FTISGSDFVEM   84 (257)
T ss_dssp             CGGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHH--TCCE---EEECSCSSTTS
T ss_pred             CHHHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHc--CCCE---EEEeHHHHHHH
Confidence            34578999888777765542   1100  0001123358899999999999999998732  2122   33332211100


Q ss_pred             HHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccc--------------cchHhhHHhhcc--CCC
Q 036323          253 FNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDY--------------RKWEPFRNCLMN--GLR  316 (583)
Q Consensus       253 ~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~--------------~~~~~l~~~l~~--~~~  316 (583)
                                ..     ......+...+.......+.++++|+++.-..              .....+...+..  ...
T Consensus        85 ----------~~-----~~~~~~~~~~~~~a~~~~~~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~  149 (257)
T 1lv7_A           85 ----------FV-----GVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNE  149 (257)
T ss_dssp             ----------CC-----CCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSS
T ss_pred             ----------hh-----hhhHHHHHHHHHHHHHcCCeeehhhhhhhhccCCCCCcCCCchHHHHHHHHHHHHhhCcccCC
Confidence                      00     00111222223333345678999999832111              011222222221  233


Q ss_pred             CceEEEecCchH-HHhhh-c---CCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCC-Cccchhh
Q 036323          317 GSKILITTRKET-VARMM-E---STDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKG-LPLAAKT  389 (583)
Q Consensus       317 gs~IlvTtR~~~-v~~~~-~---~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~G-lPLai~~  389 (583)
                      +..||.||.... +...+ .   -...+.+...+.++-.+++......... .....    ...++..+.| .+--|..
T Consensus       150 ~~~vI~~tn~~~~l~~~l~r~~rf~~~i~i~~P~~~~r~~il~~~~~~~~l-~~~~~----~~~la~~~~G~~~~dl~~  223 (257)
T 1lv7_A          150 GIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPL-APDID----AAIIARGTPGFSGADLAN  223 (257)
T ss_dssp             CEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCB-CTTCC----HHHHHHTCTTCCHHHHHH
T ss_pred             CEEEEEeeCCchhCCHHHcCCCcCCeEEEeCCCCHHHHHHHHHHHHhcCCC-Ccccc----HHHHHHHcCCCCHHHHHH
Confidence            455666766543 21111 1   1346778888888888888776522111 11111    2346677777 5544443

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=97.73  E-value=2.3e-05  Score=68.87  Aligned_cols=87  Identities=14%  Similarity=0.020  Sum_probs=49.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQ  287 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  287 (583)
                      ...+.|+|..|+|||||++.+++..... .+ ..+++....-...                             . +..+
T Consensus        36 g~~~~l~G~~G~GKTtL~~~i~~~~~~~-g~-~~~~~~~~~~~~~-----------------------------~-~~~~   83 (149)
T 2kjq_A           36 GQFIYVWGEEGAGKSHLLQAWVAQALEA-GK-NAAYIDAASMPLT-----------------------------D-AAFE   83 (149)
T ss_dssp             CSEEEEESSSTTTTCHHHHHHHHHHHTT-TC-CEEEEETTTSCCC-----------------------------G-GGGG
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHhc-CC-cEEEEcHHHhhHH-----------------------------H-HHhC
Confidence            4588999999999999999998742211 11 2455554432211                             1 1234


Q ss_pred             ceeEEEcCCCcccccchHhhHHhhcc-CCCCce-EEEecCc
Q 036323          288 KFFMVLDNLWTDDYRKWEPFRNCLMN-GLRGSK-ILITTRK  326 (583)
Q Consensus       288 ~~LlVlDdv~~~~~~~~~~l~~~l~~-~~~gs~-IlvTtR~  326 (583)
                      .-+|||||+...+...-+.+...+.. ...|.. ||+||+.
T Consensus        84 ~~lLilDE~~~~~~~~~~~l~~li~~~~~~g~~~iiits~~  124 (149)
T 2kjq_A           84 AEYLAVDQVEKLGNEEQALLFSIFNRFRNSGKGFLLLGSEY  124 (149)
T ss_dssp             CSEEEEESTTCCCSHHHHHHHHHHHHHHHHTCCEEEEEESS
T ss_pred             CCEEEEeCccccChHHHHHHHHHHHHHHHcCCcEEEEECCC
Confidence            66899999965333222333333321 122343 8888873

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=97.69  E-value=0.0002  Score=80.41  Aligned_cols=157  Identities=13%  Similarity=0.105  Sum_probs=84.6

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCcc---ccc-cCceEEE-EEeCCCCChHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDND---VIN-NFEIRVR-VCVSDPFDEFN  254 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~---~~~-~f~~~~w-v~~~~~~~~~~  254 (583)
                      ..++||+.+++++.+.|....       ..-+.|+|.+|+|||++|+.+++...   +.. .....+| ++.+.-     
T Consensus       186 d~~iGr~~~i~~l~~~l~~~~-------~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~~~l-----  253 (758)
T 1r6b_X          186 DPLIGREKELERAIQVLCRRR-------KNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSL-----  253 (758)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSS-------SCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC-------
T ss_pred             CCccCCHHHHHHHHHHHhccC-------CCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcHHHH-----
Confidence            468999999999999996432       34567999999999999999876321   111 1122222 111110     


Q ss_pred             HHHHHHHHhhcCccccccHHHHHHHHHHHh-cCCceeEEEcCCCcccc-----cchHhhHHhhcc--CCCCceEEEecCc
Q 036323          255 VAKATIEELEGSAIDLHELNSLLRRIGANI-AGQKFFMVLDNLWTDDY-----RKWEPFRNCLMN--GLRGSKILITTRK  326 (583)
Q Consensus       255 ~~~~il~~l~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~~-----~~~~~l~~~l~~--~~~gs~IlvTtR~  326 (583)
                              +.+. ......+.....+.+.+ ..++.+|+||+++.-..     ..-......|..  ...+..+|.+|..
T Consensus       254 --------~~~~-~~~g~~e~~l~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~~~~~~~~~~L~~~l~~~~~~~I~at~~  324 (758)
T 1r6b_X          254 --------LAGT-KYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSGKIRVIGSTTY  324 (758)
T ss_dssp             ---------CCC-CCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSSCCCEEEEEECH
T ss_pred             --------hccc-cccchHHHHHHHHHHHHHhcCCeEEEEechHHHhhcCCCCcchHHHHHHHHHHHhCCCeEEEEEeCc
Confidence                    0000 11122222223333333 34578999999964200     001111222211  1234556666654


Q ss_pred             hHHHhh-------hcCCCeEEcCCCChHHHHHHHHHHh
Q 036323          327 ETVARM-------MESTDIVYVQGLSELECWSLFRRFA  357 (583)
Q Consensus       327 ~~v~~~-------~~~~~~~~l~~L~~~ea~~Lf~~~a  357 (583)
                      ......       ......+.+.+++.++..+++....
T Consensus       325 ~~~~~~~~~d~aL~~Rf~~i~v~~p~~~e~~~il~~l~  362 (758)
T 1r6b_X          325 QEFSNIFEKDRALARRFQKIDITEPSIEETVQIINGLK  362 (758)
T ss_dssp             HHHHCCCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHH
T ss_pred             hHHhhhhhcCHHHHhCceEEEcCCCCHHHHHHHHHHHH
Confidence            432211       1113468899999999988887654

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.63  E-value=5.9e-05  Score=84.71  Aligned_cols=149  Identities=13%  Similarity=0.116  Sum_probs=78.8

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCc---cccccCceEEEEEeCCCCChHHHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDN---DVINNFEIRVRVCVSDPFDEFNVA  256 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~---~~~~~f~~~~wv~~~~~~~~~~~~  256 (583)
                      ..++||+.+++++...|....       ..-+.|+|++|+|||++|+.+++..   .+.......-++.+.-        
T Consensus       180 d~iiG~~~~i~~l~~~l~~~~-------~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~~--------  244 (758)
T 3pxi_A          180 DPVIGRSKEIQRVIEVLSRRT-------KNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDM--------  244 (758)
T ss_dssp             CCCCCCHHHHHHHHHHHHCSS-------SCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC----------
T ss_pred             CCccCchHHHHHHHHHHhCCC-------CCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEecc--------
Confidence            469999999999999996533       2346799999999999999987631   0111111111111110        


Q ss_pred             HHHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCchHHHh-----
Q 036323          257 KATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKETVAR-----  331 (583)
Q Consensus       257 ~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~~v~~-----  331 (583)
                         .....+  .-......+..   .....++.+|++|.-  .  .....+...+.  ....++|.||.......     
T Consensus       245 ---g~~~~G--~~e~~l~~~~~---~~~~~~~~iLfiD~~--~--~~~~~L~~~l~--~~~v~~I~at~~~~~~~~~~~d  310 (758)
T 3pxi_A          245 ---GTKYRG--EFEDRLKKVMD---EIRQAGNIILFIDAA--I--DASNILKPSLA--RGELQCIGATTLDEYRKYIEKD  310 (758)
T ss_dssp             -------------CTTHHHHHH---HHHTCCCCEEEECC------------CCCTT--SSSCEEEEECCTTTTHHHHTTC
T ss_pred             ---cccccc--hHHHHHHHHHH---HHHhcCCEEEEEcCc--h--hHHHHHHHHHh--cCCEEEEeCCChHHHHHHhhcc
Confidence               000000  00112222222   223467889999921  1  12222322222  22355666665433111     


Q ss_pred             -h-hcCCCeEEcCCCChHHHHHHHHHHh
Q 036323          332 -M-MESTDIVYVQGLSELECWSLFRRFA  357 (583)
Q Consensus       332 -~-~~~~~~~~l~~L~~~ea~~Lf~~~a  357 (583)
                       . ......+.+.+++.++..+++....
T Consensus       311 ~al~rRf~~i~v~~p~~~~~~~il~~~~  338 (758)
T 3pxi_A          311 AALERRFQPIQVDQPSVDESIQILQGLR  338 (758)
T ss_dssp             SHHHHSEEEEECCCCCHHHHHHHHHHTT
T ss_pred             HHHHhhCcEEEeCCCCHHHHHHHHHHHH
Confidence             0 1123578999999999999998654

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=97.61  E-value=0.00056  Score=71.67  Aligned_cols=181  Identities=14%  Similarity=0.134  Sum_probs=95.6

Q ss_pred             CCceeechhHHHHHHHHhhcCCCC-----CCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSD-----QQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEF  253 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~-----~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  253 (583)
                      -.+++|.++.++++.+.+..-...     -+...++-|.|+|++|+|||+||+.+++..  ...|   +.++.+.-....
T Consensus        15 f~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~--~~~f---~~is~~~~~~~~   89 (476)
T 2ce7_A           15 FKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEA--NVPF---FHISGSDFVELF   89 (476)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHH--TCCE---EEEEGGGTTTCC
T ss_pred             HHHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHc--CCCe---eeCCHHHHHHHH
Confidence            456899988777776654321000     001123347899999999999999998732  2222   233333221100


Q ss_pred             HHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccc--------------cchHhhHHhhcc--CCCC
Q 036323          254 NVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDY--------------RKWEPFRNCLMN--GLRG  317 (583)
Q Consensus       254 ~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~--------------~~~~~l~~~l~~--~~~g  317 (583)
                                .    . .........+.......+.+|+||++..-..              .....+...+..  ...+
T Consensus        90 ----------~----g-~~~~~~r~lf~~A~~~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~~~~  154 (476)
T 2ce7_A           90 ----------V----G-VGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSKEG  154 (476)
T ss_dssp             ----------T----T-HHHHHHHHHHHHHHHTCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCGGGT
T ss_pred             ----------h----c-ccHHHHHHHHHHHHhcCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCCCCC
Confidence                      0    0 0111122233334456789999999954211              012233333321  1235


Q ss_pred             ceEEEecCchHHHh-h-hcC---CCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCc
Q 036323          318 SKILITTRKETVAR-M-MES---TDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLP  384 (583)
Q Consensus       318 s~IlvTtR~~~v~~-~-~~~---~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlP  384 (583)
                      ..||.||....... . ...   ...+.+++.+.++-.+++..++..... .....    ...|++.+.|..
T Consensus       155 viVIaaTn~~~~Ld~allR~gRFd~~i~i~~Pd~~~R~~Il~~~~~~~~l-~~~v~----l~~la~~t~G~s  221 (476)
T 2ce7_A          155 IIVMAATNRPDILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNKPL-AEDVN----LEIIAKRTPGFV  221 (476)
T ss_dssp             EEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCB-CTTCC----HHHHHHTCTTCC
T ss_pred             EEEEEecCChhhhchhhcccCcceeEeecCCCCHHHHHHHHHHHHHhCCC-cchhh----HHHHHHhcCCCc
Confidence            56777776654322 1 121   337888888888888888776532211 11111    344788888877

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.55  E-value=0.00072  Score=69.77  Aligned_cols=178  Identities=16%  Similarity=0.120  Sum_probs=93.7

Q ss_pred             CceeechhHHHHHHHHhhcC----CC--CCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQ----GS--DQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEF  253 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~----~~--~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  253 (583)
                      ..+.|-++.+++|.+.+..+    .-  .-+-..++-|.++|++|+|||.||+.+++.  ....|   +.+..+.-.+  
T Consensus       209 ~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e--~~~~f---i~vs~s~L~s--  281 (467)
T 4b4t_H          209 SDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANR--TDATF---IRVIGSELVQ--  281 (467)
T ss_dssp             SSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHH--HTCEE---EEEEGGGGCC--
T ss_pred             HHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhc--cCCCe---EEEEhHHhhc--
Confidence            46889998888887764310    00  001134677889999999999999999984  22222   2333322110  


Q ss_pred             HHHHHHHHHhhcCccccccHHHHHHH-HHHHhcCCceeEEEcCCCccc------cc--------chHhhHHhhcc--CCC
Q 036323          254 NVAKATIEELEGSAIDLHELNSLLRR-IGANIAGQKFFMVLDNLWTDD------YR--------KWEPFRNCLMN--GLR  316 (583)
Q Consensus       254 ~~~~~il~~l~~~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~------~~--------~~~~l~~~l~~--~~~  316 (583)
                                  ..  ....+...+. ....-...+++|++|++..-.      ..        ....++..+..  ...
T Consensus       282 ------------k~--vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~  347 (467)
T 4b4t_H          282 ------------KY--VGEGARMVRELFEMARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDPRG  347 (467)
T ss_dssp             ------------CS--SSHHHHHHHHHHHHHHHTCSEEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSSCCTT
T ss_pred             ------------cc--CCHHHHHHHHHHHHHHhcCCceEeecccccccccccCcCCCccHHHHHHHHHHHHHhhccCCCC
Confidence                        00  0111111222 222224578999999985311      00        11122222222  233


Q ss_pred             CceEEEecCchHHH-hh-h---cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCC
Q 036323          317 GSKILITTRKETVA-RM-M---ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGL  383 (583)
Q Consensus       317 gs~IlvTtR~~~v~-~~-~---~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~Gl  383 (583)
                      +..||.||...... .. +   .-...++++..+.++-.++|+.+...-.. ...-++    ..|++.|.|.
T Consensus       348 ~ViVIaATNrpd~LDpALlRpGRFD~~I~i~lPd~~~R~~Ilk~~l~~~~l-~~dvdl----~~LA~~T~Gf  414 (467)
T 4b4t_H          348 NIKVMFATNRPNTLDPALLRPGRIDRKVEFSLPDLEGRANIFRIHSKSMSV-ERGIRW----ELISRLCPNS  414 (467)
T ss_dssp             TEEEEEECSCTTSBCHHHHSTTTCCEEECCCCCCHHHHHHHHHHHHTTSCB-CSSCCH----HHHHHHCCSC
T ss_pred             cEEEEeCCCCcccCChhhhccccccEEEEeCCcCHHHHHHHHHHHhcCCCC-CCCCCH----HHHHHHCCCC
Confidence            44566677544321 11 1   12567888888888888888876532211 111222    4477778774

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.54  E-value=0.00037  Score=71.92  Aligned_cols=181  Identities=17%  Similarity=0.125  Sum_probs=94.8

Q ss_pred             ccCCceeechhHHHHHHHHhhcC----CC--CCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCC
Q 036323          177 IDVSEVRGRDEEMRSIKSMLLCQ----GS--DQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPF  250 (583)
Q Consensus       177 ~~~~~~vGR~~e~~~l~~~L~~~----~~--~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~  250 (583)
                      ..-..+.|-++.+++|.+.+..+    .-  ..+-..++-|.++|++|+|||.||+.+++.  ....|   +.++.+.-.
T Consensus       178 ~t~~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e--~~~~f---~~v~~s~l~  252 (434)
T 4b4t_M          178 ETYSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQ--TNATF---LKLAAPQLV  252 (434)
T ss_dssp             CCGGGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHH--HTCEE---EEEEGGGGC
T ss_pred             CChHhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHH--hCCCE---EEEehhhhh
Confidence            34467889999998888764321    00  001234677889999999999999999984  22222   233332211


Q ss_pred             ChHHHHHHHHHHhhcCccccccHHHHHHHHHH-HhcCCceeEEEcCCCcc-------ccc---c----hHhhHHhhcc--
Q 036323          251 DEFNVAKATIEELEGSAIDLHELNSLLRRIGA-NIAGQKFFMVLDNLWTD-------DYR---K----WEPFRNCLMN--  313 (583)
Q Consensus       251 ~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~-------~~~---~----~~~l~~~l~~--  313 (583)
                      +              ..  ....+...+.+.. .-...+++|++|+++.-       ...   .    ...++..+..  
T Consensus       253 ~--------------~~--vGese~~ir~lF~~A~~~aP~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~  316 (434)
T 4b4t_M          253 Q--------------MY--IGEGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFS  316 (434)
T ss_dssp             S--------------SC--SSHHHHHHHHHHHHHHHHCSEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSC
T ss_pred             h--------------cc--cchHHHHHHHHHHHHHhcCCeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhccC
Confidence            0              00  0111112222221 22346899999998421       000   1    1123333322  


Q ss_pred             CCCCceEEEecCchHHHh-hh-c---CCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCC
Q 036323          314 GLRGSKILITTRKETVAR-MM-E---STDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGL  383 (583)
Q Consensus       314 ~~~gs~IlvTtR~~~v~~-~~-~---~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~Gl  383 (583)
                      ...+..||.||..+.... .+ .   -...++++..+.++-.++|+.+.-.-.. ...-++    ..|++.+.|.
T Consensus       317 ~~~~ViVIaaTNrp~~LD~AllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~-~~dvdl----~~lA~~t~G~  386 (434)
T 4b4t_M          317 SDDRVKVLAATNRVDVLDPALLRSGRLDRKIEFPLPSEDSRAQILQIHSRKMTT-DDDINW----QELARSTDEF  386 (434)
T ss_dssp             SSCSSEEEEECSSCCCCCTTTCSTTSEEEEEECCCCCHHHHHHHHHHHHHHSCB-CSCCCH----HHHHHHCSSC
T ss_pred             CCCCEEEEEeCCCchhcCHhHhcCCceeEEEEeCCcCHHHHHHHHHHHhcCCCC-CCcCCH----HHHHHhCCCC
Confidence            223445666776543321 11 1   1456888888888888888766532211 111122    4577777764

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.45  E-value=0.00069  Score=69.21  Aligned_cols=180  Identities=17%  Similarity=0.147  Sum_probs=93.8

Q ss_pred             cCCceeechhHHHHHHHHhhcCCC------CCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCC
Q 036323          178 DVSEVRGRDEEMRSIKSMLLCQGS------DQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFD  251 (583)
Q Consensus       178 ~~~~~vGR~~e~~~l~~~L~~~~~------~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  251 (583)
                      .-.++.|-++.+++|.+.+..+-.      ..+-..++-|.++|++|+|||.||+.+++.  ....|   +.++.+.-.+
T Consensus       180 ~~~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e--~~~~f---i~v~~s~l~s  254 (437)
T 4b4t_I          180 SYSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQ--TSATF---LRIVGSELIQ  254 (437)
T ss_dssp             CGGGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHH--HTCEE---EEEESGGGCC
T ss_pred             cceecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHH--hCCCE---EEEEHHHhhh
Confidence            335678899888888776532100      001234567889999999999999999984  22222   2233221110


Q ss_pred             hHHHHHHHHHHhhcCccccccHHHHHHHHHH-HhcCCceeEEEcCCCccc------c----c----chHhhHHhhcc--C
Q 036323          252 EFNVAKATIEELEGSAIDLHELNSLLRRIGA-NIAGQKFFMVLDNLWTDD------Y----R----KWEPFRNCLMN--G  314 (583)
Q Consensus       252 ~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~~------~----~----~~~~l~~~l~~--~  314 (583)
                                    .  -..+.+...+.+.. .-...+++|++|+++.-.      .    .    ....++..+..  .
T Consensus       255 --------------k--~vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~~~  318 (437)
T 4b4t_I          255 --------------K--YLGDGPRLCRQIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDD  318 (437)
T ss_dssp             --------------S--SSSHHHHHHHHHHHHHHHTCSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHCCC
T ss_pred             --------------c--cCchHHHHHHHHHHHHHhcCCcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCcCC
Confidence                          0  01111222222222 224568999999985310      0    0    11223322322  2


Q ss_pred             CCCceEEEecCchHHHh-hh-cC---CCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCC
Q 036323          315 LRGSKILITTRKETVAR-MM-ES---TDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGL  383 (583)
Q Consensus       315 ~~gs~IlvTtR~~~v~~-~~-~~---~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~Gl  383 (583)
                      ..+..||.||....... .+ .+   ...++++..+.++-.++|..+.-.-. ....-++    ..|++.+.|.
T Consensus       319 ~~~ViVIaATNrpd~LDpALlRpGRfD~~I~v~lPd~~~R~~Il~~~l~~~~-l~~dvdl----~~LA~~T~Gf  387 (437)
T 4b4t_I          319 RGDVKVIMATNKIETLDPALIRPGRIDRKILFENPDLSTKKKILGIHTSKMN-LSEDVNL----ETLVTTKDDL  387 (437)
T ss_dssp             SSSEEEEEEESCSTTCCTTSSCTTTEEEEECCCCCCHHHHHHHHHHHHTTSC-BCSCCCH----HHHHHHCCSC
T ss_pred             CCCEEEEEeCCChhhcCHHHhcCCceeEEEEcCCcCHHHHHHHHHHHhcCCC-CCCcCCH----HHHHHhCCCC
Confidence            33456666776544322 11 11   34577887788888888877653221 1111223    4467777764

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=97.40  E-value=6.3e-05  Score=73.04  Aligned_cols=54  Identities=19%  Similarity=0.267  Sum_probs=36.1

Q ss_pred             cCCceeechhHHHHHHHHhhcCCCCC-----CCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          178 DVSEVRGRDEEMRSIKSMLLCQGSDQ-----QTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       178 ~~~~~vGR~~e~~~l~~~L~~~~~~~-----~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .-..++|.+..++.|.+.+..-..+.     .....+-+.|+|++|+|||+||+.+++.
T Consensus         9 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~   67 (268)
T 2r62_A            9 RFKDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGE   67 (268)
T ss_dssp             CSTTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHH
T ss_pred             CHHHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHH
Confidence            34578999988888877654100000     0011233779999999999999999874

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=97.39  E-value=0.0021  Score=63.22  Aligned_cols=26  Identities=23%  Similarity=0.397  Sum_probs=22.7

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcC
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..++.+.++|++|+|||+||+.+++.
T Consensus        34 ~~p~~lLl~GppGtGKT~la~aiA~~   59 (293)
T 3t15_A           34 KVPLILGIWGGKGQGKSFQCELVFRK   59 (293)
T ss_dssp             CCCSEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            44568889999999999999999984

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=97.33  E-value=0.00038  Score=69.79  Aligned_cols=151  Identities=11%  Similarity=0.096  Sum_probs=83.4

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKAT  259 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  259 (583)
                      ..++|++..++.+...+...         .-+.++|++|+|||+||+.+.+.  ....|   ..+.+.......++....
T Consensus        27 ~~i~g~~~~~~~l~~~l~~~---------~~vll~G~pGtGKT~la~~la~~--~~~~~---~~i~~~~~~~~~~l~g~~   92 (331)
T 2r44_A           27 KVVVGQKYMINRLLIGICTG---------GHILLEGVPGLAKTLSVNTLAKT--MDLDF---HRIQFTPDLLPSDLIGTM   92 (331)
T ss_dssp             TTCCSCHHHHHHHHHHHHHT---------CCEEEESCCCHHHHHHHHHHHHH--TTCCE---EEEECCTTCCHHHHHEEE
T ss_pred             cceeCcHHHHHHHHHHHHcC---------CeEEEECCCCCcHHHHHHHHHHH--hCCCe---EEEecCCCCChhhcCCce
Confidence            35789999999998888643         25789999999999999999873  22222   223333332222211100


Q ss_pred             HHHhhcCccccccHHHHHHHHHHHhcCC---ceeEEEcCCCcccccchHhhHHhhccC-----------CCCceEEEecC
Q 036323          260 IEELEGSAIDLHELNSLLRRIGANIAGQ---KFFMVLDNLWTDDYRKWEPFRNCLMNG-----------LRGSKILITTR  325 (583)
Q Consensus       260 l~~l~~~~~~~~~~~~~~~~l~~~l~~k---~~LlVlDdv~~~~~~~~~~l~~~l~~~-----------~~gs~IlvTtR  325 (583)
                         .........           .+...   ..+|+||++..........+...+...           .....|+.|+.
T Consensus        93 ---~~~~~~~~~-----------~~~~g~l~~~vl~iDEi~~~~~~~~~~Ll~~l~~~~~~~~g~~~~~~~~~~viat~n  158 (331)
T 2r44_A           93 ---IYNQHKGNF-----------EVKKGPVFSNFILADEVNRSPAKVQSALLECMQEKQVTIGDTTYPLDNPFLVLATQN  158 (331)
T ss_dssp             ---EEETTTTEE-----------EEEECTTCSSEEEEETGGGSCHHHHHHHHHHHHHSEEEETTEEEECCSSCEEEEEEC
T ss_pred             ---eecCCCCce-----------EeccCcccccEEEEEccccCCHHHHHHHHHHHhcCceeeCCEEEECCCCEEEEEecC
Confidence               000000000           00111   259999999665544444455444321           23444555555


Q ss_pred             chH------HHhh-hcCCC-eEEcCCCChHHHHHHHHHHhc
Q 036323          326 KET------VARM-MESTD-IVYVQGLSELECWSLFRRFAL  358 (583)
Q Consensus       326 ~~~------v~~~-~~~~~-~~~l~~L~~~ea~~Lf~~~a~  358 (583)
                      ...      +... ..... .+.+.+++.++-.+++.....
T Consensus       159 p~~~~~~~~l~~~l~~Rf~~~i~i~~p~~~~~~~il~~~~~  199 (331)
T 2r44_A          159 PVEQEGTYPLPEAQVDRFMMKIHLTYLDKESELEVMRRVSN  199 (331)
T ss_dssp             TTCCSCCCCCCHHHHTTSSEEEECCCCCHHHHHHHHHHHHC
T ss_pred             CCcccCcccCCHHHHhheeEEEEcCCCCHHHHHHHHHhccc
Confidence            221      1111 12223 588999999998888888763

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=97.33  E-value=0.00049  Score=77.27  Aligned_cols=134  Identities=16%  Similarity=0.179  Sum_probs=72.2

Q ss_pred             CceeechhHHHHHHHHhhcCCCC--CCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSD--QQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAK  257 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~--~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  257 (583)
                      ..++|.+..++.+...+......  ........+.++|++|+|||+||+.+.+..  .   ...+.++++.......   
T Consensus       458 ~~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l--~---~~~~~i~~s~~~~~~~---  529 (758)
T 1r6b_X          458 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL--G---IELLRFDMSEYMERHT---  529 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH--T---CEEEEEEGGGCSSSSC---
T ss_pred             hhccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHh--c---CCEEEEechhhcchhh---
Confidence            45889999888888776532100  011234578999999999999999998732  1   2234455443321100   


Q ss_pred             HHHHHhhcCcccccc---HHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccCC-----------CCceEEEe
Q 036323          258 ATIEELEGSAIDLHE---LNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGL-----------RGSKILIT  323 (583)
Q Consensus       258 ~il~~l~~~~~~~~~---~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~IlvT  323 (583)
                        ...+.+.++....   ...+...++   .....+|+||++.......++.|...+..+.           .+..||+|
T Consensus       530 --~~~l~g~~~g~~g~~~~~~l~~~~~---~~~~~vl~lDEi~~~~~~~~~~Ll~~le~~~~~~~~g~~~~~~~~~iI~t  604 (758)
T 1r6b_X          530 --VSRLIGAPPGYVGFDQGGLLTDAVI---KHPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDNNGRKADFRNVVLVMT  604 (758)
T ss_dssp             --CSSSCCCCSCSHHHHHTTHHHHHHH---HCSSEEEEEETGGGSCHHHHHHHHHHHHHSEEEETTTEEEECTTEEEEEE
T ss_pred             --HhhhcCCCCCCcCccccchHHHHHH---hCCCcEEEEeCccccCHHHHHHHHHHhcCcEEEcCCCCEEecCCeEEEEe
Confidence              0011111111100   011222222   2345799999997655555566666554321           24557777


Q ss_pred             cCc
Q 036323          324 TRK  326 (583)
Q Consensus       324 tR~  326 (583)
                      |..
T Consensus       605 sN~  607 (758)
T 1r6b_X          605 TNA  607 (758)
T ss_dssp             ECS
T ss_pred             cCc
Confidence            754

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=97.29  E-value=0.0025  Score=70.82  Aligned_cols=181  Identities=10%  Similarity=0.066  Sum_probs=95.8

Q ss_pred             CCceeechhHHHHHHHHhhc----CCC--CCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCCh
Q 036323          179 VSEVRGRDEEMRSIKSMLLC----QGS--DQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDE  252 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~----~~~--~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  252 (583)
                      -..+.|-++.+++|.+++.-    +.-  .-+-..++-|.++|++|+|||+||+.+++..  ..+|   +.++.+.    
T Consensus       203 ~~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~el--g~~~---~~v~~~~----  273 (806)
T 3cf2_A          203 YDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET--GAFF---FLINGPE----  273 (806)
T ss_dssp             GGGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTT--TCEE---EEEEHHH----
T ss_pred             hhhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHh--CCeE---EEEEhHH----
Confidence            34678888888888776532    110  0012346778999999999999999999853  2222   2333211    


Q ss_pred             HHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCccc------ccc-----hHhhHHhhcc--CCCCce
Q 036323          253 FNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDD------YRK-----WEPFRNCLMN--GLRGSK  319 (583)
Q Consensus       253 ~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~------~~~-----~~~l~~~l~~--~~~gs~  319 (583)
                                +.... .......+...........+.+|+||+++.--      ...     ...+...+..  ...+..
T Consensus       274 ----------l~sk~-~gese~~lr~lF~~A~~~~PsIIfIDEiDal~~~r~~~~~~~~~riv~~LL~~mdg~~~~~~V~  342 (806)
T 3cf2_A          274 ----------IMSKL-AGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVI  342 (806)
T ss_dssp             ----------HHSSC-TTHHHHHHHHHHHHHTTSCSEEEEEESGGGTCCTTTTCCCTTHHHHHHHHHTHHHHCCGGGCEE
T ss_pred             ----------hhccc-chHHHHHHHHHHHHHHHcCCeEEEEehhcccccccCCCCChHHHHHHHHHHHHHhcccccCCEE
Confidence                      11110 01111222233333345678999999985311      011     1122222221  122344


Q ss_pred             EEEecCchH-HHhhhc----CCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCc
Q 036323          320 ILITTRKET-VARMME----STDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLP  384 (583)
Q Consensus       320 IlvTtR~~~-v~~~~~----~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlP  384 (583)
                      ||.||.... +-..+.    -...+++...+.++-.++|..+..... .....+    ...|++++.|.-
T Consensus       343 VIaaTN~~d~LD~ALrR~GRFd~~I~i~~Pd~~~R~~IL~~~l~~~~-~~~dvd----l~~lA~~T~Gfs  407 (806)
T 3cf2_A          343 VMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMK-LADDVD----LEQVANETHGHV  407 (806)
T ss_dssp             EEEECSSTTTSCTTTTSTTSSCEEEECCCCCHHHHHHHHHHTCSSSE-ECTTCC----HHHHHHHCCSCC
T ss_pred             EEEecCChhhcCHHHhCCcccceEEecCCCCHHHHHHHHHHHhcCCC-CCcccC----HHHHHHhcCCCC
Confidence            555665443 222221    145788888888888888877652211 112222    345777887754

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=97.25  E-value=0.00086  Score=62.61  Aligned_cols=86  Identities=16%  Similarity=0.080  Sum_probs=52.2

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhc-----------C-ccccccHH
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEG-----------S-AIDLHELN  274 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~-----------~-~~~~~~~~  274 (583)
                      ...++.|+|.+|+|||||+..++.     ..-..++|++.....+...+.. +....+.           . .....+..
T Consensus        19 ~G~~~~i~G~~GsGKTtl~~~l~~-----~~~~~v~~i~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (220)
T 2cvh_A           19 PGVLTQVYGPYASGKTTLALQTGL-----LSGKKVAYVDTEGGFSPERLVQ-MAETRGLNPEEALSRFILFTPSDFKEQR   92 (220)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHH-----HHCSEEEEEESSCCCCHHHHHH-HHHTTTCCHHHHHHHEEEECCTTTSHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH-----HcCCcEEEEECCCCCCHHHHHH-HHHhcCCChHHHhhcEEEEecCCHHHHH
Confidence            355899999999999999999886     1224578888766555544332 3322211           0 11112223


Q ss_pred             HHHHHHHHHhcCCceeEEEcCCCc
Q 036323          275 SLLRRIGANIAGQKFFMVLDNLWT  298 (583)
Q Consensus       275 ~~~~~l~~~l~~k~~LlVlDdv~~  298 (583)
                      .....++..+..++-+||||.+..
T Consensus        93 ~~~~~~~~l~~~~~~lliiD~~~~  116 (220)
T 2cvh_A           93 RVIGSLKKTVDSNFALVVVDSITA  116 (220)
T ss_dssp             HHHHHHHHHCCTTEEEEEEECCCC
T ss_pred             HHHHHHHHHhhcCCCEEEEcCcHH
Confidence            344555555544577999999743

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=97.19  E-value=0.0009  Score=76.05  Aligned_cols=137  Identities=18%  Similarity=0.255  Sum_probs=71.6

Q ss_pred             CceeechhHHHHHHHHhhcCCCC--CCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSD--QQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAK  257 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~--~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  257 (583)
                      ..++|.+..++.+...+......  ........+.|+|++|+|||+||+.+++...  ..-...+.++++....... . 
T Consensus       558 ~~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~~--~~~~~~i~i~~~~~~~~~~-~-  633 (854)
T 1qvr_A          558 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLF--DTEEAMIRIDMTEYMEKHA-V-  633 (854)
T ss_dssp             HHSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHH--SSGGGEEEECTTTCCSSGG-G-
T ss_pred             cccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhc--CCCCcEEEEechhccchhH-H-
Confidence            35799999998888877543100  0112345788999999999999999987321  1111233444443322110 0 


Q ss_pred             HHHHHhhcCcccc---ccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccCC-----------CCceEEEe
Q 036323          258 ATIEELEGSAIDL---HELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGL-----------RGSKILIT  323 (583)
Q Consensus       258 ~il~~l~~~~~~~---~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~IlvT  323 (583)
                         ..+.+.++..   .....+...+..   ...-+|+||++..........|...+..+.           .++.||+|
T Consensus       634 ---s~l~g~~~~~~G~~~~g~l~~~~~~---~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~g~~vd~~~~iiI~t  707 (854)
T 1qvr_A          634 ---SRLIGAPPGYVGYEEGGQLTEAVRR---RPYSVILFDEIEKAHPDVFNILLQILDDGRLTDSHGRTVDFRNTVIILT  707 (854)
T ss_dssp             ---GGC--------------CHHHHHHH---CSSEEEEESSGGGSCHHHHHHHHHHHTTTEECCSSSCCEECTTEEEEEE
T ss_pred             ---HHHcCCCCCCcCccccchHHHHHHh---CCCeEEEEecccccCHHHHHHHHHHhccCceECCCCCEeccCCeEEEEe
Confidence               1111111100   000112222221   234599999997655555666666664321           24457888


Q ss_pred             cCc
Q 036323          324 TRK  326 (583)
Q Consensus       324 tR~  326 (583)
                      |..
T Consensus       708 sn~  710 (854)
T 1qvr_A          708 SNL  710 (854)
T ss_dssp             CCT
T ss_pred             cCc
Confidence            774

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=97.17  E-value=0.0003  Score=69.79  Aligned_cols=43  Identities=21%  Similarity=0.210  Sum_probs=29.8

Q ss_pred             chhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          185 RDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       185 R~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      +...++.+.+++....    ......+.|+|++|+|||+||..+++.
T Consensus       133 ~~~~~~~~~~~i~~~~----~~~~~~lll~G~~GtGKT~La~aia~~  175 (308)
T 2qgz_A          133 RMEAFSAILDFVEQYP----SAEQKGLYLYGDMGIGKSYLLAAMAHE  175 (308)
T ss_dssp             HHHHHHHHHHHHHHCS----CSSCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcc----ccCCceEEEECCCCCCHHHHHHHHHHH
Confidence            3344555556665432    112467889999999999999999884

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=97.08  E-value=0.0055  Score=58.63  Aligned_cols=160  Identities=11%  Similarity=0.104  Sum_probs=77.8

Q ss_pred             cCCceeechhHHHHHHHHhhcCCCC-----CCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCCh
Q 036323          178 DVSEVRGRDEEMRSIKSMLLCQGSD-----QQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDE  252 (583)
Q Consensus       178 ~~~~~vGR~~e~~~l~~~L~~~~~~-----~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  252 (583)
                      .-.+++|.+..+.++.+....-...     -.-.-.+-+.|+|++|+|||||++.++....     ...+.++..     
T Consensus        14 ~~~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~~-----~~~i~~~~~-----   83 (254)
T 1ixz_A           14 TFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR-----VPFITASGS-----   83 (254)
T ss_dssp             CGGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTT-----CCEEEEEHH-----
T ss_pred             CHHHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHhC-----CCEEEeeHH-----
Confidence            3457889887666665543211000     0000112288999999999999999987422     122223211     


Q ss_pred             HHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCccc----------ccc----hHhhHHhhccCC--C
Q 036323          253 FNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDD----------YRK----WEPFRNCLMNGL--R  316 (583)
Q Consensus       253 ~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~----------~~~----~~~l~~~l~~~~--~  316 (583)
                       .+    ....    .. .....+...++..-...+.++++|++..-.          ...    ...+...+..+.  .
T Consensus        84 -~~----~~~~----~~-~~~~~i~~~~~~~~~~~~~i~~~Deid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~g~~~~~  153 (254)
T 1ixz_A           84 -DF----VEMF----VG-VGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDT  153 (254)
T ss_dssp             -HH----HHSC----TT-HHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTC
T ss_pred             -HH----HHHH----hh-HHHHHHHHHHHHHHhcCCeEEEehhhhhhhcccCccccccchHHHHHHHHHHHHHhCCCCCC
Confidence             11    1000    00 000111112222222456899999993210          011    122333333222  2


Q ss_pred             CceEEEecCchHHHh-hh----cCCCeEEcCCCChHHHHHHHHHHh
Q 036323          317 GSKILITTRKETVAR-MM----ESTDIVYVQGLSELECWSLFRRFA  357 (583)
Q Consensus       317 gs~IlvTtR~~~v~~-~~----~~~~~~~l~~L~~~ea~~Lf~~~a  357 (583)
                      ...++.||..+.... .+    .-...+++...+.++-.+++...+
T Consensus       154 ~~i~~a~t~~p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~  199 (254)
T 1ixz_A          154 AIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHA  199 (254)
T ss_dssp             CEEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHH
T ss_pred             CEEEEEccCCchhCCHHHcCCCcCCeEEeeCCcCHHHHHHHHHHHH
Confidence            233445565554322 11    124568888888888888887665

>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus dsRNA, molecular motor, packaging ATPase, hexameric helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*

Probab=97.08  E-value=0.00031  Score=69.04  Aligned_cols=69  Identities=19%  Similarity=0.301  Sum_probs=44.6

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEe--CCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHh
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCV--SDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANI  284 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~--~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l  284 (583)
                      ..+++.|+|++|+|||+||.+++..     .-..++|+++  ....+..                ..+.+.....+.+.+
T Consensus       122 ~gsviLI~GpPGsGKTtLAlqlA~~-----~G~~VlyIs~~~eE~v~~~----------------~~~le~~l~~i~~~l  180 (331)
T 2vhj_A          122 ASGMVIVTGKGNSGKTPLVHALGEA-----LGGKDKYATVRFGEPLSGY----------------NTDFNVFVDDIARAM  180 (331)
T ss_dssp             ESEEEEEECSCSSSHHHHHHHHHHH-----HHTTSCCEEEEBSCSSTTC----------------BCCHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHh-----CCCCEEEEEecchhhhhhh----------------hcCHHHHHHHHHHHH
Confidence            3457789999999999999998873     1112456666  3221110                034455566666666


Q ss_pred             cCCceeEEEcCCC
Q 036323          285 AGQKFFMVLDNLW  297 (583)
Q Consensus       285 ~~k~~LlVlDdv~  297 (583)
                      ...+ +||+|++.
T Consensus       181 ~~~~-LLVIDsI~  192 (331)
T 2vhj_A          181 LQHR-VIVIDSLK  192 (331)
T ss_dssp             HHCS-EEEEECCT
T ss_pred             hhCC-EEEEeccc
Confidence            6556 99999984

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=97.07  E-value=0.00056  Score=73.39  Aligned_cols=165  Identities=16%  Similarity=0.176  Sum_probs=77.6

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKAT  259 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  259 (583)
                      ..++|-++-...+.+.+.-..-. ......++.|+|++|+||||||+.++...  ...|   .-+.++...+...+....
T Consensus        81 ~di~G~~~vk~~i~~~~~l~~~~-~~~~g~~vll~Gp~GtGKTtlar~ia~~l--~~~~---~~i~~~~~~~~~~~~g~~  154 (543)
T 3m6a_A           81 EEHHGLEKVKERILEYLAVQKLT-KSLKGPILCLAGPPGVGKTSLAKSIAKSL--GRKF---VRISLGGVRDESEIRGHR  154 (543)
T ss_dssp             HHCSSCHHHHHHHHHHHHHHHHS-SSCCSCEEEEESSSSSSHHHHHHHHHHHH--TCEE---EEECCCC-----------
T ss_pred             HHhccHHHHHHHHHHHHHHHHhc-ccCCCCEEEEECCCCCCHHHHHHHHHHhc--CCCe---EEEEecccchhhhhhhHH
Confidence            45788887777765543211000 11245689999999999999999998732  2222   222333221211111110


Q ss_pred             HHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCccccc----chHhhHHhhccCC---------------CCceE
Q 036323          260 IEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYR----KWEPFRNCLMNGL---------------RGSKI  320 (583)
Q Consensus       260 l~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~----~~~~l~~~l~~~~---------------~gs~I  320 (583)
                      ....+..   .   ..+...+... ....-+|+||++......    ....+...+....               ....|
T Consensus       155 ~~~ig~~---~---~~~~~~~~~a-~~~~~vl~lDEid~l~~~~~~~~~~~LL~~ld~~~~~~~~~~~~~~~~~~~~v~i  227 (543)
T 3m6a_A          155 RTYVGAM---P---GRIIQGMKKA-GKLNPVFLLDEIDKMSSDFRGDPSSAMLEVLDPEQNSSFSDHYIEETFDLSKVLF  227 (543)
T ss_dssp             ---------------CHHHHHHTT-CSSSEEEEEEESSSCC---------CCGGGTCTTTTTBCCCSSSCCCCBCSSCEE
T ss_pred             HHHhccC---c---hHHHHHHHHh-hccCCEEEEhhhhhhhhhhccCHHHHHHHHHhhhhcceeecccCCeeecccceEE
Confidence            0111100   0   1111122222 223338889998653322    1233444332111               23456


Q ss_pred             EEecCchHHH-hh-hcCCCeEEcCCCChHHHHHHHHHHh
Q 036323          321 LITTRKETVA-RM-MESTDIVYVQGLSELECWSLFRRFA  357 (583)
Q Consensus       321 lvTtR~~~v~-~~-~~~~~~~~l~~L~~~ea~~Lf~~~a  357 (583)
                      |.||...... .. ......+.+.+++.++-..++..+.
T Consensus       228 I~ttN~~~~l~~aL~~R~~vi~~~~~~~~e~~~Il~~~l  266 (543)
T 3m6a_A          228 IATANNLATIPGPLRDRMEIINIAGYTEIEKLEIVKDHL  266 (543)
T ss_dssp             EEECSSTTTSCHHHHHHEEEEECCCCCHHHHHHHHHHTH
T ss_pred             EeccCccccCCHHHHhhcceeeeCCCCHHHHHHHHHHHH
Confidence            6666643211 11 1113578999999999888887654

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=97.01  E-value=0.0045  Score=65.24  Aligned_cols=178  Identities=12%  Similarity=0.085  Sum_probs=91.0

Q ss_pred             cCCceeechhHHHHHHHHhh---cCCC--CCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCCh
Q 036323          178 DVSEVRGRDEEMRSIKSMLL---CQGS--DQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDE  252 (583)
Q Consensus       178 ~~~~~vGR~~e~~~l~~~L~---~~~~--~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  252 (583)
                      .-.+++|.+..+.++.+...   ....  .-.-.-.+-+.|+|++|+|||+||+.++...  .   ...+.++.+.-...
T Consensus        29 ~f~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~--~---~~~i~i~g~~~~~~  103 (499)
T 2dhr_A           29 TFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA--R---VPFITASGSDFVEM  103 (499)
T ss_dssp             CTTSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHT--T---CCEEEEEGGGGTSS
T ss_pred             CHHHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHh--C---CCEEEEehhHHHHh
Confidence            44578999887766665542   1100  0000112238899999999999999998742  2   12233333221100


Q ss_pred             HHHHHHHHHHhhcCccccccHHHHHHHHHHHhc----CCceeEEEcCCCccc----------ccc----hHhhHHhhccC
Q 036323          253 FNVAKATIEELEGSAIDLHELNSLLRRIGANIA----GQKFFMVLDNLWTDD----------YRK----WEPFRNCLMNG  314 (583)
Q Consensus       253 ~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~----~k~~LlVlDdv~~~~----------~~~----~~~l~~~l~~~  314 (583)
                                    .     .......+...++    ..+.++++|++..-.          ...    ...+...+...
T Consensus       104 --------------~-----~g~~~~~v~~lfq~a~~~~p~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ldg~  164 (499)
T 2dhr_A          104 --------------F-----VGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGF  164 (499)
T ss_dssp             --------------C-----TTHHHHHHHHHTTTSSSSSSCEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGGGC
T ss_pred             --------------h-----hhhHHHHHHHHHHHHHhcCCCEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhccc
Confidence                          0     0001112222222    245899999994311          011    12233333322


Q ss_pred             --CCCceEEEecCchHHHh-hh----cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCc
Q 036323          315 --LRGSKILITTRKETVAR-MM----ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLP  384 (583)
Q Consensus       315 --~~gs~IlvTtR~~~v~~-~~----~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlP  384 (583)
                        ..+..++.||..+.... .+    .....+.++..+.++-.+++..++-... ......    ...|++.+.|+.
T Consensus       165 ~~~~~viviAatn~p~~LD~aLlr~gRfdr~i~i~~Pd~~~R~~IL~~~~~~~~-l~~dv~----l~~lA~~t~G~~  236 (499)
T 2dhr_A          165 EKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKP-LAEDVD----LALLAKRTPGFV  236 (499)
T ss_dssp             CSSCCCEEEECCSCGGGSCTTTSSTTSSCCEEECCCCCHHHHHHHHHHTTSSSC-CCCSST----THHHHTTSCSCC
T ss_pred             ccCccEEEEEecCChhhcCcccccccccceEEecCCCCHHHHHHHHHHHHhcCC-CChHHH----HHHHHHhcCCCC
Confidence              23345556666654422 11    1245788999998888888876652211 111111    234777777765

>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=97.01  E-value=0.0016  Score=65.60  Aligned_cols=47  Identities=17%  Similarity=0.198  Sum_probs=33.8

Q ss_pred             cCCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          178 DVSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       178 ~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      +-..++|.+..++.+...+....       ..-+.|+|++|+|||+||+.+++.
T Consensus        22 ~f~~i~G~~~~~~~l~~~~~~~~-------~~~vLl~G~~GtGKT~la~~la~~   68 (350)
T 1g8p_A           22 PFSAIVGQEDMKLALLLTAVDPG-------IGGVLVFGDRGTGKSTAVRALAAL   68 (350)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHCGG-------GCCEEEECCGGGCTTHHHHHHHHH
T ss_pred             CchhccChHHHHHHHHHHhhCCC-------CceEEEECCCCccHHHHHHHHHHh
Confidence            34568999886666554443221       223889999999999999999874

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=97.00  E-value=0.0025  Score=60.41  Aligned_cols=91  Identities=16%  Similarity=0.099  Sum_probs=53.3

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccc----cCceEEEEEeCCCCChHHHHHHHHHHhhcCcc---------ccccH
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVIN----NFEIRVRVCVSDPFDEFNVAKATIEELEGSAI---------DLHEL  273 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~----~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~---------~~~~~  273 (583)
                      ...++.|+|++|+|||||+..++.......    .-..++|++....++...+ ..++..++....         ...+.
T Consensus        23 ~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~~~~~~~~-~~~~~~~g~~~~~~~~~~~~~~~~~~  101 (243)
T 1n0w_A           23 TGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERL-LAVAERYGLSGSDVLDNVAYARAFNT  101 (243)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHH-HHHHHHTTCCHHHHHHTEEEEECCSH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCCCcCHHHH-HHHHHHcCCCHHHHhhCeEEEecCCH
Confidence            345899999999999999998876311111    1356788887765554433 233444432210         11122


Q ss_pred             H---HHHHHHHHHhc-CCceeEEEcCCCc
Q 036323          274 N---SLLRRIGANIA-GQKFFMVLDNLWT  298 (583)
Q Consensus       274 ~---~~~~~l~~~l~-~k~~LlVlDdv~~  298 (583)
                      .   .....+.+.+. .+.-+||||.+..
T Consensus       102 ~~~~~~~~~~~~~~~~~~~~lliiD~~~~  130 (243)
T 1n0w_A          102 DHQTQLLYQASAMMVESRYALLIVDSATA  130 (243)
T ss_dssp             HHHHHHHHHHHHHHHHSCEEEEEEETSSG
T ss_pred             HHHHHHHHHHHHHHhcCCceEEEEeCchH
Confidence            2   23333444443 4677999999853

>1jr3_D DNA polymerase III, delta subunit; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1jqj_C* 1xxh_A* 1xxi_A* 3glf_A* 3glg_A* 3glh_A* 3gli_A*

Probab=96.94  E-value=0.0094  Score=59.84  Aligned_cols=157  Identities=9%  Similarity=-0.083  Sum_probs=98.0

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHH-HhcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGA-NIAG  286 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~-~l~~  286 (583)
                      .++..++|..|.||++.+..+.+... ...|+....+.+....+..+                     +.+.+.. -+-+
T Consensus        18 ~~~yl~~G~e~~~~~~~~~~l~~~~~-~~~~~~~~~~~~~~~~~~~~---------------------l~~~~~~~plf~   75 (343)
T 1jr3_D           18 RAAYLLLGNDPLLLQESQDAVRQVAA-AQGFEEHHTFSIDPNTDWNA---------------------IFSLCQAMSLFA   75 (343)
T ss_dssp             CSEEEEEESCHHHHHHHHHHHHHHHH-HHTCCEEEEEECCTTCCHHH---------------------HHHHHHHHHHCC
T ss_pred             CcEEEEECCcHHHHHHHHHHHHHHHH-hCCCCeeEEEEecCCCCHHH---------------------HHHHhcCcCCcc
Confidence            56889999999999999988876321 12343211122222222222                     2222211 1235


Q ss_pred             CceeEEEcCCCc-ccccchHhhHHhhccCCCCceEEEecCc-------hHHHhhhc-CCCeEEcCCCChHHHHHHHHHHh
Q 036323          287 QKFFMVLDNLWT-DDYRKWEPFRNCLMNGLRGSKILITTRK-------ETVARMME-STDIVYVQGLSELECWSLFRRFA  357 (583)
Q Consensus       287 k~~LlVlDdv~~-~~~~~~~~l~~~l~~~~~gs~IlvTtR~-------~~v~~~~~-~~~~~~l~~L~~~ea~~Lf~~~a  357 (583)
                      ++-++|+|+++. .+...++.|...+....+++.+|+++..       ..+...+. ....++..+++..+....+.+.+
T Consensus        76 ~~kvvii~~~~~kl~~~~~~aLl~~le~p~~~~~~il~~~~~~~~~~~~k~~~~i~sr~~~~~~~~l~~~~l~~~l~~~~  155 (343)
T 1jr3_D           76 SRQTLLLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTCQTPEQAQLPRWVAARA  155 (343)
T ss_dssp             SCEEEEEECCSSCCCTTHHHHHHHHHTTCBTTEEEEEEESCCCTTTTTSHHHHHHTTTCEEEEECCCCTTHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCChHHHHHHHHHHhcCCCCeEEEEEcCCCChhhHhhHHHHHHHhCceEEEeeCCCHHHHHHHHHHHH
Confidence            677889999865 4445677788777665567777766543       23444333 35688999999999988888776


Q ss_pred             ccCCCCCCCchHHHHHHHHhhhCCCCccchhhh
Q 036323          358 LSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTI  390 (583)
Q Consensus       358 ~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~  390 (583)
                      -..+..-    ..+.+..|++.++|.+..+...
T Consensus       156 ~~~g~~i----~~~a~~~l~~~~~gdl~~~~~e  184 (343)
T 1jr3_D          156 KQLNLEL----DDAANQVLCYCYEGNLLALAQA  184 (343)
T ss_dssp             HHTTCEE----CHHHHHHHHHSSTTCHHHHHHH
T ss_pred             HHcCCCC----CHHHHHHHHHHhchHHHHHHHH
Confidence            4332211    2456778999999988877653

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=96.92  E-value=0.0052  Score=62.65  Aligned_cols=24  Identities=33%  Similarity=0.373  Sum_probs=21.0

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...+.++|++|+|||+||+.+++.
T Consensus        72 ~~~ill~Gp~GtGKT~la~~la~~   95 (376)
T 1um8_A           72 KSNILLIGPTGSGKTLMAQTLAKH   95 (376)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHH
Confidence            346889999999999999999873

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=96.89  E-value=0.015  Score=56.37  Aligned_cols=157  Identities=11%  Similarity=0.127  Sum_probs=78.9

Q ss_pred             CCceeechhHHHHHHHHhhcCCCC-------CCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCC
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSD-------QQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFD  251 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~-------~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  251 (583)
                      -.++.|-++.+++|.+.+..+-..       .-..... +.|+|++|+||||||+.++.....     ..+.+....-.+
T Consensus         9 ~~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~G-vlL~Gp~GtGKTtLakala~~~~~-----~~i~i~g~~l~~   82 (274)
T 2x8a_A            9 WADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAG-VLLAGPPGCGKTLLAKAVANESGL-----NFISVKGPELLN   82 (274)
T ss_dssp             ---CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSE-EEEESSTTSCHHHHHHHHHHHTTC-----EEEEEETTTTCS
T ss_pred             HHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCe-EEEECCCCCcHHHHHHHHHHHcCC-----CEEEEEcHHHHh
Confidence            346778888777777654211000       0011122 899999999999999999873211     234444322111


Q ss_pred             hHHHHHHHHHHhhcCccccccHHHHHHHHHHH-hcCCceeEEEcCCCcccc-----------cchHhhHHhhccC--CCC
Q 036323          252 EFNVAKATIEELEGSAIDLHELNSLLRRIGAN-IAGQKFFMVLDNLWTDDY-----------RKWEPFRNCLMNG--LRG  317 (583)
Q Consensus       252 ~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~-----------~~~~~l~~~l~~~--~~g  317 (583)
                      ..                ..........+.+. -...+.++++|++.....           .....+...+..+  ...
T Consensus        83 ~~----------------~~~~~~~i~~vf~~a~~~~p~i~~~Deid~~~~~r~~~~~~~~~~~~~~~l~~Lsgg~~~~~  146 (274)
T 2x8a_A           83 MY----------------VGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDRETGASVRVVNQLLTEMDGLEARQQ  146 (274)
T ss_dssp             ST----------------THHHHHHHHHHHHHHHHTCSEEEEEETCTTTCC---------CTTHHHHHHHHHHTCCSTTC
T ss_pred             hh----------------hhHHHHHHHHHHHHHHhcCCCeEeeehhhhhhcccCCCcchHHHHHHHHHHHhhhcccccCC
Confidence            00                00001111122221 134578999999853100           0112222333322  223


Q ss_pred             ceEEEecCchHHHhh--h---cCCCeEEcCCCChHHHHHHHHHHh
Q 036323          318 SKILITTRKETVARM--M---ESTDIVYVQGLSELECWSLFRRFA  357 (583)
Q Consensus       318 s~IlvTtR~~~v~~~--~---~~~~~~~l~~L~~~ea~~Lf~~~a  357 (583)
                      ..++.+|..+.....  .   .-...+.++..+.++-.++|+...
T Consensus       147 ~i~ia~tn~p~~LD~al~r~gRfd~~i~~~~P~~~~r~~il~~~~  191 (274)
T 2x8a_A          147 VFIMAATNRPDIIDPAILRPGRLDKTLFVGLPPPADRLAILKTIT  191 (274)
T ss_dssp             EEEEEEESCGGGSCHHHHSTTSSCEEEECCSCCHHHHHHHHHHHT
T ss_pred             EEEEeecCChhhCCHhhcCcccCCeEEEeCCcCHHHHHHHHHHHH
Confidence            445556665544321  1   125677888888888888888765

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=96.88  E-value=0.0036  Score=60.89  Aligned_cols=55  Identities=22%  Similarity=0.349  Sum_probs=34.8

Q ss_pred             ccCCceeechhHHHHHHHHhhcCCCC-----CCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          177 IDVSEVRGRDEEMRSIKSMLLCQGSD-----QQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       177 ~~~~~~vGR~~e~~~l~~~L~~~~~~-----~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ....+++|.+..+.++.+....-...     -.-.-.+-+.|+|++|+|||||++.++..
T Consensus        37 ~~~~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~   96 (278)
T 1iy2_A           37 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGE   96 (278)
T ss_dssp             CCGGGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCHHHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHH
Confidence            34557899887776666544211000     00001112889999999999999999874

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=96.72  E-value=0.0052  Score=57.64  Aligned_cols=115  Identities=11%  Similarity=0.011  Sum_probs=60.3

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCcc-------------------
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAI-------------------  268 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~-------------------  268 (583)
                      ..++.|+|.+|+|||||+..++....  ..-..++|+....  ....+...+ ..++....                   
T Consensus        23 G~~~~i~G~~GsGKTtl~~~l~~~~~--~~~~~v~~~~~~~--~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (235)
T 2w0m_A           23 GFFIALTGEPGTGKTIFSLHFIAKGL--RDGDPCIYVTTEE--SRDSIIRQA-KQFNWDFEEYIEKKLIIIDALMKEKED   97 (235)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHHHH--HHTCCEEEEESSS--CHHHHHHHH-HHTTCCCGGGBTTTEEEEECCC----C
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHH--HCCCeEEEEEccc--CHHHHHHHH-HHhcchHHHHhhCCEEEEeccccccCc
Confidence            45899999999999999999875321  1112355655433  333333332 23321110                   


Q ss_pred             ----ccccHHHHHHHHHHHhc-CCce--eEEEcCCCcc---cccchHhhHHhhcc--CCCCceEEEecCch
Q 036323          269 ----DLHELNSLLRRIGANIA-GQKF--FMVLDNLWTD---DYRKWEPFRNCLMN--GLRGSKILITTRKE  327 (583)
Q Consensus       269 ----~~~~~~~~~~~l~~~l~-~k~~--LlVlDdv~~~---~~~~~~~l~~~l~~--~~~gs~IlvTtR~~  327 (583)
                          ...+..++...+...+. .++-  +||+|.....   +......+...+..  ...|..||++|...
T Consensus        98 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~llilDe~~~~~~~d~~~~~~~~~~l~~~~~~~~~~vi~~~h~~  168 (235)
T 2w0m_A           98 QWSLVNLTPEELVNKVIEAKQKLGYGKARLVIDSVSALFLDKPAMARKISYYLKRVLNKWNFTIYATSQYA  168 (235)
T ss_dssp             TTBCSSCCHHHHHHHHHHHHHHHCSSCEEEEEETGGGGSSSCGGGHHHHHHHHHHHHHHTTEEEEEEEC--
T ss_pred             eeeecCCCHHHHHHHHHHHHHhhCCCceEEEEECchHhhcCCHHHHHHHHHHHHHHHHhCCCeEEEEeccC
Confidence                01134455555544442 2344  9999998531   22233334333322  23477888888754

>1g5t_A COB(I)alamin adenosyltransferase; P-loop protein, cobalamin biosynthesis, RECA fold; HET: ATP; 1.80A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1g5r_A* 1g64_A*

Probab=96.70  E-value=0.0032  Score=57.25  Aligned_cols=113  Identities=21%  Similarity=0.100  Sum_probs=60.8

