Citrus Sinensis ID: 045152

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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---
Protein Sequence
MVDAIVSSLLGQLTSVAADEVKQHVRLVTGVGEEVKKLTSNLRAIRAVLEDAEKRQMQRDNAVTFWLDQLRDASYDMEDVLDEWTTARLKLQIEGIDDDNALALAPHKKKVRSFFCAVSNCFGSFKQLCLRHDIAVKIREINGKLDDIASQKDKFNFKFDENVSNNVKKPERVRTISLIDEGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRSVALQLGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLLRSKSTVKEWQRILDSEMWKENISIMPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKELGMEGSPLLEKRYEEGKGEDWRKISHIPHIMRSA
Secondary Structure (PSIPRED)
cHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHcccccccEEccccccccccccccccccccccccccccHHHHHHHHHHHcccccccccccEEEEEEccccccHHHHHHHHHccHHHHHcccccEEEEEcccccHHHHHHHHHHHccccccccccHHHHHHHHHHHHcccEEEEEEccccccccccHHHHHHHHHccccccEEEEEcccHHHHHHHccccccccccccHHHHHHHHHHHHcccccccccccHHHHHHHHHHHcccHHHHHHHHHHHHcccccHHHHHHHHHccccccccccHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccEEEEcccHHHHHHHccccccccccccccccEEccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccEEEEEccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHccccEcccccccccccccccccccEccccEccccHHHHHHHHHHHcccccccccEEEEEEEccccccHHHHHHHHHccHHHHHHccEEEEEEEcccccHHHHHHHHHHHHcccccccccHHHHHHHHHHHHcccEEEEEEEccccccHHHHHHHHHHHHccccccEEEEEEccHHHHHHcccccccccccccHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHccccHHHHHHHHHcHccccccccHHHHHHcHHcccHHHHHHccccccHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHcccccccccccEEHHHHHHHHHHHHccccEEEEccccccccccEEEccEEEccc
Coil and Loop (DISEMBL)
MVDAIVSSLLGQLTSVAADEVKQHVRLVTGVGEEVKKLTSNLRAIRAVLEDAEKRQMQRDNAVTFWLDQLRDASYDMEDVLDEWTTARLKLQIegidddnalalaphkkkVRSFFCAvsncfgsfkqlCLRHDIAVKIREIngklddiasqkdkfnfkfdenvsnnvkkpervrtislidegevcgrVEEKNELLSKLLCESSEQQKGLHVISLVglggigktTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDdvwdgdykkwnpffsclknghheskILITTRDRSvalqlgsidiipvkeLAEEECWSLLERLAFFRrsvddheklepIGRKIAHKCKGLPLAAKVIWNLLRSKSTVKEWQRILDSEMWkenisimpclSVLRVylcpklkvlpdyllqTTTLQKLrilqcpsmeelpiledhiflprlsslrieycpklkllpdSLLQITTLKelgmegsplLEKRYeegkgedwrkishiphimrsa
Flexible Loop (DISEMBL)
MVDAIVSSLLGQltsvaadevkQHVRlvtgvgeevkkltsnLRAIRAVLEdaekrqmqrdnaVTFWLDQLRDASYDMEDVLDEWTTARLKLQIEGIDDDNALALAPHKKKVRSFFCAVSNCFGSFKQLCLRHDIAVKIREINGKLDDIASQKDKfnfkfdenvsnnvkkpervrtislidegevcgrVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRSVAlqlgsidiipvkELAEEECWSLLERLAFFRrsvddheklepigrkiahkckgLPLAAKVIWNLLRSKSTVKEWQRILDSEMWKENISIMPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLkelgmegsplLEKRYeegkgedwrkishiphimrsa
Low Complexity Region (SEG)
MVDAIVSSLLGQLTSVAADEVKQHVRLVTGVGEEVKKLTSNLRAIRAVLEDAEKRQMQRDNAVTFWLDQLRDASYDMEDVLDEWTTARLKLQIEGIDDDNALALAPHKKKVRSFFCAVSNCFGSFKQLCLRHDIAVKIREINGKLDDIASQKDKFNFKFDENVSNNVKKPERVRTISLIDEGEVCGRVeeknellskllcesseQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRSVALQLGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLLRSKSTVKEWQRILDSEMWKENISIMPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKELGMEGSPLLEKRYEEGKGEDWRKISHIPHIMRSA
Disordered region (IsUnstruct)
*****VSSLLGQLTSVAADEVKQHVRLVTGVGEEVKKLTSNLRAIRAVLEDA*****QRDNAVTFWLDQLRDASYDMEDVLDEWTTARLKLQIEGIDDDNALALAPHKKKVRSFFCAVSNCFGSFKQLCLRHDIAVKIREINGKLDDIASQKDKFNFKFDENV********RVRTISLIDEGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRSVALQLGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLLRSKSTVKEWQRILDSEMWKENISIMPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKELGM*******************************
Disordered Region (DISOPRED)
MVDAIVSSLLGQLTSVAADEVKQHVRLVTGVGEEVKKLTSNLRAIRAVLEDAEKRQMQRDNAVTFWLDQLRDASYDMEDVLDEWTTARLK***********************FFCAVSNCFGSFKQLCLRHDIAVKIREINGKLDDIASQKDKFN**********************IDEGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGL************LMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRSVALQLGSIDIIPVKELAEEECWSLLERLAF*****DDHEKLEPIGRKIAHKCKGLPLAAKVIWNLLRSKSTVKEWQRILDSEMWKENISIMPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKELGMEGSPLLEKRYEEGKGEDWRKISHIPHIMRSA
Disordered Region (DISEMBL)
MVDAIVSSLLGQLTSVAADEVKQHVRLVTGVGEEVKKLTSNLRAIRAVLEDAEKRQMQRDNAVTFWLDQLRDASYDMEDVLDEWTTARLKLQIEGIDDDNALALAPHKKKVRSFFCAVSNCFGSFKQLCLRHDIAVKIREINGKLDDIASQKDKFNFKFDENVSNNVKKPERVRTISLIDEGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRSVALQLGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLLRSKSTVKEWQRILDSEMWKENISIMPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKELGMEGSPLLEKRYEEGKGEDWRKISHIPHIMRSA
Disordered Region (DISPRO)
MVDAIVSSLLGQLTSVAADEVKQHVRLVTGVGEEVKKLTSNLRAIRAVLEDAEKRQMQRDNAVTFWLDQLRDASYDMEDVLDEWTTARLKLQIEGIDDDNALALAPHKKKVRSFFCAVSNCFGSFKQLCLRHDIAVKIREINGKLDDIASQKDKFNFKFD****************SLIDEGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRSVALQLGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLLRSKSTVKEWQRILDSEMWKENISIMPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKELGMEGSPLLEKRYEEGKGEDWRKISHIPHIMR**
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MVDAIVSSLLGQLTSVAADEVKQHVRLVTGVGEExxxxxxxxxxxxxxxxxxxxxQMQRDNAVTFWLDQLRDASYDMEDVLDEWTTARLKLQIEGIDDDNALALAPHKKKVRSFFCAVSNCFGSFKQLCLRHDIAVKIREINGKLDDIASQKDKFNFKFDENVSNNVKKPERVRTISLIDEGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRSVALQLGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLLRSKSTVKEWQRILDSEMWKENISIMPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKELGMEGSPLLEKRYEEGKGEDWRKISHIPHIMRSA
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	533	2.2.26 [Sep-21-2011]
Q7XA40	992	Putative disease resistan	N/A	no	0.724	0.389	0.343	6e-60
Q7XA42	979	Putative disease resistan	N/A	no	0.711	0.387	0.333	2e-57
Q7XA39	988	Putative disease resistan	N/A	no	0.731	0.394	0.319	6e-55
Q7XBQ9	970	Disease resistance protei	N/A	no	0.716	0.393	0.316	2e-54
Q9LRR4	1054	Putative disease resistan	yes	no	0.720	0.364	0.305	2e-50
Q9LRR5	1424	Putative disease resistan	no	no	0.707	0.264	0.303	3e-41
Q38834	852	Disease resistance RPP13-	no	no	0.705	0.441	0.295	1e-37
Q8W4J9	908	Disease resistance protei	no	no	0.701	0.411	0.270	3e-35
Q9SX38	857	Putative disease resistan	no	no	0.754	0.469	0.287	7e-35
Q9FJK8	908	Probable disease resistan	no	no	0.703	0.412	0.283	5e-34

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

 Score =  232 bits (591), Expect = 6e-60,   Method: Compositional matrix adjust.
 Identities = 147/428 (34%), Positives = 244/428 (57%), Gaps = 42/428 (9%)

Query: 1   MVDAIVSSLLGQLTSVAADEVKQHVRLVTGVGEEVKKLTSNLRAIRAVLEDAEKRQMQRD 60
           M +A +  LL  LT     E+     LV G  +E KKL+S    I+AVLEDA+++Q++  
Sbjct: 1   MAEAFLQVLLDNLTFFIQGELG----LVFGFEKEFKKLSSMFSMIQAVLEDAQEKQLKY- 55

Query: 61  NAVTFWLDQLRDASYDMEDVLDEWTT--ARLKLQIEGIDDDNALALAPHKKKVRSFFCAV 118
            A+  WL +L  A+Y+++D+LD+  T  AR K  + G           H + +   FC  
Sbjct: 56  KAIKNWLQKLNVAAYEVDDILDDCKTEAARFKQAVLG---------RYHPRTIT--FC-- 102

Query: 119 SNCFGSFKQLCLRHDIAVKIREINGKLDDIASQKDKFNFKFDENVSNNVKKPERVRTISL 178
                        + +  +++E+  KLD IA ++   NF  DE +    ++  R +T  +
Sbjct: 103 -------------YKVGKRMKEMMEKLDAIAEERR--NFHLDERIIE--RQAARRQTGFV 145

Query: 179 IDEGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRN 238
           + E +V GR +E++E++ K+L  +    + + V+ ++G+GG+GKTTLAQ+ +N+  +  +
Sbjct: 146 LTEPKVYGREKEEDEIV-KILINNVSYSEEVPVLPILGMGGLGKTTLAQMVFNDQRITEH 204

Query: 239 FEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVW 298
           F   IWVCVSD F+E R+ KAI+E +   + G  +   L K++QE +  K++FLVLDDVW
Sbjct: 205 FNLKIWVCVSDDFDEKRLIKAIVESIEGKSLGDMDLAPLQKKLQELLNGKRYFLVLDDVW 264

Query: 299 DGDYKKWNPFFSCLKNGHHESKILITTRDRSVALQLGSIDIIPVKELAEEECWSLLERLA 358
           + D +KW+   + LK G   + ILITTR   +   +G++ +  +  L++E+CW L ++ A
Sbjct: 265 NEDQEKWDNLRAVLKIGASGASILITTRLEKIGSIMGTLQLYQLSNLSQEDCWLLFKQRA 324

Query: 359 FFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLLRSKSTVKEWQRILDSEMW---KE 415
           F  ++ +   KL  IG++I  KC G+PLAAK +  LLR K    EW+ + DSE+W   ++
Sbjct: 325 FCHQT-ETSPKLMEIGKEIVKKCGGVPLAAKTLGGLLRFKREESEWEHVRDSEIWNLPQD 383

Query: 416 NISIMPCL 423
             S++P L
Sbjct: 384 ENSVLPAL 391

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 =  224 bits (570), Expect = 2e-57,   Method: Compositional matrix adjust.
 Identities = 145/435 (33%), Positives = 243/435 (55%), Gaps = 56/435 (12%)

Query: 1   MVDAIVSSLLGQLTSVAADEVKQHVRLVTGVGEEVKKLTSNLRAIRAVLEDAEKRQMQRD 60
           M +A +  +L  LTS     +K  + L+ G  +E ++L+S    I+AVLEDA+++Q+  D
Sbjct: 1   MAEAFIQVVLDNLTSF----LKGELVLLFGFQDEFQRLSSMFSTIQAVLEDAQEKQLN-D 55

Query: 61  NAVTFWLDQLRDASYDMEDVLDEWTTARLK-LQIEGIDDDNALALAPHKKKVRSFFCAVS 119
             +  WL +L  A+Y+++D+LDE+ T   + LQ E                         
Sbjct: 56  KPLENWLQKLNAATYEVDDILDEYKTKATRFLQSE------------------------- 90

Query: 120 NCFGSF--KQLCLRHDIAVKIREINGKLDDIASQKDKFNFKFDENVSNNVKKPERVR-TI 176
             +G +  K +  RH +  ++ ++  KL+ IA ++ KF+ +  E +   +++    R T 
Sbjct: 91  --YGRYHPKVIPFRHKVGKRMDQVMKKLNAIAEERKKFHLQ--EKI---IERQAATRETG 143

Query: 177 SLIDEGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVK 236
           S++ E +V GR +EK+E++  L+  +S+ QK L V+ ++G+GG+GKTTL+Q+ +N+  V 
Sbjct: 144 SVLTEPQVYGRDKEKDEIVKILINTASDAQK-LSVLPILGMGGLGKTTLSQMVFNDQRVT 202

Query: 237 RNFEKVIWVCVSDTFEEIRVAKAIIEGL-GVSASGLSEFESLMKQIQEYITRKKFFLVLD 295
             F   IW+C+SD F E R+ KAI+E + G S S + +   L K++QE +  K++FLVLD
Sbjct: 203 ERFYPKIWICISDDFNEKRLIKAIVESIEGKSLSDM-DLAPLQKKLQELLNGKRYFLVLD 261

Query: 296 DVWDGDYKKWNPFFSCLKNGHHESKILITTRDRSVALQLGSIDIIPVKELAEEECWSLLE 355
           DVW+ D  KW    + LK G   + +L TTR   V   +G++    +  L+ E+CW L  
Sbjct: 262 DVWNEDQHKWANLRAVLKVGASGAFVLTTTRLEKVGSIMGTLQPYELSNLSPEDCWFL-- 319

Query: 356 RLAFFRRSVDDHEKLEP----IGRKIAHKCKGLPLAAKVIWNLLRSKSTVKEWQRILDSE 411
              F +R+    E++ P    IG++I  KC G+PLAAK +  +LR K   +EW+ + DS 
Sbjct: 320 ---FMQRAFGHQEEINPNLMAIGKEIVKKCGGVPLAAKTLGGILRFKREEREWEHVRDSP 376

Query: 412 MW---KENISIMPCL 423
           +W   ++  SI+P L
Sbjct: 377 IWNLPQDESSILPAL 391

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 =  215 bits (548), Expect = 6e-55,   Method: Compositional matrix adjust.
 Identities = 136/426 (31%), Positives = 233/426 (54%), Gaps = 36/426 (8%)

Query: 1   MVDAIVSSLLGQLTSVAADEVKQHVRLVTGVGEEVKKLTSNLRAIRAVLEDAEKRQMQRD 60
           M +A +  LL  LTS   D++     L+ G  +E +KL+S    I+AVL+DA+++Q+ +D
Sbjct: 1   MAEAFLQVLLENLTSFIGDKLV----LIFGFEKECEKLSSVFSTIQAVLQDAQEKQL-KD 55

Query: 61  NAVTFWLDQLRDASYDMEDVLDEWTTARLKLQIEGIDDDNALALAPHKKKVRSFFCAVSN 120
            A+  WL +L  A+Y+++D+L E     ++ +               + ++  +   + N
Sbjct: 56  KAIENWLQKLNSAAYEVDDILGECKNEAIRFE---------------QSRLGFYHPGIIN 100

Query: 121 CFGSFKQLCLRHDIAVKIREINGKLDDIASQKDKFNFKFDENVSNNVKKPERVRTISLID 180
                     RH I  +++EI  KLD I+ ++ KF+F   E ++          T  ++ 
Sbjct: 101 ---------FRHKIGRRMKEIMEKLDAISEERRKFHFL--EKITERQAAAATRETGFVLT 149

Query: 181 EGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFE 240
           E +V GR +E++E++ K+L  +    + L V  ++G+GG+GKTTLAQ+ +N++ V ++F 
Sbjct: 150 EPKVYGRDKEEDEIV-KILINNVNVAEELPVFPIIGMGGLGKTTLAQMIFNDERVTKHFN 208

Query: 241 KVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDG 300
             IWVCVSD F+E R+ K II  +  S+  + +  S  K++QE +  K++ LVLDDVW+ 
Sbjct: 209 PKIWVCVSDDFDEKRLIKTIIGNIERSSPHVEDLASFQKKLQELLNGKRYLLVLDDVWND 268

Query: 301 DYKKWNPFFSCLKNGHHESKILITTRDRSVALQLGSIDIIPVKELAEEECWSLLERLAFF 360
           D +KW    + L  G   + IL TTR   V   +G++    +  L+  +   L  + AF 
Sbjct: 269 DLEKWAKLRAVLTVGARGASILATTRLEKVGSIMGTLQPYHLSNLSPHDSLLLFMQRAFG 328

Query: 361 RRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLLRSKSTVKEWQRILDSEMW---KENI 417
           ++  + +  L  IG++I  KC G+PLAAK +  LLR K    EW+ + D+E+W   ++  
Sbjct: 329 QQK-EANPNLVAIGKEIVKKCGGVPLAAKTLGGLLRFKREESEWEHVRDNEIWSLPQDES 387

Query: 418 SIMPCL 423
           SI+P L
Sbjct: 388 SILPAL 393

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 =  213 bits (543), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 137/433 (31%), Positives = 233/433 (53%), Gaps = 51/433 (11%)

Query: 1   MVDAIVSSLLGQLTSVAADEVKQHVRLVTGVGEEVKKLTSNLRAIRAVLEDAEKRQMQRD 60
           M +A +  LL  LTS     +K  + L+ G  +E ++L+S    I+AVLEDA+++Q+  +
Sbjct: 1   MAEAFIQVLLDNLTSF----LKGELVLLFGFQDEFQRLSSMFSTIQAVLEDAQEKQLN-N 55

Query: 61  NAVTFWLDQLRDASYDMEDVLDEWTTARLKLQIEGIDDDNALALAPHKKKVRSFFCAVSN 120
             +  WL +L  A+Y+++D+LDE+ T   +                             +
Sbjct: 56  KPLENWLQKLNAATYEVDDILDEYKTKATRFS--------------------------QS 89

Query: 121 CFGSF--KQLCLRHDIAVKIREINGKLDDIASQKDKFNFKFDENVSNNVKKPERVRTISL 178
            +G +  K +  RH +  ++ ++  KL  IA ++   NF   E +    ++  R  T S+
Sbjct: 90  EYGRYHPKVIPFRHKVGKRMDQVMKKLKAIAEERK--NFHLHEKIVE--RQAVRRETGSV 145

Query: 179 IDEGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRN 238
           + E +V GR +EK+E++  L+   S+ Q  L V+ ++G+GG+GKTTLAQ+ +N+  V  +
Sbjct: 146 LTEPQVYGRDKEKDEIVKILINNVSDAQH-LSVLPILGMGGLGKTTLAQMVFNDQRVTEH 204

Query: 239 FEKVIWVCVSDTFEEIRVAKAIIEGL-GVSASGLSEFESLMKQIQEYITRKKFFLVLDDV 297
           F   IW+CVS+ F+E R+ KAI+E + G    G  +   L K++QE +  K++ LVLDDV
Sbjct: 205 FHSKIWICVSEDFDEKRLIKAIVESIEGRPLLGEMDLAPLQKKLQELLNGKRYLLVLDDV 264

Query: 298 WDGDYKKWNPFFSCLKNGHHESKILITTRDRSVALQLGSIDIIPVKELAEEECWSLLERL 357
           W+ D +KW    + LK G   + +L TTR   V   +G++    +  L++E+CW     L
Sbjct: 265 WNEDQQKWANLRAVLKVGASGASVLTTTRLEKVGSIMGTLQPYELSNLSQEDCW-----L 319

Query: 358 AFFRRSVDDHEKLEP----IGRKIAHKCKGLPLAAKVIWNLLRSKSTVKEWQRILDSEMW 413
            F +R+    E++ P    IG++I  K  G+PLAAK +  +L  K   + W+ + DS +W
Sbjct: 320 LFMQRAFGHQEEINPNLVAIGKEIVKKSGGVPLAAKTLGGILCFKREERAWEHVRDSPIW 379

Query: 414 ---KENISIMPCL 423
              ++  SI+P L
Sbjct: 380 NLPQDESSILPAL 392

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 =  200 bits (509), Expect = 2e-50,   Method: Compositional matrix adjust.
 Identities = 124/406 (30%), Positives = 227/406 (55%), Gaps = 22/406 (5%)

Query: 35  VKKLTSNLRAIRAVLEDAEKRQMQRDNAVTFWLDQLRDASYDMEDVLDEWTTARLKLQIE 94
           +++L++ L  I AVL DAE++Q+  +  V  W+++LRD  Y  ED LD+  T  L+L I 
Sbjct: 39  LERLSTALLTITAVLIDAEEKQIT-NPVVEKWVNELRDVVYHAEDALDDIATEALRLNI- 96

Query: 95  GIDDDNALALAPHKKKVRSFFCAVSNCFGSFKQLCLRHDIAVKIREINGKLDDIASQKDK 154
           G +  ++        ++R     +S   G F      H +  ++ ++  +L+ +ASQ++ 
Sbjct: 97  GAESSSS-------NRLRQLRGRMS--LGDFLDGNSEH-LETRLEKVTIRLERLASQRNI 146

Query: 155 FNFKFDENVSNNVKKPERVRTISLIDEGEVCGRVEEKNELLSKLLCESSEQQKGLHVISL 214
              K    ++  + K +R+ T SL+DE EV GR ++K+E++  L+ E+  +  G+ V+++
Sbjct: 147 LGLK---ELTAMIPK-QRLPTTSLVDESEVFGRDDDKDEIMRFLIPENG-KDNGITVVAI 201

Query: 215 VGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEF 274
           VG+GG+GKTTL+QL YN+  V+  F   +W  VS+ F+  ++ K + E +       ++ 
Sbjct: 202 VGIGGVGKTTLSQLLYNDQHVRSYFGTKVWAHVSEEFDVFKITKKVYESVTSRPCEFTDL 261

Query: 275 ESLMKQIQEYITRK--KFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRSVAL 332
           + L  +++E +T     F LVLDD+W+ ++  W+       +    S+IL+TTR + VA 
Sbjct: 262 DVLQVKLKERLTGTGLPFLLVLDDLWNENFADWDLLRQPFIHAAQGSQILVTTRSQRVAS 321

Query: 333 QLGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIW 392
            + ++ +  ++ L++ +CWSL  +  F  +    + ++  +  +I HKC+GLPLA K + 
Sbjct: 322 IMCAVHVHNLQPLSDGDCWSLFMKTVFGNQEPCLNREIGDLAERIVHKCRGLPLAVKTLG 381

Query: 393 NLLRSKSTVKEWQRILDSEMW---KENISIMPCLSVLRVYLCPKLK 435
            +LR +  V EW+R+L S +W    +  +++P L V   YL   LK
Sbjct: 382 GVLRFEGKVIEWERVLSSRIWDLPADKSNLLPVLRVSYYYLPAHLK 427

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 =  170 bits (430), Expect = 3e-41,   Method: Compositional matrix adjust.
 Identities = 124/408 (30%), Positives = 195/408 (47%), Gaps = 31/408 (7%)

Query: 35  VKKLTSNLRAIRAVLEDAEKRQMQRDNAVTFWLDQLRDASYDMEDVLDEWTTARLKLQIE 94
           +K+L   L     VL DA++R  +    V  WL  ++DA +  ED+LDE  T  L+    
Sbjct: 36  LKRLKVALVTANPVLADADQRA-EHVREVKHWLTGIKDAFFQAEDILDELQTEALR---- 90

Query: 95  GIDDDNALALAPHKKKVRSFFCAVSNCFGSFKQL-----CLRHDIAVKIREINGKLDDIA 149
                            R          G F+ L      ++  I  K+ ++   L+   
Sbjct: 91  -----------------RRVVAEAGGLGGLFQNLMAGREAIQKKIEPKMEKVVRLLEHHV 133

Query: 150 SQKDKFNFK-FDENVSNNVKKPERVRTISLIDEGEVCGRVEEKNELLSKLLCESSEQQKG 208
              +    K + E      ++  R R   L  +G + GRVE+K  L++ LL +       
Sbjct: 134 KHIEVIGLKEYSETREPQWRQASRSRPDDL-PQGRLVGRVEDKLALVNLLLSDDEISIGK 192

Query: 209 LHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSA 268
             VIS+VG+ G+GKTTL ++ +N+  V  +FE  +W+     F    V KA+++ +  SA
Sbjct: 193 PAVISVVGMPGVGKTTLTEIVFNDYRVTEHFEVKMWISAGINFNVFTVTKAVLQDITSSA 252

Query: 269 SGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDR 328
               +  SL  Q+++ ++ K+F LVLDD W     +W  F     +    SKI++TTR  
Sbjct: 253 VNTEDLPSLQIQLKKTLSGKRFLLVLDDFWSESDSEWESFQVAFTDAEEGSKIVLTTRSE 312

Query: 329 SVALQLGSIDIIPVKELAEEECWSLLERLAFFRRSVDD-HEKLEPIGRKIAHKCKGLPLA 387
            V+    +  I  +K +  EECW L+ R AF   SV   +++LE IG++IA +CKGLPLA
Sbjct: 313 IVSTVAKAEKIYQMKLMTNEECWELISRFAFGNISVGSINQELEGIGKRIAEQCKGLPLA 372

Query: 388 AKVIWNLLRSKSTVKEWQRILDSEMWKENISIMPCLSVLRVYLCPKLK 435
           A+ I + LRSK    +W  +  +     N SI+P L +    L P+LK
Sbjct: 373 ARAIASHLRSKPNPDDWYAVSKNFSSYTN-SILPVLKLSYDSLPPQLK 419

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 =  158 bits (399), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 122/413 (29%), Positives = 223/413 (53%), Gaps = 37/413 (8%)

Query: 1   MVDAIVSSLLGQLTSVAADEVKQHVRLVTGVGEEVKKLTSNLRAIRAVLEDAEKRQMQRD 60
           MVDA+V+  L +  ++    +++  R V+   ++++ L S L+ +++ L+DAE+++   +
Sbjct: 1   MVDAVVTVFLEKTLNI----LEEKGRTVSDYRKQLEDLQSELKYMQSFLKDAERQKRTNE 56

Query: 61  NAVTFWLDQLRDASYDMEDVLDEWTTARLKLQIEGIDDDNALALAPHKKKVRSFFCAVSN 120
              T   D LR+  Y+ ED+L       +  Q+   DD N         + RS    +S 
Sbjct: 57  TLRTLVAD-LRELVYEAEDIL-------VDCQLADGDDGN---------EQRSSNAWLSR 99

Query: 121 CFGSFKQLCLRHDIAVKIREINGKLDDIASQKDKFNFKFDENVSNNVKKPERVRTIS--L 178
              +  ++ L++  + +++EIN ++  I SQ + +   F+    +NV +       S  +
Sbjct: 100 LHPA--RVPLQYKKSKRLQEINERITKIKSQVEPY---FEFITPSNVGRDNGTDRWSSPV 154

Query: 179 IDEGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRN 238
            D  +V G +E     + + L  S++ Q  L +++ VG+GG+GKTT+AQ  +N+ E++  
Sbjct: 155 YDHTQVVG-LEGDKRKIKEWLFRSNDSQ--LLIMAFVGMGGLGKTTIAQEVFNDKEIEHR 211

Query: 239 FEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVW 298
           FE+ IWV VS TF E ++ ++I+  LG ++ G  +  +L+++IQ+Y+  K++ +V+DDVW
Sbjct: 212 FERRIWVSVSQTFTEEQIMRSILRNLGDASVG-DDIGTLLRKIQQYLLGKRYLIVMDDVW 270

Query: 299 DGDYKKWNPFFSCLKNGHHESKILITTRDRSVALQLGSIDIIPVKE--LAEEECWSLLER 356
           D +   W+  +  L  G   S +++TTR  SVA ++ + D    +   L+ +  W L   
Sbjct: 271 DKNLSWWDKIYQGLPRGQGGS-VIVTTRSESVAKRVQARDDKTHRPELLSPDNSWLLFCN 329

Query: 357 LAFFRR-SVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLLRSKSTV-KEWQRI 407
           +AF       +  +LE +G++I  KCKGLPL  K +  LL  K  V  EW+RI
Sbjct: 330 VAFAANDGTCERPELEDVGKEIVTKCKGLPLTIKAVGGLLLCKDHVYHEWRRI 382

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 =  150 bits (379), Expect = 3e-35,   Method: Compositional matrix adjust.
 Identities = 115/425 (27%), Positives = 214/425 (50%), Gaps = 51/425 (12%)

Query: 1   MVDAIVSSLLGQLTSVAADEVKQHVRLVTGVGEEVKKLTSNLRAIRAVLEDAEKRQMQRD 60
           M +A VS  L +L  + + E ++    + G+  ++  L   LR+++++L+DA+ ++   D
Sbjct: 1   MAEAFVSFGLEKLWDLLSRESER----LQGIDGQLDGLKRQLRSLQSLLKDADAKKHGSD 56

Query: 61  NAVTFWLDQLRDASYDMEDVLDEWTTARLKLQIEGIDDDNALALAPHKKKVRSFFCAVSN 120
               F L+ ++D  +D ED+++ +   +L  + +G+           KK VR   C +++
Sbjct: 57  RVRNF-LEDVKDLVFDAEDIIESYVLNKLSGKGKGV-----------KKHVRRLACFLTD 104

Query: 121 CFGSFKQLCLRHDIAVKIREINGKLDDIASQKDKFNFK--FDENVSNNVKKPERVR---- 174
                     RH +A  I  I  ++ ++  +   F  +   D   S ++++ +RV+    
Sbjct: 105 ----------RHKVASDIEGITKRISEVIGEMQSFGIQQIIDGGRSLSLQERQRVQREIR 154

Query: 175 -TISLIDEGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNND 233
            T     E ++ G  +   EL+  L+     Q     V+S+ G+GGIGKTTLA+  +++D
Sbjct: 155 QTYPDSSESDLVGVEQSVKELVGHLVENDVHQ-----VVSIAGMGGIGKTTLARQVFHHD 209

Query: 234 EVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFE--SLMKQIQEYITRKKFF 291
            V+R+F+   WVCVS  F +  V + I++ L      + + +  +L +++ + +   ++ 
Sbjct: 210 LVRRHFDGFAWVCVSQQFTQKHVWQRILQELQPHDGDILQMDEYALQRKLFQLLEAGRYL 269

Query: 292 LVLDDVWDGDYKKWNPFFSCL--KNGHHESKILITTRDRSVALQLGSIDI-IPVKELAEE 348
           +VLDDVW  +   W+   +    K G    K+L+T+R+  V +      +      L  E
Sbjct: 270 VVLDDVWKKE--DWDVIKAVFPRKRG---WKMLLTSRNEGVGIHADPTCLTFRASILNPE 324

Query: 349 ECWSLLERLAFFRRS---VDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLLRSKSTVKEWQ 405
           E W L ER+ F RR    V   E++E +G+++   C GLPLA K +  LL +K TV EW+
Sbjct: 325 ESWKLCERIVFPRRDETEVRLDEEMEAMGKEMVTHCGGLPLAVKALGGLLANKHTVPEWK 384

Query: 406 RILDS 410
           R+ D+
Sbjct: 385 RVFDN 389

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|Q9SX38|DRL4_ARATH Putative disease resistance protein At1g50180 OS=Arabidopsis thaliana GN=At1g50180 PE=3 SV=2

 Score =  149 bits (375), Expect = 7e-35,   Method: Compositional matrix adjust.
 Identities = 132/459 (28%), Positives = 225/459 (49%), Gaps = 57/459 (12%)

Query: 1   MVDAIVSSLLGQLTSVAADEVKQHVRLVTGVGEEVKKLTSNLRAIRAVLEDAEKRQMQRD 60
           M +AIVS  + +L       + +    + G+G++VK+L   L+ +   L+DA+++Q + +
Sbjct: 1   MAEAIVSVTVQKL----GQLLLEEPLFLFGIGDQVKQLQDELKRLNCFLKDADEKQHESE 56

Query: 61  NAVTFWLDQLRDASYDMEDVLDEWTTARLKLQIEGIDDDNALALAPHKKKVRSFFCAVSN 120
             V  W+  +R+ASYD ED+L+ +       + +G+           K+ +R   C ++ 
Sbjct: 57  R-VRNWVAGIREASYDAEDILEAFFLKAESRKQKGM-----------KRVLRRLACILNE 104

Query: 121 CFGSFKQLCLRHDIAVKIREINGKLDDIASQKDKFNFKFD---ENVSNNVKKPERVRTIS 177
                      H +  +IREI  +L  IA+    F  K     E +S +    E+ ++  
Sbjct: 105 AVS-------LHSVGSEIREITSRLSKIAASMLDFGIKESMGREGLSLSDSLREQRQSFP 157

Query: 178 LIDEGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKR 237
            + E  + G +E+  E L   L    E+   L V S+ G+GG+GKTTLA+  +++ +V+R
Sbjct: 158 YVVEHNLVG-LEQSLEKLVNDLVSGGEK---LRVTSICGMGGLGKTTLAKQIFHHHKVRR 213

Query: 238 NFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEF----ESLMKQIQEYITRKKFFLV 293
           +F++  WV VS       V + I   L              E L +++  ++ R K  +V
Sbjct: 214 HFDRFAWVYVSQDCRRRHVWQDIFLNLSYKDENQRILSLRDEQLGEELHRFLKRNKCLIV 273

Query: 294 LDDVWDGDYKKWNPFFSCLKNGH-HE--SKILITTRDRSVALQLGSIDIIPVKELAE-EE 349
           LDD+W  D   W+    CLK+   HE  S+I++TTR++ VAL      ++   +L   EE
Sbjct: 274 LDDIWGKD--AWD----CLKHVFPHETGSEIILTTRNKEVALYADPRGVLHEPQLLTCEE 327

Query: 350 CWSLLERLAFFRRSVDDH---EKLEPIGRKIAHKCKGLPLAAKVIWNLLRSKSTVKEWQR 406
            W LLE+++   R   +    +K+E IG++I  +C GLPLA  V+  LL +KST  EWQR
Sbjct: 328 SWELLEKISLSGRENIEPMLVKKMEEIGKQIVVRCGGLPLAITVLGGLLATKSTWNEWQR 387

Query: 407 ILD----------SEMWKENISIMPCLSVLRVYLCPKLK 435
           + +          S    +N+ +   L +   YL P +K
Sbjct: 388 VCENIKSYVSNGGSSNGSKNMLVADVLCLSYEYLPPHVK 426

Potential disease resistance protein.