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCC---CChHHHHHHHHHHhhc-----------Cccc----c
Q 036323          209 QIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDP---FDEFNVAKATIEELEG-----------SAID----L  270 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~---~~~~~~~~~il~~l~~-----------~~~~----~  270 (583)
                      ..|.|++-.|.||||+|-...-.  ...+=-.+.++.....   .....+    ++.+..           ....    .
T Consensus        29 g~i~v~tG~GkGKTTaA~GlalR--A~g~G~rV~~vQF~Kg~~~~gE~~~----l~~L~v~~~~~g~gf~~~~~~~~~~~  102 (196)
T 1g5t_A           29 GIIIVFTGNGKGKTTAAFGTAAR--AVGHGKNVGVVQFIKGTWPNGERNL----LEPHGVEFQVMATGFTWETQNREADT  102 (196)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHHH--HHHTTCCEEEEESSCCSSCCHHHHH----HGGGTCEEEECCTTCCCCGGGHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH--HHHCCCeEEEEEeeCCCCCccHHHH----HHhCCcEEEEcccccccCCCCcHHHH
Confidence            46667777789999999655442  2222223444433322   222233    333310           0000    1


Q ss_pred             ccHHHHHHHHHHHhcCCce-eEEEcCCCc---ccccchHhhHHhhccCCCCceEEEecCch
Q 036323          271 HELNSLLRRIGANIAGQKF-FMVLDNLWT---DDYRKWEPFRNCLMNGLRGSKILITTRKE  327 (583)
Q Consensus       271 ~~~~~~~~~l~~~l~~k~~-LlVlDdv~~---~~~~~~~~l~~~l~~~~~gs~IlvTtR~~  327 (583)
                      .........+++.+.+.+| |||||++-.   -..-..+.+...+........||+|+|..
T Consensus       103 ~~a~~~l~~a~~~l~~~~yDlvILDEi~~al~~g~l~~~ev~~~l~~Rp~~~~vIlTGr~a  163 (196)
T 1g5t_A          103 AACMAVWQHGKRMLADPLLDMVVLDELTYMVAYDYLPLEEVISALNARPGHQTVIITGRGC  163 (196)
T ss_dssp             HHHHHHHHHHHHHTTCTTCSEEEEETHHHHHHTTSSCHHHHHHHHHTSCTTCEEEEECSSC
T ss_pred             HHHHHHHHHHHHHHhcCCCCEEEEeCCCccccCCCCCHHHHHHHHHhCcCCCEEEEECCCC
Confidence            1123344445555555555 999999822   12234456666676666778899999985

>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=96.69  E-value=0.005  Score=61.87  Aligned_cols=85  Identities=18%  Similarity=0.150  Sum_probs=54.7

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCcc-----ccccHHHHHHHH
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAI-----DLHELNSLLRRI  280 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~-----~~~~~~~~~~~l  280 (583)
                      +...++.|.|++|+|||||+..++...  ...-..++|++....++..     .++.++....     ...+.++....+
T Consensus        59 ~~G~i~~I~GppGsGKSTLal~la~~~--~~~gg~VlyId~E~s~~~~-----ra~rlgv~~~~l~i~~~~~~e~~l~~~  131 (356)
T 3hr8_A           59 PRGRIVEIFGQESSGKTTLALHAIAEA--QKMGGVAAFIDAEHALDPV-----YAKNLGVDLKSLLISQPDHGEQALEIV  131 (356)
T ss_dssp             ETTEEEEEEESTTSSHHHHHHHHHHHH--HHTTCCEEEEESSCCCCHH-----HHHHHTCCGGGCEEECCSSHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHH--HhcCCeEEEEecccccchH-----HHHHcCCchhhhhhhhccCHHHHHHHH
Confidence            345799999999999999999988632  2222346788877666543     3444543321     234455665555


Q ss_pred             HHHhc-CCceeEEEcCCC
Q 036323          281 GANIA-GQKFFMVLDNLW  297 (583)
Q Consensus       281 ~~~l~-~k~~LlVlDdv~  297 (583)
                      ...+. .+.-++|+|.+.
T Consensus       132 ~~l~~~~~~dlvVIDSi~  149 (356)
T 3hr8_A          132 DELVRSGVVDLIVVDSVA  149 (356)
T ss_dssp             HHHHHTSCCSEEEEECTT
T ss_pred             HHHhhhcCCCeEEehHhh
Confidence            55544 456699999973

>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain, TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*

Probab=96.63  E-value=0.0014  Score=61.39  Aligned_cols=114  Identities=14%  Similarity=-0.024  Sum_probs=61.1

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCcc--ccccHHHHHHHHHHHh
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAI--DLHELNSLLRRIGANI  284 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~--~~~~~~~~~~~l~~~l  284 (583)
                      ...++.|+|..|+||||++..+...  ...+-..++.+.....  .. ....+++.++....  ......++...+.+.+
T Consensus        11 ~G~i~litG~mGsGKTT~ll~~~~r--~~~~g~kVli~~~~~d--~r-~~~~i~srlG~~~~~~~~~~~~~i~~~i~~~~   85 (223)
T 2b8t_A           11 IGWIEFITGPMFAGKTAELIRRLHR--LEYADVKYLVFKPKID--TR-SIRNIQSRTGTSLPSVEVESAPEILNYIMSNS   85 (223)
T ss_dssp             CCEEEEEECSTTSCHHHHHHHHHHH--HHHTTCCEEEEEECCC--GG-GCSSCCCCCCCSSCCEEESSTHHHHHHHHSTT
T ss_pred             CcEEEEEECCCCCcHHHHHHHHHHH--HHhcCCEEEEEEeccC--ch-HHHHHHHhcCCCccccccCCHHHHHHHHHHHh
Confidence            3568899999999999999877663  2222222333332221  11 11123333332211  1223345555665555


Q ss_pred             cCCc-eeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCchH
Q 036323          285 AGQK-FFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKET  328 (583)
Q Consensus       285 ~~k~-~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~~  328 (583)
                      .+.+ -+||+|.+..-+.+..+.+. .+.+  .|..||+|.+..+
T Consensus        86 ~~~~~dvViIDEaQ~l~~~~ve~l~-~L~~--~gi~Vil~Gl~~d  127 (223)
T 2b8t_A           86 FNDETKVIGIDEVQFFDDRICEVAN-ILAE--NGFVVIISGLDKN  127 (223)
T ss_dssp             SCTTCCEEEECSGGGSCTHHHHHHH-HHHH--TTCEEEEECCSBC
T ss_pred             hCCCCCEEEEecCccCcHHHHHHHH-HHHh--CCCeEEEEecccc
Confidence            4444 49999999543333333332 2333  2788999988543

>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=96.53  E-value=0.0076  Score=58.97  Aligned_cols=81  Identities=11%  Similarity=0.118  Sum_probs=53.1

Q ss_pred             EEEEEecCCchHHHHHHHHHcCcccccc--CceEEEEEeCCCCChHHHHHHHHHHhhcCcc-----ccccHHHH-HHHHH
Q 036323          210 IISMVGMGGIGKTTLAQLAYNDNDVINN--FEIRVRVCVSDPFDEFNVAKATIEELEGSAI-----DLHELNSL-LRRIG  281 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~~~~~~~--f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~-----~~~~~~~~-~~~l~  281 (583)
                      ++.|.|++|+|||||+.+++..  ....  -..++|++....++..     .+++++....     ...+.++. ...+.
T Consensus        30 iteI~G~pGsGKTtL~Lq~~~~--~~~~g~g~~vlyId~E~s~~~~-----ra~~lGvd~d~llv~~~~~~E~~~l~i~~  102 (333)
T 3io5_A           30 LLILAGPSKSFKSNFGLTMVSS--YMRQYPDAVCLFYDSEFGITPA-----YLRSMGVDPERVIHTPVQSLEQLRIDMVN  102 (333)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHH--HHHHCTTCEEEEEESSCCCCHH-----HHHHTTCCGGGEEEEECSBHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH--HHhcCCCceEEEEeccchhhHH-----HHHHhCCCHHHeEEEcCCCHHHHHHHHHH
Confidence            7899999999999999887763  2222  2467899888777653     2566665432     13345555 43333


Q ss_pred             HH--h-cCCceeEEEcCCC
Q 036323          282 AN--I-AGQKFFMVLDNLW  297 (583)
Q Consensus       282 ~~--l-~~k~~LlVlDdv~  297 (583)
                      ..  + .++.-|||+|-+.
T Consensus       103 ~l~~i~~~~~~lvVIDSI~  121 (333)
T 3io5_A          103 QLDAIERGEKVVVFIDSLG  121 (333)
T ss_dssp             HHHTCCTTCCEEEEEECST
T ss_pred             HHHHhhccCceEEEEeccc
Confidence            22  2 4567899999984

>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=96.48  E-value=0.017  Score=58.04  Aligned_cols=90  Identities=13%  Similarity=0.129  Sum_probs=54.0

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccc----cCceEEEEEeCCCCChHHHHHHHHHHhhcCcc------------c
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVIN----NFEIRVRVCVSDPFDEFNVAKATIEELEGSAI------------D  269 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~----~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~------------~  269 (583)
                      +...++.|+|.+|+|||+||..++.......    .-..++|++....++...+. .++..++....            .
T Consensus       120 ~~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~~~~~~~l~-~~~~~~g~~~~~~l~~l~~~~~~~  198 (343)
T 1v5w_A          120 ESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLR-DIADRFNVDHDAVLDNVLYARAYT  198 (343)
T ss_dssp             CSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHHH-HHHHHTTCCHHHHHHTEEEEECCS
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHH-HHHHHcCCCHHHHHhceeEeecCC
Confidence            4567999999999999999998876421211    22468899988776665544 33444433210            1


Q ss_pred             cccHHHHHHHHHHHhc---CCceeEEEcCC
Q 036323          270 LHELNSLLRRIGANIA---GQKFFMVLDNL  296 (583)
Q Consensus       270 ~~~~~~~~~~l~~~l~---~k~~LlVlDdv  296 (583)
                      ......+...+...+.   .+.-+||+|.+
T Consensus       199 ~e~~~~ll~~l~~~i~~~~~~~~lvVIDsl  228 (343)
T 1v5w_A          199 SEHQMELLDYVAAKFHEEAGIFKLLIIDSI  228 (343)
T ss_dssp             TTHHHHHHHHHHHHHHHSCSSEEEEEEETS
T ss_pred             HHHHHHHHHHHHHHHHhcCCCccEEEEech
Confidence            1122233333444443   45568888887

>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=96.39  E-value=0.0088  Score=60.46  Aligned_cols=84  Identities=17%  Similarity=0.067  Sum_probs=54.0

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCcc-----ccccHHHHHHHHH
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAI-----DLHELNSLLRRIG  281 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~-----~~~~~~~~~~~l~  281 (583)
                      ...++.|.|.+|+||||||..++...  ...-..++|++....++..     ....++....     ...+.+++...+.
T Consensus        73 ~G~li~I~G~pGsGKTtlal~la~~~--~~~g~~vlyi~~E~s~~~~-----~a~~~g~d~~~l~i~~~~~~e~~l~~l~  145 (366)
T 1xp8_A           73 RGRITEIYGPESGGKTTLALAIVAQA--QKAGGTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIME  145 (366)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHH--HHTTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHHH--HHCCCeEEEEECCCChhHH-----HHHHcCCCHHHceeecCCcHHHHHHHHH
Confidence            34588899999999999998887632  2222368899988766543     2344443211     2234566666666


Q ss_pred             HHhc-CCceeEEEcCCC
Q 036323          282 ANIA-GQKFFMVLDNLW  297 (583)
Q Consensus       282 ~~l~-~k~~LlVlDdv~  297 (583)
                      ...+ ...-+||+|.+.
T Consensus       146 ~l~~~~~~~lVVIDsl~  162 (366)
T 1xp8_A          146 LLVRSGAIDVVVVDSVA  162 (366)
T ss_dssp             HHHTTTCCSEEEEECTT
T ss_pred             HHHhcCCCCEEEEeChH
Confidence            5554 345699999983

>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=96.37  E-value=0.01  Score=59.04  Aligned_cols=90  Identities=14%  Similarity=0.138  Sum_probs=54.2

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccc---------cC-----ceEEEEEeCCCCChHHHHHHHHHHhhcCcc---
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVIN---------NF-----EIRVRVCVSDPFDEFNVAKATIEELEGSAI---  268 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~---------~f-----~~~~wv~~~~~~~~~~~~~~il~~l~~~~~---  268 (583)
                      +...++.|.|.+|+|||+||..++.......         ..     ..++|++....++...+.. ++..++....   
T Consensus        96 ~~g~i~~i~G~~gsGKT~la~~la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~~~~~~l~~-~~~~~g~~~~~~~  174 (322)
T 2i1q_A           96 ESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQ-MAEHAGIDGQTVL  174 (322)
T ss_dssp             ETTEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHHHHH-HHHHHTCCHHHHH
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHHhccccccccccccccCCCCCceEEEEECCCCCCHHHHHH-HHHHcCCCHHHHh
Confidence            3457999999999999999988875321111         11     4678998888776665543 3444443211   


Q ss_pred             ------ccccHH---HHHHHHHHHhcC--CceeEEEcCC
Q 036323          269 ------DLHELN---SLLRRIGANIAG--QKFFMVLDNL  296 (583)
Q Consensus       269 ------~~~~~~---~~~~~l~~~l~~--k~~LlVlDdv  296 (583)
                            ...+.+   .+...+...+..  +.-+||+|.+
T Consensus       175 ~~l~~~~~~~~~~~~~~l~~l~~~~~~~~~~~lvVIDsl  213 (322)
T 2i1q_A          175 DNTFVARAYNSDMQMLFAEKIEDLIQEGNNIKLVVIDSL  213 (322)
T ss_dssp             HTEEEEECSSHHHHHHHHHTHHHHHHTTCEEEEEEEECS
T ss_pred             cCEEEEeCCCHHHHHHHHHHHHHHHhhccCccEEEEECc
Confidence                  112222   234445454443  4558888887

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=96.34  E-value=0.02  Score=51.51  Aligned_cols=22  Identities=36%  Similarity=0.490  Sum_probs=19.4

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .++|+|+.|+|||||++.++..
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~   23 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVER   23 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5789999999999999988763

>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=96.33  E-value=0.014  Score=58.10  Aligned_cols=90  Identities=13%  Similarity=0.093  Sum_probs=54.3

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCcccccc----CceEEEEEeCCCCChHHHHHHHHHHhhcCcc---------ccccH
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINN----FEIRVRVCVSDPFDEFNVAKATIEELEGSAI---------DLHEL  273 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~----f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~---------~~~~~  273 (583)
                      ...++.|+|.+|+|||+||..++........    -..++|++....++...+. +++..++....         ...+.
T Consensus       106 ~G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~~~~~~l~-~~~~~~g~~~~~~~~~l~~~~~~~~  184 (324)
T 2z43_A          106 TRTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFRWERIE-NMAKALGLDIDNVMNNIYYIRAINT  184 (324)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHH-HHHHHTTCCHHHHHHTEEEEECCSH
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHH-HHHHHhCCCHHHHhccEEEEeCCCH
Confidence            3458999999999999999888764211110    2467899888776665544 33444443211         11122


Q ss_pred             H---HHHHHHHHHhc--CCceeEEEcCCC
Q 036323          274 N---SLLRRIGANIA--GQKFFMVLDNLW  297 (583)
Q Consensus       274 ~---~~~~~l~~~l~--~k~~LlVlDdv~  297 (583)
                      +   .+...+...+.  .+.-+||+|.+.
T Consensus       185 ~~~~~~l~~l~~~~~~~~~~~lvVIDsl~  213 (324)
T 2z43_A          185 DHQIAIVDDLQELVSKDPSIKLIVVDSVT  213 (324)
T ss_dssp             HHHHHHHHHHHHHHHHCTTEEEEEETTTT
T ss_pred             HHHHHHHHHHHHHHHhccCCCEEEEeCcH
Confidence            2   33444544443  456688899873

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.26  E-value=0.0044  Score=57.03  Aligned_cols=43  Identities=21%  Similarity=0.244  Sum_probs=33.8

Q ss_pred             echhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHc
Q 036323          184 GRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       184 GR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .|++.++.|.+.+....    .....+|+|+|.+|+|||||++.+..
T Consensus         2 ~~~~~~~~l~~~~~~~~----~~~~~~i~i~G~~GsGKstl~~~l~~   44 (201)
T 1rz3_A            2 ELRDRIDFLCKTILAIK----TAGRLVLGIDGLSRSGKTTLANQLSQ   44 (201)
T ss_dssp             CHHHHHHHHHHHHHTSC----CSSSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhc----cCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            35667788888886532    24567999999999999999998876

>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=96.17  E-value=0.013  Score=58.90  Aligned_cols=84  Identities=18%  Similarity=0.110  Sum_probs=53.1

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCcc-----ccccHHHHHHHHH
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAI-----DLHELNSLLRRIG  281 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~-----~~~~~~~~~~~l~  281 (583)
                      ...++.|.|.+|+||||||.+++..  ....-..++|++....++..     ..+.++....     ...+.++....+.
T Consensus        60 ~G~iv~I~G~pGsGKTtLal~la~~--~~~~g~~vlyi~~E~~~~~~-----~a~~lG~~~~~l~i~~~~~~e~~l~~~~  132 (349)
T 2zr9_A           60 RGRVIEIYGPESSGKTTVALHAVAN--AQAAGGIAAFIDAEHALDPE-----YAKKLGVDTDSLLVSQPDTGEQALEIAD  132 (349)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHH--HHHTTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH--HHhCCCeEEEEECCCCcCHH-----HHHHcCCCHHHeEEecCCCHHHHHHHHH
Confidence            4568999999999999999888753  22222457888887765543     2344443221     1234555555555


Q ss_pred             HHhc-CCceeEEEcCCC
Q 036323          282 ANIA-GQKFFMVLDNLW  297 (583)
Q Consensus       282 ~~l~-~k~~LlVlDdv~  297 (583)
                      .... .+.-+||+|.+.
T Consensus       133 ~l~~~~~~~lIVIDsl~  149 (349)
T 2zr9_A          133 MLVRSGALDIIVIDSVA  149 (349)
T ss_dssp             HHHTTTCCSEEEEECGG
T ss_pred             HHHhcCCCCEEEEcChH
Confidence            4443 356799999984

>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=96.05  E-value=0.036  Score=52.33  Aligned_cols=24  Identities=25%  Similarity=0.447  Sum_probs=21.3

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+++|+|+.|+|||||.+.+..-
T Consensus        31 Ge~~~i~G~nGsGKSTLl~~l~Gl   54 (237)
T 2cbz_A           31 GALVAVVGQVGCGKSSLLSALLAE   54 (237)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            458999999999999999999763

>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=95.98  E-value=0.019  Score=56.23  Aligned_cols=25  Identities=20%  Similarity=0.299  Sum_probs=21.5

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...+++|.|.+|+|||||+..++..
T Consensus        34 ~G~~~~i~G~~G~GKTTl~~~ia~~   58 (296)
T 1cr0_A           34 GGEVIMVTSGSGMGKSTFVRQQALQ   58 (296)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHH
Confidence            3458999999999999999988763

>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=95.98  E-value=0.081  Score=49.60  Aligned_cols=24  Identities=29%  Similarity=0.531  Sum_probs=21.2

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+++|+|+.|+|||||.+.++.-
T Consensus        34 Ge~~~i~G~nGsGKSTLl~~l~Gl   57 (229)
T 2pze_A           34 GQLLAVAGSTGAGKTSLLMMIMGE   57 (229)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            348999999999999999999863

>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=95.97  E-value=0.02  Score=57.61  Aligned_cols=92  Identities=15%  Similarity=0.104  Sum_probs=52.2

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccccC----ceEEEEEeCCCCChHHHHHHHHHHhhcCcc------------c
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNF----EIRVRVCVSDPFDEFNVAKATIEELEGSAI------------D  269 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f----~~~~wv~~~~~~~~~~~~~~il~~l~~~~~------------~  269 (583)
                      +...++.|+|++|+|||||+..++.........    ..++|++....+.... +..+.........            .
T Consensus       129 ~~G~i~~I~G~~GsGKTTL~~~l~~~~~~~~~~Gg~~G~vi~i~~e~~~~~~~-i~~i~q~~~~~~~~v~~ni~~~~~~~  207 (349)
T 1pzn_A          129 ETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPER-IREIAQNRGLDPDEVLKHIYVARAFN  207 (349)
T ss_dssp             ESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHH-HHHHHHTTTCCHHHHGGGEEEEECCS
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhccchhcCCCCCeEEEEeCCCCCCHHH-HHHHHHHcCCCHHHHhhCEEEEecCC
Confidence            456799999999999999999987632111111    2348888766543332 2233333221110            0


Q ss_pred             cccHHHHHHHHHHHhc------CCceeEEEcCCCc
Q 036323          270 LHELNSLLRRIGANIA------GQKFFMVLDNLWT  298 (583)
Q Consensus       270 ~~~~~~~~~~l~~~l~------~k~~LlVlDdv~~  298 (583)
                      .....++...+...+.      .++-+||+|.+-.
T Consensus       208 ~~~~~~~l~~~~~~~~~lS~G~~~~~llIlDs~ta  242 (349)
T 1pzn_A          208 SNHQMLLVQQAEDKIKELLNTDRPVKLLIVDSLTS  242 (349)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSSSSCEEEEEEETSST
T ss_pred             hHHHHHHHHHHHHHHHHhccccCCCCEEEEeCchH
Confidence            1112334444444443      4677999999843

>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=95.97  E-value=0.016  Score=58.36  Aligned_cols=83  Identities=17%  Similarity=0.105  Sum_probs=51.7

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCcc-----ccccHHHHHHHHH
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAI-----DLHELNSLLRRIG  281 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~-----~~~~~~~~~~~l~  281 (583)
                      ..+++.|.|.+|+||||||.+++...  ...-..++|++....++..     .+..++....     +..+.+++...+.
T Consensus        62 ~G~ii~I~G~pGsGKTtLal~la~~~--~~~g~~vlyid~E~s~~~~-----~a~~~g~~~~~l~i~~~~~~e~~~~~~~  134 (356)
T 1u94_A           62 MGRIVEIYGPESSGKTTLTLQVIAAA--QREGKTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDTGEQALEICD  134 (356)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHH--HHTTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH--HHCCCeEEEEeCCCCccHH-----HHHHcCCChhheeeeCCCCHHHHHHHHH
Confidence            45689999999999999998887632  2222357889887766543     1344443221     1223445555444


Q ss_pred             HHh-cCCceeEEEcCC
Q 036323          282 ANI-AGQKFFMVLDNL  296 (583)
Q Consensus       282 ~~l-~~k~~LlVlDdv  296 (583)
                      ... ..+.-+||+|.+
T Consensus       135 ~l~~~~~~~lVVIDsl  150 (356)
T 1u94_A          135 ALARSGAVDVIVVDSV  150 (356)
T ss_dssp             HHHHHTCCSEEEEECG
T ss_pred             HHHhccCCCEEEEcCH
Confidence            433 245569999997

>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=95.88  E-value=0.034  Score=52.92  Aligned_cols=23  Identities=39%  Similarity=0.632  Sum_probs=20.6

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||.+.++.
T Consensus        35 Ge~~~i~G~nGsGKSTLl~~l~G   57 (247)
T 2ff7_A           35 GEVIGIVGRSGSGKSTLTKLIQR   57 (247)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            35899999999999999999865

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=95.88  E-value=0.019  Score=56.82  Aligned_cols=45  Identities=16%  Similarity=0.234  Sum_probs=32.1

Q ss_pred             eechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHc
Q 036323          183 RGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       183 vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      +|-...+..+...+....   ....+.+|+|.|..|+|||||++.+..
T Consensus        70 ~~~~~~l~~~~~~~l~~~---~~~~p~iigI~GpsGSGKSTl~~~L~~  114 (321)
T 3tqc_A           70 VTARQTLQQATYQFLGKP---EPKVPYIIGIAGSVAVGKSTTSRVLKA  114 (321)
T ss_dssp             HHHHHHHHHHHHHHHTCC---CCCCCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             hcchHHHHHHHHHHhccC---CCCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            444455555555554432   245678999999999999999988865

>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=95.83  E-value=0.017  Score=56.65  Aligned_cols=24  Identities=29%  Similarity=0.302  Sum_probs=21.2

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...+++|+|.+|+||||++..++.
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~  127 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAA  127 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            356999999999999999988875

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=95.81  E-value=0.0067  Score=56.15  Aligned_cols=38  Identities=21%  Similarity=0.232  Sum_probs=28.6

Q ss_pred             HHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHc
Q 036323          188 EMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       188 e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      -+++|.+.+...     .....+|+|+|+.|+|||||++.+..
T Consensus         7 ~~~~~~~~~~~~-----~~~g~~v~I~G~sGsGKSTl~~~l~~   44 (208)
T 3c8u_A            7 LCQGVLERLDPR-----QPGRQLVALSGAPGSGKSTLSNPLAA   44 (208)
T ss_dssp             HHHHHHHHSCTT-----CCSCEEEEEECCTTSCTHHHHHHHHH
T ss_pred             HHHHHHHHHHhc-----CCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            445566665432     24567999999999999999998876

>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=95.80  E-value=0.044  Score=51.97  Aligned_cols=24  Identities=33%  Similarity=0.425  Sum_probs=21.1

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...+++|+|+.|+|||||.+.++.
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~G   50 (243)
T 1mv5_A           27 PNSIIAFAGPSGGGKSTIFSLLER   50 (243)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            346899999999999999999865

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=95.74  E-value=0.028  Score=53.09  Aligned_cols=39  Identities=21%  Similarity=0.265  Sum_probs=27.3

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSD  248 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~  248 (583)
                      ..++.|.|.+|+|||||+..++...  ...-..++|++...
T Consensus        23 G~~~~i~G~~GsGKTtl~~~~~~~~--~~~~~~v~~~~~e~   61 (247)
T 2dr3_A           23 RNVVLLSGGPGTGKTIFSQQFLWNG--LKMGEPGIYVALEE   61 (247)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHHH--HHTTCCEEEEESSS
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH--HhcCCeEEEEEccC
Confidence            4589999999999999998776531  12223567776544

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=95.70  E-value=0.008  Score=63.39  Aligned_cols=42  Identities=19%  Similarity=0.178  Sum_probs=35.6

Q ss_pred             ceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          181 EVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       181 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .++|++..++.+...+....         -|.|+|++|+|||+||+.+++.
T Consensus        23 ~ivGq~~~i~~l~~al~~~~---------~VLL~GpPGtGKT~LAraLa~~   64 (500)
T 3nbx_X           23 GLYERSHAIRLCLLAALSGE---------SVFLLGPPGIAKSLIARRLKFA   64 (500)
T ss_dssp             TCSSCHHHHHHHHHHHHHTC---------EEEEECCSSSSHHHHHHHGGGG
T ss_pred             hhHHHHHHHHHHHHHHhcCC---------eeEeecCchHHHHHHHHHHHHH
Confidence            47899999998888876432         6789999999999999999884

>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=95.63  E-value=0.05  Score=50.67  Aligned_cols=45  Identities=22%  Similarity=0.138  Sum_probs=30.6

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccc---cc-cCceEEEEEeCCCCC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDV---IN-NFEIRVRVCVSDPFD  251 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~---~~-~f~~~~wv~~~~~~~  251 (583)
                      ...+++|+|++|+|||||++.++.....   .. .-...+|+.......
T Consensus        24 ~G~~~~l~G~nGsGKSTll~~l~g~~~~~~~~g~~~~~~i~~~~~~~~~   72 (231)
T 4a74_A           24 TQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFR   72 (231)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCEEEEEECCCCCC
Confidence            4579999999999999999998752111   11 134577777655433

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=95.55  E-value=0.091  Score=50.36  Aligned_cols=23  Identities=30%  Similarity=0.391  Sum_probs=20.6

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||.+.++.
T Consensus        30 Ge~~~i~G~NGsGKSTLlk~l~G   52 (263)
T 2pjz_A           30 GEKVIILGPNGSGKTTLLRAISG   52 (263)
T ss_dssp             SSEEEEECCTTSSHHHHHHHHTT
T ss_pred             CEEEEEECCCCCCHHHHHHHHhC
Confidence            34899999999999999999975

>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=95.51  E-value=0.063  Score=51.62  Aligned_cols=23  Identities=30%  Similarity=0.587  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||++.+..
T Consensus        37 Ge~~~liG~nGsGKSTLl~~l~G   59 (266)
T 4g1u_C           37 GEMVAIIGPNGAGKSTLLRLLTG   59 (266)
T ss_dssp             TCEEEEECCTTSCHHHHHHHHTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhc
Confidence            45899999999999999999875

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=95.50  E-value=0.002  Score=58.47  Aligned_cols=22  Identities=23%  Similarity=0.073  Sum_probs=18.6

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .++.|+|+.|+||||++..++.
T Consensus         4 ~i~vi~G~~gsGKTT~ll~~~~   25 (184)
T 2orw_A            4 KLTVITGPMYSGKTTELLSFVE   25 (184)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4788999999999999966654

>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=95.48  E-value=0.0061  Score=54.62  Aligned_cols=22  Identities=18%  Similarity=0.320  Sum_probs=20.4

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .+|.|+|++|+||||+|+.+..
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~   25 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQS   25 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999999987

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=95.46  E-value=0.0079  Score=54.59  Aligned_cols=25  Identities=32%  Similarity=0.364  Sum_probs=22.1

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...+++|+|++|+|||||++.+...
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            3468999999999999999999874

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=95.44  E-value=0.0063  Score=54.07  Aligned_cols=22  Identities=23%  Similarity=0.134  Sum_probs=20.1

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .+|.|.|++|+||||+++.+..
T Consensus         2 ~~i~l~G~~GsGKsT~~~~L~~   23 (173)
T 3kb2_A            2 TLIILEGPDCCFKSTVAAKLSK   23 (173)
T ss_dssp             CEEEEECSSSSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999999876

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=95.43  E-value=0.0067  Score=53.95  Aligned_cols=20  Identities=40%  Similarity=0.717  Sum_probs=18.6

Q ss_pred             EEEEEEecCCchHHHHHHHH
Q 036323          209 QIISMVGMGGIGKTTLAQLA  228 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v  228 (583)
                      .+|.|.|++|+||||+|+.+
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL   21 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            37899999999999999998

>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=95.40  E-value=0.045  Score=53.73  Aligned_cols=23  Identities=35%  Similarity=0.644  Sum_probs=20.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||++.+..
T Consensus        80 Ge~vaivG~sGsGKSTLl~ll~g  102 (306)
T 3nh6_A           80 GQTLALVGPSGAGKSTILRLLFR  102 (306)
T ss_dssp             TCEEEEESSSCHHHHHHHHHHTT
T ss_pred             CCEEEEECCCCchHHHHHHHHHc
Confidence            45899999999999999999865

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=95.39  E-value=0.0076  Score=54.01  Aligned_cols=22  Identities=36%  Similarity=0.451  Sum_probs=20.4

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .+|.|.|++|+||||+|+.+..
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            5789999999999999999886

>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=95.38  E-value=0.045  Score=55.91  Aligned_cols=57  Identities=12%  Similarity=0.091  Sum_probs=36.3

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCcccc----ccCceEEEEEeCCCCChHHHHHHHHHHhh
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVI----NNFEIRVRVCVSDPFDEFNVAKATIEELE  264 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~----~~f~~~~wv~~~~~~~~~~~~~~il~~l~  264 (583)
                      ...++.|+|.+|+|||||+..++-.....    ..-..++|++....+....+ ..+.+.++
T Consensus       177 ~Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~~~~~~rl-~~~a~~~g  237 (400)
T 3lda_A          177 TGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRL-VSIAQRFG  237 (400)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHH-HHHHHHTT
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCCccCHHHH-HHHHHHcC
Confidence            45699999999999999999765211111    12345888887765554433 33455544

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=95.38  E-value=0.085  Score=50.28  Aligned_cols=24  Identities=33%  Similarity=0.519  Sum_probs=21.1

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+++|+|+.|+|||||.+.++.-
T Consensus        31 Ge~~~l~G~nGsGKSTLl~~l~Gl   54 (253)
T 2nq2_C           31 GDILAVLGQNGCGKSTLLDLLLGI   54 (253)
T ss_dssp             TCEEEEECCSSSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            348999999999999999999763

>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=95.27  E-value=0.012  Score=59.64  Aligned_cols=51  Identities=20%  Similarity=0.212  Sum_probs=35.7

Q ss_pred             ceeechhHHHHHHHHhhcC-------CC-CCCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          181 EVRGRDEEMRSIKSMLLCQ-------GS-DQQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       181 ~~vGR~~e~~~l~~~L~~~-------~~-~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .++|.+..++.+...+...       .. .........+.++|++|+|||++|+.+++.
T Consensus        16 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~   74 (363)
T 3hws_A           16 YVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARL   74 (363)
T ss_dssp             HCCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHH
Confidence            3689888888888777200       00 001123457889999999999999999874

>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=95.24  E-value=0.012  Score=59.05  Aligned_cols=52  Identities=13%  Similarity=-0.000  Sum_probs=32.3

Q ss_pred             HHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccc-cccCceEEEEEeCCC
Q 036323          191 SIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDV-INNFEIRVRVCVSDP  249 (583)
Q Consensus       191 ~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~-~~~f~~~~wv~~~~~  249 (583)
                      +.++.+..-      .....++|+|.+|+|||||++.+.+.... ...+.+ +++-+.+.
T Consensus       163 raID~~~pi------~rGQr~~IvG~sG~GKTtLl~~Iar~i~~~~~~v~~-I~~lIGER  215 (422)
T 3ice_A          163 RVLDLASPI------GRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVL-MVLLIDER  215 (422)
T ss_dssp             HHHHHHSCC------BTTCEEEEECCSSSSHHHHHHHHHHHHHHHCTTSEE-EEEEESSC
T ss_pred             eeeeeeeee------cCCcEEEEecCCCCChhHHHHHHHHHHhhcCCCeeE-EEEEecCC
Confidence            445555433      23558899999999999999988763211 112333 34556654

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=95.22  E-value=0.0081  Score=55.10  Aligned_cols=23  Identities=35%  Similarity=0.375  Sum_probs=21.0

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+|.|+|++|+||||+++.+..
T Consensus        25 ~~~i~l~G~~GsGKsTl~~~La~   47 (199)
T 3vaa_A           25 MVRIFLTGYMGAGKTTLGKAFAR   47 (199)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHH
Confidence            45899999999999999999986

>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=95.15  E-value=0.011  Score=53.59  Aligned_cols=24  Identities=38%  Similarity=0.407  Sum_probs=21.5

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...+|.|.|++|+||||+++.+..
T Consensus         4 ~~~~I~l~G~~GsGKST~~~~L~~   27 (193)
T 2rhm_A            4 TPALIIVTGHPATGKTTLSQALAT   27 (193)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            356899999999999999999876

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=95.12  E-value=0.011  Score=54.29  Aligned_cols=25  Identities=32%  Similarity=0.349  Sum_probs=22.2

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...+|+|+|++|+|||||++.+...
T Consensus        24 ~g~~i~l~G~sGsGKSTl~~~La~~   48 (200)
T 3uie_A           24 KGCVIWVTGLSGSGKSTLACALNQM   48 (200)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4679999999999999999998873

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=95.12  E-value=0.11  Score=51.19  Aligned_cols=53  Identities=11%  Similarity=0.073  Sum_probs=37.4

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHh
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEEL  263 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l  263 (583)
                      ...++.|.|.+|+||||||..++.+....+  ..++|++..  .+...+...++...
T Consensus        67 ~G~l~li~G~pG~GKTtl~l~ia~~~a~~g--~~vl~~slE--~s~~~l~~R~~~~~  119 (315)
T 3bh0_A           67 RRNFVLIAARPSMGKTAFALKQAKNMSDND--DVVNLHSLE--MGKKENIKRLIVTA  119 (315)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHHHHHTTT--CEEEEEESS--SCHHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHHcC--CeEEEEECC--CCHHHHHHHHHHHH
Confidence            346899999999999999988875422222  467777765  45666777766553

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=95.11  E-value=0.019  Score=56.02  Aligned_cols=25  Identities=24%  Similarity=0.380  Sum_probs=22.4

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ....+|.|.|++|+||||+|+.+..
T Consensus        31 ~~~~livl~G~sGsGKSTla~~L~~   55 (287)
T 1gvn_B           31 ESPTAFLLGGQPGSGKTSLRSAIFE   55 (287)
T ss_dssp             SSCEEEEEECCTTSCTHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4567899999999999999999876

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=95.09  E-value=0.01  Score=53.51  Aligned_cols=23  Identities=13%  Similarity=0.417  Sum_probs=20.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|++|+|||||++.+..
T Consensus         5 g~~i~i~GpsGsGKSTL~~~L~~   27 (180)
T 1kgd_A            5 RKTLVLLGAHGVGRRHIKNTLIT   27 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            45899999999999999999876

>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=95.08  E-value=0.056  Score=53.07  Aligned_cols=88  Identities=17%  Similarity=0.188  Sum_probs=46.2

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCCh--HHHHHHHHHHhhcCc---cccccHHHH-HHH
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDE--FNVAKATIEELEGSA---IDLHELNSL-LRR  279 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~--~~~~~~il~~l~~~~---~~~~~~~~~-~~~  279 (583)
                      ....++.|+|.+|+||||++..++...  ...-..+.++... .+..  .+.+...++..+...   ....+...+ ...
T Consensus       102 ~~~~vi~ivG~~GsGKTTl~~~LA~~l--~~~g~kV~lv~~D-~~r~~a~eqL~~~~~~~gl~~~~~~s~~~~~~v~~~a  178 (306)
T 1vma_A          102 EPPFVIMVVGVNGTGKTTSCGKLAKMF--VDEGKSVVLAAAD-TFRAAAIEQLKIWGERVGATVISHSEGADPAAVAFDA  178 (306)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHH--HHTTCCEEEEEEC-TTCHHHHHHHHHHHHHHTCEEECCSTTCCHHHHHHHH
T ss_pred             CCCeEEEEEcCCCChHHHHHHHHHHHH--HhcCCEEEEEccc-cccHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHH
Confidence            456899999999999999998887632  2111224444432 2221  122233344433211   011122222 334


Q ss_pred             HHHHhcCCceeEEEcCC
Q 036323          280 IGANIAGQKFFMVLDNL  296 (583)
Q Consensus       280 l~~~l~~k~~LlVlDdv  296 (583)
                      +...+....-++++|-.
T Consensus       179 l~~a~~~~~dvvIiDtp  195 (306)
T 1vma_A          179 VAHALARNKDVVIIDTA  195 (306)
T ss_dssp             HHHHHHTTCSEEEEEEC
T ss_pred             HHHHHhcCCCEEEEECC
Confidence            44445555668888976

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=95.04  E-value=0.022  Score=55.61  Aligned_cols=25  Identities=28%  Similarity=0.320  Sum_probs=22.4

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ....+|+|+|..|+||||||+.+..
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~~   53 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIYN   53 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            5678999999999999999988766

>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=95.03  E-value=0.057  Score=54.24  Aligned_cols=54  Identities=19%  Similarity=0.175  Sum_probs=32.1

Q ss_pred             HHHHHhcCCceeEEEcCCCcc-cccchHhhHHhhcc--CCCCceEEEecCchHHHhh
Q 036323          279 RIGANIAGQKFFMVLDNLWTD-DYRKWEPFRNCLMN--GLRGSKILITTRKETVARM  332 (583)
Q Consensus       279 ~l~~~l~~k~~LlVlDdv~~~-~~~~~~~l~~~l~~--~~~gs~IlvTtR~~~v~~~  332 (583)
                      .+...|..++=+|++|..-+. |...-..+...+..  ...|..||++|-+...+..
T Consensus       173 aIArAL~~~P~lLLlDEPTs~LD~~~~~~i~~lL~~l~~~~g~Tii~vTHdl~~~~~  229 (366)
T 3tui_C          173 AIARALASNPKVLLCDQATSALDPATTRSILELLKDINRRLGLTILLITHEMDVVKR  229 (366)
T ss_dssp             HHHHHTTTCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHSCCEEEEEESCHHHHHH
T ss_pred             HHHHHHhcCCCEEEEECCCccCCHHHHHHHHHHHHHHHHhCCCEEEEEecCHHHHHH
Confidence            455556677889999987431 22222334443432  1237778888888766654

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=94.96  E-value=0.013  Score=53.15  Aligned_cols=23  Identities=26%  Similarity=0.367  Sum_probs=20.6

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .+|.|.|++|+||||+|+.+...
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~~   24 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKEI   24 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            47899999999999999998873

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=94.96  E-value=0.011  Score=53.46  Aligned_cols=23  Identities=26%  Similarity=0.447  Sum_probs=20.6

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .+.|.|+|++|+||||+|+.+..
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~   27 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAK   27 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            45788999999999999999976

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=94.94  E-value=0.0095  Score=53.06  Aligned_cols=22  Identities=32%  Similarity=0.409  Sum_probs=20.2

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .+|+|+|++|+|||||++.+..
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~   26 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQ   26 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999999886

>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=94.92  E-value=0.067  Score=59.42  Aligned_cols=54  Identities=19%  Similarity=0.255  Sum_probs=38.0

Q ss_pred             cCCceeechhHHHHHHHHhhcCCCC------CCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          178 DVSEVRGRDEEMRSIKSMLLCQGSD------QQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       178 ~~~~~vGR~~e~~~l~~~L~~~~~~------~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .-..+.|-++.+++|.+.+..+-..      .+-...+-+.++|++|+|||.||+.+++.
T Consensus       475 ~w~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e  534 (806)
T 3cf2_A          475 TWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANE  534 (806)
T ss_dssp             CSTTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHT
T ss_pred             CHHHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHH
Confidence            3456778888888887766433200      01233456789999999999999999984

>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=94.91  E-value=0.015  Score=51.99  Aligned_cols=24  Identities=25%  Similarity=0.444  Sum_probs=21.4

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...+++|+|++|+||||+++.+..
T Consensus         7 ~g~~i~l~G~~GsGKSTl~~~l~~   30 (175)
T 1knq_A            7 DHHIYVLMGVSGSGKSAVASEVAH   30 (175)
T ss_dssp             TSEEEEEECSTTSCHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHH
Confidence            356899999999999999999876

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=94.87  E-value=0.012  Score=54.37  Aligned_cols=25  Identities=28%  Similarity=0.539  Sum_probs=22.1

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...+++|+|+.|+|||||++.+...
T Consensus         7 ~g~~i~l~GpsGsGKsTl~~~L~~~   31 (208)
T 3tau_A            7 RGLLIVLSGPSGVGKGTVREAVFKD   31 (208)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHS
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhh
Confidence            3568999999999999999999874

>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1 b.49.1.1 c.37.1.11

Probab=94.87  E-value=0.027  Score=58.32  Aligned_cols=41  Identities=27%  Similarity=0.228  Sum_probs=28.1

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPF  250 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~  250 (583)
                      ..++|+|.+|+|||||+..+..+.... .-...+++.+.+..
T Consensus       152 q~~~i~G~sGvGKTtL~~~l~~~~~~~-~~~i~V~~~iGert  192 (473)
T 1sky_E          152 GKIGLFGGAGVGKTVLIQELIHNIAQE-HGGISVFAGVGERT  192 (473)
T ss_dssp             CEEEEECCSSSCHHHHHHHHHHHHHHH-TCCCEEEEEESSCH
T ss_pred             CEEEEECCCCCCccHHHHHHHhhhhhc-cCcEEEEeeeccCc
Confidence            358899999999999999888742211 22445666666543

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=94.86  E-value=0.023  Score=54.30  Aligned_cols=40  Identities=20%  Similarity=0.222  Sum_probs=28.4

Q ss_pred             HHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHc
Q 036323          189 MRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       189 ~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .+.+...+....  .......+|.|+|++|+||||+|+.+..
T Consensus        15 ~~~~~~~~~~~~--~~~~~~~~i~l~G~~GsGKSTla~~L~~   54 (253)
T 2p5t_B           15 LARNLRSLTRGK--KSSKQPIAILLGGQSGAGKTTIHRIKQK   54 (253)
T ss_dssp             HHHHHHHHHTTC--CCCSSCEEEEEESCGGGTTHHHHHHHHH
T ss_pred             HHHHHHHHHccC--CcccCCeEEEEECCCCCCHHHHHHHHHH
Confidence            344444444432  1234567899999999999999999876

>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=94.86  E-value=0.091  Score=52.52  Aligned_cols=23  Identities=26%  Similarity=0.375  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||.+.++.
T Consensus        26 Ge~~~llGpnGsGKSTLLr~iaG   48 (348)
T 3d31_A           26 GEYFVILGPTGAGKTLFLELIAG   48 (348)
T ss_dssp             TCEEEEECCCTHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCccHHHHHHHHHc
Confidence            35899999999999999999975

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=94.84  E-value=0.012  Score=53.99  Aligned_cols=24  Identities=29%  Similarity=0.487  Sum_probs=21.5

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...+++|+|+.|+|||||++.+..
T Consensus        28 ~g~~i~l~G~~GsGKSTl~~~L~~   51 (200)
T 4eun_A           28 PTRHVVVMGVSGSGKTTIAHGVAD   51 (200)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            356899999999999999999876

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=94.82  E-value=0.01  Score=54.50  Aligned_cols=23  Identities=22%  Similarity=0.414  Sum_probs=20.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+|.|+|++|+||||+|+.+..
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~   40 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAE   40 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45899999999999999999876

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=94.80  E-value=0.02  Score=52.73  Aligned_cols=26  Identities=35%  Similarity=0.411  Sum_probs=22.8

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcC
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ....+|+|+|.+|+|||||++.+...
T Consensus        19 ~~~~~i~i~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           19 SKTFIIGISGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHh
Confidence            44679999999999999999998873

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=94.79  E-value=0.027  Score=56.17  Aligned_cols=45  Identities=20%  Similarity=0.203  Sum_probs=31.3

Q ss_pred             eechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHc
Q 036323          183 RGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       183 vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ++-+.-.+++.+.+...-   ..+....|.|+|++|+||||+++.++.
T Consensus         2 ~~~~~L~~~il~~l~~~i---~~g~~~~i~l~G~~G~GKTTl~~~la~   46 (359)
T 2ga8_A            2 VDTHKLADDVLQLLDNRI---EDNYRVCVILVGSPGSGKSTIAEELCQ   46 (359)
T ss_dssp             CCHHHHHHHHHHHHHHTT---TTCSCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHh---ccCCeeEEEEECCCCCcHHHHHHHHHH
Confidence            334455666666664322   224466789999999999999998876

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=94.75  E-value=0.014  Score=53.45  Aligned_cols=23  Identities=22%  Similarity=0.368  Sum_probs=20.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||++.+..
T Consensus         7 g~ii~l~Gp~GsGKSTl~~~L~~   29 (205)
T 3tr0_A            7 ANLFIISAPSGAGKTSLVRALVK   29 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CcEEEEECcCCCCHHHHHHHHHh
Confidence            45899999999999999999876

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=94.74  E-value=0.012  Score=52.43  Aligned_cols=24  Identities=25%  Similarity=0.637  Sum_probs=20.4

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...+++|+|+.|+|||||++.++.
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            356899999999999999997543

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=94.74  E-value=0.017  Score=52.90  Aligned_cols=25  Identities=28%  Similarity=0.388  Sum_probs=22.4

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ....+|+|.|++|+||||+++.+.+
T Consensus        13 ~~~~~I~l~G~~GsGKsT~~~~L~~   37 (203)
T 1ukz_A           13 DQVSVIFVLGGPGAGKGTQCEKLVK   37 (203)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            4567999999999999999999876

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=94.74  E-value=0.017  Score=52.86  Aligned_cols=25  Identities=36%  Similarity=0.429  Sum_probs=22.7

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ....+|+|+|+.|+||||+++.+..
T Consensus         6 ~~~~~I~i~G~~GsGKST~~~~La~   30 (203)
T 1uf9_A            6 KHPIIIGITGNIGSGKSTVAALLRS   30 (203)
T ss_dssp             CCCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHH
Confidence            4577999999999999999999987

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=94.71  E-value=0.017  Score=53.27  Aligned_cols=24  Identities=38%  Similarity=0.364  Sum_probs=21.6

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...+++|+|..|+|||||++.+..
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~   28 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALAR   28 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999998876

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=94.71  E-value=0.67  Score=58.25  Aligned_cols=139  Identities=13%  Similarity=0.071  Sum_probs=71.5

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQK  288 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~  288 (583)
                      +-|.++|++|+|||+||+.+....   ..+ ....++.+...+...+...+-..+..........      ..-.-.+++
T Consensus      1268 ~~vLL~GPpGtGKT~la~~~l~~~---~~~-~~~~infsa~ts~~~~~~~i~~~~~~~~~~~g~~------~~P~~~gk~ 1337 (2695)
T 4akg_A         1268 RGIILCGPPGSGKTMIMNNALRNS---SLY-DVVGINFSKDTTTEHILSALHRHTNYVTTSKGLT------LLPKSDIKN 1337 (2695)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSC---SSC-EEEEEECCTTCCHHHHHHHHHHHBCCEEETTTEE------EEEBSSSSC
T ss_pred             CeEEEECCCCCCHHHHHHHHHhcC---CCC-ceEEEEeecCCCHHHHHHHHHHHhhhccccCCcc------ccCCCCCce
Confidence            467799999999999997776532   222 3455677776666555444443332110000000      000003678


Q ss_pred             eeEEEcCCCccccc------chHhhHHhhccCC-----C-------CceEEEecCchH------HH-hhhcCCCeEEcCC
Q 036323          289 FFMVLDNLWTDDYR------KWEPFRNCLMNGL-----R-------GSKILITTRKET------VA-RMMESTDIVYVQG  343 (583)
Q Consensus       289 ~LlVlDdv~~~~~~------~~~~l~~~l~~~~-----~-------gs~IlvTtR~~~------v~-~~~~~~~~~~l~~  343 (583)
                      ++|.+||+.-...+      ..+.++..+..++     .       +..+|.++....      +. ........+.+..
T Consensus      1338 ~VlFiDEinmp~~d~yg~q~~lelLRq~le~gg~yd~~~~~~~~~~~i~lIaA~Npp~~gGR~~l~~rllRrf~vi~i~~ 1417 (2695)
T 4akg_A         1338 LVLFCDEINLPKLDKYGSQNVVLFLRQLMEKQGFWKTPENKWVTIERIHIVGACNPPTDPGRIPMSERFTRHAAILYLGY 1417 (2695)
T ss_dssp             EEEEEETTTCSCCCSSSCCHHHHHHHHHHHTSSEECTTTCCEEEEESEEEEEEECCTTSTTCCCCCHHHHTTEEEEECCC
T ss_pred             EEEEecccccccccccCchhHHHHHHHHHhcCCEEEcCCCcEEEecCEEEEEecCCCccCCCccCChhhhheeeEEEeCC
Confidence            89999997432222      2333444433211     1       233444443221      11 1112245677777


Q ss_pred             CChHHHHHHHHHHh
Q 036323          344 LSELECWSLFRRFA  357 (583)
Q Consensus       344 L~~~ea~~Lf~~~a  357 (583)
                      .+.++-..+|....
T Consensus      1418 P~~~~l~~I~~~il 1431 (2695)
T 4akg_A         1418 PSGKSLSQIYEIYY 1431 (2695)
T ss_dssp             CTTTHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHH
Confidence            77777777776654

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=94.70  E-value=0.015  Score=52.64  Aligned_cols=23  Identities=22%  Similarity=0.254  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+|.|.|++|+||||+|+.+..
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~   25 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVE   25 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999998876

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=94.67  E-value=0.07  Score=53.08  Aligned_cols=53  Identities=11%  Similarity=0.030  Sum_probs=37.0

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhh
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELE  264 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~  264 (583)
                      ..++.|.|.+|+||||||..++.+...  .=..++|++.  ..+...+...++....
T Consensus        46 G~LiiIaG~pG~GKTt~al~ia~~~a~--~g~~Vl~fSl--Ems~~ql~~Rlls~~~   98 (338)
T 4a1f_A           46 GSLVIIGARPSMGKTSLMMNMVLSALN--DDRGVAVFSL--EMSAEQLALRALSDLT   98 (338)
T ss_dssp             TCEEEEEECTTSCHHHHHHHHHHHHHH--TTCEEEEEES--SSCHHHHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHHHH--cCCeEEEEeC--CCCHHHHHHHHHHHhh
Confidence            458899999999999999888764222  2234666655  3466777777766544

>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=94.64  E-value=0.015  Score=52.57  Aligned_cols=22  Identities=36%  Similarity=0.703  Sum_probs=20.3

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .+|.|.|++|+||||+++.+..
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~   25 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMD   25 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999999876

>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=94.63  E-value=0.012  Score=52.81  Aligned_cols=23  Identities=35%  Similarity=0.481  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .++|.|+|++|+||||+++.+..
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~   33 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELAS   33 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHH
Confidence            45788999999999999999876

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=94.63  E-value=0.012  Score=54.18  Aligned_cols=25  Identities=24%  Similarity=0.472  Sum_probs=21.8

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...+|.|+|++|+|||||++.+...
T Consensus        11 ~~~~i~l~G~sGsGKsTl~~~L~~~   35 (204)
T 2qor_A           11 RIPPLVVCGPSGVGKGTLIKKVLSE   35 (204)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHHH
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHh
Confidence            4568899999999999999998763

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=94.61  E-value=0.015  Score=53.30  Aligned_cols=24  Identities=29%  Similarity=0.537  Sum_probs=21.3

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+++|+|++|+|||||++.+...
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            458999999999999999998763

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=94.60  E-value=0.021  Score=51.56  Aligned_cols=26  Identities=27%  Similarity=0.344  Sum_probs=22.5

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcC
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ....+|.|.|++|+||||+++.+...
T Consensus        11 ~~~~~i~l~G~~GsGKsT~~~~L~~~   36 (186)
T 2yvu_A           11 EKGIVVWLTGLPGSGKTTIATRLADL   36 (186)
T ss_dssp             SCCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHH
Confidence            34678999999999999999998873

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=94.59  E-value=0.016  Score=52.63  Aligned_cols=23  Identities=35%  Similarity=0.374  Sum_probs=20.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+|.|.|++|+||||+|+.+..
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~La~   31 (196)
T 2c95_A            9 TNIIFVVGGPGSGKGTQCEKIVQ   31 (196)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            45899999999999999999876

>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=94.59  E-value=0.024  Score=53.81  Aligned_cols=24  Identities=21%  Similarity=0.105  Sum_probs=21.6

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ....|.|.|++|+||||+|+.+.+
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L~~   51 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNLKK   51 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            467899999999999999999876

>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=94.57  E-value=0.017  Score=52.09  Aligned_cols=24  Identities=29%  Similarity=0.378  Sum_probs=21.3

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ....|.|+|++|+||||+++.+..
T Consensus         9 ~~~~I~l~G~~GsGKSTv~~~La~   32 (184)
T 1y63_A            9 KGINILITGTPGTGKTSMAEMIAA   32 (184)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
Confidence            356899999999999999999876

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=94.56  E-value=0.026  Score=56.74  Aligned_cols=112  Identities=11%  Similarity=0.114  Sum_probs=58.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQ  287 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  287 (583)
                      ..+++|+|+.|+|||||.+.+...  ........+ +.+.++....  .......+.... ...+.......+...|...
T Consensus       123 ~g~i~I~GptGSGKTTlL~~l~g~--~~~~~~~~i-~t~ed~~e~~--~~~~~~~v~q~~-~~~~~~~~~~~La~aL~~~  196 (356)
T 3jvv_A          123 RGLVLVTGPTGSGKSTTLAAMLDY--LNNTKYHHI-LTIEDPIEFV--HESKKCLVNQRE-VHRDTLGFSEALRSALRED  196 (356)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHH--HHHHCCCEE-EEEESSCCSC--CCCSSSEEEEEE-BTTTBSCHHHHHHHHTTSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhc--ccCCCCcEE-EEccCcHHhh--hhccccceeeee-eccccCCHHHHHHHHhhhC
Confidence            349999999999999999988662  211111222 2222211100  000000000000 0001122444777888889


Q ss_pred             ceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCchHHH
Q 036323          288 KFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKETVA  330 (583)
Q Consensus       288 ~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~~v~  330 (583)
                      +=+|++|.+-  +.+.++.+....   ..|..||+|+-.....
T Consensus       197 PdvillDEp~--d~e~~~~~~~~~---~~G~~vl~t~H~~~~~  234 (356)
T 3jvv_A          197 PDIILVGEMR--DLETIRLALTAA---ETGHLVFGTLHTTSAA  234 (356)
T ss_dssp             CSEEEESCCC--SHHHHHHHHHHH---HTTCEEEEEESCSSHH
T ss_pred             cCEEecCCCC--CHHHHHHHHHHH---hcCCEEEEEEccChHH
Confidence            9999999994  333444433332   2366688888765544

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=94.56  E-value=0.022  Score=51.49  Aligned_cols=24  Identities=21%  Similarity=0.243  Sum_probs=21.5

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...+|+|.|++|+||||+|+.+..
T Consensus         5 ~~~~I~l~G~~GsGKsT~~~~L~~   28 (194)
T 1qf9_A            5 KPNVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             cCcEEEEECCCCCCHHHHHHHHHH
Confidence            356899999999999999999876

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=94.55  E-value=0.015  Score=51.47  Aligned_cols=25  Identities=32%  Similarity=0.416  Sum_probs=20.7

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ....+|+|.|++|+||||+++.+..
T Consensus         5 ~~~~~i~l~G~~GsGKSTva~~La~   29 (168)
T 1zuh_A            5 HHMQHLVLIGFMGSGKSSLAQELGL   29 (168)
T ss_dssp             ---CEEEEESCTTSSHHHHHHHHHH
T ss_pred             cccceEEEECCCCCCHHHHHHHHHH
Confidence            3467999999999999999999876

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=94.54  E-value=0.019  Score=52.00  Aligned_cols=22  Identities=23%  Similarity=0.415  Sum_probs=20.2

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .+++|+|++|+|||||++.+..
T Consensus         3 ~ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            3 KLYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHhc
Confidence            5789999999999999999975

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=94.54  E-value=0.018  Score=55.34  Aligned_cols=23  Identities=26%  Similarity=0.583  Sum_probs=21.0

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+|.|+|++|+||||+|+.+..
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~   26 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAK   26 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHH
Confidence            56899999999999999999876

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=94.52  E-value=0.018  Score=55.14  Aligned_cols=23  Identities=22%  Similarity=0.176  Sum_probs=20.6

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .++.|.|++|+||||||+.++..
T Consensus         2 ~li~I~G~~GSGKSTla~~La~~   24 (253)
T 2ze6_A            2 LLHLIYGPTCSGKTDMAIQIAQE   24 (253)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHhc
Confidence            47899999999999999998763

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=94.50  E-value=0.023  Score=52.85  Aligned_cols=26  Identities=23%  Similarity=0.286  Sum_probs=23.3

Q ss_pred             CCceEEEEEEecCCchHHHHHHHHHc
Q 036323          205 TNTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       205 ~~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      -...++|.|.|++|+||||.|+.+..
T Consensus        26 ~~k~kiI~llGpPGsGKgTqa~~L~~   51 (217)
T 3umf_A           26 LAKAKVIFVLGGPGSGKGTQCEKLVQ   51 (217)
T ss_dssp             TTSCEEEEEECCTTCCHHHHHHHHHH
T ss_pred             ccCCcEEEEECCCCCCHHHHHHHHHH
Confidence            35688999999999999999999886

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=94.50  E-value=0.02  Score=51.55  Aligned_cols=23  Identities=30%  Similarity=0.277  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...|.|.|++|+||||+++.+.+
T Consensus         4 g~~I~l~G~~GsGKST~~~~La~   26 (186)
T 3cm0_A            4 GQAVIFLGPPGAGKGTQASRLAQ   26 (186)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45789999999999999999876

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=94.48  E-value=0.011  Score=53.54  Aligned_cols=22  Identities=32%  Similarity=0.510  Sum_probs=19.5

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      +.|.|+|++|+|||||++.+..
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~   23 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFA   23 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3578999999999999999876

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=94.48  E-value=0.13  Score=53.10  Aligned_cols=24  Identities=38%  Similarity=0.443  Sum_probs=21.4

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .+.+|.++|.+|+||||++..++.
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~  122 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLAR  122 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHH
Confidence            478999999999999999987765

>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=94.44  E-value=0.16  Score=52.28  Aligned_cols=25  Identities=40%  Similarity=0.303  Sum_probs=22.0

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...+|.++|.+|+||||++..++..
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~  120 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYF  120 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999999888753

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=94.40  E-value=0.018  Score=52.63  Aligned_cols=22  Identities=27%  Similarity=0.416  Sum_probs=19.9

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .|+|.|++|+||||+++.+...
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~   23 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKK   23 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHHh
Confidence            5889999999999999998873

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=94.38  E-value=0.035  Score=51.70  Aligned_cols=25  Identities=28%  Similarity=0.364  Sum_probs=21.9

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ....|+|+|.+|+|||||+..+...
T Consensus        37 ~~~~i~ivG~~gvGKTtl~~~l~~~   61 (226)
T 2hf9_A           37 GVVAFDFMGAIGSGKTLLIEKLIDN   61 (226)
T ss_dssp             TCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            4678889999999999999988764

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=94.38  E-value=0.021  Score=52.61  Aligned_cols=24  Identities=29%  Similarity=0.392  Sum_probs=21.2

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+|.|.|++|+||||+|+.+...
T Consensus         4 ~~~I~i~G~~GsGKsT~~~~L~~~   27 (213)
T 2plr_A            4 GVLIAFEGIDGSGKSSQATLLKDW   27 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHH
Confidence            358999999999999999999873

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=94.36  E-value=0.021  Score=52.26  Aligned_cols=25  Identities=24%  Similarity=0.220  Sum_probs=21.6