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 =  146 bits (368), Expect = 5e-34,   Method: Compositional matrix adjust.
 Identities = 120/424 (28%), Positives = 214/424 (50%), Gaps = 49/424 (11%)

Query: 1   MVDAIVSSLLGQLTSVAADEVKQHVRLVTGVGEEVKKLTSNLRAIRAVLEDAEKRQMQRD 60
           M +  VS  L +L  + + E ++    + G+ E++  L   LR+++++L+DA+ ++   D
Sbjct: 1   MAEGFVSFGLEKLWDLLSRESER----LQGIDEQLDGLKRQLRSLQSLLKDADAKKHGSD 56

Query: 61  NAVTFWLDQLRDASYDMEDVLDEWTTARLKLQIEGIDDDNALALAPHKKKVRSFFCAVSN 120
               F L+ ++D  +D ED+++ +   +L+ + +G+           KK VR     +++
Sbjct: 57  RVRNF-LEDVKDLVFDAEDIIESYVLNKLRGEGKGV-----------KKHVRRLARFLTD 104

Query: 121 CFGSFKQLCLRHDIAVKIREINGKLDDIASQKDKFNFK--FDENVSNNVKKPERVR---- 174
                     RH +A  I  I  ++ D+  +   F  +   D   S ++++ +RV+    
Sbjct: 105 ----------RHKVASDIEGITKRISDVIGEMQSFGIQQIIDGVRSLSLQERQRVQREIR 154

Query: 175 -TISLIDEGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNND 233
            T     E ++ G VE+  E L   L E+   Q    V+S+ G+GGIGKTTLA+  +++D
Sbjct: 155 QTYPDSSESDLVG-VEQSVEELVGHLVENDIYQ----VVSIAGMGGIGKTTLARQVFHHD 209

Query: 234 EVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFE--SLMKQIQEYITRKKFF 291
            V+R+F+   WVCVS  F    V + I++ L      + + +  +L  ++ + +   ++ 
Sbjct: 210 LVRRHFDGFAWVCVSQQFTLKHVWQRILQELQPHDGNILQMDESALQPKLFQLLETGRYL 269

Query: 292 LVLDDVWDG-DYKKWNPFFSCLKNGHHESKILITTRDRSVALQLGSIDI-IPVKELAEEE 349
           LVLDDVW   D+ +    F   K G    K+L+T+R+  V +      +      L  EE
Sbjct: 270 LVLDDVWKKEDWDRIKAVFP-RKRG---WKMLLTSRNEGVGIHADPTCLTFRASILNPEE 325

Query: 350 CWSLLERLAFFRRS---VDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLLRSKSTVKEWQR 406
            W L ER+ F RR    V   E++E +G+++   C GLPLA K +  LL +K TV EW+R
Sbjct: 326 SWKLCERIVFPRRDETEVRLDEEMEAMGKEMVTHCGGLPLAVKALGGLLANKHTVPEWKR 385

Query: 407 ILDS 410
           + D+
Sbjct: 386 VSDN 389

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	533
224115620	963	cc-nbs-lrr resistance protein [Populus t	0.748	0.414	0.502	1e-98
224134406	987	cc-nbs-lrr resistance protein [Populus t	0.756	0.408	0.469	2e-98
224122712	945	cc-nbs-lrr resistance protein [Populus t	0.754	0.425	0.466	6e-96
225463558	928	PREDICTED: putative disease resistance p	0.756	0.434	0.450	9e-95
224115686	938	cc-nbs-lrr resistance protein [Populus t	0.750	0.426	0.465	3e-93
359482800	1006	PREDICTED: putative disease resistance p	0.748	0.396	0.455	9e-92
359482798	932	PREDICTED: putative disease resistance p	0.789	0.451	0.432	5e-91
147855900	541	hypothetical protein VITISV_034887 [Viti	0.799	0.787	0.423	2e-89
359482792	922	PREDICTED: putative disease resistance p	0.748	0.432	0.454	5e-89
225470202	910	PREDICTED: putative disease resistance p	0.799	0.468	0.435	2e-88

>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 =  366 bits (940), Expect = 1e-98,   Method: Compositional matrix adjust.
 Identities = 210/418 (50%), Positives = 284/418 (67%), Gaps = 19/418 (4%)

Query: 1   MVDAIVSSLLGQLTSVAADEVKQHVRLVTGVGEEVKKLTSNLRAIRAVLEDAEKRQMQRD 60
           M DA+VS +L QL+S+   EV++ VRLV GV  EVKKLTSN +AI+A+  DAE+RQ+ +D
Sbjct: 1   MADALVSVVLEQLSSIIIQEVQREVRLVVGVENEVKKLTSNFQAIQAMFADAEERQL-KD 59

Query: 61  NAVTFWLDQLRDASYDMEDVLDEWTTARLKLQIEGIDDDNALALAPHK--KKVRSFFCAV 118
             V  WLDQL+D SYDM+DVLDEW T   K Q       + +   P K  +KV SF   +
Sbjct: 60  QLVKHWLDQLKDVSYDMDDVLDEWGTEIAKSQ-------SKVNEHPRKNTRKVCSFM--I 110

Query: 119 SNCFGSFKQLCLRHDIAVKIREINGKLDDIASQKDKFNFKFDENVSNNVKKPERVRTISL 178
            +CF  F+++ LR DIA+KI+E+N ++D IA +K++F+FK  E V   +K+ +  +T+S 
Sbjct: 111 FSCF-RFREVGLRRDIALKIKELNERIDGIAIEKNRFHFKSSEVV---IKQHDHRKTVSF 166

Query: 179 IDEGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRN 238
           ID  EV GR  +K  + + LL ESS Q   L  ISLVG+GGIGKTTLAQL YN+ EV+ +
Sbjct: 167 IDAAEVKGRETDKGRVRNMLLTESS-QGPALRTISLVGMGGIGKTTLAQLVYNDHEVEIH 225

Query: 239 FEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVW 298
           F+K IWVCVSD F+E ++AKAI+E L  SAS L E ++L++ IQ  I  KKF LVLDDVW
Sbjct: 226 FDKRIWVCVSDPFDETKIAKAILEALKGSASDLIELQTLLENIQPLIRGKKFLLVLDDVW 285

Query: 299 DGDYKKWNPFFSCLKNGHHESKILITTRDRSVALQLGS--IDIIPVKELAEEECWSLLER 356
           + D  KW      L  G   S IL+TTR R+VA ++GS   DI+ +  L+ +ECWSL  R
Sbjct: 286 NEDSTKWEQLKYSLMCGLPGSSILVTTRKRNVASRMGSSPTDILELGLLSTDECWSLFSR 345

Query: 357 LAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLLRSKSTVKEWQRILDSEMWK 414
           LAFF ++  +   LE IGR+IA KCKGLPLAAK + +LLR KS ++EW+ +L+S +W+
Sbjct: 346 LAFFEKNSRERGDLEDIGRQIAAKCKGLPLAAKSLGSLLRFKSRIEEWESVLNSHVWE 403

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 =  366 bits (939), Expect = 2e-98,   Method: Compositional matrix adjust.
 Identities = 206/439 (46%), Positives = 288/439 (65%), Gaps = 36/439 (8%)

Query: 1   MVDAIVSSLLGQLTSVAADEVKQHVRLVTGVGEEVKKLTSNLRAIRAVLEDAEKRQMQRD 60
           M DA+VS++L Q+ ++A  +V+  V+LV GV +E++ L +N +AIR VLEDAE++Q+ +D
Sbjct: 1   MADALVSTILEQIITIARHQVEHEVKLVVGVEKEIQHLKNNFQAIRDVLEDAERKQL-KD 59

Query: 61  NAVTFWLDQLRDASYDMEDVLDEWTTARLKLQIEGIDDDNALA----------------- 103
            AV  WL+ L+D SYDM+DVLDEW+TA LK ++E  + +NALA                 
Sbjct: 60  TAVKHWLNNLKDVSYDMDDVLDEWSTAVLKWEME--EAENALAPKSVVFSFLRSCCFCFR 117

Query: 104 --------LAPHKKKVRSFFCAVSNCFGSFKQLCLRHDIAVKIREINGKLDDIASQKDKF 155
                   LAP K  V SF C+   C  SF+++  RHDIA KI E+  KL+DIA +K  F
Sbjct: 118 RAEQAENALAP-KSVVSSFLCSFC-C--SFRRVARRHDIAHKIIEVGQKLEDIAKRKAMF 173

Query: 156 NFKFDENVSNNVKKPERVRTISLIDEGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLV 215
            F+  + +    K+P+R +T S +D   V GR +EK  ++SKLLC+SS++ + + VIS+V
Sbjct: 174 GFELHKAIE---KEPDR-QTTSFVDVSRVHGREDEKKNVISKLLCDSSQEGRKVQVISIV 229

Query: 216 GLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFE 275
           G+GG+GKTTLAQLAYN DE+K  FEK IWVCVS  F+E  VAKAIIE L  +A  L E E
Sbjct: 230 GMGGLGKTTLAQLAYNADEIKTYFEKRIWVCVSHPFDENTVAKAIIEDLSGAAPNLVELE 289

Query: 276 SLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRSVALQLG 335
            L K+I E I  KKF LVLDDVW+ + +KW P    LK G   S+IL+TTR  +VA  + 
Sbjct: 290 PLCKRISESIEGKKFLLVLDDVWEDNPRKWEPLKESLKCGAPGSRILVTTRKDTVAKMME 349

Query: 336 SIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLL 395
           S   + + +L +EECWS+  ++AF+ RS D  E    IGR+I ++CKGLPLAAK +  L+
Sbjct: 350 SDYSLLLGKLTDEECWSVFSQVAFYGRSQDACEMFTEIGRQIVYRCKGLPLAAKTLGGLM 409

Query: 396 RSKSTVKEWQRILDSEMWK 414
           +SK+T ++W  IL +E+W+
Sbjct: 410 QSKTTTEDWDNILSNELWE 428

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

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 =  357 bits (917), Expect = 6e-96,   Method: Compositional matrix adjust.
 Identities = 193/414 (46%), Positives = 284/414 (68%), Gaps = 12/414 (2%)

Query: 1   MVDAIVSSLLGQLTSVAADEVKQHVRLVTGVGEEVKKLTSNLRAIRAVLEDAEKRQMQRD 60
           M +A++S +L QLT++ A +V++ V LV GV ++V KL SNL  I++VLEDA+++Q+ +D
Sbjct: 1   MAEALLSPILEQLTTIVAQQVQEEVNLVVGVKKQVDKLKSNLLDIQSVLEDADRKQV-KD 59

Query: 61  NAVTFWLDQLRDASYDMEDVLDEWTTARLKLQIEGIDDDNALALAPHKKKVRSFFCAVSN 120
            AV  W+D+L+DA YDM+DVLDEW+TA L+ ++E  +++        ++K+R  F   S 
Sbjct: 60  KAVRDWVDKLKDACYDMDDVLDEWSTAILRWKMEEAEENTH-----SRQKIRCSFLG-SP 113

Query: 121 CFGSFKQLCLRHDIAVKIREINGKLDDIASQKDKFNFKFDENVSNNVKKPERVRTISLID 180
           CF  F Q+  R DIA+KI+E++ K+DDIA ++ K+ F    ++     + +R+ T S +D
Sbjct: 114 CF-CFNQVVRRRDIALKIKEVSEKVDDIAKERAKYGF----DLYKGTDELQRLTTTSFVD 168

Query: 181 EGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFE 240
           E  V GR  EK  ++SKLL ESS + + + VISLVGLGGIGKTTLAQLA+N+ EV  +FE
Sbjct: 169 ESSVIGRDGEKRNVVSKLLAESSHEARDVDVISLVGLGGIGKTTLAQLAFNDSEVTAHFE 228

Query: 241 KVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDG 300
           K IWVCVS+ F+EIR+AKAI+E L    + L E +SL++ + E IT K+  LVLDDVW  
Sbjct: 229 KKIWVCVSEPFDEIRIAKAILEQLEGRPTNLVELQSLLQGVSESITGKRLLLVLDDVWTE 288

Query: 301 DYKKWNPFFSCLKNGHHESKILITTRDRSVALQLGSIDIIPVKELAEEECWSLLERLAFF 360
           ++ +W      L      S+IL+TTR  +VA  +G+   I +++L++E C S+   +AF 
Sbjct: 289 NHGQWEQLKPSLTGCARGSRILVTTRKDAVATMMGTDHRINIEKLSDEICRSIFNHVAFQ 348

Query: 361 RRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLLRSKSTVKEWQRILDSEMWK 414
            RS D+ E+L  IG KIA+KCKGLPLAAKV+  L++SK T +EW+R+L SE+W+
Sbjct: 349 ERSEDERERLTDIGDKIANKCKGLPLAAKVLGGLMQSKRTREEWERVLSSELWR 402

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 =  353 bits (907), Expect = 9e-95,   Method: Compositional matrix adjust.
 Identities = 188/417 (45%), Positives = 280/417 (67%), Gaps = 14/417 (3%)

Query: 1   MVDAIVSSLLGQLTSVAADEVKQHVRLVTGVGEEVKKLTSNLRAIRAVLEDAEKRQMQRD 60
           M DA+VS +L +L SV   +++Q V LV GV  EV  L S L++IRAVL DAEKRQ   +
Sbjct: 1   MADALVSIVLERLASVLEQQIRQQVTLVVGVESEVDNLKSTLQSIRAVLGDAEKRQFTEE 60

Query: 61  NAVTFWLDQLRDASYDMEDVLDEWTTARLKLQIEGIDDDNALALAPHKKKVRSFFCAVSN 120
             V  WL++L+D SY M+DV+D W+TA LKLQI         A  P   K +   C  S 
Sbjct: 61  -LVKVWLERLKDISYQMDDVVDGWSTALLKLQIA--------AENPGIPKPKISSCLPSP 111

Query: 121 CFGSFKQLCLRHDIAVKIREINGKLDDIASQKDKFNFKFDENVSNNVKKPERVRTISLID 180
           C   FKQ+ LRHDIA++I++I  +L+ IA+++++FNF      S+ +++P R  T S+ID
Sbjct: 112 CV-CFKQVSLRHDIALQIKDIKKQLNAIANERNQFNFV----SSSIIQQPHRRITSSVID 166

Query: 181 EGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFE 240
             + CGR  + N ++ KLL  S ++   L+++S+VG+GGIGKTTLAQLAYN+++VK  F 
Sbjct: 167 VSQFCGRDADINIIIGKLLGGSCQESSSLYIVSIVGMGGIGKTTLAQLAYNHEKVKSYFH 226

Query: 241 KVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDG 300
           + +WVCVSD F+ +R+++AI+E L   +SG  + E++ ++I   I  +KF LVLDDVW  
Sbjct: 227 ERMWVCVSDPFDPMRISRAILEALQKKSSGFHDLEAVQQKICTLIADEKFLLVLDDVWTE 286

Query: 301 DYKKWNPFFSCLKNGHHESKILITTRDRSVALQLGSIDIIPVKELAEEECWSLLERLAFF 360
           +Y+ W    S LK G   S+IL+TTR+ +V+  +G+    P+ EL++E+CWSL   +AF+
Sbjct: 287 NYELWEQVESSLKGGAPGSRILVTTRNENVSTMMGTTYKHPLGELSKEQCWSLFSNIAFY 346

Query: 361 RRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLLRSKSTVKEWQRILDSEMWKENI 417
            RS +  E+LE IGRKIA KC+GLPLAAKV+ +L+R K   ++W+ IL++E+W+ ++
Sbjct: 347 GRSREKVEELENIGRKIADKCRGLPLAAKVLGSLMRLKDNKEDWESILNNEIWQLDV 403

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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 =  348 bits (894), Expect = 3e-93,   Method: Compositional matrix adjust.
 Identities = 194/417 (46%), Positives = 274/417 (65%), Gaps = 17/417 (4%)

Query: 1   MVDAIVSSLLGQLTSVAADEVKQHVRLVTGVGEEVKKLTSNLRAIRAVLEDAEKRQMQRD 60
           M DA+V  ++ QL+ + A EV+Q VRLV GV  EV+KLT+N + I+AVL DAE+R++ +D
Sbjct: 1   MADALVFVVMEQLSLIFAQEVQQEVRLVVGVKNEVQKLTNNFQTIQAVLADAEEREL-KD 59

Query: 61  NAVTFWLDQLRDASYDMEDVLDEWTTARLKLQIEGIDDDNALALAPHKKKVRSFFCAVSN 120
            ++  W+DQL+  SYDM+DVLDEW TA  K Q++         +  H +K     C++  
Sbjct: 60  GSIKRWIDQLKGVSYDMDDVLDEWGTAIAKSQMK---------VNEHPRKTARKVCSMIF 110

Query: 121 CFGSFKQLCLRHDIAVKIREINGKLDDIASQKDKFNFKFDENVSNNVKKPERVRTISLID 180
               F+++ LR DIA KI+E+N ++D I  +KD+F+FK  E     +K+ E  +T S+ID
Sbjct: 111 SCLCFREVGLRRDIAHKIKELNERIDGIVIEKDRFHFKSSEV---GIKQLEHQKTTSVID 167

Query: 181 EGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFE 240
             EV GR  +K+ + + LL ESS Q   L  ISLVG+GGIGKTTLA+L YN+ +V  +F+
Sbjct: 168 AAEVKGRENDKDRVKNMLLSESS-QGPALRTISLVGMGGIGKTTLAKLVYNDHDVTTHFD 226

Query: 241 KVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDG 300
           K IWVCVSD F EI +AKAI+E L  SA  L+E ++L+K +QE I  KKF LVLDDVW+ 
Sbjct: 227 KRIWVCVSDPFNEITIAKAILEDLTGSAPNLNELQTLVKHVQESIREKKFLLVLDDVWNE 286

Query: 301 DYKKWNPFFSCLKNGHHESKILITTRDRSVALQLG---SIDIIPVKELAEEECWSLLERL 357
           D  KW      LK G   S+I++TTR  +VA  +G   S DI+ +  L+ ++CWSL  +L
Sbjct: 287 DSTKWEQLKDSLKCGLPGSRIMVTTRKTNVASSMGSSPSTDILELGLLSTDKCWSLFSQL 346

Query: 358 AFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLLRSKSTVKEWQRILDSEMWK 414
           AFF ++  +   LE IGR+IA KCKGLPLAAK + +LLR K    EW+ +L++ +W+
Sbjct: 347 AFFEKNSRERGDLEDIGRQIAAKCKGLPLAAKSLGSLLRFKRIRAEWESVLNNHVWE 403

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  343 bits (881), Expect = 9e-92,   Method: Compositional matrix adjust.
 Identities = 190/417 (45%), Positives = 271/417 (64%), Gaps = 18/417 (4%)

Query: 1   MVDAIVSSLLGQLTSVAADEVKQHVRLVTGVGEEVKKLTSNLRAIRAVLEDAEKRQMQRD 60
           M DA+VS +L +L SV    ++Q V LV GVG EV  L S L++IRAVL DAEKRQ   +
Sbjct: 1   MADALVSIVLERLASV----LEQQVTLVVGVGSEVDNLNSTLQSIRAVLADAEKRQFSEE 56

Query: 61  NAVTFWLDQLRDASYDMEDVLDEWTTARLKLQIEGIDDDNALALAPHKKKVRSFFCAVSN 120
             V  WL++L+D SY M+DV+D W TA LKLQI         A  P   K++   C  S 
Sbjct: 57  -LVKVWLERLKDISYQMDDVVDGWNTALLKLQIG--------AENPCIPKLKISSCLPSP 107

Query: 121 CFGSFKQLCLRHDIAVKIREINGKLDDIASQKDKFNFKFDENVSNNVKKPERVRTISLID 180
           C   FKQ+ LR DI +KI++I  +LD IA+++++FNF      S+ +++P R  T S+ID
Sbjct: 108 CV-CFKQVLLRCDIGIKIKDIRKQLDAIANERNQFNFV----SSSTIQQPHRRMTSSVID 162

Query: 181 EGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFE 240
             + CGR  + + ++ KLL  SS++   L++IS+VG+GGIGKTTLAQLAYN+D VK  F 
Sbjct: 163 VSQFCGRDADMDVIIDKLLGGSSQESSSLYIISIVGMGGIGKTTLAQLAYNDDRVKAYFH 222

Query: 241 KVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDG 300
           + +WVCVSD F+ + +++AI+E L   +    E E++ ++I   I  KKF LVLDDVW  
Sbjct: 223 ERMWVCVSDPFDPVTISRAILEALQKESCDFHELENVEQKICTLIADKKFLLVLDDVWTE 282

Query: 301 DYKKWNPFFSCLKNGHHESKILITTRDRSVALQLGSIDIIPVKELAEEECWSLLERLAFF 360
           +Y+ W    S LK G   S+IL+TTR   V+  +G+    P++EL+E +CWSL   +AF 
Sbjct: 283 NYELWEKVESSLKGGAPGSRILVTTRKDDVSTMMGTTYKHPLRELSEGQCWSLFSNIAFC 342

Query: 361 RRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLLRSKSTVKEWQRILDSEMWKENI 417
            RS +  E+LE IGRKIA KC+GLPLAAKV+ +L+R K   + W+ IL++E+W+ ++
Sbjct: 343 GRSREKVEELENIGRKIADKCRGLPLAAKVLGSLMRLKDNKENWESILNNEIWQLDV 399

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482798|ref|XP_002268266.2| PREDICTED: putative disease resistance protein RGA4-like [Vitis vinifera]

 Score =  341 bits (875), Expect = 5e-91,   Method: Compositional matrix adjust.
 Identities = 190/439 (43%), Positives = 287/439 (65%), Gaps = 18/439 (4%)

Query: 1   MVDAIVSSLLGQLTSVAADEVKQHVRLVTGVGEEVKKLTSNLRAIRAVLEDAEKRQMQRD 60
           M  A++S +L +L SV   +++  + LV GV  E++ LT  LR++R VLEDAE+RQ+ ++
Sbjct: 1   MAHALLSIVLTRLASVVEQQIRDELTLVLGVEAEIQSLTDTLRSVRDVLEDAERRQV-KE 59

Query: 61  NAVTFWLDQLRDASYDMEDVLDEWTTARLKLQIEGIDDDNALALAPHKKKVRSFFCAVSN 120
            +V  WL++L+D +Y M+DVLDEW+TA L+LQ+EG ++ +       K KV S  C  S 
Sbjct: 60  KSVQGWLERLKDMAYQMDDVLDEWSTAILQLQMEGAENASM-----SKNKVSS--CIPSP 112

Query: 121 CFGSFKQLCLRHDIAVKIREINGKLDDIASQKDKFNFKFDENVSNNVKKPERVRTISLID 180
           CF  FKQ+  R DIA+KI+++  +LD IAS++ +FNF     +S+  ++P+R+ T S ID
Sbjct: 113 CF-CFKQVASRRDIALKIKDLKQQLDVIASERTRFNF-----ISSGTQEPQRLITTSAID 166

Query: 181 EGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFE 240
             EV GR  + N +L +LL E+ E++  L++I++VG GG+GKTTLAQLAYN+ EVK +F+
Sbjct: 167 VSEVYGRDTDVNAILGRLLGENDEEKSRLYIIAIVGTGGMGKTTLAQLAYNHPEVKAHFD 226

Query: 241 KVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDG 300
           + IWVCVSD F+ IRV +AI+E L      L + E++ ++IQ  I  KKF LVLDD+W  
Sbjct: 227 ERIWVCVSDPFDPIRVCRAIVETLQKKPCNLHDLEAVQQEIQTCIAGKKFLLVLDDMWTE 286

Query: 301 DYKKWNPFFSCLKNGH-HESKILITTRDRSVALQLGSIDIIPVKELAEEECWSLLERLAF 359
           DY+ W    + L  G    S+IL+TTR  +VA  +G+    P+ EL+ +    L  ++AF
Sbjct: 287 DYRLWEQLKNTLNYGAVGGSRILVTTRKDNVAKMMGTTYKHPIGELSPQHAEVLFHQIAF 346

Query: 360 FRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLLRSKSTVKEWQRILDSEMWKENI-- 417
           F +S +  E+L+ IG KIA KCKGLPLA K + NL+R K+  +EW+ +L+SE+W+ ++  
Sbjct: 347 FGKSREQVEELKEIGEKIADKCKGLPLAIKTLGNLMRLKNKKEEWKNVLNSEVWQLDVFE 406

Query: 418 -SIMPCLSVLRVYLCPKLK 435
             + P L +    L P +K
Sbjct: 407 RDLFPALLLSYYDLPPAIK 425

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147855900|emb|CAN78628.1| hypothetical protein VITISV_034887 [Vitis vinifera]

 Score =  336 bits (862), Expect = 2e-89,   Method: Compositional matrix adjust.
 Identities = 188/444 (42%), Positives = 286/444 (64%), Gaps = 18/444 (4%)

Query: 1   MVDAIVSSLLGQLTSVAADEVKQHVRLVTGVGEEVKKLTSNLRAIRAVLEDAEKRQMQRD 60
           M  A++S +L +L SV   +++  + LV GV  E++ LT  LR++R VLEDAE+RQ+ ++
Sbjct: 1   MAHALLSIVLTRLASVVEQQIRDELTLVLGVEAEIQSLTDTLRSVRDVLEDAERRQV-KE 59

Query: 61  NAVTFWLDQLRDASYDMEDVLDEWTTARLKLQIEGIDDDNALALAPHKKKVRSFFCAVSN 120
            +V  WL++L+D +Y M+DVLDEW+TA L+LQ+EG ++ +         KV S  C  S 
Sbjct: 60  KSVQGWLERLKDMAYQMDDVLDEWSTAILQLQMEGAENASM-----STNKVSS--CIPSP 112

Query: 121 CFGSFKQLCLRHDIAVKIREINGKLDDIASQKDKFNFKFDENVSNNVKKPERVRTISLID 180
           CF  FKQ+  R DIA+KI+++  +LD I S++ +FNF     +S+  ++P+R+ T S ID
Sbjct: 113 CF-CFKQVASRRDIALKIKDLKQQLDVIGSERTRFNF-----ISSGTQEPQRLITTSAID 166

Query: 181 EGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFE 240
             EV GR  + N +L +LL E+ E++  L++I++VG GG+GKTTLAQLAYN+ EVK +F+
Sbjct: 167 VSEVYGRDTDVNAILGRLLGENDEEKSRLYIIAIVGTGGMGKTTLAQLAYNHPEVKAHFD 226

Query: 241 KVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDG 300
           + IWVCVSD F+ IRV +AI+E L      L + E++ ++IQ  I  +KF LVLDD+W  
Sbjct: 227 ERIWVCVSDPFDPIRVCRAIVETLQKKPCNLHDLEAVQQEIQTCIAGQKFLLVLDDMWTE 286

Query: 301 DYKKWNPFFSCLKNGH-HESKILITTRDRSVALQLGSIDIIPVKELAEEECWSLLERLAF 359
           DY+ W    + L  G    S+IL+TTR  +VA  +G+    P+ EL+ +    L  ++AF
Sbjct: 287 DYRLWEQLKNTLNYGAVGGSRILVTTRKDNVAKMMGTTYKHPIGELSPQHAQVLFHQIAF 346

Query: 360 FRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLLRSKSTVKEWQRILDSEMWKENI-- 417
           F +S +  E+L+ IG KIA KCKGLPLA K + NL+R K+  +EW+ +L+SE+W+ ++  
Sbjct: 347 FGKSREQVEELKEIGEKIADKCKGLPLAIKTLGNLMRLKNKKEEWKNVLNSEVWQLDVFE 406

Query: 418 -SIMPCLSVLRVYLCPKLKVLPDY 440
             + P L +    L P +K    Y
Sbjct: 407 RDLFPALLLSYYDLPPAIKRCFSY 430

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482792|ref|XP_002268589.2| PREDICTED: putative disease resistance protein RGA4-like [Vitis vinifera]

 Score =  335 bits (858), Expect = 5e-89,   Method: Compositional matrix adjust.
 Identities = 188/414 (45%), Positives = 272/414 (65%), Gaps = 15/414 (3%)

Query: 1   MVDAIVSSLLGQLTSVAADEVKQHVRLVTGVGEEVKKLTSNLRAIRAVLEDAEKRQMQRD 60
           M DA++S +L +L SV   +++  + LV GV  E++ LT  LR++R VLEDAE+RQ+ ++
Sbjct: 1   MADALLSIVLERLASVVEQQIRDELTLVLGVEAEIQSLTDTLRSVRDVLEDAERRQV-KE 59

Query: 61  NAVTFWLDQLRDASYDMEDVLDEWTTARLKLQIEGIDDDNALALAPHKKKVRSFFCAVSN 120
            AV  WL++L+D +Y M+DV+DEW+TA L+LQI+G     A + +  KKKV S  C  S 
Sbjct: 60  KAVQGWLERLKDMAYQMDDVVDEWSTAILQLQIKG-----AESASMSKKKVSS--CIPSP 112

Query: 121 CFGSFKQLCLRHDIAVKIREINGKLDDIASQKDKFNFKFDENVSNNVKKPERVRTISLID 180
           CF   KQ+  R DIA+K++ I  +LD IASQ+ +FNF     +S+  ++P+R  T S +D
Sbjct: 113 CF-CLKQVASRRDIALKVKSIKQQLDVIASQRSQFNF-----ISSLSEEPQRFITTSQLD 166

Query: 181 EGEVCGRVEEKNELLSKLLCESSEQQK-GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNF 239
             EV GR  +KN +L  LL E+ ++ K G ++IS+VG GG+GKTTLAQLAYN+ EVK +F
Sbjct: 167 IPEVYGRDMDKNTILGHLLGETCQETKSGPYIISIVGTGGMGKTTLAQLAYNHPEVKAHF 226

Query: 240 EKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWD 299
           ++ IWVCVSD F+ IR+ + I+E L   +  L   E+L ++IQ YI  KKF +VLDDVW 
Sbjct: 227 DERIWVCVSDPFDPIRIFREIVEILQGESPNLHSLEALQQKIQTYIAGKKFLIVLDDVWT 286

Query: 300 GDYKKWNPFFSCLKNGHHESKILITTRDRSVALQLGSIDIIPVKELAEEECWSLLERLAF 359
            +++ W    S L  G   S+IL TTR  SV   +G+     ++EL+ E+  +L  ++AF
Sbjct: 287 ENHQLWGQLKSTLNCGGVGSRILATTRKESVVKMVGTTYTHSLEELSREQARALFHQIAF 346

Query: 360 FRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLLRSKSTVKEWQRILDSEMW 413
           F +S +  E+L  IG  IA KCKGLPLA K + NL+RSK   +EW+ +L SE+W
Sbjct: 347 FEKSREKVEELNEIGENIADKCKGLPLAIKTLGNLMRSKHNREEWENVLCSEVW 400

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  333 bits (853), Expect = 2e-88,   Method: Compositional matrix adjust.
 Identities = 193/443 (43%), Positives = 285/443 (64%), Gaps = 17/443 (3%)

Query: 1   MVDAIVSSLLGQLTSVAADEVKQHVRLVTGVGEEVKKLTSNLRAIRAVLEDAEKRQMQRD 60
           M DA++S +L +L S+   +    V LV GV  E++ LT+ L+ +RAV+ DAEKRQ+  +
Sbjct: 1   MADALLSIVLDRLASLIQQQFHHEVCLVVGVKREIQSLTNTLQIVRAVVADAEKRQVNEE 60

Query: 61  NAVTFWLDQLRDASYDMEDVLDEWTTARLKLQIEGIDDDNALALAPHKKKVRSFFCAVSN 120
             V  WL++L+D +Y M+DVLDEW+TA LK QIE ++  +       KKKV S  C  S 
Sbjct: 61  -PVKVWLERLKDIAYQMDDVLDEWSTAFLKSQIERVESPSM-----PKKKVSS--CIPSP 112

Query: 121 CFGSFKQLCLRHDIAVKIREINGKLDDIASQKDKFNFKFDENVSNNVKKPERVRTISLID 180
           C   FK++  R DIA+KI+ I  ++DDIA+++++F+FK     S N ++ +R+ TIS +D
Sbjct: 113 CI-CFKRVARRRDIALKIKGIKQEVDDIANERNQFDFK-----STNNEELQRIITISAVD 166

Query: 181 EGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFE 240
             EV GR  ++  +L +LL  S EQ  GL+ IS+ G+GGIGKTTLAQLA+N+ +VK +FE
Sbjct: 167 TTEVYGRDRDEGIILRQLLGTSCEQSLGLYTISVFGMGGIGKTTLAQLAFNHYDVKAHFE 226

Query: 241 KVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDG 300
             IWVCVSD F  IR+ +AI+E L   +S L + E+L ++IQ+ I  KKF LVLDDVW  
Sbjct: 227 IRIWVCVSDPFVPIRILRAILEALQGQSSDLHDPEALQQKIQKSIYGKKFLLVLDDVWTE 286

Query: 301 DYKKWNPFFSCLKNGHHESKILITTRDRSVALQLGSIDIIPVKELAEEECWSLLERLAFF 360
           DY+ W    +CLK G   S+IL+TT + SVA  + S  +  +  L  E+  +L  ++AF 
Sbjct: 287 DYQLWEQLKNCLKCGGGGSRILVTTHNESVARMMRSTYMHSLGSLPLEQSQALFSQIAFC 346

Query: 361 RRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLLRSKSTVKEWQRILDSEMWKENI--- 417
            +S D  E+LE IG+KIA KCKGLPLA K + +L++SK+  ++W+ +L+S+MW+ ++   
Sbjct: 347 GKSTDKIEELEEIGKKIADKCKGLPLAVKALGSLMQSKNNKEDWENVLNSKMWELDVFEK 406

Query: 418 SIMPCLSVLRVYLCPKLKVLPDY 440
            + P L +    L P +K    Y
Sbjct: 407 KLSPALLLSYYDLPPPIKQCFSY 429

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	533
TAIR|locus:2091672	1054	AT3G14470 [Arabidopsis thalian	0.720	0.364	0.298	5.7e-51
TAIR|locus:2011982	857	AT1G50180 [Arabidopsis thalian	0.660	0.410	0.296	7.6e-41
TAIR|locus:2091662	1424	AT3G14460 [Arabidopsis thalian	0.741	0.277	0.291	2.1e-40
UNIPROTKB|O48647	1802	O48647 "XA1" [Oryza sativa (ta	0.442	0.130	0.341	2e-38
TAIR|locus:504956182	1049	AT1G58848 [Arabidopsis thalian	0.373	0.189	0.319	1.2e-37
TAIR|locus:2826978	1049	AT1G59218 [Arabidopsis thalian	0.373	0.189	0.319	1.2e-37
TAIR|locus:2169523	901	AT5G35450 [Arabidopsis thalian	0.369	0.218	0.330	1.4e-37
TAIR|locus:2078012	852	ZAR1 "HOPZ-ACTIVATED RESISTANC	0.512	0.320	0.315	2.8e-37
TAIR|locus:2025916	906	AT1G59780 "AT1G59780" [Arabido	0.500	0.294	0.290	1.8e-36
TAIR|locus:2152536	908	AT5G48620 [Arabidopsis thalian	0.508	0.298	0.295	9.7e-36

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

 Score = 487 (176.5 bits), Expect = 5.7e-51, Sum P(2) = 5.7e-51
 Identities = 121/406 (29%), Positives = 217/406 (53%)

Query:    35 VKKLTSNLRAIRAVLEDAEKRQMQRDNAVTFWLDQLRDASYDMEDVLDEWTTARLKLQIE 94
             +++L++ L  I AVL DAE++Q+     V  W+++LRD  Y  ED LD+  T  L+L I 
Sbjct:    39 LERLSTALLTITAVLIDAEEKQITNP-VVEKWVNELRDVVYHAEDALDDIATEALRLNI- 96

Query:    95 GIDDDNALALAPHKKKVRSFFCAVSNCFGSFKQLCLRHDIAVKIREINGKLDDIASQKDK 154
             G +  ++  L    +++R     +S   G F      H +  ++ ++  +L+ +ASQ++ 
Sbjct:    97 GAESSSSNRL----RQLRG---RMS--LGDFLDGNSEH-LETRLEKVTIRLERLASQRNI 146

Query:   155 FNFKFDENVSNNVKKPERVRTISLIDEGEVCGRVXXXXXXXXXXXXXXXXQQKGLHVISL 214
                K    ++  + K +R+ T SL+DE EV GR                 +  G+ V+++
Sbjct:   147 LGLK---ELTAMIPK-QRLPTTSLVDESEVFGR-DDDKDEIMRFLIPENGKDNGITVVAI 201

Query:   215 VGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEF 274
             VG+GG+GKTTL+QL YN+  V+  F   +W  VS+ F+  ++ K + E +       ++ 
Sbjct:   202 VGIGGVGKTTLSQLLYNDQHVRSYFGTKVWAHVSEEFDVFKITKKVYESVTSRPCEFTDL 261

Query:   275 ESLMKQIQEYITRK--KFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRSVAL 332
             + L  +++E +T     F LVLDD+W+ ++  W+       +    S+IL+TTR + VA 
Sbjct:   262 DVLQVKLKERLTGTGLPFLLVLDDLWNENFADWDLLRQPFIHAAQGSQILVTTRSQRVAS 321

Query:   333 QLGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIW 392
              + ++ +  ++ L++ +CWSL  +  F  +    + ++  +  +I HKC+GLPLA K + 
Sbjct:   322 IMCAVHVHNLQPLSDGDCWSLFMKTVFGNQEPCLNREIGDLAERIVHKCRGLPLAVKTLG 381

Query:   393 NLLRSKSTVKEWQRILDSEMWK---ENISIMPCLSVLRVYLCPKLK 435
              +LR +  V EW+R+L S +W    +  +++P L V   YL   LK
Sbjct:   382 GVLRFEGKVIEWERVLSSRIWDLPADKSNLLPVLRVSYYYLPAHLK 427

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:2011982 AT1G50180 [Arabidopsis thaliana (taxid:3702)]

 Score = 394 (143.8 bits), Expect = 7.6e-41, Sum P(2) = 7.6e-41
 Identities = 117/395 (29%), Positives = 200/395 (50%)

Query:    30 GVGEEVKKLTSNLRAIRAVLEDAEKRQMQRDNAVTFWLDQLRDASYDMEDVLDEWTTARL 89
             G+G++VK+L   L+ +   L+DA+++Q + +  V  W+  +R+ASYD ED+L+ +     
Sbjct:    26 GIGDQVKQLQDELKRLNCFLKDADEKQHESER-VRNWVAGIREASYDAEDILEAFFLKAE 84

Query:    90 KLQIEGIDDDNALALAPHKKKVRSFFCAVSNCFGSFKQLCLRHDIAVKIREINGKLDDIA 149
               + +G+           K+ +R   C ++            H +  +IREI  +L  IA
Sbjct:    85 SRKQKGM-----------KRVLRRLACILNEAVSL-------HSVGSEIREITSRLSKIA 126

Query:   150 SQKDKFNFKFD---ENVSNNVKKPERVRTISLIDEGEVCGRVXXXXXXXXXXXXXXXXQQ 206
             +    F  K     E +S +    E+ ++   + E  + G                   +
Sbjct:   127 ASMLDFGIKESMGREGLSLSDSLREQRQSFPYVVEHNLVG---LEQSLEKLVNDLVSGGE 183

Query:   207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGV 266
             K L V S+ G+GG+GKTTLA+  +++ +V+R+F++  WV VS       V + I   L  
Sbjct:   184 K-LRVTSICGMGGLGKTTLAKQIFHHHKVRRHFDRFAWVYVSQDCRRRHVWQDIFLNLSY 242

Query:   267 SASG---LS-EFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGH-HE--S 319
                    LS   E L +++  ++ R K  +VLDD+W  D   W+    CLK+   HE  S
Sbjct:   243 KDENQRILSLRDEQLGEELHRFLKRNKCLIVLDDIWGKD--AWD----CLKHVFPHETGS 296

Query:   320 KILITTRDRSVALQLGSIDIIPVKELAE-EECWSLLERLAFF-RRSVDDH--EKLEPIGR 375
             +I++TTR++ VAL      ++   +L   EE W LLE+++   R +++    +K+E IG+
Sbjct:   297 EIILTTRNKEVALYADPRGVLHEPQLLTCEESWELLEKISLSGRENIEPMLVKKMEEIGK 356

Query:   376 KIAHKCKGLPLAAKVIWNLLRSKSTVKEWQRILDS 410
             +I  +C GLPLA  V+  LL +KST  EWQR+ ++
Sbjct:   357 QIVVRCGGLPLAITVLGGLLATKSTWNEWQRVCEN 391

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

GO:0043531 "ADP binding" evidence=IEA

GO:0009506 "plasmodesma" evidence=IDA

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

 Score = 397 (144.8 bits), Expect = 2.1e-40, Sum P(2) = 2.1e-40
 Identities = 122/419 (29%), Positives = 200/419 (47%)

Query:    63 VTFWLDQLRDASYDMEDVLDEWTTARLKLQIEGIDDDNALA-LAPHKKKVRSFFCAVSNC 121
             V  WL  ++DA +  ED+LDE  T  L+ ++  + +   L  L  +    R    A+   
Sbjct:    63 VKHWLTGIKDAFFQAEDILDELQTEALRRRV--VAEAGGLGGLFQNLMAGRE---AIQ-- 115

Query:   122 FGSFKQLCLRHDIAVKIREINGKLDDIASQKDKFNFKFDENVSNNVKKPERVRTISLIDE 181
                 K++  + +  V++ E + K  ++   K+     + E      ++  R R   L  +
Sbjct:   116 ----KKIEPKMEKVVRLLEHHVKHIEVIGLKE-----YSETREPQWRQASRSRPDDL-PQ 165

Query:   182 GEVCGRVXXXXXXXXXXXXXXXXQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEK 241
             G + GRV                      VIS+VG+ G+GKTTL ++ +N+  V  +FE 
Sbjct:   166 GRLVGRVEDKLALVNLLLSDDEISIGKPAVISVVGMPGVGKTTLTEIVFNDYRVTEHFEV 225

Query:   242 VIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGD 301
              +W+     F    V KA+++ +  SA    +  SL  Q+++ ++ K+F LVLDD W   
Sbjct:   226 KMWISAGINFNVFTVTKAVLQDITSSAVNTEDLPSLQIQLKKTLSGKRFLLVLDDFWSES 285

Query:   302 YKKWNPFFSCLKNGHHESKILITTRDRSVALQLGSIDIIPVKELAEEECWSLLERLAFFR 361
               +W  F     +    SKI++TTR   V+    +  I  +K +  EECW L+ R AF  
Sbjct:   286 DSEWESFQVAFTDAEEGSKIVLTTRSEIVSTVAKAEKIYQMKLMTNEECWELISRFAFGN 345

Query:   362 RSVDD-HEKLEPIGRKIAHKCKGLPLAAKVIWNLLRSKSTVKEWQRILDSEMWKENISIM 420
              SV   +++LE IG++IA +CKGLPLAA+ I + LRSK    +W  +  +     N SI+
Sbjct:   346 ISVGSINQELEGIGKRIAEQCKGLPLAARAIASHLRSKPNPDDWYAVSKNFSSYTN-SIL 404

Query:   421 PCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIE 479
             P L +    L P+LK    + L  +   K  +     +  L +  D ++ PR SS R+E
Sbjct:   405 PVLKLSYDSLPPQLKRC--FAL-CSIFPKGHVFDREELVLLWMAIDLLYQPR-SSRRLE 459

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 = 363 (132.8 bits), Expect = 2.0e-38, Sum P(3) = 2.0e-38
 Identities = 85/249 (34%), Positives = 137/249 (55%)

Query:   205 QQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGL 264
             +  G+ V+ +VG GGIGKTTLAQL   +  +K  F   IWV VSD F+ +++ + I++ +
Sbjct:   315 RSNGITVLPIVGNGGIGKTTLAQLVCKDLVIKSQFNVKIWVYVSDKFDVVKITRQILDHV 374

Query:   265 G-VSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLK-----NGHHE 318
                S  G+S  ++L + ++E +  KKF +VLDDVW+     W    + L+     N   E
Sbjct:   375 SNQSHEGISNLDTLQQDLEEQMKSKKFLIVLDDVWEIRTDDWKKLLAPLRPNDQVNSSQE 434

Query:   319 ----SKILITTRDRSVALQLGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIG 374
                 + I++TTR +S+A  LG++  I ++ L +++ WSL +  AF     D    L+ +G
Sbjct:   435 EATGNMIILTTRIQSIAKSLGTVQSIKLEALKDDDIWSLFKVHAFGNDKHDSSPGLQVLG 494

Query:   375 RKIAHKCKGLPLAAKVIWNLLRSKSTVKEWQRILDSEMWK---ENISIMPCLSVLRVYLC 431
             ++IA + KG PLAAK + +LL +  T+  W  I+ SE WK   +   IM  L +   +L 
Sbjct:   495 KQIASELKGNPLAAKTVGSLLGTNLTIDHWDSIIKSEEWKSLQQAYGIMQALKLSYDHLS 554

Query:   432 PKLKVLPDY 440
               L+    Y
Sbjct:   555 NPLQQCVSY 563

GO:0006915 "apoptotic process" evidence=IGI

GO:0006952 "defense response" evidence=IGI

TAIR|locus:504956182 AT1G58848 [Arabidopsis thaliana (taxid:3702)]

 Score = 284 (105.0 bits), Expect = 1.2e-37, Sum P(3) = 1.2e-37
 Identities = 69/216 (31%), Positives = 119/216 (55%)

Query:   206 QKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLG 265
             +  + V+S+ G+GG+GKTTLA+  +N+++VK  F+ + WVCVS  F  + V + I+  L 
Sbjct:   180 EANVQVVSITGMGGLGKTTLAKQVFNHEDVKHQFDGLSWVCVSQDFTRMNVWQKILRDLK 239

Query:   266 VSASGLSEFESLMKQIQEYITR----KKFFLVLDDVWDG-DYKKWNPFFSCLKNGHHESK 320
                      E     +Q  + R     K  +VLDD+W+  D++   P F   K      K
Sbjct:   240 PKEEEKKIMEMTQDTLQGELIRLLETSKSLIVLDDIWEKEDWELIKPIFPPTKGW----K 295

Query:   321 ILITTRDRSVALQLGS--IDIIPVKELAEEECWSLLERLAF-FRRSVD---DHEKLEPIG 374
             +L+T+R+ SVA++  +  I+  P + L  E+ W+L +R+A   + + +   D EK E +G
Sbjct:   296 VLLTSRNESVAMRRNTSYINFKP-ECLTTEDSWTLFQRIALPMKDAAEFKIDEEK-EELG 353

Query:   375 RKIAHKCKGLPLAAKVIWNLLRSKSTVKEWQRILDS 410
             + +   C GLPLA +V+  +L  K T  +W+R+ ++
Sbjct:   354 KLMIKHCGGLPLAIRVLGGMLAEKYTSHDWRRLSEN 389

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2826978 AT1G59218 [Arabidopsis thaliana (taxid:3702)]

 Score = 284 (105.0 bits), Expect = 1.2e-37, Sum P(3) = 1.2e-37
 Identities = 69/216 (31%), Positives = 119/216 (55%)

Query:   206 QKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLG 265
             +  + V+S+ G+GG+GKTTLA+  +N+++VK  F+ + WVCVS  F  + V + I+  L 
Sbjct:   180 EANVQVVSITGMGGLGKTTLAKQVFNHEDVKHQFDGLSWVCVSQDFTRMNVWQKILRDLK 239

Query:   266 VSASGLSEFESLMKQIQEYITR----KKFFLVLDDVWDG-DYKKWNPFFSCLKNGHHESK 320
                      E     +Q  + R     K  +VLDD+W+  D++   P F   K      K
Sbjct:   240 PKEEEKKIMEMTQDTLQGELIRLLETSKSLIVLDDIWEKEDWELIKPIFPPTKGW----K 295

Query:   321 ILITTRDRSVALQLGS--IDIIPVKELAEEECWSLLERLAF-FRRSVD---DHEKLEPIG 374
             +L+T+R+ SVA++  +  I+  P + L  E+ W+L +R+A   + + +   D EK E +G
Sbjct:   296 VLLTSRNESVAMRRNTSYINFKP-ECLTTEDSWTLFQRIALPMKDAAEFKIDEEK-EELG 353

Query:   375 RKIAHKCKGLPLAAKVIWNLLRSKSTVKEWQRILDS 410
             + +   C GLPLA +V+  +L  K T  +W+R+ ++
Sbjct:   354 KLMIKHCGGLPLAIRVLGGMLAEKYTSHDWRRLSEN 389

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 297 (109.6 bits), Expect = 1.4e-37, Sum P(3) = 1.4e-37
 Identities = 68/206 (33%), Positives = 120/206 (58%)

Query:   209 LHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSA 268
             + V+S+ G+GGIGKTTLA+  +++D V+R+F+   WVCVS  F +  V + I++ L    
Sbjct:   183 IQVVSISGMGGIGKTTLARQIFHHDLVRRHFDGFAWVCVSQQFTQKHVWQRILQELRPHD 242

Query:   269 SGLSEFE--SLMKQIQEYITRKKFFLVLDDVW-DGDYKKWNPFFSCLKNGHHESKILITT 325
               + + +  ++  ++ + +   ++ +VLDDVW + D+ +    F   K G    K+L+T+
Sbjct:   243 GEILQMDEYTIQGKLFQLLETGRYLVVLDDVWKEEDWDRIKEVFP-RKRGW---KMLLTS 298

Query:   326 RDRSVALQLGSIDI-IPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGL 384
             R+  V L      +    + L  +E W L ER+   RR+  ++E++E IG+++   C GL
Sbjct:   299 RNEGVGLHADPTCLSFRARILNPKESWKLFERIVP-RRNETEYEEMEAIGKEMVTYCGGL 357

Query:   385 PLAAKVIWNLLRSKSTVKEWQRILDS 410
             PLA KV+  LL +K T  EW+R+ ++
Sbjct:   358 PLAVKVLGGLLANKHTASEWKRVSEN 383

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005886 "plasma membrane" evidence=IDA

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

 Score = 363 (132.8 bits), Expect = 2.8e-37, Sum P(3) = 2.8e-37
 Identities = 90/285 (31%), Positives = 154/285 (54%)

Query:   130 LRHDIAVKIREINGKLDDIASQKDK-FNFKFDENVSNNVKKPERVRTISLIDEGEVCGRV 188
             L++  + +++EIN ++  I SQ +  F F    NV  +    +R  +  + D  +V G  
Sbjct:   107 LQYKKSKRLQEINERITKIKSQVEPYFEFITPSNVGRD-NGTDRWSS-PVYDHTQVVGLE 164

Query:   189 XXXXXXXXXXXXXXXXQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVS 248
                             Q   L +++ VG+GG+GKTT+AQ  +N+ E++  FE+ IWV VS
Sbjct:   165 GDKRKIKEWLFRSNDSQ---LLIMAFVGMGGLGKTTIAQEVFNDKEIEHRFERRIWVSVS 221

Query:   249 DTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPF 308
              TF E ++ ++I+  LG ++ G  +  +L+++IQ+Y+  K++ +V+DDVWD +   W+  
Sbjct:   222 QTFTEEQIMRSILRNLGDASVG-DDIGTLLRKIQQYLLGKRYLIVMDDVWDKNLSWWDKI 280

Query:   309 FSCLKNGHHESKILITTRDRSVALQLGSIDIIPVKE--LAEEECWSLLERLAFFRRS-VD 365
             +  L  G   S +++TTR  SVA ++ + D    +   L+ +  W L   +AF       
Sbjct:   281 YQGLPRGQGGS-VIVTTRSESVAKRVQARDDKTHRPELLSPDNSWLLFCNVAFAANDGTC 339

Query:   366 DHEKLEPIGRKIAHKCKGLPLAAKVIWNLLRSKSTV-KEWQRILD 409
             +  +LE +G++I  KCKGLPL  K +  LL  K  V  EW+RI +
Sbjct:   340 ERPELEDVGKEIVTKCKGLPLTIKAVGGLLLCKDHVYHEWRRIAE 384

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2025916 AT1G59780 "AT1G59780" [Arabidopsis thaliana (taxid:3702)]

 Score = 295 (108.9 bits), Expect = 1.8e-36, Sum P(3) = 1.8e-36
 Identities = 85/293 (29%), Positives = 147/293 (50%)

Query:   131 RHDIAVKIREINGKLDDIASQKDKFNFKFD--ENVSNNV---KKPERVRTISLIDEGEVC 185
             R +IA++I  I+ ++  +         K D  + V ++    +K E   T S   E  + 
Sbjct:   102 RREIALQITSISKRISKVIQVMQNLGIKSDIMDGVDSHAQLERKRELRHTFSSESESNLV 161

Query:   186 GRVXXXXXXXXXXXXXXXXQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWV 245
             G                       H +S+ GLGG+GKTTLA+  +++D+VK +F+ + WV
Sbjct:   162 GLEKNVEKLVEELVGNDSS-----HGVSITGLGGLGKTTLARQIFDHDKVKSHFDGLAWV 216

Query:   246 CVSDTFEEIRVAKAIIEGLG--VSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDG-DY 302
             CVS  F    V K I+  L      S L E + + K++ + +  KK  +V DD+W   D+
Sbjct:   217 CVSQEFTRKDVWKTILGNLSPKYKDSDLPE-DDIQKKLFQLLETKKALIVFDDLWKREDW 275

Query:   303 KKWNPFFSCLKNGHHESKILITTRDRSVALQLGSIDIIPVKELAEEECWSLLERLAFFRR 362
              +  P F   K G    K+L+T+R+   A+    +   P + L  +ECW LL+R+AF ++
Sbjct:   276 YRIAPMFPERKAGW---KVLLTSRND--AIHPHCVTFKP-ELLTHDECWKLLQRIAFSKQ 329

Query:   363 S-----VDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLLRSKSTVKEWQRILDS 410
                   + D E ++ + +++   CK LPLA K++  LL +K T+++W+ I ++
Sbjct:   330 KTITGYIIDKEMVK-MAKEMTKHCKRLPLAVKLLGGLLDAKHTLRQWKLISEN 381

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 300 (110.7 bits), Expect = 9.7e-36, Sum P(3) = 9.7e-36
 Identities = 87/294 (29%), Positives = 145/294 (49%)

Query:   131 RHDIAVKIREINGKLDDIASQKDKFNFK--FDENVSNNVKKPERVR-----TISLIDEGE 183
             RH +A  I  I  ++ D+  +   F  +   D   S ++++ +RV+     T     E +
Sbjct:   105 RHKVASDIEGITKRISDVIGEMQSFGIQQIIDGVRSLSLQERQRVQREIRQTYPDSSESD 164

Query:   184 VCGRVXXXXXXXXXXXXXXXXQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVI 243
             + G V                 Q    V+S+ G+GGIGKTTLA+  +++D V+R+F+   
Sbjct:   165 LVG-VEQSVEELVGHLVENDIYQ----VVSIAGMGGIGKTTLARQVFHHDLVRRHFDGFA 219

Query:   244 WVCVSDTFEEIRVAKAIIEGLGVSASGLSEFE--SLMKQIQEYITRKKFFLVLDDVWDG- 300
             WVCVS  F    V + I++ L      + + +  +L  ++ + +   ++ LVLDDVW   
Sbjct:   220 WVCVSQQFTLKHVWQRILQELQPHDGNILQMDESALQPKLFQLLETGRYLLVLDDVWKKE 279

Query:   301 DYKKWNPFFSCLKNGHHESKILITTRDRSVALQLGSIDI-IPVKELAEEECWSLLERLAF 359
             D+ +    F   K G    K+L+T+R+  V +      +      L  EE W L ER+ F
Sbjct:   280 DWDRIKAVFP-RKRGW---KMLLTSRNEGVGIHADPTCLTFRASILNPEESWKLCERIVF 335

Query:   360 FRRSVDD---HEKLEPIGRKIAHKCKGLPLAAKVIWNLLRSKSTVKEWQRILDS 410
              RR   +    E++E +G+++   C GLPLA K +  LL +K TV EW+R+ D+
Sbjct:   336 PRRDETEVRLDEEMEAMGKEMVTHCGGLPLAVKALGGLLANKHTVPEWKRVSDN 389

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005886 "plasma membrane" evidence=IDA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	533
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	7e-56
pfam13401	124	pfam13401, AAA_22, AAA domain	7e-05
COG0552	340	COG0552, FtsY, Signal recognition particle GTPase	0.002

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

 Score =  188 bits (480), Expect = 7e-56
 Identities = 87/230 (37%), Positives = 128/230 (55%), Gaps = 10/230 (4%)

Query: 190 EKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD 249
               L+ KL     E    L V+ +VG+GG+GKTTLA+  YN+D V  +F+ V WV VS 
Sbjct: 4   MIEALIEKL----LEMSDNLGVVGIVGMGGVGKTTLAKQIYNDDSVGGHFDSVAWVVVSK 59

Query: 250 TFEEIRVAKAIIEGLGVSASGLSEFE--SLMKQIQEYITRKKFFLVLDDVWDGDYKKWNP 307
           T+ E R+ K I++ LG+  S   E     L  +I+E + RK+F LVLDDVW  +   W+ 
Sbjct: 60  TYTEFRLQKDILQELGLDDSDWVEKNESELAVKIKEALLRKRFLLVLDDVW--EKNDWDK 117

Query: 308 FFSCLKNGHHESKILITTRDRSVALQLGSI-DIIPVKELAEEECWSLLERLAFFRRSVDD 366
                 +G + S++++TTR  SVA ++G       V+ L  EE W L      F + +  
Sbjct: 118 IGVPFPDGENGSRVIVTTRSESVAGRMGGTSKPHEVESLEPEESWELFSNKV-FEKELPP 176

Query: 367 HEKLEPIGRKIAHKCKGLPLAAKVIWNLLRSKSTVKEWQRILDSEMWKEN 416
             +LE + ++I  KCKGLPLA KV+  LL  KSTV+EW+ +L+    +  
Sbjct: 177 CPELEEVAKEIVEKCKGLPLALKVLGGLLAFKSTVQEWEHVLEQLNNELA 226

Length = 285

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

 Score = 42.3 bits (100), Expect = 7e-05
 Identities = 21/88 (23%), Positives = 39/88 (44%), Gaps = 6/88 (6%)

Query: 211 VISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASG 270
           +  L G  G GKTTL +        +R    V++V          + + I+  LG+  SG
Sbjct: 6   IGVLTGESGSGKTTLLRRLARQLPNRR----VVYVEAPSLGTPKDLLRKILRALGLPLSG 61

Query: 271 LSEFESLMKQIQEYI-TRKKFFLVLDDV 297
            +    L++ I + +  R +  L++D+ 
Sbjct: 62  GTT-AELLEAILDALKRRGRPLLIIDEA 88

Length = 124

>gnl|CDD|223626 COG0552, FtsY, Signal recognition particle GTPase [Intracellular trafficking and secretion]

 Score = 40.3 bits (95), Expect = 0.002
 Identities = 23/92 (25%), Positives = 41/92 (44%), Gaps = 5/92 (5%)

Query: 161 ENVSNNVKKPERVRTISLIDEGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGI 220
           E +     K ++++    + E      +E    +    L     ++K   VI  VG+ G+
Sbjct: 91  EELRKREGKKKKIKDEETVKEALREALIEILRPVDKVDLPLEIPKEKKPFVILFVGVNGV 150

Query: 221 GKTT-LAQLAYNNDEVKRNFEKVIWVCVSDTF 251
           GKTT +A+LA     +K+  + V+     DTF
Sbjct: 151 GKTTTIAKLAKY---LKQQGKSVLLA-AGDTF 178

Length = 340

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	533
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PLN03210	1153	Resistant to P. syringae 6; Provisional	100.0
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	100.0
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.33
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.3
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	99.23
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.19
PF05729	166	NACHT: NACHT domain	99.1
PRK04841	903	transcriptional regulator MalT; Provisional	99.08
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	98.89
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	98.83
PTZ00112	1164	origin recognition complex 1 protein; Provisional	98.81
PRK13342	413	recombination factor protein RarA; Reviewed	98.8
PRK06893	229	DNA replication initiation factor; Validated	98.8
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.77
COG2256	436	MGS1 ATPase related to the helicase subunit of the	98.73
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	98.7
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.69
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	98.68
PF13173	128	AAA_14: AAA domain	98.65
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	98.63
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.62
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.61
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	98.61
PRK12402	337	replication factor C small subunit 2; Reviewed	98.59
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	98.58
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	98.57
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	98.57
PTZ00202	550	tuzin; Provisional	98.55
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	98.55
cd01128	249	rho_factor Transcription termination factor rho is	98.54
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	98.53
KOG2028	554	consensus ATPase related to the helicase subunit o	98.53
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	98.52
PRK00440	319	rfc replication factor C small subunit; Reviewed	98.52
PLN03025	319	replication factor C subunit; Provisional	98.51
COG3899	849	Predicted ATPase [General function prediction only	98.47
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	98.45
PRK13341	725	recombination factor protein RarA/unknown domain f	98.44
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	98.43
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	98.43
PRK09376	416	rho transcription termination factor Rho; Provisio	98.43
PRK04195	482	replication factor C large subunit; Provisional	98.42
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	98.42
PRK08727	233	hypothetical protein; Validated	98.38
PLN03210	1153	Resistant to P. syringae 6; Provisional	98.38
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	98.38
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	98.38
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	98.37
PRK08903	227	DnaA regulatory inactivator Hda; Validated	98.37
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	98.36
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	98.36
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	98.34
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	98.34
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	98.33
PRK09112	351	DNA polymerase III subunit delta'; Validated	98.32
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	98.32
PRK07940	394	DNA polymerase III subunit delta'; Validated	98.32
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	98.3
PRK07471	365	DNA polymerase III subunit delta'; Validated	98.3
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	98.3
PRK09087	226	hypothetical protein; Validated	98.29
PRK08084	235	DNA replication initiation factor; Provisional	98.29
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	98.27
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	98.25
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	98.23
TIGR00767	415	rho transcription termination factor Rho. Members	98.22
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	98.22
PRK05642	234	DNA replication initiation factor; Validated	98.2
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	98.19
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	98.17
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	98.15
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	98.15
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	98.13
PRK14087	450	dnaA chromosomal replication initiation protein; P	98.13
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	98.12
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	98.12
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	98.09
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.07
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	98.07
PRK03992	389	proteasome-activating nucleotidase; Provisional	98.06
CHL00181	287	cbbX CbbX; Provisional	98.05
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	98.04
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	98.03
PHA02544	316	44 clamp loader, small subunit; Provisional	98.02
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	98.01
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	98.01
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	97.99
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	97.99
CHL00095	821	clpC Clp protease ATP binding subunit	97.98
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	97.97
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	97.96
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	97.96
KOG0617	264	consensus Ras suppressor protein (contains leucine	97.94
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	97.94
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	97.93
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	97.92
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	97.89
PF00004	132	AAA: ATPase family associated with various cellula	97.89
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	97.85
PRK14088	440	dnaA chromosomal replication initiation protein; P	97.82
PRK12422	445	chromosomal replication initiation protein; Provis	97.82
PRK06620	214	hypothetical protein; Validated	97.81
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	97.81
PRK14086	617	dnaA chromosomal replication initiation protein; P	97.81
PRK08116	268	hypothetical protein; Validated	97.79
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	97.79
PRK07399	314	DNA polymerase III subunit delta'; Validated	97.78
PRK00149	450	dnaA chromosomal replication initiation protein; R	97.78
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	97.76
PRK05707	328	DNA polymerase III subunit delta'; Validated	97.75
COG3903	414	Predicted ATPase [General function prediction only	97.74
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.73
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.72
KOG0472	565	consensus Leucine-rich repeat protein [Function un	97.69
smart00382	148	AAA ATPases associated with a variety of cellular	97.69
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	97.69
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	97.69
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	97.68
PRK10865	857	protein disaggregation chaperone; Provisional	97.66
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	97.63
PF14516	331	AAA_35: AAA-like domain	97.6
COG0593	408	DnaA ATPase involved in DNA replication initiation	97.6
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.59
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	97.59
PRK15386	426	type III secretion protein GogB; Provisional	97.58
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	97.57
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	97.57
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	97.57
PRK10865	857	protein disaggregation chaperone; Provisional	97.57
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	97.55
PRK12377	248	putative replication protein; Provisional	97.55
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	97.54
PRK06090	319	DNA polymerase III subunit delta'; Validated	97.54
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	97.54
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	97.53
PRK08118	167	topology modulation protein; Reviewed	97.53
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	97.53
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	97.51
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	97.51
PRK08058	329	DNA polymerase III subunit delta'; Validated	97.47
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	97.46
PRK08769	319	DNA polymerase III subunit delta'; Validated	97.46
CHL00176	638	ftsH cell division protein; Validated	97.44
PRK08181	269	transposase; Validated	97.43
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.41
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	97.38
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.36
PRK10536	262	hypothetical protein; Provisional	97.34
KOG0617	264	consensus Ras suppressor protein (contains leucine	97.33
PRK06526	254	transposase; Provisional	97.32
PRK09183	259	transposase/IS protein; Provisional	97.31
PLN03150	623	hypothetical protein; Provisional	97.28
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	97.28
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	97.27
PRK06921	266	hypothetical protein; Provisional	97.27
PRK06964	342	DNA polymerase III subunit delta'; Validated	97.27
PRK08939	306	primosomal protein DnaI; Reviewed	97.26
PRK06871	325	DNA polymerase III subunit delta'; Validated	97.26
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	97.23
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	97.23
PRK06835	329	DNA replication protein DnaC; Validated	97.22
PRK07261	171	topology modulation protein; Provisional	97.21
PRK07952	244	DNA replication protein DnaC; Validated	97.2
PRK15386	426	type III secretion protein GogB; Provisional	97.19
COG1484	254	DnaC DNA replication protein [DNA replication, rec	97.18
PRK13531	498	regulatory ATPase RavA; Provisional	97.18
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	97.16
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	97.15
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	97.13
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.13
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	97.13
CHL00095	821	clpC Clp protease ATP binding subunit	97.13
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.12
PRK04132	846	replication factor C small subunit; Provisional	97.11
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	97.1
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	97.1
TIGR02237	209	recomb_radB DNA repair and recombination protein R	97.08
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.07
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	97.05
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	97.02
PHA00729	226	NTP-binding motif containing protein	97.02
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.01
PRK05541	176	adenylylsulfate kinase; Provisional	97.0
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	96.99
PRK07993	334	DNA polymerase III subunit delta'; Validated	96.99
PRK04296	190	thymidine kinase; Provisional	96.99
PRK12608	380	transcription termination factor Rho; Provisional	96.97
PLN03150	623	hypothetical protein; Provisional	96.97
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	96.92
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	96.92
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	96.92
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	96.87
KOG1969	877	consensus DNA replication checkpoint protein CHL12	96.87
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	96.86
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	96.85
cd01394	218	radB RadB. The archaeal protein radB shares simila	96.84
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	96.84
KOG0472	565	consensus Leucine-rich repeat protein [Function un	96.83
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	96.83
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	96.82
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	96.82
KOG1514	767	consensus Origin recognition complex, subunit 1, a	96.81
PRK08699	325	DNA polymerase III subunit delta'; Validated	96.81
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	96.79
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	96.78
CHL00195	489	ycf46 Ycf46; Provisional	96.77
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	96.7
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	96.68
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	96.68
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	96.68
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	96.67
KOG0924	1042	consensus mRNA splicing factor ATP-dependent RNA h	96.67
COG2884	223	FtsE Predicted ATPase involved in cell division [C	96.65
PRK13695	174	putative NTPase; Provisional	96.64
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	96.64
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	96.63
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	96.63
PRK06696	223	uridine kinase; Validated	96.62
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	96.61
cd00983	325	recA RecA is a bacterial enzyme which has roles in	96.59
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	96.58
PRK15455	644	PrkA family serine protein kinase; Provisional	96.56
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	96.55
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	96.54
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	96.52
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	96.49
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	96.49
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	96.49
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	96.49
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	96.44
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	96.43
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	96.43
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	96.42
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	96.37
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	96.36
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	96.36
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	96.36
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	96.35
PRK11608	326	pspF phage shock protein operon transcriptional ac	96.35
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	96.34
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	96.32
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	96.31
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	96.31
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	96.3
PRK09354	349	recA recombinase A; Provisional	96.27
PHA02244	383	ATPase-like protein	96.25
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	96.25
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	96.22
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	96.22
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	96.21
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	96.19
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	96.18
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	96.18
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	96.17
COG1875	436	NYN ribonuclease and ATPase of PhoH family domains	96.15
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	96.15
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	96.13
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	96.13
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	96.12
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	96.12
PRK06067	234	flagellar accessory protein FlaH; Validated	96.12
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	96.11
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	96.09
TIGR02236	310	recomb_radA DNA repair and recombination protein R	96.08
PRK04301	317	radA DNA repair and recombination protein RadA; Va	96.07
cd03216	163	ABC_Carb_Monos_I This family represents the domain	96.06
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	96.05
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	96.03
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	96.03
PTZ00035	337	Rad51 protein; Provisional	96.01
PRK14974	336	cell division protein FtsY; Provisional	96.01
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	96.0
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	95.98
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	95.96
PRK07667	193	uridine kinase; Provisional	95.95
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	95.95
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	95.94
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	95.93
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	95.93
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	95.93
PRK05022	509	anaerobic nitric oxide reductase transcription reg	95.91
PRK05439	311	pantothenate kinase; Provisional	95.91
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	95.89
TIGR00235	207	udk uridine kinase. Model contains a number of lon	95.89
TIGR00959	428	ffh signal recognition particle protein. This mode	95.89
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	95.87
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	95.87
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	95.84
KOG3864	221	consensus Uncharacterized conserved protein [Funct	95.83
PRK08233	182	hypothetical protein; Provisional	95.83
cd03115	173	SRP The signal recognition particle (SRP) mediates	95.82
PRK05480	209	uridine/cytidine kinase; Provisional	95.82
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	95.8
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	95.8
PRK00889	175	adenylylsulfate kinase; Provisional	95.79
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	95.78
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	95.77
TIGR00064	272	ftsY signal recognition particle-docking protein F	95.76
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	95.76
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	95.75
cd03246	173	ABCC_Protease_Secretion This family represents the	95.75
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	95.73
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	95.71
PRK00771	437	signal recognition particle protein Srp54; Provisi	95.7
PTZ00301	210	uridine kinase; Provisional	95.7
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	95.69
PF12061	402	DUF3542: Protein of unknown function (DUF3542); In	95.65
PRK10867	433	signal recognition particle protein; Provisional	95.63
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	95.61
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	95.61
cd03282	204	ABC_MSH4_euk MutS4 homolog in eukaryotes. The MutS	95.6
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	95.59
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	95.58
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	95.56
PF00154	322	RecA: recA bacterial DNA recombination protein; In	95.55
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	95.55
COG0396	251	sufC Cysteine desulfurase activator ATPase [Posttr	95.54
PRK06762	166	hypothetical protein; Provisional	95.53
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	95.51
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	95.51
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	95.46
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	95.39
PRK06547	172	hypothetical protein; Provisional	95.38
PTZ00494	664	tuzin-like protein; Provisional	95.36
PRK03846	198	adenylylsulfate kinase; Provisional	95.35
PTZ00088	229	adenylate kinase 1; Provisional	95.33
PRK03839	180	putative kinase; Provisional	95.32
PRK07132	299	DNA polymerase III subunit delta'; Validated	95.32
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	95.29
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	95.29
cd03244	221	ABCC_MRP_domain2 Domain 2 of the ABC subfamily C.	95.26
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	95.26
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	95.26
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	95.23
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	95.22
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	95.21
PRK04328	249	hypothetical protein; Provisional	95.2
cd03369	207	ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-ty	95.19
PRK08533	230	flagellar accessory protein FlaH; Reviewed	95.18
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	95.17
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	95.17
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	95.17
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	95.16
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	95.14
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	95.14
TIGR01069	771	mutS2 MutS2 family protein. Function of MutS2 is u	95.14
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	95.13
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	95.1
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	95.07
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	95.06
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	95.05
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	95.03
COG4618	580	ArpD ABC-type protease/lipase transport system, AT	95.03
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	95.03
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	95.02
PRK04040	188	adenylate kinase; Provisional	95.02
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	95.0
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	94.99
PRK00131	175	aroK shikimate kinase; Reviewed	94.98
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	94.96
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	94.96
cd03217	200	ABC_FeS_Assembly ABC-type transport system involve	94.93
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	94.9
PRK00625	173	shikimate kinase; Provisional	94.89
PF07726	131	AAA_3: ATPase family associated with various cellu	94.89
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	94.87
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	94.87
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	94.86
TIGR03522	301	GldA_ABC_ATP gliding motility-associated ABC trans	94.86
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	94.85
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	94.85
PF05659	147	RPW8: Arabidopsis broad-spectrum mildew resistance	94.84
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	94.82
TIGR02329	526	propionate_PrpR propionate catabolism operon regul	94.82
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	94.82
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	94.81
PF10236	309	DAP3: Mitochondrial ribosomal death-associated pro	94.79
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	94.77
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	94.76
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	94.76
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	94.76
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	94.72
TIGR03575	340	selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryoti	94.71
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	94.71
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	94.7
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	94.65
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	94.64
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	94.64
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	94.63
COG1643	845	HrpA HrpA-like helicases [DNA replication, recombi	94.63
TIGR03498	418	FliI_clade3 flagellar protein export ATPase FliI.	94.63
PRK06002	450	fliI flagellum-specific ATP synthase; Validated	94.61
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	94.61
PRK06217	183	hypothetical protein; Validated	94.61
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	94.61
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	94.6
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	94.6
PRK00300	205	gmk guanylate kinase; Provisional	94.6
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	94.59
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	94.59
PRK07594	433	type III secretion system ATPase SsaN; Validated	94.58
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	94.56
PRK14738	206	gmk guanylate kinase; Provisional	94.51
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	94.49
smart00534	185	MUTSac ATPase domain of DNA mismatch repair MUTS f	94.49
PRK14737	186	gmk guanylate kinase; Provisional	94.48
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	94.47
COG0714	329	MoxR-like ATPases [General function prediction onl	94.46
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	94.46
PTZ00185	574	ATPase alpha subunit; Provisional	94.45
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	94.43
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	94.43
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	94.42
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	94.41
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	94.4
PF13245	76	AAA_19: Part of AAA domain	94.4
PHA02774	613	E1; Provisional	94.4
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	94.4
PRK08972	444	fliI flagellum-specific ATP synthase; Validated	94.39
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	94.39
PF13479	213	AAA_24: AAA domain	94.38
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	94.38
PRK10416	318	signal recognition particle-docking protein FtsY;	94.38
PRK15424	538	propionate catabolism operon regulatory protein Pr	94.37
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	94.36
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	94.32
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	94.31
PRK09519	790	recA DNA recombination protein RecA; Reviewed	94.29
PRK05917	290	DNA polymerase III subunit delta'; Validated	94.29
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	94.27
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	94.26
PLN02348	395	phosphoribulokinase	94.26
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	94.26
PRK13947	171	shikimate kinase; Provisional	94.25
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	94.25
PRK15115	444	response regulator GlrR; Provisional	94.25
PRK13949	169	shikimate kinase; Provisional	94.22
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	94.21
PRK00409	782	recombination and DNA strand exchange inhibitor pr	94.2
cd02029	277	PRK_like Phosphoribulokinase-like (PRK-like) is a	94.2
PRK05973	237	replicative DNA helicase; Provisional	94.19
PRK08927	442	fliI flagellum-specific ATP synthase; Validated	94.19
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	94.18
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	94.17
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	94.16
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	94.14
PRK11823	446	DNA repair protein RadA; Provisional	94.1
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	94.1
cd01132	274	F1_ATPase_alpha F1 ATP synthase alpha, central dom	94.09
COG4133	209	CcmA ABC-type transport system involved in cytochr	94.08
PRK15453	290	phosphoribulokinase; Provisional	94.04
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	94.03
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	94.03
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	94.02
PRK14530	215	adenylate kinase; Provisional	94.01
PRK12678	672	transcription termination factor Rho; Provisional	93.98
PRK12339	197	2-phosphoglycerate kinase; Provisional	93.97
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	93.96
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	93.96
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	93.95
cd00046	144	DEXDc DEAD-like helicases superfamily. A diverse f	93.95
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	93.93
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	93.93
CHL00206	2281	ycf2 Ycf2; Provisional	93.9
PRK06793	432	fliI flagellum-specific ATP synthase; Validated	93.89
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	93.89
COG2019	189	AdkA Archaeal adenylate kinase [Nucleotide transpo	93.88
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	93.88
PRK13765	637	ATP-dependent protease Lon; Provisional	93.88
PRK13975	196	thymidylate kinase; Provisional	93.87
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	93.86
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	93.85
smart00487	201	DEXDc DEAD-like helicases superfamily.	93.83
cd01136	326	ATPase_flagellum-secretory_path_III Flagellum-spec	93.83
PRK05057	172	aroK shikimate kinase I; Reviewed	93.82
) proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF06309">PF06309	127	Torsin: Torsin; InterPro: IPR010448 This family co	93.8
PRK14527	191	adenylate kinase; Provisional	93.79
PRK08149	428	ATP synthase SpaL; Validated	93.78
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	93.76
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	93.73
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	93.7
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	93.67
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	93.67
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	93.67
COG1100	219	GTPase SAR1 and related small G proteins [General	93.62
PRK13545	549	tagH teichoic acids export protein ATP-binding sub	93.61
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	93.6
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	93.6
PF00005	137	ABC_tran: ABC transporter This structure is on hol	93.59
PRK11176	582	lipid transporter ATP-binding/permease protein; Pr	93.57
COG0003	322	ArsA Predicted ATPase involved in chromosome parti	93.56
PRK15064	530	ABC transporter ATP-binding protein; Provisional	93.56
PRK05922	434	type III secretion system ATPase; Validated	93.55
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	93.55
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	93.54
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	93.51
PRK10875	615	recD exonuclease V subunit alpha; Provisional	93.51
PRK07196	434	fliI flagellum-specific ATP synthase; Validated	93.5
PLN02200	234	adenylate kinase family protein	93.49

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=7.3e-56  Score=483.37  Aligned_cols=470  Identities=25%  Similarity=0.419  Sum_probs=362.6

Q ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHHhccccCChHHHHHHHHHHhhccchhhhHH
Q 045152            3 DAIVSSLLGQLTSVAADEVKQHVRLVTGVGEEVKKLTSNLRAIRAVLEDAEKRQMQRDNAVTFWLDQLRDASYDMEDVLD   82 (533)
Q Consensus         3 ~~~v~~~l~kl~~~l~~~~~~e~~~~~~~~~~~~~L~~~L~~i~~~l~~ae~~~~~~~~~~~~Wl~~lrd~ayd~eD~lD   82 (533)
                      +++++..++|+.++    +.++...+.+.++.+..|+++|..++++++|++.++.. ...+..|.+.+++++|++||+++
T Consensus         2 ~~~~s~~~~~~~~~----l~~~~~~~~~~~~~i~~Lk~~L~~l~~~l~d~~a~~~~-~~~~~~~~e~~~~~~~~~e~~~~   76 (889)
T KOG4658|consen    2 GACVSFGVEKLDQL----LNRESECLDGKDNYILELKENLKALQSALEDLDAKRDD-LERRVNWEEDVGDLVYLAEDIIW   76 (889)
T ss_pred             CeEEEEehhhHHHH----HHHHHHHHhchHHHHHHHHHHHHHHHHHHHHHHhhcch-HHHHHHHHHHHHHHHHHHHHHHH
Confidence            45566677888887    88888999999999999999999999999999998876 77889999999999999999999


Q ss_pred             HHHHHHHHhhhhcCCCcchhccccccccccccccccccccCcccchhhHHHHHHHHHHHHHHHHHHHHhchhCCcccccc
Q 045152           83 EWTTARLKLQIEGIDDDNALALAPHKKKVRSFFCAVSNCFGSFKQLCLRHDIAVKIREINGKLDDIASQKDKFNFKFDEN  162 (533)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~i~~i~~~l~~i~~~~~~~~~~~~~~  162 (533)
                      .|.......+..+.-.  .  ...-.++.         |+     ..++++.+..+..+.+++-.+...+..++......
T Consensus        77 ~~~v~~~~~~~~~~l~--~--~~~~~~~~---------c~-----~~~~~~~~~~~~~~~~rv~~~l~~ve~l~~~~~~~  138 (889)
T KOG4658|consen   77 LFLVEEIERKANDLLS--T--RSVERQRL---------CL-----CGFCSKNVSDSYKYGKRVSKVLREVESLGSKGVFE  138 (889)
T ss_pred             HHHHHHHHHHHhHHhh--h--hHHHHHHH---------hh-----hhhHhHhhhhhHhHHHHHHHHHHHHHHhcccccee
Confidence            9998887654332110  0  00000111         11     13445555555555566655555555555332111


Q ss_pred             cCCC-CCCCCcccccccccCCceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchh-hhccCC
Q 045152          163 VSNN-VKKPERVRTISLIDEGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDE-VKRNFE  240 (533)
Q Consensus       163 ~~~~-~~~~~~~~~~~~~~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~-~~~~F~  240 (533)
                      .... ......+.+.|.....+ ||.+..++++.+.|...+      ..+++|+||||+||||||+.++|+.. ++.+|+
T Consensus       139 ~~~~~~~~~~~~e~~~~~~~~~-VG~e~~~~kl~~~L~~d~------~~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd  211 (889)
T KOG4658|consen  139 VVGESLDPREKVETRPIQSESD-VGLETMLEKLWNRLMEDD------VGIVGIYGMGGVGKTTLARQIFNKFDEVGNHFD  211 (889)
T ss_pred             cccccccchhhcccCCCCcccc-ccHHHHHHHHHHHhccCC------CCEEEEECCCcccHHHHHHHHhcccchhcccCc
Confidence            0000 11122334445555555 999999999999997653      38999999999999999999999987 999999


Q ss_pred             ceEEEEeCCchhHHHHHHHHHHHhCCCCCCCc--cHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCCCCC
Q 045152          241 KVIWVCVSDTFEEIRVAKAIIEGLGVSASGLS--EFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHE  318 (533)
Q Consensus       241 ~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~--~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~g  318 (533)
                      .++||+||+.++...++++|+..++.......  ..+.++..+.+.|++|||+|||||||+.  .+|+.+..++|...+|
T Consensus       212 ~~iWV~VSk~f~~~~iq~~Il~~l~~~~~~~~~~~~~~~~~~i~~~L~~krfllvLDDIW~~--~dw~~I~~~~p~~~~g  289 (889)
T KOG4658|consen  212 GVIWVVVSKEFTTRKIQQTILERLGLLDEEWEDKEEDELASKLLNLLEGKRFLLVLDDIWEE--VDWDKIGVPFPSRENG  289 (889)
T ss_pred             eEEEEEEcccccHHhHHHHHHHHhccCCcccchhhHHHHHHHHHHHhccCceEEEEeccccc--ccHHhcCCCCCCccCC
Confidence            99999999999999999999999887443322  2468899999999999999999999998  5699999999998899


Q ss_pred             ceEEEEecchHHHhh-hCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHHHHHHhhc
Q 045152          319 SKILITTRDRSVALQ-LGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLLRS  397 (533)
Q Consensus       319 s~IiiTtR~~~v~~~-~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~~~~L~~  397 (533)
                      |+|++|||++.|+.. +++...++++.|+.++||+||++.+|.. .....+.++++|++|+++|+|+|||++++|+.|+.
T Consensus       290 ~KvvlTTRs~~V~~~~m~~~~~~~v~~L~~~eaW~LF~~~v~~~-~~~~~~~i~~lak~v~~kC~GLPLAl~viG~~ma~  368 (889)
T KOG4658|consen  290 SKVVLTTRSEEVCGRAMGVDYPIEVECLTPEEAWDLFQKKVGPN-TLGSHPDIEELAKEVAEKCGGLPLALNVLGGLLAC  368 (889)
T ss_pred             eEEEEEeccHhhhhccccCCccccccccCccccHHHHHHhhccc-cccccccHHHHHHHHHHHhCChHHHHHHHHHHhcC
Confidence            999999999999998 7888999999999999999999999843 33445559999999999999999999999999999