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ....+|.|+|++|+||||+|+.+..
T Consensus        18 ~~~~~I~l~G~~GsGKST~a~~La~   42 (201)
T 2cdn_A           18 GSHMRVLLLGPPGAGKGTQAVKLAE   42 (201)
T ss_dssp             CSCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3445899999999999999999876

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=94.34  E-value=0.02  Score=52.46  Aligned_cols=21  Identities=38%  Similarity=0.485  Sum_probs=19.6

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 036323          210 IISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      +|+|+|+.|+||||+++.+..
T Consensus         3 ~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHH
Confidence            689999999999999999876

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=94.30  E-value=0.019  Score=52.28  Aligned_cols=23  Identities=30%  Similarity=0.391  Sum_probs=20.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+|+|.|++|+||||+|+.+..
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~   34 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVE   34 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            35899999999999999999876

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=94.30  E-value=0.016  Score=53.04  Aligned_cols=23  Identities=26%  Similarity=0.465  Sum_probs=20.1

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .++++|+|+.|+|||||++.+..
T Consensus         4 g~~i~lvGpsGaGKSTLl~~L~~   26 (198)
T 1lvg_A            4 PRPVVLSGPSGAGKSTLLKKLFQ   26 (198)
T ss_dssp             -CCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            35789999999999999998875

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=94.25  E-value=0.024  Score=52.13  Aligned_cols=22  Identities=41%  Similarity=0.526  Sum_probs=20.2

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .+|+|+|+.|+||||+++.+..
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            4799999999999999999976

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=94.25  E-value=0.021  Score=52.20  Aligned_cols=24  Identities=13%  Similarity=0.468  Sum_probs=21.5

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..++++|+|+.|+|||||++.+..
T Consensus        18 ~g~~ivl~GPSGaGKsTL~~~L~~   41 (197)
T 3ney_A           18 GRKTLVLIGASGVGRSHIKNALLS   41 (197)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECcCCCCHHHHHHHHHh
Confidence            456899999999999999999876

>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=94.24  E-value=0.19  Score=51.03  Aligned_cols=23  Identities=30%  Similarity=0.397  Sum_probs=20.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||.+.+..
T Consensus        47 Ge~~~llGpsGsGKSTLLr~iaG   69 (390)
T 3gd7_A           47 GQRVGLLGRTGSGKSTLLSAFLR   69 (390)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHhC
Confidence            45899999999999999999875

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=94.24  E-value=0.021  Score=53.38  Aligned_cols=22  Identities=32%  Similarity=0.492  Sum_probs=20.2

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .+|+|+|++|+||||+++.+..
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~   27 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAE   27 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999876

>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=94.23  E-value=0.015  Score=52.37  Aligned_cols=21  Identities=29%  Similarity=0.457  Sum_probs=19.5

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 036323          210 IISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      +|.|+|++|+||||+|+.+..
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~   24 (184)
T 2iyv_A            4 KAVLVGLPGSGKSTIGRRLAK   24 (184)
T ss_dssp             SEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999876

>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=94.22  E-value=0.14  Score=54.08  Aligned_cols=54  Identities=9%  Similarity=-0.073  Sum_probs=36.3

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHh
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEEL  263 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l  263 (583)
                      ...++.|.|.+|+||||||..++.+.... +=..++|++...  +..++...++...
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 GGEVIMVTSGSGMVMSTFVRQQALQWGTA-MGKKVGLAMLEE--SVEETAEDLIGLH  294 (503)
T ss_dssp             TTCEEEEEESSCHHHHHHHHHHHHHHTTT-SCCCEEEEESSS--CHHHHHHHHHHHH
T ss_pred             CCeEEEEeecCCCCchHHHHHHHHHHHHh-cCCcEEEEeccC--CHHHHHHHHHHHH
Confidence            34688999999999999998887642221 123467776643  4566666665544

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=94.22  E-value=0.13  Score=53.22  Aligned_cols=26  Identities=27%  Similarity=0.287  Sum_probs=22.2

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcC
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+++|.|+|.+|+||||++..++..
T Consensus        98 ~~~~vI~ivG~~GvGKTT~a~~LA~~  123 (433)
T 2xxa_A           98 QPPAVVLMAGLQGAGKTTSVGKLGKF  123 (433)
T ss_dssp             SSSEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            35789999999999999999888753

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=94.22  E-value=0.021  Score=50.76  Aligned_cols=25  Identities=28%  Similarity=0.320  Sum_probs=21.6

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+++.|+|..|+|||||+..+...
T Consensus         3 ~~~~i~i~G~sGsGKTTl~~~L~~~   27 (169)
T 1xjc_A            3 AMNVWQVVGYKHSGKTTLMEKWVAA   27 (169)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHh
Confidence            3678999999999999999998873

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=94.18  E-value=0.02  Score=51.07  Aligned_cols=22  Identities=36%  Similarity=0.513  Sum_probs=19.9

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..|.|.|++|+||||+|+.+..
T Consensus         5 ~~i~i~G~~GsGKsTla~~La~   26 (175)
T 1via_A            5 KNIVFIGFMGSGKSTLARALAK   26 (175)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            3688999999999999999976

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=94.15  E-value=0.014  Score=52.34  Aligned_cols=23  Identities=35%  Similarity=0.335  Sum_probs=16.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+|.|.|++|+||||+|+.+..
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~   27 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHE   27 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45899999999999999999876

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=94.13  E-value=0.023  Score=54.02  Aligned_cols=23  Identities=26%  Similarity=0.283  Sum_probs=21.0

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|++|+|||||++.+..
T Consensus        27 ~~~i~l~G~~GsGKSTl~k~La~   49 (246)
T 2bbw_A           27 LLRAVILGPPGSGKGTVCQRIAQ   49 (246)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999984

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=94.10  E-value=0.025  Score=52.26  Aligned_cols=24  Identities=21%  Similarity=0.289  Sum_probs=21.4

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+|+|.|++|+||||+++.+...
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~L~~~   32 (215)
T 1nn5_A            9 GALIVLEGVDRAGKSTQSRKLVEA   32 (215)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            458999999999999999999873

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=94.06  E-value=0.018  Score=51.09  Aligned_cols=22  Identities=36%  Similarity=0.403  Sum_probs=20.0

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .+|.|.|++|+||||+|+.+..
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~   24 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELAR   24 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999999876

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=94.05  E-value=0.026  Score=53.84  Aligned_cols=25  Identities=16%  Similarity=0.215  Sum_probs=21.8

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ....+|+|.|++|+||||+|+.+..
T Consensus        20 ~~~~iI~I~G~~GSGKST~a~~L~~   44 (252)
T 1uj2_A           20 GEPFLIGVSGGTASGKSSVCAKIVQ   44 (252)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHH
Confidence            3567999999999999999998876

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=94.03  E-value=0.023  Score=52.85  Aligned_cols=23  Identities=26%  Similarity=0.252  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...|.|.|++|+||||+|+.+..
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~   26 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQE   26 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            45789999999999999999876

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=94.02  E-value=0.058  Score=53.12  Aligned_cols=25  Identities=32%  Similarity=0.395  Sum_probs=22.2

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ....+|+|+|..|+|||||++.+..
T Consensus        78 ~~g~iigI~G~~GsGKSTl~~~L~~  102 (308)
T 1sq5_A           78 RIPYIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3467999999999999999998876

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=94.02  E-value=0.028  Score=55.44  Aligned_cols=25  Identities=28%  Similarity=0.339  Sum_probs=22.3

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ....+|+|+|..|+|||||++.+..
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~g  112 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQA  112 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHh
Confidence            4567999999999999999998876

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=94.02  E-value=0.038  Score=51.23  Aligned_cols=39  Identities=18%  Similarity=0.191  Sum_probs=28.5

Q ss_pred             hhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          186 DEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       186 ~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ++..+.+.+.+..       ....+|+|+|.+|+|||||+..+...
T Consensus        15 ~~~~~~~~~~~~~-------~~~~~i~i~G~~g~GKTTl~~~l~~~   53 (221)
T 2wsm_A           15 KRLAEKNREALRE-------SGTVAVNIMGAIGSGKTLLIERTIER   53 (221)
T ss_dssp             HHHHHHHHHHHHH-------HTCEEEEEEECTTSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhcc-------cCceEEEEEcCCCCCHHHHHHHHHHH
Confidence            3445555555432       24679999999999999999988764

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=94.02  E-value=0.024  Score=52.22  Aligned_cols=24  Identities=25%  Similarity=0.324  Sum_probs=21.5

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+|+|.|++|+||||+++.+...
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~~   33 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVEY   33 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHH
Confidence            468999999999999999998863

>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=94.00  E-value=0.23  Score=48.49  Aligned_cols=87  Identities=14%  Similarity=0.021  Sum_probs=45.2

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCC-CChHHHHHHHHHHhhcCc---cccccHHHHHHHHHHH
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDP-FDEFNVAKATIEELEGSA---IDLHELNSLLRRIGAN  283 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~il~~l~~~~---~~~~~~~~~~~~l~~~  283 (583)
                      ..+++++|.+|+||||++..++....  ..-..+.+++.... ....+.+.......+..-   ....+...+.....+.
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~~~--~~g~~v~l~~~D~~r~~a~~ql~~~~~~~~v~v~~~~~~~~p~~~~~~~l~~  175 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYFYK--KKGFKVGLVGADVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIAKRGVEK  175 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHHH--HTTCCEEEEECCCSSSHHHHHHHHHHHHHTCCEECCTTCCCHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH--HCCCeEEEEecCCCCHHHHHHHHHHhccCCeEEEecCCCCCHHHHHHHHHHH
Confidence            67999999999999999988876321  11123445554322 222233333444433221   1112333343333333


Q ss_pred             hc-CCceeEEEcCC
Q 036323          284 IA-GQKFFMVLDNL  296 (583)
Q Consensus       284 l~-~k~~LlVlDdv  296 (583)
                      ++ ..-=++++|-.
T Consensus       176 ~~~~~~D~ViIDTp  189 (297)
T 1j8m_F          176 FLSEKMEIIIVDTA  189 (297)
T ss_dssp             HHHTTCSEEEEECC
T ss_pred             HHhCCCCEEEEeCC
Confidence            43 33347888875

>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=93.97  E-value=0.029  Score=50.25  Aligned_cols=24  Identities=25%  Similarity=0.338  Sum_probs=21.2

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...+|+|+|+.|+||||+++.+..
T Consensus         4 ~g~~i~l~G~~GsGKST~~~~L~~   27 (179)
T 2pez_A            4 RGCTVWLTGLSGAGKTTVSMALEE   27 (179)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            356889999999999999999876

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=93.95  E-value=0.026  Score=51.13  Aligned_cols=21  Identities=43%  Similarity=0.700  Sum_probs=19.6

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 036323          210 IISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      +|+|.|++|+||||+++.+.+
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~   22 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYE   22 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999999977

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=93.95  E-value=0.026  Score=49.86  Aligned_cols=21  Identities=29%  Similarity=0.382  Sum_probs=19.4

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 036323          210 IISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .|.|.|++|+||||+|+.+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSR   22 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            588999999999999999876

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=93.93  E-value=0.027  Score=51.96  Aligned_cols=23  Identities=17%  Similarity=0.392  Sum_probs=20.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||++.+..
T Consensus        20 Gei~~l~GpnGsGKSTLl~~l~g   42 (207)
T 1znw_A           20 GRVVVLSGPSAVGKSTVVRCLRE   42 (207)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            45899999999999999999876

>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=93.91  E-value=0.18  Score=50.04  Aligned_cols=25  Identities=36%  Similarity=0.433  Sum_probs=22.3

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ....+++|+|+.|+||||++..+..
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag  151 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLAN  151 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3578999999999999999998876

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=93.89  E-value=0.026  Score=52.82  Aligned_cols=23  Identities=22%  Similarity=0.278  Sum_probs=20.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...|.|.|++|+||||+|+.+..
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La~   29 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRITT   29 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            46799999999999999999876

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=93.89  E-value=0.031  Score=53.00  Aligned_cols=24  Identities=21%  Similarity=0.273  Sum_probs=21.4

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...+|+|.|+.|+|||||++.+..
T Consensus        24 ~g~iigI~G~~GsGKSTl~k~L~~   47 (245)
T 2jeo_A           24 RPFLIGVSGGTASGKSTVCEKIME   47 (245)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            456899999999999999998865

>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=93.88  E-value=0.019  Score=53.02  Aligned_cols=22  Identities=32%  Similarity=0.537  Sum_probs=19.8

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      +|+|.|..|+||||+++.+...
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~   23 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGA   23 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            6899999999999999998763

>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=93.82  E-value=0.24  Score=53.33  Aligned_cols=24  Identities=33%  Similarity=0.527  Sum_probs=21.1

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...+++|+|+.|+|||||++.+..
T Consensus       368 ~G~~~~ivG~sGsGKSTll~~l~g  391 (582)
T 3b5x_A          368 QGKTVALVGRSGSGKSTIANLFTR  391 (582)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            345899999999999999999865

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=93.81  E-value=0.036  Score=53.85  Aligned_cols=25  Identities=28%  Similarity=0.551  Sum_probs=21.9

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+.+|+|.|++|+||||+|+.+..
T Consensus        73 ~~~~iI~I~G~~GSGKSTva~~La~   97 (281)
T 2f6r_A           73 SGLYVLGLTGISGSGKSSVAQRLKN   97 (281)
T ss_dssp             TTCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3467999999999999999999873

>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=93.80  E-value=0.16  Score=52.63  Aligned_cols=54  Identities=20%  Similarity=0.114  Sum_probs=37.5

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCC-hHHHHHHHHH
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFD-EFNVAKATIE  261 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~-~~~~~~~il~  261 (583)
                      +..-++|.|.+|+|||+|+..+.++. .+.+-+.++++-+.+... ..++...+..
T Consensus       164 kGqr~gIfgg~GvGKT~L~~~l~~~~-a~~~~~v~V~~~iGER~rEv~e~~~~~~~  218 (498)
T 1fx0_B          164 RGGKIGLFGGAGVGKTVLIMELINNI-AKAHGGVSVFGGVGERTREGNDLYMEMKE  218 (498)
T ss_dssp             TTCCEEEEECSSSSHHHHHHHHHHHT-TTTCSSCEEEEEESCCSHHHHHHHHHHHH
T ss_pred             cCCeEEeecCCCCCchHHHHHHHHHH-HhhCCCEEEEEEcccCcHHHHHHHHhhhc
Confidence            44568899999999999999888742 122346778888877654 3455555544

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=93.78  E-value=0.024  Score=52.79  Aligned_cols=23  Identities=30%  Similarity=0.491  Sum_probs=20.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||++.+..
T Consensus        23 G~~~~lvGpsGsGKSTLl~~L~g   45 (218)
T 1z6g_A           23 IYPLVICGPSGVGKGTLIKKLLN   45 (218)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            45899999999999999999876

>3fwy_A Light-independent protochlorophyllide reductase I ATP-binding protein; BCHL, electron donor, DPOR, Fe protein, nitrogenase; HET: ADP; 1.63A {Rhodobacter sphaeroides 2}

Probab=93.78  E-value=0.032  Score=55.07  Aligned_cols=25  Identities=28%  Similarity=0.488  Sum_probs=20.8

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .+.+||+|.|-|||||||.+-.+..
T Consensus        46 ~~aKVIAIaGKGGVGKTTtavNLA~   70 (314)
T 3fwy_A           46 TGAKVFAVYGKGGIGKSTTSSNLSA   70 (314)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCceEEEEECCCccCHHHHHHHHHH
Confidence            4578999999999999999866644

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=93.77  E-value=0.34  Score=50.89  Aligned_cols=25  Identities=32%  Similarity=0.413  Sum_probs=20.8

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...++|+|+|.+|+||||++..+..
T Consensus        99 ~~~~vI~ivG~~GvGKTTl~~kLA~  123 (504)
T 2j37_W           99 GKQNVIMFVGLQGSGKTTTCSKLAY  123 (504)
T ss_dssp             S--EEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4578999999999999999988875

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=93.77  E-value=0.063  Score=53.43  Aligned_cols=105  Identities=14%  Similarity=0.069  Sum_probs=53.6

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQK  288 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~  288 (583)
                      .+++|+|..|+|||||++.+..-  . ..-...+.+.-......... .   +.+..-. .  .-......+...|..++
T Consensus       172 ~~v~i~G~~GsGKTTll~~l~g~--~-~~~~g~i~i~~~~e~~~~~~-~---~~i~~~~-g--gg~~~r~~la~aL~~~p  241 (330)
T 2pt7_A          172 KNVIVCGGTGSGKTTYIKSIMEF--I-PKEERIISIEDTEEIVFKHH-K---NYTQLFF-G--GNITSADCLKSCLRMRP  241 (330)
T ss_dssp             CCEEEEESTTSCHHHHHHHGGGG--S-CTTSCEEEEESSCCCCCSSC-S---SEEEEEC-B--TTBCHHHHHHHHTTSCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC--C-cCCCcEEEECCeeccccccc-h---hEEEEEe-C--CChhHHHHHHHHhhhCC
Confidence            48999999999999999998873  1 11234444442221110000 0   0000000 0  11123345556677788


Q ss_pred             eeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCchH
Q 036323          289 FFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKET  328 (583)
Q Consensus       289 ~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~~  328 (583)
                      =+|++|.+-.  .+.++.+ ..+..+  +..+|+||-...
T Consensus       242 ~ilildE~~~--~e~~~~l-~~~~~g--~~tvi~t~H~~~  276 (330)
T 2pt7_A          242 DRIILGELRS--SEAYDFY-NVLCSG--HKGTLTTLHAGS  276 (330)
T ss_dssp             SEEEECCCCS--THHHHHH-HHHHTT--CCCEEEEEECSS
T ss_pred             CEEEEcCCCh--HHHHHHH-HHHhcC--CCEEEEEEcccH
Confidence            8999999844  2233332 233322  223666665443

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=93.76  E-value=0.038  Score=48.54  Aligned_cols=24  Identities=29%  Similarity=0.336  Sum_probs=21.4

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...+++|+|+.|+|||||++.++.
T Consensus        32 ~Ge~v~L~G~nGaGKTTLlr~l~g   55 (158)
T 1htw_A           32 KAIMVYLNGDLGAGKTTLTRGMLQ   55 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
Confidence            356999999999999999999876

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=93.75  E-value=0.03  Score=52.20  Aligned_cols=24  Identities=21%  Similarity=0.266  Sum_probs=21.5

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...+++|+|+.|+|||||.+.+..
T Consensus        15 ~G~ii~l~GpsGsGKSTLlk~L~g   38 (219)
T 1s96_A           15 QGTLYIVSAPSGAGKSSLIQALLK   38 (219)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhc
Confidence            456999999999999999999876

>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=93.72  E-value=0.038  Score=50.27  Aligned_cols=25  Identities=28%  Similarity=0.465  Sum_probs=22.4

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ....+|+|+|+.|+||||+++.+..
T Consensus        10 ~~~~iIgltG~~GSGKSTva~~L~~   34 (192)
T 2grj_A           10 HHHMVIGVTGKIGTGKSTVCEILKN   34 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHH
Confidence            4577999999999999999999876

>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=93.69  E-value=0.22  Score=51.18  Aligned_cols=24  Identities=33%  Similarity=0.289  Sum_probs=20.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..++.|+|.+|+||||++..++..
T Consensus        98 ~~vi~i~G~~GsGKTT~~~~LA~~  121 (425)
T 2ffh_A           98 RNLWFLVGLQGSGKTTTAAKLALY  121 (425)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            568999999999999999888763

>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=93.68  E-value=0.2  Score=48.86  Aligned_cols=24  Identities=33%  Similarity=0.289  Sum_probs=21.1

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+++|+|.+|+||||++..++..
T Consensus        98 ~~~i~i~g~~G~GKTT~~~~la~~  121 (295)
T 1ls1_A           98 RNLWFLVGLQGSGKTTTAAKLALY  121 (295)
T ss_dssp             SEEEEEECCTTTTHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            568999999999999999888763

>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=93.68  E-value=0.032  Score=54.82  Aligned_cols=24  Identities=29%  Similarity=0.434  Sum_probs=21.5

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...+++|+|++|+|||||+..++.
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lag  124 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGR  124 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHH
Confidence            456999999999999999998876

>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=93.67  E-value=0.031  Score=51.06  Aligned_cols=24  Identities=25%  Similarity=0.261  Sum_probs=21.4

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...|+|.|+.|+||||+++.+...
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            357999999999999999999874

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=93.67  E-value=0.23  Score=51.70  Aligned_cols=25  Identities=36%  Similarity=0.461  Sum_probs=22.4

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ....+++|+|..|+|||||++.+..
T Consensus       291 ~~GeVI~LVGpNGSGKTTLl~~LAg  315 (503)
T 2yhs_A          291 KAPFVILMVGVNGVGKTTTIGKLAR  315 (503)
T ss_dssp             CTTEEEEEECCTTSSHHHHHHHHHH
T ss_pred             cCCeEEEEECCCcccHHHHHHHHHH
Confidence            4567999999999999999999876

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=93.65  E-value=0.12  Score=53.87  Aligned_cols=52  Identities=12%  Similarity=0.040  Sum_probs=34.3

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHH
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIE  261 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~  261 (583)
                      ...++.|.|.+|+|||||+..++.+.... .-..++|++...  +...+...++.
T Consensus       202 ~G~liiI~G~pG~GKTtl~l~ia~~~~~~-~g~~Vl~~s~E~--s~~~l~~r~~~  253 (454)
T 2r6a_A          202 RSDLIIVAARPSVGKTAFALNIAQNVATK-TNENVAIFSLEM--SAQQLVMRMLC  253 (454)
T ss_dssp             TTCEEEEECCTTSCHHHHHHHHHHHHHHH-SSCCEEEEESSS--CHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHHh-CCCcEEEEECCC--CHHHHHHHHHH
Confidence            34589999999999999999887642221 112466766543  44556655543

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=93.62  E-value=0.027  Score=52.46  Aligned_cols=23  Identities=22%  Similarity=0.206  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...|.|.|++|+||||+++.+..
T Consensus         5 ~~~I~l~G~~GsGKsT~~~~La~   27 (222)
T 1zak_A            5 PLKVMISGAPASGKGTQCELIKT   27 (222)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45789999999999999999876

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=93.62  E-value=0.025  Score=50.42  Aligned_cols=22  Identities=41%  Similarity=0.486  Sum_probs=20.1

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .+++|+|..|+|||||++.+..
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~   24 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMP   24 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999998876

>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=93.62  E-value=0.037  Score=51.12  Aligned_cols=25  Identities=28%  Similarity=0.274  Sum_probs=21.8

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...+|.|.|++|+||||+++.+...
T Consensus        24 ~~~~i~~~G~~GsGKsT~~~~l~~~   48 (211)
T 1m7g_A           24 RGLTIWLTGLSASGKSTLAVELEHQ   48 (211)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHH
Confidence            3568999999999999999998763

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=93.57  E-value=0.033  Score=51.57  Aligned_cols=21  Identities=33%  Similarity=0.472  Sum_probs=18.9

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 036323          210 IISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .|+|.|++|+||||+|+.+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIE   22 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999999876

>3llm_A ATP-dependent RNA helicase A; alpha-beta-alpha, structural genomics, structural genomics consortium, SGC, activator, ATP-binding, DNA-binding; HET: ADP; 2.80A {Homo sapiens}

Probab=93.52  E-value=0.21  Score=46.79  Aligned_cols=20  Identities=30%  Similarity=0.411  Sum_probs=16.6

Q ss_pred             EEEEEEecCCchHHHHHHHH
Q 036323          209 QIISMVGMGGIGKTTLAQLA  228 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v  228 (583)
                      +.+.|+|..|+||||+....
T Consensus        77 ~~~~i~g~TGsGKTt~~~~~   96 (235)
T 3llm_A           77 SVVIIRGATGCGKTTQVPQF   96 (235)
T ss_dssp             SEEEEECCTTSSHHHHHHHH
T ss_pred             CEEEEEeCCCCCcHHhHHHH
Confidence            47899999999999876544

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=93.50  E-value=0.035  Score=53.00  Aligned_cols=23  Identities=30%  Similarity=0.452  Sum_probs=21.0

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+|+|+|+.|+|||||++.+..
T Consensus        27 g~~I~I~G~~GsGKSTl~k~La~   49 (252)
T 4e22_A           27 APVITVDGPSGAGKGTLCKALAE   49 (252)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            45899999999999999999985

>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=93.49  E-value=0.051  Score=56.83  Aligned_cols=22  Identities=27%  Similarity=0.483  Sum_probs=19.8

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .+.|.|.+|+|||+++..+...
T Consensus        47 ~~li~G~aGTGKT~ll~~~~~~   68 (459)
T 3upu_A           47 HVTINGPAGTGATTLTKFIIEA   68 (459)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHH
Confidence            8899999999999999888764

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=93.45  E-value=0.053  Score=49.54  Aligned_cols=37  Identities=16%  Similarity=0.183  Sum_probs=27.0

Q ss_pred             HHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          189 MRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       189 ~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      +..+..++...      +....+.|+|++|+||||+|..+++.
T Consensus        45 ~~~l~~~~~~i------Pkkn~ili~GPPGtGKTt~a~ala~~   81 (212)
T 1tue_A           45 LGALKSFLKGT------PKKNCLVFCGPANTGKSYFGMSFIHF   81 (212)
T ss_dssp             HHHHHHHHHTC------TTCSEEEEESCGGGCHHHHHHHHHHH
T ss_pred             HHHHHHHHhcC------CcccEEEEECCCCCCHHHHHHHHHHH
Confidence            55566666421      23456899999999999999888774

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=93.45  E-value=0.22  Score=51.67  Aligned_cols=54  Identities=7%  Similarity=-0.063  Sum_probs=36.2

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHh
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEEL  263 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l  263 (583)
                      ...++.|.|.+|+|||+||..++.+.... .-..++|++..  .+...+...++...
T Consensus       199 ~G~l~ii~G~pg~GKT~lal~ia~~~a~~-~g~~vl~~slE--~~~~~l~~R~~~~~  252 (444)
T 2q6t_A          199 PGSLNIIAARPAMGKTAFALTIAQNAALK-EGVGVGIYSLE--MPAAQLTLRMMCSE  252 (444)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHHHHHHHT-TCCCEEEEESS--SCHHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHHh-CCCeEEEEECC--CCHHHHHHHHHHHH
Confidence            34588999999999999998887642211 11346776654  45566666666544

>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=93.45  E-value=0.055  Score=50.97  Aligned_cols=23  Identities=26%  Similarity=0.443  Sum_probs=20.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||.+.+..
T Consensus        31 Ge~~~iiG~nGsGKSTLl~~l~G   53 (235)
T 3tif_A           31 GEFVSIMGPSGSGKSTMLNIIGC   53 (235)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhc
Confidence            45899999999999999999986

>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=93.43  E-value=0.07  Score=53.71  Aligned_cols=37  Identities=19%  Similarity=0.282  Sum_probs=27.4

Q ss_pred             HHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHc
Q 036323          189 MRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       189 ~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...+.+.+....     ....+|+|+|.+|+|||||+..+..
T Consensus        65 ~~~~~~~~~~~~-----~~~~~I~i~G~~G~GKSTl~~~L~~  101 (355)
T 3p32_A           65 AQQLLLRLLPDS-----GNAHRVGITGVPGVGKSTAIEALGM  101 (355)
T ss_dssp             HHHHHHHHGGGC-----CCSEEEEEECCTTSSHHHHHHHHHH
T ss_pred             HHHHHHHhHhhc-----CCceEEEEECCCCCCHHHHHHHHHH
Confidence            445555554322     4578999999999999999988865

>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=93.41  E-value=0.036  Score=51.31  Aligned_cols=21  Identities=24%  Similarity=0.408  Sum_probs=18.9

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 036323          210 IISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .|+|.|++|+||||+|+.+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVE   22 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999999876

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=93.40  E-value=0.042  Score=50.95  Aligned_cols=23  Identities=30%  Similarity=0.377  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+|+|.|+.|+||||+++.+..
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            46899999999999999999865

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=93.33  E-value=0.063  Score=50.18  Aligned_cols=23  Identities=30%  Similarity=0.449  Sum_probs=20.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||.+.++.
T Consensus        30 Ge~~~iiG~nGsGKSTLl~~l~G   52 (224)
T 2pcj_A           30 GEFVSIIGASGSGKSTLLYILGL   52 (224)
T ss_dssp             TCEEEEEECTTSCHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            34899999999999999999986

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=93.29  E-value=0.064  Score=50.71  Aligned_cols=22  Identities=23%  Similarity=0.407  Sum_probs=20.7

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .+++|+|+.|+|||||.+.+..
T Consensus        25 e~~~liG~nGsGKSTLl~~l~G   46 (240)
T 2onk_A           25 DYCVLLGPTGAGKSVFLELIAG   46 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHhC
Confidence            6899999999999999999976

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=93.29  E-value=0.038  Score=51.35  Aligned_cols=23  Identities=22%  Similarity=0.355  Sum_probs=20.3

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...|.|.|++|+||||+|+.+..
T Consensus         5 ~~~I~l~G~~GsGKsT~a~~La~   27 (217)
T 3be4_A            5 KHNLILIGAPGSGKGTQCEFIKK   27 (217)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            34688999999999999999876

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=93.24  E-value=0.17  Score=46.15  Aligned_cols=22  Identities=36%  Similarity=0.498  Sum_probs=19.1

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .|+|=|..|+||||.++.+.+.
T Consensus         2 fI~~EG~DGsGKsTq~~~L~~~   23 (197)
T 3hjn_A            2 FITFEGIDGSGKSTQIQLLAQY   23 (197)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3678899999999999998874

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=93.23  E-value=0.12  Score=62.70  Aligned_cols=84  Identities=17%  Similarity=0.110  Sum_probs=53.1

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCc-----cccccHHHHHHHH
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSA-----IDLHELNSLLRRI  280 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~-----~~~~~~~~~~~~l  280 (583)
                      ...+.+.|+|++|+|||+||.++....  ..+=..++|+++.+.++...     ++.++...     ......+.....+
T Consensus      1425 ~~g~~vll~GppGtGKT~LA~ala~ea--~~~G~~v~Fi~~e~~~~~l~-----a~~~G~dl~~l~v~~~~~~E~~l~~~ 1497 (2050)
T 3cmu_A         1425 PMGRIVEIYGPESSGKTTLTLQVIAAA--QREGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEIC 1497 (2050)
T ss_dssp             ETTSEEEEECCTTSSHHHHHHHHHHHH--HTTTCCEEEECTTSCCCHHH-----HHHTTCCTTTCEEECCSSHHHHHHHH
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHH--HHcCCcEEEEEcccccCHHH-----HHHcCCCchhceeecCChHHHHHHHH
Confidence            346789999999999999998887632  22223467787777665554     33443211     0122334555555


Q ss_pred             HHHh-cCCceeEEEcCC
Q 036323          281 GANI-AGQKFFMVLDNL  296 (583)
Q Consensus       281 ~~~l-~~k~~LlVlDdv  296 (583)
                      .... ..+.-+||+|.+
T Consensus      1498 ~~lvr~~~~~lVVIDsi 1514 (2050)
T 3cmu_A         1498 DALARSGAVDVIVVDSV 1514 (2050)
T ss_dssp             HHHHHHTCCSEEEESCG
T ss_pred             HHHHhcCCCCEEEEcCh
Confidence            5443 356789999998

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=93.10  E-value=0.066  Score=51.71  Aligned_cols=23  Identities=30%  Similarity=0.456  Sum_probs=20.6

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||++.+..
T Consensus        34 Ge~~~iiGpnGsGKSTLl~~l~G   56 (275)
T 3gfo_A           34 GEVTAILGGNGVGKSTLFQNFNG   56 (275)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHc
Confidence            35899999999999999999875

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=93.08  E-value=0.057  Score=58.59  Aligned_cols=43  Identities=23%  Similarity=0.344  Sum_probs=36.0

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..++|.+..++.+...+...         ..+.|+|++|+||||||+.++..
T Consensus        41 ~~i~G~~~~l~~l~~~i~~g---------~~vll~Gp~GtGKTtlar~ia~~   83 (604)
T 3k1j_A           41 DQVIGQEHAVEVIKTAANQK---------RHVLLIGEPGTGKSMLGQAMAEL   83 (604)
T ss_dssp             HHCCSCHHHHHHHHHHHHTT---------CCEEEECCTTSSHHHHHHHHHHT
T ss_pred             ceEECchhhHhhccccccCC---------CEEEEEeCCCCCHHHHHHHHhcc
Confidence            46899998888888777432         37899999999999999999874

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=93.04  E-value=0.051  Score=53.29  Aligned_cols=25  Identities=32%  Similarity=0.360  Sum_probs=22.1

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ....+++|+|+.|+|||||++.++.
T Consensus        98 ~~g~vi~lvG~nGsGKTTll~~Lag  122 (302)
T 3b9q_A           98 RKPAVIMIVGVNGGGKTTSLGKLAH  122 (302)
T ss_dssp             SSCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHH
Confidence            3467999999999999999998876

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=93.04  E-value=0.068  Score=51.25  Aligned_cols=23  Identities=30%  Similarity=0.468  Sum_probs=20.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||.+.++.
T Consensus        32 Ge~~~liG~nGsGKSTLlk~l~G   54 (262)
T 1b0u_A           32 GDVISIIGSSGSGKSTFLRCINF   54 (262)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            45899999999999999999976

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=93.02  E-value=0.075  Score=56.60  Aligned_cols=25  Identities=32%  Similarity=0.351  Sum_probs=21.7

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...+++|.|.+|+|||||++.++..
T Consensus       280 ~G~i~~i~G~~GsGKSTLl~~l~g~  304 (525)
T 1tf7_A          280 KDSIILATGATGTGKTLLVSRFVEN  304 (525)
T ss_dssp             SSCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHH
Confidence            4568999999999999999998763

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=92.94  E-value=0.032  Score=52.34  Aligned_cols=23  Identities=30%  Similarity=0.348  Sum_probs=16.3

Q ss_pred             eEEEEEEecCCchHHHHHHHHH-c
Q 036323          208 VQIISMVGMGGIGKTTLAQLAY-N  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~-~  230 (583)
                      ..+++|+|+.|+|||||++.+. .
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            4589999999999999999998 5

>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=92.90  E-value=0.048  Score=48.72  Aligned_cols=25  Identities=24%  Similarity=0.408  Sum_probs=21.9

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..++++|+|..|+|||||+..+...
T Consensus         5 ~~~~i~i~G~sGsGKTTl~~~l~~~   29 (174)
T 1np6_A            5 MIPLLAFAAWSGTGKTTLLKKLIPA   29 (174)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cceEEEEEeCCCCCHHHHHHHHHHh
Confidence            3678999999999999999988763

>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=92.83  E-value=0.25  Score=53.24  Aligned_cols=23  Identities=35%  Similarity=0.564  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||++.+..
T Consensus       369 G~~~~ivG~sGsGKSTLl~~l~g  391 (582)
T 3b60_A          369 GKTVALVGRSGSGKSTIASLITR  391 (582)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhh
Confidence            45899999999999999999865

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=92.82  E-value=0.044  Score=49.74  Aligned_cols=22  Identities=36%  Similarity=0.437  Sum_probs=19.5

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      +++|+|+.|+|||||++.++..
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g~   24 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASEV   24 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHhh
Confidence            6899999999999999888753

>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=92.80  E-value=0.051  Score=49.77  Aligned_cols=21  Identities=24%  Similarity=0.404  Sum_probs=19.8

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 036323          210 IISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      +|+|.|+.|+||||+++.+..
T Consensus         4 ~i~i~G~~GsGKst~~~~la~   24 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAA   24 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            899999999999999999876

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=92.77  E-value=0.062  Score=53.17  Aligned_cols=25  Identities=20%  Similarity=0.355  Sum_probs=22.2

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...+|.|+|+.|+|||||+..++..
T Consensus        39 ~~~lIvI~GPTgsGKTtLa~~LA~~   63 (339)
T 3a8t_A           39 KEKLLVLMGATGTGKSRLSIDLAAH   63 (339)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHH
Confidence            3468999999999999999999873

>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=92.77  E-value=0.054  Score=50.08  Aligned_cols=21  Identities=33%  Similarity=0.338  Sum_probs=19.1

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 036323          210 IISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .|.|.|++|+||||+|+.+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIME   22 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            378999999999999999876

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=92.74  E-value=0.087  Score=47.40  Aligned_cols=26  Identities=31%  Similarity=0.319  Sum_probs=21.9

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcC
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .....|+|+|.+|+|||||...+...
T Consensus        46 ~~~~~i~vvG~~g~GKSsll~~l~~~   71 (193)
T 2ged_A           46 SYQPSIIIAGPQNSGKTSLLTLLTTD   71 (193)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            34457889999999999999998864

>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=92.66  E-value=0.079  Score=50.80  Aligned_cols=23  Identities=22%  Similarity=0.388  Sum_probs=20.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||.+.++.
T Consensus        50 Gei~~liG~NGsGKSTLlk~l~G   72 (263)
T 2olj_A           50 GEVVVVIGPSGSGKSTFLRCLNL   72 (263)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEEcCCCCcHHHHHHHHHc
Confidence            45899999999999999999876

>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=92.66  E-value=0.084  Score=49.87  Aligned_cols=23  Identities=35%  Similarity=0.504  Sum_probs=20.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||.+.++.
T Consensus        32 Ge~~~l~G~nGsGKSTLl~~l~G   54 (240)
T 1ji0_A           32 GQIVTLIGANGAGKTTTLSAIAG   54 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            34899999999999999999976

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=92.63  E-value=0.054  Score=50.51  Aligned_cols=21  Identities=33%  Similarity=0.415  Sum_probs=19.2

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 036323          210 IISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .|.|.|++|+||||+|+.+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~   22 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKD   22 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            578999999999999999876

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=92.63  E-value=0.042  Score=52.30  Aligned_cols=22  Identities=36%  Similarity=0.569  Sum_probs=20.2

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .+|+|+|++|+||||+++.+..
T Consensus        49 ~~i~l~G~~GsGKSTl~~~La~   70 (250)
T 3nwj_A           49 RSMYLVGMMGSGKTTVGKIMAR   70 (250)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999876

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=92.62  E-value=0.082  Score=50.42  Aligned_cols=26  Identities=35%  Similarity=0.330  Sum_probs=22.4

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcC
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ....++.+.|.||+|||||+..+...
T Consensus        12 ~~~~i~~~~GkgGvGKTTl~~~La~~   37 (262)
T 1yrb_A           12 MASMIVVFVGTAGSGKTTLTGEFGRY   37 (262)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             cceEEEEEeCCCCCCHHHHHHHHHHH
Confidence            45678899999999999999988753

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=92.61  E-value=0.058  Score=53.55  Aligned_cols=22  Identities=32%  Similarity=0.338  Sum_probs=20.5

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .+|+|.|++|+||||||..++.
T Consensus         8 ~lI~I~GptgSGKTtla~~La~   29 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAK   29 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCcCcHHHHHHHHHH
Confidence            5899999999999999999887

>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=92.60  E-value=0.085  Score=50.40  Aligned_cols=23  Identities=26%  Similarity=0.439  Sum_probs=20.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||.+.++.
T Consensus        33 Ge~~~liG~nGsGKSTLlk~l~G   55 (257)
T 1g6h_A           33 GDVTLIIGPNGSGKSTLINVITG   55 (257)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            35899999999999999999976

>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=92.60  E-value=0.33  Score=50.16  Aligned_cols=65  Identities=20%  Similarity=0.153  Sum_probs=41.8

Q ss_pred             HHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCC-hHHHHHHHHHH
Q 036323          191 SIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFD-EFNVAKATIEE  262 (583)
Q Consensus       191 ~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~-~~~~~~~il~~  262 (583)
                      +.++.|..-      .+..-++|.|.+|+|||+|+..+.++. .+.+-+.++++-+.+... ..++.+.+...
T Consensus       142 r~ID~l~pi------gkGQr~~Ifgg~G~GKT~L~~~i~~~~-~~~~~~v~V~~~iGER~rEv~e~~~~~~~~  207 (482)
T 2ck3_D          142 KVVDLLAPY------AKGGKIGLFGGAGVGKTVLIMELINNV-AKAHGGYSVFAGVGERTREGNDLYHEMIES  207 (482)
T ss_dssp             HHHHHHSCE------ETTCEEEEEECTTSSHHHHHHHHHHHT-TTTCSSEEEEEEESCCHHHHHHHHHHHHHH
T ss_pred             EEEeccccc------ccCCeeeeecCCCCChHHHHHHHHHhh-HhhCCCEEEEEECCCcchHHHHHHHHhhhc
Confidence            455555432      245578899999999999999988742 122345667777776543 34555555543

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=92.59  E-value=0.079  Score=47.89  Aligned_cols=24  Identities=21%  Similarity=0.414  Sum_probs=21.2

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .-.|+|+|.+|+|||||.+.+...
T Consensus        29 ~~kv~lvG~~g~GKSTLl~~l~~~   52 (191)
T 1oix_A           29 LFKVVLIGDSGVGKSNLLSRFTRN   52 (191)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcC
Confidence            457899999999999999998764

>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=92.58  E-value=0.091  Score=54.20  Aligned_cols=52  Identities=23%  Similarity=0.293  Sum_probs=35.6

Q ss_pred             CceeechhHHHHHHHHhhcC-------CCCCCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          180 SEVRGRDEEMRSIKSMLLCQ-------GSDQQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~-------~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..++|.++.++.|...+...       .........+-+.++|++|+|||++|+.++..
T Consensus        15 ~~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~   73 (444)
T 1g41_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKL   73 (444)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHH
Confidence            45788888888887666321       00001123456889999999999999999873

>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=92.58  E-value=0.076  Score=46.62  Aligned_cols=23  Identities=22%  Similarity=0.388  Sum_probs=20.5

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..|+|+|.+|+|||||...+...
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            46889999999999999999864

>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=92.58  E-value=0.057  Score=50.72  Aligned_cols=24  Identities=25%  Similarity=0.187  Sum_probs=21.0

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...|.|.|++|+||||+|+.+...
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~~   39 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAKN   39 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            457899999999999999998863

>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=92.56  E-value=0.075  Score=49.21  Aligned_cols=22  Identities=36%  Similarity=0.579  Sum_probs=20.2

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .+++|+|+.|+|||||.+.++.
T Consensus        36 e~~~iiG~NGsGKSTLlk~l~G   57 (214)
T 1sgw_A           36 NVVNFHGPNGIGKTTLLKTIST   57 (214)
T ss_dssp             CCEEEECCTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            4789999999999999999976

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=92.54  E-value=0.087  Score=50.77  Aligned_cols=23  Identities=39%  Similarity=0.582  Sum_probs=20.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||.+.++.
T Consensus        45 Ge~~~i~G~nGsGKSTLlk~l~G   67 (271)
T 2ixe_A           45 GKVTALVGPNGSGKSTVAALLQN   67 (271)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            45899999999999999999976

>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=92.54  E-value=0.059  Score=52.72  Aligned_cols=22  Identities=36%  Similarity=0.451  Sum_probs=20.3

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .+|.|.|++|+||||+|+.+..
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~   24 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIA   24 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5789999999999999999886

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=92.53  E-value=0.082  Score=48.75  Aligned_cols=22  Identities=36%  Similarity=0.333  Sum_probs=19.9

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .+++|+|+.|+|||||++.++.
T Consensus        23 e~~~liG~nGsGKSTLl~~l~G   44 (208)
T 3b85_A           23 TIVFGLGPAGSGKTYLAMAKAV   44 (208)
T ss_dssp             SEEEEECCTTSSTTHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            3899999999999999998875

>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=92.52  E-value=0.059  Score=49.63  Aligned_cols=21  Identities=33%  Similarity=0.419  Sum_probs=19.2

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 036323          210 IISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      +|.|.|++|+||||.|+.+..
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~   22 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAK   22 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            578999999999999999887

>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=92.52  E-value=0.09  Score=50.19  Aligned_cols=23  Identities=30%  Similarity=0.501  Sum_probs=20.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||.+.++.
T Consensus        41 Gei~~l~G~NGsGKSTLlk~l~G   63 (256)
T 1vpl_A           41 GEIFGLIGPNGAGKTTTLRIIST   63 (256)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CcEEEEECCCCCCHHHHHHHHhc
Confidence            45899999999999999999976

>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=92.51  E-value=0.059  Score=50.59  Aligned_cols=23  Identities=17%  Similarity=0.346  Sum_probs=20.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+|+|.|++|+||||+++.+..
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~   31 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLAR   31 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45899999999999999999876

>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=92.48  E-value=0.055  Score=48.53  Aligned_cols=22  Identities=41%  Similarity=0.477  Sum_probs=19.5

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      -|+|+|.+|+|||||...+...
T Consensus         4 kv~ivG~~gvGKStLl~~l~~~   25 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMKT   25 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999998873

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=92.46  E-value=0.15  Score=50.32  Aligned_cols=25  Identities=40%  Similarity=0.542  Sum_probs=22.2

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ....+++|+|.+|+||||++..++.
T Consensus       103 ~~~~vI~ivG~~G~GKTT~~~~LA~  127 (320)
T 1zu4_A          103 NRLNIFMLVGVNGTGKTTSLAKMAN  127 (320)
T ss_dssp             TSCEEEEEESSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4578999999999999999988876

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=92.45  E-value=0.06  Score=55.49  Aligned_cols=26  Identities=27%  Similarity=0.414  Sum_probs=22.9

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcC
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ....+|.|+|++|+||||+|+.+...
T Consensus       256 ~~~~lIil~G~pGSGKSTla~~L~~~  281 (416)
T 3zvl_A          256 PNPEVVVAVGFPGAGKSTFIQEHLVS  281 (416)
T ss_dssp             SSCCEEEEESCTTSSHHHHHHHHTGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHh
Confidence            45679999999999999999998873

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=92.44  E-value=0.071  Score=52.02  Aligned_cols=25  Identities=28%  Similarity=0.246  Sum_probs=22.1

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...++|.|+|+.|+||||||..++.
T Consensus         8 ~~~~~i~i~GptgsGKt~la~~La~   32 (316)
T 3foz_A            8 SLPKAIFLMGPTASGKTALAIELRK   32 (316)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCcEEEEECCCccCHHHHHHHHHH
Confidence            3467899999999999999999887

>2xau_A PRE-mRNA-splicing factor ATP-dependent RNA helica; hydrolase, ribosome biogenesis, ATPase, ATP-binding, OB-fold; HET: ADP; 1.90A {Saccharomyces cerevisiae} PDB: 3kx2_B*

Probab=92.43  E-value=0.8  Score=51.01  Aligned_cols=33  Identities=27%  Similarity=0.281  Sum_probs=23.3

Q ss_pred             HHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHH
Q 036323          188 EMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAY  229 (583)
Q Consensus       188 e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~  229 (583)
                      ..+.|...+...         .++.|+|+.|+||||++..+.
T Consensus        98 q~~~i~~~l~~~---------~~vii~gpTGSGKTtllp~ll  130 (773)
T 2xau_A           98 QRDEFLKLYQNN---------QIMVFVGETGSGKTTQIPQFV  130 (773)
T ss_dssp             GHHHHHHHHHHC---------SEEEEECCTTSSHHHHHHHHH
T ss_pred             HHHHHHHHHhCC---------CeEEEECCCCCCHHHHHHHHH
Confidence            345566666432         478999999999999665553

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=92.40  E-value=0.069  Score=52.64  Aligned_cols=23  Identities=30%  Similarity=0.304  Sum_probs=21.0

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+|.|+|+.|+||||||..+..
T Consensus         5 ~~~i~i~GptGsGKTtla~~La~   27 (323)
T 3crm_A            5 PPAIFLMGPTAAGKTDLAMALAD   27 (323)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            35899999999999999999887

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=92.39  E-value=0.21  Score=59.89  Aligned_cols=84  Identities=17%  Similarity=0.090  Sum_probs=55.1

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCcc-----ccccHHHHHHHHH
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAI-----DLHELNSLLRRIG  281 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~-----~~~~~~~~~~~l~  281 (583)
                      ..+++.|.|.+|+||||||.+++...  ...-..++|++.....+..     .++.++....     +..+.+++...+.
T Consensus       382 ~G~lilI~G~pGsGKTtLaLq~a~~~--~~~G~~vlyis~E~s~~~~-----~a~~lGvd~~~L~i~~~~~~e~~l~~l~  454 (1706)
T 3cmw_A          382 MGRIVEIYGPESSGKTTLTLQVIAAA--QREGKTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDTGEQALEICD  454 (1706)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHH--HHTTCCEEEECTTSCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHH--HHhCCCeEEEEccCchHHH-----HHHHcCCCHHHeEEcCCCCHHHHHHHHH
Confidence            45689999999999999998887642  2223468888887766643     1444543321     2234555666555


Q ss_pred             HHh-cCCceeEEEcCCC
Q 036323          282 ANI-AGQKFFMVLDNLW  297 (583)
Q Consensus       282 ~~l-~~k~~LlVlDdv~  297 (583)
                      ... ..+.-+||+|-+.
T Consensus       455 ~lv~~~~~~lVVIDSL~  471 (1706)
T 3cmw_A          455 ALARSGAVDVIVVDSVA  471 (1706)
T ss_dssp             HHHHHTCCSEEEESCST
T ss_pred             HHHHhcCCCEEEECCHH
Confidence            444 3456799999984

>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein, ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus radiodurans} PDB: 3gp8_A 3gpl_A*

Probab=92.37  E-value=0.47  Score=50.91  Aligned_cols=22  Identities=23%  Similarity=0.459  Sum_probs=19.7

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      +++.|.|.+|+||||++..+..
T Consensus       205 ~~~~I~G~pGTGKTt~i~~l~~  226 (574)
T 3e1s_A          205 RLVVLTGGPGTGKSTTTKAVAD  226 (574)
T ss_dssp             SEEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            5888999999999999988876

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=92.36  E-value=0.063  Score=50.51  Aligned_cols=25  Identities=24%  Similarity=0.298  Sum_probs=22.2

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ....+|+|+|+.|+||||+++.+..
T Consensus        14 ~~~~~i~i~G~~gsGKst~~~~l~~   38 (236)
T 1q3t_A           14 MKTIQIAIDGPASSGKSTVAKIIAK   38 (236)
T ss_dssp             CCCCEEEEECSSCSSHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHH
Confidence            4566899999999999999998876

>3vr4_D V-type sodium ATPase subunit D; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_D* 3vr2_D* 3vr5_D 3vr6_D*

Probab=92.36  E-value=0.11  Score=53.48  Aligned_cols=88  Identities=14%  Similarity=0.169  Sum_probs=48.3

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCcccc-ccCc-eEEEEEeCCCC-ChHHHHHHHHHH--hhcC------cccccc----H
Q 036323          209 QIISMVGMGGIGKTTLAQLAYNDNDVI-NNFE-IRVRVCVSDPF-DEFNVAKATIEE--LEGS------AIDLHE----L  273 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~~~~~-~~f~-~~~wv~~~~~~-~~~~~~~~il~~--l~~~------~~~~~~----~  273 (583)
                      .-++|.|.+|+|||+|+..+.+..... ++-+ .++++-+.+.. ...++...+...  +...      .+.+.-    .
T Consensus       152 Qr~~Ifgg~G~GKt~L~~~Ia~~~~~~~d~~~~~~V~~~iGeR~~Ev~e~~~~~~~~g~~~rtvvV~atsd~p~~~r~~a  231 (465)
T 3vr4_D          152 QKLPVFSGSGLPHKELAAQIARQATVLDSSDDFAVVFAAIGITFEEAEFFMEDFRQTGAIDRSVMFMNLANDPAIERIAT  231 (465)
T ss_dssp             CBCCEEECTTSCHHHHHHHHHHHCBCSSCSSCEEEEEEEEEECHHHHHHHHHHHHHHTGGGGEEEEEEETTSCHHHHHHH
T ss_pred             CEEEEeCCCCcChHHHHHHHHHHHHhccCCCceEEEEEEecCCcHHHHHHHHHHhhcCCccceEEEEECCCCCHHHHHHH
Confidence            346789999999999999998853331 1111 45566665543 344455554432  1100      011100    1


Q ss_pred             HHHHHHHHHHhc---CCceeEEEcCC
Q 036323          274 NSLLRRIGANIA---GQKFFMVLDNL  296 (583)
Q Consensus       274 ~~~~~~l~~~l~---~k~~LlVlDdv  296 (583)
                      ....-.+.+++.   ++.+||++||+
T Consensus       232 ~~~a~tiAEyfrd~~G~~VLl~~Dsl  257 (465)
T 3vr4_D          232 PRMALTAAEYLAYEKGMHVLVIMTDM  257 (465)
T ss_dssp             HHHHHHHHHHHHHTTCCEEEEEEECH
T ss_pred             HHHHHHHHHHHHHhcCCeEEEEEcCh
Confidence            111223444443   78999999998

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=92.34  E-value=0.068  Score=52.24  Aligned_cols=24  Identities=21%  Similarity=0.415  Sum_probs=21.3

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+|.|.|+.|+||||||..++..
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            358899999999999999999873

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=92.31  E-value=0.071  Score=53.54  Aligned_cols=25  Identities=32%  Similarity=0.360  Sum_probs=22.2

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ....+++|+|+.|+|||||+..++.
T Consensus       155 ~~g~vi~lvG~nGsGKTTll~~Lag  179 (359)
T 2og2_A          155 RKPAVIMIVGVNGGGKTTSLGKLAH  179 (359)
T ss_dssp             SSSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCeEEEEEcCCCChHHHHHHHHHh
Confidence            3567999999999999999998876

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=92.30  E-value=0.11  Score=46.55  Aligned_cols=25  Identities=20%  Similarity=0.345  Sum_probs=21.7

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ....|+|+|.+|+|||||...+...
T Consensus         6 ~~~~i~lvG~~gvGKStL~~~l~~~   30 (188)
T 2wjg_A            6 KSYEIALIGNPNVGKSTIFNALTGE   30 (188)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3467899999999999999999874

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=92.28  E-value=0.22  Score=60.47  Aligned_cols=84  Identities=17%  Similarity=0.092  Sum_probs=55.3

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCcc-----ccccHHHHHHHHH
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAI-----DLHELNSLLRRIG  281 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~-----~~~~~~~~~~~l~  281 (583)
                      ...++.|.|.+|+||||||.+++...  ...-..++|++.....+...     ++.++....     +..+.+++...+.
T Consensus       382 ~G~lilI~G~pGsGKTtLaLqia~~~--a~~G~~vlyis~E~s~~~~~-----a~~lGvd~~~L~I~~~~~~e~il~~~~  454 (2050)
T 3cmu_A          382 MGRIVEIYGPESSGKTTLTLQVIAAA--QREGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICD  454 (2050)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHH--HTTTCCEEEECTTSCCCHHH-----HHHTTCCTTTCEEECCSSHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHH--HhcCCeEEEEEcCCCHHHHH-----HHHcCCCHHHeEEeCCCCHHHHHHHHH
Confidence            45699999999999999999887742  22223578888777665431     444543321     2345566666665


Q ss_pred             HHh-cCCceeEEEcCCC
Q 036323          282 ANI-AGQKFFMVLDNLW  297 (583)
Q Consensus       282 ~~l-~~k~~LlVlDdv~  297 (583)
                      ... ..+.-+||+|-+.
T Consensus       455 ~lv~~~~~~lIVIDSL~  471 (2050)
T 3cmu_A          455 ALARSGAVDVIVVDSVA  471 (2050)
T ss_dssp             HHHHHTCCSEEEESCGG
T ss_pred             HHHHhcCCcEEEECCHH
Confidence            444 3456799999984

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=92.26  E-value=0.62  Score=49.47  Aligned_cols=25  Identities=28%  Similarity=0.557  Sum_probs=21.9

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ....+++|+|+.|+|||||.+.+..
T Consensus        23 ~~Gei~gLiGpNGaGKSTLlkiL~G   47 (538)
T 3ozx_A           23 KNNTILGVLGKNGVGKTTVLKILAG   47 (538)
T ss_dssp             CTTEEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHhc
Confidence            3457999999999999999999875

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=92.25  E-value=0.1  Score=50.20  Aligned_cols=23  Identities=30%  Similarity=0.410  Sum_probs=20.6

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||.+.++.
T Consensus        33 Ge~~~liG~nGsGKSTLl~~i~G   55 (266)
T 2yz2_A           33 GECLLVAGNTGSGKSTLLQIVAG   55 (266)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            45899999999999999999875

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=92.24  E-value=0.48  Score=49.08  Aligned_cols=53  Identities=11%  Similarity=0.031  Sum_probs=35.3

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHh
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEEL  263 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l  263 (583)
                      ...++.|.|.+|+||||||..++.+....  -..++|++..  .+...+...++...
T Consensus       196 ~G~liiIaG~pG~GKTtlal~ia~~~a~~--g~~vl~fSlE--ms~~ql~~R~~~~~  248 (444)
T 3bgw_A          196 RRNFVLIAARPSMGKTAFALKQAKNMSDN--DDVVNLHSLE--MGKKENIKRLIVTA  248 (444)
T ss_dssp             SSCEEEEEECSSSSHHHHHHHHHHHHHHT--TCEEEEECSS--SCTTHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCChHHHHHHHHHHHHHc--CCEEEEEECC--CCHHHHHHHHHHHH
Confidence            34689999999999999998887643222  2246666544  34556666665543

>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=92.22  E-value=0.2  Score=53.34  Aligned_cols=40  Identities=25%  Similarity=0.209  Sum_probs=26.6

Q ss_pred             ceEEEEEEecCCchHHHHHHHHH-cCccccccCceEEEEEeCC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAY-NDNDVINNFEIRVRVCVSD  248 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~-~~~~~~~~f~~~~wv~~~~  248 (583)
                      ...+++|+|.+|+|||||++.++ .-  ....-...++++...
T Consensus        38 ~Ge~~~l~G~nGsGKSTL~~~~ll~G--l~~~~~g~i~v~g~~   78 (525)
T 1tf7_A           38 IGRSTLVSGTSGTGKTLFSIQFLYNG--IIEFDEPGVFVTFEE   78 (525)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHH--HHHHCCCEEEEESSS
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHH--HHhCCCCEEEEEEeC
Confidence            34589999999999999999852 21  111123466776543

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=92.20  E-value=0.066  Score=50.20  Aligned_cols=25  Identities=24%  Similarity=0.135  Sum_probs=22.4

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ....+|+|.|..|+|||||++.+..
T Consensus        18 ~~g~~i~i~G~~GsGKSTl~~~L~~   42 (230)
T 2vp4_A           18 TQPFTVLIEGNIGSGKTTYLNHFEK   42 (230)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGG
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHh
Confidence            4567999999999999999998876

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=92.20  E-value=0.079  Score=45.88  Aligned_cols=23  Identities=22%  Similarity=0.392  Sum_probs=20.2

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .-|+|+|.+|+|||||+..+...
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            45789999999999999998764

>1ny5_A Transcriptional regulator (NTRC family); AAA+ ATPase, sigma54 activator, bacterial transcription, DIM transcription; HET: ADP; 2.40A {Aquifex aeolicus} SCOP: c.23.1.1 c.37.1.20 PDB: 1ny6_A* 3m0e_A* 1zy2_A*

Probab=92.18  E-value=0.72  Score=46.82  Aligned_cols=46  Identities=20%  Similarity=0.230  Sum_probs=32.0

Q ss_pred             ceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          181 EVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       181 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .++|....+.++.+.+..-.    ..... |.|.|.+|+|||++|+.+...
T Consensus       138 ~~ig~s~~m~~l~~~i~~~a----~~~~~-vli~Ge~GtGK~~lAr~ih~~  183 (387)
T 1ny5_A          138 EYVFESPKMKEILEKIKKIS----CAECP-VLITGESGVGKEVVARLIHKL  183 (387)
T ss_dssp             CCCCCSHHHHHHHHHHHHHT----TCCSC-EEEECSTTSSHHHHHHHHHHH
T ss_pred             hhhhccHHhhHHHHHHHHhc----CCCCC-eEEecCCCcCHHHHHHHHHHh
Confidence            45666666777766654432    12233 489999999999999998763

>3dzd_A Transcriptional regulator (NTRC family); sigma43 activator, AAA+ ATPase, response regulator, transcriptional activator, ATP-binding; HET: ADP; 2.40A {Aquifex aeolicus} PDB: 1zit_A 2jrl_A

Probab=92.12  E-value=0.097  Score=52.91  Aligned_cols=47  Identities=21%  Similarity=0.287  Sum_probs=32.5

Q ss_pred             CceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          180 SEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..++|....+.++...+..-.     .....|.|.|.+|+||+++|+.+.+.
T Consensus       129 ~~~ig~s~~~~~~~~~~~~~a-----~~~~~vli~GesGtGKe~lAr~ih~~  175 (368)
T 3dzd_A          129 IEFVGEHPKILEIKRLIPKIA-----KSKAPVLITGESGTGKEIVARLIHRY  175 (368)
T ss_dssp             CCCCCCSHHHHHHHHHHHHHH-----TSCSCEEEECCTTSSHHHHHHHHHHH
T ss_pred             ccccccchHHHHHHhhhhhhh-----ccchhheEEeCCCchHHHHHHHHHHh
Confidence            357888777666665553221     11223679999999999999998864

>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus fulgidus} SCOP: c.37.1.19

Probab=92.11  E-value=0.6  Score=43.76  Aligned_cols=100  Identities=15%  Similarity=0.155  Sum_probs=52.5