Q ss_pred             ccchHHHHHHHhhhhhhcc-------ccccc---------------ccceEEEe--------------------------
Q 045152          398 KSTVKEWQRILDSEMWKEN-------ISIMP---------------CLSVLRVY--------------------------  429 (533)
Q Consensus       398 ~~~~~~w~~~l~~~~~~~~-------~~ilp---------------~L~~L~l~--------------------------  429 (533)
                      |.+..+|+++.+...+...       +.++|               |+.|+.++                          
T Consensus       369 K~t~~eW~~~~~~l~s~~~~~~~~~~~~i~~iLklSyd~L~~~lK~CFLycalFPED~~I~~e~Li~yWiaEGfi~~~~~  448 (889)
T KOG4658|consen  369 KKTVQEWRRALNVLKSSLAADFSGMEESILPILKLSYDNLPEELKSCFLYCALFPEDYEIKKEKLIEYWIAEGFIDPLDG  448 (889)
T ss_pred             CCcHHHHHHHHccccccccCCCCchhhhhHHhhhccHhhhhHHHHHHHHhhccCCcccccchHHHHHHHHhccCcCcccc
Confidence            9999999999886433310       11111               11111110                          


Q ss_pred             --------------------------------------------------------------------------------
Q 045152          430 --------------------------------------------------------------------------------  429 (533)
Q Consensus       430 --------------------------------------------------------------------------------  429 (533)
                                                                                                      
T Consensus       449 ~~~~~d~G~~~i~~LV~~~Ll~~~~~~~~~~~~kmHDvvRe~al~ias~~~~~~e~~iv~~~~~~~~~~~~~~~~~~rr~  528 (889)
T KOG4658|consen  449 GETAEDVGYDYIEELVRASLLIEERDEGRKETVKMHDVVREMALWIASDFGKQEENQIVSDGVGLSEIPQVKSWNSVRRM  528 (889)
T ss_pred             ccchhcchHHHHHHHHHHHHHhhcccccceeEEEeeHHHHHHHHHHhccccccccceEEECCcCccccccccchhheeEE
Confidence                                                                                            


Q ss_pred             --------------ecCC------------cccCCc-cccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCC
Q 045152          430 --------------LCPK------------LKVLPD-YLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCP  482 (533)
Q Consensus       430 --------------~c~~------------l~~lp~-~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~  482 (533)
                                    .|++            +..++. .+..++.|++|++++|.++.+||  .+++.|-+|++|++++ +
T Consensus       529 s~~~~~~~~~~~~~~~~~L~tLll~~n~~~l~~is~~ff~~m~~LrVLDLs~~~~l~~LP--~~I~~Li~LryL~L~~-t  605 (889)
T KOG4658|consen  529 SLMNNKIEHIAGSSENPKLRTLLLQRNSDWLLEISGEFFRSLPLLRVLDLSGNSSLSKLP--SSIGELVHLRYLDLSD-T  605 (889)
T ss_pred             EEeccchhhccCCCCCCccceEEEeecchhhhhcCHHHHhhCcceEEEECCCCCccCcCC--hHHhhhhhhhcccccC-C
Confidence                          0111            111221 13448899999999999999999  7999999999999998 7


Q ss_pred             CCCCCCcCCCCCCCcceeeccCCchh
Q 045152          483 KLKLLPDSLLQITTLKELGMEGSPLL  508 (533)
Q Consensus       483 ~l~~lP~~~~~l~~L~~L~~~~c~~l  508 (533)
                      .++.||.++.+|+.|.+|++..+..+
T Consensus       606 ~I~~LP~~l~~Lk~L~~Lnl~~~~~l  631 (889)
T KOG4658|consen  606 GISHLPSGLGNLKKLIYLNLEVTGRL  631 (889)
T ss_pred             CccccchHHHHHHhhheecccccccc
Confidence            89999999999999999999876543

>PLN03210 Resistant to P

Probab=100.00  E-value=3.4e-36  Score=345.54  Aligned_cols=216  Identities=20%  Similarity=0.343  Sum_probs=170.2

Q ss_pred             cCCceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEe---CCc------
Q 045152          180 DEGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCV---SDT------  250 (533)
Q Consensus       180 ~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v---s~~------  250 (533)
                      +..++|||+..++++..+|....    +++++|+|+||||+||||||+.+|+  ++..+|+..+|+..   +..      
T Consensus       182 ~~~~~vG~~~~l~~l~~lL~l~~----~~~~vvgI~G~gGiGKTTLA~~l~~--~l~~~F~g~vfv~~~~v~~~~~~~~~  255 (1153)
T PLN03210        182 DFEDFVGIEDHIAKMSSLLHLES----EEVRMVGIWGSSGIGKTTIARALFS--RLSRQFQSSVFIDRAFISKSMEIYSS  255 (1153)
T ss_pred             ccccccchHHHHHHHHHHHcccc----CceEEEEEEcCCCCchHHHHHHHHH--HHhhcCCeEEEeeccccccchhhccc
Confidence            45679999999999999885432    5789999999999999999999998  57789998888742   111      


Q ss_pred             -----hh-HHHHHHHHHHHhCCCCC-CCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEE
Q 045152          251 -----FE-EIRVAKAIIEGLGVSAS-GLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILI  323 (533)
Q Consensus       251 -----~~-~~~l~~~il~~l~~~~~-~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~Iii  323 (533)
                           ++ ...++.+++.++..... ....    ...+++.+.++|+||||||||+.  ..|+.+.......++||+|||
T Consensus       256 ~~~~~~~~~~~l~~~~l~~il~~~~~~~~~----~~~~~~~L~~krvLLVLDdv~~~--~~l~~L~~~~~~~~~GsrIIi  329 (1153)
T PLN03210        256 ANPDDYNMKLHLQRAFLSEILDKKDIKIYH----LGAMEERLKHRKVLIFIDDLDDQ--DVLDALAGQTQWFGSGSRIIV  329 (1153)
T ss_pred             ccccccchhHHHHHHHHHHHhCCCCcccCC----HHHHHHHHhCCeEEEEEeCCCCH--HHHHHHHhhCccCCCCcEEEE
Confidence                 01 12344455554432211 1111    14567788999999999999876  568888776666678999999


Q ss_pred             EecchHHHhhhCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHHHHHHhhcccchHH
Q 045152          324 TTRDRSVALQLGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLLRSKSTVKE  403 (533)
Q Consensus       324 TtR~~~v~~~~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~~~~L~~~~~~~~  403 (533)
                      |||+..++...+....|+++.|+.++||+||+++||..  ...++.+.+++.+|+++|+|+|||++++|++|+.+ +..+
T Consensus       330 TTrd~~vl~~~~~~~~~~v~~l~~~ea~~LF~~~Af~~--~~~~~~~~~l~~~iv~~c~GLPLAl~vlgs~L~~k-~~~~  406 (1153)
T PLN03210        330 ITKDKHFLRAHGIDHIYEVCLPSNELALEMFCRSAFKK--NSPPDGFMELASEVALRAGNLPLGLNVLGSYLRGR-DKED  406 (1153)
T ss_pred             EeCcHHHHHhcCCCeEEEecCCCHHHHHHHHHHHhcCC--CCCcHHHHHHHHHHHHHhCCCcHHHHHHHHHHcCC-CHHH
Confidence            99999999887778899999999999999999999943  23345688999999999999999999999999987 6889


Q ss_pred             HHHHHhh
Q 045152          404 WQRILDS  410 (533)
Q Consensus       404 w~~~l~~  410 (533)
                      |+.+++.
T Consensus       407 W~~~l~~  413 (1153)
T PLN03210        407 WMDMLPR  413 (1153)
T ss_pred             HHHHHHH
Confidence            9988754

syringae 6; Provisional

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

Probab=100.00  E-value=2.5e-34  Score=283.49  Aligned_cols=222  Identities=39%  Similarity=0.572  Sum_probs=179.9

Q ss_pred             chhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCC
Q 045152          187 RVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGV  266 (533)
Q Consensus       187 R~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~  266 (533)
                      ||.++++|.++|....    ++.++|+|+||||+||||||..++++..++.+|+.++|+.++...+...++..|+.+++.
T Consensus         1 re~~~~~l~~~L~~~~----~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~   76 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNS----NEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGE   76 (287)
T ss_dssp             -HHHHHHHHHHHHTTT----TSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHhhCCC----CCeEEEEEEcCCcCCcceeeeecccccccccccccccccccccccccccccccccccccc
Confidence            7889999999997643    578999999999999999999999987789999999999999998889999999999988


Q ss_pred             CCC---CCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecchHHHhhhCC-CCeeeC
Q 045152          267 SAS---GLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRSVALQLGS-IDIIPV  342 (533)
Q Consensus       267 ~~~---~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~~v~~~~~~-~~~~~l  342 (533)
                      ...   ...+.+.....+.+.+.++++||||||||+.  ..|+.+...++....|++||||||+..++..++. ...+++
T Consensus        77 ~~~~~~~~~~~~~~~~~l~~~L~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~~l  154 (287)
T PF00931_consen   77 PDSSISDPKDIEELQDQLRELLKDKRCLLVLDDVWDE--EDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVIEL  154 (287)
T ss_dssp             C-STSSCCSSHHHHHHHHHHHHCCTSEEEEEEEE-SH--HHH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEEEC
T ss_pred             cccccccccccccccccchhhhccccceeeeeeeccc--ccccccccccccccccccccccccccccccccccccccccc
Confidence            743   4466778999999999999999999999876  4788888888777789999999999998877655 678999


Q ss_pred             CCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHHHHHHhhcccchHHHHHHHhhhhhhc
Q 045152          343 KELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLLRSKSTVKEWQRILDSEMWKE  415 (533)
Q Consensus       343 ~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~~~~L~~~~~~~~w~~~l~~~~~~~  415 (533)
                      ++|+.+++++||++.++... ....+.+++.+++|+++|+|+|||++++|++|+.+.+..+|.++++...+..
T Consensus       155 ~~L~~~ea~~L~~~~~~~~~-~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~~  226 (287)
T PF00931_consen  155 EPLSEEEALELFKKRAGRKE-SESPEDLEDLAKEIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELENSL  226 (287)
T ss_dssp             SS--HHHHHHHHHHHHTSHS-----TTSCTHHHHHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHCH
T ss_pred             cccccccccccccccccccc-cccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            99999999999999987433 2345667889999999999999999999999988778899999998766554

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.

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

Probab=99.33  E-value=1.3e-10  Score=113.29  Aligned_cols=183  Identities=16%  Similarity=0.159  Sum_probs=115.3

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHH----H
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQ----E  283 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~----~  283 (533)
                      ...++.|+|++|+|||||++.+++.... ..+ ..+|+ +....+..+++..|...++.+.... +.......+.    .
T Consensus        42 ~~~~~~l~G~~G~GKTtl~~~l~~~l~~-~~~-~~~~~-~~~~~~~~~~l~~i~~~lG~~~~~~-~~~~~~~~l~~~l~~  117 (269)
T TIGR03015        42 REGFILITGEVGAGKTTLIRNLLKRLDQ-ERV-VAAKL-VNTRVDAEDLLRMVAADFGLETEGR-DKAALLRELEDFLIE  117 (269)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHhcCC-CCe-EEeee-eCCCCCHHHHHHHHHHHcCCCCCCC-CHHHHHHHHHHHHHH
Confidence            3458899999999999999999975321 111 12233 3334567788899998887654322 2222223333    2


Q ss_pred             H-hCCceEEEEEeCCCCCCccccchhhhcccC---CCCCceEEEEecchHHHhhhC----------CCCeeeCCCCChHh
Q 045152          284 Y-ITRKKFFLVLDDVWDGDYKKWNPFFSCLKN---GHHESKILITTRDRSVALQLG----------SIDIIPVKELAEEE  349 (533)
Q Consensus       284 ~-l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~---~~~gs~IiiTtR~~~v~~~~~----------~~~~~~l~~L~~~~  349 (533)
                      . ..+++.++|+||++......++.+......   ......|++|.... ....+.          ....+++++++.++
T Consensus       118 ~~~~~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~~-~~~~l~~~~~~~l~~r~~~~~~l~~l~~~e  196 (269)
T TIGR03015       118 QFAAGKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPE-FRETLQSPQLQQLRQRIIASCHLGPLDREE  196 (269)
T ss_pred             HHhCCCCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCHH-HHHHHcCchhHHHHhheeeeeeCCCCCHHH
Confidence            2 267889999999988765556655432221   12233455665432 221111          13457899999999


Q ss_pred             hHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHHHHHHh
Q 045152          350 CWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLL  395 (533)
Q Consensus       350 ~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~~~~L  395 (533)
                      ..+++...+...+......--.+..+.|++.++|.|..+..++..+
T Consensus       197 ~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~  242 (269)
T TIGR03015       197 TREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRL  242 (269)
T ss_pred             HHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHH
Confidence            9999987764222111122235778999999999999999888766

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

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.30  E-value=6.8e-11  Score=121.98  Aligned_cols=211  Identities=18%  Similarity=0.139  Sum_probs=128.0

Q ss_pred             cCCceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHH
Q 045152          180 DEGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKA  259 (533)
Q Consensus       180 ~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~  259 (533)
                      .++.++||++++++|...+...-.  ......+.|+|++|+|||++++.++++.......-..+++++....+...++..
T Consensus        28 ~P~~l~~Re~e~~~l~~~l~~~~~--~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~  105 (394)
T PRK00411         28 VPENLPHREEQIEELAFALRPALR--GSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSE  105 (394)
T ss_pred             cCCCCCCHHHHHHHHHHHHHHHhC--CCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHH
Confidence            456799999999999999854321  234456789999999999999999985332222234566776666677889999


Q ss_pred             HHHHhCCCC--CCCccHHHHHHHHHHHhC--CceEEEEEeCCCCCC-ccccchhhhccc--CCCCCce--EEEEecchHH
Q 045152          260 IIEGLGVSA--SGLSEFESLMKQIQEYIT--RKKFFLVLDDVWDGD-YKKWNPFFSCLK--NGHHESK--ILITTRDRSV  330 (533)
Q Consensus       260 il~~l~~~~--~~~~~~~~l~~~l~~~l~--~kr~LlVLDdv~~~~-~~~~~~l~~~l~--~~~~gs~--IiiTtR~~~v  330 (533)
                      ++.++....  ....+..++...+.+.+.  +++.+||||+++... ....+.+...+.  ....+++  +|.++....+
T Consensus       106 i~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~~~~~~v~vI~i~~~~~~  185 (394)
T PRK00411        106 IARQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHEEYPGARIGVIGISSDLTF  185 (394)
T ss_pred             HHHHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhhccCCCeEEEEEEECCcch
Confidence            999987521  122345666677777764  456899999997642 111222222221  1122333  5666655433


Q ss_pred             HhhhC-------CCCeeeCCCCChHhhHHHHHHhhccC--CCccccccchHHHHHHHhHhCCCcchhHHHH
Q 045152          331 ALQLG-------SIDIIPVKELAEEECWSLLERLAFFR--RSVDDHEKLEPIGRKIAHKCKGLPLAAKVIW  392 (533)
Q Consensus       331 ~~~~~-------~~~~~~l~~L~~~~~~~Lf~~~a~~~--~~~~~~~~l~~~~~~I~~~c~GlPLai~~~~  392 (533)
                      .....       ....+.+++++.++..+++...+..+  ........++.+++......|..+.|+..+-
T Consensus       186 ~~~l~~~~~s~~~~~~i~f~py~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~  256 (394)
T PRK00411        186 LYILDPRVKSVFRPEEIYFPPYTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLR  256 (394)
T ss_pred             hhhcCHHHHhcCCcceeecCCCCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHH
Confidence            32211       12467899999999999999876321  1111222222233322222455677766654

>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=99.23  E-value=2.4e-11  Score=115.64  Aligned_cols=196  Identities=21%  Similarity=0.180  Sum_probs=99.1

Q ss_pred             eeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHH-----
Q 045152          184 VCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAK-----  258 (533)
Q Consensus       184 ~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~-----  258 (533)
                      |+||+.|+++|.+++..      +....+.|+|+.|+|||+|++.+.+.  .+..-...+|+..........+..     
T Consensus         1 F~gR~~el~~l~~~l~~------~~~~~~~l~G~rg~GKTsLl~~~~~~--~~~~~~~~~y~~~~~~~~~~~~~~~~~~~   72 (234)
T PF01637_consen    1 FFGREKELEKLKELLES------GPSQHILLYGPRGSGKTSLLKEFINE--LKEKGYKVVYIDFLEESNESSLRSFIEET   72 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH--------SSEEEEEESTTSSHHHHHHHHHHH--CT--EECCCHHCCTTBSHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHh------hcCcEEEEEcCCcCCHHHHHHHHHHH--hhhcCCcEEEEecccchhhhHHHHHHHHH
Confidence            68999999999998853      23568999999999999999999874  222111344444333322211111     


Q ss_pred             --------HHHHHhCCCCC------CCccHHHHHHHHHHHh--CCceEEEEEeCCCCCC-c-cc----cchhhhcccC--
Q 045152          259 --------AIIEGLGVSAS------GLSEFESLMKQIQEYI--TRKKFFLVLDDVWDGD-Y-KK----WNPFFSCLKN--  314 (533)
Q Consensus       259 --------~il~~l~~~~~------~~~~~~~l~~~l~~~l--~~kr~LlVLDdv~~~~-~-~~----~~~l~~~l~~--  314 (533)
                              .+...+.....      ...........+.+.+  .+++++||+||+.... . ..    ...+...+..  
T Consensus        73 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~~  152 (234)
T PF01637_consen   73 SLADELSEALGISIPSITLEKISKDLSEDSFSALERLLEKLKKKGKKVIIVIDEFQYLAIASEEDKDFLKSLRSLLDSLL  152 (234)
T ss_dssp             HHHCHCHHHHHHHCCTSTTEEEECTS-GG-G--HHHHHHHHHHCHCCEEEEEETGGGGGBCTTTTHHHHHHHHHHHHH--
T ss_pred             HHHHHHHHHHhhhcccccchhhhhcchhhHHHHHHHHHHHHHhcCCcEEEEEecHHHHhhcccchHHHHHHHHHHHhhcc
Confidence                    12222211110      1111122222232333  2345999999996543 0 01    1123333322  


Q ss_pred             CCCCceEEEEecchHHHhh--------hCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcc
Q 045152          315 GHHESKILITTRDRSVALQ--------LGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPL  386 (533)
Q Consensus       315 ~~~gs~IiiTtR~~~v~~~--------~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPL  386 (533)
                      ......+|++.....+...        .+....+.+++|+.+++++++....-..  ... +.-.+...+|+..+||+|.
T Consensus       153 ~~~~~~~v~~~S~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~e~~~~~~~~~~~~--~~~-~~~~~~~~~i~~~~gG~P~  229 (234)
T PF01637_consen  153 SQQNVSIVITGSSDSLMEEFLDDKSPLFGRFSHIELKPLSKEEAREFLKELFKEL--IKL-PFSDEDIEEIYSLTGGNPR  229 (234)
T ss_dssp             --TTEEEEEEESSHHHHHHTT-TTSTTTT---EEEE----HHHHHHHHHHHHHCC---------HHHHHHHHHHHTT-HH
T ss_pred             ccCCceEEEECCchHHHHHhhcccCccccccceEEEeeCCHHHHHHHHHHHHHHh--hcc-cCCHHHHHHHHHHhCCCHH
Confidence            1233345555554444433        2334559999999999999999865311  111 1224556999999999998


Q ss_pred             hhHH
Q 045152          387 AAKV  390 (533)
Q Consensus       387 ai~~  390 (533)
                      .|..
T Consensus       230 ~l~~  233 (234)
T PF01637_consen  230 YLQE  233 (234)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            8754

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

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.19  E-value=7.2e-10  Score=113.13  Aligned_cols=206  Identities=15%  Similarity=0.079  Sum_probs=124.6

Q ss_pred             cCCceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhh-ccC---CceEEEEeCCchhHHH
Q 045152          180 DEGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVK-RNF---EKVIWVCVSDTFEEIR  255 (533)
Q Consensus       180 ~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~-~~F---~~~~wv~vs~~~~~~~  255 (533)
                      .++.++||++++++|..+|.....  ......+.|+|++|+|||++++.++++..-. ...   -..+|+++....+...
T Consensus        13 ~p~~l~gRe~e~~~l~~~l~~~~~--~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~   90 (365)
T TIGR02928        13 VPDRIVHRDEQIEELAKALRPILR--GSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQ   90 (365)
T ss_pred             CCCCCCCcHHHHHHHHHHHHHHHc--CCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHH
Confidence            345799999999999999864321  2345678999999999999999999752211 111   1356777776667778


Q ss_pred             HHHHHHHHhC---CCCC-CCccHHHHHHHHHHHhC--CceEEEEEeCCCCCCccccch-hhhcccC----CC--CCceEE
Q 045152          256 VAKAIIEGLG---VSAS-GLSEFESLMKQIQEYIT--RKKFFLVLDDVWDGDYKKWNP-FFSCLKN----GH--HESKIL  322 (533)
Q Consensus       256 l~~~il~~l~---~~~~-~~~~~~~l~~~l~~~l~--~kr~LlVLDdv~~~~~~~~~~-l~~~l~~----~~--~gs~Ii  322 (533)
                      ++..|+.++.   ...+ ...+..+....+.+.+.  +++++||||+++... ..... +...+..    ..  ....+|
T Consensus        91 ~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~-~~~~~~L~~l~~~~~~~~~~~~~v~lI  169 (365)
T TIGR02928        91 VLVELANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLV-GDDDDLLYQLSRARSNGDLDNAKVGVI  169 (365)
T ss_pred             HHHHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhc-cCCcHHHHhHhccccccCCCCCeEEEE
Confidence            8999998883   2211 12234455555666553  568899999997652 11112 1111111    11  223445


Q ss_pred             EEecchHHHhhhC-----C--CCeeeCCCCChHhhHHHHHHhhccC-CCccccccchHHHHHHHhHhCCCcchh
Q 045152          323 ITTRDRSVALQLG-----S--IDIIPVKELAEEECWSLLERLAFFR-RSVDDHEKLEPIGRKIAHKCKGLPLAA  388 (533)
Q Consensus       323 iTtR~~~v~~~~~-----~--~~~~~l~~L~~~~~~~Lf~~~a~~~-~~~~~~~~l~~~~~~I~~~c~GlPLai  388 (533)
                      .+++.......+.     .  ...+.+++.+.++..+++..++-.. ......++..+....++....|.|..+
T Consensus       170 ~i~n~~~~~~~l~~~~~s~~~~~~i~f~p~~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~a  243 (365)
T TIGR02928       170 GISNDLKFRENLDPRVKSSLCEEEIIFPPYDAEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKA  243 (365)
T ss_pred             EEECCcchHhhcCHHHhccCCcceeeeCCCCHHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHHH
Confidence            5554443222111     1  2468899999999999999876311 111122233344555677777888554

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

>PF05729 NACHT: NACHT domain

Probab=99.10  E-value=7.5e-10  Score=99.34  Aligned_cols=143  Identities=21%  Similarity=0.280  Sum_probs=88.3

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcchhhhcc----CCceEEEEeCCchhHH---HHHHHHHHHhCCCCCCCccHHHHHHHHH
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNNDEVKRN----FEKVIWVCVSDTFEEI---RVAKAIIEGLGVSASGLSEFESLMKQIQ  282 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~----F~~~~wv~vs~~~~~~---~l~~~il~~l~~~~~~~~~~~~l~~~l~  282 (533)
                      +++.|+|.+|+||||+++.++........    +...+|++........   .+...|..........   ...   .+.
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~---~~~---~~~   74 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESIAP---IEE---LLQ   74 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccchhh---hHH---HHH
Confidence            47899999999999999998875322222    4456677655433322   3444444443322111   111   122


Q ss_pred             HH-hCCceEEEEEeCCCCCCcc-------ccchhh-hcccC-CCCCceEEEEecchHH---HhhhCCCCeeeCCCCChHh
Q 045152          283 EY-ITRKKFFLVLDDVWDGDYK-------KWNPFF-SCLKN-GHHESKILITTRDRSV---ALQLGSIDIIPVKELAEEE  349 (533)
Q Consensus       283 ~~-l~~kr~LlVLDdv~~~~~~-------~~~~l~-~~l~~-~~~gs~IiiTtR~~~v---~~~~~~~~~~~l~~L~~~~  349 (533)
                      .. ...+++++|||++++....       .+..+. ..++. ..++++++||+|....   .........+.+.+|++++
T Consensus        75 ~~~~~~~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~~~~  154 (166)
T PF05729_consen   75 ELLEKNKRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFSEED  154 (166)
T ss_pred             HHHHcCCceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCCHHH
Confidence            22 2568999999999764321       122222 33332 3568999999998665   3333445689999999999


Q ss_pred             hHHHHHHhh
Q 045152          350 CWSLLERLA  358 (533)
Q Consensus       350 ~~~Lf~~~a  358 (533)
                      ..+++.+..
T Consensus       155 ~~~~~~~~f  163 (166)
T PF05729_consen  155 IKQYLRKYF  163 (166)
T ss_pred             HHHHHHHHh
Confidence            999997753

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.08  E-value=2.5e-09  Score=122.49  Aligned_cols=195  Identities=16%  Similarity=0.202  Sum_probs=122.5

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeC-CchhHHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVS-DTFEEIRVAKAI  260 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs-~~~~~~~l~~~i  260 (533)
                      +.+|-|.    +|.+.|...     ...+++.|+|++|.||||++......      ++.++|+++. .+.+...++..+
T Consensus        14 ~~~~~R~----rl~~~l~~~-----~~~~~~~v~apaG~GKTtl~~~~~~~------~~~~~w~~l~~~d~~~~~f~~~l   78 (903)
T PRK04841         14 HNTVVRE----RLLAKLSGA-----NNYRLVLVTSPAGYGKTTLISQWAAG------KNNLGWYSLDESDNQPERFASYL   78 (903)
T ss_pred             cccCcch----HHHHHHhcc-----cCCCeEEEECCCCCCHHHHHHHHHHh------CCCeEEEecCcccCCHHHHHHHH
Confidence            3456565    444444321     35789999999999999999988742      2368999986 444556676777


Q ss_pred             HHHhCCCCCC-------------CccHHHHHHHHHHHhC--CceEEEEEeCCCCCCccccchhhhc-ccCCCCCceEEEE
Q 045152          261 IEGLGVSASG-------------LSEFESLMKQIQEYIT--RKKFFLVLDDVWDGDYKKWNPFFSC-LKNGHHESKILIT  324 (533)
Q Consensus       261 l~~l~~~~~~-------------~~~~~~l~~~l~~~l~--~kr~LlVLDdv~~~~~~~~~~l~~~-l~~~~~gs~IiiT  324 (533)
                      +..+......             ..+...+...+...+.  +.+++|||||++..+......+... +.....+.++|||
T Consensus        79 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv~~  158 (903)
T PRK04841         79 IAALQQATNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLVVL  158 (903)
T ss_pred             HHHHHHhcCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEEEE
Confidence            7666321110             0122333333333332  6789999999977654444433333 3444556788899


Q ss_pred             ecchH-H--HhhhCCCCeeeCC----CCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHHHHHHhhc
Q 045152          325 TRDRS-V--ALQLGSIDIIPVK----ELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLLRS  397 (533)
Q Consensus       325 tR~~~-v--~~~~~~~~~~~l~----~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~~~~L~~  397 (533)
                      ||... .  ...........+.    +|+.+|+.++|......   . .   -.+...+|++.|+|.|+++..++..+..
T Consensus       159 sR~~~~~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~~~---~-~---~~~~~~~l~~~t~Gwp~~l~l~~~~~~~  231 (903)
T PRK04841        159 SRNLPPLGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRLSS---P-I---EAAESSRLCDDVEGWATALQLIALSARQ  231 (903)
T ss_pred             eCCCCCCchHhHHhcCcceecCHHhCCCCHHHHHHHHHhccCC---C-C---CHHHHHHHHHHhCChHHHHHHHHHHHhh
Confidence            99732 1  1111112234455    99999999999875421   1 1   2345688999999999999988876654


Q ss_pred             c
Q 045152          398 K  398 (533)
Q Consensus       398 ~  398 (533)
                      .
T Consensus       232 ~  232 (903)
T PRK04841        232 N  232 (903)
T ss_pred             C
Confidence            3

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=98.89  E-value=1.1e-08  Score=102.52  Aligned_cols=193  Identities=20%  Similarity=0.121  Sum_probs=101.9

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAII  261 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il  261 (533)
                      .+|+|+++.++.+..++..... .......+.|+|++|+||||||+.+.+...  ..+   .++..+ .......+..++
T Consensus        25 ~~~vG~~~~~~~l~~~l~~~~~-~~~~~~~~ll~GppG~GKT~la~~ia~~l~--~~~---~~~~~~-~~~~~~~l~~~l   97 (328)
T PRK00080         25 DEFIGQEKVKENLKIFIEAAKK-RGEALDHVLLYGPPGLGKTTLANIIANEMG--VNI---RITSGP-ALEKPGDLAAIL   97 (328)
T ss_pred             HHhcCcHHHHHHHHHHHHHHHh-cCCCCCcEEEECCCCccHHHHHHHHHHHhC--CCe---EEEecc-cccChHHHHHHH
Confidence            4699999999999888754221 123456788999999999999999987422  211   122211 111111222223


Q ss_pred             HHhCCCCC-CCccH----HHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecchHHHhhhC-
Q 045152          262 EGLGVSAS-GLSEF----ESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRSVALQLG-  335 (533)
Q Consensus       262 ~~l~~~~~-~~~~~----~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~~v~~~~~-  335 (533)
                      ..+..... -.++.    ....+.+...+.+.+..+|+|+.....  .   +...+   .+.+-|..|++...+...+. 
T Consensus        98 ~~l~~~~vl~IDEi~~l~~~~~e~l~~~~e~~~~~~~l~~~~~~~--~---~~~~l---~~~~li~at~~~~~l~~~L~s  169 (328)
T PRK00080         98 TNLEEGDVLFIDEIHRLSPVVEEILYPAMEDFRLDIMIGKGPAAR--S---IRLDL---PPFTLIGATTRAGLLTSPLRD  169 (328)
T ss_pred             HhcccCCEEEEecHhhcchHHHHHHHHHHHhcceeeeeccCcccc--c---eeecC---CCceEEeecCCcccCCHHHHH
Confidence            22211100 00000    011222333333344444444432211  0   00011   12344556666443332221 


Q ss_pred             -CCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHHHHH
Q 045152          336 -SIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWN  393 (533)
Q Consensus       336 -~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~~~  393 (533)
                       ....+.+++++.++..+++.+.+... .   ..--.+....|++.|+|.|..+..+..
T Consensus       170 Rf~~~~~l~~~~~~e~~~il~~~~~~~-~---~~~~~~~~~~ia~~~~G~pR~a~~~l~  224 (328)
T PRK00080        170 RFGIVQRLEFYTVEELEKIVKRSARIL-G---VEIDEEGALEIARRSRGTPRIANRLLR  224 (328)
T ss_pred             hcCeeeecCCCCHHHHHHHHHHHHHHc-C---CCcCHHHHHHHHHHcCCCchHHHHHHH
Confidence             13468999999999999999877422 1   112245678999999999975554443

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=98.83  E-value=4.5e-08  Score=97.25  Aligned_cols=192  Identities=20%  Similarity=0.126  Sum_probs=105.3

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAII  261 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il  261 (533)
                      .+|||+++.++.+..++..... .......+.++|++|+|||+||+.+.+..  ...+   ..+..+...... .+...+
T Consensus         4 ~~~iG~~~~~~~l~~~l~~~~~-~~~~~~~~ll~Gp~G~GKT~la~~ia~~~--~~~~---~~~~~~~~~~~~-~l~~~l   76 (305)
T TIGR00635         4 AEFIGQEKVKEQLQLFIEAAKM-RQEALDHLLLYGPPGLGKTTLAHIIANEM--GVNL---KITSGPALEKPG-DLAAIL   76 (305)
T ss_pred             HHHcCHHHHHHHHHHHHHHHHh-cCCCCCeEEEECCCCCCHHHHHHHHHHHh--CCCE---EEeccchhcCch-hHHHHH
Confidence            3689999999999988853321 12345668899999999999999998742  2121   122211111111 122222


Q ss_pred             HHhCCCCC------CCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecchHHHhhhC
Q 045152          262 EGLGVSAS------GLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRSVALQLG  335 (533)
Q Consensus       262 ~~l~~~~~------~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~~v~~~~~  335 (533)
                      ..+.....      +... ....+.+...+.+.+..+|+++....  ..+.   ..+   .+.+-|..||+...+...+.
T Consensus        77 ~~~~~~~vl~iDEi~~l~-~~~~e~l~~~~~~~~~~~v~~~~~~~--~~~~---~~~---~~~~li~~t~~~~~l~~~l~  147 (305)
T TIGR00635        77 TNLEEGDVLFIDEIHRLS-PAVEELLYPAMEDFRLDIVIGKGPSA--RSVR---LDL---PPFTLVGATTRAGMLTSPLR  147 (305)
T ss_pred             HhcccCCEEEEehHhhhC-HHHHHHhhHHHhhhheeeeeccCccc--ccee---ecC---CCeEEEEecCCccccCHHHH
Confidence            22221110      0000 11223344444445555555554322  1111   111   12445556777644433221


Q ss_pred             --CCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHHHHH
Q 045152          336 --SIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWN  393 (533)
Q Consensus       336 --~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~~~  393 (533)
                        ....+.+++++.++..+++.+.+... ..   .--.+....|++.|+|.|..+..+..
T Consensus       148 sR~~~~~~l~~l~~~e~~~il~~~~~~~-~~---~~~~~al~~ia~~~~G~pR~~~~ll~  203 (305)
T TIGR00635       148 DRFGIILRLEFYTVEELAEIVSRSAGLL-NV---EIEPEAALEIARRSRGTPRIANRLLR  203 (305)
T ss_pred             hhcceEEEeCCCCHHHHHHHHHHHHHHh-CC---CcCHHHHHHHHHHhCCCcchHHHHHH
Confidence              13467899999999999999877421 11   12245668899999999977655443

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.