Q ss_pred             EEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhc---C-c------------cccccHH
Q 036323          211 ISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEG---S-A------------IDLHELN  274 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~---~-~------------~~~~~~~  274 (583)
                      +.|+|..|.|||.+|..+....    . ..++++. .    ...+..++.+.+..   . .            .-....+
T Consensus       111 ~ll~~~tG~GKT~~a~~~~~~~----~-~~~liv~-P----~~~L~~q~~~~~~~~~~~~v~~~~g~~~~~~~i~v~T~~  180 (237)
T 2fz4_A          111 GCIVLPTGSGKTHVAMAAINEL----S-TPTLIVV-P----TLALAEQWKERLGIFGEEYVGEFSGRIKELKPLTVSTYD  180 (237)
T ss_dssp             EEEEESSSTTHHHHHHHHHHHS----C-SCEEEEE-S----SHHHHHHHHHHHGGGCGGGEEEESSSCBCCCSEEEEEHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHHc----C-CCEEEEe-C----CHHHHHHHHHHHHhCCCCeEEEEeCCCCCcCCEEEEeHH
Confidence            7789999999999998776532    1 1233332 2    22344444444332   1 0            0011223


Q ss_pred             HHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEec
Q 036323          275 SLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITT  324 (583)
Q Consensus       275 ~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTt  324 (583)
                      .+..... .+.++--+||+|+++.-....+..+...++   ...++++|.
T Consensus       181 ~l~~~~~-~~~~~~~llIiDEaH~l~~~~~~~i~~~~~---~~~~l~LSA  226 (237)
T 2fz4_A          181 SAYVNAE-KLGNRFMLLIFDEVHHLPAESYVQIAQMSI---APFRLGLTA  226 (237)
T ss_dssp             HHHHTHH-HHTTTCSEEEEECSSCCCTTTHHHHHHTCC---CSEEEEEEE
T ss_pred             HHHhhHH-HhcccCCEEEEECCccCCChHHHHHHHhcc---CCEEEEEec
Confidence            3333332 233445699999997655455666554443   233444443

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=92.09  E-value=0.078  Score=50.78  Aligned_cols=111  Identities=13%  Similarity=0.118  Sum_probs=55.0

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCC-CCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSD-PFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIA  285 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~  285 (583)
                      ...+++|+|+.|+|||||++.+..-  ....+...+++.-.. .+-.... ..+   +....... +...+...+...|.
T Consensus        24 ~g~~v~i~Gp~GsGKSTll~~l~g~--~~~~~~G~I~~~g~~i~~~~~~~-~~~---v~q~~~gl-~~~~l~~~la~aL~   96 (261)
T 2eyu_A           24 KMGLILVTGPTGSGKSTTIASMIDY--INQTKSYHIITIEDPIEYVFKHK-KSI---VNQREVGE-DTKSFADALRAALR   96 (261)
T ss_dssp             SSEEEEEECSTTCSHHHHHHHHHHH--HHHHCCCEEEEEESSCCSCCCCS-SSE---EEEEEBTT-TBSCHHHHHHHHHH
T ss_pred             CCCEEEEECCCCccHHHHHHHHHHh--CCCCCCCEEEEcCCcceeecCCc-cee---eeHHHhCC-CHHHHHHHHHHHHh
Confidence            3569999999999999999988762  222223333332111 0000000 000   00000000 00122445556666


Q ss_pred             CCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCchHH
Q 036323          286 GQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKETV  329 (583)
Q Consensus       286 ~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~~v  329 (583)
                      .++=+|++|..-  +......+....   ..|..|++||-+...
T Consensus        97 ~~p~illlDEp~--D~~~~~~~l~~~---~~g~~vl~t~H~~~~  135 (261)
T 2eyu_A           97 EDPDVIFVGEMR--DLETVETALRAA---ETGHLVFGTLHTNTA  135 (261)
T ss_dssp             HCCSEEEESCCC--SHHHHHHHHHHH---HTTCEEEEEECCSSH
T ss_pred             hCCCEEEeCCCC--CHHHHHHHHHHH---ccCCEEEEEeCcchH
Confidence            677799999984  333333322222   246678888876543

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=92.06  E-value=0.63  Score=50.17  Aligned_cols=125  Identities=14%  Similarity=0.058  Sum_probs=61.8

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCcccc-cc-C-c-eEEEEEeC--CCC--ChH--------------HHHHHHHHHhhcC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYNDNDVI-NN-F-E-IRVRVCVS--DPF--DEF--------------NVAKATIEELEGS  266 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~~~~~-~~-f-~-~~~wv~~~--~~~--~~~--------------~~~~~il~~l~~~  266 (583)
                      .+++|+|+.|+|||||++.++.-.... +. . . .+.++.-.  ..+  +..              .....+++.++..
T Consensus       379 Eiv~iiG~NGsGKSTLlk~l~Gl~~p~~G~~~~~~~i~~~~q~~~~~~~~tv~e~~~~~~~~~~~~~~~~~~~l~~l~l~  458 (608)
T 3j16_B          379 EILVMMGENGTGKTTLIKLLAGALKPDEGQDIPKLNVSMKPQKIAPKFPGTVRQLFFKKIRGQFLNPQFQTDVVKPLRID  458 (608)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHTSSCCSBCCCCCSCCEEEECSSCCCCCCSBHHHHHHHHCSSTTTSHHHHHHTHHHHTST
T ss_pred             eEEEEECCCCCcHHHHHHHHhcCCCCCCCcCccCCcEEEecccccccCCccHHHHHHHHhhcccccHHHHHHHHHHcCCh
Confidence            579999999999999999997632111 10 0 0 11222110  000  111              1222333333322


Q ss_pred             c-----c-ccccHHHHHHHHHHHhcCCceeEEEcCCCcc-cccchHhhHHhhccC--CCCceEEEecCchHHHhhh
Q 036323          267 A-----I-DLHELNSLLRRIGANIAGQKFFMVLDNLWTD-DYRKWEPFRNCLMNG--LRGSKILITTRKETVARMM  333 (583)
Q Consensus       267 ~-----~-~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~-~~~~~~~l~~~l~~~--~~gs~IlvTtR~~~v~~~~  333 (583)
                      .     . ..+.-+...-.|...|..++=+|+||.--.. |...-..+...+...  ..|..||++|-+...+..+
T Consensus       459 ~~~~~~~~~LSGGqkQRv~iAraL~~~p~lLlLDEPT~gLD~~~~~~i~~ll~~l~~~~g~tviivtHdl~~~~~~  534 (608)
T 3j16_B          459 DIIDQEVQHLSGGELQRVAIVLALGIPADIYLIDEPSAYLDSEQRIICSKVIRRFILHNKKTAFIVEHDFIMATYL  534 (608)
T ss_dssp             TTSSSBSSSCCHHHHHHHHHHHHTTSCCSEEEECCTTTTCCHHHHHHHHHHHHHHHHHHTCEEEEECSCHHHHHHH
T ss_pred             hhhcCChhhCCHHHHHHHHHHHHHHhCCCEEEEECCCCCCCHHHHHHHHHHHHHHHHhCCCEEEEEeCCHHHHHHh
Confidence            1     1 1122222333455667788899999986331 222222233333221  2366688888877665543

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=92.03  E-value=0.48  Score=51.07  Aligned_cols=23  Identities=30%  Similarity=0.491  Sum_probs=20.5

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||++.+..
T Consensus       369 Ge~~~ivG~sGsGKSTll~~l~g  391 (587)
T 3qf4_A          369 GSLVAVLGETGSGKSTLMNLIPR  391 (587)
T ss_dssp             TCEEEEECSSSSSHHHHHHTTTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            45899999999999999998865

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=92.03  E-value=0.11  Score=50.27  Aligned_cols=23  Identities=30%  Similarity=0.398  Sum_probs=20.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||.+.++.
T Consensus        47 Ge~~~liG~NGsGKSTLlk~l~G   69 (279)
T 2ihy_A           47 GDKWILYGLNGAGKTTLLNILNA   69 (279)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            34899999999999999999986

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=92.00  E-value=0.46  Score=47.72  Aligned_cols=36  Identities=19%  Similarity=0.072  Sum_probs=27.3

Q ss_pred             HHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          190 RSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       190 ~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      -++++.|..-      ....-++|+|.+|+|||+|+..+.+.
T Consensus       163 iraID~l~Pi------grGQR~lIfg~~g~GKT~Ll~~Ia~~  198 (427)
T 3l0o_A          163 TRLIDLFAPI------GKGQRGMIVAPPKAGKTTILKEIANG  198 (427)
T ss_dssp             HHHHHHHSCC------BTTCEEEEEECTTCCHHHHHHHHHHH
T ss_pred             chhhhhcccc------cCCceEEEecCCCCChhHHHHHHHHH
Confidence            4566777533      23457789999999999999988874

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=92.00  E-value=0.035  Score=54.22  Aligned_cols=24  Identities=29%  Similarity=0.400  Sum_probs=18.3

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      +..+|+|.|..|+||||+|+.+..
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~~   27 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFDQ   27 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH
Confidence            356899999999999999998876

>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=91.96  E-value=0.077  Score=50.47  Aligned_cols=23  Identities=26%  Similarity=0.505  Sum_probs=21.0

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||.+.++.
T Consensus        29 Ge~~~l~G~nGsGKSTLlk~l~G   51 (250)
T 2d2e_A           29 GEVHALMGPNGAGKSTLGKILAG   51 (250)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            34899999999999999999987

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=91.95  E-value=0.079  Score=48.10  Aligned_cols=24  Identities=21%  Similarity=0.194  Sum_probs=20.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .+.|.|.|++|+||||||..+...
T Consensus        34 g~~ilI~GpsGsGKStLA~~La~~   57 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETALELVQR   57 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHHHHHTT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHh
Confidence            356889999999999999999874

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=91.95  E-value=0.85  Score=49.14  Aligned_cols=24  Identities=33%  Similarity=0.580  Sum_probs=21.2

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...+++|+|+.|+|||||.+.+..
T Consensus       102 ~Gei~~LvGpNGaGKSTLLkiL~G  125 (608)
T 3j16_B          102 PGQVLGLVGTNGIGKSTALKILAG  125 (608)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCChHHHHHHHHhc
Confidence            345999999999999999999875

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=91.93  E-value=0.27  Score=52.95  Aligned_cols=24  Identities=38%  Similarity=0.537  Sum_probs=20.8

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...+++|+|+.|+|||||++.+..
T Consensus       366 ~G~~~~ivG~sGsGKSTll~~l~g  389 (578)
T 4a82_A          366 KGETVAFVGMSGGGKSTLINLIPR  389 (578)
T ss_dssp             TTCEEEEECSTTSSHHHHHTTTTT
T ss_pred             CCCEEEEECCCCChHHHHHHHHhc
Confidence            345899999999999999988765

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=91.90  E-value=0.076  Score=51.99  Aligned_cols=24  Identities=17%  Similarity=0.308  Sum_probs=21.5

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...+++|+|+.|+|||||++.+..
T Consensus       125 ~Ge~vaIvGpsGsGKSTLl~lL~g  148 (305)
T 2v9p_A          125 KKNCLAFIGPPNTGKSMLCNSLIH  148 (305)
T ss_dssp             TCSEEEEECSSSSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhh
Confidence            456899999999999999998876

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=91.90  E-value=0.07  Score=48.52  Aligned_cols=24  Identities=21%  Similarity=0.414  Sum_probs=21.0

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .-.|+|+|.+|+|||||.+.+...
T Consensus         5 ~~kv~lvG~~g~GKSTLl~~l~~~   28 (199)
T 2f9l_A            5 LFKVVLIGDSGVGKSNLLSRFTRN   28 (199)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcC
Confidence            456889999999999999999864

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=91.88  E-value=0.082  Score=45.83  Aligned_cols=22  Identities=32%  Similarity=0.620  Sum_probs=19.5

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      -|.|+|.+|+|||||+..+...
T Consensus         5 ~i~v~G~~~~GKssl~~~l~~~   26 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999998764

>2j9r_A Thymidine kinase; TK1, DNK, lasso, transferase, ATP-binding, deoxyribonucleoside kinase, DNA synthesis, phosphate accept nucleotide-binding; HET: THM; 2.7A {Bacillus anthracis} PDB: 2ja1_A*

Probab=91.82  E-value=0.18  Score=46.37  Aligned_cols=111  Identities=14%  Similarity=0.012  Sum_probs=51.4

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCcc--ccccHHHHHHHHHHHh
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAI--DLHELNSLLRRIGANI  284 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~--~~~~~~~~~~~l~~~l  284 (583)
                      ...+..++|..|.||||.+.....+... ......++ ....  +...-...+.+.++....  ...+..    .+.+.+
T Consensus        27 ~G~l~vitG~MgsGKTT~lL~~a~r~~~-~g~kVli~-k~~~--d~R~ge~~i~s~~g~~~~a~~~~~~~----~~~~~~   98 (214)
T 2j9r_A           27 NGWIEVICGSMFSGKSEELIRRVRRTQF-AKQHAIVF-KPCI--DNRYSEEDVVSHNGLKVKAVPVSASK----DIFKHI   98 (214)
T ss_dssp             SCEEEEEECSTTSCHHHHHHHHHHHHHH-TTCCEEEE-ECC-------------------CCEEECSSGG----GGGGGC
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHHH-CCCEEEEE-Eecc--CCcchHHHHHhhcCCeeEEeecCCHH----HHHHHH
Confidence            3568889999999999998776653221 22333332 2111  111111233333332211  111111    222223


Q ss_pred             cCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCchH
Q 036323          285 AGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKET  328 (583)
Q Consensus       285 ~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~~  328 (583)
                      .++--+|++|.+.--+.+.++.+.. +.+  .|..||+|.++.+
T Consensus        99 ~~~~dvViIDEaQF~~~~~V~~l~~-l~~--~~~~Vi~~Gl~~D  139 (214)
T 2j9r_A           99 TEEMDVIAIDEVQFFDGDIVEVVQV-LAN--RGYRVIVAGLDQD  139 (214)
T ss_dssp             CSSCCEEEECCGGGSCTTHHHHHHH-HHH--TTCEEEEEECSBC
T ss_pred             hcCCCEEEEECcccCCHHHHHHHHH-Hhh--CCCEEEEEecccc
Confidence            3333499999985543344433332 222  3778999988544

>3gqb_B V-type ATP synthase beta chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_D* 3a5d_D 3j0j_D*

Probab=91.82  E-value=0.13  Score=52.93  Aligned_cols=89  Identities=10%  Similarity=0.066  Sum_probs=48.2

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCcccc--------ccCc-eEEEEEeCCCC-ChHHHHHHHHHH--hhcC-----cccc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVI--------NNFE-IRVRVCVSDPF-DEFNVAKATIEE--LEGS-----AIDL  270 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~--------~~f~-~~~wv~~~~~~-~~~~~~~~il~~--l~~~-----~~~~  270 (583)
                      -.-++|.|.+|+|||+|+..+.+.....        ++-+ .++++-+.+.. ...++...+...  +...     ..+.
T Consensus       147 GQr~~Ifgg~G~GKt~L~~~Ia~~~~a~~~~~~~~~d~~~~~~V~~~iGeR~~Ev~e~~~~l~~~g~~~rtvvv~~t~d~  226 (464)
T 3gqb_B          147 GQKLPIFSGSGLPANEIAAQIARQATVRPDLSGEGEKEEPFAVVFAAMGITQRELSYFIQEFERTGALSRSVLFLNKADD  226 (464)
T ss_dssp             TCBCCEEEETTSCHHHHHHHHHHHCBCCHHHHCCCSTTCCEEEEEEEEEECHHHHHHHHHHHHHTSGGGGEEEEEEETTS
T ss_pred             CCEEEEecCCCCCchHHHHHHHHHHHhcccccccccCCCceEEEEEEecCchHHHHHHHHHhhhcccccceEEEEECCCC
Confidence            3456789999999999999998754331        1112 45566665543 233444443331  1100     0011


Q ss_pred             ccH-----HHHHHHHHHHh---cCCceeEEEcCC
Q 036323          271 HEL-----NSLLRRIGANI---AGQKFFMVLDNL  296 (583)
Q Consensus       271 ~~~-----~~~~~~l~~~l---~~k~~LlVlDdv  296 (583)
                      ...     ....-.+.+++   +++.+||++||+
T Consensus       227 p~~~r~~~~~~a~tiAEyfrd~~G~~VLl~~Ddl  260 (464)
T 3gqb_B          227 PTIERILTPRMALTVAEYLAFEHDYHVLVILTDM  260 (464)
T ss_dssp             CTHHHHHHHHHHHHHHHHHHHTTCCEEEEEEETH
T ss_pred             CHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEcCh
Confidence            111     11222334444   378999999998

>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=91.82  E-value=0.091  Score=49.22  Aligned_cols=25  Identities=32%  Similarity=0.469  Sum_probs=22.2

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ....|+|.|++|+||||+++.+...
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~   49 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHR   49 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            4578999999999999999999874

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=91.79  E-value=0.082  Score=50.82  Aligned_cols=23  Identities=26%  Similarity=0.411  Sum_probs=21.1

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||.+.++.
T Consensus        46 Ge~~~l~G~NGsGKSTLlk~l~G   68 (267)
T 2zu0_C           46 GEVHAIMGPNGSGKSTLSATLAG   68 (267)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            45899999999999999999987

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=91.75  E-value=0.22  Score=53.85  Aligned_cols=24  Identities=38%  Similarity=0.515  Sum_probs=21.3

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...+++|+|+.|+|||||++.+..
T Consensus       380 ~G~~~~ivG~sGsGKSTll~~l~g  403 (598)
T 3qf4_B          380 PGQKVALVGPTGSGKTTIVNLLMR  403 (598)
T ss_dssp             TTCEEEEECCTTSSTTHHHHHHTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhc
Confidence            346899999999999999999875

>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=91.75  E-value=0.14  Score=51.76  Aligned_cols=25  Identities=28%  Similarity=0.159  Sum_probs=22.1

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      +...+++|+|++|+|||||++.+..
T Consensus       167 ~~~~~i~l~G~~GsGKSTl~~~l~~  191 (377)
T 1svm_A          167 PKKRYWLFKGPIDSGKTTLAAALLE  191 (377)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHh
Confidence            3456999999999999999999986

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=91.68  E-value=0.096  Score=49.37  Aligned_cols=24  Identities=25%  Similarity=0.355  Sum_probs=21.3

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...|+|.|..|+||||+++.+...
T Consensus         2 ~~~i~~~G~~g~GKtt~~~~l~~~   25 (241)
T 2ocp_A            2 PRRLSIEGNIAVGKSTFVKLLTKT   25 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHH
Confidence            468999999999999999998873

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=91.65  E-value=0.077  Score=50.80  Aligned_cols=24  Identities=38%  Similarity=0.531  Sum_probs=21.3

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+++|+|+.|+|||||.+.+..-
T Consensus        46 Ge~~~i~G~nGsGKSTLl~~l~Gl   69 (260)
T 2ghi_A           46 GTTCALVGHTGSGKSTIAKLLYRF   69 (260)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcc
Confidence            458999999999999999999763

>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=91.54  E-value=0.094  Score=50.70  Aligned_cols=23  Identities=30%  Similarity=0.338  Sum_probs=20.5

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..++.|+|.+|+|||||+..++.
T Consensus        30 G~i~~i~G~~GsGKTtl~~~l~~   52 (279)
T 1nlf_A           30 GTVGALVSPGGAGKSMLALQLAA   52 (279)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHH
Confidence            45899999999999999988875

>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=91.51  E-value=0.087  Score=50.06  Aligned_cols=23  Identities=35%  Similarity=0.483  Sum_probs=20.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||.+.++.
T Consensus        26 Ge~~~liG~NGsGKSTLlk~l~G   48 (249)
T 2qi9_C           26 GEILHLVGPNGAGKSTLLARMAG   48 (249)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            34899999999999999999986

>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=91.50  E-value=0.16  Score=48.51  Aligned_cols=36  Identities=17%  Similarity=0.095  Sum_probs=27.0

Q ss_pred             HHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHc
Q 036323          190 RSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       190 ~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .-+..+|....     +....+.++|++|+|||.+|..+++
T Consensus        91 ~~l~~~l~~~~-----~~~n~~~l~GppgtGKt~~a~ala~  126 (267)
T 1u0j_A           91 SVFLGWATKKF-----GKRNTIWLFGPATTGKTNIAEAIAH  126 (267)
T ss_dssp             HHHHHHHTTCS-----TTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHHHHHHhCCC-----CCCcEEEEECCCCCCHHHHHHHHHh
Confidence            44666664321     3345799999999999999999987

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=91.46  E-value=0.23  Score=59.51  Aligned_cols=84  Identities=17%  Similarity=0.097  Sum_probs=58.6

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCcc-----ccccHHHHHHHH
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAI-----DLHELNSLLRRI  280 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~-----~~~~~~~~~~~l  280 (583)
                      +..++|-|+|+.|+||||||.++...  .+..=...+|++..+..+..-     ++.++....     .+..-++.+..+
T Consensus      1429 prg~~iei~g~~~sGkttl~~~~~a~--~~~~g~~~~~i~~e~~~~~~~-----~~~~Gv~~~~l~~~~p~~~e~~l~~~ 1501 (1706)
T 3cmw_A         1429 PMGRIVEIYGPESSGKTTLTLQVIAA--AQREGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEIC 1501 (1706)
T ss_dssp             ETTSEEEEECSTTSSHHHHHHHHHHH--HHHTTCCEEEECTTSCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHHHH--HHhcCCeEEEEecCCCCCHHH-----HHHcCCCHHHeEEeCCCcHHHHHHHH
Confidence            45579999999999999999988862  444456678888887776553     666665432     233345555556


Q ss_pred             HHHhc-CCceeEEEcCC
Q 036323          281 GANIA-GQKFFMVLDNL  296 (583)
Q Consensus       281 ~~~l~-~k~~LlVlDdv  296 (583)
                      ...++ +..-+||+|-|
T Consensus      1502 ~~~~~s~~~~~vvvDsv 1518 (1706)
T 3cmw_A         1502 DALARSGAVDVIVVDSV 1518 (1706)
T ss_dssp             HHHHHHTCCSEEEESCS
T ss_pred             HHHHHcCCCCEEEEccH
Confidence            55554 45669999987

>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=91.40  E-value=0.13  Score=46.35  Aligned_cols=25  Identities=20%  Similarity=0.385  Sum_probs=21.5

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ....|+|+|.+|+|||||...+...
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            3567889999999999999998864

>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=91.39  E-value=0.14  Score=45.04  Aligned_cols=24  Identities=33%  Similarity=0.513  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .--|+|+|.+|+|||||...+...
T Consensus         4 ~~ki~i~G~~~vGKSsl~~~l~~~   27 (175)
T 2nzj_A            4 LYRVVLLGDPGVGKTSLASLFAGK   27 (175)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEEEECCCCccHHHHHHHHhcC
Confidence            446789999999999999998764

>2r9v_A ATP synthase subunit alpha; TM1612, structural genomics, JOI for structural genomics, JCSG, protein structure initiative ATP synthesis; HET: ATP PG4; 2.10A {Thermotoga maritima MSB8}

Probab=91.39  E-value=0.29  Score=50.83  Aligned_cols=86  Identities=20%  Similarity=0.167  Sum_probs=47.4

Q ss_pred             ceEEEEEEecCCchHHHHH-HHHHcCccccccCce-EEEEEeCCCCC-hHHHHHHHHHHhhc--------CccccccHH-
Q 036323          207 TVQIISMVGMGGIGKTTLA-QLAYNDNDVINNFEI-RVRVCVSDPFD-EFNVAKATIEELEG--------SAIDLHELN-  274 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa-~~v~~~~~~~~~f~~-~~wv~~~~~~~-~~~~~~~il~~l~~--------~~~~~~~~~-  274 (583)
                      +..-++|.|.+|+|||+|| ..+.+..    .-+. ++++-+.+... ..++.+.+...-..        ..+++.... 
T Consensus       174 rGQR~~I~g~~g~GKT~Lal~~I~~~~----~~dv~~V~~~IGeR~~Ev~e~~~~~~~~g~m~rtvvV~atad~p~~~r~  249 (515)
T 2r9v_A          174 RGQRELIIGDRQTGKTAIAIDTIINQK----GQGVYCIYVAIGQKKSAIARIIDKLRQYGAMEYTTVVVASASDPASLQY  249 (515)
T ss_dssp             TTCBEEEEEETTSSHHHHHHHHHHTTT----TTTEEEEEEEESCCHHHHHHHHHHHHHTTGGGGEEEEEECTTSCHHHHH
T ss_pred             cCCEEEEEcCCCCCccHHHHHHHHHhh----cCCcEEEEEEcCCCcHHHHHHHHHHHhCCCcceeEEEEECCCCCHHHHH
Confidence            3456789999999999996 5777742    2443 46666666543 33444444332100        011111111 


Q ss_pred             ---HHHHHHHHHh--cCCceeEEEcCC
Q 036323          275 ---SLLRRIGANI--AGQKFFMVLDNL  296 (583)
Q Consensus       275 ---~~~~~l~~~l--~~k~~LlVlDdv  296 (583)
                         ...-.+.+++  +++.+||++||+
T Consensus       250 ~a~~~a~tiAEyfrd~G~dVLli~Dsl  276 (515)
T 2r9v_A          250 IAPYAGCAMGEYFAYSGRDALVVYDDL  276 (515)
T ss_dssp             HHHHHHHHHHHHHHTTTCEEEEEEETH
T ss_pred             HHHHHHHHHHHHHHHcCCcEEEEeccH
Confidence               1111233333  478999999998

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=91.38  E-value=0.14  Score=45.13  Aligned_cols=26  Identities=23%  Similarity=0.345  Sum_probs=22.0

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcC
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .....|+|+|.+|+|||||...+...
T Consensus         6 ~~~~~i~v~G~~~~GKssl~~~l~~~   31 (178)
T 2lkc_A            6 ERPPVVTIMGHVDHGKTTLLDAIRHS   31 (178)
T ss_dssp             CCCCEEEEESCTTTTHHHHHHHHHTT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            34567889999999999999998764

>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=91.35  E-value=0.16  Score=50.92  Aligned_cols=23  Identities=35%  Similarity=0.499  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||.+.++.
T Consensus        30 Ge~~~llGpsGsGKSTLLr~iaG   52 (359)
T 3fvq_A           30 GEILFIIGASGCGKTTLLRCLAG   52 (359)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCchHHHHHHHHhc
Confidence            35899999999999999999975

>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=91.33  E-value=0.091  Score=45.80  Aligned_cols=22  Identities=27%  Similarity=0.475  Sum_probs=19.0

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      -|+|+|.+|+|||||...+.+.
T Consensus         4 ki~~vG~~~~GKSsli~~l~~~   25 (166)
T 3q72_A            4 KVLLLGAPGVGKSALARIFGGV   25 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHCCC
T ss_pred             EEEEECCCCCCHHHHHHHHcCc
Confidence            4679999999999999988653

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=91.33  E-value=1.2  Score=50.54  Aligned_cols=118  Identities=16%  Similarity=0.094  Sum_probs=62.9

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCcccc-----ccCceEEEEEeCCCC-------Ch-----------HHHHHHHHHHhhc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYNDNDVI-----NNFEIRVRVCVSDPF-------DE-----------FNVAKATIEELEG  265 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~~~~~-----~~f~~~~wv~~~~~~-------~~-----------~~~~~~il~~l~~  265 (583)
                      .+++|+|..|+|||||.+.+..- .+.     ... ...  .+.+..       +.           ......+++.++.
T Consensus       462 e~v~LiGpNGsGKSTLLk~LagG-~i~g~~~~~~~-~~~--~v~q~~~~~~~~ltv~e~l~~~~~~~~~~v~~~L~~lgL  537 (986)
T 2iw3_A          462 RRYGICGPNGCGKSTLMRAIANG-QVDGFPTQEEC-RTV--YVEHDIDGTHSDTSVLDFVFESGVGTKEAIKDKLIEFGF  537 (986)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHT-CSTTCCCTTTS-CEE--ETTCCCCCCCTTSBHHHHHHTTCSSCHHHHHHHHHHTTC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC-CcCCCccccce-eEE--EEcccccccccCCcHHHHHHHhhcCHHHHHHHHHHHcCC
Confidence            47899999999999999999731 111     001 111  222211       11           1223344444443


Q ss_pred             Cc-------cccccHHHHHHHHHHHhcCCceeEEEcCCCc-ccccchHhhHHhhccCCCCceEEEecCchHHHhh
Q 036323          266 SA-------IDLHELNSLLRRIGANIAGQKFFMVLDNLWT-DDYRKWEPFRNCLMNGLRGSKILITTRKETVARM  332 (583)
Q Consensus       266 ~~-------~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~-~~~~~~~~l~~~l~~~~~gs~IlvTtR~~~v~~~  332 (583)
                      ..       ...+.-+...-.|...+-.++=+|+||.--+ -|......+...+..  .|..||++|-+......
T Consensus       538 ~~~~~~~~~~~LSGGqkQRvaLArAL~~~P~lLLLDEPTs~LD~~~~~~l~~~L~~--~g~tvIivSHdl~~l~~  610 (986)
T 2iw3_A          538 TDEMIAMPISALSGGWKMKLALARAVLRNADILLLDEPTNHLDTVNVAWLVNYLNT--CGITSITISHDSVFLDN  610 (986)
T ss_dssp             CHHHHHSBGGGCCHHHHHHHHHHHHHHTTCSEEEEESTTTTCCHHHHHHHHHHHHH--SCSEEEEECSCHHHHHH
T ss_pred             ChhhhcCCcccCCHHHHHHHHHHHHHhcCCCEEEEECCccCCCHHHHHHHHHHHHh--CCCEEEEEECCHHHHHH
Confidence            21       1112222233344555667788999998643 122233345555544  46778888888766544

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=91.28  E-value=0.13  Score=44.88  Aligned_cols=24  Identities=25%  Similarity=0.428  Sum_probs=20.4

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .--|.|+|.+|+|||||+..+...
T Consensus         5 ~~~i~v~G~~~~GKssl~~~l~~~   28 (168)
T 1z2a_A            5 AIKMVVVGNGAVGKSSMIQRYCKG   28 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHC
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcC
Confidence            345779999999999999998764

>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=91.25  E-value=0.16  Score=44.81  Aligned_cols=26  Identities=27%  Similarity=0.479  Sum_probs=22.0

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcC
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ....-|+|+|.+|+|||||...+...
T Consensus         7 ~~~~~i~v~G~~~~GKssli~~l~~~   32 (181)
T 2fn4_A            7 SETHKLVVVGGGGVGKSALTIQFIQS   32 (181)
T ss_dssp             SCEEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhC
Confidence            34567889999999999999998765

>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=91.22  E-value=0.1  Score=45.61  Aligned_cols=22  Identities=36%  Similarity=0.454  Sum_probs=19.1

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      --|+|+|.+|+|||||+..+..
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            3478999999999999999864

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=91.20  E-value=0.11  Score=50.00  Aligned_cols=21  Identities=38%  Similarity=0.670  Sum_probs=19.0

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 036323          210 IISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .++|+|+.|+|||||.+.++.
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g   24 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFK   24 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            578999999999999998875

>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=91.13  E-value=0.1  Score=45.34  Aligned_cols=24  Identities=38%  Similarity=0.632  Sum_probs=20.4

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..-|+|+|.+|+|||||...+...
T Consensus         4 ~~~i~v~G~~~~GKssl~~~l~~~   27 (168)
T 1u8z_A            4 LHKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhC
Confidence            345789999999999999998764

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=91.11  E-value=0.11  Score=45.50  Aligned_cols=23  Identities=26%  Similarity=0.502  Sum_probs=19.8

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      --|+|+|.+|+|||||...+...
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~   26 (172)
T 2erx_A            4 YRVAVFGAGGVGKSSLVLRFVKG   26 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            34679999999999999998764

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=91.11  E-value=0.1  Score=46.80  Aligned_cols=23  Identities=30%  Similarity=0.569  Sum_probs=20.1

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      --|+|+|.+|+|||||+..+...
T Consensus        22 ~ki~vvG~~~~GKSsli~~l~~~   44 (190)
T 3con_A           22 YKLVVVGAGGVGKSALTIQLIQN   44 (190)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            46789999999999999998764

>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=91.08  E-value=0.12  Score=46.17  Aligned_cols=22  Identities=27%  Similarity=0.350  Sum_probs=19.6

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      -|+|+|.+|+|||||...+...
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            4789999999999999998875

>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=91.02  E-value=0.11  Score=51.35  Aligned_cols=25  Identities=32%  Similarity=0.517  Sum_probs=22.6

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..++++|+|+.|+|||||.+.+...
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            4789999999999999999999864

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=91.00  E-value=0.17  Score=44.52  Aligned_cols=25  Identities=28%  Similarity=0.344  Sum_probs=20.8

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..--|+|+|.+|+|||||...+.+.
T Consensus         5 ~~~ki~v~G~~~~GKssl~~~l~~~   29 (178)
T 2hxs_A            5 RQLKIVVLGDGASGKTSLTTCFAQE   29 (178)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHGG
T ss_pred             ceEEEEEECcCCCCHHHHHHHHHhC
Confidence            3445789999999999999998764

>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=91.00  E-value=0.14  Score=45.36  Aligned_cols=23  Identities=17%  Similarity=0.238  Sum_probs=20.3

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..|+|+|.+|+|||||...+...
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            45789999999999999999864

>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=90.97  E-value=0.27  Score=45.36  Aligned_cols=24  Identities=21%  Similarity=0.267  Sum_probs=21.3

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...|.|.|+.|+||||+++.+...
T Consensus         6 g~~i~~eG~~gsGKsT~~~~l~~~   29 (213)
T 4edh_A            6 GLFVTLEGPEGAGKSTNRDYLAER   29 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHH
Confidence            468899999999999999998774

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=90.95  E-value=0.11  Score=45.23  Aligned_cols=22  Identities=27%  Similarity=0.537  Sum_probs=19.4

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      -|+|+|.+|+|||||...+.+.
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            4789999999999999998764

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=90.94  E-value=0.11  Score=45.08  Aligned_cols=22  Identities=27%  Similarity=0.539  Sum_probs=19.4

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      -|+|+|.+|+|||||...+...
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            5789999999999999888754

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=90.89  E-value=0.14  Score=45.58  Aligned_cols=25  Identities=28%  Similarity=0.368  Sum_probs=21.5

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...-|+|+|.+|+|||||...+...
T Consensus        15 ~~~ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A           15 QEVRILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcC
Confidence            3566789999999999999998864

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=90.89  E-value=0.14  Score=45.80  Aligned_cols=24  Identities=25%  Similarity=0.488  Sum_probs=20.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...|+|+|.+|+|||||...+...
T Consensus        23 ~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 3pqc_A           23 KGEVAFVGRSNVGKSSLLNALFNR   46 (195)
T ss_dssp             TCEEEEEEBTTSSHHHHHHHHHTS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcC
Confidence            446789999999999999998875

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=90.89  E-value=0.11  Score=45.26  Aligned_cols=22  Identities=14%  Similarity=0.374  Sum_probs=19.4

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      -|+|+|.+|+|||||...+...
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1ek0_A            5 KLVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999988764

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=90.84  E-value=0.11  Score=45.25  Aligned_cols=24  Identities=21%  Similarity=0.371  Sum_probs=20.5

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .--|+|+|.+|+|||||...+...
T Consensus         6 ~~~i~v~G~~~~GKSsli~~l~~~   29 (170)
T 1z0j_A            6 ELKVCLLGDTGVGKSSIMWRFVED   29 (170)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcC
Confidence            345789999999999999998765

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=90.82  E-value=0.14  Score=44.67  Aligned_cols=25  Identities=24%  Similarity=0.347  Sum_probs=21.1

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..--|+|+|.+|+|||||...+...
T Consensus         5 ~~~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1z08_A            5 YSFKVVLLGEGCVGKTSLVLRYCEN   29 (170)
T ss_dssp             EEEEEEEECCTTSCHHHHHHHHHHC
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcC
Confidence            3456789999999999999998764

>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=90.80  E-value=0.12  Score=45.09  Aligned_cols=23  Identities=30%  Similarity=0.443  Sum_probs=19.9

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      --|+|+|.+|+|||||...+...
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            45789999999999999998764

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=90.79  E-value=0.21  Score=46.48  Aligned_cols=26  Identities=31%  Similarity=0.391  Sum_probs=22.7

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcC
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .....|.|.|..|+||||+++.+.+.
T Consensus        19 ~~~~~i~~~G~~g~GKst~~~~l~~~   44 (223)
T 3ld9_A           19 PGSMFITFEGIDGSGKTTQSHLLAEY   44 (223)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            34678999999999999999999874

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=90.77  E-value=0.26  Score=45.93  Aligned_cols=24  Identities=33%  Similarity=0.448  Sum_probs=18.4

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...|.|.|+.|+||||+++.+.+.
T Consensus        25 g~~I~~eG~~GsGKsT~~~~l~~~   48 (227)
T 3v9p_A           25 GKFITFEGIDGAGKTTHLQWFCDR   48 (227)
T ss_dssp             CCEEEEECCC---CHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            458899999999999999999874

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=90.73  E-value=0.12  Score=46.43  Aligned_cols=24  Identities=21%  Similarity=0.221  Sum_probs=20.0

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .--|+|+|.+|+|||||+..+.+.
T Consensus        20 ~~ki~ivG~~~vGKSsL~~~~~~~   43 (184)
T 3ihw_A           20 ELKVGIVGNLSSGKSALVHRYLTG   43 (184)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            446779999999999999887654

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=90.70  E-value=0.16  Score=45.31  Aligned_cols=25  Identities=32%  Similarity=0.314  Sum_probs=20.9

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..--|+|+|.+|+|||||+..+...
T Consensus         6 ~~~ki~v~G~~~vGKSsli~~l~~~   30 (184)
T 1m7b_A            6 VKCKIVVVGDSQCGKTALLHVFAKD   30 (184)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEEEECCCCCCHHHHHHHHhcC
Confidence            3445779999999999999998764

>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=90.68  E-value=0.12  Score=47.04  Aligned_cols=23  Identities=30%  Similarity=0.528  Sum_probs=19.9

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .-|+|+|.+|+|||||...+...
T Consensus        26 ~ki~lvG~~~vGKSsLi~~l~~~   48 (198)
T 1f6b_A           26 GKLVFLGLDNAGKTTLLHMLKDD   48 (198)
T ss_dssp             EEEEEEEETTSSHHHHHHHHSCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhcC
Confidence            35789999999999999998763

>1xx6_A Thymidine kinase; NESG, northeast structural genomics consortium, protein STRU initiative, PSI, structural genomics, DNA synthesis; HET: ADP; 2.00A {Clostridium acetobutylicum} SCOP: c.37.1.24 g.39.1.14

Probab=90.68  E-value=0.078  Score=48.13  Aligned_cols=109  Identities=12%  Similarity=0.039  Sum_probs=52.2

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCcc--ccccHHHHHHHHHHHhc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAI--DLHELNSLLRRIGANIA  285 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~--~~~~~~~~~~~l~~~l~  285 (583)
                      ..+..++|..|.||||.+..+.+... ...+...++-..-+.   ..-...+.+.++....  ...+..    .+.+.+.
T Consensus         8 g~i~v~~G~mgsGKTT~ll~~a~r~~-~~g~kV~v~k~~~d~---r~~~~~i~s~~g~~~~a~~~~~~~----~i~~~~~   79 (191)
T 1xx6_A            8 GWVEVIVGPMYSGKSEELIRRIRRAK-IAKQKIQVFKPEIDN---RYSKEDVVSHMGEKEQAVAIKNSR----EILKYFE   79 (191)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHH-HTTCCEEEEEEC----------CEEECTTSCEEECEEESSST----HHHHHCC
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHHH-HCCCEEEEEEeccCc---cchHHHHHhhcCCceeeEeeCCHH----HHHHHHh
Confidence            46899999999999999877766422 122333333211110   0000111222221100  111112    2333333


Q ss_pred             CCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCch
Q 036323          286 GQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKE  327 (583)
Q Consensus       286 ~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~  327 (583)
                      ++-=+|++|.+..-+.+.++.+.. +.+  .|..||+|.++.
T Consensus        80 ~~~dvViIDEaqfl~~~~v~~l~~-l~~--~~~~Vi~~Gl~~  118 (191)
T 1xx6_A           80 EDTEVIAIDEVQFFDDEIVEIVNK-IAE--SGRRVICAGLDM  118 (191)
T ss_dssp             TTCSEEEECSGGGSCTHHHHHHHH-HHH--TTCEEEEEECSB
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHH-HHh--CCCEEEEEeccc
Confidence            333499999985433334444333 222  267899988754

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=90.67  E-value=0.084  Score=50.58  Aligned_cols=25  Identities=24%  Similarity=0.288  Sum_probs=21.9

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ....|+|.|..|+||||+++.+...
T Consensus        23 ~~~~I~ieG~~GsGKST~~~~L~~~   47 (263)
T 1p5z_B           23 RIKKISIEGNIAAGKSTFVNILKQL   47 (263)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTTGGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHh
Confidence            4678999999999999999988763

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=90.65  E-value=0.13  Score=47.38  Aligned_cols=26  Identities=31%  Similarity=0.319  Sum_probs=22.0

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcC
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .....|.|+|.+|+|||||+..+...
T Consensus        10 ~~~~~i~~~G~~g~GKTsl~~~l~~~   35 (218)
T 1nrj_B           10 SYQPSIIIAGPQNSGKTSLLTLLTTD   35 (218)
T ss_dssp             CCCCEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            34567889999999999999998875

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=90.62  E-value=0.16  Score=44.93  Aligned_cols=25  Identities=32%  Similarity=0.541  Sum_probs=21.3

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...-|+|+|.+|+|||||...+...
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            4556789999999999999988764

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=90.62  E-value=0.12  Score=44.96  Aligned_cols=20  Identities=40%  Similarity=0.419  Sum_probs=18.3

Q ss_pred             EEEEecCCchHHHHHHHHHc
Q 036323          211 ISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~  230 (583)
                      |+|+|.+|+|||||...+..
T Consensus         3 i~~~G~~~~GKssl~~~l~~   22 (164)
T 1r8s_A            3 ILMVGLDAAGKTTILYKLKL   22 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHc
Confidence            68999999999999999865

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=90.61  E-value=0.21  Score=49.78  Aligned_cols=25  Identities=20%  Similarity=0.340  Sum_probs=22.0

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ....+++|+|.+|+|||||.+.+..
T Consensus        53 ~~g~~v~i~G~~GaGKSTLl~~l~g   77 (337)
T 2qm8_A           53 GRAIRVGITGVPGVGKSTTIDALGS   77 (337)
T ss_dssp             CCSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3467999999999999999999875

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=90.61  E-value=0.14  Score=46.08  Aligned_cols=26  Identities=27%  Similarity=0.326  Sum_probs=22.1

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcC
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ....-|+|+|.+|+|||||...+...
T Consensus        15 ~~~~ki~v~G~~~~GKSsl~~~l~~~   40 (199)
T 4bas_A           15 KTKLQVVMCGLDNSGKTTIINQVKPA   40 (199)
T ss_dssp             -CEEEEEEECCTTSCHHHHHHHHSCC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhcC
Confidence            45667889999999999999998765

>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=90.56  E-value=0.12  Score=46.33  Aligned_cols=24  Identities=21%  Similarity=0.325  Sum_probs=20.4

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .--|+|+|.+|+|||||+..+.+.
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            446789999999999999888764

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=90.53  E-value=0.14  Score=45.62  Aligned_cols=21  Identities=24%  Similarity=0.468  Sum_probs=19.1

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 036323          210 IISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      +.+|+|..|+|||||+..++-
T Consensus        28 ~~~i~G~NGsGKStll~ai~~   48 (182)
T 3kta_A           28 FTAIVGANGSGKSNIGDAILF   48 (182)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            889999999999999988864

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=90.52  E-value=0.11  Score=45.97  Aligned_cols=23  Identities=17%  Similarity=0.251  Sum_probs=19.9

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      --|+|+|.+|+|||||...+.+.
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            45779999999999999998764

>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=90.52  E-value=0.14  Score=51.92  Aligned_cols=22  Identities=27%  Similarity=0.531  Sum_probs=20.3

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .+|+|.|+.|+||||||..++.
T Consensus         3 ~~i~i~GptgsGKttla~~La~   24 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQLAQ   24 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHH
T ss_pred             cEEEEECcchhhHHHHHHHHHH
Confidence            5889999999999999999876

>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=90.51  E-value=0.14  Score=46.76  Aligned_cols=24  Identities=29%  Similarity=0.468  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..-|+|+|.+|+|||||...+...
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            456789999999999999998754

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=90.49  E-value=0.082  Score=57.10  Aligned_cols=22  Identities=23%  Similarity=0.297  Sum_probs=19.8

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      -|.++|++|+|||+||+.+++.
T Consensus       329 ~vLL~GppGtGKT~LAr~la~~  350 (595)
T 3f9v_A          329 HILIIGDPGTAKSQMLQFISRV  350 (595)
T ss_dssp             CEEEEESSCCTHHHHHHSSSTT
T ss_pred             ceEEECCCchHHHHHHHHHHHh
Confidence            5789999999999999998874

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=90.48  E-value=0.15  Score=51.15  Aligned_cols=24  Identities=21%  Similarity=0.261  Sum_probs=21.8

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...+|+|+|.+|+|||||...+..
T Consensus        73 ~~~~v~lvG~pgaGKSTLln~L~~   96 (349)
T 2www_A           73 LAFRVGLSGPPGAGKSTFIEYFGK   96 (349)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHH
Confidence            467999999999999999999875

>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=90.48  E-value=0.23  Score=46.63  Aligned_cols=24  Identities=29%  Similarity=0.512  Sum_probs=21.4

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...|.|.|+.|+||||+++.+...
T Consensus        27 ~~~i~~eG~~GsGKsT~~~~l~~~   50 (236)
T 3lv8_A           27 AKFIVIEGLEGAGKSTAIQVVVET   50 (236)
T ss_dssp             CCEEEEEESTTSCHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            458999999999999999998874

>2c61_A A-type ATP synthase non-catalytic subunit B; hydrolase, H+ ATPase, A1AO, ATP synthesis, hydrogen ION transport, ION transport; 1.5A {Methanosarcina mazei GO1} PDB: 3dsr_A* 3b2q_A* 2rkw_A* 3eiu_A*

Probab=90.46  E-value=0.19  Score=51.95  Aligned_cols=89  Identities=10%  Similarity=0.019  Sum_probs=49.3

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCcccccc--CceEEEEEeCCCC-ChHHHHHHHHHHhhcC--------cccccc----
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINN--FEIRVRVCVSDPF-DEFNVAKATIEELEGS--------AIDLHE----  272 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~--f~~~~wv~~~~~~-~~~~~~~~il~~l~~~--------~~~~~~----  272 (583)
                      ..-++|.|.+|+|||+|+..++++....+.  =+.++++-+.+.. ...++...+...-...        .+.+..    
T Consensus       152 GQr~~Ifgg~G~GKt~Ll~~Ia~~~~~n~~~~~~~~V~~~iGER~~Ev~e~~~~~~~~g~m~rtvvV~~tsd~p~~~r~~  231 (469)
T 2c61_A          152 GQKLPIFSASGLPHNEIALQIARQASVPGSESAFAVVFAAMGITNEEAQYFMSDFEKTGALERAVVFLNLADDPAVERIV  231 (469)
T ss_dssp             TCBCCEEECTTSCHHHHHHHHHHHCBCTTCSSCEEEEEEEEEECHHHHHHHHHHHHHHSGGGGEEEEEEETTSCHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHhhccCCCCcEEEEEEccCCcHHHHHHHHHHHhccCccceEEEEECCCCCHHHHHH
Confidence            445678899999999999999875433211  1345666665543 3445555554331110        011000    


Q ss_pred             HHHHHHHHHHHh---cCCceeEEEcCC
Q 036323          273 LNSLLRRIGANI---AGQKFFMVLDNL  296 (583)
Q Consensus       273 ~~~~~~~l~~~l---~~k~~LlVlDdv  296 (583)
                      .....-.+.+++   +++.+||++||+
T Consensus       232 ~~~~a~tiAEyfrdd~G~dVLl~~Dsl  258 (469)
T 2c61_A          232 TPRMALTAAEYLAYEHGMHVLVILTDI  258 (469)
T ss_dssp             HHHHHHHHHHHHHHHHCCEEEEEEECH
T ss_pred             HHHHHHHHHHHHHHhcCCeEEEEEeCH
Confidence            111122233444   478999999997

>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=90.40  E-value=0.14  Score=46.19  Aligned_cols=23  Identities=35%  Similarity=0.536  Sum_probs=20.1

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .-|+|+|.+|+|||||...+.+.
T Consensus        24 ~ki~~vG~~~vGKSsli~~l~~~   46 (190)
T 1m2o_B           24 GKLLFLGLDNAGKTTLLHMLKND   46 (190)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHhcC
Confidence            36789999999999999998864

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=90.38  E-value=0.21  Score=50.00  Aligned_cols=23  Identities=30%  Similarity=0.547  Sum_probs=20.6

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||.+.++.
T Consensus        41 Ge~~~llGpnGsGKSTLLr~iaG   63 (355)
T 1z47_A           41 GEMVGLLGPSGSGKTTILRLIAG   63 (355)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            35899999999999999999875

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=90.37  E-value=0.13  Score=44.77  Aligned_cols=24  Identities=17%  Similarity=0.271  Sum_probs=20.4

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .--|+|+|.+|+|||||...+...
T Consensus         6 ~~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1r2q_A            6 QFKLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcC
Confidence            345789999999999999998754

>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=90.36  E-value=0.13  Score=50.12  Aligned_cols=24  Identities=29%  Similarity=0.531  Sum_probs=21.3

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+++|+|+.|+|||||.+.+..-
T Consensus        64 Ge~~~i~G~NGsGKSTLlk~l~Gl   87 (290)
T 2bbs_A           64 GQLLAVAGSTGAGKTSLLMMIMGE   87 (290)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcC
Confidence            458999999999999999999763

>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase; 1.90A {Tomato mosaic virus}

Probab=90.35  E-value=0.38  Score=49.38  Aligned_cols=26  Identities=23%  Similarity=0.336  Sum_probs=23.2

Q ss_pred             CCceEEEEEEecCCchHHHHHHHHHc
Q 036323          205 TNTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       205 ~~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ....++..|.|.+|.||||+.+..++
T Consensus       158 ~~~~~v~~I~G~aGsGKTt~I~~~~~  183 (446)
T 3vkw_A          158 VSSAKVVLVDGVPGCGKTKEILSRVN  183 (446)
T ss_dssp             CCCSEEEEEEECTTSCHHHHHHHHCC
T ss_pred             cccccEEEEEcCCCCCHHHHHHHHhc
Confidence            45788999999999999999998876

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=90.34  E-value=0.14  Score=52.31  Aligned_cols=24  Identities=21%  Similarity=0.354  Sum_probs=21.7

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...+++|+|..|+|||||.+.+..
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            456999999999999999999987

>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=90.33  E-value=0.14  Score=45.09  Aligned_cols=23  Identities=26%  Similarity=0.338  Sum_probs=19.8

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      --|+|+|.+|+|||||...+...
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            45789999999999999998754

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=90.31  E-value=0.76  Score=54.48  Aligned_cols=24  Identities=33%  Similarity=0.556  Sum_probs=21.2

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ....++|+|+.|+|||||++.+..
T Consensus       443 ~G~~vaivG~sGsGKSTll~ll~~  466 (1321)
T 4f4c_A          443 AGQTVALVGSSGCGKSTIISLLLR  466 (1321)
T ss_dssp             TTCEEEEEECSSSCHHHHHHHHTT
T ss_pred             CCcEEEEEecCCCcHHHHHHHhcc
Confidence            345899999999999999999876

>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=90.29  E-value=0.21  Score=50.36  Aligned_cols=23  Identities=30%  Similarity=0.507  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||.+.+..
T Consensus        29 Ge~~~llGpsGsGKSTLLr~iaG   51 (381)
T 3rlf_A           29 GEFVVFVGPSGCGKSTLLRMIAG   51 (381)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEEcCCCchHHHHHHHHHc
Confidence            35899999999999999999975

>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=90.25  E-value=0.22  Score=49.99  Aligned_cols=23  Identities=26%  Similarity=0.419  Sum_probs=20.6

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||.+.++.
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaG   51 (359)
T 2yyz_A           29 GEFVALLGPSGCGKTTTLLMLAG   51 (359)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCEEEEEcCCCchHHHHHHHHHC
Confidence            45899999999999999999975

>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=90.24  E-value=0.092  Score=48.02  Aligned_cols=25  Identities=20%  Similarity=0.226  Sum_probs=21.2

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ....|+|+|.+|+|||||.+.+...
T Consensus        25 ~~~~v~lvG~~g~GKSTLl~~l~g~   49 (210)
T 1pui_A           25 TGIEVAFAGRSNAGKSSALNTLTNQ   49 (210)
T ss_dssp             CSEEEEEEECTTSSHHHHHTTTCCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCC
Confidence            3467899999999999999887753

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=90.23  E-value=0.17  Score=44.58  Aligned_cols=25  Identities=24%  Similarity=0.513  Sum_probs=21.1

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..--|+|+|.+|+|||||...+...
T Consensus         6 ~~~~i~v~G~~~~GKSsli~~l~~~   30 (177)
T 1wms_A            6 SLFKVILLGDGGVGKSSLMNRYVTN   30 (177)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcC
Confidence            3456789999999999999998754

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=90.21  E-value=0.22  Score=50.02  Aligned_cols=23  Identities=26%  Similarity=0.407  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||.+.++.
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaG   51 (362)
T 2it1_A           29 GEFMALLGPSGSGKSTLLYTIAG   51 (362)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCchHHHHHHHHhc
Confidence            45899999999999999999875

>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=90.15  E-value=0.22  Score=50.23  Aligned_cols=23  Identities=26%  Similarity=0.419  Sum_probs=20.6

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||.+.++.
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaG   51 (372)
T 1g29_1           29 GEFMILLGPSGCGKTTTLRMIAG   51 (372)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCcHHHHHHHHHHc
Confidence            34899999999999999999975

>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=90.14  E-value=0.14  Score=45.62  Aligned_cols=23  Identities=26%  Similarity=0.475  Sum_probs=20.0

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      --|+|+|.+|+|||||...+.+.
T Consensus         5 ~ki~v~G~~~~GKSsli~~l~~~   27 (189)
T 4dsu_A            5 YKLVVVGADGVGKSALTIQLIQN   27 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            45789999999999999998764

>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=90.13  E-value=0.22  Score=50.16  Aligned_cols=23  Identities=26%  Similarity=0.434  Sum_probs=20.6

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||.+.++.
T Consensus        37 Ge~~~llGpnGsGKSTLLr~iaG   59 (372)
T 1v43_A           37 GEFLVLLGPSGCGKTTTLRMIAG   59 (372)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHHc
Confidence            45899999999999999999875

>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=90.13  E-value=0.25  Score=49.31  Aligned_cols=25  Identities=20%  Similarity=0.248  Sum_probs=21.8

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ....+|+|+|.+|+|||||+..+..
T Consensus        54 ~~~~~i~i~G~~g~GKSTl~~~l~~   78 (341)
T 2p67_A           54 GNTLRLGVTGTPGAGKSTFLEAFGM   78 (341)
T ss_dssp             SCSEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHH
Confidence            3567899999999999999988864

>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=90.13  E-value=0.14  Score=46.24  Aligned_cols=23  Identities=30%  Similarity=0.518  Sum_probs=19.6

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .--|+|+|.+|+|||||...+..
T Consensus         6 ~~kv~lvG~~~vGKSsL~~~~~~   28 (192)
T 2cjw_A            6 YYRVVLIGEQGVGKSTLANIFAG   28 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHhc
Confidence            34578999999999999988874

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=90.11  E-value=0.13  Score=46.11  Aligned_cols=23  Identities=35%  Similarity=0.273  Sum_probs=19.3

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .--|+|+|.+|+|||||++.+.+
T Consensus        14 ~~ki~vvG~~~~GKssL~~~l~~   36 (198)
T 3t1o_A           14 NFKIVYYGPGLSGKTTNLKWIYS   36 (198)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHHh
Confidence            44678999999999999977765

>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=90.09  E-value=0.15  Score=54.02  Aligned_cols=24  Identities=29%  Similarity=0.422  Sum_probs=21.5

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...+|.++|++|+||||+|+.+..
T Consensus        34 ~~~lIvlvGlpGSGKSTia~~La~   57 (520)
T 2axn_A           34 SPTVIVMVGLPARGKTYISKKLTR   57 (520)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            456899999999999999999876

>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=90.09  E-value=0.17  Score=44.75  Aligned_cols=25  Identities=20%  Similarity=0.379  Sum_probs=21.2

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...-|+|+|.+|+|||||+..+.+.
T Consensus         5 ~~~ki~~~G~~~~GKSsli~~l~~~   29 (181)
T 3t5g_A            5 KSRKIAILGYRSVGKSSLTIQFVEG   29 (181)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEEECcCCCCHHHHHHHHHcC
Confidence            3557889999999999999998854

>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=90.07  E-value=0.21  Score=44.25  Aligned_cols=25  Identities=28%  Similarity=0.534  Sum_probs=21.2

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..--|+|+|.+|+|||||...+.+.
T Consensus        17 ~~~ki~v~G~~~~GKSsl~~~l~~~   41 (183)
T 3kkq_A           17 PTYKLVVVGDGGVGKSALTIQFFQK   41 (183)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhC
Confidence            3456789999999999999998864

>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=90.06  E-value=0.2  Score=44.12  Aligned_cols=26  Identities=19%  Similarity=0.267  Sum_probs=21.9

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcC
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ....-|.|+|.+|+|||||...+...
T Consensus        13 ~~~~~i~v~G~~~~GKSsli~~l~~~   38 (179)
T 1z0f_A           13 SYIFKYIIIGDMGVGKSCLLHQFTEK   38 (179)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHcC
Confidence            34567889999999999999998764

>2afh_E Nitrogenase iron protein 1; nitrogen fixation, iron-sulfur, metal-binding, molybdenum, oxidoreductase; HET: HCA CFN CLF PGE PG4 P6G 1PE; 2.10A {Azotobacter vinelandii} SCOP: c.37.1.10 PDB: 1g1m_A 1g5p_A 1m1y_E* 1m34_E* 1n2c_E* 1nip_A* 1fp6_A* 2afi_E* 2afk_E* 2nip_A 1de0_A 1xcp_A* 1xdb_A 1xd8_A 1xd9_A* 1g20_E* 1g21_E* 2c8v_A* 1rw4_A

Probab=90.03  E-value=0.17  Score=49.03  Aligned_cols=39  Identities=23%  Similarity=0.259  Sum_probs=25.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSD  248 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~  248 (583)
                      .++|+|.|-||+||||+|..+....... . ..++-++...
T Consensus         2 MkvIavs~KGGvGKTT~a~nLA~~La~~-G-~rVlliD~D~   40 (289)
T 2afh_E            2 MRQCAIYGKGGIGKSTTTQNLVAALAEM-G-KKVMIVGCDP   40 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHHHT-T-CCEEEEEECS
T ss_pred             ceEEEEeCCCcCcHHHHHHHHHHHHHHC-C-CeEEEEecCC
Confidence            4678889999999999998776532111 1 2345556543

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=90.03  E-value=0.18  Score=44.51  Aligned_cols=26  Identities=19%  Similarity=0.395  Sum_probs=21.8

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcC
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...--|+|+|.+|+|||||+..+...
T Consensus         7 ~~~~~i~v~G~~~~GKssl~~~l~~~   32 (181)
T 3tw8_B            7 DHLFKLLIIGDSGVGKSSLLLRFADN   32 (181)
T ss_dssp             CEEEEEEEECCTTSCHHHHHHHHCSC
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhcC
Confidence            34556789999999999999998764

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=89.99  E-value=0.15  Score=45.35  Aligned_cols=24  Identities=29%  Similarity=0.307  Sum_probs=20.3

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .--|+|+|.+|+|||||...+.+.
T Consensus         5 ~~~i~~~G~~~~GKssl~~~l~~~   28 (186)
T 1mh1_A            5 AIKCVVVGDGAVGKTCLLISYTTN   28 (186)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEEECCCCCCHHHHHHHHHcC
Confidence            345789999999999999988754

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=89.99  E-value=0.17  Score=48.37  Aligned_cols=38  Identities=24%  Similarity=0.239  Sum_probs=25.3

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSD  248 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~  248 (583)
                      ++|+|.|-||+||||+|..+.....  ..-..++-++...
T Consensus         2 ~vI~vs~KGGvGKTT~a~nLA~~la--~~G~~VlliD~D~   39 (269)
T 1cp2_A            2 RQVAIYGKGGIGKSTTTQNLTSGLH--AMGKTIMVVGCDP   39 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHH--TTTCCEEEEEECT
T ss_pred             cEEEEecCCCCcHHHHHHHHHHHHH--HCCCcEEEEcCCC
Confidence            5788899999999999977765322  1112355566543

>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=89.94  E-value=0.19  Score=49.33  Aligned_cols=27  Identities=26%  Similarity=0.372  Sum_probs=23.9

Q ss_pred             CCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          205 TNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       205 ~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .+....|+|+|.+|+|||||...+...
T Consensus         7 ~~~~g~v~ivG~~nvGKSTLin~l~g~   33 (308)
T 3iev_A            7 HMKVGYVAIVGKPNVGKSTLLNNLLGT   33 (308)
T ss_dssp             CCEEEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            466889999999999999999998764

>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=89.94  E-value=0.16  Score=45.90  Aligned_cols=24  Identities=17%  Similarity=0.462  Sum_probs=19.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .--|.|+|.+|+|||||...+.+.
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            345779999999999999877663

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=89.91  E-value=0.19  Score=50.36  Aligned_cols=23  Identities=26%  Similarity=0.434  Sum_probs=20.6

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||.+.++.
T Consensus        31 Ge~~~llGpnGsGKSTLLr~iaG   53 (353)
T 1oxx_K           31 GERFGILGPSGAGKTTFMRIIAG   53 (353)
T ss_dssp             TCEEEEECSCHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            35899999999999999999875

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=89.89  E-value=0.16  Score=46.08  Aligned_cols=24  Identities=33%  Similarity=0.444  Sum_probs=20.4