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=98.81  E-value=7.9e-08  Score=102.93  Aligned_cols=213  Identities=13%  Similarity=0.100  Sum_probs=123.1

Q ss_pred             CCceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhh---hccCC--ceEEEEeCCchhHHH
Q 045152          181 EGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEV---KRNFE--KVIWVCVSDTFEEIR  255 (533)
Q Consensus       181 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~---~~~F~--~~~wv~vs~~~~~~~  255 (533)
                      ++.+.||++|+++|...|...-. +.....++.|+|++|.|||++++.|.+...-   .....  .+++|++....+...
T Consensus       754 PD~LPhREeEIeeLasfL~paIk-gsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~s  832 (1164)
T PTZ00112        754 PKYLPCREKEIKEVHGFLESGIK-QSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPNA  832 (1164)
T ss_pred             CCcCCChHHHHHHHHHHHHHHHh-cCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHHH
Confidence            45789999999999998865432 1233467889999999999999999864211   11122  356777766667788


Q ss_pred             HHHHHHHHhCCCCC-CCccHHHHHHHHHHHhC---CceEEEEEeCCCCCCccccchhhhcccC-CCCCceEEE--Eecch
Q 045152          256 VAKAIIEGLGVSAS-GLSEFESLMKQIQEYIT---RKKFFLVLDDVWDGDYKKWNPFFSCLKN-GHHESKILI--TTRDR  328 (533)
Q Consensus       256 l~~~il~~l~~~~~-~~~~~~~l~~~l~~~l~---~kr~LlVLDdv~~~~~~~~~~l~~~l~~-~~~gs~Iii--TtR~~  328 (533)
                      ++..|.+++....+ ...........+...+.   ....+||||+++......-+.|...+.. ...+++|++  ++...
T Consensus       833 IYqvI~qqL~g~~P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK~QDVLYnLFR~~~~s~SKLiLIGISNdl  912 (1164)
T PTZ00112        833 AYQVLYKQLFNKKPPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITKTQKVLFTLFDWPTKINSKLVLIAISNTM  912 (1164)
T ss_pred             HHHHHHHHHcCCCCCccccHHHHHHHHHhhhhcccccceEEEeehHhhhCccHHHHHHHHHHHhhccCCeEEEEEecCch
Confidence            88888888854322 22223334445554442   2346899999965432111223322221 123555544  33321


Q ss_pred             H--------HHhhhCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHHHHHHh
Q 045152          329 S--------VALQLGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLL  395 (533)
Q Consensus       329 ~--------v~~~~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~~~~L  395 (533)
                      +        +...++ ...+..++.+.++..+++..++-..........++-+++.++...|-.-.|+.++-...
T Consensus       913 DLperLdPRLRSRLg-~eeIvF~PYTaEQL~dILk~RAe~A~gVLdDdAIELIArkVAq~SGDARKALDILRrAg  986 (1164)
T PTZ00112        913 DLPERLIPRCRSRLA-FGRLVFSPYKGDEIEKIIKERLENCKEIIDHTAIQLCARKVANVSGDIRKALQICRKAF  986 (1164)
T ss_pred             hcchhhhhhhhhccc-cccccCCCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhhcCCHHHHHHHHHHHHH
Confidence            1        111122 23467799999999999999875321222223333444444444455556666554433

>PRK13342 recombination factor protein RarA; Reviewed

Probab=98.80  E-value=5.1e-08  Score=100.73  Aligned_cols=175  Identities=21%  Similarity=0.226  Sum_probs=103.3

Q ss_pred             ceeechhhHHH---HHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHH
Q 045152          183 EVCGRVEEKNE---LLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKA  259 (533)
Q Consensus       183 ~~vGR~~e~~~---l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~  259 (533)
                      ++||.+..+..   +..++..      .....+.++|++|+||||||+.+.+.  ....     |+.++......+-.+.
T Consensus        13 d~vGq~~~v~~~~~L~~~i~~------~~~~~ilL~GppGtGKTtLA~~ia~~--~~~~-----~~~l~a~~~~~~~ir~   79 (413)
T PRK13342         13 EVVGQEHLLGPGKPLRRMIEA------GRLSSMILWGPPGTGKTTLARIIAGA--TDAP-----FEALSAVTSGVKDLRE   79 (413)
T ss_pred             HhcCcHHHhCcchHHHHHHHc------CCCceEEEECCCCCCHHHHHHHHHHH--hCCC-----EEEEecccccHHHHHH
Confidence            57888776555   6666632      34567888999999999999999873  2222     2322221111111122


Q ss_pred             HHHHhCCCCCCCccHHHHHHHHHHH-hCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEE--EecchHHH---hh
Q 045152          260 IIEGLGVSASGLSEFESLMKQIQEY-ITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILI--TTRDRSVA---LQ  333 (533)
Q Consensus       260 il~~l~~~~~~~~~~~~l~~~l~~~-l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~Iii--TtR~~~v~---~~  333 (533)
                      +++                 ..... ..+++.+|+||+++..+....+.+...+..   |..++|  ||.+....   ..
T Consensus        80 ii~-----------------~~~~~~~~g~~~vL~IDEi~~l~~~~q~~LL~~le~---~~iilI~att~n~~~~l~~aL  139 (413)
T PRK13342         80 VIE-----------------EARQRRSAGRRTILFIDEIHRFNKAQQDALLPHVED---GTITLIGATTENPSFEVNPAL  139 (413)
T ss_pred             HHH-----------------HHHHhhhcCCceEEEEechhhhCHHHHHHHHHHhhc---CcEEEEEeCCCChhhhccHHH
Confidence            221                 11111 245788999999987665555556555443   444444  34443211   11


Q ss_pred             hCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHHH
Q 045152          334 LGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVI  391 (533)
Q Consensus       334 ~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~  391 (533)
                      ......+.+.+++.++...++.+.+.... .....--.+....|++.|+|.+..+..+
T Consensus       140 ~SR~~~~~~~~ls~e~i~~lL~~~l~~~~-~~~i~i~~~al~~l~~~s~Gd~R~aln~  196 (413)
T PRK13342        140 LSRAQVFELKPLSEEDIEQLLKRALEDKE-RGLVELDDEALDALARLANGDARRALNL  196 (413)
T ss_pred             hccceeeEeCCCCHHHHHHHHHHHHHHhh-cCCCCCCHHHHHHHHHhCCCCHHHHHHH
Confidence            22346789999999999999988653111 1101223456678899999998766443

>PRK06893 DNA replication initiation factor; Validated

Probab=98.80  E-value=4.2e-08  Score=92.89  Aligned_cols=152  Identities=18%  Similarity=0.205  Sum_probs=93.8

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRK  288 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~k  288 (533)
                      ...+.|+|++|+|||+|++.+++.  .......+.|+.+...   ......+                     .+.+. +
T Consensus        39 ~~~l~l~G~~G~GKThL~~ai~~~--~~~~~~~~~y~~~~~~---~~~~~~~---------------------~~~~~-~   91 (229)
T PRK06893         39 QPFFYIWGGKSSGKSHLLKAVSNH--YLLNQRTAIYIPLSKS---QYFSPAV---------------------LENLE-Q   91 (229)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH--HHHcCCCeEEeeHHHh---hhhhHHH---------------------Hhhcc-c
Confidence            356899999999999999999985  3223345567765311   0001111                     11121 2


Q ss_pred             eEEEEEeCCCCCC-ccccch-hhhcccCC-CCCceEE-EEecc---------hHHHhhhCCCCeeeCCCCChHhhHHHHH
Q 045152          289 KFFLVLDDVWDGD-YKKWNP-FFSCLKNG-HHESKIL-ITTRD---------RSVALQLGSIDIIPVKELAEEECWSLLE  355 (533)
Q Consensus       289 r~LlVLDdv~~~~-~~~~~~-l~~~l~~~-~~gs~Ii-iTtR~---------~~v~~~~~~~~~~~l~~L~~~~~~~Lf~  355 (533)
                      .-+|+|||+|... ...|+. +...+... ..|..+| +|++.         +.+...+.....+++++++.++.+++++
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            3489999998742 234553 33333322 2355554 45543         3555555556789999999999999999


Q ss_pred             HhhccCCCccccccchHHHHHHHhHhCCCcchhHHH
Q 045152          356 RLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVI  391 (533)
Q Consensus       356 ~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~  391 (533)
                      +.++... .   .--+++..-|++.+.|..-.+..+
T Consensus       172 ~~a~~~~-l---~l~~~v~~~L~~~~~~d~r~l~~~  203 (229)
T PRK06893        172 RNAYQRG-I---ELSDEVANFLLKRLDRDMHTLFDA  203 (229)
T ss_pred             HHHHHcC-C---CCCHHHHHHHHHhccCCHHHHHHH
Confidence            9886321 1   122556788889998877665543

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

Probab=98.77  E-value=1.2e-08  Score=87.66  Aligned_cols=118  Identities=20%  Similarity=0.264  Sum_probs=80.0

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhh---ccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHH
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVK---RNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEY  284 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~---~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~  284 (533)
                      +.+++.|+|.+|+|||++++.+.++....   ..-..++|++++...+...+...|+..++.......+...+...+.+.
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            45789999999999999999998742110   013456799988877899999999999998766655667777788877


Q ss_pred             hCCc-eEEEEEeCCCCC-CccccchhhhcccCCCCCceEEEEecc
Q 045152          285 ITRK-KFFLVLDDVWDG-DYKKWNPFFSCLKNGHHESKILITTRD  327 (533)
Q Consensus       285 l~~k-r~LlVLDdv~~~-~~~~~~~l~~~l~~~~~gs~IiiTtR~  327 (533)
                      +... ..+||+||++.- +...++.+.....  ..+.++|+..+.
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            7654 469999999665 4333444433332  556777777664

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

Probab=98.73  E-value=1.1e-07  Score=92.94  Aligned_cols=171  Identities=22%  Similarity=0.264  Sum_probs=101.9

Q ss_pred             CCceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHH
Q 045152          181 EGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAI  260 (533)
Q Consensus       181 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i  260 (533)
                      ..+++|-...+.++++         .+.+....+||++|+||||||+.+...  ....|     ..++...+-.+=++.+
T Consensus        29 Q~HLlg~~~~lrr~v~---------~~~l~SmIl~GPPG~GKTTlA~liA~~--~~~~f-----~~~sAv~~gvkdlr~i   92 (436)
T COG2256          29 QEHLLGEGKPLRRAVE---------AGHLHSMILWGPPGTGKTTLARLIAGT--TNAAF-----EALSAVTSGVKDLREI   92 (436)
T ss_pred             hHhhhCCCchHHHHHh---------cCCCceeEEECCCCCCHHHHHHHHHHh--hCCce-----EEeccccccHHHHHHH
Confidence            3345555555554443         346777889999999999999999863  33343     3333322222222222


Q ss_pred             HHHhCCCCCCCccHHHHHHHH-HHHhCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEE--EecchHHHh---hh
Q 045152          261 IEGLGVSASGLSEFESLMKQI-QEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILI--TTRDRSVAL---QL  334 (533)
Q Consensus       261 l~~l~~~~~~~~~~~~l~~~l-~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~Iii--TtR~~~v~~---~~  334 (533)
                      +                 +.- .....+++.+|++|.|+.-+..+-+.|   ||.-..|.-|+|  ||.++...-   ..
T Consensus        93 ~-----------------e~a~~~~~~gr~tiLflDEIHRfnK~QQD~l---Lp~vE~G~iilIGATTENPsF~ln~ALl  152 (436)
T COG2256          93 I-----------------EEARKNRLLGRRTILFLDEIHRFNKAQQDAL---LPHVENGTIILIGATTENPSFELNPALL  152 (436)
T ss_pred             H-----------------HHHHHHHhcCCceEEEEehhhhcChhhhhhh---hhhhcCCeEEEEeccCCCCCeeecHHHh
Confidence            2                 222 223358999999999988765555555   444455776666  677654321   22


Q ss_pred             CCCCeeeCCCCChHhhHHHHHHhhccCCCc--cccccc-hHHHHHHHhHhCCCcch
Q 045152          335 GSIDIIPVKELAEEECWSLLERLAFFRRSV--DDHEKL-EPIGRKIAHKCKGLPLA  387 (533)
Q Consensus       335 ~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~--~~~~~l-~~~~~~I~~~c~GlPLa  387 (533)
                      ....++.+++|+.++...++.+.+......  .....+ ++...-++..++|--.+
T Consensus       153 SR~~vf~lk~L~~~di~~~l~ra~~~~~rgl~~~~~~i~~~a~~~l~~~s~GD~R~  208 (436)
T COG2256         153 SRARVFELKPLSSEDIKKLLKRALLDEERGLGGQIIVLDEEALDYLVRLSNGDARR  208 (436)
T ss_pred             hhhheeeeecCCHHHHHHHHHHHHhhhhcCCCcccccCCHHHHHHHHHhcCchHHH
Confidence            336789999999999999998843211111  111112 33556677777775543

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=98.70  E-value=1.5e-07  Score=89.08  Aligned_cols=168  Identities=18%  Similarity=0.185  Sum_probs=98.7

Q ss_pred             hhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCC
Q 045152          188 VEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVS  267 (533)
Q Consensus       188 ~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~  267 (533)
                      +..++.+..++..      .....+.|+|++|+|||+||+.+++.  ........++++++.-.+.   ...+       
T Consensus        23 ~~~~~~l~~~~~~------~~~~~lll~G~~G~GKT~la~~~~~~--~~~~~~~~~~i~~~~~~~~---~~~~-------   84 (226)
T TIGR03420        23 AELLAALRQLAAG------KGDRFLYLWGESGSGKSHLLQAACAA--AEERGKSAIYLPLAELAQA---DPEV-------   84 (226)
T ss_pred             HHHHHHHHHHHhc------CCCCeEEEECCCCCCHHHHHHHHHHH--HHhcCCcEEEEeHHHHHHh---HHHH-------
Confidence            3456677766532      34568999999999999999999874  2223334556654322110   0011       


Q ss_pred             CCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCcc-cc-chhhhcccC-CCCCceEEEEecchH---------HHhhhC
Q 045152          268 ASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYK-KW-NPFFSCLKN-GHHESKILITTRDRS---------VALQLG  335 (533)
Q Consensus       268 ~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~-~~-~~l~~~l~~-~~~gs~IiiTtR~~~---------v~~~~~  335 (533)
                                    ...+.. .-+|||||++..... .| +.+...+.. ...+.++|+|++...         +...+.
T Consensus        85 --------------~~~~~~-~~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~~L~~r~~  149 (226)
T TIGR03420        85 --------------LEGLEQ-ADLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLPDLRTRLA  149 (226)
T ss_pred             --------------Hhhccc-CCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccHHHHHHHh
Confidence                          111222 238999999765322 22 334443332 123457888887532         222222


Q ss_pred             CCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHHHH
Q 045152          336 SIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIW  392 (533)
Q Consensus       336 ~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~~  392 (533)
                      ....+++++++.++...++...+-.. ..   .--.+..+.+++.+.|+|..+..+-
T Consensus       150 ~~~~i~l~~l~~~e~~~~l~~~~~~~-~~---~~~~~~l~~L~~~~~gn~r~L~~~l  202 (226)
T TIGR03420       150 WGLVFQLPPLSDEEKIAALQSRAARR-GL---QLPDEVADYLLRHGSRDMGSLMALL  202 (226)
T ss_pred             cCeeEecCCCCHHHHHHHHHHHHHHc-CC---CCCHHHHHHHHHhccCCHHHHHHHH
Confidence            24578999999999999998754211 11   1224556778888999998876653

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.

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

Probab=98.69  E-value=3.1e-08  Score=90.61  Aligned_cols=48  Identities=29%  Similarity=0.315  Sum_probs=32.7

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcch
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNND  233 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  233 (533)
                      .||||+++++++...|. ..  .....+.+.|+|++|+|||+|.+.++...
T Consensus         1 ~fvgR~~e~~~l~~~l~-~~--~~~~~~~~ll~G~~G~GKT~ll~~~~~~~   48 (185)
T PF13191_consen    1 QFVGREEEIERLRDLLD-AA--QSGSPRNLLLTGESGSGKTSLLRALLDRL   48 (185)
T ss_dssp             --TT-HHHHHHHHHTTG-GT--SS-----EEE-B-TTSSHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHH-HH--HcCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            48999999999999995 22  23567999999999999999999988753

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

Probab=98.68  E-value=1.6e-06  Score=87.18  Aligned_cols=206  Identities=17%  Similarity=0.153  Sum_probs=130.5

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccC--CceEEEEeCCchhHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNF--EKVIWVCVSDTFEEIRVAKA  259 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F--~~~~wv~vs~~~~~~~l~~~  259 (533)
                      ..+.+|+++++++...|...-.  ...+.-+.|+|.+|.|||+.++.+.+.  ++...  ...++|++-...+...++..
T Consensus        17 ~~l~~Re~ei~~l~~~l~~~~~--~~~p~n~~iyG~~GTGKT~~~~~v~~~--l~~~~~~~~~~yINc~~~~t~~~i~~~   92 (366)
T COG1474          17 EELPHREEEINQLASFLAPALR--GERPSNIIIYGPTGTGKTATVKFVMEE--LEESSANVEVVYINCLELRTPYQVLSK   92 (366)
T ss_pred             ccccccHHHHHHHHHHHHHHhc--CCCCccEEEECCCCCCHhHHHHHHHHH--HHhhhccCceEEEeeeeCCCHHHHHHH
Confidence            3489999999999988865432  233344899999999999999999984  33332  12789999999999999999


Q ss_pred             HHHHhCCCCCCCccHHHHHHHHHHHhC--CceEEEEEeCCCCCCccccchhhhcccCCCC-CceEE--EEecchHHHhhh
Q 045152          260 IIEGLGVSASGLSEFESLMKQIQEYIT--RKKFFLVLDDVWDGDYKKWNPFFSCLKNGHH-ESKIL--ITTRDRSVALQL  334 (533)
Q Consensus       260 il~~l~~~~~~~~~~~~l~~~l~~~l~--~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~-gs~Ii--iTtR~~~v~~~~  334 (533)
                      |++.++..+.......+....+.+.+.  ++.+++|||+++.-....-+.+...+..... .++|+  ..+.+......+
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            999997555445556667777777774  5789999999965422211333333332222 34443  344443332222


Q ss_pred             CC-------CCeeeCCCCChHhhHHHHHHhhccCC-CccccccchHHHHHHHhHhCC-CcchhHHH
Q 045152          335 GS-------IDIIPVKELAEEECWSLLERLAFFRR-SVDDHEKLEPIGRKIAHKCKG-LPLAAKVI  391 (533)
Q Consensus       335 ~~-------~~~~~l~~L~~~~~~~Lf~~~a~~~~-~~~~~~~l~~~~~~I~~~c~G-lPLai~~~  391 (533)
                      .+       ...+..+|-+.++-.+.+..++-.+- .....++.-++...++..-+| .-.|+..+
T Consensus       173 d~rv~s~l~~~~I~F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidil  238 (366)
T COG1474         173 DPRVKSSLGPSEIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDIL  238 (366)
T ss_pred             hhhhhhccCcceeeeCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHH
Confidence            11       23477899999999999998774331 122233333444444444443 34444443

>PF13173 AAA_14: AAA domain

Probab=98.65  E-value=1.3e-07  Score=80.90  Aligned_cols=119  Identities=22%  Similarity=0.309  Sum_probs=78.3

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCce
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKK  289 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr  289 (533)
                      +++.|.|+.|+|||||+++++.+..   .....++++..+.........                + ....+.+....++
T Consensus         3 ~~~~l~G~R~vGKTtll~~~~~~~~---~~~~~~yi~~~~~~~~~~~~~----------------~-~~~~~~~~~~~~~   62 (128)
T PF13173_consen    3 KIIILTGPRGVGKTTLLKQLAKDLL---PPENILYINFDDPRDRRLADP----------------D-LLEYFLELIKPGK   62 (128)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhc---ccccceeeccCCHHHHHHhhh----------------h-hHHHHHHhhccCC
Confidence            5899999999999999999986422   335677777665433111000                0 2223333334477


Q ss_pred             EEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecchHHHhh------hCCCCeeeCCCCChHhh
Q 045152          290 FFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRSVALQ------LGSIDIIPVKELAEEEC  350 (533)
Q Consensus       290 ~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~~v~~~------~~~~~~~~l~~L~~~~~  350 (533)
                      .+++||++...  ..|......+.+..+..+|++|+.+......      .+....++|.||+..|.
T Consensus        63 ~~i~iDEiq~~--~~~~~~lk~l~d~~~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E~  127 (128)
T PF13173_consen   63 KYIFIDEIQYL--PDWEDALKFLVDNGPNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFREF  127 (128)
T ss_pred             cEEEEehhhhh--ccHHHHHHHHHHhccCceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHHh
Confidence            88999999665  4677766666655567889999987665532      12245688999988764

>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=98.63  E-value=2.6e-07  Score=84.64  Aligned_cols=176  Identities=22%  Similarity=0.275  Sum_probs=93.5

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAII  261 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il  261 (533)
                      .+|||-+.-++.+.-++..... ....+..+.++|++|+||||||..+.+.  ....|.   +++.+. ..         
T Consensus        24 ~efiGQ~~l~~~l~i~i~aa~~-r~~~l~h~lf~GPPG~GKTTLA~IIA~e--~~~~~~---~~sg~~-i~---------   87 (233)
T PF05496_consen   24 DEFIGQEHLKGNLKILIRAAKK-RGEALDHMLFYGPPGLGKTTLARIIANE--LGVNFK---ITSGPA-IE---------   87 (233)
T ss_dssp             CCS-S-HHHHHHHHHHHHHHHC-TTS---EEEEESSTTSSHHHHHHHHHHH--CT--EE---EEECCC------------
T ss_pred             HHccCcHHHHhhhHHHHHHHHh-cCCCcceEEEECCCccchhHHHHHHHhc--cCCCeE---eccchh-hh---------
Confidence            4799998888877655533211 2356788999999999999999999874  333331   222111 10         


Q ss_pred             HHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCC--------CCCc-----------eEE
Q 045152          262 EGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNG--------HHES-----------KIL  322 (533)
Q Consensus       262 ~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~--------~~gs-----------~Ii  322 (533)
                                 ...++...+.. + +++-+|.+|+++..+...-+.|..++.++        +++.           -|=
T Consensus        88 -----------k~~dl~~il~~-l-~~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~FTlig  154 (233)
T PF05496_consen   88 -----------KAGDLAAILTN-L-KEGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPPFTLIG  154 (233)
T ss_dssp             -----------SCHHHHHHHHT----TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE----EEEE
T ss_pred             -----------hHHHHHHHHHh-c-CCCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccCCCceEee
Confidence                       01112222211 2 23457788999876544434444433322        1112           233


Q ss_pred             EEecchHHHhhhCC-C-CeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHH
Q 045152          323 ITTRDRSVALQLGS-I-DIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKV  390 (533)
Q Consensus       323 iTtR~~~v~~~~~~-~-~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~  390 (533)
                      .|||...+...+.. . -..+++..+.+|-..+..+.+..-    .-+--++.+.+|+++|.|-|.-+.-
T Consensus       155 ATTr~g~ls~pLrdRFgi~~~l~~Y~~~el~~Iv~r~a~~l----~i~i~~~~~~~Ia~rsrGtPRiAnr  220 (233)
T PF05496_consen  155 ATTRAGLLSSPLRDRFGIVLRLEFYSEEELAKIVKRSARIL----NIEIDEDAAEEIARRSRGTPRIANR  220 (233)
T ss_dssp             EESSGCCTSHCCCTTSSEEEE----THHHHHHHHHHCCHCT----T-EE-HHHHHHHHHCTTTSHHHHHH
T ss_pred             eeccccccchhHHhhcceecchhcCCHHHHHHHHHHHHHHh----CCCcCHHHHHHHHHhcCCChHHHHH
Confidence            57887555443333 2 345899999999999998876421    1222356789999999999976553

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.

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.62  E-value=8.5e-07  Score=88.30  Aligned_cols=178  Identities=15%  Similarity=0.131  Sum_probs=115.0

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcch----hhhccCCceEEEEe-CCchhHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNND----EVKRNFEKVIWVCV-SDTFEEIRV  256 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~----~~~~~F~~~~wv~v-s~~~~~~~l  256 (533)
                      .+++|-+.-++.+..++..+     .-.....++|+.|+||||+|+.++..-    ....|+|...|... +....+.+ 
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            35789888889999988433     235677899999999999998887621    12345565555432 22222222 


Q ss_pred             HHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecchHHH-h-hh
Q 045152          257 AKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRSVA-L-QL  334 (533)
Q Consensus       257 ~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~~v~-~-~~  334 (533)
                      .+++.+.+...                -..+++-++|+|+++..+...++.+...+.....++.+|++|.+.+.. . ..
T Consensus        78 ir~~~~~~~~~----------------p~~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~  141 (313)
T PRK05564         78 IRNIIEEVNKK----------------PYEGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIK  141 (313)
T ss_pred             HHHHHHHHhcC----------------cccCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHH
Confidence            12222222111                113456678888887777678888999998877889898888765422 1 12


Q ss_pred             CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhH
Q 045152          335 GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAK  389 (533)
Q Consensus       335 ~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~  389 (533)
                      .....+++.+++.++....+.+... +   .    -.+.+..++..++|.|..+.
T Consensus       142 SRc~~~~~~~~~~~~~~~~l~~~~~-~---~----~~~~~~~l~~~~~g~~~~a~  188 (313)
T PRK05564        142 SRCQIYKLNRLSKEEIEKFISYKYN-D---I----KEEEKKSAIAFSDGIPGKVE  188 (313)
T ss_pred             hhceeeeCCCcCHHHHHHHHHHHhc-C---C----CHHHHHHHHHHcCCCHHHHH
Confidence            2256899999999999887765431 1   0    12335678889999887554

>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=98.61  E-value=2.4e-07  Score=80.79  Aligned_cols=125  Identities=21%  Similarity=0.132  Sum_probs=71.1

Q ss_pred             eechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHh
Q 045152          185 CGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGL  264 (533)
Q Consensus       185 vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l  264 (533)
                      +|++..+..+...+...      ....+.|+|++|+|||++++.+++...  ..-..++++..............+... 
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            47788888888888432      346889999999999999999997422  222345666554433222111111000 


Q ss_pred             CCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCC------CCCceEEEEecchH
Q 045152          265 GVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNG------HHESKILITTRDRS  329 (533)
Q Consensus       265 ~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~------~~gs~IiiTtR~~~  329 (533)
                                 ............++.++|+||++.........+...+...      ..+..||+||....
T Consensus        72 -----------~~~~~~~~~~~~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~  131 (151)
T cd00009          72 -----------LVRLLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRPL  131 (151)
T ss_pred             -----------hHhHHHHhhccCCCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCccc
Confidence                       0011112223456789999999754222222333333221      35778888887653

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.

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.61  E-value=9.7e-07  Score=89.60  Aligned_cols=181  Identities=18%  Similarity=0.193  Sum_probs=108.5

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhcc-------------------CCce
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRN-------------------FEKV  242 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~-------------------F~~~  242 (533)
                      .+++|-+.-++.+...+...     .-...+.++|+.|+||||+|+.+.+...-...                   +...
T Consensus        16 ~~iiGq~~~~~~l~~~~~~~-----~~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~~~pc~~c~~c~~~~~~~~~d~   90 (363)
T PRK14961         16 RDIIGQKHIVTAISNGLSLG-----RIHHAWLLSGTRGVGKTTIARLLAKSLNCQNGITSNPCRKCIICKEIEKGLCLDL   90 (363)
T ss_pred             hhccChHHHHHHHHHHHHcC-----CCCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCce
Confidence            36899999999988888532     23457789999999999999988763211000                   1111


Q ss_pred             EEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHH-hCCceEEEEEeCCCCCCccccchhhhcccCCCCCceE
Q 045152          243 IWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEY-ITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKI  321 (533)
Q Consensus       243 ~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~-l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~I  321 (533)
                      .++..+....+                  .+..++...+... ..+++-++|+|+++..+...++.+...+.......++
T Consensus        91 ~~~~~~~~~~v------------------~~ir~i~~~~~~~p~~~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~f  152 (363)
T PRK14961         91 IEIDAASRTKV------------------EEMREILDNIYYSPSKSRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKF  152 (363)
T ss_pred             EEecccccCCH------------------HHHHHHHHHHhcCcccCCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEE
Confidence            11111110111                  1111111111110 1245568999999877655677777777665566777


Q ss_pred             EEEecch-HHHhh-hCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhH
Q 045152          322 LITTRDR-SVALQ-LGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAK  389 (533)
Q Consensus       322 iiTtR~~-~v~~~-~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~  389 (533)
                      |++|.+. .+... ......+++++++.++..+.+...+...+    ..--++....|++.++|.|..+.
T Consensus       153 Il~t~~~~~l~~tI~SRc~~~~~~~l~~~el~~~L~~~~~~~g----~~i~~~al~~ia~~s~G~~R~al  218 (363)
T PRK14961        153 ILATTDVEKIPKTILSRCLQFKLKIISEEKIFNFLKYILIKES----IDTDEYALKLIAYHAHGSMRDAL  218 (363)
T ss_pred             EEEcCChHhhhHHHHhhceEEeCCCCCHHHHHHHHHHHHHHcC----CCCCHHHHHHHHHHcCCCHHHHH
Confidence            7766543 33322 22356799999999999988887653211    11123456778999999886443

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=98.59  E-value=5.6e-07  Score=90.77  Aligned_cols=196  Identities=18%  Similarity=0.139  Sum_probs=107.4

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCC-ceEEEEeCCchhHHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFE-KVIWVCVSDTFEEIRVAKAI  260 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~-~~~wv~vs~~~~~~~l~~~i  260 (533)
                      .+++|++..++.+..++..      +..+.+.++|++|+||||+|+.+.+... ...+. ..+.+++++..+.  ....+
T Consensus        15 ~~~~g~~~~~~~L~~~~~~------~~~~~lll~Gp~GtGKT~la~~~~~~l~-~~~~~~~~~~i~~~~~~~~--~~~~~   85 (337)
T PRK12402         15 EDILGQDEVVERLSRAVDS------PNLPHLLVQGPPGSGKTAAVRALARELY-GDPWENNFTEFNVADFFDQ--GKKYL   85 (337)
T ss_pred             HHhcCCHHHHHHHHHHHhC------CCCceEEEECCCCCCHHHHHHHHHHHhc-CcccccceEEechhhhhhc--chhhh
Confidence            4688999999999888843      2344678999999999999999876321 11222 2344443321100  00000


Q ss_pred             H------HHhCCC-CCCCccHHHHHHHHHHH---h--CCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecch
Q 045152          261 I------EGLGVS-ASGLSEFESLMKQIQEY---I--TRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDR  328 (533)
Q Consensus       261 l------~~l~~~-~~~~~~~~~l~~~l~~~---l--~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~  328 (533)
                      .      ..++.. .......+.....+...   .  .+.+-++|+||+..........+...+......+++|+|+...
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~  165 (337)
T PRK12402         86 VEDPRFAHFLGTDKRIRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQP  165 (337)
T ss_pred             hcCcchhhhhhhhhhhccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCHHHHHHHHHHHHhccCCCeEEEEeCCh
Confidence            0      000000 00000111122222111   1  2345589999996554333444555554444557788777543


Q ss_pred             H-HHhhh-CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHH
Q 045152          329 S-VALQL-GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKV  390 (533)
Q Consensus       329 ~-v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~  390 (533)
                      . +...+ .....+.+.+++.++...++...+...+ ..   --.+....+++.++|.+-.+..
T Consensus       166 ~~~~~~L~sr~~~v~~~~~~~~~~~~~l~~~~~~~~-~~---~~~~al~~l~~~~~gdlr~l~~  225 (337)
T PRK12402        166 SKLIPPIRSRCLPLFFRAPTDDELVDVLESIAEAEG-VD---YDDDGLELIAYYAGGDLRKAIL  225 (337)
T ss_pred             hhCchhhcCCceEEEecCCCHHHHHHHHHHHHHHcC-CC---CCHHHHHHHHHHcCCCHHHHHH
Confidence            2 22222 2245788899999999888887653211 11   1245667888889887766543

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.58  E-value=1.2e-07  Score=99.44  Aligned_cols=196  Identities=19%  Similarity=0.159  Sum_probs=111.5

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHH
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIE  262 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~  262 (533)
                      +++|-+.-.+.|..++...     .-...+.++|++|+||||+|+.+.+...-...+...+|.|.+... +.......+.
T Consensus        15 dvvGq~~v~~~L~~~i~~~-----~l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~~-i~~~~h~dv~   88 (504)
T PRK14963         15 EVVGQEHVKEVLLAALRQG-----RLGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCLA-VRRGAHPDVL   88 (504)
T ss_pred             HhcChHHHHHHHHHHHHcC-----CCCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhHH-HhcCCCCceE
Confidence            5899888888888887533     234567999999999999999887642211222223343321100 0000000000


Q ss_pred             HhCCC-CCCCccHHHHHHHHHH-HhCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecc-hHHHhhh-CCCC
Q 045152          263 GLGVS-ASGLSEFESLMKQIQE-YITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRD-RSVALQL-GSID  338 (533)
Q Consensus       263 ~l~~~-~~~~~~~~~l~~~l~~-~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~-~~v~~~~-~~~~  338 (533)
                      .+... .....+..++...+.. -..+++-++|||+++..+...+..+...+......+.+|++|.. ..+...+ ....
T Consensus        89 el~~~~~~~vd~iR~l~~~~~~~p~~~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~kl~~~I~SRc~  168 (504)
T PRK14963         89 EIDAASNNSVEDVRDLREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPTILSRTQ  168 (504)
T ss_pred             EecccccCCHHHHHHHHHHHhhccccCCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChhhCChHHhcceE
Confidence            00100 0011112222222221 12345668999999877666677787777665555556655543 3333222 2356


Q ss_pred             eeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchh
Q 045152          339 IIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAA  388 (533)
Q Consensus       339 ~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai  388 (533)
                      .+++.+++.++....+.+.+...+-.    --.+....|++.++|.+.-+
T Consensus       169 ~~~f~~ls~~el~~~L~~i~~~egi~----i~~~Al~~ia~~s~GdlR~a  214 (504)
T PRK14963        169 HFRFRRLTEEEIAGKLRRLLEAEGRE----AEPEALQLVARLADGAMRDA  214 (504)
T ss_pred             EEEecCCCHHHHHHHHHHHHHHcCCC----CCHHHHHHHHHHcCCCHHHH
Confidence            79999999999999998876421111    12445678889999988644

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=98.57  E-value=8e-07  Score=94.87  Aligned_cols=179  Identities=17%  Similarity=0.183  Sum_probs=111.3

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhc-------------------cCCce
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKR-------------------NFEKV  242 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~-------------------~F~~~  242 (533)
                      .++||.+..++.|..++...     .-...+.++|..|+||||+|+.+.+......                   .|...
T Consensus        16 dEVIGQe~Vv~~L~~aL~~g-----RL~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~sCr~I~~G~h~Dv   90 (830)
T PRK07003         16 ASLVGQEHVVRALTHALDGG-----RLHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRACREIDEGRFVDY   90 (830)
T ss_pred             HHHcCcHHHHHHHHHHHhcC-----CCCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHHHHHHhcCCCceE
Confidence            36899999999999988532     2345667999999999999987765311111                   11112


Q ss_pred             EEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHH----hCCceEEEEEeCCCCCCccccchhhhcccCCCCC
Q 045152          243 IWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEY----ITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHE  318 (533)
Q Consensus       243 ~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~----l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~g  318 (533)
                      ++++.+..                     ...+++...+...    ..++.-++|||+++..+...+..|+..+......
T Consensus        91 iEIDAas~---------------------rgVDdIReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~  149 (830)
T PRK07003         91 VEMDAASN---------------------RGVDEMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPH  149 (830)
T ss_pred             EEeccccc---------------------ccHHHHHHHHHHHHhccccCCceEEEEeChhhCCHHHHHHHHHHHHhcCCC
Confidence            22222111                     1122222222211    1345568899999887767788888877666667


Q ss_pred             ceEEEEecchH-HHh-hhCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcc-hhHH
Q 045152          319 SKILITTRDRS-VAL-QLGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPL-AAKV  390 (533)
Q Consensus       319 s~IiiTtR~~~-v~~-~~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPL-ai~~  390 (533)
                      .++|+||++.. +.. .......++++.++.++..+.+.+.+...+    ...-.+....|++.++|... |+..
T Consensus       150 v~FILaTtd~~KIp~TIrSRCq~f~Fk~Ls~eeIv~~L~~Il~~Eg----I~id~eAL~lIA~~A~GsmRdALsL  220 (830)
T PRK07003        150 VKFILATTDPQKIPVTVLSRCLQFNLKQMPAGHIVSHLERILGEER----IAFEPQALRLLARAAQGSMRDALSL  220 (830)
T ss_pred             eEEEEEECChhhccchhhhheEEEecCCcCHHHHHHHHHHHHHHcC----CCCCHHHHHHHHHHcCCCHHHHHHH
Confidence            78888777643 322 223357899999999999999887653111    11124556788889988664 4443

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.57  E-value=8e-07  Score=96.66  Aligned_cols=183  Identities=18%  Similarity=0.204  Sum_probs=112.8

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhcc-------------------CCce
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRN-------------------FEKV  242 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~-------------------F~~~  242 (533)
                      .++||-+.-++.|..++...     .-...+.++|+.|+||||+|+.+.+...-...                   |.-+
T Consensus        16 ddIIGQe~Iv~~LknaI~~~-----rl~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~~Dv   90 (944)
T PRK14949         16 EQMVGQSHVLHALTNALTQQ-----RLHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSCVEIAQGRFVDL   90 (944)
T ss_pred             HHhcCcHHHHHHHHHHHHhC-----CCCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHHHHHhcCCCceE
Confidence            36899999999998888532     22445689999999999999999864211111                   1111


Q ss_pred             EEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHH-HhCCceEEEEEeCCCCCCccccchhhhcccCCCCCceE
Q 045152          243 IWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQE-YITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKI  321 (533)
Q Consensus       243 ~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~-~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~I  321 (533)
                      +++......                  ...++.++...+.. ...+++-++|||+++..+...++.|+..+.......++
T Consensus        91 iEidAas~~------------------kVDdIReLie~v~~~P~~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrF  152 (944)
T PRK14949         91 IEVDAASRT------------------KVDDTRELLDNVQYRPSRGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKF  152 (944)
T ss_pred             EEecccccc------------------CHHHHHHHHHHHHhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEE
Confidence            111111001                  11112222222221 12466779999999888777788888877665556666


Q ss_pred             EEEecc-hHHHhh-hCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHHH
Q 045152          322 LITTRD-RSVALQ-LGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVI  391 (533)
Q Consensus       322 iiTtR~-~~v~~~-~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~  391 (533)
                      |++|.+ ..+... ......|++++|+.++...++.+.+-..    ....-.+....|++.++|.|.-+..+
T Consensus       153 ILaTTe~~kLl~TIlSRCq~f~fkpLs~eEI~~~L~~il~~E----gI~~edeAL~lIA~~S~Gd~R~ALnL  220 (944)
T PRK14949        153 LLATTDPQKLPVTVLSRCLQFNLKSLTQDEIGTQLNHILTQE----QLPFEAEALTLLAKAANGSMRDALSL  220 (944)
T ss_pred             EEECCCchhchHHHHHhheEEeCCCCCHHHHHHHHHHHHHHc----CCCCCHHHHHHHHHHcCCCHHHHHHH
Confidence            665544 433322 2335789999999999999988765311    11122455688899999988644433

>PTZ00202 tuzin; Provisional

Probab=98.55  E-value=2.6e-06  Score=85.11  Aligned_cols=167  Identities=14%  Similarity=0.212  Sum_probs=102.3

Q ss_pred             ccCCceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHH
Q 045152          179 IDEGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAK  258 (533)
Q Consensus       179 ~~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~  258 (533)
                      .+.+.|+||+++...+...|...+.   ...+++.|+|++|+|||||++.+....    ++ ..++++..   +..+++.
T Consensus       259 a~~~~FVGReaEla~Lr~VL~~~d~---~~privvLtG~~G~GKTTLlR~~~~~l----~~-~qL~vNpr---g~eElLr  327 (550)
T PTZ00202        259 AVIRQFVSREAEESWVRQVLRRLDT---AHPRIVVFTGFRGCGKSSLCRSAVRKE----GM-PAVFVDVR---GTEDTLR  327 (550)
T ss_pred             CCccCCCCcHHHHHHHHHHHhccCC---CCceEEEEECCCCCCHHHHHHHHHhcC----Cc-eEEEECCC---CHHHHHH
Confidence            4556899999999999999965432   345699999999999999999998632    22 13333322   6799999


Q ss_pred             HHHHHhCCCCCCC--ccHHHHHHHHHHHh-C-CceEEEEEeCCCCCCc-cccchhhhcccCCCCCceEEEEecchHHHhh
Q 045152          259 AIIEGLGVSASGL--SEFESLMKQIQEYI-T-RKKFFLVLDDVWDGDY-KKWNPFFSCLKNGHHESKILITTRDRSVALQ  333 (533)
Q Consensus       259 ~il~~l~~~~~~~--~~~~~l~~~l~~~l-~-~kr~LlVLDdv~~~~~-~~~~~l~~~l~~~~~gs~IiiTtR~~~v~~~  333 (533)
                      .++.+++.+....  .-...+.+.+.+.- . +++.+||+-=-...+. ..+.+. ..|.....-|.|++---.+.+...
T Consensus       328 ~LL~ALGV~p~~~k~dLLrqIqeaLl~~~~e~GrtPVLII~lreg~~l~rvyne~-v~la~drr~ch~v~evpleslt~~  406 (550)
T PTZ00202        328 SVVKALGVPNVEACGDLLDFISEACRRAKKMNGETPLLVLKLREGSSLQRVYNEV-VALACDRRLCHVVIEVPLESLTIA  406 (550)
T ss_pred             HHHHHcCCCCcccHHHHHHHHHHHHHHHHHhCCCCEEEEEEecCCCcHHHHHHHH-HHHHccchhheeeeeehHhhcchh
Confidence            9999999743322  11233344443322 3 6777777653321110 011111 122333445667765444433221


Q ss_pred             ---hCCCCeeeCCCCChHhhHHHHHHh
Q 045152          334 ---LGSIDIIPVKELAEEECWSLLERL  357 (533)
Q Consensus       334 ---~~~~~~~~l~~L~~~~~~~Lf~~~  357 (533)
                         ......|.+++++.+++.++..+.
T Consensus       407 ~~~lprldf~~vp~fsr~qaf~y~~h~  433 (550)
T PTZ00202        407 NTLLPRLDFYLVPNFSRSQAFAYTQHA  433 (550)
T ss_pred             cccCccceeEecCCCCHHHHHHHHhhc
Confidence               122467889999999998887664

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=98.55  E-value=1.7e-06  Score=93.34  Aligned_cols=201  Identities=21%  Similarity=0.164  Sum_probs=120.3

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccC---CceEEEEeCCc---hhHHHH
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNF---EKVIWVCVSDT---FEEIRV  256 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F---~~~~wv~vs~~---~~~~~l  256 (533)
                      +++|++..+..+...+..      .....+.|+|++|+||||||+.+++.......+   ...-|+.+...   .+...+
T Consensus       155 ~iiGqs~~~~~l~~~ia~------~~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~~~~l~~d~~~i  228 (615)
T TIGR02903       155 EIVGQERAIKALLAKVAS------PFPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVDGTTLRWDPREV  228 (615)
T ss_pred             hceeCcHHHHHHHHHHhc------CCCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEechhccCCHHHH
Confidence            589999999988877732      234579999999999999999998754332222   12345544321   112222


Q ss_pred             HHH---------------HHHHhCCC------------------CCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCcc
Q 045152          257 AKA---------------IIEGLGVS------------------ASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYK  303 (533)
Q Consensus       257 ~~~---------------il~~l~~~------------------~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~  303 (533)
                      ...               .+...+..                  ..+.. ....+..+.+.+.++++.++-|+.|..+..
T Consensus       229 ~~~llg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~L-d~~~Q~~Ll~~Le~~~v~~~~~~~~~~~~~  307 (615)
T TIGR02903       229 TNPLLGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGEL-DPLLQNKLLKVLEDKRVEFSSSYYDPDDPN  307 (615)
T ss_pred             hHHhcCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccC-CHHHHHHHHHHHhhCeEEeecceeccCCcc
Confidence            111               11111110                  00111 133577888888889999998888777666


Q ss_pred             ccchhhhcccCCCCCceEEE--EecchHH-Hhhh-CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHh
Q 045152          304 KWNPFFSCLKNGHHESKILI--TTRDRSV-ALQL-GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAH  379 (533)
Q Consensus       304 ~~~~l~~~l~~~~~gs~Iii--TtR~~~v-~~~~-~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~  379 (533)
                      .|+.+...+....+...+++  ||++... ...+ .....+.+.+++.++.+.++.+.+-.. ...   --.++...|.+
T Consensus       308 ~~~~ik~~~~~~~~~~~VLI~aTt~~~~~l~~aLrSR~~~i~~~pls~edi~~Il~~~a~~~-~v~---ls~eal~~L~~  383 (615)
T TIGR02903       308 VPKYIKKLFEEGAPADFVLIGATTRDPEEINPALRSRCAEVFFEPLTPEDIALIVLNAAEKI-NVH---LAAGVEELIAR  383 (615)
T ss_pred             cchhhhhhcccCccceEEEEEeccccccccCHHHHhceeEEEeCCCCHHHHHHHHHHHHHHc-CCC---CCHHHHHHHHH
Confidence            78887776666555555555  5664321 1111 223567899999999999999876411 111   11344555666


Q ss_pred             HhCCCcchhHHHHHH
Q 045152          380 KCKGLPLAAKVIWNL  394 (533)
Q Consensus       380 ~c~GlPLai~~~~~~  394 (533)
                      .+..-+.++..++.+
T Consensus       384 ys~~gRraln~L~~~  398 (615)
T TIGR02903       384 YTIEGRKAVNILADV  398 (615)
T ss_pred             CCCcHHHHHHHHHHH
Confidence            665556777666443

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.