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..--|+|+|.+|+|||||...+..
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            455788999999999999999853

>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=89.86  E-value=0.098  Score=54.00  Aligned_cols=25  Identities=36%  Similarity=0.416  Sum_probs=21.6

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .+.+|.|+|.+|+||||++..+...
T Consensus        98 ~~~vI~ivG~~GvGKTTla~~La~~  122 (432)
T 2v3c_C           98 KQNVILLVGIQGSGKTTTAAKLARY  122 (432)
T ss_dssp             SCCCEEEECCSSSSTTHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4578999999999999999888763

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=89.86  E-value=0.15  Score=45.09  Aligned_cols=23  Identities=30%  Similarity=0.293  Sum_probs=19.8

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      --|+|+|.+|+|||||...+...
T Consensus         9 ~ki~v~G~~~~GKssl~~~~~~~   31 (182)
T 3bwd_D            9 IKCVTVGDGAVGKTCLLISYTSN   31 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            35679999999999999998764

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=89.84  E-value=0.2  Score=43.78  Aligned_cols=24  Identities=29%  Similarity=0.331  Sum_probs=20.6

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..-|+|+|.+|+|||||...+...
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            456789999999999999998764

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=89.83  E-value=0.24  Score=43.99  Aligned_cols=25  Identities=20%  Similarity=0.282  Sum_probs=21.2

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..--|+|+|.+|+|||||...+.+.
T Consensus         9 ~~~ki~v~G~~~~GKSsli~~l~~~   33 (186)
T 2bme_A            9 FLFKFLVIGNAGTGKSCLLHQFIEK   33 (186)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECCCCCCHHHHHHHHHcC
Confidence            3456789999999999999998764

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=89.83  E-value=0.15  Score=45.21  Aligned_cols=24  Identities=38%  Similarity=0.632  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..-|+|+|.+|+|||||+..+...
T Consensus        18 ~~ki~v~G~~~~GKSsli~~l~~~   41 (187)
T 2a9k_A           18 LHKVIMVGSGGVGKSALTLQFMYD   41 (187)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHhhC
Confidence            456789999999999999998764

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=89.81  E-value=0.64  Score=48.25  Aligned_cols=86  Identities=20%  Similarity=0.178  Sum_probs=47.1

Q ss_pred             ceEEEEEEecCCchHHHHH-HHHHcCccccccCce-EEEEEeCCCCC-hHHHHHHHHHHhhcC--------ccccccHH-
Q 036323          207 TVQIISMVGMGGIGKTTLA-QLAYNDNDVINNFEI-RVRVCVSDPFD-EFNVAKATIEELEGS--------AIDLHELN-  274 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa-~~v~~~~~~~~~f~~-~~wv~~~~~~~-~~~~~~~il~~l~~~--------~~~~~~~~-  274 (583)
                      +..-++|.|.+|+|||+|| ..+.+..    +-+. ++++-+.+... ..++.+.+...-...        .+++.... 
T Consensus       161 rGQR~~Ifg~~g~GKT~Lal~~I~~~~----~~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~m~~tvvV~atad~p~~~r~  236 (502)
T 2qe7_A          161 RGQRELIIGDRQTGKTTIAIDTIINQK----GQDVICIYVAIGQKQSTVAGVVETLRQHDALDYTIVVTASASEPAPLLY  236 (502)
T ss_dssp             TTCBCEEEECSSSCHHHHHHHHHHGGG----SCSEEEEEEEESCCHHHHHHHHHHHHHTTCSTTEEEEEECTTSCHHHHH
T ss_pred             cCCEEEEECCCCCCchHHHHHHHHHhh----cCCcEEEEEECCCcchHHHHHHHHHhhCCCcceeEEEEECCCCCHHHHH
Confidence            3456789999999999996 5777642    2443 46666766543 334444443311100        11111111 


Q ss_pred             ---HHHHHHHHHh--cCCceeEEEcCC
Q 036323          275 ---SLLRRIGANI--AGQKFFMVLDNL  296 (583)
Q Consensus       275 ---~~~~~l~~~l--~~k~~LlVlDdv  296 (583)
                         ...-.+.+++  +++.+||++||+
T Consensus       237 ~a~~~a~tiAEyfrd~G~dVLl~~Dsl  263 (502)
T 2qe7_A          237 LAPYAGCAMGEYFMYKGKHALVVYDDL  263 (502)
T ss_dssp             HHHHHHHHHHHHHHTTTCEEEEEEECH
T ss_pred             HHHHHHHHHHHHHHHcCCcEEEEEecH
Confidence               1111233333  578999999998

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=89.80  E-value=0.22  Score=44.47  Aligned_cols=26  Identities=19%  Similarity=0.272  Sum_probs=21.6

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcC
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...--|+|+|.+|+|||||+..+...
T Consensus         9 ~~~~ki~v~G~~~~GKSsli~~l~~~   34 (195)
T 3bc1_A            9 DYLIKFLALGDSGVGKTSVLYQYTDG   34 (195)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceeEEEEEECCCCCCHHHHHHHHhcC
Confidence            34456789999999999999998864

>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=89.78  E-value=0.16  Score=46.43  Aligned_cols=24  Identities=33%  Similarity=0.326  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .--|+|+|.+|+|||||+..+...
T Consensus        28 ~~ki~vvG~~~vGKSsLi~~l~~~   51 (205)
T 1gwn_A           28 KCKIVVVGDSQCGKTALLHVFAKD   51 (205)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            456789999999999999998765

>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=89.77  E-value=0.17  Score=50.99  Aligned_cols=23  Identities=17%  Similarity=0.302  Sum_probs=20.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...++|+|..|+|||||++.+..
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~g  192 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAA  192 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHH
T ss_pred             hCeEEEECCCCCCHHHHHHHHHH
Confidence            56889999999999999998876

>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=89.75  E-value=0.16  Score=46.25  Aligned_cols=25  Identities=28%  Similarity=0.404  Sum_probs=21.1

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..--|+|+|.+|+|||||+..+...
T Consensus        25 ~~~ki~lvG~~~vGKSsLi~~l~~~   49 (201)
T 2ew1_A           25 FLFKIVLIGNAGVGKTCLVRRFTQG   49 (201)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECcCCCCHHHHHHHHHhC
Confidence            3456789999999999999988754

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=89.74  E-value=0.16  Score=45.90  Aligned_cols=24  Identities=21%  Similarity=0.378  Sum_probs=20.4

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .--|+|+|.+|+|||||+..+...
T Consensus        28 ~~ki~v~G~~~vGKSsli~~l~~~   51 (196)
T 2atv_A           28 EVKLAIFGRAGVGKSALVVRFLTK   51 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            345779999999999999998764

>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=89.73  E-value=0.17  Score=45.61  Aligned_cols=24  Identities=21%  Similarity=0.383  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .--|+|+|.+|+|||||...+...
T Consensus        23 ~~ki~vvG~~~~GKSsli~~l~~~   46 (192)
T 2fg5_A           23 ELKVCLLGDTGVGKSSIVCRFVQD   46 (192)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcC
Confidence            456789999999999999998764

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=89.69  E-value=0.4  Score=45.95  Aligned_cols=25  Identities=24%  Similarity=0.477  Sum_probs=21.6

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ....|+|+|.+|+|||||...++..
T Consensus        38 ~~~~I~vvG~~g~GKSSLin~l~~~   62 (270)
T 1h65_A           38 NSLTILVMGKGGVGKSSTVNSIIGE   62 (270)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCC
Confidence            3567889999999999999998865

>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=89.67  E-value=0.19  Score=49.24  Aligned_cols=25  Identities=28%  Similarity=0.417  Sum_probs=22.0

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ....|+|+|.+|+|||||...+...
T Consensus         7 r~~~VaIvG~~nvGKSTLln~L~g~   31 (301)
T 1ega_A            7 YCGFIAIVGRPNVGKSTLLNKLLGQ   31 (301)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHCC
Confidence            4568999999999999999998864

>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=89.62  E-value=0.19  Score=52.82  Aligned_cols=46  Identities=9%  Similarity=-0.018  Sum_probs=30.7

Q ss_pred             ceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          181 EVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       181 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+.|.+-.+.+.+... +    ......+|.+.|++|+||||+|+.+...
T Consensus       373 ~~f~rpeV~~vLr~~~~-~----~~~~~~~I~l~GlsGsGKSTIa~~La~~  418 (511)
T 1g8f_A          373 EWFSYPEVVKILRESNP-P----RPKQGFSIVLGNSLTVSREQLSIALLST  418 (511)
T ss_dssp             TTTSCHHHHHHHHHHSC-C----GGGCCEEEEECTTCCSCHHHHHHHHHHH
T ss_pred             ccccChhhHHHHHHhcc-c----ccccceEEEecccCCCCHHHHHHHHHHH
Confidence            34455444445554431 1    1134578999999999999999999874

>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=89.61  E-value=0.17  Score=45.83  Aligned_cols=25  Identities=24%  Similarity=0.310  Sum_probs=21.4

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..--|+|+|.+|+|||||+..+...
T Consensus         7 ~~~ki~v~G~~~~GKSsli~~l~~~   31 (203)
T 1zbd_A            7 YMFKILIIGNSSVGKTSFLFRYADD   31 (203)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTC
T ss_pred             eeeEEEEECCCCCCHHHHHHHHhcC
Confidence            3456889999999999999998764

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=89.60  E-value=0.39  Score=45.76  Aligned_cols=25  Identities=20%  Similarity=0.470  Sum_probs=21.7

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ....|+|+|.+|+|||||...+...
T Consensus        35 ~~~~I~lvG~~g~GKSSLin~l~~~   59 (262)
T 3def_A           35 NSMTVLVLGKGGVGKSSTVNSLIGE   59 (262)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHTS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCC
Confidence            4567889999999999999998865

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=89.59  E-value=0.39  Score=46.57  Aligned_cols=42  Identities=14%  Similarity=0.237  Sum_probs=29.0

Q ss_pred             HHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          189 MRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       189 ~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ++++.+.|.... ........-|+|+|.+|+|||||...+...
T Consensus         8 ~~~l~~~l~~~~-~~~~~~~~~i~vvG~~~~GKSSLln~l~g~   49 (299)
T 2aka_B            8 VNRLQDAFSAIG-QNADLDLPQIAVVGGQSAGKSSVLENFVGR   49 (299)
T ss_dssp             HHHHHHHHTTSC-CCTTCCCCEEEEEEBTTSCHHHHHHHHHTS
T ss_pred             HHHHHHHHHhcC-CCCCCCCCeEEEEeCCCCCHHHHHHHHHCC
Confidence            455555554332 112234567899999999999999999875

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=89.56  E-value=0.23  Score=44.99  Aligned_cols=25  Identities=36%  Similarity=0.615  Sum_probs=21.2

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...-|+|+|.+|+|||||...+...
T Consensus        13 ~~~ki~v~G~~~~GKSsli~~l~~~   37 (206)
T 2bov_A           13 ALHKVIMVGSGGVGKSALTLQFMYD   37 (206)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhC
Confidence            3456889999999999999998754

>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=89.54  E-value=0.2  Score=46.52  Aligned_cols=25  Identities=16%  Similarity=0.355  Sum_probs=21.7

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...-|+|+|.+|+|||||+..+...
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            4567889999999999999999775

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=89.54  E-value=0.33  Score=44.77  Aligned_cols=23  Identities=30%  Similarity=0.497  Sum_probs=20.7

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..|.|.|..|+||||+++.+...
T Consensus         4 ~~i~~eG~~gsGKsT~~~~l~~~   26 (213)
T 4tmk_A            4 KYIVIEGLEGAGKTTARNVVVET   26 (213)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            47899999999999999998874

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=89.52  E-value=0.22  Score=44.05  Aligned_cols=22  Identities=23%  Similarity=0.324  Sum_probs=19.7

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      +-|.|.|.+|+||||||..+..
T Consensus        17 ~gvli~G~SGaGKStlal~L~~   38 (181)
T 3tqf_A           17 MGVLITGEANIGKSELSLALID   38 (181)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHH
T ss_pred             EEEEEEcCCCCCHHHHHHHHHH
Confidence            4678999999999999998876

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=89.50  E-value=0.17  Score=45.46  Aligned_cols=23  Identities=22%  Similarity=0.323  Sum_probs=19.9

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      --|+|+|.+|+|||||...+...
T Consensus        24 ~ki~v~G~~~~GKSsli~~l~~~   46 (191)
T 3dz8_A           24 FKLLIIGNSSVGKTSFLFRYADD   46 (191)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHhcC
Confidence            45779999999999999998764

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=89.48  E-value=0.21  Score=44.11  Aligned_cols=25  Identities=24%  Similarity=0.303  Sum_probs=21.0

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..--|+|+|.+|+|||||...+...
T Consensus        11 ~~~ki~v~G~~~~GKSsli~~l~~~   35 (181)
T 2efe_B           11 INAKLVLLGDVGAGKSSLVLRFVKD   35 (181)
T ss_dssp             EEEEEEEECCTTSCHHHHHHHHHHC
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcC
Confidence            3456789999999999999998764

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=89.48  E-value=0.24  Score=44.50  Aligned_cols=25  Identities=28%  Similarity=0.416  Sum_probs=21.2

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..--|+|+|.+|+|||||...+...
T Consensus        24 ~~~ki~v~G~~~~GKSsLi~~l~~~   48 (193)
T 2oil_A           24 FVFKVVLIGESGVGKTNLLSRFTRN   48 (193)
T ss_dssp             EEEEEEEESSTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECcCCCCHHHHHHHHhcC
Confidence            3456789999999999999998764

>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=89.48  E-value=0.17  Score=45.65  Aligned_cols=24  Identities=33%  Similarity=0.284  Sum_probs=20.5

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .--|+|+|.+|+|||||+..+...
T Consensus        29 ~~ki~v~G~~~vGKSsLi~~l~~~   52 (192)
T 2b6h_A           29 QMRILMVGLDAAGKTTILYKLKLG   52 (192)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHCSS
T ss_pred             ccEEEEECCCCCCHHHHHHHHHhC
Confidence            345789999999999999998764

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=89.47  E-value=0.17  Score=45.93  Aligned_cols=25  Identities=24%  Similarity=0.380  Sum_probs=21.3

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...-|+|+|.+|+|||||+..+...
T Consensus        23 ~~~ki~vvG~~~~GKSsli~~l~~~   47 (201)
T 3oes_A           23 RYRKVVILGYRCVGKTSLAHQFVEG   47 (201)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             CcEEEEEECCCCcCHHHHHHHHHhC
Confidence            3456789999999999999998864

>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=89.47  E-value=0.18  Score=45.72  Aligned_cols=25  Identities=20%  Similarity=0.315  Sum_probs=20.6

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..--|+|+|.+|+|||||...+...
T Consensus        24 ~~~ki~v~G~~~~GKSsLi~~l~~~   48 (200)
T 2o52_A           24 FLFKFLVIGSAGTGKSCLLHQFIEN   48 (200)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHC-
T ss_pred             cceEEEEECcCCCCHHHHHHHHHhC
Confidence            3456789999999999999998764

>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=89.47  E-value=0.17  Score=45.12  Aligned_cols=25  Identities=24%  Similarity=0.367  Sum_probs=21.4

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDN  232 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~  232 (583)
                      ..-|+|+|.+|+|||||...+.+..
T Consensus        18 ~~~i~v~G~~~~GKssl~~~l~~~~   42 (186)
T 1ksh_A           18 ELRLLMLGLDNAGKTTILKKFNGED   42 (186)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHTTCC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcCC
Confidence            4567899999999999999998653

>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=89.47  E-value=0.17  Score=46.91  Aligned_cols=22  Identities=27%  Similarity=0.392  Sum_probs=18.9

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      -|.|+|.+|+|||+|+..+.++
T Consensus        15 KivlvGd~~VGKTsLi~r~~~~   36 (216)
T 4dkx_A           15 KLVFLGEQSVGKTSLITRFMYD   36 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCcCHHHHHHHHHhC
Confidence            3668999999999999988764

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=89.46  E-value=0.21  Score=45.54  Aligned_cols=24  Identities=29%  Similarity=0.307  Sum_probs=20.3

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .--|+|+|.+|+|||||...+.++
T Consensus        30 ~~ki~vvG~~~~GKSsLi~~l~~~   53 (204)
T 4gzl_A           30 AIKCVVVGDGAVGKTCLLISYTTN   53 (204)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECcCCCCHHHHHHHHHhC
Confidence            345679999999999999888764

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=89.45  E-value=0.17  Score=45.62  Aligned_cols=24  Identities=17%  Similarity=0.293  Sum_probs=20.6

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .--|+|+|.+|+|||||...+...
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            345779999999999999999875

>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=89.43  E-value=0.18  Score=46.57  Aligned_cols=23  Identities=30%  Similarity=0.518  Sum_probs=20.0

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .--|+|+|.+|+|||||...+..
T Consensus        37 ~~kVvlvG~~~vGKSSLl~r~~~   59 (211)
T 2g3y_A           37 YYRVVLIGEQGVGKSTLANIFAG   59 (211)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHh
Confidence            44678999999999999999874

>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=89.40  E-value=0.19  Score=50.87  Aligned_cols=108  Identities=14%  Similarity=0.124  Sum_probs=54.2

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEE-EEEeCCCCChHHHHHHHHHHhhcCccc--cccHHHHHHHHHHH
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRV-RVCVSDPFDEFNVAKATIEELEGSAID--LHELNSLLRRIGAN  283 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~-wv~~~~~~~~~~~~~~il~~l~~~~~~--~~~~~~~~~~l~~~  283 (583)
                      ...+++|+|+.|+|||||++.+...  ........+ ++..  +....  ..   .....-...  ..+...+...+...
T Consensus       135 ~g~~i~ivG~~GsGKTTll~~l~~~--~~~~~~g~I~~~e~--~~e~~--~~---~~~~~v~Q~~~g~~~~~~~~~l~~~  205 (372)
T 2ewv_A          135 KMGLILVTGPTGSGKSTTIASMIDY--INQTKSYHIITIED--PIEYV--FK---HKKSIVNQREVGEDTKSFADALRAA  205 (372)
T ss_dssp             SSEEEEEECSSSSSHHHHHHHHHHH--HHHHSCCEEEEEES--SCCSC--CC---CSSSEEEEEEBTTTBSCSHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhh--cCcCCCcEEEEecc--cHhhh--hc---cCceEEEeeecCCCHHHHHHHHHHH
Confidence            3568999999999999999888762  221112222 2221  11100  00   000000000  00011223456666


Q ss_pred             hcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCchH
Q 036323          284 IAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKET  328 (583)
Q Consensus       284 l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~~  328 (583)
                      +...+=+|++|.+-  +.+....+..   ....|..|+.|+-...
T Consensus       206 L~~~pd~illdE~~--d~e~~~~~l~---~~~~g~~vi~t~H~~~  245 (372)
T 2ewv_A          206 LREDPDVIFVGEMR--DLETVETALR---AAETGHLVFGTLHTNT  245 (372)
T ss_dssp             TTSCCSEEEESCCC--SHHHHHHHHH---HHTTTCEEEECCCCCS
T ss_pred             hhhCcCEEEECCCC--CHHHHHHHHH---HHhcCCEEEEEECcch
Confidence            77778899999984  2223332222   2234666777776544

>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=89.39  E-value=0.18  Score=44.66  Aligned_cols=24  Identities=29%  Similarity=0.314  Sum_probs=20.5

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..-|+|+|.+|+|||||...+...
T Consensus        18 ~~~i~v~G~~~~GKssli~~l~~~   41 (183)
T 1moz_A           18 ELRILILGLDGAGKTTILYRLQIG   41 (183)
T ss_dssp             CEEEEEEEETTSSHHHHHHHTCCS
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcC
Confidence            456789999999999999988753

>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=89.37  E-value=0.17  Score=49.46  Aligned_cols=20  Identities=35%  Similarity=0.622  Sum_probs=18.1

Q ss_pred             EEEEecCCchHHHHHHHHHc
Q 036323          211 ISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~  230 (583)
                      |+|+|.+|+|||||.+.++.
T Consensus        21 I~lvG~nG~GKSTLl~~L~g   40 (301)
T 2qnr_A           21 LMVVGESGLGKSTLINSLFL   40 (301)
T ss_dssp             EEEEEETTSSHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            48999999999999999765

>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=89.36  E-value=0.18  Score=45.26  Aligned_cols=24  Identities=25%  Similarity=0.347  Sum_probs=20.6

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .--|+|+|.+|+|||||...+...
T Consensus        22 ~~ki~v~G~~~~GKSsli~~l~~~   45 (188)
T 1zd9_A           22 EMELTLVGLQYSGKTTFVNVIASG   45 (188)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ccEEEEECCCCCCHHHHHHHHHcC
Confidence            446789999999999999998764

>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=89.34  E-value=0.24  Score=48.51  Aligned_cols=31  Identities=19%  Similarity=0.289  Sum_probs=25.3

Q ss_pred             HHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHH
Q 036323          189 MRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAY  229 (583)
Q Consensus       189 ~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~  229 (583)
                      +++|.+.+.          ..+++|+|+.|+|||||.+.+.
T Consensus       156 i~~L~~~l~----------G~i~~l~G~sG~GKSTLln~l~  186 (302)
T 2yv5_A          156 IDELVDYLE----------GFICILAGPSGVGKSSILSRLT  186 (302)
T ss_dssp             HHHHHHHTT----------TCEEEEECSTTSSHHHHHHHHH
T ss_pred             HHHHHhhcc----------CcEEEEECCCCCCHHHHHHHHH
Confidence            566776662          2478999999999999999988

>3mfy_A V-type ATP synthase alpha chain; A-type ATP synthase, P loop, phenylalanine mutant, hydrolase; 2.35A {Pyrococcus horikoshii} PDB: 3i4l_A* 3i72_A 3i73_A* 3p20_A 3ikj_A 3qg1_A 3nd8_A 3nd9_A 1vdz_A 3qia_A 3qjy_A 3m4y_A 3se0_A 3sdz_A

Probab=89.33  E-value=0.46  Score=49.82  Aligned_cols=48  Identities=15%  Similarity=0.144  Sum_probs=34.0

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCCh-HHHHHH
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDE-FNVAKA  258 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~-~~~~~~  258 (583)
                      +..-++|.|..|+|||+|+..+.+..    +-+.++++-+.+.... .++...
T Consensus       226 kGqr~~I~g~~g~GKT~L~~~ia~~~----~~~~~V~~~iGER~~Ev~e~~~~  274 (588)
T 3mfy_A          226 KGGTAAIPGPAGSGKTVTQHQLAKWS----DAQVVIYIGCGERGNEMTDVLEE  274 (588)
T ss_dssp             TTCEEEECSCCSHHHHHHHHHHHHHS----SCSEEEEEECCSSSSHHHHHHHH
T ss_pred             cCCeEEeecCCCCCHHHHHHHHHhcc----CCCEEEEEEecccHHHHHHHHHH
Confidence            44578899999999999999987631    2356777878776543 334333

>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=89.32  E-value=0.17  Score=46.31  Aligned_cols=24  Identities=25%  Similarity=0.270  Sum_probs=20.3

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...|+|+|.+|+|||||...+...
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            456789999999999999998764

>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=89.29  E-value=0.18  Score=45.42  Aligned_cols=25  Identities=32%  Similarity=0.359  Sum_probs=21.2

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..--|+|+|.+|+|||||...+.+.
T Consensus        22 ~~~ki~~vG~~~~GKSsl~~~l~~~   46 (194)
T 3reg_A           22 KALKIVVVGDGAVGKTCLLLAFSKG   46 (194)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eeeEEEEECcCCCCHHHHHHHHhcC
Confidence            3456789999999999999998865

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=89.25  E-value=0.15  Score=47.06  Aligned_cols=22  Identities=27%  Similarity=0.332  Sum_probs=19.9

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .+|+|+|+.|+||||+++.+..
T Consensus         4 ~~i~i~G~~gsGkst~~~~l~~   25 (219)
T 2h92_A            4 INIALDGPAAAGKSTIAKRVAS   25 (219)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999998876

>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=89.21  E-value=0.24  Score=43.95  Aligned_cols=24  Identities=25%  Similarity=0.313  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .--|+|+|.+|+|||||...+...
T Consensus        21 ~~~i~v~G~~~~GKSsli~~l~~~   44 (181)
T 2h17_A           21 EHKVIIVGLDNAGKTTILYQFSMN   44 (181)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHHTT
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            346789999999999999999864

>3oaa_A ATP synthase subunit alpha; rossmann fold, hydrolase, hydrolase-transport PROT complex; HET: ANP ADP; 3.26A {Escherichia coli DH1} PDB: 2a7u_A

Probab=89.20  E-value=0.92  Score=47.03  Aligned_cols=86  Identities=21%  Similarity=0.184  Sum_probs=47.3

Q ss_pred             ceEEEEEEecCCchHHHHH-HHHHcCccccccCc-eEEEEEeCCCCC-hHHHHHHHHHHhhcC--------ccccccHH-
Q 036323          207 TVQIISMVGMGGIGKTTLA-QLAYNDNDVINNFE-IRVRVCVSDPFD-EFNVAKATIEELEGS--------AIDLHELN-  274 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa-~~v~~~~~~~~~f~-~~~wv~~~~~~~-~~~~~~~il~~l~~~--------~~~~~~~~-  274 (583)
                      +..-++|.|..|+|||+|+ ..+.+.    .+-+ .++++-+.+... ..++.+.+...-...        .+++.... 
T Consensus       161 rGQR~~Ifg~~g~GKT~l~l~~I~n~----~~~dv~~V~~~IGeR~~ev~e~~~~l~~~g~m~~tvvV~atad~p~~~r~  236 (513)
T 3oaa_A          161 RGQRELIIGDRQTGKTALAIDAIINQ----RDSGIKCIYVAIGQKASTISNVVRKLEEHGALANTIVVVATASESAALQY  236 (513)
T ss_dssp             TTCBCEEEESSSSSHHHHHHHHHHTT----SSSSCEEEEEEESCCHHHHHHHHHHHHHHSCSTTEEEEEECTTSCHHHHH
T ss_pred             cCCEEEeecCCCCCcchHHHHHHHhh----ccCCceEEEEEecCChHHHHHHHHHHhhcCcccceEEEEECCCCChHHHH
Confidence            3456789999999999996 566663    1233 356777776543 344444443321110        11111111 


Q ss_pred             ---HHHHHHHHHh--cCCceeEEEcCC
Q 036323          275 ---SLLRRIGANI--AGQKFFMVLDNL  296 (583)
Q Consensus       275 ---~~~~~l~~~l--~~k~~LlVlDdv  296 (583)
                         ...-.+.+++  +++.+||++||+
T Consensus       237 ~a~~~a~tiAEyfrd~G~dVLli~Dsl  263 (513)
T 3oaa_A          237 LAPYAGCAMGEYFRDRGEDALIIYDDL  263 (513)
T ss_dssp             HHHHHHHHHHHHHHHTTCEEEEEEETH
T ss_pred             HHHHHHHHHHHHHHhcCCCEEEEecCh
Confidence               1111222333  589999999998

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=89.19  E-value=0.19  Score=45.52  Aligned_cols=24  Identities=29%  Similarity=0.333  Sum_probs=20.0

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .--|+|+|.+|+|||||...+.+.
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            445779999999999999998764

>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=89.15  E-value=0.2  Score=46.08  Aligned_cols=24  Identities=33%  Similarity=0.481  Sum_probs=20.2

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .--|+|+|.+|+|||||...+...
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            446789999999999999998764

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=89.15  E-value=0.27  Score=43.38  Aligned_cols=25  Identities=28%  Similarity=0.345  Sum_probs=21.1

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..--|+|+|.+|+|||||...+...
T Consensus         9 ~~~~i~v~G~~~~GKssli~~l~~~   33 (180)
T 2g6b_A            9 VAFKVMLVGDSGVGKTCLLVRFKDG   33 (180)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECcCCCCHHHHHHHHHhC
Confidence            3456789999999999999998764

>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=89.10  E-value=0.24  Score=46.48  Aligned_cols=25  Identities=24%  Similarity=0.323  Sum_probs=21.8

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...-|+|+|.+|+|||||...+...
T Consensus        28 ~~~~i~lvG~~g~GKStlin~l~g~   52 (239)
T 3lxx_A           28 SQLRIVLVGKTGAGKSATGNSILGR   52 (239)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CceEEEEECCCCCCHHHHHHHHcCC
Confidence            4567889999999999999998875

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=89.08  E-value=0.24  Score=45.99  Aligned_cols=23  Identities=22%  Similarity=0.153  Sum_probs=19.0

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      -.|.+.|.||+||||++..+...
T Consensus         7 l~I~~~~kgGvGKTt~a~~la~~   29 (228)
T 2r8r_A            7 LKVFLGAAPGVGKTYAMLQAAHA   29 (228)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCcHHHHHHHHHHH
Confidence            34778999999999998777763

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=89.02  E-value=0.18  Score=53.72  Aligned_cols=24  Identities=29%  Similarity=0.387  Sum_probs=21.6

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...+++|+|+.|+|||||++.+..
T Consensus       368 ~G~iI~LiG~sGSGKSTLar~La~  391 (552)
T 3cr8_A          368 QGFTVFFTGLSGAGKSTLARALAA  391 (552)
T ss_dssp             SCEEEEEEESSCHHHHHHHHHHHH
T ss_pred             cceEEEEECCCCChHHHHHHHHHH
Confidence            356899999999999999999887

>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=89.00  E-value=0.24  Score=44.88  Aligned_cols=25  Identities=28%  Similarity=0.462  Sum_probs=21.4

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...-|+|+|.+|+|||||...+...
T Consensus         7 ~~~ki~v~G~~~~GKSsli~~l~~~   31 (207)
T 1vg8_A            7 VLLKVIILGDSGVGKTSLMNQYVNK   31 (207)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcC
Confidence            4556889999999999999998764

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=89.00  E-value=0.18  Score=47.00  Aligned_cols=23  Identities=26%  Similarity=0.335  Sum_probs=19.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .-.++|.|++|+||||+|+.+..
T Consensus         8 ~~~~~~~G~pGsGKsT~a~~L~~   30 (230)
T 3gmt_A            8 HMRLILLGAPGAGKGTQANFIKE   30 (230)
T ss_dssp             -CEEEEECCTTSCHHHHHHHHHH
T ss_pred             ccceeeECCCCCCHHHHHHHHHH
Confidence            34678999999999999998876

>2ck3_A ATP synthase subunit alpha\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1bmf_A* 1e1q_A* 1e1r_A* 1e79_A* 1h8h_A* 1nbm_A* 1ohh_A* 1qo1_A 1w0j_A* 1w0k_A* 1h8e_A* 2jdi_A* 2wss_A* 2w6j_A 2w6e_A 2w6g_A 2w6f_A 2w6h_A 2w6i_A 1cow_A* ...

Probab=88.96  E-value=0.77  Score=47.75  Aligned_cols=90  Identities=18%  Similarity=0.172  Sum_probs=47.9

Q ss_pred             ceEEEEEEecCCchHHHHH-HHHHcCccc----cccCc-eEEEEEeCCCCC-hHHHHHHHHHHhhc--------Cccccc
Q 036323          207 TVQIISMVGMGGIGKTTLA-QLAYNDNDV----INNFE-IRVRVCVSDPFD-EFNVAKATIEELEG--------SAIDLH  271 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa-~~v~~~~~~----~~~f~-~~~wv~~~~~~~-~~~~~~~il~~l~~--------~~~~~~  271 (583)
                      +..-++|.|.+|+|||+|| ..+.+....    .++-+ .++++-+.+... ..++.+.+...-..        ..+++.
T Consensus       161 rGQR~~I~g~~g~GKT~Lal~~I~~q~~~~~~~~~~~d~~~V~~~IGeR~~Ev~~~~~~~~~~g~m~~tvvV~atad~p~  240 (510)
T 2ck3_A          161 RGQRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAA  240 (510)
T ss_dssp             TTCBCEEEESTTSSHHHHHHHHHHHTHHHHTSCCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTCGGGEEEEEECTTSCH
T ss_pred             cCCEEEEecCCCCCchHHHHHHHHHHHhhccccccCCCeEEEEEECCCCcHHHHHHHHHHHhcCCcccceEEEECCCCCH
Confidence            3456789999999999995 566664321    01234 366777776543 33444444331100        011111


Q ss_pred             cHH----HHHHHHHHHh--cCCceeEEEcCC
Q 036323          272 ELN----SLLRRIGANI--AGQKFFMVLDNL  296 (583)
Q Consensus       272 ~~~----~~~~~l~~~l--~~k~~LlVlDdv  296 (583)
                      ...    ...-.+.+++  +++.+||++||+
T Consensus       241 ~~r~~a~~~a~tiAEyfrd~G~dVLli~Dsl  271 (510)
T 2ck3_A          241 PLQYLAPYSGCSMGEYFRDNGKHALIIYDDL  271 (510)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTTCEEEEEEETH
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCcEEEEEcCH
Confidence            111    1111233333  478999999998

>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=88.95  E-value=0.2  Score=45.54  Aligned_cols=25  Identities=24%  Similarity=0.385  Sum_probs=21.2

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..--|+|+|.+|+|||||...+...
T Consensus         7 ~~~ki~v~G~~~~GKSsli~~l~~~   31 (206)
T 2bcg_Y            7 YLFKLLLIGNSGVGKSCLLLRFSDD   31 (206)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHC
T ss_pred             cceEEEEECCCCCCHHHHHHHHhcC
Confidence            3456789999999999999998764

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=88.92  E-value=0.19  Score=47.25  Aligned_cols=40  Identities=25%  Similarity=0.156  Sum_probs=26.7

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVS  247 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~  247 (583)
                      ...++.|.|.+|+|||+||.+++.+. ....-..+++++..
T Consensus        29 ~G~l~~i~G~pG~GKT~l~l~~~~~~-~~~~~~~v~~~s~E   68 (251)
T 2zts_A           29 EGTTVLLTGGTGTGKTTFAAQFIYKG-AEEYGEPGVFVTLE   68 (251)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHHHH-HHHHCCCEEEEESS
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH-HHhcCCCceeeccc
Confidence            34588999999999999998876431 12222345555544

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=88.91  E-value=0.19  Score=45.50  Aligned_cols=24  Identities=17%  Similarity=0.301  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..-|+|+|.+|+|||||+..+...
T Consensus        28 ~~ki~v~G~~~~GKSsli~~l~~~   51 (199)
T 2p5s_A           28 AYKIVLAGDAAVGKSSFLMRLCKN   51 (199)
T ss_dssp             CEEEEEESSTTSSHHHHHHHHHHC
T ss_pred             CeEEEEECcCCCCHHHHHHHHHhC
Confidence            456789999999999999998764

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=88.91  E-value=0.29  Score=43.78  Aligned_cols=24  Identities=21%  Similarity=0.336  Sum_probs=20.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .--|+|+|.+|+|||||...+...
T Consensus        22 ~~ki~vvG~~~~GKSsli~~l~~~   45 (189)
T 2gf9_A           22 MFKLLLIGNSSVGKTSFLFRYADD   45 (189)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcC
Confidence            456889999999999999998764

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=88.88  E-value=0.2  Score=44.93  Aligned_cols=24  Identities=29%  Similarity=0.459  Sum_probs=20.6

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .--|+|+|.+|+|||||...+.+.
T Consensus        15 ~~~i~v~G~~~~GKssli~~l~~~   38 (195)
T 1x3s_A           15 TLKILIIGESGVGKSSLLLRFTDD   38 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcC
Confidence            346789999999999999998764

>3ch4_B Pmkase, phosphomevalonate kinase; parallel beta-sheet with the strand order 23145, walker A motif, cholesterol biosynthesis, lipid synthesis; 1.76A {Homo sapiens}

Probab=88.83  E-value=0.27  Score=44.72  Aligned_cols=25  Identities=12%  Similarity=0.141  Sum_probs=21.5

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ....+|+|+|++|+||+|+|..+.+
T Consensus         9 ~~~~II~itGk~~SGKd~va~~l~~   33 (202)
T 3ch4_B            9 APRLVLLFSGKRKSGKDFVTEALQS   33 (202)
T ss_dssp             CCSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCChHHHHHHHHH
Confidence            3567999999999999999988755

>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=88.83  E-value=0.21  Score=52.34  Aligned_cols=24  Identities=29%  Similarity=0.358  Sum_probs=21.2

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+|.++|++|+||||+++.+...
T Consensus        39 ~~~IvlvGlpGsGKSTia~~La~~   62 (469)
T 1bif_A           39 PTLIVMVGLPARGKTYISKKLTRY   62 (469)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHH
Confidence            468899999999999999998763

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=88.83  E-value=1.3  Score=56.40  Aligned_cols=137  Identities=16%  Similarity=0.119  Sum_probs=73.6

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCcccc-ccHHHHHHHHHHHh-cC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDL-HELNSLLRRIGANI-AG  286 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~-~~~~~~~~~l~~~l-~~  286 (583)
                      +-|.++|++|+|||+++..+...  .. .+ ..+.++++...+...++..+-..+....... ..       +-.-. .|
T Consensus      1305 ~pvLL~GptGtGKT~li~~~L~~--l~-~~-~~~~infS~~Tta~~l~~~~e~~~e~~~~~~~G~-------~~~p~~~G 1373 (3245)
T 3vkg_A         1305 RPLILCGPPGSGKTMTLTSTLRA--FP-DF-EVVSLNFSSATTPELLLKTFDHHCEYKRTPSGET-------VLRPTQLG 1373 (3245)
T ss_dssp             CCCEEESSTTSSHHHHHHHHGGG--CT-TE-EEEEECCCTTCCHHHHHHHHHHHEEEEECTTSCE-------EEEESSTT
T ss_pred             CcEEEECCCCCCHHHHHHHHHHh--CC-CC-ceEEEEeeCCCCHHHHHHHHhhcceEEeccCCCc-------ccCCCcCC
Confidence            35679999999999998877653  21 22 2456778887777666665543332111000 00       00001 27


Q ss_pred             CceeEEEcCCCcccccc------hHhhHHhhccC------------CCCceEEEecCchH------H-HhhhcCCCeEEc
Q 036323          287 QKFFMVLDNLWTDDYRK------WEPFRNCLMNG------------LRGSKILITTRKET------V-ARMMESTDIVYV  341 (583)
Q Consensus       287 k~~LlVlDdv~~~~~~~------~~~l~~~l~~~------------~~gs~IlvTtR~~~------v-~~~~~~~~~~~l  341 (583)
                      |+.++++||+.-...+.      .+.|+..+..+            ..+..+|.|...+.      + .+.......+.+
T Consensus      1374 k~~VlFiDDiNmp~~D~yGtQ~~ielLrqlld~~g~yd~~~~~~~~i~d~~~vaamnPp~~gGr~~l~~Rf~r~F~vi~i 1453 (3245)
T 3vkg_A         1374 KWLVVFCDEINLPSTDKYGTQRVITFIRQMVEKGGFWRTSDHTWIKLDKIQFVGACNPPTDAGRVQLTHRFLRHAPILLV 1453 (3245)
T ss_dssp             CEEEEEETTTTCCCCCTTSCCHHHHHHHHHHHHSEEEETTTTEEEEESSEEEEEEECCTTSTTCCCCCHHHHTTCCEEEC
T ss_pred             ceEEEEecccCCCCccccccccHHHHHHHHHHcCCeEECCCCeEEEecCeEEEEEcCCCCCCCCccCCHHHHhhceEEEe
Confidence            78899999995433321      22233332211            12333444432221      1 112233567888


Q ss_pred             CCCChHHHHHHHHHH
Q 036323          342 QGLSELECWSLFRRF  356 (583)
Q Consensus       342 ~~L~~~ea~~Lf~~~  356 (583)
                      ...+.++-..+|...
T Consensus      1454 ~~ps~esL~~If~ti 1468 (3245)
T 3vkg_A         1454 DFPSTSSLTQIYGTF 1468 (3245)
T ss_dssp             CCCCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            888888888877654

>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=88.82  E-value=0.29  Score=43.66  Aligned_cols=24  Identities=25%  Similarity=0.313  Sum_probs=20.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..-|+|+|.+|+|||||...+...
T Consensus        16 ~~~i~v~G~~~~GKssl~~~l~~~   39 (187)
T 1zj6_A           16 EHKVIIVGLDNAGKTTILYQFSMN   39 (187)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcC
Confidence            456789999999999999999854

>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=88.82  E-value=0.25  Score=47.37  Aligned_cols=24  Identities=25%  Similarity=0.383  Sum_probs=20.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...|+|+|.+|+|||||...+...
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            356899999999999999998764

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=88.81  E-value=0.28  Score=43.93  Aligned_cols=25  Identities=24%  Similarity=0.371  Sum_probs=21.5

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..--|+|+|.+|+|||||...+...
T Consensus        15 ~~~ki~v~G~~~~GKSsli~~l~~~   39 (196)
T 3tkl_A           15 YLFKLLLIGDSGVGKSCLLLRFADD   39 (196)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcC
Confidence            3456889999999999999998865

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=88.81  E-value=0.3  Score=43.81  Aligned_cols=24  Identities=21%  Similarity=0.297  Sum_probs=20.5

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .--|+|+|.+|+|||||...+...
T Consensus        21 ~~ki~v~G~~~~GKSsli~~l~~~   44 (191)
T 2a5j_A           21 LFKYIIIGDTGVGKSCLLLQFTDK   44 (191)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcC
Confidence            445789999999999999998764

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=88.80  E-value=0.25  Score=44.48  Aligned_cols=24  Identities=29%  Similarity=0.486  Sum_probs=20.0

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .--|+|+|.+|+|||||...+...
T Consensus        26 ~~ki~vvG~~~~GKSsLi~~l~~~   49 (192)
T 2il1_A           26 KLQVIIIGSRGVGKTSLMERFTDD   49 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHCC-
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcC
Confidence            445789999999999999998764

>1fx0_A ATP synthase alpha chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_A*

Probab=88.79  E-value=0.3  Score=50.81  Aligned_cols=40  Identities=25%  Similarity=0.230  Sum_probs=27.5

Q ss_pred             ceEEEEEEecCCchHHHHH-HHHHcCccccccCc-eEEEEEeCCCC
Q 036323          207 TVQIISMVGMGGIGKTTLA-QLAYNDNDVINNFE-IRVRVCVSDPF  250 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa-~~v~~~~~~~~~f~-~~~wv~~~~~~  250 (583)
                      +..-++|.|.+|+|||+|| ..+.+..    .-+ .++++-+.+..
T Consensus       162 rGQR~~Ifg~~g~GKT~Lal~~I~~~~----~~dv~~V~~~iGeR~  203 (507)
T 1fx0_A          162 RGQRELIIGDRQTGKTAVATDTILNQQ----GQNVICVYVAIGQKA  203 (507)
T ss_dssp             TTCBCBEEESSSSSHHHHHHHHHHTCC----TTTCEEEEEEESCCH
T ss_pred             cCCEEEEecCCCCCccHHHHHHHHHhh----cCCcEEEEEEcCCCc
Confidence            3456789999999999996 5777742    234 34666666653

>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=88.74  E-value=0.22  Score=44.78  Aligned_cols=24  Identities=38%  Similarity=0.421  Sum_probs=20.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .--|+|+|.+|+|||||+..+.+.
T Consensus        18 ~~ki~v~G~~~~GKssli~~l~~~   41 (194)
T 2atx_A           18 MLKCVVVGDGAVGKTCLLMSYAND   41 (194)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            446789999999999999998864

>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=88.72  E-value=0.22  Score=45.49  Aligned_cols=24  Identities=33%  Similarity=0.412  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..-|+|+|.+|+|||||...+...
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~~~   48 (207)
T 2fv8_A           25 RKKLVVVGDGACGKTCLLIVFSKD   48 (207)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             CcEEEEECcCCCCHHHHHHHHhcC
Confidence            346789999999999999998764

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=88.65  E-value=0.77  Score=54.45  Aligned_cols=23  Identities=35%  Similarity=0.507  Sum_probs=20.6

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...|+|+|..|+|||||++.+++
T Consensus      1105 Ge~vaIVG~SGsGKSTL~~lL~r 1127 (1321)
T 4f4c_A         1105 GQTLALVGPSGCGKSTVVALLER 1127 (1321)
T ss_dssp             TCEEEEECSTTSSTTSHHHHHTT
T ss_pred             CCEEEEECCCCChHHHHHHHHhc
Confidence            45799999999999999999876

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=88.64  E-value=0.27  Score=43.93  Aligned_cols=25  Identities=24%  Similarity=0.296  Sum_probs=21.1

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...-|+|+|.+|+|||||...+...
T Consensus        19 ~~~ki~v~G~~~~GKSsli~~l~~~   43 (189)
T 1z06_A           19 RIFKIIVIGDSNVGKTCLTYRFCAG   43 (189)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHcC
Confidence            3456889999999999999998754

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=88.63  E-value=0.28  Score=44.10  Aligned_cols=24  Identities=25%  Similarity=0.412  Sum_probs=20.4

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .--|+|+|.+|+|||||...+...
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            345789999999999999998764

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=88.60  E-value=0.2  Score=46.21  Aligned_cols=26  Identities=23%  Similarity=0.327  Sum_probs=22.0

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDN  232 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~  232 (583)
                      ....|+|+|.+|+|||||...+....
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            34577899999999999999998753

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=88.58  E-value=0.22  Score=45.49  Aligned_cols=24  Identities=25%  Similarity=0.274  Sum_probs=20.5

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .--|+|+|.+|+|||||+..+.+.
T Consensus         9 ~~ki~i~G~~~~GKTsli~~l~~~   32 (212)
T 2j0v_A            9 FIKCVTVGDGAVGKTCMLICYTSN   32 (212)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            446789999999999999988764

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=88.57  E-value=0.19  Score=50.53  Aligned_cols=23  Identities=35%  Similarity=0.551  Sum_probs=20.8

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .+++|+|+.|+|||||++.+...
T Consensus       176 ~~i~ivG~sGsGKSTll~~l~~~  198 (361)
T 2gza_A          176 RVIVVAGETGSGKTTLMKALMQE  198 (361)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHhc
Confidence            48999999999999999999873

>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=88.48  E-value=0.23  Score=45.06  Aligned_cols=24  Identities=33%  Similarity=0.425  Sum_probs=20.6

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..-|+|+|.+|+|||||...+...
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~~~   48 (201)
T 2gco_A           25 RKKLVIVGDGACGKTCLLIVFSKD   48 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            346789999999999999998764

>3vr4_A V-type sodium ATPase catalytic subunit A; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_A* 3vr2_A* 3vr5_A 3vr6_A*

Probab=88.44  E-value=0.49  Score=49.85  Aligned_cols=49  Identities=14%  Similarity=0.128  Sum_probs=34.8

Q ss_pred             HHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCC
Q 036323          191 SIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDP  249 (583)
Q Consensus       191 ~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~  249 (583)
                      +.++.|..-      .+..-++|.|..|+|||+|+..+.+..    +-+.++++-+.+.
T Consensus       221 rvID~l~Pi------grGqr~~Ifgg~g~GKT~L~~~ia~~~----~~~v~V~~~iGER  269 (600)
T 3vr4_A          221 RVIDTFFPV------TKGGAAAVPGPFGAGKTVVQHQIAKWS----DVDLVVYVGCGER  269 (600)
T ss_dssp             HHHHHHSCC------BTTCEEEEECCTTSCHHHHHHHHHHHS----SCSEEEEEEEEEC
T ss_pred             hhhhccCCc------cCCCEEeeecCCCccHHHHHHHHHhcc----CCCEEEEEEeccc
Confidence            455666433      345578899999999999999998742    2356777777655

>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=88.42  E-value=0.18  Score=45.21  Aligned_cols=24  Identities=21%  Similarity=0.225  Sum_probs=20.4

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .--|+|+|.+|+|||||...+...
T Consensus        21 ~~ki~v~G~~~~GKSsli~~l~~~   44 (190)
T 2h57_A           21 EVHVLCLGLDNSGKTTIINKLKPS   44 (190)
T ss_dssp             CEEEEEEECTTSSHHHHHHHTSCG
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcC
Confidence            345789999999999999998764

>3b1v_A Ferrous iron uptake transporter protein B; G protein, iron transport, GTPase, transmembrane, potassium; HET: GGM; 1.85A {Streptococcus thermophilus} PDB: 3b1w_A* 3lx5_A* 3lx8_A* 3ss8_A* 3b1z_A 3b1y_A* 3b1x_A* 3tah_A*

Probab=88.35  E-value=0.31  Score=46.85  Aligned_cols=24  Identities=29%  Similarity=0.412  Sum_probs=21.0

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...|+|+|.+|+|||||...+...
T Consensus         3 ~~kI~lvG~~nvGKSTL~n~L~g~   26 (272)
T 3b1v_A            3 MTEIALIGNPNSGKTSLFNLITGH   26 (272)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHCC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHCC
Confidence            356889999999999999999864

>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=88.25  E-value=0.32  Score=44.17  Aligned_cols=25  Identities=24%  Similarity=0.280  Sum_probs=21.3

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..--|+|+|.+|+|||||+..+...
T Consensus        28 ~~~ki~vvG~~~vGKSsli~~l~~~   52 (201)
T 2hup_A           28 FLFKLVLVGDASVGKTCVVQRFKTG   52 (201)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECcCCCCHHHHHHHHhhC
Confidence            3556889999999999999998764

>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=88.25  E-value=0.14  Score=45.45  Aligned_cols=25  Identities=24%  Similarity=0.328  Sum_probs=10.7

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..--|+|+|.+|+|||||+..+.+.
T Consensus         7 ~~~ki~v~G~~~~GKssl~~~l~~~   31 (183)
T 2fu5_C            7 YLFKLLLIGDSGVGKTCVLFRFSED   31 (183)
T ss_dssp             EEEEEEEECCCCC------------
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhC
Confidence            3456889999999999999888754

>3thx_A DNA mismatch repair protein MSH2; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 2o8c_A* 2o8d_A* 2o8f_A* 3thw_A* 2o8b_A* 3thy_A* 3thz_A* 2o8e_A*

Probab=88.23  E-value=1.2  Score=50.32  Aligned_cols=22  Identities=18%  Similarity=0.111  Sum_probs=19.9

Q ss_pred             ceEEEEEEecCCchHHHHHHHH
Q 036323          207 TVQIISMVGMGGIGKTTLAQLA  228 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v  228 (583)
                      ...+++|+|+.|.||||+.+.+
T Consensus       661 ~g~i~~ItGpNGsGKSTlLr~i  682 (934)
T 3thx_A          661 KQMFHIITGPNMGGKSTYIRQT  682 (934)
T ss_dssp             TBCEEEEECCTTSSHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHH
Confidence            3578999999999999999988

>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=88.11  E-value=0.25  Score=49.49  Aligned_cols=23  Identities=26%  Similarity=0.430  Sum_probs=20.7

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .+++|+|.+|+|||||.+.+...
T Consensus       216 ~~~~lvG~sG~GKSTLln~L~g~  238 (358)
T 2rcn_A          216 RISIFAGQSGVGKSSLLNALLGL  238 (358)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHCC
T ss_pred             CEEEEECCCCccHHHHHHHHhcc
Confidence            37899999999999999999873

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=88.06  E-value=0.26  Score=44.97  Aligned_cols=23  Identities=22%  Similarity=0.124  Sum_probs=21.1

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .+|.|.|+.|+||||+++.+...
T Consensus         7 ~iI~i~g~~GsGk~ti~~~la~~   29 (201)
T 3fdi_A            7 IIIAIGREFGSGGHLVAKKLAEH   29 (201)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHH
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHH
Confidence            58999999999999999999873

>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=88.04  E-value=0.24  Score=45.57  Aligned_cols=23  Identities=30%  Similarity=0.332  Sum_probs=19.9

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      --|+|+|.+|+|||||...+...
T Consensus        28 ~ki~vvG~~~vGKSsL~~~l~~~   50 (214)
T 3q3j_B           28 CKLVLVGDVQCGKTAMLQVLAKD   50 (214)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECcCCCCHHHHHHHHhcC
Confidence            45679999999999999998764

>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=88.04  E-value=0.25  Score=45.28  Aligned_cols=25  Identities=24%  Similarity=0.313  Sum_probs=21.2

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..--|+|+|.+|+|||||...+...
T Consensus        24 ~~~ki~vvG~~~~GKSsLi~~l~~~   48 (217)
T 2f7s_A           24 YLIKLLALGDSGVGKTTFLYRYTDN   48 (217)
T ss_dssp             EEEEEEEESCTTSSHHHHHHHHHCS
T ss_pred             eeEEEEEECcCCCCHHHHHHHHhcC
Confidence            3456789999999999999998864

>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=87.97  E-value=0.34  Score=47.38  Aligned_cols=25  Identities=24%  Similarity=0.333  Sum_probs=21.8

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ....|+|+|.+|+|||||...+...
T Consensus         6 ~~g~V~ivG~~nvGKSTLln~l~g~   30 (301)
T 1wf3_A            6 YSGFVAIVGKPNVGKSTLLNNLLGV   30 (301)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4567999999999999999998764

>2orv_A Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2'deoxythymidil))tetraphosphate, transferase; HET: 4TA; 2.30A {Homo sapiens} SCOP: c.37.1.24 g.39.1.14

Probab=87.91  E-value=0.86  Score=42.29  Aligned_cols=107  Identities=14%  Similarity=0.053  Sum_probs=51.6

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCC-CCChHHHHHHHHHHhhcCcc--ccccHHHHHHHHHHH
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSD-PFDEFNVAKATIEELEGSAI--DLHELNSLLRRIGAN  283 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~il~~l~~~~~--~~~~~~~~~~~l~~~  283 (583)
                      ...+..++|.-|.||||-+.....+.. .......++-..-+ ... .    .+.+.++....  ...+..++...+   
T Consensus        18 ~g~l~v~~G~MgsGKTT~lL~~~~r~~-~~g~kvli~kp~~D~Ryg-~----~i~sr~G~~~~a~~i~~~~di~~~~---   88 (234)
T 2orv_A           18 RGQIQVILGPMFSGKSTELMRRVRRFQ-IAQYKCLVIKYAKDTRYS-S----SFCTHDRNTMEALPACLLRDVAQEA---   88 (234)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHHH-TTTCCEEEEEETTCCCC----------------CEEEEESSGGGGHHHH---
T ss_pred             ceEEEEEECCCCCcHHHHHHHHHHHHH-HCCCeEEEEeecCCccch-H----HHHhhcCCeeEEEecCCHHHHHHHh---
Confidence            356889999999999977755544221 22233333332221 122 2    34444432211  011112222222   


Q ss_pred             hcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCchH
Q 036323          284 IAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKET  328 (583)
Q Consensus       284 l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~~  328 (583)
                        ++--+|++|.+.--.  ...++...+..  .|..||+|.++.+
T Consensus        89 --~~~dvViIDEaQF~~--~v~el~~~l~~--~gi~VI~~GL~~D  127 (234)
T 2orv_A           89 --LGVAVIGIDEGQFFP--DIVEFCEAMAN--AGKTVIVAALDGT  127 (234)
T ss_dssp             --TTCSEEEESSGGGCT--THHHHHHHHHH--TTCEEEEECCSBC
T ss_pred             --ccCCEEEEEchhhhh--hHHHHHHHHHh--CCCEEEEEecccc
Confidence              233499999985432  24445554544  5778999998743

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=87.89  E-value=0.42  Score=52.16  Aligned_cols=62  Identities=18%  Similarity=0.190  Sum_probs=35.6

Q ss_pred             hHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHH
Q 036323          187 EEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATI  260 (583)
Q Consensus       187 ~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il  260 (583)
                      ...+.+...|...         .+..|+|+||+|||+.+.++... .+..  ...+.++......+..++..+.
T Consensus       193 ~Q~~AV~~al~~~---------~~~lI~GPPGTGKT~ti~~~I~~-l~~~--~~~ILv~a~TN~AvD~i~erL~  254 (646)
T 4b3f_X          193 SQKEAVLFALSQK---------ELAIIHGPPGTGKTTTVVEIILQ-AVKQ--GLKVLCCAPSNIAVDNLVERLA  254 (646)
T ss_dssp             HHHHHHHHHHHCS---------SEEEEECCTTSCHHHHHHHHHHH-HHHT--TCCEEEEESSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCC---------CceEEECCCCCCHHHHHHHHHHH-HHhC--CCeEEEEcCchHHHHHHHHHHH
Confidence            4556666666432         26789999999999655443321 1222  2356666655545555555543

---

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	583
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	6e-46

>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 =  161 bits (407), Expect = 6e-46
 Identities = 39/283 (13%), Positives = 79/283 (27%), Gaps = 32/283 (11%)

Query: 173 STSLIDVSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDN 232
             ++        R+  +  +   L              + + G  G GK+ +A  A + +
Sbjct: 13  LGNVPKQMTCYIREYHVDRVIKKLDEMCDLD----SFFLFLHGRAGSGKSVIASQALSKS 68

Query: 233 DVI--NNFEIRVRVCVSDPFDEFNVAKATIEELE----------GSAIDLHELNSLLRRI 280
           D +   N++  V +  S    +      T   L            S   +  +       
Sbjct: 69  DQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMIC 128

Query: 281 GANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKETVARMMESTDIVY 340
            A I       V D++  ++  +W              + L+TTR   ++     T    
Sbjct: 129 NALIDRPNTLFVFDDVVQEETIRWAQE--------LRLRCLVTTRDVEISNAASQTCEFI 180

Query: 341 -VQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKRT 399
            V  L   EC+     + +      + +    +    +    G P             +T
Sbjct: 181 EVTSLEIDECYDFLEAYGMPMPVGEKEED---VLNKTIELSSGNPATLMMFFKSC-EPKT 236

Query: 400 KEEWQSALDSEMWQLEEFEGGLSAPLFLSYNDLPFEIKRCFSY 442
            E+     +           G+      SY  L   ++RC   
Sbjct: 237 FEKMAQLNN---KLESRGLVGVECITPYSYKSLAMALQRCVEV 276

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	583
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	100.0
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	99.36
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.94
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	98.91
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	98.9
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	98.83
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	98.8
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.77
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	98.75
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.73
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	98.62
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	98.52
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.52
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.5
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	98.39
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	98.38
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.35
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	98.25
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.23
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	98.17
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	98.06
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.78
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	97.72
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	97.58
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.44
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.26
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	97.05
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	96.67
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	96.67
d2qy9a2	211	GTPase domain of the signal recognition particle r	96.67
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	96.64
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	96.63
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	96.59
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.55
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	96.52
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	96.49
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	96.49
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	96.44
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	96.41
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	96.41
d2awna2	232	Maltose transport protein MalK, N-terminal domain	96.38
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	96.37
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.34
d1vmaa2	213	GTPase domain of the signal recognition particle r	96.34
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	96.29
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	96.28
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	96.26
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	96.24
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	96.19
d1g2912	240	Maltose transport protein MalK, N-terminal domain	96.18
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.18
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	96.13
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	96.13
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	96.12
d1okkd2	207	GTPase domain of the signal recognition particle r	96.12
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.12
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.12
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.11
d1ls1a2	207	GTPase domain of the signal sequence recognition p	96.1
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	96.07
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	96.05
d1j8yf2	211	GTPase domain of the signal sequence recognition p	96.03
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	96.03
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	95.95
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	95.92
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	95.84
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	95.82
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	95.81
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	95.79
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	95.79
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	95.76
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	95.75
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	95.74
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	95.71
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	95.69
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	95.54
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	95.54
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	95.52
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	95.51
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	95.49
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	95.39
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	95.31
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	95.31
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	95.23
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	95.2
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	95.19
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	95.19
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	95.14
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	95.12
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	95.06
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	94.96
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	94.9
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	94.9
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	94.89
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	94.74
d1xpua3	289	Transcription termination factor Rho, ATPase domai	94.67
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	94.66
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	94.62
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	94.59
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	94.5
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	94.49
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	94.48
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	94.45
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	94.44
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	94.42
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	94.35
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	94.33
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	94.19
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	94.17
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	94.17
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	93.81
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	93.75
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	93.74
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	93.64
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	93.5
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	93.42
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	93.42
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	93.41
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	93.37
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	93.37
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	93.2
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	93.13
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	92.94
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	92.92
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	92.83
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	92.73
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	92.72
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	92.71
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	92.64
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	92.61
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	92.51
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	92.41
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	92.39
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	92.37
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	92.36
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	92.32
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	92.27
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	92.27
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	92.26
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	92.25
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	92.24
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	92.16
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	92.13
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	92.13
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	92.12
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	92.09
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	92.07
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	92.07
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	92.07
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	92.07
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	92.03
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	92.02
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	92.02
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	91.96
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	91.87
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	91.85
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	91.82
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	91.82
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	91.81
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	91.76
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	91.75
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	91.72
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	91.68
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	91.65
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	91.62
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	91.59
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	91.58
d1nrjb_	209	Signal recognition particle receptor beta-subunit	91.53
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	91.45
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	91.44
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	91.44
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	91.41
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	91.37
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	91.31
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	91.26
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	91.26
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	91.21
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	91.14
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	91.09
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	91.03
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	91.01
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	90.97
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	90.93
d2fh5b1	207	Signal recognition particle receptor beta-subunit	90.88
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	90.84
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	90.82
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	90.79
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	90.75
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	90.73
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	90.68
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	90.63
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	90.58
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	90.55
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	90.54
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	90.45
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	90.45
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	90.44
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	90.43
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	90.4
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	90.34
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	90.32
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	90.24
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	90.01
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	89.69
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	89.66
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	89.65
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	89.65
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	89.64
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	89.28
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	89.28
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	89.23
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	88.98
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	88.55
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	88.28
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	88.14
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	87.91
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	87.82
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	87.34
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	87.12
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	86.92
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	86.33
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	86.18
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	86.05
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	85.12
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	84.6
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	84.6
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	84.51
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	84.0
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	83.86
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	83.38
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	83.09
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	83.08
d1tuea_	205	Replication protein E1 helicase domain {Human papi	82.93
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	82.01
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	81.42
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	81.19
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	80.7