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

Probab=98.54  E-value=1.5e-07  Score=89.51  Aligned_cols=91  Identities=19%  Similarity=0.094  Sum_probs=63.3

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCc--hhHHHHHHHHHHHhCCCCCCCcc------HHHHHH
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT--FEEIRVAKAIIEGLGVSASGLSE------FESLMK  279 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~--~~~~~l~~~il~~l~~~~~~~~~------~~~l~~  279 (533)
                      ....++|+|++|+|||||++.+|++.... +|+.++|+++...  +++.++++.+...+-....+...      ......
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            45689999999999999999999975444 8999999998776  78999999983333222111111      112222


Q ss_pred             HHHHH-hCCceEEEEEeCCCC
Q 045152          280 QIQEY-ITRKKFFLVLDDVWD  299 (533)
Q Consensus       280 ~l~~~-l~~kr~LlVLDdv~~  299 (533)
                      ..... -.+++.++++|++..
T Consensus        94 ~a~~~~~~G~~vll~iDei~r  114 (249)
T cd01128          94 KAKRLVEHGKDVVILLDSITR  114 (249)
T ss_pred             HHHHHHHCCCCEEEEEECHHH
Confidence            22222 257899999999943

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.

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.53  E-value=1e-06  Score=93.01  Aligned_cols=178  Identities=18%  Similarity=0.175  Sum_probs=110.1

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhc-------------------cCCce
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKR-------------------NFEKV  242 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~-------------------~F~~~  242 (533)
                      .++||.+...+.|..++...     .-...+.++|+.|+||||+|+.+.+...-..                   .|.-+
T Consensus        15 ddVIGQe~vv~~L~~aI~~g-----rl~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C~sC~~I~~g~hpDv   89 (702)
T PRK14960         15 NELVGQNHVSRALSSALERG-----RLHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVCATCKAVNEGRFIDL   89 (702)
T ss_pred             HHhcCcHHHHHHHHHHHHcC-----CCCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccCHHHHHHhcCCCCce
Confidence            36899999999999998533     2356789999999999999988865311100                   11111


Q ss_pred             EEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHH----HhCCceEEEEEeCCCCCCccccchhhhcccCCCCC
Q 045152          243 IWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQE----YITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHE  318 (533)
Q Consensus       243 ~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~----~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~g  318 (533)
                      +.++.+..                     ...+++...+..    -..+++-++|+|+++..+......+...+.....+
T Consensus        90 iEIDAAs~---------------------~~VddIReli~~~~y~P~~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~  148 (702)
T PRK14960         90 IEIDAASR---------------------TKVEDTRELLDNVPYAPTQGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEH  148 (702)
T ss_pred             EEeccccc---------------------CCHHHHHHHHHHHhhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhcCCCC
Confidence            22221111                     112222222211    12356678999999887666777777777665566


Q ss_pred             ceEEEEecch-HHH-hhhCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhH
Q 045152          319 SKILITTRDR-SVA-LQLGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAK  389 (533)
Q Consensus       319 s~IiiTtR~~-~v~-~~~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~  389 (533)
                      .++|++|.+. .+. ........+++++++.++....+.+.+...+    ..--.+....|++.++|.+..+.
T Consensus       149 v~FILaTtd~~kIp~TIlSRCq~feFkpLs~eEI~k~L~~Il~kEg----I~id~eAL~~IA~~S~GdLRdAL  217 (702)
T PRK14960        149 VKFLFATTDPQKLPITVISRCLQFTLRPLAVDEITKHLGAILEKEQ----IAADQDAIWQIAESAQGSLRDAL  217 (702)
T ss_pred             cEEEEEECChHhhhHHHHHhhheeeccCCCHHHHHHHHHHHHHHcC----CCCCHHHHHHHHHHcCCCHHHHH
Confidence            7777777653 222 2223357899999999999988887663211    11123445778888888775544

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

Probab=98.53  E-value=6.9e-07  Score=86.03  Aligned_cols=130  Identities=24%  Similarity=0.291  Sum_probs=88.1

Q ss_pred             CCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHh
Q 045152          206 QKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYI  285 (533)
Q Consensus       206 ~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l  285 (533)
                      ++.+..+.+||++|.||||||+.+.+......    ..||..|....-..-.++|+++-.               -...+
T Consensus       159 q~~ipSmIlWGppG~GKTtlArlia~tsk~~S----yrfvelSAt~a~t~dvR~ife~aq---------------~~~~l  219 (554)
T KOG2028|consen  159 QNRIPSMILWGPPGTGKTTLARLIASTSKKHS----YRFVELSATNAKTNDVRDIFEQAQ---------------NEKSL  219 (554)
T ss_pred             cCCCCceEEecCCCCchHHHHHHHHhhcCCCc----eEEEEEeccccchHHHHHHHHHHH---------------HHHhh
Confidence            35678889999999999999999987533222    567776655443333444444321               11234


Q ss_pred             CCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEE--EecchHHH---hhhCCCCeeeCCCCChHhhHHHHHHh
Q 045152          286 TRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILI--TTRDRSVA---LQLGSIDIIPVKELAEEECWSLLERL  357 (533)
Q Consensus       286 ~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~Iii--TtR~~~v~---~~~~~~~~~~l~~L~~~~~~~Lf~~~  357 (533)
                      ..+|.+|.+|.|+..+..+-+.+   ||.-..|.-++|  ||.++...   ..+....++.|+.|+.++...++.+-
T Consensus       220 ~krkTilFiDEiHRFNksQQD~f---LP~VE~G~I~lIGATTENPSFqln~aLlSRC~VfvLekL~~n~v~~iL~ra  293 (554)
T KOG2028|consen  220 TKRKTILFIDEIHRFNKSQQDTF---LPHVENGDITLIGATTENPSFQLNAALLSRCRVFVLEKLPVNAVVTILMRA  293 (554)
T ss_pred             hcceeEEEeHHhhhhhhhhhhcc---cceeccCceEEEecccCCCccchhHHHHhccceeEeccCCHHHHHHHHHHH
Confidence            67899999999988765555544   455556776666  77776442   22344678999999999999888873

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.52  E-value=1.4e-06  Score=91.85  Aligned_cols=195  Identities=14%  Similarity=0.159  Sum_probs=111.3

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhc---cCCceEEEEeCCchhHHHHHHH
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKR---NFEKVIWVCVSDTFEEIRVAKA  259 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~---~F~~~~wv~vs~~~~~~~l~~~  259 (533)
                      ++||-+.-++.|.+++...     .-...+.++|+.|+||||+|+.+.+...-..   .....     +.........+.
T Consensus        17 dVIGQe~vv~~L~~al~~g-----RLpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~-----~~PCG~C~sC~~   86 (700)
T PRK12323         17 TLVGQEHVVRALTHALEQQ-----RLHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGIT-----AQPCGQCRACTE   86 (700)
T ss_pred             HHcCcHHHHHHHHHHHHhC-----CCceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCC-----CCCCcccHHHHH
Confidence            6899999999999988543     2345678999999999999988865311100   00000     000000000011


Q ss_pred             HHHH-----hCCCCCCCccHHHHHHHHHHH----hCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEec-chH
Q 045152          260 IIEG-----LGVSASGLSEFESLMKQIQEY----ITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTR-DRS  329 (533)
Q Consensus       260 il~~-----l~~~~~~~~~~~~l~~~l~~~----l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR-~~~  329 (533)
                      |...     +..........+++.+.+...    ..++.-++|||+++..+...++.|+..+..-...+.+|++|. ...
T Consensus        87 I~aG~hpDviEIdAas~~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep~k  166 (700)
T PRK12323         87 IDAGRFVDYIEMDAASNRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQK  166 (700)
T ss_pred             HHcCCCCcceEecccccCCHHHHHHHHHHHHhchhcCCceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCChHh
Confidence            1000     000000011122222222221    245667899999988877778888887766555566655554 444


Q ss_pred             HHhhh-CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHHH
Q 045152          330 VALQL-GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVI  391 (533)
Q Consensus       330 v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~  391 (533)
                      +..-+ .....+.++.++.++..+.+.+.+...+    ...-.+....|++.++|.|..+..+
T Consensus       167 LlpTIrSRCq~f~f~~ls~eei~~~L~~Il~~Eg----i~~d~eAL~~IA~~A~Gs~RdALsL  225 (700)
T PRK12323        167 IPVTVLSRCLQFNLKQMPPGHIVSHLDAILGEEG----IAHEVNALRLLAQAAQGSMRDALSL  225 (700)
T ss_pred             hhhHHHHHHHhcccCCCChHHHHHHHHHHHHHcC----CCCCHHHHHHHHHHcCCCHHHHHHH
Confidence            43222 2357899999999999998887653111    1111344578899999999765444

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=98.52  E-value=1.5e-06  Score=86.96  Aligned_cols=180  Identities=16%  Similarity=0.093  Sum_probs=104.0

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEe--CCchhHHHHHHHH
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCV--SDTFEEIRVAKAI  260 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v--s~~~~~~~l~~~i  260 (533)
                      +++|+++.++.+..++..      +....+.++|++|+||||+|+.+.+.. ....+.. .++.+  +...... ...+.
T Consensus        18 ~~~g~~~~~~~l~~~i~~------~~~~~~ll~G~~G~GKt~~~~~l~~~l-~~~~~~~-~~i~~~~~~~~~~~-~~~~~   88 (319)
T PRK00440         18 EIVGQEEIVERLKSYVKE------KNMPHLLFAGPPGTGKTTAALALAREL-YGEDWRE-NFLELNASDERGID-VIRNK   88 (319)
T ss_pred             HhcCcHHHHHHHHHHHhC------CCCCeEEEECCCCCCHHHHHHHHHHHH-cCCcccc-ceEEeccccccchH-HHHHH
Confidence            588999999999998843      234457999999999999999998642 1112211 12222  2211111 11111


Q ss_pred             HHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecch-HHHhhh-CCCC
Q 045152          261 IEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDR-SVALQL-GSID  338 (533)
Q Consensus       261 l~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~-~v~~~~-~~~~  338 (533)
                      +..+....+              .....+-++++|+++.........+...+......+.+|+++... .+.... ....
T Consensus        89 i~~~~~~~~--------------~~~~~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~  154 (319)
T PRK00440         89 IKEFARTAP--------------VGGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRCA  154 (319)
T ss_pred             HHHHHhcCC--------------CCCCCceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHHHHhh
Confidence            111100000              001235689999996654344455666665545556777776432 111111 2234


Q ss_pred             eeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhH
Q 045152          339 IIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAK  389 (533)
Q Consensus       339 ~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~  389 (533)
                      .+++.+++.++....+...+...+ .   .--.+....+++.++|.+.-+.
T Consensus       155 ~~~~~~l~~~ei~~~l~~~~~~~~-~---~i~~~al~~l~~~~~gd~r~~~  201 (319)
T PRK00440        155 VFRFSPLKKEAVAERLRYIAENEG-I---EITDDALEAIYYVSEGDMRKAI  201 (319)
T ss_pred             eeeeCCCCHHHHHHHHHHHHHHcC-C---CCCHHHHHHHHHHcCCCHHHHH
Confidence            689999999999888887764211 1   1124566888999999876643

>PLN03025 replication factor C subunit; Provisional

Probab=98.51  E-value=1.2e-06  Score=87.54  Aligned_cols=182  Identities=13%  Similarity=0.090  Sum_probs=104.6

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCC-ceEEEEeCCchhHHHHHHHHH
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFE-KVIWVCVSDTFEEIRVAKAII  261 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~-~~~wv~vs~~~~~~~l~~~il  261 (533)
                      +++|.++.++.|..++..      +....+.++|++|+||||+|+.+.+.. ....|. .++-++.++..+.. ..++++
T Consensus        14 ~~~g~~~~~~~L~~~~~~------~~~~~lll~Gp~G~GKTtla~~la~~l-~~~~~~~~~~eln~sd~~~~~-~vr~~i   85 (319)
T PLN03025         14 DIVGNEDAVSRLQVIARD------GNMPNLILSGPPGTGKTTSILALAHEL-LGPNYKEAVLELNASDDRGID-VVRNKI   85 (319)
T ss_pred             HhcCcHHHHHHHHHHHhc------CCCceEEEECCCCCCHHHHHHHHHHHH-hcccCccceeeecccccccHH-HHHHHH
Confidence            578988888888877643      234457799999999999999987631 112222 12222222222221 222222


Q ss_pred             HHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecch-HHHhhh-CCCCe
Q 045152          262 EGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDR-SVALQL-GSIDI  339 (533)
Q Consensus       262 ~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~-~v~~~~-~~~~~  339 (533)
                      +.+......             ...++.-+++||+++.........+...+......+++|+++... .+...+ .....
T Consensus        86 ~~~~~~~~~-------------~~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~SRc~~  152 (319)
T PLN03025         86 KMFAQKKVT-------------LPPGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRCAI  152 (319)
T ss_pred             HHHHhcccc-------------CCCCCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhHHHhhhc
Confidence            211100000             002356689999998765545555655555444567777776542 221111 12457


Q ss_pred             eeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhH
Q 045152          340 IPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAK  389 (533)
Q Consensus       340 ~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~  389 (533)
                      +++++++.++....+...+-..+- .   --.+....|++.++|-...+.
T Consensus       153 i~f~~l~~~~l~~~L~~i~~~egi-~---i~~~~l~~i~~~~~gDlR~al  198 (319)
T PLN03025        153 VRFSRLSDQEILGRLMKVVEAEKV-P---YVPEGLEAIIFTADGDMRQAL  198 (319)
T ss_pred             ccCCCCCHHHHHHHHHHHHHHcCC-C---CCHHHHHHHHHHcCCCHHHHH
Confidence            899999999999888877632111 1   114456788889988765443

>COG3899 Predicted ATPase [General function prediction only]

Probab=98.47  E-value=1.5e-06  Score=97.05  Aligned_cols=206  Identities=17%  Similarity=0.181  Sum_probs=121.0

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEE---eCCch---hHHHH
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVC---VSDTF---EEIRV  256 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~---vs~~~---~~~~l  256 (533)
                      .++||+.+.+.|...+.....   +...++.+.|..|||||+|++.|..  .+.+.+...+--.   ...+.   .....
T Consensus         1 ~l~GRe~ev~~Ll~~f~~v~~---g~~~~~lv~G~sGIGKsalv~ev~~--~i~~~~~~~i~~~f~q~~~~ipl~~lvq~   75 (849)
T COG3899           1 PLYGRETELAQLLAAFDRVSK---GRGEVVLVAGESGIGKSALVNEVHK--PITQQRGYFIKGKFDQFERNIPLSPLVQA   75 (849)
T ss_pred             CCCchHhHHHHHHHHHHHHhC---CCeEEEEEeecCCCcHHHHHHHHHH--HHhccceeeeHhhcccccCCCchHHHHHH
Confidence            378999999999999976543   5667999999999999999999986  3333321111111   11111   11223


Q ss_pred             HHHHHHHh-------------------CCCCC-----------------C-----CccHH-----HHHHHHHHHh-CCce
Q 045152          257 AKAIIEGL-------------------GVSAS-----------------G-----LSEFE-----SLMKQIQEYI-TRKK  289 (533)
Q Consensus       257 ~~~il~~l-------------------~~~~~-----------------~-----~~~~~-----~l~~~l~~~l-~~kr  289 (533)
                      +++++.++                   +....                 .     .....     .....+.... +.++
T Consensus        76 ~r~l~~~ll~~~~~~~~~~~~~il~~~g~~~~~~~~vip~L~~i~g~~~~~~el~~~~~~~r~n~~~~~~i~~~~~~~~p  155 (849)
T COG3899          76 FRDLMGQLLSESDTRILSWRARLLAALGENGQVIIDVIPELELIIGKRPPALELSPTAAQNRFNLAFLRFIQVFTAEEHP  155 (849)
T ss_pred             HHHHHHHHhhccchHHHHHHHHHHHHhcccchhHHhhhHHHHhhcCCCcchhhcccchhHHHHHHHHHHHHHHHHhccCC
Confidence            33333322                   11100                 0     00000     1222333333 3469


Q ss_pred             EEEEEeCCCCCCccccchhhhcccCCCC------CceEEEEecch--HHHhhhCCCCeeeCCCCChHhhHHHHHHhhccC
Q 045152          290 FFLVLDDVWDGDYKKWNPFFSCLKNGHH------ESKILITTRDR--SVALQLGSIDIIPVKELAEEECWSLLERLAFFR  361 (533)
Q Consensus       290 ~LlVLDdv~~~~~~~~~~l~~~l~~~~~------gs~IiiTtR~~--~v~~~~~~~~~~~l~~L~~~~~~~Lf~~~a~~~  361 (533)
                      .++|+||+++.+....+-+.........      ..-.+.|.+..  .+.........+.|.||+..+.-.+....... 
T Consensus       156 lVi~leDlhWaD~~SL~lL~~lm~~~~~~~~~~n~v~~~h~~~~~~~~~~~~~~~i~~I~L~PL~~~d~~~lV~~~l~~-  234 (849)
T COG3899         156 LVIVLEDLHWADSASLKLLQLLMDRIAIGAYRDNEVLLLHPLRPTLGEILKSATNITTITLAPLSRADTNQLVAATLGC-  234 (849)
T ss_pred             eEEEEecccccChhHHHHHHHHHHhcchhhhhccccccCCCccchhhHHhhcCCceeEEecCcCchhhHHHHHHHHhCC-
Confidence            9999999977665444443322221110      11122233322  22222234678999999999999999887631 


Q ss_pred             CCccccccchHHHHHHHhHhCCCcchhHHHHHHhhcc
Q 045152          362 RSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLLRSK  398 (533)
Q Consensus       362 ~~~~~~~~l~~~~~~I~~~c~GlPLai~~~~~~L~~~  398 (533)
                          ......+....|+++..|+|+.+..+-..+...
T Consensus       235 ----~~~~~~p~~~~i~~kt~GnPfFi~e~lk~l~~~  267 (849)
T COG3899         235 ----TKLLPAPLLELIFEKTKGNPFFIEEFLKALYEE  267 (849)
T ss_pred             ----cccccchHHHHHHHHhcCCCccHHHHHHHHHhC
Confidence                122345667999999999999999888877764

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=98.45  E-value=4.8e-06  Score=88.93  Aligned_cols=192  Identities=19%  Similarity=0.228  Sum_probs=126.1

Q ss_pred             HHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCC-chhHHHHHHHHHHHhCCCCCC
Q 045152          192 NELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD-TFEEIRVAKAIIEGLGVSASG  270 (533)
Q Consensus       192 ~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~l~~~il~~l~~~~~~  270 (533)
                      .++.+.|...     .+.+.+.|..|+|.|||||+.....   ....-..+.|++.++ +.+...+...++..++.-.++
T Consensus        25 ~rL~~~L~~~-----~~~RL~li~APAGfGKttl~aq~~~---~~~~~~~v~Wlslde~dndp~rF~~yLi~al~~~~p~   96 (894)
T COG2909          25 PRLLDRLRRA-----NDYRLILISAPAGFGKTTLLAQWRE---LAADGAAVAWLSLDESDNDPARFLSYLIAALQQATPT   96 (894)
T ss_pred             HHHHHHHhcC-----CCceEEEEeCCCCCcHHHHHHHHHH---hcCcccceeEeecCCccCCHHHHHHHHHHHHHHhCcc
Confidence            4555555432     4789999999999999999988864   122335689999865 456778888888887642221


Q ss_pred             -------------CccHHHHHHHHHHHhC--CceEEEEEeCCCCCCccccch-hhhcccCCCCCceEEEEecchHHHhhh
Q 045152          271 -------------LSEFESLMKQIQEYIT--RKKFFLVLDDVWDGDYKKWNP-FFSCLKNGHHESKILITTRDRSVALQL  334 (533)
Q Consensus       271 -------------~~~~~~l~~~l~~~l~--~kr~LlVLDdv~~~~~~~~~~-l~~~l~~~~~gs~IiiTtR~~~v~~~~  334 (533)
                                   ..+...+...+..-+.  .++..+||||.+-........ +...+.....+-..|+|||+..-....
T Consensus        97 ~~~~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l~lvv~SR~rP~l~la  176 (894)
T COG2909          97 LGDEAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKHAPENLTLVVTSRSRPQLGLA  176 (894)
T ss_pred             ccHHHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHhCCCCeEEEEEeccCCCCccc
Confidence                         2234445555555443  367899999997754444444 333445667788899999985322110


Q ss_pred             ---CCCCeeeC----CCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHHHHHHhhcc
Q 045152          335 ---GSIDIIPV----KELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLLRSK  398 (533)
Q Consensus       335 ---~~~~~~~l----~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~~~~L~~~  398 (533)
                         -....+++    -.++.+|+-++|.....   .+-+    +.-.+.+.+..+|-+-|+..++-.++.+
T Consensus       177 ~lRlr~~llEi~~~~Lrf~~eE~~~fl~~~~~---l~Ld----~~~~~~L~~~teGW~~al~L~aLa~~~~  240 (894)
T COG2909         177 RLRLRDELLEIGSEELRFDTEEAAAFLNDRGS---LPLD----AADLKALYDRTEGWAAALQLIALALRNN  240 (894)
T ss_pred             ceeehhhHHhcChHhhcCChHHHHHHHHHcCC---CCCC----hHHHHHHHhhcccHHHHHHHHHHHccCC
Confidence               01222333    25899999999988652   1111    3345788999999999999888777733

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

Probab=98.44  E-value=1.2e-06  Score=95.56  Aligned_cols=171  Identities=18%  Similarity=0.219  Sum_probs=95.0

Q ss_pred             ceeechhhHH---HHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHH
Q 045152          183 EVCGRVEEKN---ELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKA  259 (533)
Q Consensus       183 ~~vGR~~e~~---~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~  259 (533)
                      +|+|.+..+.   .+...+..      +....+.++|++|+||||||+.+++.  ...+|.   .++.+. ....     
T Consensus        29 d~vGQe~ii~~~~~L~~~i~~------~~~~slLL~GPpGtGKTTLA~aIA~~--~~~~f~---~lna~~-~~i~-----   91 (725)
T PRK13341         29 EFVGQDHILGEGRLLRRAIKA------DRVGSLILYGPPGVGKTTLARIIANH--TRAHFS---SLNAVL-AGVK-----   91 (725)
T ss_pred             HhcCcHHHhhhhHHHHHHHhc------CCCceEEEECCCCCCHHHHHHHHHHH--hcCcce---eehhhh-hhhH-----
Confidence            5788887664   45555532      34567789999999999999999973  333331   111110 0000     


Q ss_pred             HHHHhCCCCCCCccHHHHHHHHHHHh--CCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEE--ecchH--HHhh
Q 045152          260 IIEGLGVSASGLSEFESLMKQIQEYI--TRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILIT--TRDRS--VALQ  333 (533)
Q Consensus       260 il~~l~~~~~~~~~~~~l~~~l~~~l--~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiT--tR~~~--v~~~  333 (533)
                                   +.........+.+  .+++.++||||++..+...++.+...+.   .|+.++|+  |.++.  +...
T Consensus        92 -------------dir~~i~~a~~~l~~~~~~~IL~IDEIh~Ln~~qQdaLL~~lE---~g~IiLI~aTTenp~~~l~~a  155 (725)
T PRK13341         92 -------------DLRAEVDRAKERLERHGKRTILFIDEVHRFNKAQQDALLPWVE---NGTITLIGATTENPYFEVNKA  155 (725)
T ss_pred             -------------HHHHHHHHHHHHhhhcCCceEEEEeChhhCCHHHHHHHHHHhc---CceEEEEEecCCChHhhhhhH
Confidence                         1111111221212  2467799999998765555555554443   34555553  44432  2111


Q ss_pred             -hCCCCeeeCCCCChHhhHHHHHHhhccCC---CccccccchHHHHHHHhHhCCCcc
Q 045152          334 -LGSIDIIPVKELAEEECWSLLERLAFFRR---SVDDHEKLEPIGRKIAHKCKGLPL  386 (533)
Q Consensus       334 -~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~---~~~~~~~l~~~~~~I~~~c~GlPL  386 (533)
                       ......+.+++|+.++...++.+.+-...   ......--.+....|++.+.|.-.
T Consensus       156 L~SR~~v~~l~pLs~edi~~IL~~~l~~~~~~~g~~~v~I~deaL~~La~~s~GD~R  212 (725)
T PRK13341        156 LVSRSRLFRLKSLSDEDLHQLLKRALQDKERGYGDRKVDLEPEAEKHLVDVANGDAR  212 (725)
T ss_pred             hhccccceecCCCCHHHHHHHHHHHHHHHHhhcCCcccCCCHHHHHHHHHhCCCCHH
Confidence             12246799999999999999987653100   000111124455777777777644

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=98.43  E-value=3.5e-06  Score=88.17  Aligned_cols=193  Identities=17%  Similarity=0.166  Sum_probs=109.6

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCc-eEEEEeCCchhHHHHHHHHH
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEK-VIWVCVSDTFEEIRVAKAII  261 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~-~~wv~vs~~~~~~~l~~~il  261 (533)
                      +++|-+.-+..+...+...     .-...+.++|+.|+||||+|+.+.+...-...... ..+..+...    .....+.
T Consensus        22 dliGq~~vv~~L~~ai~~~-----ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~C----~~C~~i~   92 (507)
T PRK06645         22 ELQGQEVLVKVLSYTILND-----RLAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQC----TNCISFN   92 (507)
T ss_pred             HhcCcHHHHHHHHHHHHcC-----CCCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCCC----hHHHHHh
Confidence            5789988888888777432     23467889999999999999999763211110000 000000000    0000010


Q ss_pred             HHhC-----CCCCCCccHHHHHHHHHHH----hCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEE-EecchHHH
Q 045152          262 EGLG-----VSASGLSEFESLMKQIQEY----ITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILI-TTRDRSVA  331 (533)
Q Consensus       262 ~~l~-----~~~~~~~~~~~l~~~l~~~----l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~Iii-TtR~~~v~  331 (533)
                      ....     .........+++...+...    ..+++-++|+|+++..+...++.|...+......+.+|+ ||+...+.
T Consensus        93 ~~~h~Dv~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte~~kI~  172 (507)
T PRK06645         93 NHNHPDIIEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQKIP  172 (507)
T ss_pred             cCCCCcEEEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCChHHhh
Confidence            0000     0000011122222222211    245677899999988766778888887776555666655 44544544


Q ss_pred             hhh-CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchh
Q 045152          332 LQL-GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAA  388 (533)
Q Consensus       332 ~~~-~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai  388 (533)
                      ..+ .....+++.+++.++....+.+.+...+.    .--.+....|++.++|.+.-+
T Consensus       173 ~tI~SRc~~~ef~~ls~~el~~~L~~i~~~egi----~ie~eAL~~Ia~~s~GslR~a  226 (507)
T PRK06645        173 ATIISRCQRYDLRRLSFEEIFKLLEYITKQENL----KTDIEALRIIAYKSEGSARDA  226 (507)
T ss_pred             HHHHhcceEEEccCCCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCCHHHH
Confidence            333 23567899999999999999887742111    112345577888898877544

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.43  E-value=3.8e-06  Score=88.48  Aligned_cols=177  Identities=20%  Similarity=0.220  Sum_probs=106.6

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhh-------------------hccCCceE
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEV-------------------KRNFEKVI  243 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~-------------------~~~F~~~~  243 (533)
                      +++|-+..++.+...+...     .-...+.++|+.|+||||+|+.+.+...-                   ...|...+
T Consensus        17 diiGq~~~v~~L~~~i~~~-----rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~~~~dli   91 (546)
T PRK14957         17 EVAGQQHALNSLVHALETQ-----KVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNNSFIDLI   91 (546)
T ss_pred             HhcCcHHHHHHHHHHHHcC-----CCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcCCCCceE
Confidence            6889999999999888532     23456789999999999999888752110                   00122222


Q ss_pred             EEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHH-hCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEE
Q 045152          244 WVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEY-ITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKIL  322 (533)
Q Consensus       244 wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~-l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~Ii  322 (533)
                      ++.......+.                  +...+...+... ..+++-++|+|+++..+...++.|...+......+.+|
T Consensus        92 eidaas~~gvd------------------~ir~ii~~~~~~p~~g~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~fI  153 (546)
T PRK14957         92 EIDAASRTGVE------------------ETKEILDNIQYMPSQGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFI  153 (546)
T ss_pred             EeecccccCHH------------------HHHHHHHHHHhhhhcCCcEEEEEechhhccHHHHHHHHHHHhcCCCCceEE
Confidence            33221111111                  112222222211 23566799999998877667778888887665566666


Q ss_pred             EEecc-hHHHhh-hCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcc
Q 045152          323 ITTRD-RSVALQ-LGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPL  386 (533)
Q Consensus       323 iTtR~-~~v~~~-~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPL  386 (533)
                      ++|.+ ..+... ......+++++++.++....+.+.+-..+    ...-......|++.++|.+.
T Consensus       154 L~Ttd~~kil~tI~SRc~~~~f~~Ls~~eI~~~L~~il~~eg----i~~e~~Al~~Ia~~s~GdlR  215 (546)
T PRK14957        154 LATTDYHKIPVTILSRCIQLHLKHISQADIKDQLKIILAKEN----INSDEQSLEYIAYHAKGSLR  215 (546)
T ss_pred             EEECChhhhhhhHHHheeeEEeCCCCHHHHHHHHHHHHHHcC----CCCCHHHHHHHHHHcCCCHH
Confidence            55443 333322 23357899999999998888776542111    11123445667788888654

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=98.43  E-value=5.9e-07  Score=89.16  Aligned_cols=101  Identities=16%  Similarity=0.079  Sum_probs=67.2

Q ss_pred             HHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCch--hHHHHHHHHHHHhCCCCCC
Q 045152          193 ELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTF--EEIRVAKAIIEGLGVSASG  270 (533)
Q Consensus       193 ~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~--~~~~l~~~il~~l~~~~~~  270 (533)
                      ++++.+..-     +.....+|+|++|+||||||+.+|++.... +|+.++||.+++..  ++.++++.+...+-....+
T Consensus       158 rvID~l~PI-----GkGQR~lIvgppGvGKTTLaK~Ian~I~~n-hFDv~~~VvLIgER~~EVtdiqrsIlg~vv~st~d  231 (416)
T PRK09376        158 RIIDLIAPI-----GKGQRGLIVAPPKAGKTVLLQNIANSITTN-HPEVHLIVLLIDERPEEVTDMQRSVKGEVVASTFD  231 (416)
T ss_pred             eeeeeeccc-----ccCceEEEeCCCCCChhHHHHHHHHHHHhh-cCCeEEEEEEeCCchhHHHHHHHHhcCcEEEECCC
Confidence            455555432     355678999999999999999999975444 89999999999887  7888888886322212111


Q ss_pred             CccH------HHHHHHHHHH-hCCceEEEEEeCCCC
Q 045152          271 LSEF------ESLMKQIQEY-ITRKKFFLVLDDVWD  299 (533)
Q Consensus       271 ~~~~------~~l~~~l~~~-l~~kr~LlVLDdv~~  299 (533)
                      ....      ......-+.. -.++.++|++|++..
T Consensus       232 ~~~~~~~~~a~~~ie~Ae~~~e~G~dVlL~iDsItR  267 (416)
T PRK09376        232 EPAERHVQVAEMVIEKAKRLVEHGKDVVILLDSITR  267 (416)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEEChHH
Confidence            1111      1111112222 267999999999953

>PRK04195 replication factor C large subunit; Provisional

Probab=98.42  E-value=2e-06  Score=90.82  Aligned_cols=180  Identities=22%  Similarity=0.221  Sum_probs=106.5

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAII  261 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il  261 (533)
                      .+++|.++.++.+.+|+.....  ....+.+.|+|++|+||||+|+.+.+..    .|+ .+-++.++..+.. ....++
T Consensus        14 ~dlvg~~~~~~~l~~~l~~~~~--g~~~~~lLL~GppG~GKTtla~ala~el----~~~-~ielnasd~r~~~-~i~~~i   85 (482)
T PRK04195         14 SDVVGNEKAKEQLREWIESWLK--GKPKKALLLYGPPGVGKTSLAHALANDY----GWE-VIELNASDQRTAD-VIERVA   85 (482)
T ss_pred             HHhcCCHHHHHHHHHHHHHHhc--CCCCCeEEEECCCCCCHHHHHHHHHHHc----CCC-EEEEcccccccHH-HHHHHH
Confidence            3589999999999999864431  1236789999999999999999998742    232 2333444332222 222222


Q ss_pred             HHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCc----cccchhhhcccCCCCCceEEEEecchH-HHh-hh-
Q 045152          262 EGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDY----KKWNPFFSCLKNGHHESKILITTRDRS-VAL-QL-  334 (533)
Q Consensus       262 ~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~----~~~~~l~~~l~~~~~gs~IiiTtR~~~-v~~-~~-  334 (533)
                      .......              .....++-+||||+++....    ..+..+...+..  .+..||+|+.+.. ... .+ 
T Consensus        86 ~~~~~~~--------------sl~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~~--~~~~iIli~n~~~~~~~k~Lr  149 (482)
T PRK04195         86 GEAATSG--------------SLFGARRKLILLDEVDGIHGNEDRGGARAILELIKK--AKQPIILTANDPYDPSLRELR  149 (482)
T ss_pred             HHhhccC--------------cccCCCCeEEEEecCcccccccchhHHHHHHHHHHc--CCCCEEEeccCccccchhhHh
Confidence            2211100              00113677999999976432    224445554442  2345666665421 111 11 


Q ss_pred             CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhH
Q 045152          335 GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAK  389 (533)
Q Consensus       335 ~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~  389 (533)
                      .....+.+.+++.++....+.+.+...+. ..   -.+....|++.++|-...+.
T Consensus       150 sr~~~I~f~~~~~~~i~~~L~~i~~~egi-~i---~~eaL~~Ia~~s~GDlR~ai  200 (482)
T PRK04195        150 NACLMIEFKRLSTRSIVPVLKRICRKEGI-EC---DDEALKEIAERSGGDLRSAI  200 (482)
T ss_pred             ccceEEEecCCCHHHHHHHHHHHHHHcCC-CC---CHHHHHHHHHHcCCCHHHHH
Confidence            23567899999999998888876642211 11   13556778888888665544

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=98.42  E-value=2.4e-06  Score=91.31  Aligned_cols=192  Identities=19%  Similarity=0.205  Sum_probs=109.7

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAII  261 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il  261 (533)
                      .++||-+.-++.|...+...     .-...+.++|+.|+||||+|+.+.+...-...+.       ..+...-...+.|.
T Consensus        16 ~divGQe~vv~~L~~~l~~~-----rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~-------~~pCg~C~~C~~i~   83 (647)
T PRK07994         16 AEVVGQEHVLTALANALDLG-----RLHHAYLFSGTRGVGKTTIARLLAKGLNCETGIT-------ATPCGECDNCREIE   83 (647)
T ss_pred             HHhcCcHHHHHHHHHHHHcC-----CCCeEEEEECCCCCCHHHHHHHHHHhhhhccCCC-------CCCCCCCHHHHHHH
Confidence            36899998888888888532     2235578999999999999998876311110000       00000001111111


Q ss_pred             HH-------hCCC-CCCCccHHHHHHHHHHH-hCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecc-hHHH
Q 045152          262 EG-------LGVS-ASGLSEFESLMKQIQEY-ITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRD-RSVA  331 (533)
Q Consensus       262 ~~-------l~~~-~~~~~~~~~l~~~l~~~-l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~-~~v~  331 (533)
                      ..       +... .....+..++...+... ..+++-++|||+++..+....+.|+..+.......++|++|.+ ..+.
T Consensus        84 ~g~~~D~ieidaas~~~VddiR~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~kLl  163 (647)
T PRK07994         84 QGRFVDLIEIDAASRTKVEDTRELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLP  163 (647)
T ss_pred             cCCCCCceeecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccccc
Confidence            00       0000 00111122222222211 2456779999999888777788888877765556666655544 4443


Q ss_pred             h-hhCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhH
Q 045152          332 L-QLGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAK  389 (533)
Q Consensus       332 ~-~~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~  389 (533)
                      . .......|++++++.++....+.+.+-..+    ...-......|++.++|.+.-+.
T Consensus       164 ~TI~SRC~~~~f~~Ls~~ei~~~L~~il~~e~----i~~e~~aL~~Ia~~s~Gs~R~Al  218 (647)
T PRK07994        164 VTILSRCLQFHLKALDVEQIRQQLEHILQAEQ----IPFEPRALQLLARAADGSMRDAL  218 (647)
T ss_pred             hHHHhhheEeeCCCCCHHHHHHHHHHHHHHcC----CCCCHHHHHHHHHHcCCCHHHHH
Confidence            2 223367899999999999998887652111    11123445678888999776443

>PRK08727 hypothetical protein; Validated

Probab=98.38  E-value=8.3e-06  Score=77.43  Aligned_cols=148  Identities=16%  Similarity=0.091  Sum_probs=88.1

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCce
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKK  289 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr  289 (533)
                      ..+.|+|..|+|||.|++.+++.  .......+.|+++.+      ....+.                 ..+ +.+ .+.
T Consensus        42 ~~l~l~G~~G~GKThL~~a~~~~--~~~~~~~~~y~~~~~------~~~~~~-----------------~~~-~~l-~~~   94 (233)
T PRK08727         42 DWLYLSGPAGTGKTHLALALCAA--AEQAGRSSAYLPLQA------AAGRLR-----------------DAL-EAL-EGR   94 (233)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEEeHHH------hhhhHH-----------------HHH-HHH-hcC
Confidence            45999999999999999999874  333333556665322      111111                 011 111 123