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=100.00  E-value=3.1e-40  Score=324.72  Aligned_cols=247  Identities=15%  Similarity=0.114  Sum_probs=194.1

Q ss_pred             cCCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCcc--ccccCceEEEEEeCCCCChHHH
Q 036323          178 DVSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDND--VINNFEIRVRVCVSDPFDEFNV  255 (583)
Q Consensus       178 ~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~--~~~~f~~~~wv~~~~~~~~~~~  255 (583)
                      ..+.++||+.++++|+++|....    +...++|+|+||||+||||||+++|++..  ...+|++++|+++++.++...+
T Consensus        18 ~~~~~~gR~~~~~~i~~~L~~~~----~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l   93 (277)
T d2a5yb3          18 KQMTCYIREYHVDRVIKKLDEMC----DLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTF   93 (277)
T ss_dssp             CCCCSCCCHHHHHHHHHHHHHHT----TSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHH
T ss_pred             CCCceeCcHHHHHHHHHHHHhcc----CCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHHHH
Confidence            45668999999999999997543    34578999999999999999999998633  6678999999999998887777


Q ss_pred             HHHHHHHhh---cCcc-------ccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecC
Q 036323          256 AKATIEELE---GSAI-------DLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTR  325 (583)
Q Consensus       256 ~~~il~~l~---~~~~-------~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR  325 (583)
                      ...+...+.   ....       ...........+.+.+.++++|+||||+|+..  .|..+.      ..||+||||||
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~~--~~~~~~------~~~srilvTTR  165 (277)
T d2a5yb3          94 DLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEE--TIRWAQ------ELRLRCLVTTR  165 (277)
T ss_dssp             HHHHHHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHH--HHHHHH------HTTCEEEEEES
T ss_pred             HHHHHHHHHHhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEecchhhHHh--hhhhhc------ccCceEEEEee
Confidence            666544432   2110       11223334456778889999999999999754  444332      24899999999


Q ss_pred             chHHHhhhcC-CCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhhhhhhhccCCCHHHHH
Q 036323          326 KETVARMMES-TDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTKEEWQ  404 (583)
Q Consensus       326 ~~~v~~~~~~-~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~~~~~L~~~~~~~~w~  404 (583)
                      +..++..+.. .+.|+|++|+.+||++||.++++...   ..+..++++++|+++|+|+||||+++|+.|+.+ +.++|.
T Consensus       166 ~~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~---~~~~~~~~~~~iv~~c~GlPLAl~~ig~~l~~k-~~~~~~  241 (277)
T d2a5yb3         166 DVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMP---VGEKEEDVLNKTIELSSGNPATLMMFFKSCEPK-TFEKMA  241 (277)
T ss_dssp             BGGGGGGCCSCEEEEECCCCCHHHHHHHHHHTSCCCC-----CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSS-SHHHHH
T ss_pred             hHHHHHhcCCCCceEECCCCCHHHHHHHHHHHhCCcc---CchhhHHHHHHHHHHhCCCHHHHHHHHHHhccC-CHHHHH
Confidence            9999887655 36799999999999999999887542   334568889999999999999999999999766 678888


Q ss_pred             HHHhhhccccccccCCCcchhhccccCChHHhHHHHhhh
Q 036323          405 SALDSEMWQLEEFEGGLSAPLFLSYNDLPFEIKRCFSYC  443 (583)
Q Consensus       405 ~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~~~k~cf~~l  443 (583)
                      +..+.+..   .....+..++.+||++||+++|.||.++
T Consensus       242 ~~~~~L~~---~~~~~v~~il~~sY~~L~~~lk~c~~~l  277 (277)
T d2a5yb3         242 QLNNKLES---RGLVGVECITPYSYKSLAMALQRCVEVL  277 (277)
T ss_dssp             HHHHHHHH---HCSSTTCCCSSSSSSSHHHHHHHHHHTS
T ss_pred             HHHHHHhc---CcHHHHHHHHHHHHhcccHHHHHHHHhC
Confidence            76655421   2346799999999999999999999875

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=99.36  E-value=2.2e-12  Score=124.68  Aligned_cols=201  Identities=13%  Similarity=0.133  Sum_probs=116.4

Q ss_pred             ccCCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCC-----CCC
Q 036323          177 IDVSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSD-----PFD  251 (583)
Q Consensus       177 ~~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-----~~~  251 (583)
                      .....||||++++++|.+..           .+++.|+|++|+|||+|++++.+.  ....   ..|+.+..     ...
T Consensus         9 ~~~~~f~GR~~el~~l~~~~-----------~~~i~i~G~~G~GKTsLl~~~~~~--~~~~---~~~i~~~~~~~~~~~~   72 (283)
T d2fnaa2           9 DNRKDFFDREKEIEKLKGLR-----------APITLVLGLRRTGKSSIIKIGINE--LNLP---YIYLDLRKFEERNYIS   72 (283)
T ss_dssp             CSGGGSCCCHHHHHHHHHTC-----------SSEEEEEESTTSSHHHHHHHHHHH--HTCC---EEEEEGGGGTTCSCCC
T ss_pred             CChhhCCChHHHHHHHHhcc-----------CCEEEEEcCCCCcHHHHHHHHHHH--CCCC---eEEEEecccccccccc
Confidence            35689999999999987631           357889999999999999999873  2222   34454321     222


Q ss_pred             hHHHHHHHHHHhhcC-----------------------------ccccccHHHHHHHHHHHhcCCceeEEEcCCCccccc
Q 036323          252 EFNVAKATIEELEGS-----------------------------AIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYR  302 (583)
Q Consensus       252 ~~~~~~~il~~l~~~-----------------------------~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~  302 (583)
                      ...+...+.......                             .........+...+.+ ..++++++|+|++..-...
T Consensus        73 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~-~~~~~~~i~id~~~~~~~~  151 (283)
T d2fnaa2          73 YKDFLLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQ-ASKDNVIIVLDEAQELVKL  151 (283)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHH-TCSSCEEEEEETGGGGGGC
T ss_pred             HHHHHHHHHHHhhhhhhhhHHHHHHHHhhhcccccccccccccchhhhhHHHHHHHHHHh-hcccccccccchhhhhccc
Confidence            333333333222100                             0011223344444332 3578899999998432111


Q ss_pred             ---c-hHhhHHhhccCCCCceEEEecCchHHHhhhc------------CCCeEEcCCCChHHHHHHHHHHhccCCCCCCC
Q 036323          303 ---K-WEPFRNCLMNGLRGSKILITTRKETVARMME------------STDIVYVQGLSELECWSLFRRFALSGRTPSEC  366 (583)
Q Consensus       303 ---~-~~~l~~~l~~~~~gs~IlvTtR~~~v~~~~~------------~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~  366 (583)
                         . +..+..... .......+++++.........            ....+.|.+|+.+++.+++.+.......  ..
T Consensus       152 ~~~~~~~~l~~~~~-~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~~~l~~~~~~~~~--~~  228 (283)
T d2fnaa2         152 RGVNLLPALAYAYD-NLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADI--DF  228 (283)
T ss_dssp             TTCCCHHHHHHHHH-HCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTC--CC
T ss_pred             chHHHHHHHHHHHH-hhhhhhhhhccccchHHHHHHHhhhhcchhcccceeEEeeCCCCHHHHHHHHHhhhhhcCC--CH
Confidence               1 222222222 223444555544433222110            1356889999999999999876532221  11


Q ss_pred             chHHHHHHHHhhhCCCCccchhhhhhhhccCCCHH
Q 036323          367 DQLEGIGRGIVRKCKGLPLAAKTIGSLLQFKRTKE  401 (583)
Q Consensus       367 ~~~~~~~~~I~~~c~GlPLai~~~~~~L~~~~~~~  401 (583)
                      +.    ..+|++.++|+|..+..++..+......+
T Consensus       229 ~~----~~~i~~~~~G~P~~L~~~~~~~~~~~~~~  259 (283)
T d2fnaa2         229 KD----YEVVYEKIGGIPGWLTYFGFIYLDNKNLD  259 (283)
T ss_dssp             CC----HHHHHHHHCSCHHHHHHHHHHHHHHCCHH
T ss_pred             HH----HHHHHHHhCCCHHHHHHHHHHHHhcccHH
Confidence            11    45799999999999999988775554443

>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=98.94  E-value=2.2e-08  Score=95.53  Aligned_cols=178  Identities=11%  Similarity=0.046  Sum_probs=108.9

Q ss_pred             cCCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHH
Q 036323          178 DVSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAK  257 (583)
Q Consensus       178 ~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  257 (583)
                      .+..++||+.++++|.++|...- .......+.+.|+|++|+|||++|+.+++....... ...+|+...........+.
T Consensus        14 ~p~~l~~Re~ei~~l~~~l~~~l-~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~-~~~~~~~~~~~~~~~~~~~   91 (276)
T d1fnna2          14 VPKRLPHREQQLQQLDILLGNWL-RNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTT-ARFVYINGFIYRNFTAIIG   91 (276)
T ss_dssp             CCSCCTTCHHHHHHHHHHHHHHH-HSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCC-CEEEEEETTTCCSHHHHHH
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHH-hCCCCCCCceEEECCCCCCHHHHHHHHHHHHhcccC-CcEEEecchhhhhhhhhhh
Confidence            45578999999999999986420 001245678899999999999999999884322222 2346777777777888888


Q ss_pred             HHHHHhhcCccc-cccHHHHHHHHHHHhc--CCceeEEEcCCCcccccchHhhHHhh---cc-CCCCceEEEecCchHHH
Q 036323          258 ATIEELEGSAID-LHELNSLLRRIGANIA--GQKFFMVLDNLWTDDYRKWEPFRNCL---MN-GLRGSKILITTRKETVA  330 (583)
Q Consensus       258 ~il~~l~~~~~~-~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~~~~~~~l~~~l---~~-~~~gs~IlvTtR~~~v~  330 (583)
                      .+.......... ......+...+.+.+.  ....++++|+++.........+...+   .. ......+|.++......
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~  171 (276)
T d1fnna2          92 EIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVL  171 (276)
T ss_dssp             HHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHH
T ss_pred             hhHHhhhhhhhhhccchhHHHHHHHHHHhhcccccccchhHHHHhhhhhhhhHHHHHhccccccccceEEeecCCchhhh
Confidence            888877655332 3334444454544443  34567777777543322222222111   11 22334455555543322


Q ss_pred             hhh-------cCCCeEEcCCCChHHHHHHHHHHh
Q 036323          331 RMM-------ESTDIVYVQGLSELECWSLFRRFA  357 (583)
Q Consensus       331 ~~~-------~~~~~~~l~~L~~~ea~~Lf~~~a  357 (583)
                      ..+       .....+.+.+++.++.++++.+.+
T Consensus       172 ~~~~~~~~~r~~~~~i~~~~~~~~e~~~il~~r~  205 (276)
T d1fnna2         172 NNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRA  205 (276)
T ss_dssp             HTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHH
T ss_pred             hhcchhhhhhhcchhccccchhHHHHHHHHHHHH
Confidence            211       123568899999999999998765

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.91  E-value=3.2e-09  Score=98.77  Aligned_cols=183  Identities=13%  Similarity=0.066  Sum_probs=113.0

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      -.+++|.++.++.|..++....       ...+.++|++|+||||+|+.+++.......-...+-++.+.......+...
T Consensus        14 ~~d~ig~~~~~~~L~~~~~~~~-------~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~~~~~~~~~i~~~   86 (224)
T d1sxjb2          14 LSDIVGNKETIDRLQQIAKDGN-------MPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGIDVVRNQ   86 (224)
T ss_dssp             GGGCCSCTHHHHHHHHHHHSCC-------CCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSHHHHHTH
T ss_pred             HHHhcCCHHHHHHHHHHHHcCC-------CCeEEEECCCCCCchhhHHHHHHHHhccccccccccccccccCCceehhhH
Confidence            4578999999999999996543       334779999999999999988764211111111233344433333322222


Q ss_pred             HHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCch-HHHhhh-cCC
Q 036323          259 TIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKE-TVARMM-EST  336 (583)
Q Consensus       259 il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~-~v~~~~-~~~  336 (583)
                      +.........              ...++.-++|+|++..........++..+......+++++||.+. .+...+ ...
T Consensus        87 ~~~~~~~~~~--------------~~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~sr~  152 (224)
T d1sxjb2          87 IKHFAQKKLH--------------LPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQC  152 (224)
T ss_dssp             HHHHHHBCCC--------------CCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTS
T ss_pred             HHHHHHhhcc--------------CCCcceEEEEEecccccchhHHHHHhhhccccccceeeeeccCchhhhhhHHHHHH
Confidence            2111111100              012345689999997655555556666666666667776666543 332222 336


Q ss_pred             CeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccc
Q 036323          337 DIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLA  386 (583)
Q Consensus       337 ~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLa  386 (583)
                      ..+.+.+++.++-..++...+......-+    .+....|++.|+|.+.-
T Consensus       153 ~~i~~~~~~~~~i~~~l~~i~~~e~~~i~----~~~l~~I~~~s~Gd~R~  198 (224)
T d1sxjb2         153 AILRYSKLSDEDVLKRLLQIIKLEDVKYT----NDGLEAIIFTAEGDMRQ  198 (224)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHHHHTCCBC----HHHHHHHHHHHTTCHHH
T ss_pred             HHhhhcccchhhhHHHHHHHHHhcccCCC----HHHHHHHHHHcCCcHHH
Confidence            78999999999999999887754332222    45578899999997753

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.90  E-value=6.3e-09  Score=96.85  Aligned_cols=180  Identities=11%  Similarity=0.061  Sum_probs=110.4

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      -.+++|.++.++.|..++....       .+.+.++|++|+||||+|+.+++............-.+.+...........
T Consensus        13 ~~divg~~~~~~~L~~~i~~~~-------~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~~~~~~~~~~~~~~   85 (227)
T d1sxjc2          13 LDEVYGQNEVITTVRKFVDEGK-------LPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGIDVVRNQ   85 (227)
T ss_dssp             GGGCCSCHHHHHHHHHHHHTTC-------CCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSHHHHHTH
T ss_pred             HHHccCcHHHHHHHHHHHHcCC-------CCeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEecccccCCeeeeecc
Confidence            3569999999999999996543       334679999999999999999874211111111222222322222211111


Q ss_pred             HHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCch-HHHhh-hcCC
Q 036323          259 TIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKE-TVARM-MEST  336 (583)
Q Consensus       259 il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~-~v~~~-~~~~  336 (583)
                      ........               ....++.-++|+|++..........+...+......+.++++|... .+... ....
T Consensus        86 ~~~~~~~~---------------~~~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr~  150 (227)
T d1sxjc2          86 IKDFASTR---------------QIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQC  150 (227)
T ss_dssp             HHHHHHBC---------------CSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTS
T ss_pred             hhhccccc---------------cccCCCeEEEEEeccccchhhHHHHHHHHhhhcccceeeccccCcHHHhHHHHHHHH
Confidence            11111000               0112344589999996655455556777776666777787777653 22222 2336


Q ss_pred             CeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCc
Q 036323          337 DIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLP  384 (583)
Q Consensus       337 ~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlP  384 (583)
                      ..+.+.+++.++-..++.+.+...+..-+    .+..+.|++.++|..
T Consensus       151 ~~i~~~~~~~~~i~~~l~~I~~~e~i~i~----~~~l~~i~~~s~Gd~  194 (227)
T d1sxjc2         151 TRFRFQPLPQEAIERRIANVLVHEKLKLS----PNAEKALIELSNGDM  194 (227)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHHTTTCCBC----HHHHHHHHHHHTTCH
T ss_pred             hhhccccccccccccccccccccccccCC----HHHHHHHHHHcCCcH
Confidence            78899999999999999887754432222    455678999999864

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.83  E-value=8.7e-09  Score=96.43  Aligned_cols=190  Identities=11%  Similarity=0.062  Sum_probs=112.3

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccc-cCceEEEEEeCCCCChHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVIN-NFEIRVRVCVSDPFDEFNVAK  257 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~-~f~~~~wv~~~~~~~~~~~~~  257 (583)
                      -.+++|.++.++.|..++....       .+.+.++|++|+||||+|+.+++...... .......++.+..........
T Consensus        11 ~~diig~~~~~~~l~~~i~~~~-------~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (237)
T d1sxjd2          11 LDEVTAQDHAVTVLKKTLKSAN-------LPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVRE   83 (237)
T ss_dssp             TTTCCSCCTTHHHHHHHTTCTT-------CCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTT
T ss_pred             HHHccCcHHHHHHHHHHHHcCC-------CCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheeccccccchHHHH
Confidence            4568999999999999985433       34478999999999999999987421111 122233444444444333222


Q ss_pred             HHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCch-HHHhhh-cC
Q 036323          258 ATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKE-TVARMM-ES  335 (583)
Q Consensus       258 ~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~-~v~~~~-~~  335 (583)
                      .+ .............    ..+......+.-++|+|++.......+..+...+......+.+++|+... .....+ ..
T Consensus        84 ~~-~~~~~~~~~~~~~----~~~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~l~sr  158 (237)
T d1sxjd2          84 KV-KNFARLTVSKPSK----HDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQ  158 (237)
T ss_dssp             HH-HHHHHSCCCCCCT----THHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHH
T ss_pred             HH-HHHhhhhhhhhhH----HHHhhccccCceEEEEecccccCHHHHHHHhhccccccccccccccccccccccccccch
Confidence            22 2221111111110    11122223344479999996554445555555555555666677665542 222222 22


Q ss_pred             CCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCc
Q 036323          336 TDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLP  384 (583)
Q Consensus       336 ~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlP  384 (583)
                      ...+.+.+++.++..+++.+.+......-+    .++.+.|++.++|.+
T Consensus       159 ~~~i~f~~~~~~~~~~~L~~i~~~e~i~i~----~~~l~~ia~~s~gd~  203 (237)
T d1sxjd2         159 CSKFRFKALDASNAIDRLRFISEQENVKCD----DGVLERILDISAGDL  203 (237)
T ss_dssp             SEEEECCCCCHHHHHHHHHHHHHTTTCCCC----HHHHHHHHHHTSSCH
T ss_pred             hhhhccccccccccchhhhhhhhhhcCcCC----HHHHHHHHHHcCCCH
Confidence            467899999999999999988754432222    456778899998854

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=98.80  E-value=5.1e-08  Score=91.31  Aligned_cols=195  Identities=12%  Similarity=0.106  Sum_probs=112.9

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      -.+++|.++.++.|..++....      -++.+.|+|++|+||||+|+.+++.........       ............
T Consensus        11 ~~dlig~~~~~~~L~~~i~~~~------~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~-------~~~~~~~~~~~~   77 (239)
T d1njfa_          11 FADVVGQEHVLTALANGLSLGR------IHHAYLFSGTRGVGKTSIARLLAKGLNCETGIT-------ATPCGVCDNCRE   77 (239)
T ss_dssp             GGGSCSCHHHHHHHHHHHHTTC------CCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSC-------SSCCSCSHHHHH
T ss_pred             HHHccChHHHHHHHHHHHHcCC------CCeeEEEECCCCCcHHHHHHHHHHHhcCccccc-------cCccccchHHHH
Confidence            3478999999999999996543      245678999999999999988765311110000       000111111111


Q ss_pred             HHHHhhcC-----ccccccHHHHHHHHHHH----hcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCch-H
Q 036323          259 TIEELEGS-----AIDLHELNSLLRRIGAN----IAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKE-T  328 (583)
Q Consensus       259 il~~l~~~-----~~~~~~~~~~~~~l~~~----l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~-~  328 (583)
                      +...-...     ..+....+.+...+...    ..++.-++|||+++..+......|+..+.....++.+|++|.+. .
T Consensus        78 i~~~~~~~~~~~~~~~~~~i~~ir~~~~~~~~~~~~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~tn~~~~  157 (239)
T d1njfa_          78 IEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQK  157 (239)
T ss_dssp             HHHTCCTTEEEEETTCSSSHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGG
T ss_pred             HHcCCCCeEEEecchhcCCHHHHHHHHHHHHhccccCCCEEEEEECcccCCHHHHHHHHHHHhcCCCCeEEEEEcCCccc
Confidence            11110000     00111122222212111    12455699999997655555556777776655667777776653 3


Q ss_pred             HHhhh-cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCcc-chhhh
Q 036323          329 VARMM-ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPL-AAKTI  390 (583)
Q Consensus       329 v~~~~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPL-ai~~~  390 (583)
                      +.... .....+.+.+++.++-...+...+.......+    .+....|++.++|.+- |+..+
T Consensus       158 i~~~i~SRc~~i~~~~~~~~~i~~~l~~i~~~e~~~~~----~~~l~~i~~~s~Gd~R~ain~l  217 (239)
T d1njfa_         158 LPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAHE----PRALQLLARAAEGSLRDALSLT  217 (239)
T ss_dssp             SCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCCBC----HHHHHHHHHHTTTCHHHHHHHH
T ss_pred             cChhHhhhhcccccccCcHHHhhhHHHHHHhhhccCCC----HHHHHHHHHHcCCCHHHHHHHH
Confidence            32222 23578999999999999888877643332222    4567789999999885 44433

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=98.77  E-value=2.8e-08  Score=88.44  Aligned_cols=149  Identities=19%  Similarity=0.188  Sum_probs=87.1

Q ss_pred             ceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCc---ccccc-CceEEE-EEeCCCCChHHH
Q 036323          181 EVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDN---DVINN-FEIRVR-VCVSDPFDEFNV  255 (583)
Q Consensus       181 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~---~~~~~-f~~~~w-v~~~~~~~~~~~  255 (583)
                      ..+||++|++++...|....       -.-+.++|.+|+|||+++..+++..   .+... -+..+| ++++        
T Consensus        23 ~~igRd~Ei~~l~~iL~r~~-------k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~--------   87 (195)
T d1jbka_          23 PVIGRDEEIRRTIQVLQRRT-------KNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMG--------   87 (195)
T ss_dssp             CCCSCHHHHHHHHHHHTSSS-------SCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHH--------
T ss_pred             CCcCcHHHHHHHHHHHhccC-------CCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHH--------
Confidence            47899999999999996543       2346799999999999998777631   12122 233444 2211        


Q ss_pred             HHHHHHHhhcCccccccHHHHHHHHHHHh-c-CCceeEEEcCCCccc-------ccchHh-hHHhhccCCCCceEEEecC
Q 036323          256 AKATIEELEGSAIDLHELNSLLRRIGANI-A-GQKFFMVLDNLWTDD-------YRKWEP-FRNCLMNGLRGSKILITTR  325 (583)
Q Consensus       256 ~~~il~~l~~~~~~~~~~~~~~~~l~~~l-~-~k~~LlVlDdv~~~~-------~~~~~~-l~~~l~~~~~gs~IlvTtR  325 (583)
                            .+-.......+.++....+.+.+ + ..+.+|++|++..--       ...... |...|..  ..-++|.||.
T Consensus        88 ------~LiAg~~~rG~~E~rl~~il~e~~~~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~r--g~l~~IgatT  159 (195)
T d1jbka_          88 ------ALVAGAKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALAR--GELHCVGATT  159 (195)
T ss_dssp             ------HHHTTTCSHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHHT--TSCCEEEEEC
T ss_pred             ------HHhccCCccHHHHHHHHHHHHHHhcCCCcEEEEcchHHHHhcCCCCCCcccHHHHHHHHHhC--CCceEEecCC
Confidence                  11111112223333333333333 3 357999999995410       112223 3333433  3467888887


Q ss_pred             chHHHhhhc-------CCCeEEcCCCChHHHHHH
Q 036323          326 KETVARMME-------STDIVYVQGLSELECWSL  352 (583)
Q Consensus       326 ~~~v~~~~~-------~~~~~~l~~L~~~ea~~L  352 (583)
                      .........       ....+.+.+++.+++..+
T Consensus       160 ~eey~~~~e~d~aL~rrF~~I~V~Ep~~e~t~~I  193 (195)
T d1jbka_         160 LDEYRQYIEKDAALERRFQKVFVAEPSVEDTIAI  193 (195)
T ss_dssp             HHHHHHHTTTCHHHHTTEEEEECCCCCHHHHHTT
T ss_pred             HHHHHHHHHcCHHHHhcCCEeecCCCCHHHHHHH
Confidence            766554322       257888999998887654

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=98.75  E-value=1.6e-08  Score=94.38  Aligned_cols=180  Identities=13%  Similarity=0.092  Sum_probs=107.6

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCce-EEEEEeCCCCChHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEI-RVRVCVSDPFDEFNVAK  257 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~-~~wv~~~~~~~~~~~~~  257 (583)
                      -.+++|.++.+++|..++....       .+.+.|+|++|+||||+|+.+++... ...+.. .+-++.+...+...+ .
T Consensus        23 ~~diig~~~~~~~l~~~i~~~~-------~~~lll~Gp~G~GKTtla~~iak~l~-~~~~~~~~~e~n~s~~~~~~~~-~   93 (231)
T d1iqpa2          23 LDDIVGQEHIVKRLKHYVKTGS-------MPHLLFAGPPGVGKTTAALALARELF-GENWRHNFLELNASDERGINVI-R   93 (231)
T ss_dssp             TTTCCSCHHHHHHHHHHHHHTC-------CCEEEEESCTTSSHHHHHHHHHHHHH-GGGHHHHEEEEETTCHHHHHTT-H
T ss_pred             HHHccCcHHHHHHHHHHHHcCC-------CCeEEEECCCCCcHHHHHHHHHHHHH-hcccCCCeeEEecCcccchhHH-H
Confidence            4679999999999999997543       44578999999999999999887321 111111 122232221111100 1


Q ss_pred             HHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCc-hHHHhhh-cC
Q 036323          258 ATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRK-ETVARMM-ES  335 (583)
Q Consensus       258 ~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~-~~v~~~~-~~  335 (583)
                      .........              ......++.++++|++.......+..+...+........+|.||.. ..+...+ ..
T Consensus        94 ~~~~~~~~~--------------~~~~~~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~sR  159 (231)
T d1iqpa2          94 EKVKEFART--------------KPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSR  159 (231)
T ss_dssp             HHHHHHHHS--------------CCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHT
T ss_pred             HHHHHHHhh--------------hhccCCCceEEeehhhhhcchhHHHHHhhhcccCCcceEEEeccCChhhchHhHhCc
Confidence            111100000              0011346678999999665555666666666555555556665544 3332222 23


Q ss_pred             CCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCcc
Q 036323          336 TDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPL  385 (583)
Q Consensus       336 ~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPL  385 (583)
                      ...+.+.+.+.++....+.+.+......    -..+..+.|++.|+|...
T Consensus       160 ~~~i~~~~~~~~~~~~~l~~~~~~e~i~----i~~~~l~~I~~~~~gdiR  205 (231)
T d1iqpa2         160 CAIFRFRPLRDEDIAKRLRYIAENEGLE----LTEEGLQAILYIAEGDMR  205 (231)
T ss_dssp             EEEEECCCCCHHHHHHHHHHHHHTTTCE----ECHHHHHHHHHHHTTCHH
T ss_pred             cccccccccchhhHHHHHHHHHHHhCCC----CCHHHHHHHHHHcCCCHH
Confidence            5678999999999999998887543321    124556789999988643

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=98.73  E-value=6e-08  Score=91.29  Aligned_cols=156  Identities=13%  Similarity=0.117  Sum_probs=94.1

Q ss_pred             ceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCc---cccccC-ceEEEE-EeCCCCChHHH
Q 036323          181 EVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDN---DVINNF-EIRVRV-CVSDPFDEFNV  255 (583)
Q Consensus       181 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~---~~~~~f-~~~~wv-~~~~~~~~~~~  255 (583)
                      .++||++|+++++..|....       -.-+.++|.+|+|||+|+..+++..   .+.... ...+|. +++.       
T Consensus        19 ~~igRd~Ei~~l~~iL~r~~-------k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~-------   84 (268)
T d1r6bx2          19 PLIGREKELERAIQVLCRRR-------KNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGS-------   84 (268)
T ss_dssp             CCCSCHHHHHHHHHHHTSSS-------SCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC--------
T ss_pred             cccChHHHHHHHHHHHhcCc-------cCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeech-------
Confidence            47999999999999996443       3355699999999999998876531   122222 334443 3221       


Q ss_pred             HHHHHHHhhcCccccccHHHHHHHHHHHh-cCCceeEEEcCCCcc-----cccchHhhHHhhc-cC-CCCceEEEecCch
Q 036323          256 AKATIEELEGSAIDLHELNSLLRRIGANI-AGQKFFMVLDNLWTD-----DYRKWEPFRNCLM-NG-LRGSKILITTRKE  327 (583)
Q Consensus       256 ~~~il~~l~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~-----~~~~~~~l~~~l~-~~-~~gs~IlvTtR~~  327 (583)
                             +-.......+.++....+.+.+ ..++.+|++|++..-     ....-..+...|. .- ...-++|.||...
T Consensus        85 -------liag~~~~g~~e~r~~~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~rg~i~vIgatT~e  157 (268)
T d1r6bx2          85 -------LLAGTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSGKIRVIGSTTYQ  157 (268)
T ss_dssp             ---------CCCCCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSSCCCEEEEEECHH
T ss_pred             -------HhccCccchhHHHHHHHHHHHhhccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHhCCCCeEEEeCCHH
Confidence                   1111112334444444444444 456799999998542     0011112233332 22 2346888888877


Q ss_pred             HHHhhhc-------CCCeEEcCCCChHHHHHHHHHHh
Q 036323          328 TVARMME-------STDIVYVQGLSELECWSLFRRFA  357 (583)
Q Consensus       328 ~v~~~~~-------~~~~~~l~~L~~~ea~~Lf~~~a  357 (583)
                      .......       ....+.+.+++.+++..++....
T Consensus       158 ey~~~~e~d~al~rrF~~I~V~Eps~e~t~~IL~~~~  194 (268)
T d1r6bx2         158 EFSNIFEKDRALARRFQKIDITEPSIEETVQIINGLK  194 (268)
T ss_dssp             HHHCCCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHH
T ss_pred             HHHHHHhhcHHHHhhhcccccCCCCHHHHHHHHHHhh
Confidence            7655432       25688999999999999987654

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.62  E-value=8.9e-08  Score=90.21  Aligned_cols=193  Identities=11%  Similarity=0.088  Sum_probs=102.1

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCcc----ccccCceEEEEEeCCC-----
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDND----VINNFEIRVRVCVSDP-----  249 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~----~~~~f~~~~wv~~~~~-----  249 (583)
                      -.+++|.++..+.|..++....      ...-+.|+|++|+||||+|+.+++...    ....++...|......     
T Consensus        10 ~~diig~~~~~~~L~~~~~~~~------~~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (252)
T d1sxje2          10 LNALSHNEELTNFLKSLSDQPR------DLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELN   83 (252)
T ss_dssp             GGGCCSCHHHHHHHHTTTTCTT------CCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------C
T ss_pred             HHHccCcHHHHHHHHHHHHcCC------CCCeEEEECCCCCCHHHHHHHHHHhhcCccccccccccccccccccchhhhh
Confidence            4569999998888888775432      334477999999999999999877421    1111122222111100     


Q ss_pred             ----------------CChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhcc
Q 036323          250 ----------------FDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMN  313 (583)
Q Consensus       250 ----------------~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~  313 (583)
                                      ....................    ..  ..-.....++.-++|||++.......+..+...+..
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~--~~~~~~~~~~~~iiiide~d~l~~~~~~~l~~~~e~  157 (252)
T d1sxje2          84 VVSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQV----DF--QDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEK  157 (252)
T ss_dssp             CEECSSEEEECCC----CCHHHHHHHHHHHTTTTC------------------CCEEEEEECTTSSCHHHHHHHHHHHHH
T ss_pred             hccCCccceeeecccccCCcceeeehhhhhhhhhhh----hh--hhcccccCCCceEEEeccccccccccchhhhccccc
Confidence                            00001111111111100000    00  000011123445889999976555556666666666


Q ss_pred             CCCCceEEEecCchH-HHhh-hcCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccc
Q 036323          314 GLRGSKILITTRKET-VARM-MESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLA  386 (583)
Q Consensus       314 ~~~gs~IlvTtR~~~-v~~~-~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLa  386 (583)
                      ....+++|+||.+.. +... ......+++.+++.++..+++...+-.......   .+++...|++.+.|.+..
T Consensus       158 ~~~~~~~Il~tn~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~i~~~e~~~~~---~~~~l~~i~~~s~Gd~R~  229 (252)
T d1sxje2         158 YSKNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLE---TKDILKRIAQASNGNLRV  229 (252)
T ss_dssp             STTTEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCEEC---CSHHHHHHHHHHTTCHHH
T ss_pred             ccccccceeeeccccchhhhhhcchheeeecccchhhHHHHHHHHHHHcCCCCC---cHHHHHHHHHHcCCcHHH
Confidence            666777777776542 2111 122457899999999999998776533221111   134567789999887643

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.52  E-value=4.4e-07  Score=85.36  Aligned_cols=192  Identities=13%  Similarity=0.106  Sum_probs=104.5

Q ss_pred             CCceeechhHHHHHHHHhhcC----------CCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCC
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQ----------GSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSD  248 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~----------~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~  248 (583)
                      -.+++|.+..+++|.++|..-          ....+....+.+.++|++|+||||+|+.+++...     ...++++.+.
T Consensus        13 ~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~-----~~~~~~~~~~   87 (253)
T d1sxja2          13 LQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELG-----YDILEQNASD   87 (253)
T ss_dssp             GGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTT-----CEEEEECTTS
T ss_pred             HHHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHH-----hhhhcccccc
Confidence            467899999999999988530          0011234456889999999999999999998421     2244555554


Q ss_pred             CCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccc---hHhhHHhhccCCCCceEEEecC
Q 036323          249 PFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRK---WEPFRNCLMNGLRGSKILITTR  325 (583)
Q Consensus       249 ~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~---~~~l~~~l~~~~~gs~IlvTtR  325 (583)
                      ..+...+ ..................  .........++..++++|++.......   +..+........  ..+++|+.
T Consensus        88 ~~~~~~~-~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~vi~ide~~~~~~~~~~~~~~~~~~~~~~~--~~ii~i~~  162 (253)
T d1sxja2          88 VRSKTLL-NAGVKNALDNMSVVGYFK--HNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKTS--TPLILICN  162 (253)
T ss_dssp             CCCHHHH-HHTGGGGTTBCCSTTTTT--C----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHHCS--SCEEEEES
T ss_pred             chhhHHH-HHHHHHHhhcchhhhhhh--hhhhcccccccceEEEeeeccccccchhhhhHHHhhhhcccc--cccccccc
Confidence            4443322 222222111110000000  001111234567789999985432222   333333222222  23444332


Q ss_pred             --chHHHhhh-cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCc
Q 036323          326 --KETVARMM-ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLP  384 (583)
Q Consensus       326 --~~~v~~~~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlP  384 (583)
                        .......+ .....+++.+++.++-...+...+...+..-.    .+..+.|++.++|..
T Consensus       163 ~~~~~~~~~l~~~~~~i~f~~~~~~~i~~~l~~i~~~e~i~i~----~~~l~~i~~~s~GDi  220 (253)
T d1sxja2         163 ERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLD----PNVIDRLIQTTRGDI  220 (253)
T ss_dssp             CTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCC----TTHHHHHHHHTTTCH
T ss_pred             cccccccccccceeeeeeccccchhHHHHHHHHHHHHhCCCCC----HHHHHHHHHhCCCcH
Confidence              22222222 33568999999999998888876543222222    234577899999966

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=98.52  E-value=1.3e-06  Score=83.30  Aligned_cols=181  Identities=13%  Similarity=0.106  Sum_probs=104.2

Q ss_pred             ccCCceeechhHHHHHHHHhhcCCC--CCCCCceEEEEEEecCCchHHHHHHHHHcCccc----cccCceEEEEEeCCCC
Q 036323          177 IDVSEVRGRDEEMRSIKSMLLCQGS--DQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDV----INNFEIRVRVCVSDPF  250 (583)
Q Consensus       177 ~~~~~~vGR~~e~~~l~~~L~~~~~--~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~----~~~f~~~~wv~~~~~~  250 (583)
                      ..+..++||+.++++|.+.+...-.  ........++.|+|++|+|||++++.+++....    ........+++.....
T Consensus        13 ~~P~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~   92 (287)
T d1w5sa2          13 YIPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAP   92 (287)
T ss_dssp             CCCSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCC
T ss_pred             cCCCCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeecccccc
Confidence            3567899999999999887632110  011223445677899999999999999874211    1112345677777777


Q ss_pred             ChHHHHHHHHHHhhcCccc-cccHHHHHHHHHHHh--cCCceeEEEcCCCccc------ccc---hHhhHHhhccC--CC
Q 036323          251 DEFNVAKATIEELEGSAID-LHELNSLLRRIGANI--AGQKFFMVLDNLWTDD------YRK---WEPFRNCLMNG--LR  316 (583)
Q Consensus       251 ~~~~~~~~il~~l~~~~~~-~~~~~~~~~~l~~~l--~~k~~LlVlDdv~~~~------~~~---~~~l~~~l~~~--~~  316 (583)
                      .....+..+...+...... ..........+.+..  .+...++++|.+..-.      ...   +..+...+...  ..
T Consensus        93 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~l~~~~~~~~~~~~~l~~l~~~l~~~~~~~  172 (287)
T d1w5sa2          93 NLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVN  172 (287)
T ss_dssp             SHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCC
T ss_pred             chhhHHHHHhhhcccccccccchHHHHHHHHHHHHHhccCccccceeEEEEeccccccchhHHHHHHHHHHhcchhhccc
Confidence            7778888877777654322 233334444444433  3456778888773211      011   11122222221  11


Q ss_pred             Cc-eEEEecCchHHHh------hh--cCCCeEEcCCCChHHHHHHHHHHh
Q 036323          317 GS-KILITTRKETVAR------MM--ESTDIVYVQGLSELECWSLFRRFA  357 (583)
Q Consensus       317 gs-~IlvTtR~~~v~~------~~--~~~~~~~l~~L~~~ea~~Lf~~~a  357 (583)
                      .. .|++++.......      ..  .....+.+.+++.++..+++...+
T Consensus       173 ~~~~i~i~~~~~~~~~~~~~~~~~~~r~~~~i~f~~y~~~el~~Il~~r~  222 (287)
T d1w5sa2         173 RIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRA  222 (287)
T ss_dssp             BEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHH
T ss_pred             ceeEEeecccHHHHHHHHhhccchhcccceeeeccCCcHHHHHHHHhhhH
Confidence            22 3334433322110      11  124678899999999999998765

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=98.50  E-value=9.6e-07  Score=80.29  Aligned_cols=178  Identities=9%  Similarity=0.046  Sum_probs=105.2

Q ss_pred             chhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCcc--ccccCceEEEEEeCCCCChHHHHHHHHHH
Q 036323          185 RDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDND--VINNFEIRVRVCVSDPFDEFNVAKATIEE  262 (583)
Q Consensus       185 R~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~--~~~~f~~~~wv~~~~~~~~~~~~~~il~~  262 (583)
                      -+...+++.+.+....      -.+.+.++|++|+||||+|+.+++...  ......         ......-...+...
T Consensus         7 ~~~~~~~l~~~~~~~~------l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~---------~~~~~~~~~~i~~~   71 (207)
T d1a5ta2           7 LRPDFEKLVASYQAGR------GHHALLIQALPGMGDDALIYALSRYLLCQQPQGHK---------SCGHCRGCQLMQAG   71 (207)
T ss_dssp             GHHHHHHHHHHHHTTC------CCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTB---------CCSCSHHHHHHHHT
T ss_pred             cHHHHHHHHHHHHcCC------cCeEEEEECCCCCcHHHHHHHHHHhcccccccccc---------cccccchhhhhhhc
Confidence            3456778888876433      355688999999999999998765210  000000         00000011111111


Q ss_pred             hhcC--------ccccccHHHHHHHHHHHh-----cCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCchH-
Q 036323          263 LEGS--------AIDLHELNSLLRRIGANI-----AGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKET-  328 (583)
Q Consensus       263 l~~~--------~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~~-  328 (583)
                      ....        .......+.+ +.+.+.+     .+++-++|+|+++.........++..+.....++.+|+||++.. 
T Consensus        72 ~~~~~~~~~~~~~~~~i~~~~i-r~l~~~~~~~~~~~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~  150 (207)
T d1a5ta2          72 THPDYYTLAPEKGKNTLGVDAV-REVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPER  150 (207)
T ss_dssp             CCTTEEEECCCTTCSSBCHHHH-HHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGG
T ss_pred             cccccchhhhhhcccccccchh-hHHhhhhhhccccCccceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecChhh
Confidence            1000        0011112222 2222222     34566999999977666677778888877777888887777643 


Q ss_pred             HHhhh-cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccch
Q 036323          329 VARMM-ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAA  387 (583)
Q Consensus       329 v~~~~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai  387 (583)
                      +...+ .....+.+.+++.++....+.....     ..    .+.+..|++.++|.|-.+
T Consensus       151 ll~tI~SRc~~i~~~~~~~~~~~~~L~~~~~-----~~----~~~~~~i~~~s~Gs~r~a  201 (207)
T d1a5ta2         151 LLATLRSRCRLHYLAPPPEQYAVTWLSREVT-----MS----QDALLAALRLSAGSPGAA  201 (207)
T ss_dssp             SCHHHHTTSEEEECCCCCHHHHHHHHHHHCC-----CC----HHHHHHHHHHTTTCHHHH
T ss_pred             hhhhhcceeEEEecCCCCHHHHHHHHHHcCC-----CC----HHHHHHHHHHcCCCHHHH
Confidence            33322 3357899999999999998876531     11    455777899999987644

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=98.39  E-value=3.6e-06  Score=78.19  Aligned_cols=177  Identities=16%  Similarity=0.085  Sum_probs=98.6

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      -.++||-+.-+++|..++....  .....++-+.++|++|+||||+|+.+++..  ...   ..+++.+.....      
T Consensus         8 ~ddivGq~~~~~~L~~~i~~~~--~~~~~~~~~Ll~GPpG~GKTtla~~la~~~--~~~---~~~~~~~~~~~~------   74 (239)
T d1ixsb2           8 LDEYIGQERLKQKLRVYLEAAK--ARKEPLEHLLLFGPPGLGKTTLAHVIAHEL--GVN---LRVTSGPAIEKP------   74 (239)
T ss_dssp             GGGSCSCHHHHHHHHHHHHHHT--TSSSCCCCEEEECCTTSCHHHHHHHHHHHH--TCC---EEEEETTTCCSH------
T ss_pred             HHHhCCHHHHHHHHHHHHHHHH--hcCCCCCeEEEECCCCCCHHHHHHHHHHHh--CCC---eEeccCCccccc------
Confidence            3568999999999888875432  112335567799999999999999998742  111   233333322111      


Q ss_pred             HHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhc------------------cCCCCceE
Q 036323          259 TIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLM------------------NGLRGSKI  320 (583)
Q Consensus       259 il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~------------------~~~~gs~I  320 (583)
                                     ......+...+ +.+.++++|++.......-+.+...+.                  ...+...+
T Consensus        75 ---------------~~~~~~~~~~~-~~~~i~~iDe~~~~~~~~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~  138 (239)
T d1ixsb2          75 ---------------GDLAAILANSL-EEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTL  138 (239)
T ss_dssp             ---------------HHHHHHHHTTC-CTTCEEEEETGGGCCHHHHHHHHHHHHHSEEEEECSCTTCCCEEEEECCCCEE
T ss_pred             ---------------hhhHHHHHhhc-cCCCeeeeecccccchhHHHhhhhhhhhhhhhhhhccchhhhhcccCCCCEEE
Confidence                           11112222222 234466678775432222222222111                  01122334


Q ss_pred             EE-ecCchHH--HhhhcCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchh
Q 036323          321 LI-TTRKETV--ARMMESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAK  388 (583)
Q Consensus       321 lv-TtR~~~v--~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~  388 (583)
                      +. |++....  .........+.+.+.+.++...++...+.......    ..+....|++.+.|.+-.+.
T Consensus       139 i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~i~~----~~~~l~~ia~~s~gd~R~a~  205 (239)
T d1ixsb2         139 IGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGVRI----TEEAALEIGRRSRGTMRVAK  205 (239)
T ss_dssp             EEEESCCSSCSCGGGGGCSEEEECCCCCHHHHHHHHHHHHGGGCCCB----CHHHHHHHHHHTTSSHHHHH
T ss_pred             EeeccCcccccchhhcccceeeEeeccChhhhhHHHHHHHHHhCCcc----chHHHHHHHHHcCCCHHHHH
Confidence            43 4443221  11223356788999999999888887764433222    25567889999999876554

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=98.38  E-value=1.5e-06  Score=80.77  Aligned_cols=177  Identities=14%  Similarity=0.131  Sum_probs=97.8

Q ss_pred             CCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          179 VSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      -.+++|.+..+++|..++....  ......+-+.++|++|+||||+|+.+++.  ....   .+.++.+.......+   
T Consensus         8 ~~divGqe~~~~~l~~~i~~~~--~~~~~~~~~L~~GPpGtGKT~lA~~la~~--~~~~---~~~~~~~~~~~~~~~---   77 (238)
T d1in4a2           8 LDEFIGQENVKKKLSLALEAAK--MRGEVLDHVLLAGPPGLGKTTLAHIIASE--LQTN---IHVTSGPVLVKQGDM---   77 (238)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHHH--HHTCCCCCEEEESSTTSSHHHHHHHHHHH--HTCC---EEEEETTTCCSHHHH---
T ss_pred             HHHcCChHHHHHHHHHHHHHHH--hcCCCCCeEEEECCCCCcHHHHHHHHHhc--cCCC---cccccCcccccHHHH---
Confidence            4578999999999998875321  01123445779999999999999999873  2222   223333332222211   


Q ss_pred             HHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhcc------------------CCCCceE
Q 036323          259 TIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMN------------------GLRGSKI  320 (583)
Q Consensus       259 il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~------------------~~~gs~I  320 (583)
                                        ...+..  ..++..+++|.+..-+...-+.+...+..                  ..+...+
T Consensus        78 ------------------~~~~~~--~~~~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  137 (238)
T d1in4a2          78 ------------------AAILTS--LERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTL  137 (238)
T ss_dssp             ------------------HHHHHH--CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEE
T ss_pred             ------------------HHHHHh--hccCCchHHHHHHHhhhHHHhhcccceeeeeeeeeecCcccccccccCCCCeEE
Confidence                              111111  23455666776643221111111111111                  1123344


Q ss_pred             EEec-CchHHHhhh--cCCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCccchhh
Q 036323          321 LITT-RKETVARMM--ESTDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPLAAKT  389 (583)
Q Consensus       321 lvTt-R~~~v~~~~--~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPLai~~  389 (583)
                      |.+| +........  .....+.+++.+.++...++...+.......    ..+....|++.++|.+-.+..
T Consensus       138 I~at~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~----~~~~l~~i~~~s~gd~R~ai~  205 (238)
T d1in4a2         138 VGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMDVEI----EDAAAEMIAKRSRGTPRIAIR  205 (238)
T ss_dssp             EEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTCCB----CHHHHHHHHHTSTTCHHHHHH
T ss_pred             EEecCCCccccccceeeeeEEEEecCCCHHHHHHHHHHhhhhccchh----hHHHHHHHHHhCCCCHHHHHH
Confidence            4444 443332221  2245678999999999999988765443222    245678899999997665543

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=98.35  E-value=2.7e-06  Score=84.36  Aligned_cols=154  Identities=21%  Similarity=0.262  Sum_probs=84.7

Q ss_pred             ceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcC---ccccc-cCceEEE-EEeCCCCChHHH
Q 036323          181 EVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYND---NDVIN-NFEIRVR-VCVSDPFDEFNV  255 (583)
Q Consensus       181 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~---~~~~~-~f~~~~w-v~~~~~~~~~~~  255 (583)
                      .++||+.++++++..|....       -.-+.++|.+|||||+|+..+++.   ..+.. -.+..+| ++++.-      
T Consensus        23 ~~~gr~~ei~~~~~~L~r~~-------k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l------   89 (387)
T d1qvra2          23 PVIGRDEEIRRVIQILLRRT-------KNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSL------   89 (387)
T ss_dssp             CCCSCHHHHHHHHHHHHCSS-------CCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC---------
T ss_pred             CCcCcHHHHHHHHHHHhcCC-------CCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhh------
Confidence            47899999999999997543       223467899999999988665542   11222 2234444 333321      


Q ss_pred             HHHHHHHhhcCccccccHHHHHHHHHHHh-cC-CceeEEEcCCCcc--------cccchHhhHHhhccCCCCceEEEecC
Q 036323          256 AKATIEELEGSAIDLHELNSLLRRIGANI-AG-QKFFMVLDNLWTD--------DYRKWEPFRNCLMNGLRGSKILITTR  325 (583)
Q Consensus       256 ~~~il~~l~~~~~~~~~~~~~~~~l~~~l-~~-k~~LlVlDdv~~~--------~~~~~~~l~~~l~~~~~gs~IlvTtR  325 (583)
                          +.    ...-....++.+..+...+ .. .+++|++|+++.-        ..+.-+.|..+|..+  .-++|.||.
T Consensus        90 ----~a----g~~~~g~~e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~rg--~~~~I~~tT  159 (387)
T d1qvra2          90 ----LA----GAKYRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALARG--ELRLIGATT  159 (387)
T ss_dssp             ----------------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHHTT--CCCEEEEEC
T ss_pred             ----hc----ccCcchhHHHHHHHHHHHhccCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHhCC--CcceeeecC
Confidence                00    0011122233333333333 33 4789999999642        011122244444332  356777777


Q ss_pred             chHHHhh------hcCCCeEEcCCCChHHHHHHHHHHh
Q 036323          326 KETVARM------MESTDIVYVQGLSELECWSLFRRFA  357 (583)
Q Consensus       326 ~~~v~~~------~~~~~~~~l~~L~~~ea~~Lf~~~a  357 (583)
                      .......      ......+.+.+.+.+++..++....
T Consensus       160 ~~ey~~~e~d~al~rrF~~v~v~ep~~~~~~~il~~~~  197 (387)
T d1qvra2         160 LDEYREIEKDPALERRFQPVYVDEPTVEETISILRGLK  197 (387)
T ss_dssp             HHHHHHHTTCTTTCSCCCCEEECCCCHHHHHHHHHHHH
T ss_pred             HHHHHHhcccHHHHHhcccccCCCCcHHHHHHHHHHHH
Confidence            6555331      1126789999999999999988654

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=98.25  E-value=7.1e-06  Score=74.59  Aligned_cols=150  Identities=15%  Similarity=0.136  Sum_probs=86.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQ  287 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  287 (583)
                      ...+.|+|++|+|||.|++.+++.  .......+++++.      .+....+...+....     .......    +. .
T Consensus        36 ~n~l~l~G~~G~GKTHLl~A~~~~--~~~~~~~~~~~~~------~~~~~~~~~~~~~~~-----~~~~~~~----~~-~   97 (213)
T d1l8qa2          36 YNPIFIYGSVGTGKTHLLQAAGNE--AKKRGYRVIYSSA------DDFAQAMVEHLKKGT-----INEFRNM----YK-S   97 (213)
T ss_dssp             CSSEEEECSSSSSHHHHHHHHHHH--HHHTTCCEEEEEH------HHHHHHHHHHHHHTC-----HHHHHHH----HH-T
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHH--hccCccceEEech------HHHHHHHHHHHHccc-----hhhHHHH----Hh-h
Confidence            344789999999999999999985  3333344555543      344444444443221     1122222    22 3


Q ss_pred             ceeEEEcCCCccc-ccchHh-hHHhhcc-CCCCceEEEecCch---------HHHhhhcCCCeEEcCCCChHHHHHHHHH
Q 036323          288 KFFMVLDNLWTDD-YRKWEP-FRNCLMN-GLRGSKILITTRKE---------TVARMMESTDIVYVQGLSELECWSLFRR  355 (583)
Q Consensus       288 ~~LlVlDdv~~~~-~~~~~~-l~~~l~~-~~~gs~IlvTtR~~---------~v~~~~~~~~~~~l~~L~~~ea~~Lf~~  355 (583)
                      --+|+|||+.... ...|+. +...+.. ...|..||+||+..         ++...+.....+.++ +++++-.+++++
T Consensus        98 ~dll~iDDi~~i~~~~~~~~~lf~lin~~~~~~~~iiits~~~p~~l~~~~~dL~SRL~~g~~~~i~-p~d~~~~~iL~~  176 (213)
T d1l8qa2          98 VDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGGILVEIE-LDNKTRFKIIKE  176 (213)
T ss_dssp             CSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEEEECC-CCHHHHHHHHHH
T ss_pred             ccchhhhhhhhhcCchHHHHHHHHHHHHHhhccceEEEecCCcchhccccchHHHHHhhCceEEEEC-CCcHHHHHHHHH
Confidence            4599999995432 234544 3333332 34577899998853         233344556778886 577777778887


Q ss_pred             HhccCCCCCCCchHHHHHHHHhhhC
Q 036323          356 FALSGRTPSECDQLEGIGRGIVRKC  380 (583)
Q Consensus       356 ~a~~~~~~~~~~~~~~~~~~I~~~c  380 (583)
                      .+-..+..-.    .++..-|++.+
T Consensus       177 ~a~~rgl~l~----~~v~~yl~~~~  197 (213)
T d1l8qa2         177 KLKEFNLELR----KEVIDYLLENT  197 (213)
T ss_dssp             HHHHTTCCCC----HHHHHHHHHHC
T ss_pred             HHHHcCCCCC----HHHHHHHHHhc
Confidence            7643332211    34555566655

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.23  E-value=1.1e-05  Score=75.65  Aligned_cols=180  Identities=12%  Similarity=0.053  Sum_probs=97.4

Q ss_pred             CceeechhHHHHHHHHhhc----CCC--CCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChH
Q 036323          180 SEVRGRDEEMRSIKSMLLC----QGS--DQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEF  253 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~----~~~--~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  253 (583)
                      ..+.|-+..+++|.+.+..    +..  ..+-..++-+.++|++|+|||+||+.+++.  ...+|   +.++.+      
T Consensus         4 ~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~--~~~~~---~~i~~~------   72 (258)
T d1e32a2           4 DDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANE--TGAFF---FLINGP------   72 (258)
T ss_dssp             GGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHH--TTCEE---EEECHH------
T ss_pred             hhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHH--hCCeE---EEEEch------
Confidence            4578999988888876421    100  001123556889999999999999999883  22221   122211      


Q ss_pred             HHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCccc-------ccch----HhhHHhhcc--CCCCceE
Q 036323          254 NVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDD-------YRKW----EPFRNCLMN--GLRGSKI  320 (583)
Q Consensus       254 ~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~-------~~~~----~~l~~~l~~--~~~gs~I  320 (583)
                              .+..... ......+.......-..++++|+|||++.--       .+..    ..+...+..  ...+.-|
T Consensus        73 --------~l~~~~~-g~~~~~l~~~f~~A~~~~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~vlv  143 (258)
T d1e32a2          73 --------EIMSKLA-GESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIV  143 (258)
T ss_dssp             --------HHTTSCT-THHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCCCSSCEEE
T ss_pred             --------hhccccc-ccHHHHHHHHHHHHHhcCCeEEEehhhhhhccCCCCCCCchHHHHHHHhccccccccccCCccE
Confidence                    1111110 1111222222333335688999999995411       0111    122222222  2334455


Q ss_pred             EEecCchHHHh-hhc----CCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCc
Q 036323          321 LITTRKETVAR-MME----STDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLP  384 (583)
Q Consensus       321 lvTtR~~~v~~-~~~----~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlP  384 (583)
                      |.||....... .+.    -...++++..+.++-..+|........ ......    ...|++.|.|.-
T Consensus       144 i~tTn~~~~ld~al~r~gRfd~~i~~~~P~~~~R~~il~~~l~~~~-~~~~~~----~~~la~~t~G~s  207 (258)
T d1e32a2         144 MAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMK-LADDVD----LEQVANETHGHV  207 (258)
T ss_dssp             EEEESCGGGSCGGGTSTTSSCEEEECCCCCHHHHHHHHHHTTTTSC-BCTTCC----HHHHHHHCTTCC
T ss_pred             EEeCCCccccchhhhhcccccceeECCCCCHHHHHHHhhhhccCcc-cccccc----hhhhhhcccCCC
Confidence            66887654321 121    257889999999999999987653221 111112    356888998853

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=98.17  E-value=1.6e-05  Score=73.91  Aligned_cols=182  Identities=11%  Similarity=0.094  Sum_probs=94.8

Q ss_pred             ccCCceeechhHHHHHHHHh---hcCCC--CCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCC
Q 036323          177 IDVSEVRGRDEEMRSIKSML---LCQGS--DQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFD  251 (583)
Q Consensus       177 ~~~~~~vGR~~e~~~l~~~L---~~~~~--~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  251 (583)
                      +.-.+++|-++.+++|.+.+   ..+..  ..+...++-+.++|++|+|||+||+.+++..  ..+   .+-++.+    
T Consensus         6 ~~~~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~--~~~---~~~i~~~----   76 (247)
T d1ixza_           6 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA--RVP---FITASGS----   76 (247)
T ss_dssp             CCGGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHT--TCC---EEEEEHH----
T ss_pred             CcHHHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHc--CCC---EEEEEhH----
Confidence            33457899988777765543   21100  0011334568899999999999999999742  211   1222221    


Q ss_pred             hHHHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCccc-------c---c----chHhhHHhhcc--CC
Q 036323          252 EFNVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDD-------Y---R----KWEPFRNCLMN--GL  315 (583)
Q Consensus       252 ~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~-------~---~----~~~~l~~~l~~--~~  315 (583)
                        .+    +.    .... .....+.......-...+++|+|||++.-.       .   .    ....+...+..  ..
T Consensus        77 --~l----~~----~~~g-~~~~~l~~~f~~a~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~  145 (247)
T d1ixza_          77 --DF----VE----MFVG-VGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKD  145 (247)
T ss_dssp             --HH----HH----SCTT-HHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTT
T ss_pred             --Hh----hh----cccc-HHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCC
Confidence              11    11    1000 111112222222334678999999984210       0   0    12223333322  22


Q ss_pred             CCceEEEecCchH-HHhhh---c-CCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCC
Q 036323          316 RGSKILITTRKET-VARMM---E-STDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGL  383 (583)
Q Consensus       316 ~gs~IlvTtR~~~-v~~~~---~-~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~Gl  383 (583)
                      .+.-||.||.... +...+   + -...+++++.+.++-.++|+.+...... .....    ...+++.|.|.
T Consensus       146 ~~vivi~tTn~~~~ld~al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~~~-~~~~~----~~~la~~t~g~  213 (247)
T d1ixza_         146 TAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPL-AEDVD----LALLAKRTPGF  213 (247)
T ss_dssp             CCEEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCB-CTTCC----HHHHHHTCTTC
T ss_pred             CCEEEEEeCCCccccCHhHcCCCCCcEEEEECCcCHHHHHHHHHHHhcccCC-ccccC----HHHHHHHCCCC
Confidence            3333444665533 22222   1 2468899999999999999987643221 12222    34577888775

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=98.06  E-value=2.3e-05  Score=73.18  Aligned_cols=181  Identities=14%  Similarity=0.053  Sum_probs=96.8

Q ss_pred             CCceeechhHHHHHHHHh---hcCCC--CCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChH
Q 036323          179 VSEVRGRDEEMRSIKSML---LCQGS--DQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEF  253 (583)
Q Consensus       179 ~~~~vGR~~e~~~l~~~L---~~~~~--~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  253 (583)
                      -.+++|-++.+++|.+.+   .....  .-+...++.+.++|++|+|||+||+.+++..  ..+   .+-++.+.-.+. 
T Consensus        11 ~~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~--~~~---~~~i~~~~l~~~-   84 (256)
T d1lv7a_          11 FADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA--KVP---FFTISGSDFVEM-   84 (256)
T ss_dssp             GGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHH--TCC---EEEECSCSSTTS-
T ss_pred             HHHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHc--CCC---EEEEEhHHhhhc-
Confidence            357899988887776543   22110  0012335678899999999999999998732  211   122222221110 


Q ss_pred             HHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcc------c----ccc----hHhhHHhhc--cCCCC
Q 036323          254 NVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTD------D----YRK----WEPFRNCLM--NGLRG  317 (583)
Q Consensus       254 ~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~------~----~~~----~~~l~~~l~--~~~~g  317 (583)
                                   . .......+...+...-+..+++|+|||++.-      .    ...    +..+...+.  ....+
T Consensus        85 -------------~-~g~~~~~l~~~f~~A~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~  150 (256)
T d1lv7a_          85 -------------F-VGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEG  150 (256)
T ss_dssp             -------------C-CCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSC
T ss_pred             -------------c-hhHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCC
Confidence                         0 0011122222333333567899999999431      0    011    122333332  22334


Q ss_pred             ceEEEecCchHHH-hhhc----CCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCc
Q 036323          318 SKILITTRKETVA-RMME----STDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLP  384 (583)
Q Consensus       318 s~IlvTtR~~~v~-~~~~----~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlP  384 (583)
                      .-||.||..+... ..+.    -.+.+++++.+.++-.++|+.+...... ....+    ...+++.+.|..
T Consensus       151 v~vIatTn~~~~ld~al~R~gRfd~~i~i~~P~~~~R~~il~~~l~~~~~-~~~~~----~~~la~~t~G~s  217 (256)
T d1lv7a_         151 IIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPL-APDID----AAIIARGTPGFS  217 (256)
T ss_dssp             EEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCB-CTTCC----HHHHHHTCTTCC
T ss_pred             EEEEEeCCCcccCCHhHcCCCCCCEEEECCCcCHHHHHHHHHHhccCCCc-CcccC----HHHHHHhCCCCC
Confidence            4556577654332 2221    2468899999999999999887632221 12122    345778888854

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.78  E-value=6.8e-05  Score=70.37  Aligned_cols=181  Identities=12%  Similarity=0.117  Sum_probs=93.4

Q ss_pred             CceeechhHHHHHHHHhhcC----C--CCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChH
Q 036323          180 SEVRGRDEEMRSIKSMLLCQ----G--SDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEF  253 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~----~--~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  253 (583)
                      .+++|-++.+++|.+.+...    .  ...+-...+-|.++|++|+|||+||+.+++..  .-+|     +.++    ..
T Consensus         7 ~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~--~~~~-----~~~~----~~   75 (265)
T d1r7ra3           7 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC--QANF-----ISIK----GP   75 (265)
T ss_dssp             SSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHT--TCEE-----EEEC----HH
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHh--CCcE-----EEEE----HH
Confidence            45677777766666654210    0  00012345678899999999999999998842  2222     2222    11


Q ss_pred             HHHHHHHHHhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCccc------ccc--------hHhhHHhhcc--CCCC
Q 036323          254 NVAKATIEELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDD------YRK--------WEPFRNCLMN--GLRG  317 (583)
Q Consensus       254 ~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~------~~~--------~~~l~~~l~~--~~~g  317 (583)
                              .+...... .....+...+...-...+++|+|||++.--      ...        ...+...+..  ..++
T Consensus        76 --------~l~~~~~~-~~~~~l~~~f~~A~~~~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  146 (265)
T d1r7ra3          76 --------ELLTMWFG-ESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKN  146 (265)
T ss_dssp             --------HHHTSCTT-THHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC------C
T ss_pred             --------Hhhhcccc-chHHHHHHHHHHHHhcCCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcCCCCC
Confidence                    11111111 111222223333335678999999995311      011        1222222321  2334


Q ss_pred             ceEEEecCchHH-Hhhhc----CCCeEEcCCCChHHHHHHHHHHhccCCCCCCCchHHHHHHHHhhhCCCCcc
Q 036323          318 SKILITTRKETV-ARMME----STDIVYVQGLSELECWSLFRRFALSGRTPSECDQLEGIGRGIVRKCKGLPL  385 (583)
Q Consensus       318 s~IlvTtR~~~v-~~~~~----~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~~~I~~~c~GlPL  385 (583)
                      .-||.||....- ...+.    -...+++++.+.++-.++|+.+..... .....++    .+|++++.|...
T Consensus       147 v~vi~ttn~~~~ld~al~r~gRf~~~i~~~~p~~~~R~~il~~~l~~~~-~~~~~~l----~~la~~t~g~s~  214 (265)
T d1r7ra3         147 VFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSP-VAKDVDL----EFLAKMTNGFSG  214 (265)
T ss_dssp             CEEEECCBSCTTTSCGGGSSTTSEEEEECCCCCCHHHHHHHHHHTTCC-----CCCC----HHHHHHHCSSCC
T ss_pred             EEEEEeCCCchhCCHHHhCCCCccEEEEecchHHHHHHHHHHHHhccCC-chhhhhH----HHHHhcCCCCCH
Confidence            556667765432 22221    246789999999999999987653211 1111122    457778777553

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=97.72  E-value=3.7e-05  Score=71.32  Aligned_cols=52  Identities=12%  Similarity=0.052  Sum_probs=34.9

Q ss_pred             CceeechhHHHHHHHHhhcCC---CCCCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          180 SEVRGRDEEMRSIKSMLLCQG---SDQQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~~~~---~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..++|..+.++.+.+-+..-.   ........+-|.++|++|+|||+||+.+++.
T Consensus         9 ~~~i~~~~~i~~i~~~~~~~~~~~~~~~~~p~~~vLL~GppGtGKT~la~alA~~   63 (246)
T d1d2na_           9 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEE   63 (246)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             cCCcCcCHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECcCCCCHHHHHHHHhhc
Confidence            347887777666655443000   0001234677889999999999999999973

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=97.58  E-value=0.00021  Score=63.67  Aligned_cols=132  Identities=10%  Similarity=-0.012  Sum_probs=76.9

Q ss_pred             HHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCc--cccccCceEEEEEeCC-CCChHHHHHHHHHHhh
Q 036323          188 EMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDN--DVINNFEIRVRVCVSD-PFDEFNVAKATIEELE  264 (583)
Q Consensus       188 e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~--~~~~~f~~~~wv~~~~-~~~~~~~~~~il~~l~  264 (583)
                      +++.+.+++..       .....+.++|.+|+|||++|..+.+..  ....|.|. +++.-.. ...+..+ +.+.+.+.
T Consensus         2 ~~~~l~~~i~~-------~~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~-~~i~~~~~~I~Id~I-R~i~~~~~   72 (198)
T d2gnoa2           2 QLETLKRIIEK-------SEGISILINGEDLSYPREVSLELPEYVEKFPPKASDV-LEIDPEGENIGIDDI-RTIKDFLN   72 (198)
T ss_dssp             HHHHHHHHHHT-------CSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTE-EEECCSSSCBCHHHH-HHHHHHHT
T ss_pred             HHHHHHHHHhc-------CCCceEEEECCCCCCHHHHHHHHHHHHhccccCCCCE-EEEeCCcCCCCHHHH-HHHHHHHh
Confidence            34555666643       347789999999999999998877632  11223343 3332211 1122221 22333322


Q ss_pred             cCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCch-HHHhhhcC-CCeEEcC
Q 036323          265 GSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKE-TVARMMES-TDIVYVQ  342 (583)
Q Consensus       265 ~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~-~v~~~~~~-~~~~~l~  342 (583)
                      ..+                ..+++=++|+|+++..+...+..|+..+.....++.+|++|.+. .+.....+ ...+.+.
T Consensus        73 ~~~----------------~~~~~KviIId~ad~l~~~aqNaLLK~LEEPp~~t~fiLit~~~~~ll~TI~SRC~~i~~~  136 (198)
T d2gnoa2          73 YSP----------------ELYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSRVFRVVVN  136 (198)
T ss_dssp             SCC----------------SSSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECC
T ss_pred             hCc----------------ccCCCEEEEEeCccccchhhhhHHHHHHhCCCCCceeeeccCChhhCHHHHhcceEEEeCC
Confidence            221                12455599999998877778888888887766777777766654 33332222 4556665


Q ss_pred             CC
Q 036323          343 GL  344 (583)
Q Consensus       343 ~L  344 (583)
                      +.
T Consensus       137 ~p  138 (198)
T d2gnoa2         137 VP  138 (198)
T ss_dssp             CC
T ss_pred             Cc
Confidence            43

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=97.44  E-value=0.00015  Score=69.64  Aligned_cols=136  Identities=18%  Similarity=0.292  Sum_probs=70.5

Q ss_pred             ceeechhHHHHHHHHhhcCCC--CCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          181 EVRGRDEEMRSIKSMLLCQGS--DQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       181 ~~vGR~~e~~~l~~~L~~~~~--~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      .++|.+..++.+...+.....  ........++.++|++|+|||.||+.+.+.  .-..-...+-++.+...+...+   
T Consensus        24 ~v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~--l~~~~~~~~~~~~~~~~~~~~~---   98 (315)
T d1qvra3          24 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAAT--LFDTEEAMIRIDMTEYMEKHAV---   98 (315)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHH--HHSSGGGEEEECTTTCCSSGGG---
T ss_pred             eEeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHH--hcCCCcceEEEeccccccchhh---
Confidence            467888888877665532110  012233457889999999999999888763  1111112233344433222211   


Q ss_pred             HHHHhhcCccc---cccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccC----C-------CCceEEEec
Q 036323          259 TIEELEGSAID---LHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNG----L-------RGSKILITT  324 (583)
Q Consensus       259 il~~l~~~~~~---~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~----~-------~gs~IlvTt  324 (583)
                        ..+.+.++.   ......+...++   +....+++||+++......++.+...+..+    .       .++.+|+||
T Consensus        99 --~~L~g~~~gyvG~~~~~~l~~~~~---~~p~~Vvl~DEieK~~~~v~~~ll~~l~~g~~~~~~gr~v~~~~~i~i~ts  173 (315)
T d1qvra3          99 --SRLIGAPPGYVGYEEGGQLTEAVR---RRPYSVILFDEIEKAHPDVFNILLQILDDGRLTDSHGRTVDFRNTVIILTS  173 (315)
T ss_dssp             --GGC--------------CHHHHHH---HCSSEEEEESSGGGSCHHHHHHHHHHHTTTEECCSSSCCEECTTEEEEEEC
T ss_pred             --hhhcCCCCCCcCcccCChHHHHHH---hCCCcEEEEehHhhcCHHHHHHHHHHhccCceeCCCCcEecCcceEEEEec
Confidence              111111111   000112333333   245679999999876666677766665332    1       245577777


Q ss_pred             Cc
Q 036323          325 RK  326 (583)
Q Consensus       325 R~  326 (583)
                      .-
T Consensus       174 nl  175 (315)
T d1qvra3         174 NL  175 (315)
T ss_dssp             CT
T ss_pred             cc
Confidence            63

>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=97.26  E-value=0.00024  Score=68.28  Aligned_cols=132  Identities=17%  Similarity=0.234  Sum_probs=73.0

Q ss_pred             ceeechhHHHHHHHHhhcCC--CCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          181 EVRGRDEEMRSIKSMLLCQG--SDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       181 ~~vGR~~e~~~l~~~L~~~~--~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      .++|.++.++.+...+....  -...+....++.++|++|+|||.||+.+..-  .   +...+-++++.-.+...    
T Consensus        23 ~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~--l---~~~~i~~d~s~~~~~~~----   93 (315)
T d1r6bx3          23 LVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKA--L---GIELLRFDMSEYMERHT----   93 (315)
T ss_dssp             TSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHH--H---TCEEEEEEGGGCSSSSC----
T ss_pred             eecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhh--c---cCCeeEeccccccchhh----
Confidence            46888888888877663111  0112344568889999999999999998872  2   23344445443221111    


Q ss_pred             HHHHhhcCccccc--cH-HHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccC-----------CCCceEEEec
Q 036323          259 TIEELEGSAIDLH--EL-NSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNG-----------LRGSKILITT  324 (583)
Q Consensus       259 il~~l~~~~~~~~--~~-~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~-----------~~gs~IlvTt  324 (583)
                       ...+.+..+.-.  +. ..+...+   ......+++||++.....+.|..+...+..+           ...+-+|+||
T Consensus        94 -~~~l~g~~~gy~g~~~~~~l~~~~---~~~~~~vvl~DeieKa~~~V~~~lLqild~G~ltd~~Gr~vdf~n~iiI~Ts  169 (315)
T d1r6bx3          94 -VSRLIGAPPGYVGFDQGGLLTDAV---IKHPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDNNGRKADFRNVVLVMTT  169 (315)
T ss_dssp             -CSSSCCCCSCSHHHHHTTHHHHHH---HHCSSEEEEEETGGGSCHHHHHHHHHHHHHSEEEETTTEEEECTTEEEEEEE
T ss_pred             -hhhhcccCCCccccccCChhhHHH---HhCccchhhhcccccccchHhhhhHHhhccceecCCCCCccCccceEEEecc
Confidence             011112211110  00 1122222   2355679999999877777777777766321           2345566676


Q ss_pred             C
Q 036323          325 R  325 (583)
Q Consensus       325 R  325 (583)
                      .
T Consensus       170 n  170 (315)
T d1r6bx3         170 N  170 (315)
T ss_dssp             C
T ss_pred             c
Confidence            5

>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=97.05  E-value=0.0032  Score=57.73  Aligned_cols=45  Identities=20%  Similarity=0.213  Sum_probs=35.3

Q ss_pred             ceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHc
Q 036323          181 EVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       181 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      +|||....++++.+.+..-.     ....-|.|.|..|+|||++|+.++.
T Consensus         1 ~~v~~S~~~~~~~~~~~~~a-----~~~~pvlI~Ge~GtGK~~~A~~ih~   45 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIKKIS-----CAECPVLITGESGVGKEVVARLIHK   45 (247)
T ss_dssp             CCCCCSHHHHHHHHHHHHHT-----TCCSCEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEecCHHHHHHHHHHHHHh-----CCCCCEEEECCCCcCHHHHHHHHHH
Confidence            47899888888888876543     1222468999999999999999976

>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=96.67  E-value=0.0021  Score=59.64  Aligned_cols=84  Identities=15%  Similarity=0.053  Sum_probs=59.2

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCcc-----ccccHHHHHHHH
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAI-----DLHELNSLLRRI  280 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~-----~~~~~~~~~~~l  280 (583)
                      +..+++-|.|.+|+|||+||..++...  +..=..++|++....++..     +++.++....     ...+.++..+.+
T Consensus        55 p~g~itei~G~~~sGKT~l~l~~~~~a--qk~g~~v~yiDtE~~~~~~-----~a~~~Gvd~d~i~~~~~~~~E~~~~~~  127 (268)
T d1xp8a1          55 PRGRITEIYGPESGGKTTLALAIVAQA--QKAGGTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIM  127 (268)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHH--HHTTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             cCceEEEEecCCccchHHHHHHHHHHH--HhCCCEEEEEECCccCCHH-----HHHHhCCCchhEEEEcCCCHHHHHHHH
Confidence            456799999999999999998887642  2222458899998888774     5666665533     234566666666


Q ss_pred             HHHhcC-CceeEEEcCC
Q 036323          281 GANIAG-QKFFMVLDNL  296 (583)
Q Consensus       281 ~~~l~~-k~~LlVlDdv  296 (583)
                      ....+. ..-|||+|-+
T Consensus       128 ~~l~~~~~~~liIiDSi  144 (268)
T d1xp8a1         128 ELLVRSGAIDVVVVDSV  144 (268)
T ss_dssp             HHHHTTTCCSEEEEECT
T ss_pred             HHHHhcCCCcEEEEecc
Confidence            665544 4568999988

>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=96.67  E-value=0.00046  Score=59.82  Aligned_cols=25  Identities=20%  Similarity=0.139  Sum_probs=22.5

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .+..+|.|+|++|+||||+|+.+..
T Consensus         4 ~~g~~I~l~G~~GsGKTTia~~La~   28 (183)
T d1m8pa3           4 TQGFTIFLTGYMNSGKDAIARALQV   28 (183)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4567899999999999999999987

>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=96.67  E-value=0.0033  Score=55.78  Aligned_cols=89  Identities=17%  Similarity=0.113  Sum_probs=51.8

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCCh--HHHHHHHHHHhhcCcc---ccccHHHHHHHH
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDE--FNVAKATIEELEGSAI---DLHELNSLLRRI  280 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~--~~~~~~il~~l~~~~~---~~~~~~~~~~~l  280 (583)
                      ..+.||.++|+.|+||||.+.+++....   .....+.+-..+.+..  .+-++...+.++.+..   ...+........
T Consensus         7 ~~p~vi~lvGptGvGKTTTiAKLA~~~~---~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~d~~~~l~~~   83 (211)
T d2qy9a2           7 KAPFVILMVGVNGVGKTTTIGKLARQFE---QQGKSVMLAAGDTFRAAAVEQLQVWGQRNNIPVIAQHTGADSASVIFDA   83 (211)
T ss_dssp             CTTEEEEEECCTTSCHHHHHHHHHHHHH---TTTCCEEEECCCTTCHHHHHHHHHHHHHTTCCEECCSTTCCHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH---HCCCcEEEEecccccccchhhhhhhhhhcCCcccccccCCCHHHHHHHH
Confidence            5578999999999999988777765322   1223444444454443  4556666777765532   233444444333


Q ss_pred             HHHhcCC-ceeEEEcCCC
Q 036323          281 GANIAGQ-KFFMVLDNLW  297 (583)
Q Consensus       281 ~~~l~~k-~~LlVlDdv~  297 (583)
                      .+..+.+ .=++++|=.-
T Consensus        84 ~~~a~~~~~d~ilIDTaG  101 (211)
T d2qy9a2          84 IQAAKARNIDVLIADTAG  101 (211)
T ss_dssp             HHHHHHTTCSEEEECCCC
T ss_pred             HHHHHHcCCCEEEeccCC
Confidence            3322222 3478888763

>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=96.64  E-value=0.0028  Score=58.62  Aligned_cols=85  Identities=18%  Similarity=0.110  Sum_probs=59.4

Q ss_pred             CCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCcc-----ccccHHHHHHH
Q 036323          205 TNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAI-----DLHELNSLLRR  279 (583)
Q Consensus       205 ~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~-----~~~~~~~~~~~  279 (583)
                      -+..+++-|.|.+|+|||+||..++..  .+..-..++|++....++...     +++++....     .....++..+.
T Consensus        57 ~~~g~i~e~~G~~~~GKT~l~l~~~~~--~q~~g~~~vyIDtE~~~~~e~-----a~~~GvD~d~il~~~~~~~E~~~~~  129 (269)
T d1mo6a1          57 LPRGRVIEIYGPESSGKTTVALHAVAN--AQAAGGVAAFIDAEHALDPDY-----AKKLGVDTDSLLVSQPDTGEQALEI  129 (269)
T ss_dssp             BCSSSEEEEECSSSSSHHHHHHHHHHH--HHHTTCEEEEEESSCCCCHHH-----HHHHTCCGGGCEEECCSSHHHHHHH
T ss_pred             cccceeEEEecCCCcHHHHHHHHHHHH--HhcCCCEEEEEECCccCCHHH-----HHHhCCCHHHeEEecCCCHHHHHHH
Confidence            356789999999999999999887764  333334689999998887653     455555432     23456666665


Q ss_pred             HHHHhc-CCceeEEEcCC
Q 036323          280 IGANIA-GQKFFMVLDNL  296 (583)
Q Consensus       280 l~~~l~-~k~~LlVlDdv  296 (583)
                      +..... ++.-|||+|.+
T Consensus       130 ~~~l~~~~~~~liIiDSi  147 (269)
T d1mo6a1         130 ADMLIRSGALDIVVIDSV  147 (269)
T ss_dssp             HHHHHHTTCEEEEEEECS
T ss_pred             HHHHHhcCCCCEEEEecc
Confidence            555554 44679999998

>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=96.63  E-value=0.00042  Score=60.42  Aligned_cols=24  Identities=17%  Similarity=0.259  Sum_probs=21.9

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      -.+.|+|.|++|+||||||+.+.+
T Consensus         6 ~~K~I~i~G~~GsGKTTla~~La~   29 (192)
T d1lw7a2           6 FAKTVAILGGESSGKSVLVNKLAA   29 (192)
T ss_dssp             TCEEEEEECCTTSHHHHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHH
Confidence            367899999999999999999887

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=96.59  E-value=0.00047  Score=58.17  Aligned_cols=22  Identities=36%  Similarity=0.451  Sum_probs=19.7

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ++|.|+|++|+||||||+.+..
T Consensus         3 klIii~G~pGsGKTTla~~L~~   24 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIA   24 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            5788999999999999998865

>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=96.55  E-value=0.0011  Score=58.34  Aligned_cols=38  Identities=24%  Similarity=0.278  Sum_probs=27.9

Q ss_pred             HHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHc
Q 036323          189 MRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       189 ~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ++.|.+......    ..++-+|+|.|.+|+||||||+.+..
T Consensus         7 ~~~~~~~~~~~~----~~~~~iIgI~G~~GSGKSTla~~L~~   44 (198)
T d1rz3a_           7 IDFLCKTILAIK----TAGRLVLGIDGLSRSGKTTLANQLSQ   44 (198)
T ss_dssp             HHHHHHHHHTSC----CSSSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             HHHHHHHHHhcc----CCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            444444443332    34577999999999999999999876

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=96.52  E-value=0.00047  Score=59.24  Aligned_cols=23  Identities=26%  Similarity=0.456  Sum_probs=21.2

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .+|++|+|.+|+|||||++++.+
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~   24 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIP   24 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHH
Confidence            46899999999999999999986

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=96.49  E-value=0.00058  Score=58.72  Aligned_cols=22  Identities=23%  Similarity=0.415  Sum_probs=20.4

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ++|.|.|++|+||||+|+.+..
T Consensus         3 klI~i~G~~GsGKTTva~~L~~   24 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAA   24 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999999876

>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=96.49  E-value=0.00041  Score=59.09  Aligned_cols=22  Identities=32%  Similarity=0.400  Sum_probs=19.8

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .|.|+|++|+||||+|+.+...
T Consensus         4 ~I~l~G~~GsGKSTvak~La~~   25 (169)
T d1kaga_           4 NIFLVGPMGAGKSTIGRQLAQQ   25 (169)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            5788899999999999999873

>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=96.44  E-value=0.01  Score=53.35  Aligned_cols=53  Identities=21%  Similarity=0.208  Sum_probs=32.7

Q ss_pred             HHHHHhcCCceeEEEcCCCc-ccccchHhhHHhhcc--CCCCceEEEecCchHHHh
Q 036323          279 RIGANIAGQKFFMVLDNLWT-DDYRKWEPFRNCLMN--GLRGSKILITTRKETVAR  331 (583)
Q Consensus       279 ~l~~~l~~k~~LlVlDdv~~-~~~~~~~~l~~~l~~--~~~gs~IlvTtR~~~v~~  331 (583)
                      .+...|..++-+|++|..-. -|+..-..+...+..  ...|..||++|-+..++.
T Consensus       155 aIAraL~~~P~lLllDEPTs~LD~~~~~~i~~~l~~l~~~~g~tii~vTHd~~~a~  210 (230)
T d1l2ta_         155 AIARALANNPPIILADQPTGALDSKTGEKIMQLLKKLNEEDGKTVVVVTHDINVAR  210 (230)
T ss_dssp             HHHHHHTTCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHTTCCEEEEECSCHHHHT
T ss_pred             HHHhhhhcCCCEEEecCCccccCHHHHHHHHHHHHHHHHhhCCEEEEECCCHHHHH
Confidence            45555667788999998733 122222333443432  245778899998888775

>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=96.41  E-value=0.0013  Score=61.23  Aligned_cols=27  Identities=22%  Similarity=0.385  Sum_probs=23.6

Q ss_pred             CCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          205 TNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       205 ~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...++.|.++|++|+||||||+.+++.
T Consensus        29 ~~~P~~ilL~GpPGtGKT~la~~la~~   55 (273)
T d1gvnb_          29 VESPTAFLLGGQPGSGKTSLRSAIFEE   55 (273)
T ss_dssp             CSSCEEEEEECCTTSCTHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            356778999999999999999999883

>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=96.41  E-value=0.0038  Score=57.64  Aligned_cols=84  Identities=17%  Similarity=0.095  Sum_probs=56.5

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcCcc-----ccccHHHHHHHH
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGSAI-----DLHELNSLLRRI  280 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~-----~~~~~~~~~~~l  280 (583)
                      +..+++-|+|.+|+||||||.+++..  .+..=..++|++....++..     .++.++....     .....++..+.+
T Consensus        52 ~~g~itei~G~~gsGKTtl~l~~~~~--~q~~g~~~vyidtE~~~~~~-----~a~~~Gvd~d~v~~~~~~~~E~~~~~i  124 (263)
T d1u94a1          52 PMGRIVEIYGPESSGKTTLTLQVIAA--AQREGKTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDTGEQALEIC  124 (263)
T ss_dssp             ETTSEEEEECSTTSSHHHHHHHHHHH--HHHTTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             cCceEEEEecCCCcHHHHHHHHHHHH--HHcCCCEEEEEccccccCHH-----HHHHhCCCHHHEEEecCCCHHHHHHHH
Confidence            34569999999999999999888774  33333457899988887764     3455554432     233455555555


Q ss_pred             HHHhc-CCceeEEEcCC
Q 036323          281 GANIA-GQKFFMVLDNL  296 (583)
Q Consensus       281 ~~~l~-~k~~LlVlDdv  296 (583)
                      ....+ ++.-|+|+|-+
T Consensus       125 ~~l~~~~~~~liViDSi  141 (263)
T d1u94a1         125 DALARSGAVDVIVVDSV  141 (263)
T ss_dssp             HHHHHHTCCSEEEEECG
T ss_pred             HHHHhcCCCCEEEEECc
Confidence            55444 34458888987

>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=96.38  E-value=0.0027  Score=57.30  Aligned_cols=23  Identities=30%  Similarity=0.507  Sum_probs=20.3

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||.+.+..
T Consensus        26 Gei~~liGpsGsGKSTLl~~i~G   48 (232)
T d2awna2          26 GEFVVFVGPSGCGKSTLLRMIAG   48 (232)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHhc
Confidence            45899999999999999999854

>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=96.37  E-value=0.00094  Score=58.95  Aligned_cols=25  Identities=20%  Similarity=0.246  Sum_probs=22.8

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+.+|.|+|++|+||||+|+.+++
T Consensus         4 ~kp~iI~i~G~pGSGKsT~a~~La~   28 (194)
T d1qf9a_           4 SKPNVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            4578999999999999999999987

>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=96.34  E-value=0.00096  Score=58.66  Aligned_cols=24  Identities=25%  Similarity=0.338  Sum_probs=21.6

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      +..+|.++|++|+||||+|+.+..
T Consensus        18 ~g~vI~L~G~pGSGKTTiAk~La~   41 (195)
T d1x6va3          18 RGCTVWLTGLSGAGKTTVSMALEE   41 (195)
T ss_dssp             CCEEEEEESSCHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            456889999999999999999976

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=96.34  E-value=0.0045  Score=55.08  Aligned_cols=90  Identities=18%  Similarity=0.130  Sum_probs=50.1

Q ss_pred             CCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCC-CCChHHHHHHHHHHhhcCcc---ccccHHHHHHHH
Q 036323          205 TNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSD-PFDEFNVAKATIEELEGSAI---DLHELNSLLRRI  280 (583)
Q Consensus       205 ~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~il~~l~~~~~---~~~~~~~~~~~l  280 (583)
                      ...+.||.++|+.|+||||.+.+++...  ..+-..+..+++.. .....+.++...+.++....   ...+........
T Consensus         8 ~~~p~vi~lvGptGvGKTTTiAKLAa~~--~~~~~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~~~~~~~~d~~~~~~~~   85 (213)
T d1vmaa2           8 PEPPFVIMVVGVNGTGKTTSCGKLAKMF--VDEGKSVVLAAADTFRAAAIEQLKIWGERVGATVISHSEGADPAAVAFDA   85 (213)
T ss_dssp             SSSCEEEEEECCTTSSHHHHHHHHHHHH--HHTTCCEEEEEECTTCHHHHHHHHHHHHHHTCEEECCSTTCCHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHH--HHCCCceEEEeecccccchhHHHHHHhhhcCccccccCCCCcHHHHHHHH
Confidence            3568899999999999998776666532  22223455555543 22344566666666664422   223333333222


Q ss_pred             HH-HhcCCceeEEEcCC
Q 036323          281 GA-NIAGQKFFMVLDNL  296 (583)
Q Consensus       281 ~~-~l~~k~~LlVlDdv  296 (583)
                      .. ...+..=++++|=.
T Consensus        86 ~~~~~~~~~d~ilIDTa  102 (213)
T d1vmaa2          86 VAHALARNKDVVIIDTA  102 (213)
T ss_dssp             HHHHHHTTCSEEEEEEC
T ss_pred             HHHHHHcCCCEEEEecc
Confidence            22 11223347777866

>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=96.29  E-value=0.0032  Score=57.01  Aligned_cols=21  Identities=24%  Similarity=0.412  Sum_probs=19.5

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 036323          210 IISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      +++|+|+.|+|||||.+.++.
T Consensus        26 ~~~liGpnGaGKSTll~~i~G   46 (240)
T d2onka1          26 YCVLLGPTGAGKSVFLELIAG   46 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCChHHHHHHHHHc
Confidence            778999999999999999976

>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=96.28  E-value=0.00062  Score=59.17  Aligned_cols=23  Identities=35%  Similarity=0.440  Sum_probs=20.3

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      +.|.|+|++|+|||||++.++..
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~   24 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEV   24 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHHH
Confidence            46899999999999999998764

>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=96.26  E-value=0.00079  Score=57.83  Aligned_cols=22  Identities=36%  Similarity=0.475  Sum_probs=19.3

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..|.|+|++|+||||+|+.+..
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~   26 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELAS   26 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3467999999999999999976

>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=96.24  E-value=0.0011  Score=56.90  Aligned_cols=25  Identities=24%  Similarity=0.442  Sum_probs=22.8

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...+++.|.|++|+||||+|+.+..
T Consensus         4 ~~~~iivl~G~~GsGKsT~a~~La~   28 (171)
T d1knqa_           4 HDHHIYVLMGVSGSGKSAVASEVAH   28 (171)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4578999999999999999999887

>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=96.19  E-value=0.0094  Score=54.08  Aligned_cols=23  Identities=39%  Similarity=0.632  Sum_probs=20.6

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...++|+|..|+|||||++.+..
T Consensus        29 Ge~vaIvG~sGsGKSTLl~ll~g   51 (241)
T d2pmka1          29 GEVIGIVGRSGSGKSTLTKLIQR   51 (241)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            35899999999999999999865

>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=96.18  E-value=0.0097  Score=53.81  Aligned_cols=55  Identities=18%  Similarity=0.190  Sum_probs=32.6

Q ss_pred             HHHHHhcCCceeEEEcCCCc-ccccchHhhHHhhcc--CCCCceEEEecCchHHHhhh
Q 036323          279 RIGANIAGQKFFMVLDNLWT-DDYRKWEPFRNCLMN--GLRGSKILITTRKETVARMM  333 (583)
Q Consensus       279 ~l~~~l~~k~~LlVlDdv~~-~~~~~~~~l~~~l~~--~~~gs~IlvTtR~~~v~~~~  333 (583)
                      .+...|..++-+|++|.--. -|...-..+...+..  ...|..||++|-+-..+..+
T Consensus       149 ~IAraL~~~P~iLllDEPt~~LD~~~~~~i~~~l~~l~~~~g~tvi~vTHd~~~~~~~  206 (240)
T d1g2912         149 ALGRAIVRKPQVFLMDEPLSNLDAKLRVRMRAELKKLQRQLGVTTIYVTHDQVEAMTM  206 (240)
T ss_dssp             HHHHHHHTCCSEEEEECTTTTSCHHHHHHHHHHHHHHHHHHTCEEEEEESCHHHHHHH
T ss_pred             HHHHHHhcCCCEEEecCCCcccCHHHHHHHHHHHHHHHhccCCEEEEEcCCHHHHHHh
Confidence            45556677889999998633 122222223333322  12377899999987766554

>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=96.18  E-value=0.0076  Score=56.79  Aligned_cols=80  Identities=16%  Similarity=0.104  Sum_probs=45.8

Q ss_pred             CCceEEEEEEecCCchHHHHHHHHHcCccccccC--ceEEEEEeCCCCChHHHHHHHHHHhh--cCccccccHHHHHHHH
Q 036323          205 TNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNF--EIRVRVCVSDPFDEFNVAKATIEELE--GSAIDLHELNSLLRRI  280 (583)
Q Consensus       205 ~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f--~~~~wv~~~~~~~~~~~~~~il~~l~--~~~~~~~~~~~~~~~l  280 (583)
                      ...+-+|+|.|.+|+||||+|+.+...  ....+  ..+.-++..+-+-....+..  ..+.  ...++.-+.+.+.+.|
T Consensus        77 ~k~P~iIGIaG~sgSGKSTla~~L~~l--L~~~~~~~~v~~Is~D~F~~~~~~l~~--~~~~~~~g~Pes~D~~~L~~~L  152 (308)
T d1sq5a_          77 QRIPYIISIAGSVAVGKSTTARVLQAL--LSRWPEHRRVELITTDGFLHPNQVLKE--RGLMKKKGFPESYDMHRLVKFV  152 (308)
T ss_dssp             CCCCEEEEEEECTTSSHHHHHHHHHHH--HTTSTTCCCEEEEEGGGGBCCHHHHHH--HTCTTCTTSGGGBCHHHHHHHH
T ss_pred             CCCCEEEEEeCCCCCCCcHHHHHHHHH--HhhhcCCCceEEEeeeeeECCchHHHH--hcCCccCCchHhhhHHHHHHHH
Confidence            466889999999999999999888652  22111  12333343332222222211  1111  1123566788888888


Q ss_pred             HHHhcCCc
Q 036323          281 GANIAGQK  288 (583)
Q Consensus       281 ~~~l~~k~  288 (583)
                      .....++.
T Consensus       153 ~~lk~g~~  160 (308)
T d1sq5a_         153 SDLKSGVP  160 (308)
T ss_dssp             HHHTTTCS
T ss_pred             HHHHcCCC
Confidence            77766654

>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=96.13  E-value=0.0011  Score=57.17  Aligned_cols=23  Identities=17%  Similarity=0.306  Sum_probs=21.2

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .++|.|.|.+|+||||+|+.+.+
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~   25 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQS   25 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999987

>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=96.13  E-value=0.0012  Score=57.15  Aligned_cols=25  Identities=28%  Similarity=0.424  Sum_probs=22.5

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      +.+.+|.++|++|+||||+|+.+..
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            5678999999999999999998865

>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=96.12  E-value=0.01  Score=53.61  Aligned_cols=55  Identities=18%  Similarity=0.166  Sum_probs=32.6

Q ss_pred             HHHHHhcCCceeEEEcCCCc-ccccchHhhHHhhcc--CCCCceEEEecCchHHHhhh
Q 036323          279 RIGANIAGQKFFMVLDNLWT-DDYRKWEPFRNCLMN--GLRGSKILITTRKETVARMM  333 (583)
Q Consensus       279 ~l~~~l~~k~~LlVlDdv~~-~~~~~~~~l~~~l~~--~~~gs~IlvTtR~~~v~~~~  333 (583)
                      .+...|..++-+|++|.--. -|...-..+...+..  ...|..||++|-+...+..+
T Consensus       150 aiAraL~~~P~lLllDEPt~~LD~~~~~~i~~~l~~l~~~~g~tvi~vTHdl~~~~~~  207 (240)
T d3dhwc1         150 AIARALASNPKVLLCDEATSALDPATTRSILELLKDINRRLGLTILLITHEMDVVKRI  207 (240)
T ss_dssp             HHHHHHHTCCSEEEEESGGGSSCHHHHHHHHHHHHHHHHHHCCEEEEEBSCHHHHHHH
T ss_pred             HHhhhhccCCCeEEeccccccCCHHHhhHHHHHHHHHHhccCCEEEEEcCCHHHHHHh
Confidence            34455667789999998632 222222223333332  22377899999987776654

>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=96.12  E-value=0.0044  Score=54.89  Aligned_cols=89  Identities=12%  Similarity=0.028  Sum_probs=51.2

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCC-CCChHHHHHHHHHHhhcCcc---ccccHHHHHHHHH
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSD-PFDEFNVAKATIEELEGSAI---DLHELNSLLRRIG  281 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~il~~l~~~~~---~~~~~~~~~~~l~  281 (583)
                      ++.+++.++|+.|+||||.+.+++...... . ..+..++... .....+.++...+.++....   ...+.........
T Consensus         4 ~~~~vi~lvGptGvGKTTTiaKLA~~~~~~-g-~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~~~~~~~~d~~~~~~~~~   81 (207)
T d1okkd2           4 PKGRVVLVVGVNGVGKTTTIAKLGRYYQNL-G-KKVMFCAGDTFRAAGGTQLSEWGKRLSIPVIQGPEGTDPAALAYDAV   81 (207)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHHHHHTT-T-CCEEEECCCCSSTTHHHHHHHHHHHHTCCEECCCTTCCHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHC-C-CcEEEEEeccccccchhhHhhcccccCceEEeccCCccHHHHHHHHH
Confidence            456899999999999998877776532222 2 3455665543 44566777777777776532   2233333332222


Q ss_pred             HHhc-CCceeEEEcCC
Q 036323          282 ANIA-GQKFFMVLDNL  296 (583)
Q Consensus       282 ~~l~-~k~~LlVlDdv  296 (583)
                      .... ...=+|++|=.
T Consensus        82 ~~~~~~~~d~ilIDTa   97 (207)
T d1okkd2          82 QAMKARGYDLLFVDTA   97 (207)
T ss_dssp             HHHHHHTCSEEEECCC
T ss_pred             HHHHHCCCCEEEcCcc
Confidence            1111 22346677765

>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=96.12  E-value=0.0012  Score=58.93  Aligned_cols=24  Identities=29%  Similarity=0.358  Sum_probs=21.5

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      +.+|.++|.+|+||||||+++++.
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~   25 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRY   25 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
Confidence            568999999999999999999863

>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=96.12  E-value=0.0015  Score=56.30  Aligned_cols=25  Identities=32%  Similarity=0.364  Sum_probs=22.1

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..++|.|.|++|+||||+|+.+.+.
T Consensus         3 ~g~iI~l~G~~GsGKSTia~~La~~   27 (176)
T d1zp6a1           3 GGNILLLSGHPGSGKSTIAEALANL   27 (176)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3579999999999999999999773

>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=96.11  E-value=0.0014  Score=57.82  Aligned_cols=26  Identities=27%  Similarity=0.374  Sum_probs=23.5

Q ss_pred             CCceEEEEEEecCCchHHHHHHHHHc
Q 036323          205 TNTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       205 ~~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .+..++|.|.|++|+||||+|+.+++
T Consensus         5 ~~~~~iI~i~GppGSGKsT~a~~La~   30 (196)
T d1ukza_           5 PDQVSVIFVLGGPGAGKGTQCEKLVK   30 (196)
T ss_dssp             TTTCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHH
Confidence            35688999999999999999999987

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=96.10  E-value=0.0061  Score=54.00  Aligned_cols=59  Identities=17%  Similarity=0.039  Sum_probs=36.2

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCC-CCChHHHHHHHHHHhhcC
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSD-PFDEFNVAKATIEELEGS  266 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~il~~l~~~  266 (583)
                      .+.+|+.++|+.|+||||.+.+++....  .+-..+..+++.. .....+.++...+.++.+
T Consensus         8 ~~~~vi~lvGp~GvGKTTTiaKLA~~~~--~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~   67 (207)
T d1ls1a2           8 KDRNLWFLVGLQGSGKTTTAAKLALYYK--GKGRRPLLVAADTQRPAAREQLRLLGEKVGVP   67 (207)
T ss_dssp             CSSEEEEEECCTTTTHHHHHHHHHHHHH--HTTCCEEEEECCSSCHHHHHHHHHHHHHHTCC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHH--HCCCcEEEEecccccchHHHHHHHHHHhcCCc
Confidence            3468999999999999988877665322  2222344444422 223445566666666654

>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=96.07  E-value=0.0014  Score=56.44  Aligned_cols=25  Identities=28%  Similarity=0.351  Sum_probs=21.4

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      +..-.|.|.|++|+||||+|+.+..
T Consensus         3 pk~~~I~i~G~~GsGKTT~~~~La~   27 (174)
T d1y63a_           3 PKGINILITGTPGTGKTSMAEMIAA   27 (174)
T ss_dssp             CSSCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCEEEEEeCCCCCHHHHHHHHHH
Confidence            3455688999999999999999987

>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=96.05  E-value=0.015  Score=53.28  Aligned_cols=23  Identities=30%  Similarity=0.468  Sum_probs=20.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||++.+..
T Consensus        28 GEi~~iiG~sGsGKSTLl~~i~G   50 (258)
T d1b0ua_          28 GDVISIIGSSGSGKSTFLRCINF   50 (258)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHHc
Confidence            45899999999999999999965

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=96.03  E-value=0.0033  Score=55.92  Aligned_cols=91  Identities=13%  Similarity=0.087  Sum_probs=45.8

Q ss_pred             CCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCC-CCChHHHHHHHHHHhhcCcc---ccccHHHHH-HH
Q 036323          205 TNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSD-PFDEFNVAKATIEELEGSAI---DLHELNSLL-RR  279 (583)
Q Consensus       205 ~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~il~~l~~~~~---~~~~~~~~~-~~  279 (583)
                      ...+.||.++|+.|+||||.+.+++.... .... .+..+++.. .....+.++...+.++....   ...+..... +.
T Consensus         9 ~k~p~vi~lvGptGvGKTTTiAKLA~~~~-~~g~-kV~lit~Dt~R~ga~eQL~~~a~~l~v~~~~~~~~~~~~~~~~~a   86 (211)
T d1j8yf2           9 DKIPYVIMLVGVQGTGKATTAGKLAYFYK-KKGF-KVGLVGADVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIAKRG   86 (211)
T ss_dssp             SSSSEEEEEECSCCC----HHHHHHHHHH-HTTC-CEEEEECCCSSHHHHHHHHHHHHHHTCCEECCTTCCCHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHH-HCCC-ceEEEEeeccccchhHHHHHhccccCcceeecccchhhhHHHHHH
Confidence            35689999999999999987766655322 2222 355555432 22334555666666665532   222322222 22


Q ss_pred             HHHHhcCCceeEEEcCCC
Q 036323          280 IGANIAGQKFFMVLDNLW  297 (583)
Q Consensus       280 l~~~l~~k~~LlVlDdv~  297 (583)
                      +........=++++|=.-
T Consensus        87 ~~~~~~~~~d~IlIDTaG  104 (211)
T d1j8yf2          87 VEKFLSEKMEIIIVDTAG  104 (211)
T ss_dssp             HHHHHHTTCSEEEEECCC
T ss_pred             HHHhhccCCceEEEecCC
Confidence            222223344577777653

>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=96.03  E-value=0.0076  Score=54.52  Aligned_cols=55  Identities=13%  Similarity=0.211  Sum_probs=32.8

Q ss_pred             HHHHHhcCCceeEEEcCCCc-ccccchHhhHHhhcc--CCCCceEEEecCchHHHhhh
Q 036323          279 RIGANIAGQKFFMVLDNLWT-DDYRKWEPFRNCLMN--GLRGSKILITTRKETVARMM  333 (583)
Q Consensus       279 ~l~~~l~~k~~LlVlDdv~~-~~~~~~~~l~~~l~~--~~~gs~IlvTtR~~~v~~~~  333 (583)
                      .+.+.|-.++-+|++|..-. -|+..-..+...+..  ...|..||++|-+...+..+
T Consensus       150 aiARaL~~~P~llllDEPt~~LD~~~~~~i~~~i~~l~~~~g~tvi~vTHd~~~~~~~  207 (242)
T d1oxxk2         150 ALARALVKDPSLLLLDEPFSNLDARMRDSARALVKEVQSRLGVTLLVVSHDPADIFAI  207 (242)
T ss_dssp             HHHHHHTTCCSEEEEESTTTTSCGGGHHHHHHHHHHHHHHHCCEEEEEESCHHHHHHH
T ss_pred             HHHhHHhhcccceeecCCccCCCHHHHHHHHHHHHHHHhccCCEEEEEECCHHHHHHh
Confidence            45566777899999998632 222222333333322  12367788888887665543

>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=95.95  E-value=0.0033  Score=57.29  Aligned_cols=41  Identities=24%  Similarity=0.215  Sum_probs=32.1

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCC
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSD  248 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~  248 (583)
                      +...++.|.|.+|+|||+||.++..+  ...+...++|++...
T Consensus        24 ~~gsl~li~G~pGsGKT~l~~qia~~--~~~~~~~~~~is~e~   64 (242)
T d1tf7a2          24 FKDSIILATGATGTGKTLLVSRFVEN--ACANKERAILFAYEE   64 (242)
T ss_dssp             ESSCEEEEEECTTSSHHHHHHHHHHH--HHTTTCCEEEEESSS
T ss_pred             cCCeEEEEEeCCCCCHHHHHHHHHHH--HHHhccccceeeccC
Confidence            45679999999999999999998874  444556677887654

>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=95.92  E-value=0.0014  Score=56.86  Aligned_cols=22  Identities=36%  Similarity=0.703  Sum_probs=20.4

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ++|+|.|++|+||||+++.+..
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~   23 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMD   23 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999999876

>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=95.84  E-value=0.03  Score=50.99  Aligned_cols=23  Identities=39%  Similarity=0.585  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...++|+|+.|+|||||++.+..
T Consensus        40 Ge~vaivG~sGsGKSTLl~li~g   62 (251)
T d1jj7a_          40 GEVTALVGPNGSGKSTVAALLQN   62 (251)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhc
Confidence            45899999999999999999865

>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=95.82  E-value=0.0018  Score=55.49  Aligned_cols=23  Identities=30%  Similarity=0.316  Sum_probs=20.9

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ++++|+|..|+|||||+.++...
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~   24 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAA   24 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHH
Confidence            58999999999999999998773

>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=95.81  E-value=0.011  Score=54.03  Aligned_cols=23  Identities=35%  Similarity=0.564  Sum_probs=20.5

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...++|+|+.|+|||||++.+..
T Consensus        41 Ge~iaivG~sGsGKSTLl~ll~g   63 (253)
T d3b60a1          41 GKTVALVGRSGSGKSTIASLITR   63 (253)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCChHHHHHHHHhc
Confidence            45899999999999999999864

>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=95.79  E-value=0.03  Score=50.04  Aligned_cols=23  Identities=26%  Similarity=0.375  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||.+.+..
T Consensus        26 Ge~~~liGpsGaGKSTll~~l~G   48 (229)
T d3d31a2          26 GEYFVILGPTGAGKTLFLELIAG   48 (229)
T ss_dssp             TCEEEEECCCTHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhc
Confidence            45899999999999999999965

>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=95.79  E-value=0.0016  Score=55.77  Aligned_cols=22  Identities=27%  Similarity=0.548  Sum_probs=18.4

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ++| ++|++|+||||+++.++..
T Consensus         3 ~Iv-liG~~G~GKSTig~~La~~   24 (165)
T d2iyva1           3 KAV-LVGLPGSGKSTIGRRLAKA   24 (165)
T ss_dssp             SEE-EECSTTSSHHHHHHHHHHH
T ss_pred             cEE-EECCCCCCHHHHHHHHHHH
Confidence            455 5599999999999999873

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=95.76  E-value=0.003  Score=57.20  Aligned_cols=23  Identities=26%  Similarity=0.434  Sum_probs=20.5

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||.+.+..
T Consensus        32 Ge~~~liGpsGaGKSTLl~~i~G   54 (239)
T d1v43a3          32 GEFLVLLGPSGCGKTTTLRMIAG   54 (239)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHHc
Confidence            35899999999999999999865

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=95.75  E-value=0.02  Score=51.83  Aligned_cols=24  Identities=33%  Similarity=0.425  Sum_probs=21.0

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ....++|+|+.|+|||||++.+..
T Consensus        27 ~Ge~vaivG~sGsGKSTLl~ll~g   50 (242)
T d1mv5a_          27 PNSIIAFAGPSGGGKSTIFSLLER   50 (242)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
Confidence            356899999999999999999854

>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=95.74  E-value=0.014  Score=52.88  Aligned_cols=23  Identities=30%  Similarity=0.501  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||.+.+..
T Consensus        28 Gei~glvG~nGaGKSTLl~~l~G   50 (238)
T d1vpla_          28 GEIFGLIGPNGAGKTTTLRIIST   50 (238)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            45899999999999999999865

>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=95.71  E-value=0.002  Score=54.93  Aligned_cols=21  Identities=43%  Similarity=0.632  Sum_probs=18.8

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |.|+|++|+||||+++.++..
T Consensus         3 I~liG~~GsGKsTi~k~La~~   23 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKD   23 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            677899999999999999874

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=95.69  E-value=0.0021  Score=55.51  Aligned_cols=21  Identities=38%  Similarity=0.547  Sum_probs=19.1

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |+|+|++|+|||||++.+...
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~   23 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVER   23 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCcHHHHHHHHHHhc
Confidence            789999999999999999763

>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=95.54  E-value=0.012  Score=53.83  Aligned_cols=23  Identities=39%  Similarity=0.559  Sum_probs=20.0

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...++|+|..|+|||||++.+..
T Consensus        44 Ge~vaivG~sGsGKSTLl~ll~g   66 (255)
T d2hyda1          44 GETVAFVGMSGGGKSTLINLIPR   66 (255)
T ss_dssp             TCEEEEECSTTSSHHHHHTTTTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHHh
Confidence            45899999999999999988754

>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=95.54  E-value=0.0021  Score=55.31  Aligned_cols=22  Identities=36%  Similarity=0.373  Sum_probs=19.1

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .|.++|++|+||||+|+.+++.
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~~   25 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELARA   25 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4668899999999999999873

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=95.52  E-value=0.0039  Score=59.28  Aligned_cols=51  Identities=24%  Similarity=0.296  Sum_probs=34.4

Q ss_pred             ceeechhHHHHHHHHhhc----CCCC---CCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          181 EVRGRDEEMRSIKSMLLC----QGSD---QQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       181 ~~vGR~~e~~~l~~~L~~----~~~~---~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .++|.++-++.|...+..    ..-.   .....++.+.++|++|+|||.||+.+++.
T Consensus        15 ~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~   72 (309)
T d1ofha_          15 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKL   72 (309)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             cccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhc
Confidence            568888888877665411    1000   00113467789999999999999999873

>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=95.51  E-value=0.0032  Score=54.79  Aligned_cols=23  Identities=26%  Similarity=0.367  Sum_probs=20.8

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ++|.|.|++|+||||+++.+...
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~   24 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEI   24 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            68899999999999999999763

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.49  E-value=0.0031  Score=55.34  Aligned_cols=23  Identities=22%  Similarity=0.254  Sum_probs=20.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      +.+|.|.|++|+||||+|+.+++
T Consensus         1 p~iI~i~GppGSGKsT~a~~La~   23 (194)
T d1teva_           1 PLVVFVLGGPGAGKGTQCARIVE   23 (194)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            35889999999999999999987

>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=95.39  E-value=0.026  Score=51.06  Aligned_cols=23  Identities=35%  Similarity=0.504  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|.|||||.+.+..
T Consensus        32 Gei~~liGpnGaGKSTl~~~i~G   54 (240)
T d1ji0a_          32 GQIVTLIGANGAGKTTTLSAIAG   54 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            35899999999999999999965

>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=95.31  E-value=0.016  Score=54.69  Aligned_cols=22  Identities=27%  Similarity=0.410  Sum_probs=19.4

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .++.++|++|+|||.||+.++.
T Consensus       124 g~~l~~G~pG~GKT~la~ala~  145 (321)
T d1w44a_         124 GMVIVTGKGNSGKTPLVHALGE  145 (321)
T ss_dssp             EEEEEECSSSSCHHHHHHHHHH
T ss_pred             ceEEEECCCCccHHHHHHHHHH
Confidence            4566789999999999999988

>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=95.31  E-value=0.0071  Score=57.69  Aligned_cols=64  Identities=13%  Similarity=-0.006  Sum_probs=33.1

Q ss_pred             HHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHH
Q 036323          190 RSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKA  258 (583)
Q Consensus       190 ~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  258 (583)
                      .++.+.+....     ++..+|+|+|.+|+|||||...+.......++=-+++=++-+.+.+-..++..
T Consensus        41 ~~ll~~~~~~~-----~~~~~IgitG~pGaGKSTLi~~l~~~~~~~g~~vavlavDpss~~~ggailgd  104 (327)
T d2p67a1          41 TQLLDAIMPYC-----GNTLRLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIAVDPSSPVTGGSILGD  104 (327)
T ss_dssp             HHHHHHHGGGC-----SCSEEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC-----------
T ss_pred             HHHHHHhhhcc-----CCceEEEeeCCCCCCHHHHHHHHHHHHHhcCCceeeecCCCceeeeccccccc
Confidence            44555554322     56889999999999999999888764222222123333444444444444433

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=95.23  E-value=0.0047  Score=54.96  Aligned_cols=25  Identities=28%  Similarity=0.271  Sum_probs=22.4

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .+..+|.+.|++|+||||||+.+..
T Consensus        22 ~kg~vIwltGlsGsGKTTia~~L~~   46 (208)
T d1m7ga_          22 QRGLTIWLTGLSASGKSTLAVELEH   46 (208)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4577999999999999999999876

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.20  E-value=0.0045  Score=55.24  Aligned_cols=24  Identities=17%  Similarity=0.165  Sum_probs=21.3

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      +-+|+|.|.+|+||||||+.+...
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~~   25 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQL   25 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
Confidence            568999999999999999988763

>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=95.19  E-value=0.0067  Score=57.80  Aligned_cols=38  Identities=21%  Similarity=0.291  Sum_probs=28.8

Q ss_pred             HHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          189 MRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       189 ~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+|.+.+....     .+..+|+|.|+||+|||||...+...
T Consensus        37 ~~~~~~~~~~~~-----~~~~~igitG~pGaGKSTli~~l~~~   74 (323)
T d2qm8a1          37 VRDLIDAVLPQT-----GRAIRVGITGVPGVGKSTTIDALGSL   74 (323)
T ss_dssp             HHHHHHHHGGGC-----CCSEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             HHHHHHHhhhcc-----CCceEEeeeCCCCCCHHHHHHHHHHH
Confidence            445555554332     56889999999999999999888763

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=95.19  E-value=0.0047  Score=53.99  Aligned_cols=23  Identities=30%  Similarity=0.381  Sum_probs=20.0

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ++++| |.|++|+||||+|+.++.
T Consensus         3 ~~rii-l~G~pGSGKsT~a~~La~   25 (190)
T d1ak2a1           3 GVRAV-LLGPPGAGKGTQAPKLAK   25 (190)
T ss_dssp             CCEEE-EECCTTSSHHHHHHHHHH
T ss_pred             ccEEE-EECCCCCCHHHHHHHHHH
Confidence            46777 689999999999999886

>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=95.14  E-value=0.015  Score=53.61  Aligned_cols=99  Identities=17%  Similarity=0.140  Sum_probs=57.2

Q ss_pred             HHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCC-ChHHHHHHHHHHhhcC---
Q 036323          191 SIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPF-DEFNVAKATIEELEGS---  266 (583)
Q Consensus       191 ~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~il~~l~~~---  266 (583)
                      +.++.|..-      ...+-++|.|.+|+|||+|+..+.++. .+.+=+..+++-+.+.. ...++...+.+.-...   
T Consensus        57 raID~l~pi------gkGQr~~If~~~g~GKt~l~~~i~~~~-~~~~~~v~V~~~iGer~~ev~~~~~~~~~~~~~~~~~  129 (276)
T d2jdid3          57 KVVDLLAPY------AKGGKIGLFGGAGVGKTVLIMELINNV-AKAHGGYSVFAGVGERTREGNDLYHEMIESGVINLKD  129 (276)
T ss_dssp             HHHHHHSCE------ETTCEEEEEECTTSSHHHHHHHHHHHH-TTTCSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSS
T ss_pred             eeeeeeccc------cCCCEEEeeCCCCCCHHHHHHHHHHHH-HhhCCCeEEEEEeccChHHHHHHHHHHHhcCcccccc
Confidence            455566432      233458999999999999999887642 22233567777777654 3445555555531100   


Q ss_pred             -----------cccccc----HHHHHHHHHHHh---cCCceeEEEcCC
Q 036323          267 -----------AIDLHE----LNSLLRRIGANI---AGQKFFMVLDNL  296 (583)
Q Consensus       267 -----------~~~~~~----~~~~~~~l~~~l---~~k~~LlVlDdv  296 (583)
                                 ..+...    .....-.+.+++   +++.+|+++||+
T Consensus       130 ~~~~tvvv~~~s~~~~~~r~~~~~~a~~iAEyf~~~~G~~VLv~~Dsl  177 (276)
T d2jdid3         130 ATSKVALVYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNI  177 (276)
T ss_dssp             SCCCEEEEEECTTSCHHHHHHHHHHHHHHHHHHHHTTCSCEEEEEECT
T ss_pred             ccceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHhcCCCeEEEEEcch
Confidence                       001100    111222344554   378999999999

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.12  E-value=0.018  Score=53.46  Aligned_cols=81  Identities=14%  Similarity=0.061  Sum_probs=46.1

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccccC-ceEEEEEeCCCCChHHHHHHHHHHhhc-------CccccccHHHHH
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVINNF-EIRVRVCVSDPFDEFNVAKATIEELEG-------SAIDLHELNSLL  277 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f-~~~~wv~~~~~~~~~~~~~~il~~l~~-------~~~~~~~~~~~~  277 (583)
                      ..+-+|+|.|..|+|||||+..+......+... ..++-++..+-+-..+-...+.+....       ..+...+.+.+.
T Consensus        25 ~~P~iIGi~G~qGSGKSTl~~~l~~~L~~~~~~~~~v~~iS~DdfY~t~~~r~~L~~~~~~~pl~~~RG~PgThD~~ll~  104 (286)
T d1odfa_          25 KCPLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDFYLTHEDQLKLNEQFKNNKLLQGRGLPGTHDMKLLQ  104 (286)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGGBCCHHHHHHHHHHTTTCGGGSSSCSTTSBCHHHHH
T ss_pred             CCCEEEEeECCCCCCHHHHHHHHHHHHHHHhCCCcceEeeccCCCCCCHHHHHHHhhhccccccceecCCCcchhHHHHH
Confidence            457799999999999999998876531111112 234445544433222333344444322       234566777777


Q ss_pred             HHHHHHhcC
Q 036323          278 RRIGANIAG  286 (583)
Q Consensus       278 ~~l~~~l~~  286 (583)
                      +.+.....+
T Consensus       105 ~~l~~l~~~  113 (286)
T d1odfa_         105 EVLNTIFNN  113 (286)
T ss_dssp             HHHHHHTC-
T ss_pred             HHHHHHHhh
Confidence            777666544

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=95.06  E-value=0.0042  Score=55.62  Aligned_cols=24  Identities=29%  Similarity=0.448  Sum_probs=21.5

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .+||+|.|++|+||||+|+.+.++
T Consensus         3 ~piI~I~GppGSGKgT~ak~La~~   26 (225)
T d1ckea_           3 APVITIDGPSGAGKGTLCKAMAEA   26 (225)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
Confidence            359999999999999999999873

>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=94.96  E-value=0.0045  Score=54.06  Aligned_cols=21  Identities=24%  Similarity=0.279  Sum_probs=18.9

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 036323          210 IISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .|.|.|++|+||||+|+.+.+
T Consensus         5 ~I~i~GppGsGKsT~a~~La~   25 (189)
T d1zaka1           5 KVMISGAPASGKGTQCELIKT   25 (189)
T ss_dssp             CEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            477999999999999999876

>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=94.90  E-value=0.0065  Score=53.12  Aligned_cols=23  Identities=22%  Similarity=0.374  Sum_probs=19.2

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..++ .|.|++|+||||+|+.++.
T Consensus         6 ~mrI-iliG~PGSGKtT~a~~La~   28 (189)
T d2ak3a1           6 LLRA-AIMGAPGSGKGTVSSRITK   28 (189)
T ss_dssp             CCEE-EEECCTTSSHHHHHHHHHH
T ss_pred             ceeE-EEECCCCCCHHHHHHHHHH
Confidence            3444 4779999999999999887

>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=94.90  E-value=0.0052  Score=53.12  Aligned_cols=20  Identities=30%  Similarity=0.488  Sum_probs=18.5

Q ss_pred             EEEEecCCchHHHHHHHHHc
Q 036323          211 ISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~  230 (583)
                      |.|.|++|+||||+|+.++.
T Consensus         3 I~i~G~pGSGKsT~a~~La~   22 (182)
T d1zina1           3 LVLMGLPGAGKGTQAEKIVA   22 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67999999999999999876

>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=94.89  E-value=0.0055  Score=53.74  Aligned_cols=24  Identities=33%  Similarity=0.357  Sum_probs=21.7

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..++|.|.|++|+||||+|+.+..
T Consensus         7 ~~~iI~l~G~pGSGKsT~a~~La~   30 (194)
T d3adka_           7 KSKIIFVVGGPGSGKGTQCEKIVQ   30 (194)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            357899999999999999999877

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=94.74  E-value=0.0081  Score=52.44  Aligned_cols=23  Identities=39%  Similarity=0.442  Sum_probs=20.2

Q ss_pred             ceEEEEEEecCCchHHHHHHHHH
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAY  229 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~  229 (583)
                      .+-+|+|+|..|+||||+|..+-
T Consensus         2 ~p~IIgitG~~gSGKstva~~l~   24 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALLR   24 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            35689999999999999998774

>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=94.67  E-value=0.013  Score=54.30  Aligned_cols=35  Identities=20%  Similarity=-0.004  Sum_probs=27.8

Q ss_pred             HHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          191 SIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       191 ~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ++++.|..-      ...+-++|.|.+|+|||+|+..+.++
T Consensus        32 r~ID~l~Pi------grGQr~~I~g~~g~GKT~l~~~i~~~   66 (289)
T d1xpua3          32 RVLDLASPI------GRGQRGLIVAPPKAGKTMLLQNIAQS   66 (289)
T ss_dssp             HHHHHHSCC------BTTCEEEEEECSSSSHHHHHHHHHHH
T ss_pred             eeeeecccc------cCCCeeeEeCCCCCCHHHHHHHHHHH
Confidence            577777543      34567889999999999999998874

>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=94.66  E-value=0.0065  Score=52.54  Aligned_cols=21  Identities=29%  Similarity=0.325  Sum_probs=18.8

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |.|.|++|+||||+|+.+++.
T Consensus         3 I~i~G~pGsGKsT~a~~La~~   23 (181)
T d2cdna1           3 VLLLGPPGAGKGTQAVKLAEK   23 (181)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            678899999999999999873

>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=94.62  E-value=0.0067  Score=52.52  Aligned_cols=21  Identities=33%  Similarity=0.496  Sum_probs=18.9

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |.|.|++|+||||+|+.++..
T Consensus         3 I~i~G~pGSGKsT~a~~La~~   23 (182)
T d1s3ga1           3 IVLMGLPGAGKGTQADRIVEK   23 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            678999999999999999873

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=94.59  E-value=0.016  Score=53.67  Aligned_cols=36  Identities=28%  Similarity=0.439  Sum_probs=27.4