Q ss_pred             EEEEEeCCCCCCc-cccch-hhhcccC-CCCCceEEEEecch---------HHHhhhCCCCeeeCCCCChHhhHHHHHHh
Q 045152          290 FFLVLDDVWDGDY-KKWNP-FFSCLKN-GHHESKILITTRDR---------SVALQLGSIDIIPVKELAEEECWSLLERL  357 (533)
Q Consensus       290 ~LlVLDdv~~~~~-~~~~~-l~~~l~~-~~~gs~IiiTtR~~---------~v~~~~~~~~~~~l~~L~~~~~~~Lf~~~  357 (533)
                      -+|||||+..... ..|.. +...+.. ...|..||+|++..         ++...+.....+++++++.++-.+++.+.
T Consensus        95 dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~~~~dL~SRl~~~~~~~l~~~~~e~~~~iL~~~  174 (233)
T PRK08727         95 SLVALDGLESIAGQREDEVALFDFHNRARAAGITLLYTARQMPDGLALVLPDLRSRLAQCIRIGLPVLDDVARAAVLRER  174 (233)
T ss_pred             CEEEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECCCChhhhhhhhHHHHHHHhcCceEEecCCCHHHHHHHHHHH
Confidence            4899999964321 22332 3332221 12456699998752         22233334568899999999999999987


Q ss_pred             hccCCCccccccchHHHHHHHhHhCCCcchh
Q 045152          358 AFFRRSVDDHEKLEPIGRKIAHKCKGLPLAA  388 (533)
Q Consensus       358 a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai  388 (533)
                      +... ..   .--++....|++.+.|-.-.+
T Consensus       175 a~~~-~l---~l~~e~~~~La~~~~rd~r~~  201 (233)
T PRK08727        175 AQRR-GL---ALDEAAIDWLLTHGERELAGL  201 (233)
T ss_pred             HHHc-CC---CCCHHHHHHHHHhCCCCHHHH
Confidence            7522 11   122456677888888766554

>PLN03210 Resistant to P

Probab=98.38  E-value=3.9e-07  Score=106.12  Aligned_cols=86  Identities=29%  Similarity=0.568  Sum_probs=66.9

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcce
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKE  499 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~  499 (533)
                      +++|+.|.+++|..+..+|. +..+++|+.|++.+|.++..+|  ..++.|++|+.|++++|+++..+|.++ ++++|++
T Consensus       633 l~~Lk~L~Ls~~~~l~~ip~-ls~l~~Le~L~L~~c~~L~~lp--~si~~L~~L~~L~L~~c~~L~~Lp~~i-~l~sL~~  708 (1153)
T PLN03210        633 LTGLRNIDLRGSKNLKEIPD-LSMATNLETLKLSDCSSLVELP--SSIQYLNKLEDLDMSRCENLEILPTGI-NLKSLYR  708 (1153)
T ss_pred             CCCCCEEECCCCCCcCcCCc-cccCCcccEEEecCCCCccccc--hhhhccCCCCEEeCCCCCCcCccCCcC-CCCCCCE
Confidence            55677777777777777774 6667888888888888888888  677888888888888888888888766 6788888


Q ss_pred             eeccCCchhH
Q 045152          500 LGMEGSPLLE  509 (533)
Q Consensus       500 L~~~~c~~l~  509 (533)
                      |++++|+.+.
T Consensus       709 L~Lsgc~~L~  718 (1153)
T PLN03210        709 LNLSGCSRLK  718 (1153)
T ss_pred             EeCCCCCCcc
Confidence            8888886543

syringae 6; Provisional

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=98.38  E-value=1.2e-05  Score=81.73  Aligned_cols=181  Identities=13%  Similarity=0.155  Sum_probs=107.8

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhh--------------------ccCCce
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVK--------------------RNFEKV  242 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~--------------------~~F~~~  242 (533)
                      +++|.+..++.+.+++...     .-...+.++|++|+||||+|+.+.....-.                    .+++. 
T Consensus        15 ~iig~~~~~~~l~~~~~~~-----~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~~~-   88 (355)
T TIGR02397        15 DVIGQEHIVQTLKNAIKNG-----RIAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEINSGSSLDV-   88 (355)
T ss_pred             hccCcHHHHHHHHHHHHcC-----CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCCE-
Confidence            5799999999999988533     234578899999999999998876531100                    02221 


Q ss_pred             EEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHH-hCCceEEEEEeCCCCCCccccchhhhcccCCCCCceE
Q 045152          243 IWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEY-ITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKI  321 (533)
Q Consensus       243 ~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~-l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~I  321 (533)
                      +++..+......                  +...+.+.+... ..+++-++|+|++...+......+...+......+.+
T Consensus        89 ~~~~~~~~~~~~------------------~~~~l~~~~~~~p~~~~~~vviidea~~l~~~~~~~Ll~~le~~~~~~~l  150 (355)
T TIGR02397        89 IEIDAASNNGVD------------------DIREILDNVKYAPSSGKYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVVF  150 (355)
T ss_pred             EEeeccccCCHH------------------HHHHHHHHHhcCcccCCceEEEEeChhhcCHHHHHHHHHHHhCCccceeE
Confidence            222211111110                  111122211111 1245558899999665544566677777555556667


Q ss_pred             EEEecchH-HHhhh-CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHHH
Q 045152          322 LITTRDRS-VALQL-GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVI  391 (533)
Q Consensus       322 iiTtR~~~-v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~  391 (533)
                      |++|.+.. +...+ .....+++.+++.++...++...+-..+ .   .--.+....+++.++|.|..+...
T Consensus       151 Il~~~~~~~l~~~l~sr~~~~~~~~~~~~~l~~~l~~~~~~~g-~---~i~~~a~~~l~~~~~g~~~~a~~~  218 (355)
T TIGR02397       151 ILATTEPHKIPATILSRCQRFDFKRIPLEDIVERLKKILDKEG-I---KIEDEALELIARAADGSLRDALSL  218 (355)
T ss_pred             EEEeCCHHHHHHHHHhheeEEEcCCCCHHHHHHHHHHHHHHcC-C---CCCHHHHHHHHHHcCCChHHHHHH
Confidence            77765543 22222 2345788999999999888887663111 1   111456788899999988765443

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

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.38  E-value=4.5e-06  Score=89.07  Aligned_cols=196  Identities=15%  Similarity=0.175  Sum_probs=107.9

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhcc--CCceEEEEeCCchhHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRN--FEKVIWVCVSDTFEEIRVAKA  259 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~--F~~~~wv~vs~~~~~~~l~~~  259 (533)
                      .++||-+.-+..|..++...     .-...+.++|+.|+||||+|+.+.+...-...  ......    ...+.-...+.
T Consensus        16 ~dviGQe~vv~~L~~~l~~~-----rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~----~pCg~C~~C~~   86 (618)
T PRK14951         16 SEMVGQEHVVQALTNALTQQ-----RLHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITA----TPCGVCQACRD   86 (618)
T ss_pred             HHhcCcHHHHHHHHHHHHcC-----CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCC----CCCCccHHHHH
Confidence            36899888888888888543     23467789999999999999888542100000  000000    00000011111


Q ss_pred             HHHHh-----CCCCCCCccHHHHHHHHHHH----hCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecc-hH
Q 045152          260 IIEGL-----GVSASGLSEFESLMKQIQEY----ITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRD-RS  329 (533)
Q Consensus       260 il~~l-----~~~~~~~~~~~~l~~~l~~~----l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~-~~  329 (533)
                      |...-     ..........+++.+.+...    ..++.-++|||+++..+...++.++..+......+.+|++|.+ ..
T Consensus        87 i~~g~h~D~~eldaas~~~Vd~iReli~~~~~~p~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd~~k  166 (618)
T PRK14951         87 IDSGRFVDYTELDAASNRGVDEVQQLLEQAVYKPVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDPQK  166 (618)
T ss_pred             HHcCCCCceeecCcccccCHHHHHHHHHHHHhCcccCCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECCchh
Confidence            10000     00000011122222222211    1244558999999888777788888777665556666655543 33


Q ss_pred             HHh-hhCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHH
Q 045152          330 VAL-QLGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKV  390 (533)
Q Consensus       330 v~~-~~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~  390 (533)
                      +.. .......+++++++.++....+.+.+...+-    ..-.+....|++.++|.+.-+..
T Consensus       167 il~TIlSRc~~~~f~~Ls~eei~~~L~~i~~~egi----~ie~~AL~~La~~s~GslR~al~  224 (618)
T PRK14951        167 VPVTVLSRCLQFNLRPMAPETVLEHLTQVLAAENV----PAEPQALRLLARAARGSMRDALS  224 (618)
T ss_pred             hhHHHHHhceeeecCCCCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCCHHHHHH
Confidence            332 2233578999999999999888876531111    11234557788888887755443

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.37  E-value=1.4e-06  Score=89.42  Aligned_cols=194  Identities=16%  Similarity=0.113  Sum_probs=109.2

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHH
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIE  262 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~  262 (533)
                      +++|-+.-+..|..++...     .-...+.++|+.|+||||+|+.+.+...- .+...  ...+....+-..+...+..
T Consensus        19 dvVGQe~iv~~L~~~i~~~-----ri~ha~Lf~GP~GtGKTTlAriLAk~Lnc-e~~~~--~~pCg~C~sC~~i~~g~~~   90 (484)
T PRK14956         19 DVIHQDLAIGALQNALKSG-----KIGHAYIFFGPRGVGKTTIARILAKRLNC-ENPIG--NEPCNECTSCLEITKGISS   90 (484)
T ss_pred             HHhChHHHHHHHHHHHHcC-----CCCeEEEEECCCCCCHHHHHHHHHHhcCc-ccccC--ccccCCCcHHHHHHccCCc
Confidence            5899888888888888532     12356899999999999999999763111 11000  0000001111111111000


Q ss_pred             Hh---CC-CCCCCccHHHHHHHHHHH-hCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEe-cchHHHhhh-C
Q 045152          263 GL---GV-SASGLSEFESLMKQIQEY-ITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITT-RDRSVALQL-G  335 (533)
Q Consensus       263 ~l---~~-~~~~~~~~~~l~~~l~~~-l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTt-R~~~v~~~~-~  335 (533)
                      .+   .. ......+..++...+... ..++.-++|+|+++..+...++.|+..+........+|++| ....+...+ .
T Consensus        91 dviEIdaas~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~kI~~TI~S  170 (484)
T PRK14956         91 DVLEIDAASNRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIPETILS  170 (484)
T ss_pred             cceeechhhcccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhhccHHHHh
Confidence            00   00 001111222233333221 24566799999998887777888877776544455555444 434443222 3


Q ss_pred             CCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchh
Q 045152          336 SIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAA  388 (533)
Q Consensus       336 ~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai  388 (533)
                      ....|.+.+++.++..+.+.+.+-..+    ..--.+....|++.++|.+.-+
T Consensus       171 RCq~~~f~~ls~~~i~~~L~~i~~~Eg----i~~e~eAL~~Ia~~S~Gd~RdA  219 (484)
T PRK14956        171 RCQDFIFKKVPLSVLQDYSEKLCKIEN----VQYDQEGLFWIAKKGDGSVRDM  219 (484)
T ss_pred             hhheeeecCCCHHHHHHHHHHHHHHcC----CCCCHHHHHHHHHHcCChHHHH
Confidence            356799999999999888887653211    1112455677888888888544

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=98.37  E-value=6.3e-06  Score=78.08  Aligned_cols=153  Identities=16%  Similarity=0.171  Sum_probs=87.5

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCC
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITR  287 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~  287 (533)
                      ....+.|+|..|+|||+||+.+++.. .... ....+++......      .    +                  ... .
T Consensus        41 ~~~~~~l~G~~G~GKT~La~ai~~~~-~~~~-~~~~~i~~~~~~~------~----~------------------~~~-~   89 (227)
T PRK08903         41 ADRFFYLWGEAGSGRSHLLQALVADA-SYGG-RNARYLDAASPLL------A----F------------------DFD-P   89 (227)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHH-HhCC-CcEEEEehHHhHH------H----H------------------hhc-c
Confidence            34678999999999999999998742 1222 2344454322110      0    0                  011 2


Q ss_pred             ceEEEEEeCCCCCCccccchhhhcccCC-CCCc-eEEEEecchHHHh--------hhCCCCeeeCCCCChHhhHHHHHHh
Q 045152          288 KKFFLVLDDVWDGDYKKWNPFFSCLKNG-HHES-KILITTRDRSVAL--------QLGSIDIIPVKELAEEECWSLLERL  357 (533)
Q Consensus       288 kr~LlVLDdv~~~~~~~~~~l~~~l~~~-~~gs-~IiiTtR~~~v~~--------~~~~~~~~~l~~L~~~~~~~Lf~~~  357 (533)
                      ..-++|+||+...+...-..+...+... ..|. .+|+|++......        .+.....+++++++.++-..++.+.
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            2347899999654332223344444321 2334 3666665432211        2222467899999998877777654


Q ss_pred             hccCCCccccccchHHHHHHHhHhCCCcchhHHHHHHh
Q 045152          358 AFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLL  395 (533)
Q Consensus       358 a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~~~~L  395 (533)
                      +- ...   ..--++....+++.+.|++..+..+-..|
T Consensus       170 ~~-~~~---v~l~~~al~~L~~~~~gn~~~l~~~l~~l  203 (227)
T PRK08903        170 AA-ERG---LQLADEVPDYLLTHFRRDMPSLMALLDAL  203 (227)
T ss_pred             HH-HcC---CCCCHHHHHHHHHhccCCHHHHHHHHHHH
Confidence            32 111   11224567788889999998877665444

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.36  E-value=5.6e-06  Score=86.28  Aligned_cols=201  Identities=18%  Similarity=0.186  Sum_probs=112.2

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhcc-------------------CCce
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRN-------------------FEKV  242 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~-------------------F~~~  242 (533)
                      .++||.+.-...|...+...     .-...+.++|++|+||||+|+.+.+...-...                   +...
T Consensus        14 ~divGq~~i~~~L~~~i~~~-----~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~g~~~dv   88 (472)
T PRK14962         14 SEVVGQDHVKKLIINALKKN-----SISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDEGTFMDV   88 (472)
T ss_pred             HHccCcHHHHHHHHHHHHcC-----CCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhcCCCCcc
Confidence            35899888877777777432     23456899999999999999988753111000                   0011


Q ss_pred             EEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHH-HhCCceEEEEEeCCCCCCccccchhhhcccCCCCCceE
Q 045152          243 IWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQE-YITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKI  321 (533)
Q Consensus       243 ~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~-~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~I  321 (533)
                      ..++.+.......                  ...+...+.. ...+++-++|+|+++.......+.+...+........+
T Consensus        89 ~el~aa~~~gid~------------------iR~i~~~~~~~p~~~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~vv~  150 (472)
T PRK14962         89 IELDAASNRGIDE------------------IRKIRDAVGYRPMEGKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVF  150 (472)
T ss_pred             EEEeCcccCCHHH------------------HHHHHHHHhhChhcCCeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEEE
Confidence            2222211111111                  1111111111 12346679999999765544556666666554444544


Q ss_pred             EEEecc-hHHHhhh-CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCC-CcchhHHHHHHhhc-
Q 045152          322 LITTRD-RSVALQL-GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKG-LPLAAKVIWNLLRS-  397 (533)
Q Consensus       322 iiTtR~-~~v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~G-lPLai~~~~~~L~~-  397 (533)
                      |++|.+ ..+...+ .....+.+.+++.++....+.+.+...+-    .--.+....|++.++| ++.++..+-.+... 
T Consensus       151 Ilattn~~kl~~~L~SR~~vv~f~~l~~~el~~~L~~i~~~egi----~i~~eal~~Ia~~s~GdlR~aln~Le~l~~~~  226 (472)
T PRK14962        151 VLATTNLEKVPPTIISRCQVIEFRNISDELIIKRLQEVAEAEGI----EIDREALSFIAKRASGGLRDALTMLEQVWKFS  226 (472)
T ss_pred             EEEeCChHhhhHHHhcCcEEEEECCccHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHhCCCHHHHHHHHHHHHHhc
Confidence            444443 3343322 23567899999999998888877632111    1124456778887765 46666666554332 


Q ss_pred             --ccchHHHHHHHh
Q 045152          398 --KSTVKEWQRILD  409 (533)
Q Consensus       398 --~~~~~~w~~~l~  409 (533)
                        +-+.+....++.
T Consensus       227 ~~~It~e~V~~~l~  240 (472)
T PRK14962        227 EGKITLETVHEALG  240 (472)
T ss_pred             CCCCCHHHHHHHHc
Confidence              125555555543

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.36  E-value=4.6e-06  Score=86.61  Aligned_cols=181  Identities=20%  Similarity=0.178  Sum_probs=109.5

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcch------------------hhh-ccCCce
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNND------------------EVK-RNFEKV  242 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~------------------~~~-~~F~~~  242 (533)
                      .++||-+..++.+...+..+     .-...+.++|+.|+||||+|+.+...-                  .+. ..+.-+
T Consensus        13 ~dliGQe~vv~~L~~a~~~~-----ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~Dv   87 (491)
T PRK14964         13 KDLVGQDVLVRILRNAFTLN-----KIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHPDV   87 (491)
T ss_pred             HHhcCcHHHHHHHHHHHHcC-----CCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCCCE
Confidence            36899888888888777432     234578999999999999998886410                  000 112223


Q ss_pred             EEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEE
Q 045152          243 IWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKIL  322 (533)
Q Consensus       243 ~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~Ii  322 (533)
                      +.++.+....+.+ .+++++.....                -..+++-++|+|+++..+....+.|...+....+.+.+|
T Consensus        88 ~eidaas~~~vdd-IR~Iie~~~~~----------------P~~~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fI  150 (491)
T PRK14964         88 IEIDAASNTSVDD-IKVILENSCYL----------------PISSKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFI  150 (491)
T ss_pred             EEEecccCCCHHH-HHHHHHHHHhc----------------cccCCceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEE
Confidence            3333332222222 11222211100                013456689999997766666777888877666667666


Q ss_pred             EEec-chHHHhhh-CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchh
Q 045152          323 ITTR-DRSVALQL-GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAA  388 (533)
Q Consensus       323 iTtR-~~~v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai  388 (533)
                      ++|. ...+...+ .....+++.+++.++....+.+.+...+.    .--.+....|++.++|.+..+
T Consensus       151 latte~~Kl~~tI~SRc~~~~f~~l~~~el~~~L~~ia~~Egi----~i~~eAL~lIa~~s~GslR~a  214 (491)
T PRK14964        151 LATTEVKKIPVTIISRCQRFDLQKIPTDKLVEHLVDIAKKENI----EHDEESLKLIAENSSGSMRNA  214 (491)
T ss_pred             EEeCChHHHHHHHHHhheeeecccccHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCCHHHH
Confidence            6554 34443322 33577899999999999888887642111    112344577888888877543

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.34  E-value=4.6e-06  Score=87.81  Aligned_cols=183  Identities=15%  Similarity=0.136  Sum_probs=108.3

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhh-------------------ccCCce
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVK-------------------RNFEKV  242 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~-------------------~~F~~~  242 (533)
                      .++||-+.-++.|..++...     .-...+.++|+.|+||||+|+.+.+...-.                   ..|.-+
T Consensus        16 ~divGq~~v~~~L~~~~~~~-----~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~g~~~d~   90 (509)
T PRK14958         16 QEVIGQAPVVRALSNALDQQ-----YLHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCREIDEGRFPDL   90 (509)
T ss_pred             HHhcCCHHHHHHHHHHHHhC-----CCCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHHhcCCCceE
Confidence            36899999999999999533     234567899999999999998886531111                   111112


Q ss_pred             EEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEE
Q 045152          243 IWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKIL  322 (533)
Q Consensus       243 ~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~Ii  322 (533)
                      +.++.+....+.++ +++++.+..                .-..++.-++|+|+++..+....+.+...+......+++|
T Consensus        91 ~eidaas~~~v~~i-R~l~~~~~~----------------~p~~~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~fI  153 (509)
T PRK14958         91 FEVDAASRTKVEDT-RELLDNIPY----------------APTKGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFI  153 (509)
T ss_pred             EEEcccccCCHHHH-HHHHHHHhh----------------ccccCCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEEE
Confidence            23322222222211 122221111                0113456689999998877667777877777665667777


Q ss_pred             EEecc-hHHHhh-hCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHH
Q 045152          323 ITTRD-RSVALQ-LGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKV  390 (533)
Q Consensus       323 iTtR~-~~v~~~-~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~  390 (533)
                      ++|.+ ..+... ......+++++++.++....+.+.+-..+-    .--.+....|++.++|.+.-+..
T Consensus       154 lattd~~kl~~tI~SRc~~~~f~~l~~~~i~~~l~~il~~egi----~~~~~al~~ia~~s~GslR~al~  219 (509)
T PRK14958        154 LATTDHHKLPVTVLSRCLQFHLAQLPPLQIAAHCQHLLKEENV----EFENAALDLLARAANGSVRDALS  219 (509)
T ss_pred             EEECChHhchHHHHHHhhhhhcCCCCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCcHHHHHH
Confidence            66544 333222 222567889999999887776665431111    11133456788888887765433

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

Probab=98.34  E-value=1.4e-05  Score=76.88  Aligned_cols=198  Identities=19%  Similarity=0.203  Sum_probs=119.4

Q ss_pred             hHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhc----cCCceEEEEeCCchhHHHHHHHHHHHhC
Q 045152          190 EKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKR----NFEKVIWVCVSDTFEEIRVAKAIIEGLG  265 (533)
Q Consensus       190 e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~----~F~~~~wv~vs~~~~~~~l~~~il~~l~  265 (533)
                      -++++.+.|...   .......+.|||.+|.|||++++++....-...    .--.++.|.+....+...++..|+.+++
T Consensus        45 ~L~~L~~Ll~~P---~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~lg  121 (302)
T PF05621_consen   45 ALDRLEELLEYP---KRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSAILEALG  121 (302)
T ss_pred             HHHHHHHHHhCC---cccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHHHHHHhC
Confidence            345666656443   346678899999999999999999886421111    1115777888889999999999999999


Q ss_pred             CCCCCCccHHHHHHHHHHHhCC-ceEEEEEeCCCCC---Cccccchh---hhcccCCCCCceEEEEecchHHHhh-----
Q 045152          266 VSASGLSEFESLMKQIQEYITR-KKFFLVLDDVWDG---DYKKWNPF---FSCLKNGHHESKILITTRDRSVALQ-----  333 (533)
Q Consensus       266 ~~~~~~~~~~~l~~~l~~~l~~-kr~LlVLDdv~~~---~~~~~~~l---~~~l~~~~~gs~IiiTtR~~~v~~~-----  333 (533)
                      .+.........+.......++. +--+||+|++++.   ....-..+   ...+.+...=+-|.+-|+...-+-.     
T Consensus       122 aP~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~~A~~al~~D~QL  201 (302)
T PF05621_consen  122 APYRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTREAYRALRTDPQL  201 (302)
T ss_pred             cccCCCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccHHHHHHhccCHHH
Confidence            8766666666666666566644 4558999999763   11111122   2333333334445555554322211     


Q ss_pred             hCCCCeeeCCCCChHh-hHHHHHHhhcc-CCCccccccchHHHHHHHhHhCCCcchhHH
Q 045152          334 LGSIDIIPVKELAEEE-CWSLLERLAFF-RRSVDDHEKLEPIGRKIAHKCKGLPLAAKV  390 (533)
Q Consensus       334 ~~~~~~~~l~~L~~~~-~~~Lf~~~a~~-~~~~~~~~~l~~~~~~I~~~c~GlPLai~~  390 (533)
                      .+....+.++....++ ...|+...... .-.....-...+++..|...++|+.--+..
T Consensus       202 a~RF~~~~Lp~W~~d~ef~~LL~s~e~~LPLr~~S~l~~~~la~~i~~~s~G~iG~l~~  260 (302)
T PF05621_consen  202 ASRFEPFELPRWELDEEFRRLLASFERALPLRKPSNLASPELARRIHERSEGLIGELSR  260 (302)
T ss_pred             HhccCCccCCCCCCCcHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHcCCchHHHHH
Confidence            1124567777766554 34444322110 111122233478899999999998755443

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

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=98.33  E-value=5e-06  Score=88.72  Aligned_cols=179  Identities=15%  Similarity=0.182  Sum_probs=107.7

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhcc-------------------CCce
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRN-------------------FEKV  242 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~-------------------F~~~  242 (533)
                      .+++|.+..+..|..++...     .-...+.++|+.|+||||+|+.+.+...-...                   |.-.
T Consensus        16 ddIIGQe~vv~~L~~ai~~~-----rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~~~pCg~C~sCr~i~~g~~~Dv   90 (709)
T PRK08691         16 ADLVGQEHVVKALQNALDEG-----RLHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVCQSCTQIDAGRYVDL   90 (709)
T ss_pred             HHHcCcHHHHHHHHHHHHcC-----CCCeEEEEECCCCCcHHHHHHHHHHHhcccCCCCCCCCcccHHHHHHhccCccce
Confidence            36899999999999998533     23467899999999999999888653110000                   1111


Q ss_pred             EEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHH----HhCCceEEEEEeCCCCCCccccchhhhcccCCCCC
Q 045152          243 IWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQE----YITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHE  318 (533)
Q Consensus       243 ~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~----~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~g  318 (533)
                      +.+..+...                     ..+.+...+..    -..+++-++|||+++..+......|+..+......
T Consensus        91 lEidaAs~~---------------------gVd~IRelle~a~~~P~~gk~KVIIIDEad~Ls~~A~NALLKtLEEPp~~  149 (709)
T PRK08691         91 LEIDAASNT---------------------GIDNIREVLENAQYAPTAGKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEH  149 (709)
T ss_pred             EEEeccccC---------------------CHHHHHHHHHHHHhhhhhCCcEEEEEECccccCHHHHHHHHHHHHhCCCC
Confidence            122211111                     11222222211    12346678999999776555566677777654455


Q ss_pred             ceEEEEecch-HHHh-hhCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHH
Q 045152          319 SKILITTRDR-SVAL-QLGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKV  390 (533)
Q Consensus       319 s~IiiTtR~~-~v~~-~~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~  390 (533)
                      +++|++|.+. .+.. ..+....+.+.+++.++....+.+.+-..+    ..--.+....|++.++|.+.-+..
T Consensus       150 v~fILaTtd~~kL~~TIrSRC~~f~f~~Ls~eeI~~~L~~Il~kEg----i~id~eAL~~Ia~~A~GslRdAln  219 (709)
T PRK08691        150 VKFILATTDPHKVPVTVLSRCLQFVLRNMTAQQVADHLAHVLDSEK----IAYEPPALQLLGRAAAGSMRDALS  219 (709)
T ss_pred             cEEEEEeCCccccchHHHHHHhhhhcCCCCHHHHHHHHHHHHHHcC----CCcCHHHHHHHHHHhCCCHHHHHH
Confidence            6677766543 2221 123345688899999999998887663211    111234568889999998865443

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=98.32  E-value=9.8e-06  Score=81.29  Aligned_cols=194  Identities=17%  Similarity=0.181  Sum_probs=114.4

Q ss_pred             CCceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhcc----CCceEEEEeCCchhHHHH
Q 045152          181 EGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRN----FEKVIWVCVSDTFEEIRV  256 (533)
Q Consensus       181 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~----F~~~~wv~vs~~~~~~~l  256 (533)
                      -..++|-++..+.+...+..+     .-...+.|+|+.|+||||+|..+.+.  +-.+    +.....   .........
T Consensus        22 ~~~l~Gh~~a~~~L~~a~~~g-----rl~ha~L~~G~~G~GKttlA~~lA~~--Llc~~~~~~~~~~~---~~~~~~c~~   91 (351)
T PRK09112         22 NTRLFGHEEAEAFLAQAYREG-----KLHHALLFEGPEGIGKATLAFHLANH--ILSHPDPAEAPETL---ADPDPASPV   91 (351)
T ss_pred             hhhccCcHHHHHHHHHHHHcC-----CCCeeEeeECCCCCCHHHHHHHHHHH--HcCCCccccCcccc---CCCCCCCHH
Confidence            346899999999999988543     23457899999999999999877653  1110    111100   000001112


Q ss_pred             HHHHHHH-------hCCC--C-----CCCccHHHHHHHHHHHh-----CCceEEEEEeCCCCCCccccchhhhcccCCCC
Q 045152          257 AKAIIEG-------LGVS--A-----SGLSEFESLMKQIQEYI-----TRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHH  317 (533)
Q Consensus       257 ~~~il~~-------l~~~--~-----~~~~~~~~l~~~l~~~l-----~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~  317 (533)
                      .+.+...       +..+  .     ......+++. .+.+++     .+++-++|+|+++..+....+.+...+.....
T Consensus        92 c~~i~~~~hPdl~~l~~~~~~~~~~~~~~I~vd~iR-~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LEEpp~  170 (351)
T PRK09112         92 WRQIAQGAHPNLLHITRPFDEKTGKFKTAITVDEIR-RVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEPPA  170 (351)
T ss_pred             HHHHHcCCCCCEEEeecccccccccccccCCHHHHH-HHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHhcCCC
Confidence            2222211       1000  0     0111233332 333333     35667999999988877777777777765544


Q ss_pred             CceEEEEecc-hHHHhhh-CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHHH
Q 045152          318 ESKILITTRD-RSVALQL-GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVI  391 (533)
Q Consensus       318 gs~IiiTtR~-~~v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~  391 (533)
                      ...+|++|.. ..+.... .....+++.+++.++..+++.+...   ...   .-.+....|++.++|.|..+..+
T Consensus       171 ~~~fiLit~~~~~llptIrSRc~~i~l~pl~~~~~~~~L~~~~~---~~~---~~~~~~~~i~~~s~G~pr~Al~l  240 (351)
T PRK09112        171 RALFILISHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHLGS---SQG---SDGEITEALLQRSKGSVRKALLL  240 (351)
T ss_pred             CceEEEEECChhhccHHHHhhccEEEecCCCHHHHHHHHHHhhc---ccC---CCHHHHHHHHHHcCCCHHHHHHH
Confidence            5555554443 3332222 2356899999999999999987432   111   11345678899999999876544

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=98.32  E-value=1.5e-05  Score=73.15  Aligned_cols=91  Identities=15%  Similarity=0.178  Sum_probs=64.4

Q ss_pred             CceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecch-HHHhhh-CCCCeeeCCCCChHhhHHHHHHhhccCCCc
Q 045152          287 RKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDR-SVALQL-GSIDIIPVKELAEEECWSLLERLAFFRRSV  364 (533)
Q Consensus       287 ~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~-~v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~  364 (533)
                      +.+-++|+||++..+....+.+...+......+.+|++|++. .+...+ .....+++.+++.++..+.+.+.   +   
T Consensus        95 ~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~i~sr~~~~~~~~~~~~~~~~~l~~~---g---  168 (188)
T TIGR00678        95 SGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTIRSRCQVLPFPPLSEEALLQWLIRQ---G---  168 (188)
T ss_pred             CCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHHHHhhcEEeeCCCCCHHHHHHHHHHc---C---
Confidence            456789999997766566777887777655667777777653 222222 22468999999999998888775   1   


Q ss_pred             cccccchHHHHHHHhHhCCCcch
Q 045152          365 DDHEKLEPIGRKIAHKCKGLPLA  387 (533)
Q Consensus       365 ~~~~~l~~~~~~I~~~c~GlPLa  387 (533)
                      .    -.+.+..|++.++|.|..
T Consensus       169 i----~~~~~~~i~~~~~g~~r~  187 (188)
T TIGR00678       169 I----SEEAAELLLALAGGSPGA  187 (188)
T ss_pred             C----CHHHHHHHHHHcCCCccc
Confidence            1    145678999999999864

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.

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=98.32  E-value=1.1e-05  Score=82.10  Aligned_cols=180  Identities=13%  Similarity=0.058  Sum_probs=106.9

Q ss_pred             ceeechhhHHHHHHHHhCCCcc----CCCCeEEEEEEcCCCChHHHHHHHHhcchhhh------------------ccCC
Q 045152          183 EVCGRVEEKNELLSKLLCESSE----QQKGLHVISLVGLGGIGKTTLAQLAYNNDEVK------------------RNFE  240 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~----~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~------------------~~F~  240 (533)
                      +++|-+.-++.|...+......    +..-...+.++|+.|+|||++|+.+.+.-.-.                  ..++
T Consensus         6 ~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~~~~Cg~C~~C~~~~~~~hp   85 (394)
T PRK07940          6 DLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPDEPGCGECRACRTVLAGTHP   85 (394)
T ss_pred             hccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCC
Confidence            5889888888899888643210    00135678899999999999998875421000                  0011


Q ss_pred             ceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHH---HHHHH-HhCCceEEEEEeCCCCCCccccchhhhcccCCC
Q 045152          241 KVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLM---KQIQE-YITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGH  316 (533)
Q Consensus       241 ~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~---~~l~~-~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~  316 (533)
                      -..++....                    .....+++.   ..+.. -..+++-++|+|+++..+......+...+....
T Consensus        86 D~~~i~~~~--------------------~~i~i~~iR~l~~~~~~~p~~~~~kViiIDead~m~~~aanaLLk~LEep~  145 (394)
T PRK07940         86 DVRVVAPEG--------------------LSIGVDEVRELVTIAARRPSTGRWRIVVIEDADRLTERAANALLKAVEEPP  145 (394)
T ss_pred             CEEEecccc--------------------ccCCHHHHHHHHHHHHhCcccCCcEEEEEechhhcCHHHHHHHHHHhhcCC
Confidence            111221100                    011122222   11111 112455688889998877666666777776655


Q ss_pred             CCceEEEEecch-HHHhh-hCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHHH
Q 045152          317 HESKILITTRDR-SVALQ-LGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVI  391 (533)
Q Consensus       317 ~gs~IiiTtR~~-~v~~~-~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~  391 (533)
                      .+..+|++|.+. .+... ......+.+.+++.++..+.+.....     .    -.+.+..++..++|.|..+..+
T Consensus       146 ~~~~fIL~a~~~~~llpTIrSRc~~i~f~~~~~~~i~~~L~~~~~-----~----~~~~a~~la~~s~G~~~~A~~l  213 (394)
T PRK07940        146 PRTVWLLCAPSPEDVLPTIRSRCRHVALRTPSVEAVAEVLVRRDG-----V----DPETARRAARASQGHIGRARRL  213 (394)
T ss_pred             CCCeEEEEECChHHChHHHHhhCeEEECCCCCHHHHHHHHHHhcC-----C----CHHHHHHHHHHcCCCHHHHHHH
Confidence            667666666653 33322 23357899999999999888874321     1    1344677899999999765433

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

Probab=98.30  E-value=1.8e-05  Score=79.08  Aligned_cols=204  Identities=12%  Similarity=0.070  Sum_probs=122.4

Q ss_pred             cCCceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHH
Q 045152          180 DEGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKA  259 (533)
Q Consensus       180 ~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~  259 (533)
                      .++.++||+.|+..+.+|+...-  .....+.+-|.|-+|.|||.+...++.+..-...-..+++++...-.....++..
T Consensus       148 ~p~~l~gRe~e~~~v~~F~~~hl--e~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~aiF~k  225 (529)
T KOG2227|consen  148 PPGTLKGRELEMDIVREFFSLHL--ELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEASAIFKK  225 (529)
T ss_pred             CCCCccchHHHHHHHHHHHHhhh--hcccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccchHHHHHH
Confidence            45679999999999999986554  2356788999999999999999999986332222235577776665567788888


Q ss_pred             HHHHhCCCCCCCccHHHHHHHHHHHhCC--ceEEEEEeCCCCCCccccchhhhcccC-CCCCceEEEEecch--HH----
Q 045152          260 IIEGLGVSASGLSEFESLMKQIQEYITR--KKFFLVLDDVWDGDYKKWNPFFSCLKN-GHHESKILITTRDR--SV----  330 (533)
Q Consensus       260 il~~l~~~~~~~~~~~~l~~~l~~~l~~--kr~LlVLDdv~~~~~~~~~~l~~~l~~-~~~gs~IiiTtR~~--~v----  330 (533)
                      |...+...........+....+.....+  .-+|+|||.++.-....-..+...|.+ .-+++|+|+.---.  +.    
T Consensus       226 I~~~~~q~~~s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~vLy~lFewp~lp~sr~iLiGiANslDlTdR~  305 (529)
T KOG2227|consen  226 IFSSLLQDLVSPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTVLYTLFEWPKLPNSRIILIGIANSLDLTDRF  305 (529)
T ss_pred             HHHHHHHHhcCCchhHHHHHHHHHHHhcccceEEEEechhhHHhhcccceeeeehhcccCCcceeeeeeehhhhhHHHHH
Confidence            8877722211111124445555555544  368999999965322222223333332 23456665532211  11    


Q ss_pred             -Hhh---hC-CCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchh
Q 045152          331 -ALQ---LG-SIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAA  388 (533)
Q Consensus       331 -~~~---~~-~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai  388 (533)
                       ...   .+ ....+..+|-+.++-.++|..+.-.   ......+......+++|+.|.-=-+
T Consensus       306 LprL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~---~~t~~~~~~Aie~~ArKvaa~SGDl  365 (529)
T KOG2227|consen  306 LPRLNLDLTIKPKLLVFPPYTKDQIVEILQQRLSE---ESTSIFLNAAIELCARKVAAPSGDL  365 (529)
T ss_pred             hhhhhhccCCCCceeeecCCCHHHHHHHHHHHHhc---ccccccchHHHHHHHHHhccCchhH
Confidence             111   11 1456788899999999999988742   2222223334444555555544333

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=98.30  E-value=1.9e-05  Score=79.72  Aligned_cols=191  Identities=15%  Similarity=0.108  Sum_probs=111.7

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccC--C------ceEEEEeCCchhH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNF--E------KVIWVCVSDTFEE  253 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F--~------~~~wv~vs~~~~~  253 (533)
                      .+++|-++-.+.+.+.+..+     .-...+.++|+.|+||+|+|..+.+.---....  .      ...-+|  ..   
T Consensus        19 ~~iiGq~~~~~~L~~~~~~~-----rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~~l~~~--~~---   88 (365)
T PRK07471         19 TALFGHAAAEAALLDAYRSG-----RLHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPTSLAID--PD---   88 (365)
T ss_pred             hhccChHHHHHHHHHHHHcC-----CCCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccccccCC--CC---
Confidence            46899999999999888543     234578899999999999997665421000000  0      000000  00   


Q ss_pred             HHHHHHHHHHh-------CC---CC----CCCccHHHHHHHHHHHh-----CCceEEEEEeCCCCCCccccchhhhcccC
Q 045152          254 IRVAKAIIEGL-------GV---SA----SGLSEFESLMKQIQEYI-----TRKKFFLVLDDVWDGDYKKWNPFFSCLKN  314 (533)
Q Consensus       254 ~~l~~~il~~l-------~~---~~----~~~~~~~~l~~~l~~~l-----~~kr~LlVLDdv~~~~~~~~~~l~~~l~~  314 (533)
                      ....+.+...-       ..   +.    .....++++. .+.+.+     .+++-++|+||++..+......|...+..
T Consensus        89 c~~c~~i~~~~HPDl~~i~~~~~~~~~~~~~~I~VdqiR-~l~~~~~~~~~~~~~kVviIDead~m~~~aanaLLK~LEe  167 (365)
T PRK07471         89 HPVARRIAAGAHGGLLTLERSWNEKGKRLRTVITVDEVR-ELISFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLEE  167 (365)
T ss_pred             ChHHHHHHccCCCCeEEEecccccccccccccccHHHHH-HHHHHhCcCcccCCCEEEEEechHhcCHHHHHHHHHHHhc
Confidence            00111111000       00   00    0111233322 233333     24567899999988877777788877776