Q ss_pred             HHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHc
Q 036323          188 EMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       188 e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ++..+.+.+..       +..++|.+.|-||+||||+|-.+..
T Consensus         7 ~~~~~~~~~~~-------~~~~iii~sGKGGVGKTT~a~nLA~   42 (279)
T d1ihua2           7 SLSALVDDIAR-------NEHGLIMLMGKGGVGKTTMAAAIAV   42 (279)
T ss_dssp             CHHHHHHHHHT-------TSCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             cHHHHHHHhhc-------CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            35666666643       4589999999999999998766544

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=94.50  E-value=0.0075  Score=52.24  Aligned_cols=22  Identities=18%  Similarity=0.460  Sum_probs=20.1

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ++|.|+|++|+|||||++.+..
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~   24 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRE   24 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHh
Confidence            5788999999999999999876

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=94.49  E-value=0.008  Score=53.78  Aligned_cols=22  Identities=32%  Similarity=0.469  Sum_probs=19.9

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      +|+|-|++|+||||+|+.+..+
T Consensus         5 ~IaIdGp~GsGKgT~ak~La~~   26 (223)
T d1q3ta_           5 QIAIDGPASSGKSTVAKIIAKD   26 (223)
T ss_dssp             EEEEECSSCSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6789999999999999999873

>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=94.48  E-value=0.0063  Score=53.25  Aligned_cols=21  Identities=29%  Similarity=0.513  Sum_probs=18.9

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 036323          210 IISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .|.|+|++|+|||||++.+..
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~   22 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQ   22 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            367999999999999999876

>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=94.45  E-value=0.007  Score=58.10  Aligned_cols=46  Identities=15%  Similarity=0.185  Sum_probs=33.1

Q ss_pred             ccCCceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHH
Q 036323          177 IDVSEVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAY  229 (583)
Q Consensus       177 ~~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~  229 (583)
                      ++-..++|.+.-+..|.-.+...       +..-|.|.|.+|+|||+||+.+.
T Consensus         4 ~~f~~I~Gq~~~kral~laa~~~-------~~h~vLl~G~pG~GKT~lar~~~   49 (333)
T d1g8pa_           4 FPFSAIVGQEDMKLALLLTAVDP-------GIGGVLVFGDRGTGKSTAVRALA   49 (333)
T ss_dssp             CCGGGSCSCHHHHHHHHHHHHCG-------GGCCEEEECCGGGCTTHHHHHHH
T ss_pred             CChhhccCcHHHHHHHHHHHhcc-------CCCeEEEECCCCccHHHHHHHHH
Confidence            34567899997776555433321       12357899999999999999875

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=94.44  E-value=0.0083  Score=52.56  Aligned_cols=26  Identities=23%  Similarity=0.116  Sum_probs=22.7

Q ss_pred             CCceEEEEEEecCCchHHHHHHHHHc
Q 036323          205 TNTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       205 ~~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..++-+|+|-|..|+||||+++.+.+
T Consensus         6 ~~kp~~I~ieG~~GsGKTTl~~~L~~   31 (197)
T d2vp4a1           6 GTQPFTVLIEGNIGSGKTTYLNHFEK   31 (197)
T ss_dssp             TCCCEEEEEECSTTSCHHHHHHTTGG
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHH
Confidence            45667999999999999999998876

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=94.42  E-value=0.0098  Score=55.05  Aligned_cols=37  Identities=24%  Similarity=0.307  Sum_probs=25.4

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVS  247 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~  247 (583)
                      +.|+|+|-||+||||+|-.+..-.... .+ .++-+++.
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~~LA~~-G~-rVllID~D   38 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTSGLHAM-GK-TIMVVGCD   38 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHTT-TC-CEEEEEEC
T ss_pred             CEEEEECCCcCCHHHHHHHHHHHHHhC-CC-cEEEEecC
Confidence            688999999999999997776532222 23 34555554

>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=94.35  E-value=0.007  Score=52.71  Aligned_cols=21  Identities=33%  Similarity=0.510  Sum_probs=19.2

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 036323          210 IISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .|.|+|++|+|||||++.+.+
T Consensus         3 pIvl~GpsG~GK~tl~~~L~~   23 (186)
T d1gkya_           3 PIVISGPSGTGKSTLLKKLFA   23 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999999877

>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=94.33  E-value=0.03  Score=50.38  Aligned_cols=49  Identities=14%  Similarity=0.068  Sum_probs=34.3

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCccccc----cCceEEEEEeCCCCChHH
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVIN----NFEIRVRVCVSDPFDEFN  254 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~----~f~~~~wv~~~~~~~~~~  254 (583)
                      +..+++.|.|.+|+|||+|+.++........    .-...+|++.....+...
T Consensus        32 ~~G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~   84 (251)
T d1szpa2          32 ETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVR   84 (251)
T ss_dssp             ESSSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSCCCGGG
T ss_pred             cCCeEEEEEcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeecchHHHHH
Confidence            4567999999999999999988876432221    124577888776655433

>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=94.19  E-value=0.016  Score=54.14  Aligned_cols=25  Identities=28%  Similarity=0.445  Sum_probs=21.1

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..++++.+.|-||+||||+|..+..
T Consensus         6 ~~p~~i~~sGKGGVGKTTvaa~lA~   30 (296)
T d1ihua1           6 NIPPYLFFTGKGGVGKTSISCATAI   30 (296)
T ss_dssp             SCCSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCcChHHHHHHHHHH
Confidence            3578999999999999998877655

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.17  E-value=0.0097  Score=51.39  Aligned_cols=22  Identities=27%  Similarity=0.475  Sum_probs=18.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .++| |.|++|+||||+|+.+..
T Consensus         3 mrIv-l~G~pGSGKtT~a~~La~   24 (180)
T d1akya1           3 IRMV-LIGPPGAGKGTQAPNLQE   24 (180)
T ss_dssp             CEEE-EECCTTSSHHHHHHHHHH
T ss_pred             eEEE-EECCCCCCHHHHHHHHHH
Confidence            4555 779999999999999987

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=94.17  E-value=0.01  Score=51.11  Aligned_cols=20  Identities=35%  Similarity=0.395  Sum_probs=18.2

Q ss_pred             EEEEecCCchHHHHHHHHHc
Q 036323          211 ISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~  230 (583)
                      |.|.|++|+||||+|+.++.
T Consensus         3 I~i~G~pGSGKsT~~~~La~   22 (179)
T d1e4va1           3 IILLGAPVAGKGTQAQFIME   22 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            56899999999999999886

>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=93.81  E-value=0.013  Score=50.59  Aligned_cols=22  Identities=14%  Similarity=0.466  Sum_probs=20.0

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      +.|.|+|++|+|||||++.+..
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~   25 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLIT   25 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHH
Confidence            5788999999999999999886

>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=93.75  E-value=0.16  Score=46.58  Aligned_cols=56  Identities=13%  Similarity=-0.017  Sum_probs=36.0

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHHHhhcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIEELEGS  266 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~  266 (583)
                      ..++.|.|.+|+|||+++..+..+......+ .+++++..  .+...+...++......
T Consensus        35 G~l~vi~G~~G~GKT~~~~~la~~~a~~~g~-~v~~~s~E--~~~~~~~~r~~~~~~~~   90 (277)
T d1cr2a_          35 GEVIMVTSGSGMGKSTFVRQQALQWGTAMGK-KVGLAMLE--ESVEETAEDLIGLHNRV   90 (277)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHHHHHTSCC-CEEEEESS--SCHHHHHHHHHHHHTTC
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHhhhhhccc-ceeEeeec--cchhhHHhHHHHHhhcC
Confidence            3578899999999999998876532222223 34444443  45667777776665543

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=93.74  E-value=0.06  Score=48.59  Aligned_cols=48  Identities=21%  Similarity=0.106  Sum_probs=33.9

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCcccc----ccCceEEEEEeCCCCChH
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDNDVI----NNFEIRVRVCVSDPFDEF  253 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~----~~f~~~~wv~~~~~~~~~  253 (583)
                      +..+++.|.|.+|+|||++|.+++.+....    ......+|+......+..
T Consensus        34 p~G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (254)
T d1pzna2          34 ETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPE   85 (254)
T ss_dssp             ESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHH
T ss_pred             cCCEEEEEEcCCCCCHHHHHHHHHHHhhchHHhcCCCceEEEEeccchhHHH
Confidence            556799999999999999998886532211    223457788776665543

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=93.64  E-value=0.014  Score=52.65  Aligned_cols=22  Identities=41%  Similarity=0.443  Sum_probs=19.9

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ||+|+|+.|+|||||...+.++
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~   23 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRY   23 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Confidence            7899999999999999988753

>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=93.50  E-value=0.016  Score=51.26  Aligned_cols=22  Identities=23%  Similarity=0.339  Sum_probs=20.2

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .++.|+|++|+|||||.+.+..
T Consensus         3 ~livi~GPSG~GK~tl~~~L~~   24 (205)
T d1s96a_           3 TLYIVSAPSGAGKSSLIQALLK   24 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHh
Confidence            5788999999999999999876

>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=93.42  E-value=0.025  Score=54.60  Aligned_cols=26  Identities=27%  Similarity=0.102  Sum_probs=23.1

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcC
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      +..+.+.++|++|+|||++|..+++.
T Consensus       152 ~~~~~~~~~g~~~~gk~~~~~~~~~~  177 (362)
T d1svma_         152 PKKRYWLFKGPIDSGKTTLAAALLEL  177 (362)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCcCeEEEECCCCCCHHHHHHHHHHH
Confidence            45678999999999999999999883

>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=93.42  E-value=0.019  Score=53.58  Aligned_cols=39  Identities=23%  Similarity=0.221  Sum_probs=25.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSD  248 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~  248 (583)
                      .+.|+|.|-||+||||+|..+....... .+ .++-+++..
T Consensus         2 Mr~IaisgKGGVGKTT~a~NLA~~LA~~-G~-rVLlID~Dp   40 (289)
T d2afhe1           2 MRQCAIYGKGGIGKSTTTQNLVAALAEM-GK-KVMIVGCDP   40 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHHHT-TC-CEEEEEECS
T ss_pred             ccEEEEECCCCCCHHHHHHHHHHHHHHC-CC-CEEEEecCC
Confidence            4678899999999999987765532111 22 355566643

>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=93.41  E-value=0.065  Score=49.19  Aligned_cols=40  Identities=23%  Similarity=0.134  Sum_probs=28.2

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPF  250 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~  250 (583)
                      .-++|.|.+|+|||+|+......  ...+-..++++-+....
T Consensus        68 Qr~~Ifg~~g~GKt~l~~~~~~~--~~~~~~v~V~~~iGer~  107 (276)
T d1fx0a3          68 QRELIIGDRQTGKTAVATDTILN--QQGQNVICVYVAIGQKA  107 (276)
T ss_dssp             CBCBEEESSSSSHHHHHHHHHHT--CCTTTCEEEEEEESCCH
T ss_pred             ceEeeccCCCCChHHHHHHHHhh--hcccCceeeeeeecchh
Confidence            45788999999999999876543  23344566777776543

>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=93.37  E-value=0.023  Score=49.85  Aligned_cols=23  Identities=35%  Similarity=0.507  Sum_probs=20.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||.+.++.
T Consensus        27 Gei~~l~G~NGsGKSTLl~~i~g   49 (200)
T d1sgwa_          27 GNVVNFHGPNGIGKTTLLKTIST   49 (200)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCChHHHHHHHHhc
Confidence            35899999999999999999986

>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=93.37  E-value=0.023  Score=49.53  Aligned_cols=25  Identities=20%  Similarity=0.395  Sum_probs=22.1

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...+.|+|+|.+|+|||||...+.+
T Consensus        21 ~~~~~I~lvG~~n~GKSTLin~L~g   45 (195)
T d1svia_          21 GGLPEIALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             SCCCEEEEEEBTTSSHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHhcC
Confidence            4566799999999999999999975

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=93.20  E-value=0.018  Score=47.94  Aligned_cols=21  Identities=38%  Similarity=0.401  Sum_probs=18.5

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |.|+|.+|+|||||...+..+
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~   23 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLG   23 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            569999999999999988754

>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=93.13  E-value=0.02  Score=48.12  Aligned_cols=21  Identities=33%  Similarity=0.461  Sum_probs=18.9

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |+|+|.+|+|||||...+..+
T Consensus         8 I~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           8 ILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            669999999999999998765

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=92.94  E-value=0.041  Score=46.85  Aligned_cols=23  Identities=30%  Similarity=0.528  Sum_probs=19.3

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .-|+|+|.+|+|||||...+...
T Consensus        14 ~kI~lvG~~~vGKTsLl~~l~~~   36 (186)
T d1f6ba_          14 GKLVFLGLDNAGKTTLLHMLKDD   36 (186)
T ss_dssp             EEEEEEEETTSSHHHHHHHHSCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            34669999999999999888654

>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=92.92  E-value=0.13  Score=46.20  Aligned_cols=48  Identities=15%  Similarity=0.016  Sum_probs=34.8

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcCcc----ccccCceEEEEEeCCCCChH
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYNDND----VINNFEIRVRVCVSDPFDEF  253 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~----~~~~f~~~~wv~~~~~~~~~  253 (583)
                      +..+++.|.|.+|+|||++|.+++.+..    ....+..+.|+.....+...
T Consensus        35 p~G~~~~i~G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (258)
T d1v5wa_          35 ESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPD   86 (258)
T ss_dssp             CSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHH
T ss_pred             cCCEEEEEECCCCCCHHHHHHHHHHHHHhhhhcccccceEEEechHHHHHHH
Confidence            5678999999999999999988875321    22345667888776665533

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.83  E-value=0.027  Score=50.84  Aligned_cols=24  Identities=25%  Similarity=0.355  Sum_probs=21.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ++.|+|-|+-|+||||+++.+.+.
T Consensus         2 pk~IviEG~~GsGKST~~~~L~~~   25 (241)
T d2ocpa1           2 PRRLSIEGNIAVGKSTFVKLLTKT   25 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHH
Confidence            679999999999999999998763

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.73  E-value=0.028  Score=47.38  Aligned_cols=21  Identities=29%  Similarity=0.550  Sum_probs=18.4

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |.++|.+|+|||||+..+.+.
T Consensus         5 v~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            569999999999999888754

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.72  E-value=0.025  Score=47.68  Aligned_cols=21  Identities=29%  Similarity=0.381  Sum_probs=18.9

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |.|+|.+|+|||||+..+.++
T Consensus         5 v~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999988764

>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=92.71  E-value=0.024  Score=48.29  Aligned_cols=21  Identities=24%  Similarity=0.385  Sum_probs=18.6

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |.|+|.+|+|||+|+..+.++
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            568999999999999988765

>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=92.64  E-value=0.028  Score=47.75  Aligned_cols=21  Identities=29%  Similarity=0.615  Sum_probs=18.5

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |+|+|.+|+|||||...+.++
T Consensus         5 i~viG~~~vGKTsLi~r~~~~   25 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKG   25 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            468999999999999988764

>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=92.61  E-value=0.026  Score=47.68  Aligned_cols=21  Identities=24%  Similarity=0.371  Sum_probs=18.5

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |+|+|.+|+|||+|+..+.++
T Consensus         7 ivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           7 YIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999988754

>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=92.51  E-value=0.013  Score=54.35  Aligned_cols=24  Identities=29%  Similarity=0.400  Sum_probs=18.1

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      +..+|+|.|.+|+||||+++.+.+
T Consensus         3 k~pIIgIaG~SGSGKTTva~~l~~   26 (288)
T d1a7ja_           3 KHPIISVTGSSGAGTSTVKHTFDQ   26 (288)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHH
Confidence            456999999999999999988765

>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=92.41  E-value=0.18  Score=40.50  Aligned_cols=25  Identities=28%  Similarity=0.401  Sum_probs=20.9

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ...++..|+++.|.|||+++-.++.
T Consensus         6 ~~~~~~ll~apTGsGKT~~~~~~~~   30 (136)
T d1a1va1           6 QSFQVAHLHAPTGSGKSTKVPAAYA   30 (136)
T ss_dssp             SSCEEEEEECCTTSCTTTHHHHHHH
T ss_pred             cCCCEEEEEeCCCCCHHHHHHHHHH
Confidence            4578889999999999998866654

>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=92.39  E-value=0.031  Score=47.04  Aligned_cols=21  Identities=29%  Similarity=0.444  Sum_probs=18.6

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |+|+|.+|+|||+|+..+.++
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~   23 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYD   23 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999988754

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=92.37  E-value=0.029  Score=49.50  Aligned_cols=20  Identities=35%  Similarity=0.458  Sum_probs=18.2

Q ss_pred             EEEEEecCCchHHHHHHHHH
Q 036323          210 IISMVGMGGIGKTTLAQLAY  229 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~  229 (583)
                      +|+|+|..|+||||.|+.+-
T Consensus         5 iIgitG~igSGKStv~~~l~   24 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAFA   24 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHHH
Confidence            89999999999999998664

>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=92.36  E-value=0.031  Score=47.46  Aligned_cols=22  Identities=32%  Similarity=0.504  Sum_probs=19.2

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      -|.|+|.+|+|||+|...+.++
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3679999999999999998764

>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=92.32  E-value=0.03  Score=47.16  Aligned_cols=21  Identities=29%  Similarity=0.495  Sum_probs=18.6

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |.|+|.+|+|||||...+...
T Consensus         5 i~ivG~~~~GKTsLi~~l~~~   25 (165)
T d1ksha_           5 LLMLGLDNAGKTTILKKFNGE   25 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHcCC
Confidence            569999999999999998764

>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=92.27  E-value=0.031  Score=47.25  Aligned_cols=21  Identities=29%  Similarity=0.597  Sum_probs=18.6

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |.|+|.+|+|||+|+..+.++
T Consensus         6 i~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           6 VVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            568999999999999988765

>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=92.27  E-value=0.031  Score=47.42  Aligned_cols=21  Identities=29%  Similarity=0.447  Sum_probs=18.7

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |.++|.+|+|||||...+.++
T Consensus         8 i~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            679999999999999988754

>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=92.26  E-value=0.043  Score=46.84  Aligned_cols=25  Identities=24%  Similarity=0.333  Sum_probs=21.9

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ....|+|+|.+|+|||||...++..
T Consensus         4 ~~~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           4 YSGFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             cCcEEEEECCCCCCHHHHHHHHhCC
Confidence            3558999999999999999999864

>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=92.25  E-value=0.03  Score=47.31  Aligned_cols=21  Identities=29%  Similarity=0.533  Sum_probs=18.6

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |.|+|.+|+|||+|+..+.++
T Consensus         6 ivlvG~~~vGKTsLi~r~~~~   26 (167)
T d1z08a1           6 VVLLGEGCVGKTSLVLRYCEN   26 (167)
T ss_dssp             EEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            579999999999999988754

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.24  E-value=0.034  Score=49.18  Aligned_cols=23  Identities=22%  Similarity=0.349  Sum_probs=20.4

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..|+|-|+.|+||||+++.+.+.
T Consensus         4 ~lI~ieG~dGsGKsT~~~~L~~~   26 (209)
T d1nn5a_           4 ALIVLEGVDRAGKSTQSRKLVEA   26 (209)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            57889999999999999988773

>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=92.16  E-value=0.022  Score=51.28  Aligned_cols=24  Identities=25%  Similarity=0.303  Sum_probs=21.4

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .+.|+|-|+.|+||||+++.+.+.
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~~   25 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQL   25 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGG
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
Confidence            578999999999999999988764

>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=92.13  E-value=0.023  Score=50.06  Aligned_cols=25  Identities=28%  Similarity=0.203  Sum_probs=21.6

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...++.|.|.+|+|||+||.+++.+
T Consensus        22 ~G~v~~i~G~~GsGKT~l~l~la~~   46 (242)
T d1n0wa_          22 TGSITEMFGEFRTGKTQICHTLAVT   46 (242)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHH
Confidence            4569999999999999999888754

>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=92.13  E-value=0.043  Score=48.98  Aligned_cols=37  Identities=24%  Similarity=0.136  Sum_probs=26.6

Q ss_pred             EEEEEE-ecCCchHHHHHHHHHcCccccccCceEEEEEeC
Q 036323          209 QIISMV-GMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVS  247 (583)
Q Consensus       209 ~vv~I~-G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~  247 (583)
                      ++|+|+ |-||+||||+|..++...  ...-..++.++..
T Consensus         2 kvIav~s~KGGvGKTtia~nlA~~l--a~~g~~VlliD~D   39 (232)
T d1hyqa_           2 RTITVASGKGGTGKTTITANLGVAL--AQLGHDVTIVDAD   39 (232)
T ss_dssp             EEEEEEESSSCSCHHHHHHHHHHHH--HHTTCCEEEEECC
T ss_pred             EEEEEECCCCCChHHHHHHHHHHHH--HhCCCCEEEEeCC
Confidence            678777 899999999998877632  2233357777764

>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=92.12  E-value=0.037  Score=46.94  Aligned_cols=22  Identities=27%  Similarity=0.398  Sum_probs=19.3

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .|+|+|.+|+|||||...+...
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~   23 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKK   23 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC-
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999998753

>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=92.09  E-value=0.038  Score=46.67  Aligned_cols=21  Identities=24%  Similarity=0.512  Sum_probs=18.5

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |+|+|.+|+|||||...+.++
T Consensus         7 i~lvG~~~vGKTsli~rl~~~   27 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVED   27 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            568899999999999998765

>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=92.07  E-value=0.036  Score=46.92  Aligned_cols=21  Identities=29%  Similarity=0.531  Sum_probs=18.5

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |.|+|.+|+|||+|+..+.+.
T Consensus         4 i~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCcCHHHHHHHHhCC
Confidence            678999999999999988764

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=92.07  E-value=0.034  Score=48.96  Aligned_cols=21  Identities=43%  Similarity=0.517  Sum_probs=18.8

Q ss_pred             EEEEEEecCCchHHHHHHHHH
Q 036323          209 QIISMVGMGGIGKTTLAQLAY  229 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~  229 (583)
                      -+|+|+|..|+||||+|+.+-
T Consensus         3 ~iIgITG~igSGKStv~~~l~   23 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFT   23 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            479999999999999998764

>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=92.07  E-value=0.035  Score=46.80  Aligned_cols=21  Identities=33%  Similarity=0.534  Sum_probs=18.8

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |.++|.+|+|||||+..+.+.
T Consensus         5 i~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999988764

>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=92.07  E-value=0.034  Score=51.48  Aligned_cols=24  Identities=29%  Similarity=0.530  Sum_probs=21.2

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+++|+|+.|+|||||++.+..-
T Consensus        62 Ge~vaivG~nGsGKSTLl~~i~Gl   85 (281)
T d1r0wa_          62 GEMLAITGSTGSGKTSLLMLILGE   85 (281)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCChHHHHHHHHhCC
Confidence            458999999999999999999763

>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=92.03  E-value=0.039  Score=46.70  Aligned_cols=21  Identities=24%  Similarity=0.518  Sum_probs=18.6

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |.|+|.+|+|||+|...+.++
T Consensus         5 i~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            468999999999999998865

>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=92.02  E-value=0.036  Score=47.75  Aligned_cols=21  Identities=29%  Similarity=0.438  Sum_probs=18.8

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |.|+|.+|+|||||+..+.+.
T Consensus         8 i~ivG~~~vGKTsLi~~l~~~   28 (186)
T d2f7sa1           8 LLALGDSGVGKTTFLYRYTDN   28 (186)
T ss_dssp             EEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            668999999999999998865

>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=92.02  E-value=0.036  Score=47.01  Aligned_cols=24  Identities=29%  Similarity=0.527  Sum_probs=19.8

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      +.+ |.|+|.+|+|||+|...+..+
T Consensus         5 ~~K-i~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           5 KYR-LVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEE-EEEEECTTSSHHHHHHHHHHS
T ss_pred             ceE-EEEECCCCCCHHHHHHHHHhC
Confidence            344 668999999999999988764

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.96  E-value=0.035  Score=47.05  Aligned_cols=21  Identities=19%  Similarity=0.408  Sum_probs=18.5

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |.|+|.+|+|||+|+..+.++
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           9 LVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            578999999999999988754

>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=91.87  E-value=0.1  Score=46.59  Aligned_cols=26  Identities=19%  Similarity=0.359  Sum_probs=22.3

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcC
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ....++.|.|.+|+|||++|.+++.+
T Consensus        32 ~~G~l~~i~G~~G~GKT~~~l~~a~~   57 (258)
T d2i1qa2          32 ESQSVTEFAGVFGSGKTQIMHQSCVN   57 (258)
T ss_dssp             ETTEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             cCCeEEEEEeCCCCCHHHHHHHHHHH
Confidence            34579999999999999999888754

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=91.85  E-value=0.061  Score=45.63  Aligned_cols=25  Identities=32%  Similarity=0.518  Sum_probs=20.5

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcC
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..++ |.|+|.+|+|||||...+...
T Consensus        15 ~~~k-I~vvG~~~vGKSsLi~~l~~~   39 (176)
T d1fzqa_          15 QEVR-ILLLGLDNAGKTTLLKQLASE   39 (176)
T ss_dssp             SCEE-EEEEESTTSSHHHHHHHHCCS
T ss_pred             CEEE-EEEECCCCCCHHHHHHHHhcC
Confidence            3444 669999999999999998764

>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=91.82  E-value=0.039  Score=46.92  Aligned_cols=21  Identities=24%  Similarity=0.415  Sum_probs=18.5

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |+++|.+|+|||+|+..+..+
T Consensus         8 I~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999987654

>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=91.82  E-value=0.037  Score=48.54  Aligned_cols=21  Identities=33%  Similarity=0.567  Sum_probs=19.1

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 036323          210 IISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .|+|-|..|+||||+++.+.+
T Consensus         2 lI~ieG~dGsGKST~~~~L~~   22 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSG   22 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            588999999999999998876

>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=91.81  E-value=0.037  Score=47.05  Aligned_cols=21  Identities=38%  Similarity=0.645  Sum_probs=18.7

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |+|+|.+|+|||||...+.++
T Consensus         5 i~~vG~~~vGKSsLi~~~~~~   25 (175)
T d1ky3a_           5 VIILGDSGVGKTSLMHRYVND   25 (175)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            679999999999999988754

>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=91.76  E-value=0.041  Score=49.09  Aligned_cols=25  Identities=32%  Similarity=0.517  Sum_probs=22.6

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+|..|.|.-|+|||||.+++.+.
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhc
Confidence            4789999999999999999999874

>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=91.75  E-value=0.04  Score=46.45  Aligned_cols=21  Identities=33%  Similarity=0.683  Sum_probs=18.7

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |+|+|.+|+|||+|...+.++
T Consensus         6 i~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            678899999999999988764

>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=91.72  E-value=0.16  Score=44.34  Aligned_cols=23  Identities=30%  Similarity=0.497  Sum_probs=20.0

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      +.|+|-|+.|+||||+++.+.+.
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~~   25 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVET   25 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            46889999999999999988763

>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=91.68  E-value=0.039  Score=46.58  Aligned_cols=21  Identities=29%  Similarity=0.596  Sum_probs=18.5

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |.|+|.+|+|||+|...+..+
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            568999999999999988765

>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=91.65  E-value=0.093  Score=44.31  Aligned_cols=24  Identities=25%  Similarity=0.343  Sum_probs=19.8

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+ |.|+|.+|+|||||...+..+
T Consensus        15 ~~k-I~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1          15 EHK-VIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             CEE-EEEEESTTSSHHHHHHHHHTT
T ss_pred             eEE-EEEECCCCCCHHHHHHHHhcC
Confidence            355 569999999999999988764

>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=91.62  E-value=0.042  Score=46.87  Aligned_cols=22  Identities=36%  Similarity=0.501  Sum_probs=18.8

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      -|.|+|.+|+|||+|+..+.++
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3568899999999999888765

>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=91.59  E-value=0.067  Score=45.38  Aligned_cols=22  Identities=32%  Similarity=0.536  Sum_probs=18.9

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      -|.|+|.+|+|||+|+..+.++
T Consensus         8 Kv~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4569999999999999988764

>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=91.58  E-value=0.058  Score=45.82  Aligned_cols=25  Identities=28%  Similarity=0.417  Sum_probs=21.8

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      -...|+|+|.+|+|||||...+.+.
T Consensus         4 ~~~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           4 YCGFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             cccEEEEECCCCCCHHHHHHHHhCC
Confidence            3567899999999999999999863

>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=91.53  E-value=0.041  Score=48.20  Aligned_cols=23  Identities=35%  Similarity=0.397  Sum_probs=20.2

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      +.|+|+|.+|+|||||...+.+.
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            36789999999999999998764

>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=91.45  E-value=0.042  Score=46.81  Aligned_cols=22  Identities=23%  Similarity=0.463  Sum_probs=19.1

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      -|+|+|.+|+|||||+..+.++
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3679999999999999988664

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=91.44  E-value=0.066  Score=51.53  Aligned_cols=24  Identities=33%  Similarity=0.389  Sum_probs=20.5

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ....+..+|+.|+|||.||+.++.
T Consensus        67 p~~niLfiGPTGvGKTElAk~LA~   90 (364)
T d1um8a_          67 SKSNILLIGPTGSGKTLMAQTLAK   90 (364)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcceeeeCCCCccHHHHHHHHHh
Confidence            355688899999999999999876

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=91.44  E-value=0.13  Score=47.26  Aligned_cols=35  Identities=20%  Similarity=0.087  Sum_probs=24.8

Q ss_pred             HHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          191 SIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       191 ~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      +.++.|..-      ...+-++|.|.+|+|||+|+..+...
T Consensus        57 raID~l~pi------g~GQr~~If~~~g~GKt~ll~~~~~~   91 (285)
T d2jdia3          57 KAVDSLVPI------GRGQRELIIGDRQTGKTSIAIDTIIN   91 (285)
T ss_dssp             HHHHHHSCC------BTTCBCEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEecccCc------cCCCEEEeecCCCCChHHHHHHHHHh
Confidence            455666433      23456789999999999999777653

>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=91.41  E-value=0.069  Score=44.90  Aligned_cols=23  Identities=22%  Similarity=0.424  Sum_probs=19.5

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .-|+|+|.+|+|||+|...+.++
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            45678999999999999988764

>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=91.37  E-value=0.065  Score=45.82  Aligned_cols=25  Identities=28%  Similarity=0.433  Sum_probs=20.2

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcC
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...++ .|+|.+|+|||||...+...
T Consensus        16 k~~KI-~lvG~~~vGKTsLi~~l~~~   40 (182)
T d1moza_          16 KELRI-LILGLDGAGKTTILYRLQIG   40 (182)
T ss_dssp             SCEEE-EEEEETTSSHHHHHHHTCCS
T ss_pred             ceEEE-EEECCCCCCHHHHHHHHhcC
Confidence            45555 49999999999999988654

>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=91.31  E-value=0.047  Score=46.99  Aligned_cols=22  Identities=41%  Similarity=0.459  Sum_probs=19.3

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      -|.|+|.+|+|||+|...+.++
T Consensus        11 Ki~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhhC
Confidence            3789999999999999988765

>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=91.26  E-value=0.051  Score=46.44  Aligned_cols=22  Identities=27%  Similarity=0.350  Sum_probs=19.7

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      -|+|+|.+|+|||||...+.+.
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999999864

>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=91.26  E-value=0.046  Score=46.23  Aligned_cols=21  Identities=14%  Similarity=0.425  Sum_probs=18.2

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |+|+|.+|+|||+|...+..+
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            568999999999999987764

>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=91.21  E-value=0.055  Score=46.97  Aligned_cols=21  Identities=29%  Similarity=0.534  Sum_probs=18.7

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |+|+|.+|+|||||+..+.++
T Consensus         9 ivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhhC
Confidence            679999999999999988764

>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=91.14  E-value=0.046  Score=45.37  Aligned_cols=22  Identities=36%  Similarity=0.575  Sum_probs=19.1

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      -|+|+|.+|+|||||...+.+.
T Consensus         2 KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3679999999999999988764

>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=91.09  E-value=0.038  Score=47.28  Aligned_cols=20  Identities=25%  Similarity=0.434  Sum_probs=18.5

Q ss_pred             EEEEecCCchHHHHHHHHHc
Q 036323          211 ISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~  230 (583)
                      |+|+|.+|+|||||...+.+
T Consensus         4 VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCS
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            88999999999999999875

>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=91.03  E-value=0.062  Score=45.41  Aligned_cols=21  Identities=33%  Similarity=0.483  Sum_probs=18.6

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |+|+|.+|+|||+|+..+.+.
T Consensus         9 i~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           9 VMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            779999999999999987664

>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=91.01  E-value=0.078  Score=46.98  Aligned_cols=34  Identities=26%  Similarity=0.473  Sum_probs=26.7

Q ss_pred             HHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          188 EMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       188 e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      -++.|.++|.          -+..+++|.+|+|||||...+..+
T Consensus        85 g~~~L~~~l~----------~kt~~~~G~SGVGKSTLiN~L~~~  118 (225)
T d1u0la2          85 GIEELKEYLK----------GKISTMAGLSGVGKSSLLNAINPG  118 (225)
T ss_dssp             THHHHHHHHS----------SSEEEEECSTTSSHHHHHHHHSTT
T ss_pred             hHhhHHHHhc----------CCeEEEECCCCCCHHHHHHhhcch
Confidence            3677787772          136678999999999999998764

>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=90.97  E-value=0.083  Score=43.95  Aligned_cols=26  Identities=27%  Similarity=0.276  Sum_probs=22.5

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcCc
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYNDN  232 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~~  232 (583)
                      ..-+|.+.|.=|+||||+++.+++..
T Consensus        32 ~g~ii~L~G~LGaGKTtfvr~~~~~l   57 (158)
T d1htwa_          32 KAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCeEEEEecCCCccHHHHHHHHHhhc
Confidence            35689999999999999999998753

>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=90.93  E-value=0.1  Score=51.61  Aligned_cols=51  Identities=25%  Similarity=0.335  Sum_probs=33.7

Q ss_pred             CceeechhHHHHHHHHhh-------cCCCCCCCCceEEEEEEecCCchHHHHHHHHHc
Q 036323          180 SEVRGRDEEMRSIKSMLL-------CQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       180 ~~~vGR~~e~~~l~~~L~-------~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+||.++-++.|--.+.       ........-..+=|.++|++|+|||.||+.++.
T Consensus        14 ~yVvGQ~~AKk~lsvav~nhyrR~~~~~~~~~ei~ksNILliGPTGvGKTlLAr~LAk   71 (443)
T d1g41a_          14 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAK   71 (443)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CcccCcHHHHHHHHHHHHHHHHHhhcccccccccccccEEEECCCCCCHHHHHHHHHH
Confidence            356787777766655442       111011122345688999999999999999987

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=90.88  E-value=0.052  Score=47.59  Aligned_cols=22  Identities=27%  Similarity=0.294  Sum_probs=19.8

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      -|+|+|.+|+|||||...+...
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~   23 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTG   23 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5889999999999999998764

>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=90.84  E-value=0.061  Score=45.41  Aligned_cols=23  Identities=39%  Similarity=0.634  Sum_probs=19.5

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 036323          209 QIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .-|.|+|.+|+|||+|+..+.++
T Consensus         5 ~KivlvG~~~vGKTsli~~~~~~   27 (168)
T d1u8za_           5 HKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            34679999999999999988764

>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=90.82  E-value=0.056  Score=45.89  Aligned_cols=21  Identities=33%  Similarity=0.612  Sum_probs=18.4

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 036323          210 IISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      -|.++|.+|+|||+|+..+..
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            367999999999999998865

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=90.79  E-value=0.053  Score=49.39  Aligned_cols=23  Identities=26%  Similarity=0.439  Sum_probs=20.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||++.+..
T Consensus        30 Gei~~liG~nGaGKSTLl~~i~G   52 (254)
T d1g6ha_          30 GDVTLIIGPNGSGKSTLINVITG   52 (254)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHHC
Confidence            34899999999999999999976

>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=90.75  E-value=0.052  Score=46.75  Aligned_cols=20  Identities=25%  Similarity=0.438  Sum_probs=17.5

Q ss_pred             EEEEecCCchHHHHHHHHHc
Q 036323          211 ISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~  230 (583)
                      |.++|.+|+|||+|...+..
T Consensus         5 ivllG~~~vGKTsl~~r~~~   24 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKI   24 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhh
Confidence            56999999999999988754

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=90.73  E-value=0.052  Score=46.58  Aligned_cols=21  Identities=33%  Similarity=0.580  Sum_probs=18.7

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |+|+|.+|+|||||+..+.+.
T Consensus         5 v~vvG~~~vGKSSLi~~l~~~   25 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVNK   25 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999988764

>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=90.68  E-value=0.049  Score=46.20  Aligned_cols=25  Identities=28%  Similarity=0.367  Sum_probs=20.7

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcC
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...+ |.|+|.+|+|||||...+.++
T Consensus        11 k~~k-IvlvG~~~vGKTSli~rl~~~   35 (173)
T d1e0sa_          11 KEMR-ILMLGLDAAGKTTILYKLKLG   35 (173)
T ss_dssp             CCEE-EEEEEETTSSHHHHHHHTTCC
T ss_pred             CeEE-EEEECCCCCCHHHHHHHHhcC
Confidence            3466 558999999999999998764

>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=90.63  E-value=0.078  Score=45.39  Aligned_cols=22  Identities=32%  Similarity=0.362  Sum_probs=19.2

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      -|.|+|.+|+|||+|...+..+
T Consensus         7 KivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4679999999999999888764

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=90.58  E-value=0.061  Score=48.36  Aligned_cols=22  Identities=27%  Similarity=0.422  Sum_probs=20.2

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .+|+|+|..|+||||+|+.+.+
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999998865

>d1tmka_ c.37.1.1 (A:) Thymidylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=90.55  E-value=0.063  Score=47.48  Aligned_cols=24  Identities=29%  Similarity=0.508  Sum_probs=21.2

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...|+|-|+-|+||||+++.+.+.
T Consensus         3 Gk~I~iEG~DGsGKST~~~~L~~~   26 (214)
T d1tmka_           3 GKLILIEGLDRTGKTTQCNILYKK   26 (214)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEEECCCCCcHHHHHHHHHHH
Confidence            468999999999999999988763

>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=90.54  E-value=0.071  Score=45.58  Aligned_cols=21  Identities=38%  Similarity=0.471  Sum_probs=18.6

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |.++|.+|+|||+|+..+.+.
T Consensus         5 ivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            568999999999999988764

>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=90.45  E-value=0.04  Score=46.77  Aligned_cols=21  Identities=38%  Similarity=0.638  Sum_probs=17.0

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |.|+|.+|+|||+|...+.++
T Consensus         6 i~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC--
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            568899999999999887654

>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=90.45  E-value=0.066  Score=45.40  Aligned_cols=21  Identities=29%  Similarity=0.632  Sum_probs=18.5

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |.|+|.+|+|||||+..+.++
T Consensus         9 I~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            779999999999999887654

>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=90.44  E-value=0.057  Score=46.80  Aligned_cols=18  Identities=33%  Similarity=0.560  Sum_probs=16.5

Q ss_pred             EEEEecCCchHHHHHHHH
Q 036323          211 ISMVGMGGIGKTTLAQLA  228 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v  228 (583)
                      |.|+|.+|+|||||...+
T Consensus         5 ivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           5 ILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEECSTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            569999999999999887

>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=90.43  E-value=0.061  Score=45.83  Aligned_cols=21  Identities=33%  Similarity=0.583  Sum_probs=18.7

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |.|+|.+|+|||+|...+.++
T Consensus        10 i~vvG~~~vGKTsli~~l~~~   30 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDD   30 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            779999999999999988654

>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=90.40  E-value=0.07  Score=45.05  Aligned_cols=23  Identities=30%  Similarity=0.639  Sum_probs=19.2

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .+ |.++|.+|+|||+|...+.++
T Consensus         5 ~K-i~lvG~~~vGKTsll~~~~~~   27 (169)
T d1x1ra1           5 YK-LVVVGDGGVGKSALTIQFFQK   27 (169)
T ss_dssp             EE-EEEECCTTSSHHHHHHHHHHS
T ss_pred             EE-EEEECCCCcCHHHHHHHHHhC
Confidence            44 457899999999999998764

>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=90.34  E-value=0.069  Score=44.45  Aligned_cols=21  Identities=19%  Similarity=0.309  Sum_probs=18.4

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |+|+|.+|+|||||...+...
T Consensus         4 I~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           4 VVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            569999999999999988743

>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=90.32  E-value=0.064  Score=45.01  Aligned_cols=21  Identities=29%  Similarity=0.485  Sum_probs=18.0

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |+|+|.+|+|||||...+...
T Consensus         5 i~i~G~~~~GKTsLl~~l~~~   25 (164)
T d1zd9a1           5 LTLVGLQYSGKTTFVNVIASG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            458899999999999988654

>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=90.24  E-value=0.067  Score=46.20  Aligned_cols=21  Identities=33%  Similarity=0.412  Sum_probs=18.2

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |.|+|.+|+|||+|+..+..+
T Consensus         6 vvllG~~~vGKTSli~r~~~~   26 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTN   26 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            568899999999999888764

>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=90.01  E-value=0.045  Score=46.98  Aligned_cols=21  Identities=29%  Similarity=0.536  Sum_probs=18.8

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 036323          210 IISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      -|+|+|.+|+|||||...+.+
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEE
T ss_pred             eEEEECCCCCCHHHHHHHHhC
Confidence            389999999999999998864

>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=89.69  E-value=0.06  Score=48.26  Aligned_cols=23  Identities=35%  Similarity=0.483  Sum_probs=20.6

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+++|+|+.|+|||||.+.+..
T Consensus        25 Gei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          25 GEILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             TCEEECBCCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            35899999999999999998875

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=89.66  E-value=0.19  Score=45.56  Aligned_cols=40  Identities=18%  Similarity=0.298  Sum_probs=28.5

Q ss_pred             hHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcC
Q 036323          187 EEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       187 ~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+.++...+....     ...--|.|+|.+|+|||||...++..
T Consensus        16 ~~l~e~~~~l~~~~-----~~~l~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          16 TKLLELLGNLKQED-----VNSLTILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             HHHHHHHHHHHHTT-----CCEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             HHHHHHHHHHhhcC-----CCCcEEEEECCCCCcHHHHHHHHhCC
Confidence            34555666665432     33445679999999999999999864

>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=89.65  E-value=0.085  Score=47.01  Aligned_cols=37  Identities=32%  Similarity=0.300  Sum_probs=25.6

Q ss_pred             EEEEEE-ecCCchHHHHHHHHHcCccccccCceEEEEEeC
Q 036323          209 QIISMV-GMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVS  247 (583)
Q Consensus       209 ~vv~I~-G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~  247 (583)
                      ++|+|+ +-||+||||+|..++....  ..-..++-++..
T Consensus         3 ~vIav~~~kGGvGKTtia~nLA~~la--~~g~~VlliD~D   40 (237)
T d1g3qa_           3 RIISIVSGKGGTGKTTVTANLSVALG--DRGRKVLAVDGD   40 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHHH--HTTCCEEEEECC
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHHHH--hCCCCEEEEeCC
Confidence            688888 7899999999988876322  222345666653

>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=89.65  E-value=0.076  Score=45.83  Aligned_cols=21  Identities=24%  Similarity=0.336  Sum_probs=18.1

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |.|+|.+|+|||+|...+..+
T Consensus         5 iv~lG~~~vGKTsll~r~~~~   25 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRII   25 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            569999999999999988653

>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=89.64  E-value=0.08  Score=45.11  Aligned_cols=22  Identities=18%  Similarity=0.286  Sum_probs=18.9

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      -|+|+|.+|+|||+|...+.+.
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3569999999999999988764

>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=89.28  E-value=0.087  Score=45.06  Aligned_cols=24  Identities=29%  Similarity=0.564  Sum_probs=20.1

Q ss_pred             ceEEEEEEecCCchHHHHHHHHHcC
Q 036323          207 TVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       207 ~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      .++ |+|+|.+|+|||||...+.+.
T Consensus         8 ~~k-V~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2           8 AIK-VAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             CEE-EEEECSTTSSHHHHHHHHHTS
T ss_pred             CCE-EEEECCCCCCHHHHHHHHHCC
Confidence            344 689999999999999988764

>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=89.28  E-value=0.12  Score=43.84  Aligned_cols=22  Identities=32%  Similarity=0.336  Sum_probs=19.3

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .-|.|.|.+|+||||||..+..
T Consensus        16 ~gvli~G~sG~GKS~lal~l~~   37 (177)
T d1knxa2          16 VGVLLTGRSGIGKSECALDLIN   37 (177)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHH
Confidence            4578999999999999988876

>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=89.23  E-value=0.1  Score=44.25  Aligned_cols=22  Identities=23%  Similarity=0.265  Sum_probs=19.4

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .-|.|.|.+|+||||||..+..
T Consensus        15 ~gvl~~G~sG~GKStlal~l~~   36 (176)
T d1kkma_          15 LGVLITGDSGVGKSETALELVQ   36 (176)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEEeCCCCCHHHHHHHHHH
Confidence            4678999999999999988776

>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=88.98  E-value=0.056  Score=45.86  Aligned_cols=21  Identities=29%  Similarity=0.466  Sum_probs=8.1

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 036323          211 ISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~~  231 (583)
                      |.|+|.+|+|||||...+.++
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEECCCCC------------
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678899999999999877654

>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=88.55  E-value=0.075  Score=45.26  Aligned_cols=25  Identities=20%  Similarity=0.243  Sum_probs=20.8

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ....-|+|+|.+++|||||..++..
T Consensus        14 ~~~~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          14 DTGIEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHhC
Confidence            3456688999999999999988755

>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=88.28  E-value=0.1  Score=46.28  Aligned_cols=21  Identities=24%  Similarity=0.384  Sum_probs=18.0

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 036323          210 IISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      -|.|+|.+|+|||||...+..
T Consensus         8 KilllG~~~vGKTsll~~~~~   28 (221)
T d1azta2           8 RLLLLGAGESGKSTIVKQMRI   28 (221)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            467999999999999988754

>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=88.14  E-value=0.15  Score=43.01  Aligned_cols=22  Identities=27%  Similarity=0.288  Sum_probs=19.4

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .-|.|.|.+|+||||||..+..
T Consensus        16 ~gvli~G~sg~GKS~la~~l~~   37 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALELIK   37 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEEeCCCCCHHHHHHHHHH
Confidence            4678999999999999988776

>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=87.91  E-value=0.13  Score=45.54  Aligned_cols=25  Identities=20%  Similarity=0.163  Sum_probs=20.6

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      +...++.|.|.+|+|||+||.+++.
T Consensus        24 ~~G~~~~I~G~~G~GKT~la~~~~~   48 (242)
T d1tf7a1          24 PIGRSTLVSGTSGTGKTLFSIQFLY   48 (242)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHH
T ss_pred             cCCeEEEEEeCCCCCHHHHHHHHHH
Confidence            3456889999999999999977643

>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=87.82  E-value=0.39  Score=46.60  Aligned_cols=122  Identities=15%  Similarity=0.197  Sum_probs=63.7

Q ss_pred             eec-hhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCccccccCceEEEEEeCCCCChHHHHHHHHH
Q 036323          183 RGR-DEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDNDVINNFEIRVRVCVSDPFDEFNVAKATIE  261 (583)
Q Consensus       183 vGR-~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~  261 (583)
                      .|- +...+.+.+++.        ....+|.|.|+.|+||||....+.+.  ....-..+  +++.++....      +.
T Consensus       140 LG~~~~~~~~l~~l~~--------~~~GliLvtGpTGSGKSTTl~~~l~~--~~~~~~~i--~tiEdPiE~~------~~  201 (401)
T d1p9ra_         140 LGMTAHNHDNFRRLIK--------RPHGIILVTGPTGSGKSTTLYAGLQE--LNSSERNI--LTVEDPIEFD------ID  201 (401)
T ss_dssp             SCCCHHHHHHHHHHHT--------SSSEEEEEECSTTSCHHHHHHHHHHH--HCCTTSCE--EEEESSCCSC------CS
T ss_pred             hcccHHHHHHHHHHHh--------hhhceEEEEcCCCCCccHHHHHHhhh--hcCCCceE--EEeccCcccc------cC
Confidence            344 345556665553        23579999999999999999887763  11111112  3443332110      00


Q ss_pred             HhhcCccccccHHHHHHHHHHHhcCCceeEEEcCCCcccccchHhhHHhhccCCCCceEEEecCch
Q 036323          262 ELEGSAIDLHELNSLLRRIGANIAGQKFFMVLDNLWTDDYRKWEPFRNCLMNGLRGSKILITTRKE  327 (583)
Q Consensus       262 ~l~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~IlvTtR~~  327 (583)
                      ..................++..|+..+=+|++.++-+  .   +.....+.....|..|+.|-...
T Consensus       202 ~~~q~~v~~~~~~~~~~~l~~~lR~dPDvi~igEiRd--~---~ta~~a~~aa~tGhlV~tTlHa~  262 (401)
T d1p9ra_         202 GIGQTQVNPRVDMTFARGLRAILRQDPDVVMVGEIRD--L---ETAQIAVQASLTGHLVMSTLHTN  262 (401)
T ss_dssp             SSEEEECBGGGTBCHHHHHHHHGGGCCSEEEESCCCS--H---HHHHHHHHHHHTTCEEEEEECCS
T ss_pred             CCCeeeecCCcCCCHHHHHHHHHhhcCCEEEecCcCC--h---HHHHHHHHHHhcCCeEEEEeccC
Confidence            0000000111112355667777888888999999943  2   22223333334566566555433

>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=87.34  E-value=0.14  Score=46.67  Aligned_cols=22  Identities=32%  Similarity=0.403  Sum_probs=18.8

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .+..|+|.+|+|||||+..++-
T Consensus        30 ~~~~i~G~~G~GKS~l~l~la~   51 (274)
T d1nlfa_          30 TVGALVSPGGAGKSMLALQLAA   51 (274)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHH
Confidence            4777999999999999977654

>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]}

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: YFV helicase domain
species: Yellow fever virus [TaxId: 11089]

Probab=87.12  E-value=0.42  Score=37.90  Aligned_cols=18  Identities=22%  Similarity=0.010  Sum_probs=14.6

Q ss_pred             EEEEEEecCCchHHHHHH
Q 036323          209 QIISMVGMGGIGKTTLAQ  226 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~  226 (583)
                      +.+.|+++.|.|||..|-
T Consensus         8 ~~~il~~~tGsGKT~~~~   25 (140)
T d1yksa1           8 MTTVLDFHPGAGKTRRFL   25 (140)
T ss_dssp             CEEEECCCTTSSTTTTHH
T ss_pred             CcEEEEcCCCCChhHHHH
Confidence            466789999999997664

>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=86.92  E-value=0.057  Score=44.95  Aligned_cols=20  Identities=35%  Similarity=0.537  Sum_probs=18.3

Q ss_pred             EEEEecCCchHHHHHHHHHc
Q 036323          211 ISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~v~~  230 (583)
                      |+|+|.+|+|||||...+..
T Consensus         3 I~liG~~n~GKSSLin~l~g   22 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLLN   22 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            68999999999999999865

>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=86.33  E-value=0.2  Score=45.81  Aligned_cols=25  Identities=20%  Similarity=0.182  Sum_probs=22.2

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHc
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .+.|-|+|+|-+|.|||||+..+..
T Consensus         4 ~~iRni~i~gh~~~GKTtL~e~ll~   28 (276)
T d2bv3a2           4 KRLRNIGIAAHIDAGKTTTTERILY   28 (276)
T ss_dssp             GGEEEEEEEECTTSCHHHHHHHHHH
T ss_pred             hhceEEEEEeCCCCCHHHHHHHHHH
Confidence            4688999999999999999988764

>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=86.18  E-value=0.26  Score=47.01  Aligned_cols=61  Identities=16%  Similarity=0.131  Sum_probs=34.2

Q ss_pred             hhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHcCc-cccccCceEEEEEeCCCCChHHHH
Q 036323          186 DEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYNDN-DVINNFEIRVRVCVSDPFDEFNVA  256 (583)
Q Consensus       186 ~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~-~~~~~f~~~~wv~~~~~~~~~~~~  256 (583)
                      +.....+...+.          .+++.|.|.+|+||||++..+.... +....-...+.+..........+.
T Consensus       151 ~~Q~~A~~~al~----------~~~~vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~~I~l~ApTgkAA~~L~  212 (359)
T d1w36d1         151 NWQKVAAAVALT----------RRISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAAPTGKAAARLT  212 (359)
T ss_dssp             CHHHHHHHHHHT----------BSEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEBSSHHHHHHHH
T ss_pred             cHHHHHHHHHHc----------CCeEEEEcCCCCCceehHHHHHHHHHHHHhccCCeEEEecCcHHHHHHHH
Confidence            345555665552          3588999999999999885543311 111112235666665443333333

>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=86.05  E-value=0.2  Score=43.81  Aligned_cols=22  Identities=18%  Similarity=0.209  Sum_probs=18.7

Q ss_pred             EEEEEEecC-CchHHHHHHHHHc
Q 036323          209 QIISMVGMG-GIGKTTLAQLAYN  230 (583)
Q Consensus       209 ~vv~I~G~g-GiGKTtLa~~v~~  230 (583)
                      +.+.|.|-| |+||||++..++.
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~   24 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQ   24 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCccHHHHHHHHHH
Confidence            467899998 9999999977765

>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=85.12  E-value=1.6  Score=38.46  Aligned_cols=23  Identities=17%  Similarity=0.154  Sum_probs=19.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .+++.|+|+.+.||||+.+.+.-
T Consensus        41 ~~~~iiTGpN~~GKSt~lk~i~l   63 (234)
T d1wb9a2          41 RRMLIITGPNMGGKSTYMRQTAL   63 (234)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEeccCchhhHHHHHHHHH
Confidence            46889999999999999988743

>d2p6ra3 c.37.1.19 (A:1-202) Hel308 helicase {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Hel308 helicase
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=84.60  E-value=2.6  Score=35.77  Aligned_cols=17  Identities=29%  Similarity=0.358  Sum_probs=14.2

Q ss_pred             EEEEecCCchHHHHHHH
Q 036323          211 ISMVGMGGIGKTTLAQL  227 (583)
Q Consensus       211 v~I~G~gGiGKTtLa~~  227 (583)
                      +.|.++.|+|||+.|..
T Consensus        43 ~il~apTGsGKT~~a~l   59 (202)
T d2p6ra3          43 LLLAMPTAAGKTLLAEM   59 (202)
T ss_dssp             EEEECSSHHHHHHHHHH
T ss_pred             EEEEcCCCCchhHHHHH
Confidence            56899999999988743

>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=84.51  E-value=0.13  Score=45.62  Aligned_cols=22  Identities=23%  Similarity=0.447  Sum_probs=18.3

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 036323          210 IISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...++|.+|+|||||...+..+
T Consensus        99 ~~vl~G~SGVGKSSLiN~L~~~  120 (231)
T d1t9ha2          99 TTVFAGQSGVGKSSLLNAISPE  120 (231)
T ss_dssp             EEEEEESHHHHHHHHHHHHCC-
T ss_pred             eEEEECCCCccHHHHHHhhccH
Confidence            4458899999999999988764

>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=84.00  E-value=0.31  Score=44.31  Aligned_cols=22  Identities=36%  Similarity=0.662  Sum_probs=19.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHH
Q 036323          208 VQIISMVGMGGIGKTTLAQLAY  229 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~  229 (583)
                      .|-|+|+|-.|.|||||+..+.
T Consensus         2 iRNv~iiGh~~~GKTtL~e~ll   23 (267)
T d2dy1a2           2 IRTVALVGHAGSGKTTLTEALL   23 (267)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHH
T ss_pred             eeEEEEEcCCCCcHHHHHHHHH
Confidence            5789999999999999998774

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=83.86  E-value=0.25  Score=46.40  Aligned_cols=21  Identities=29%  Similarity=0.322  Sum_probs=19.1

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 036323          210 IISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      -|.|+|..|+||||+.+.++.
T Consensus       168 nili~G~tgSGKTT~l~al~~  188 (323)
T d1g6oa_         168 NVIVCGGTGSGKTTYIKSIME  188 (323)
T ss_dssp             CEEEEESTTSSHHHHHHHHGG
T ss_pred             CEEEEeeccccchHHHHHHhh
Confidence            478999999999999999887

>d2fz4a1 c.37.1.19 (A:24-229) DNA repair protein RAD25 {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DNA repair protein RAD25
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=83.38  E-value=9.1  Score=32.32  Aligned_cols=40  Identities=30%  Similarity=0.296  Sum_probs=27.4

Q ss_pred             ceeechhHHHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHc
Q 036323          181 EVRGRDEEMRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       181 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      .+-=|+-..+.+..++..         .+. .|+++.|.|||.+|..+..
T Consensus        68 ~~~Lr~yQ~eav~~~~~~---------~~~-ll~~~tG~GKT~~a~~~~~  107 (206)
T d2fz4a1          68 EISLRDYQEKALERWLVD---------KRG-CIVLPTGSGKTHVAMAAIN  107 (206)
T ss_dssp             CCCCCHHHHHHHHHHTTT---------SEE-EEEESSSTTHHHHHHHHHH
T ss_pred             CCCcCHHHHHHHHHHHhC---------CCc-EEEeCCCCCceehHHhHHH
Confidence            445577777777666521         122 4778999999998877765

>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=83.09  E-value=0.61  Score=42.53  Aligned_cols=26  Identities=19%  Similarity=0.344  Sum_probs=23.7

Q ss_pred             CceEEEEEEecCCchHHHHHHHHHcC
Q 036323          206 NTVQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       206 ~~~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ..+.||+|+|+-+.|||+|...++..
T Consensus        30 ~~v~vvsi~G~~~sGKS~llN~l~~~   55 (277)
T d1f5na2          30 QPMVVVAIVGLYRTGKSYLMNKLAGK   55 (277)
T ss_dssp             SBEEEEEEEEBTTSSHHHHHHHHTTC
T ss_pred             CCEEEEEEECCCCCCHHHHHHHHcCC
Confidence            56999999999999999999999864

>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=83.08  E-value=0.52  Score=44.22  Aligned_cols=24  Identities=29%  Similarity=0.418  Sum_probs=21.2

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      +-.|.|-|.-|+||||+++.+.+.
T Consensus         6 ~~rI~iEG~iGsGKSTl~~~L~~~   29 (333)
T d1p6xa_           6 IVRIYLDGVYGIGKSTTGRVMASA   29 (333)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHSG
T ss_pred             eEEEEEECCccCCHHHHHHHHHHH
Confidence            556788899999999999999884

>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=82.93  E-value=0.41  Score=41.13  Aligned_cols=36  Identities=17%  Similarity=0.230  Sum_probs=28.3

Q ss_pred             HHHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHc
Q 036323          189 MRSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       189 ~~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      +..+..+|...      ++...+.|+|+++.|||++|..+.+
T Consensus        40 l~~l~~~l~~~------PKkn~i~~~GP~~TGKS~f~~sl~~   75 (205)
T d1tuea_          40 LGALKSFLKGT------PKKNCLVFCGPANTGKSYFGMSFIH   75 (205)
T ss_dssp             HHHHHHHHHTC------TTCSEEEEESCGGGCHHHHHHHHHH
T ss_pred             HHHHHHHHcCC------CCceEEEEECCCCccHHHHHHHHHH
Confidence            56666777422      5668999999999999999988766

>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=82.01  E-value=0.36  Score=40.83  Aligned_cols=21  Identities=29%  Similarity=0.362  Sum_probs=19.3

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 036323          210 IISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       210 vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      -|+|+|.+++|||||...+..
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            589999999999999998875

>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=81.42  E-value=0.34  Score=45.38  Aligned_cols=24  Identities=33%  Similarity=0.344  Sum_probs=20.4

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 036323          208 VQIISMVGMGGIGKTTLAQLAYND  231 (583)
Q Consensus       208 ~~vv~I~G~gGiGKTtLa~~v~~~  231 (583)
                      ...|.|=|.-|+||||+++.+.+.
T Consensus         4 ~lrI~IEG~iGsGKTTl~~~La~~   27 (329)
T d1e2ka_           4 LLRVYIDGPHGMGKTTTTQLLVAL   27 (329)
T ss_dssp             EEEEEECSCTTSSHHHHHHHHTC-
T ss_pred             ceEEEEECCcCCCHHHHHHHHHHH
Confidence            456889999999999999998763

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=81.19  E-value=0.36  Score=42.67  Aligned_cols=22  Identities=36%  Similarity=0.407  Sum_probs=19.6

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 036323          209 QIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       209 ~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ++|+|+|-+++|||||+..+..
T Consensus         6 p~IaIiGh~d~GKSTL~~~L~~   27 (227)
T d1g7sa4           6 PIVSVLGHVDHGKTTLLDHIRG   27 (227)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEEeCCCccHHHHHHHHHh
Confidence            4699999999999999988765

>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=80.70  E-value=0.67  Score=41.98  Aligned_cols=36  Identities=17%  Similarity=0.122  Sum_probs=27.0

Q ss_pred             HHHHHHhhcCCCCCCCCceEEEEEEecCCchHHHHHHHHHc
Q 036323          190 RSIKSMLLCQGSDQQTNTVQIISMVGMGGIGKTTLAQLAYN  230 (583)
Q Consensus       190 ~~l~~~L~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~  230 (583)
                      ..+..+|...     .+....+.++|+|+.|||+++..+.+
T Consensus        91 ~~l~~~L~~~-----~~k~n~~~l~G~~~tGKS~f~~~i~~  126 (267)
T d1u0ja_          91 SVFLGWATKK-----FGKRNTIWLFGPATTGKTNIAEAIAH  126 (267)
T ss_dssp             HHHHHHHTTC-----STTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHHHHHHcCC-----CCccEEEEEEcCCCCCHHHHHHHHHH
Confidence            3445556433     25677889999999999999988876