Q ss_pred             CCCCceEEEEecchH-HHhh-hCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHHH
Q 045152          315 GHHESKILITTRDRS-VALQ-LGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVI  391 (533)
Q Consensus       315 ~~~gs~IiiTtR~~~-v~~~-~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~  391 (533)
                      ...++.+|++|.+.. +... ......+.+.+++.++..+++.....  .   ..   ......++..++|.|+.+..+
T Consensus       168 pp~~~~~IL~t~~~~~llpti~SRc~~i~l~~l~~~~i~~~L~~~~~--~---~~---~~~~~~l~~~s~Gsp~~Al~l  238 (365)
T PRK07471        168 PPARSLFLLVSHAPARLLPTIRSRCRKLRLRPLAPEDVIDALAAAGP--D---LP---DDPRAALAALAEGSVGRALRL  238 (365)
T ss_pred             CCCCeEEEEEECCchhchHHhhccceEEECCCCCHHHHHHHHHHhcc--c---CC---HHHHHHHHHHcCCCHHHHHHH
Confidence            555676777776653 3222 23367899999999999999987532  1   11   111267889999999866544

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=98.30  E-value=5.6e-06  Score=84.29  Aligned_cols=180  Identities=17%  Similarity=0.135  Sum_probs=99.4

Q ss_pred             CCceeechhhHHHHHHHHhCCCcc-------CCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhH
Q 045152          181 EGEVCGRVEEKNELLSKLLCESSE-------QQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEE  253 (533)
Q Consensus       181 ~~~~vGR~~e~~~l~~~L~~~~~~-------~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~  253 (533)
                      ..++.|+++.++++.+.+...-..       +-...+.+.++|++|+|||++|+.+++.  ....|     +.+..    
T Consensus       121 ~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~--l~~~~-----~~v~~----  189 (364)
T TIGR01242       121 YEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHE--TNATF-----IRVVG----  189 (364)
T ss_pred             HHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHh--CCCCE-----Eecch----
Confidence            347899999999998877422110       0123556899999999999999999874  33232     22221    


Q ss_pred             HHHHHHHHHHhCCCCCCCccHHHHHHHHHHHh-CCceEEEEEeCCCCCCc-----------c---ccchhhhcccC--CC
Q 045152          254 IRVAKAIIEGLGVSASGLSEFESLMKQIQEYI-TRKKFFLVLDDVWDGDY-----------K---KWNPFFSCLKN--GH  316 (533)
Q Consensus       254 ~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l-~~kr~LlVLDdv~~~~~-----------~---~~~~l~~~l~~--~~  316 (533)
                      ..+....   ++       ........+.+.. ...+.+|+|||++....           .   .+..+...+..  ..
T Consensus       190 ~~l~~~~---~g-------~~~~~i~~~f~~a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~~~  259 (364)
T TIGR01242       190 SELVRKY---IG-------EGARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFDPR  259 (364)
T ss_pred             HHHHHHh---hh-------HHHHHHHHHHHHHHhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCCCC
Confidence            1111110   00       0111122222222 34678999999965310           0   11112222211  13


Q ss_pred             CCceEEEEecchHHHh-h----hCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcc
Q 045152          317 HESKILITTRDRSVAL-Q----LGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPL  386 (533)
Q Consensus       317 ~gs~IiiTtR~~~v~~-~----~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPL  386 (533)
                      .+.+||.||....... .    ......+.++..+.++..++|+.++.... .....+    ...+++.+.|..-
T Consensus       260 ~~v~vI~ttn~~~~ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~-l~~~~~----~~~la~~t~g~sg  329 (364)
T TIGR01242       260 GNVKVIAATNRPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMK-LAEDVD----LEAIAKMTEGASG  329 (364)
T ss_pred             CCEEEEEecCChhhCChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcCC-CCccCC----HHHHHHHcCCCCH
Confidence            4667888887543221 1    12245789999999999999998764221 111112    3667778877653

Many proteins may score above the trusted cutoff because an internal

>PRK09087 hypothetical protein; Validated

Probab=98.29  E-value=1.1e-05  Score=75.98  Aligned_cols=141  Identities=15%  Similarity=0.182  Sum_probs=86.1

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRK  288 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~k  288 (533)
                      ...+.|+|+.|+|||+|++.+++..       ...+++..      .+..+++..+                     .+ 
T Consensus        44 ~~~l~l~G~~GsGKThLl~~~~~~~-------~~~~i~~~------~~~~~~~~~~---------------------~~-   88 (226)
T PRK09087         44 SPVVVLAGPVGSGKTHLASIWREKS-------DALLIHPN------EIGSDAANAA---------------------AE-   88 (226)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHhc-------CCEEecHH------HcchHHHHhh---------------------hc-
Confidence            3568999999999999999888642       12244321      1111111111                     11 


Q ss_pred             eEEEEEeCCCCCCccccchhhhcccC-CCCCceEEEEecc---------hHHHhhhCCCCeeeCCCCChHhhHHHHHHhh
Q 045152          289 KFFLVLDDVWDGDYKKWNPFFSCLKN-GHHESKILITTRD---------RSVALQLGSIDIIPVKELAEEECWSLLERLA  358 (533)
Q Consensus       289 r~LlVLDdv~~~~~~~~~~l~~~l~~-~~~gs~IiiTtR~---------~~v~~~~~~~~~~~l~~L~~~~~~~Lf~~~a  358 (533)
                       -++++||+..... .-+.+...+.. ...|..||+|++.         +++...+.....+++++++.++-.+++.+.+
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             2788999954321 11223333321 1336779998873         3344444556789999999999999999887


Q ss_pred             ccCCCccccccchHHHHHHHhHhCCCcchhHH
Q 045152          359 FFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKV  390 (533)
Q Consensus       359 ~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~  390 (533)
                      -.. .   ..--+++..-|++.+.|..-++..
T Consensus       167 ~~~-~---~~l~~ev~~~La~~~~r~~~~l~~  194 (226)
T PRK09087        167 ADR-Q---LYVDPHVVYYLVSRMERSLFAAQT  194 (226)
T ss_pred             HHc-C---CCCCHHHHHHHHHHhhhhHHHHHH
Confidence            421 1   112256678888888888777653

>PRK08084 DNA replication initiation factor; Provisional

Probab=98.29  E-value=2.1e-05  Score=74.70  Aligned_cols=152  Identities=18%  Similarity=0.181  Sum_probs=90.2

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRK  288 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~k  288 (533)
                      ...+.|+|+.|+|||+|++.+++.  ....-..+.++++.....   .                 ..+..+.+.     +
T Consensus        45 ~~~l~l~Gp~G~GKThLl~a~~~~--~~~~~~~v~y~~~~~~~~---~-----------------~~~~~~~~~-----~   97 (235)
T PRK08084         45 SGYIYLWSREGAGRSHLLHAACAE--LSQRGRAVGYVPLDKRAW---F-----------------VPEVLEGME-----Q   97 (235)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH--HHhCCCeEEEEEHHHHhh---h-----------------hHHHHHHhh-----h
Confidence            457899999999999999998874  222233455665432100   0                 011111111     1


Q ss_pred             eEEEEEeCCCCCCc-cccch-hhhcccCC-CCC-ceEEEEecch---------HHHhhhCCCCeeeCCCCChHhhHHHHH
Q 045152          289 KFFLVLDDVWDGDY-KKWNP-FFSCLKNG-HHE-SKILITTRDR---------SVALQLGSIDIIPVKELAEEECWSLLE  355 (533)
Q Consensus       289 r~LlVLDdv~~~~~-~~~~~-l~~~l~~~-~~g-s~IiiTtR~~---------~v~~~~~~~~~~~l~~L~~~~~~~Lf~  355 (533)
                      .-+++|||+..... ..|+. +...+... ..| .++|+||+..         ++...+.....+++++++.++-.+++.
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            23789999965421 23443 22222211 123 4688988754         333344445789999999999999998


Q ss_pred             HhhccCCCccccccchHHHHHHHhHhCCCcchhHHH
Q 045152          356 RLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVI  391 (533)
Q Consensus       356 ~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~  391 (533)
                      +.+... .   -.--+++..-|++.+.|..-++..+
T Consensus       178 ~~a~~~-~---~~l~~~v~~~L~~~~~~d~r~l~~~  209 (235)
T PRK08084        178 LRARLR-G---FELPEDVGRFLLKRLDREMRTLFMT  209 (235)
T ss_pred             HHHHHc-C---CCCCHHHHHHHHHhhcCCHHHHHHH
Confidence            866421 1   1122567788888888877665443

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=98.27  E-value=9.7e-06  Score=85.61  Aligned_cols=189  Identities=19%  Similarity=0.209  Sum_probs=104.6

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAII  261 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il  261 (533)
                      .+++|.+.-++.+..++...     .-...+.++|+.|+||||+|+.+.+...-..      |.... ..+.....+.+.
T Consensus        16 ~dIIGQe~iv~~L~~aI~~~-----rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~------~~~~~-~Cg~C~sCr~i~   83 (605)
T PRK05896         16 KQIIGQELIKKILVNAILNN-----KLTHAYIFSGPRGIGKTSIAKIFAKAINCLN------PKDGD-CCNSCSVCESIN   83 (605)
T ss_pred             HHhcCcHHHHHHHHHHHHcC-----CCCceEEEECCCCCCHHHHHHHHHHHhcCCC------CCCCC-CCcccHHHHHHH
Confidence            36899999999999888533     2346788999999999999988865311000      11100 000011111111


Q ss_pred             HHh-------CCCC-CCCccHHHHHHHHHHH-hCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEe-cchHHH
Q 045152          262 EGL-------GVSA-SGLSEFESLMKQIQEY-ITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITT-RDRSVA  331 (533)
Q Consensus       262 ~~l-------~~~~-~~~~~~~~l~~~l~~~-l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTt-R~~~v~  331 (533)
                      ...       .... ....+...+...+... ..+++-++|+|+++..+...+..|...+......+.+|++| ....+.
T Consensus        84 ~~~h~DiieIdaas~igVd~IReIi~~~~~~P~~~~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~Tt~~~KLl  163 (605)
T PRK05896         84 TNQSVDIVELDAASNNGVDEIRNIIDNINYLPTTFKYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQKIP  163 (605)
T ss_pred             cCCCCceEEeccccccCHHHHHHHHHHHHhchhhCCcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEECCChHhhh
Confidence            100       0000 0001112222211111 12344469999998766566777777776555556565554 433443


Q ss_pred             hh-hCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcc
Q 045152          332 LQ-LGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPL  386 (533)
Q Consensus       332 ~~-~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPL  386 (533)
                      .. ......+++.+++.++....+...+...+..    --.+.+..+++.++|.+.
T Consensus       164 ~TI~SRcq~ieF~~Ls~~eL~~~L~~il~kegi~----Is~eal~~La~lS~GdlR  215 (605)
T PRK05896        164 LTIISRCQRYNFKKLNNSELQELLKSIAKKEKIK----IEDNAIDKIADLADGSLR  215 (605)
T ss_pred             HHHHhhhhhcccCCCCHHHHHHHHHHHHHHcCCC----CCHHHHHHHHHHcCCcHH
Confidence            22 2335679999999999998888765311111    113456778888888664

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.25  E-value=1.1e-05  Score=82.80  Aligned_cols=198  Identities=15%  Similarity=0.161  Sum_probs=107.5

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEE-eCCchhHHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVC-VSDTFEEIRVAKAI  260 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~-vs~~~~~~~l~~~i  260 (533)
                      .+++|-+.-++.|..++..+     .-...+.++|+.|+||||+|..+.+.-.-...+....|.. +..+...-..-+.+
T Consensus        16 ~eiiGq~~~~~~L~~~~~~~-----~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~c~~c~~c~~~   90 (397)
T PRK14955         16 ADITAQEHITRTIQNSLRMG-----RVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEPCGECESCRDF   90 (397)
T ss_pred             hhccChHHHHHHHHHHHHhC-----CcceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCCCCCCHHHHHH
Confidence            36889888888888888432     2245588999999999999988765311111010000000 00000000011111


Q ss_pred             HHHhCC-----CCCCCccHHHHHHHHHHH----hCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEe-cchHH
Q 045152          261 IEGLGV-----SASGLSEFESLMKQIQEY----ITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITT-RDRSV  330 (533)
Q Consensus       261 l~~l~~-----~~~~~~~~~~l~~~l~~~----l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTt-R~~~v  330 (533)
                      ......     ........+++.+.....    ..+++-++|+|+++..+...++.+...+....+.+.+|++| +...+
T Consensus        91 ~~~~~~n~~~~~~~~~~~id~Ir~l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t~~~~kl  170 (397)
T PRK14955         91 DAGTSLNISEFDAASNNSVDDIRLLRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTELHKI  170 (397)
T ss_pred             hcCCCCCeEeecccccCCHHHHHHHHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEeCChHHh
Confidence            100000     000111123332222111    23456688999997766567778888877665666666555 43444


Q ss_pred             HhhhC-CCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchh
Q 045152          331 ALQLG-SIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAA  388 (533)
Q Consensus       331 ~~~~~-~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai  388 (533)
                      ...+. ....+++.+++.++....+...+-..+    ..--.+.+..|++.++|.+.-+
T Consensus       171 ~~tl~sR~~~v~f~~l~~~ei~~~l~~~~~~~g----~~i~~~al~~l~~~s~g~lr~a  225 (397)
T PRK14955        171 PATIASRCQRFNFKRIPLEEIQQQLQGICEAEG----ISVDADALQLIGRKAQGSMRDA  225 (397)
T ss_pred             HHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHcC----CCCCHHHHHHHHHHcCCCHHHH
Confidence            33221 235688999999999888877653111    1122456788899999977544

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.23  E-value=1.3e-05  Score=84.89  Aligned_cols=180  Identities=16%  Similarity=0.164  Sum_probs=105.0

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhh-------------------ccCCce
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVK-------------------RNFEKV  242 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~-------------------~~F~~~  242 (533)
                      .+++|-+.-++.+..++...     .-...+.++|+.|+||||+|+.+.....-.                   ..|.-.
T Consensus        16 ~divGq~~v~~~L~~~i~~~-----~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~C~~i~~~~~~d~   90 (527)
T PRK14969         16 SELVGQEHVVRALTNALEQQ-----RLHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACLEIDSGRFVDL   90 (527)
T ss_pred             HHhcCcHHHHHHHHHHHHcC-----CCCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCce
Confidence            36899999999998888543     234567899999999999998886531100                   011112


Q ss_pred             EEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEE
Q 045152          243 IWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKIL  322 (533)
Q Consensus       243 ~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~Ii  322 (533)
                      +++..+....+.. .++++..+..                .-..+++-++|+|+++..+....+.+...+......+.+|
T Consensus        91 ~ei~~~~~~~vd~-ir~l~~~~~~----------------~p~~~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fI  153 (527)
T PRK14969         91 IEVDAASNTQVDA-MRELLDNAQY----------------APTRGRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFI  153 (527)
T ss_pred             eEeeccccCCHHH-HHHHHHHHhh----------------CcccCCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEE
Confidence            2222111111111 1111111110                0113566799999998776666777777776655566666


Q ss_pred             EEecc-hHHHhh-hCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcch
Q 045152          323 ITTRD-RSVALQ-LGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLA  387 (533)
Q Consensus       323 iTtR~-~~v~~~-~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLa  387 (533)
                      ++|.+ ..+... ......+++++++.++....+.+.+-..+    ...-.+....|++.++|.+.-
T Consensus       154 L~t~d~~kil~tI~SRc~~~~f~~l~~~~i~~~L~~il~~eg----i~~~~~al~~la~~s~Gslr~  216 (527)
T PRK14969        154 LATTDPQKIPVTVLSRCLQFNLKQMPPPLIVSHLQHILEQEN----IPFDATALQLLARAAAGSMRD  216 (527)
T ss_pred             EEeCChhhCchhHHHHHHHHhcCCCCHHHHHHHHHHHHHHcC----CCCCHHHHHHHHHHcCCCHHH
Confidence            65544 333211 12246789999999999888877553111    111234457788888887753

>TIGR00767 rho transcription termination factor Rho

Probab=98.22  E-value=2.9e-06  Score=84.79  Aligned_cols=92  Identities=16%  Similarity=0.096  Sum_probs=63.6

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCc--hhHHHHHHHHHHHhCCCCCCCccH------HHHH
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT--FEEIRVAKAIIEGLGVSASGLSEF------ESLM  278 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~--~~~~~l~~~il~~l~~~~~~~~~~------~~l~  278 (533)
                      +....++|+|++|.|||||++.+++... ..+|+..+||.+.+.  .++.++++.++..+-....+....      ....
T Consensus       166 g~Gq~~~IvG~~g~GKTtL~~~i~~~I~-~nhfdv~v~VlLIgER~~EVtDLqrsIlg~Vvast~d~p~~~~~~va~~v~  244 (415)
T TIGR00767       166 GKGQRGLIVAPPKAGKTVLLQKIAQAIT-RNHPEVELIVLLIDERPEEVTDMQRSVKGEVVASTFDEPASRHVQVAEMVI  244 (415)
T ss_pred             CCCCEEEEECCCCCChhHHHHHHHHhhc-ccCCceEEEEEEcCCCCccHHHHHHHhhceEEEecCCCChHHHHHHHHHHH
Confidence            3456899999999999999999998633 337999999999866  789999999865443222221111      1122


Q ss_pred             HHHHHH-hCCceEEEEEeCCCC
Q 045152          279 KQIQEY-ITRKKFFLVLDDVWD  299 (533)
Q Consensus       279 ~~l~~~-l~~kr~LlVLDdv~~  299 (533)
                      +..... -.+++.+|++|++..
T Consensus       245 e~Ae~~~~~GkdVVLlIDEitR  266 (415)
T TIGR00767       245 EKAKRLVEHKKDVVILLDSITR  266 (415)
T ss_pred             HHHHHHHHcCCCeEEEEEChhH
Confidence            222222 257999999999953

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

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=98.22  E-value=1.8e-05  Score=84.63  Aligned_cols=196  Identities=16%  Similarity=0.158  Sum_probs=110.0

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCC--ceEEEEeCCchhHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFE--KVIWVCVSDTFEEIRVAKA  259 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~--~~~wv~vs~~~~~~~l~~~  259 (533)
                      .+++|.+..++.|...+..+     .-...+.++|+.|+||||+|+.+.+...-.....  ...+-.+..    -.-.+.
T Consensus        24 ~dliGq~~~v~~L~~~~~~g-----ri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~~cg~----c~~C~~   94 (598)
T PRK09111         24 DDLIGQEAMVRTLTNAFETG-----RIAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTIDLCGV----GEHCQA   94 (598)
T ss_pred             HHhcCcHHHHHHHHHHHHcC-----CCCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccccCcc----cHHHHH
Confidence            36899999999999988543     2355788999999999999988876311111000  000000000    001111


Q ss_pred             HHHHhCC-----CCCCCccHHHHH---HHHHHH-hCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEe-cchH
Q 045152          260 IIEGLGV-----SASGLSEFESLM---KQIQEY-ITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITT-RDRS  329 (533)
Q Consensus       260 il~~l~~-----~~~~~~~~~~l~---~~l~~~-l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTt-R~~~  329 (533)
                      |......     ........+++.   ..+... ..+++-++|+|+++..+....+.|...+......+.+|++| ....
T Consensus        95 i~~g~h~Dv~e~~a~s~~gvd~IReIie~~~~~P~~a~~KVvIIDEad~Ls~~a~naLLKtLEePp~~~~fIl~tte~~k  174 (598)
T PRK09111         95 IMEGRHVDVLEMDAASHTGVDDIREIIESVRYRPVSARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIFATTEIRK  174 (598)
T ss_pred             HhcCCCCceEEecccccCCHHHHHHHHHHHHhchhcCCcEEEEEEChHhCCHHHHHHHHHHHHhCCCCeEEEEEeCChhh
Confidence            1111000     000111122222   222111 12455679999997776566777877776665667676655 3333


Q ss_pred             HHhhh-CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHH
Q 045152          330 VALQL-GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKV  390 (533)
Q Consensus       330 v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~  390 (533)
                      +...+ .....+++..++.++....+.+.+-..+.    .--.+....|++.++|.+.-+..
T Consensus       175 ll~tI~SRcq~~~f~~l~~~el~~~L~~i~~kegi----~i~~eAl~lIa~~a~Gdlr~al~  232 (598)
T PRK09111        175 VPVTVLSRCQRFDLRRIEADVLAAHLSRIAAKEGV----EVEDEALALIARAAEGSVRDGLS  232 (598)
T ss_pred             hhHHHHhheeEEEecCCCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCCHHHHHH
Confidence            33222 23567899999999999888876531111    11134567788888888865543

>PRK05642 DNA replication initiation factor; Validated

Probab=98.20  E-value=3.4e-05  Score=73.23  Aligned_cols=152  Identities=16%  Similarity=0.206  Sum_probs=90.0

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRK  288 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~k  288 (533)
                      ...+.|+|..|+|||.|++.+.+.  ....-..++|++..      ++...              ..    .+.+.+.+-
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~--~~~~~~~v~y~~~~------~~~~~--------------~~----~~~~~~~~~   98 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLR--FEQRGEPAVYLPLA------ELLDR--------------GP----ELLDNLEQY   98 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH--HHhCCCcEEEeeHH------HHHhh--------------hH----HHHHhhhhC
Confidence            367899999999999999999863  22222456677532      12111              01    122222222


Q ss_pred             eEEEEEeCCCCCC-ccccch-hhhcccC-CCCCceEEEEecchHH---------HhhhCCCCeeeCCCCChHhhHHHHHH
Q 045152          289 KFFLVLDDVWDGD-YKKWNP-FFSCLKN-GHHESKILITTRDRSV---------ALQLGSIDIIPVKELAEEECWSLLER  356 (533)
Q Consensus       289 r~LlVLDdv~~~~-~~~~~~-l~~~l~~-~~~gs~IiiTtR~~~v---------~~~~~~~~~~~l~~L~~~~~~~Lf~~  356 (533)
                       =++|+||+.... ...|.. +...+.. ...|..+|+|++...-         ...+.....+++++++.++-.++++.
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             268899996432 124443 4444432 2346778888875321         12222346789999999999999996


Q ss_pred             hhccCCCccccccchHHHHHHHhHhCCCcchhHHH
Q 045152          357 LAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVI  391 (533)
Q Consensus       357 ~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~  391 (533)
                      ++... ...   --+++..-|++.+.|....+..+
T Consensus       178 ka~~~-~~~---l~~ev~~~L~~~~~~d~r~l~~~  208 (234)
T PRK05642        178 RASRR-GLH---LTDEVGHFILTRGTRSMSALFDL  208 (234)
T ss_pred             HHHHc-CCC---CCHHHHHHHHHhcCCCHHHHHHH
Confidence            66421 111   12567788888888876665443

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=98.19  E-value=2.6e-05  Score=86.29  Aligned_cols=179  Identities=14%  Similarity=0.106  Sum_probs=107.9

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccC---------------------Cc
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNF---------------------EK  241 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F---------------------~~  241 (533)
                      ++||.+..++.|..++...     .-...+.++|+.|+||||+|+.+.+...-....                     ..
T Consensus        16 eiiGqe~v~~~L~~~i~~~-----ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C~sC~~~~~g~~~~~d   90 (824)
T PRK07764         16 EVIGQEHVTEPLSTALDSG-----RINHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGECDSCVALAPGGPGSLD   90 (824)
T ss_pred             HhcCcHHHHHHHHHHHHhC-----CCCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcccHHHHHHHcCCCCCCc
Confidence            6899998899999988533     234568899999999999998886532110110                     00


Q ss_pred             eEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHH-HHhCCceEEEEEeCCCCCCccccchhhhcccCCCCCce
Q 045152          242 VIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQ-EYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESK  320 (533)
Q Consensus       242 ~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~-~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~  320 (533)
                      +++++......                  ..+..++...+. .-..+++-++|||+++..+...++.|+..+..-...+.
T Consensus        91 v~eidaas~~~------------------Vd~iR~l~~~~~~~p~~~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~  152 (824)
T PRK07764         91 VTEIDAASHGG------------------VDDARELRERAFFAPAESRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLK  152 (824)
T ss_pred             EEEecccccCC------------------HHHHHHHHHHHHhchhcCCceEEEEechhhcCHHHHHHHHHHHhCCCCCeE
Confidence            11111111101                  111112211111 11235566889999988877778888888877666666


Q ss_pred             EEEEecc-hHHHhhh-CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchh
Q 045152          321 ILITTRD-RSVALQL-GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAA  388 (533)
Q Consensus       321 IiiTtR~-~~v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai  388 (533)
                      +|++|.+ ..+...+ .....|++..++.++...++.+.+-.. .   ...-.+....|++.++|.+..+
T Consensus       153 fIl~tt~~~kLl~TIrSRc~~v~F~~l~~~~l~~~L~~il~~E-G---v~id~eal~lLa~~sgGdlR~A  218 (824)
T PRK07764        153 FIFATTEPDKVIGTIRSRTHHYPFRLVPPEVMRGYLERICAQE-G---VPVEPGVLPLVIRAGGGSVRDS  218 (824)
T ss_pred             EEEEeCChhhhhHHHHhheeEEEeeCCCHHHHHHHHHHHHHHc-C---CCCCHHHHHHHHHHcCCCHHHH
Confidence            6665543 3444322 336789999999999888887754211 1   1112344577888899977443

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.17  E-value=3.9e-05  Score=81.67  Aligned_cols=189  Identities=14%  Similarity=0.125  Sum_probs=106.3

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAII  261 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il  261 (533)
                      .+++|.+.-++.|..++..+     .-...+.++|+.|+||||+|+.+.+...-....+   +-.+.    .-...+.|.
T Consensus        13 ~eivGq~~i~~~L~~~i~~~-----r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~---~~pCg----~C~~C~~i~   80 (584)
T PRK14952         13 AEVVGQEHVTEPLSSALDAG-----RINHAYLFSGPRGCGKTSSARILARSLNCAQGPT---ATPCG----VCESCVALA   80 (584)
T ss_pred             HHhcCcHHHHHHHHHHHHcC-----CCCeEEEEECCCCCCHHHHHHHHHHHhccccCCC---CCccc----ccHHHHHhh
Confidence            36899999999999988532     2345678999999999999988875311000000   00000    000000110


Q ss_pred             HH---------hCCC-CCCCccHHHHHHHHHHH-hCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEe-cchH
Q 045152          262 EG---------LGVS-ASGLSEFESLMKQIQEY-ITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITT-RDRS  329 (533)
Q Consensus       262 ~~---------l~~~-~~~~~~~~~l~~~l~~~-l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTt-R~~~  329 (533)
                      ..         +... .....+..++...+... ..+++-++|+|+++..+....+.|+..+........+|++| ....
T Consensus        81 ~~~~~~~dvieidaas~~gvd~iRel~~~~~~~P~~~~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fIL~tte~~k  160 (584)
T PRK14952         81 PNGPGSIDVVELDAASHGGVDDTRELRDRAFYAPAQSRYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEPEK  160 (584)
T ss_pred             cccCCCceEEEeccccccCHHHHHHHHHHHHhhhhcCCceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEEEEeCChHh
Confidence            00         0000 00111222222222211 13456689999998877777778888887665566666555 4444


Q ss_pred             HHhh-hCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcc
Q 045152          330 VALQ-LGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPL  386 (533)
Q Consensus       330 v~~~-~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPL  386 (533)
                      +... ......+++.+++.++..+.+.+.+...+.    .--.+....|++.++|.+.
T Consensus       161 ll~TI~SRc~~~~F~~l~~~~i~~~L~~i~~~egi----~i~~~al~~Ia~~s~GdlR  214 (584)
T PRK14952        161 VLPTIRSRTHHYPFRLLPPRTMRALIARICEQEGV----VVDDAVYPLVIRAGGGSPR  214 (584)
T ss_pred             hHHHHHHhceEEEeeCCCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCCHH
Confidence            4332 233578999999999988888775531111    1113445677888888764

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.15  E-value=3.2e-05  Score=82.16  Aligned_cols=197  Identities=15%  Similarity=0.179  Sum_probs=108.5

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHH
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIE  262 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~  262 (533)
                      +++|-+..++.|...+...     .-...+.++|+.|+||||+|+.+.+...-......       ...+.-...+.|..
T Consensus        17 dIiGQe~v~~~L~~ai~~~-----ri~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~-------~pCg~C~sC~~i~~   84 (624)
T PRK14959         17 EVAGQETVKAILSRAAQEN-----RVAPAYLFSGTRGVGKTTIARIFAKALNCETAPTG-------EPCNTCEQCRKVTQ   84 (624)
T ss_pred             HhcCCHHHHHHHHHHHHcC-----CCCceEEEECCCCCCHHHHHHHHHHhccccCCCCC-------CCCcccHHHHHHhc
Confidence            5789888888888877432     22467889999999999999888763211100000       00000011111111


Q ss_pred             HhC-------C-CCCCCccHHHHHHHHHH-HhCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecc-hHHHh
Q 045152          263 GLG-------V-SASGLSEFESLMKQIQE-YITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRD-RSVAL  332 (533)
Q Consensus       263 ~l~-------~-~~~~~~~~~~l~~~l~~-~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~-~~v~~  332 (533)
                      ...       . ......+...+...+.. -..+++-++|||+++..+....+.|...+........+|++|.. ..+..
T Consensus        85 g~hpDv~eId~a~~~~Id~iR~L~~~~~~~p~~g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt~~~kll~  164 (624)
T PRK14959         85 GMHVDVVEIDGASNRGIDDAKRLKEAIGYAPMEGRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPHKFPV  164 (624)
T ss_pred             CCCCceEEEecccccCHHHHHHHHHHHHhhhhcCCceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecCChhhhhH
Confidence            000       0 00000111111111111 12356678999999777666667777777654445556665544 44432


Q ss_pred             h-hCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCc-chhHHHHHHh
Q 045152          333 Q-LGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLP-LAAKVIWNLL  395 (533)
Q Consensus       333 ~-~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlP-Lai~~~~~~L  395 (533)
                      . ......+++++++.++....+...+.... .   .--.+....|++.++|.+ .|+..+..++
T Consensus       165 TI~SRcq~i~F~pLs~~eL~~~L~~il~~eg-i---~id~eal~lIA~~s~GdlR~Al~lLeqll  225 (624)
T PRK14959        165 TIVSRCQHFTFTRLSEAGLEAHLTKVLGREG-V---DYDPAAVRLIARRAAGSVRDSMSLLGQVL  225 (624)
T ss_pred             HHHhhhhccccCCCCHHHHHHHHHHHHHHcC-C---CCCHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            2 22346789999999999988887653211 1   112455677888888865 5666655443

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.15  E-value=5.7e-05  Score=81.47  Aligned_cols=193  Identities=16%  Similarity=0.184  Sum_probs=108.4

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAII  261 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il  261 (533)
                      .+++|-+.-++.|..++...     .-...+.++|+.|+||||+|+.+.+.......+..      ....+.....+.+.
T Consensus        16 ~eiiGq~~~~~~L~~~i~~~-----~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~~------~~~c~~c~~c~~i~   84 (585)
T PRK14950         16 AELVGQEHVVQTLRNAIAEG-----RVAHAYLFTGPRGVGKTSTARILAKAVNCTTNDPK------GRPCGTCEMCRAIA   84 (585)
T ss_pred             HHhcCCHHHHHHHHHHHHhC-----CCceEEEEECCCCCCHHHHHHHHHHHhcCCCCCCC------CCCCccCHHHHHHh
Confidence            36899999899988888532     23456789999999999999988753111000000      00001111222222


Q ss_pred             HHhCCC-----CCCCccHHHH---HHHHHHH-hCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecc-hHHH
Q 045152          262 EGLGVS-----ASGLSEFESL---MKQIQEY-ITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRD-RSVA  331 (533)
Q Consensus       262 ~~l~~~-----~~~~~~~~~l---~~~l~~~-l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~-~~v~  331 (533)
                      ......     .......+++   ...+... ..+++-++|+|+++..+....+.|...+......+.+|+++.+ ..+.
T Consensus        85 ~~~~~d~~~i~~~~~~~vd~ir~ii~~~~~~p~~~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t~~~~kll  164 (585)
T PRK14950         85 EGSAVDVIEMDAASHTSVDDAREIIERVQFRPALARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTEVHKVP  164 (585)
T ss_pred             cCCCCeEEEEeccccCCHHHHHHHHHHHhhCcccCCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEeCChhhhh
Confidence            211110     0011112222   2222111 1245678999999766555666777777665556666666543 3333


Q ss_pred             hhh-CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhH
Q 045152          332 LQL-GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAK  389 (533)
Q Consensus       332 ~~~-~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~  389 (533)
                      ..+ .....+.++.++.++....+...+...+. .   --.+....|++.++|.+..+.
T Consensus       165 ~tI~SR~~~i~f~~l~~~el~~~L~~~a~~egl-~---i~~eal~~La~~s~Gdlr~al  219 (585)
T PRK14950        165 ATILSRCQRFDFHRHSVADMAAHLRKIAAAEGI-N---LEPGALEAIARAATGSMRDAE  219 (585)
T ss_pred             HHHHhccceeeCCCCCHHHHHHHHHHHHHHcCC-C---CCHHHHHHHHHHcCCCHHHHH
Confidence            222 22457889999999988888876632111 1   123556788899999886544

>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=98.13  E-value=4.1e-05  Score=71.85  Aligned_cols=160  Identities=16%  Similarity=0.234  Sum_probs=90.6

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccC--CceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHh
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNF--EKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYI  285 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F--~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l  285 (533)
                      ....+.|+|..|+|||.|.+.+++.  +....  ..++++      +..++...+...+...     ..    ..+.+.+
T Consensus        33 ~~~~l~l~G~~G~GKTHLL~Ai~~~--~~~~~~~~~v~y~------~~~~f~~~~~~~~~~~-----~~----~~~~~~~   95 (219)
T PF00308_consen   33 RYNPLFLYGPSGLGKTHLLQAIANE--AQKQHPGKRVVYL------SAEEFIREFADALRDG-----EI----EEFKDRL   95 (219)
T ss_dssp             SSSEEEEEESTTSSHHHHHHHHHHH--HHHHCTTS-EEEE------EHHHHHHHHHHHHHTT-----SH----HHHHHHH
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHH--HHhccccccceee------cHHHHHHHHHHHHHcc-----cc----hhhhhhh
Confidence            4456889999999999999999984  33222  234555      3445555555554331     11    2233344


Q ss_pred             CCceEEEEEeCCCCCCcc-ccch-hhhcccC-CCCCceEEEEecch---------HHHhhhCCCCeeeCCCCChHhhHHH
Q 045152          286 TRKKFFLVLDDVWDGDYK-KWNP-FFSCLKN-GHHESKILITTRDR---------SVALQLGSIDIIPVKELAEEECWSL  353 (533)
Q Consensus       286 ~~kr~LlVLDdv~~~~~~-~~~~-l~~~l~~-~~~gs~IiiTtR~~---------~v~~~~~~~~~~~l~~L~~~~~~~L  353 (533)
                      + .-=+|+|||++..... .|.. +...+.. ...|.+||+|+...         ++...+...-.+++++++.++...+
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            4 3347899999664322 2322 2222221 13466899999542         3333444456799999999999999


Q ss_pred             HHHhhccCCCccccccchHHHHHHHhHhCCCcchhH
Q 045152          354 LERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAK  389 (533)
Q Consensus       354 f~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~  389 (533)
                      +.+.+...+ ..   --+++..-|++.+.+..-.+.
T Consensus       175 l~~~a~~~~-~~---l~~~v~~~l~~~~~~~~r~L~  206 (219)
T PF00308_consen  175 LQKKAKERG-IE---LPEEVIEYLARRFRRDVRELE  206 (219)
T ss_dssp             HHHHHHHTT------S-HHHHHHHHHHTTSSHHHHH
T ss_pred             HHHHHHHhC-CC---CcHHHHHHHHHhhcCCHHHHH
Confidence            998875221 11   224566667777666554443

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.

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=98.13  E-value=2.8e-05  Score=80.85  Aligned_cols=167  Identities=19%  Similarity=0.188  Sum_probs=99.2

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRK  288 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~k  288 (533)
                      ...+.|+|..|.|||+|++.+.+.......-..++++      +..++...+...+....       .....+.+.++ .
T Consensus       141 ~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv------~~~~f~~~~~~~l~~~~-------~~~~~~~~~~~-~  206 (450)
T PRK14087        141 YNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYM------SGDEFARKAVDILQKTH-------KEIEQFKNEIC-Q  206 (450)
T ss_pred             cCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEE------EHHHHHHHHHHHHHHhh-------hHHHHHHHHhc-c
Confidence            4568999999999999999998732111111233444      33456666666554210       11223333333 3


Q ss_pred             eEEEEEeCCCCCCcc-c-cchhhhcccC-CCCCceEEEEecch---------HHHhhhCCCCeeeCCCCChHhhHHHHHH
Q 045152          289 KFFLVLDDVWDGDYK-K-WNPFFSCLKN-GHHESKILITTRDR---------SVALQLGSIDIIPVKELAEEECWSLLER  356 (533)
Q Consensus       289 r~LlVLDdv~~~~~~-~-~~~l~~~l~~-~~~gs~IiiTtR~~---------~v~~~~~~~~~~~l~~L~~~~~~~Lf~~  356 (533)
                      .-+|||||+...... . .+.+...+.. ...|..||+|+...         .+...+...-.+.+++++.++-.+++.+
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            448899999654311 1 2234333331 13345688886542         2223333456788999999999999998


Q ss_pred             hhccCCCccccccchHHHHHHHhHhCCCcchhHHH
Q 045152          357 LAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVI  391 (533)
Q Consensus       357 ~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~  391 (533)
                      .+-..+ . ...--+++..-|++.+.|.|..+.-+
T Consensus       287 ~~~~~g-l-~~~l~~evl~~Ia~~~~gd~R~L~ga  319 (450)
T PRK14087        287 EIKNQN-I-KQEVTEEAINFISNYYSDDVRKIKGS  319 (450)
T ss_pred             HHHhcC-C-CCCCCHHHHHHHHHccCCCHHHHHHH
Confidence            874211 1 01223567888999999999876544

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=98.12  E-value=4.5e-05  Score=85.41  Aligned_cols=152  Identities=21%  Similarity=0.210  Sum_probs=84.7

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhcc------CCceEE-EEeCCchhHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRN------FEKVIW-VCVSDTFEEI  254 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~------F~~~~w-v~vs~~~~~~  254 (533)
                      .+++||+.++.++++.|....      ..-+.++|++|+||||+|+.+...  +...      ....+| +.++.     
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------QNNPILTGEAGVGKTAVVEGLALR--IAAGDVPPALRNVRLLSLDLGL-----  253 (852)
T ss_pred             CcccCCHHHHHHHHHHHhcCC------cCceeEECCCCCCHHHHHHHHHHH--HhhCCCCccccCCeEEEeehhh-----
Confidence            368999999999999986543      335569999999999999988863  2211      122333 22111     


Q ss_pred             HHHHHHHHHhCCCCCCCccH-HHHHHHHHHHh-CCceEEEEEeCCCCCCc-----cccc---hhhhcccCCCCCceEEEE
Q 045152          255 RVAKAIIEGLGVSASGLSEF-ESLMKQIQEYI-TRKKFFLVLDDVWDGDY-----KKWN---PFFSCLKNGHHESKILIT  324 (533)
Q Consensus       255 ~l~~~il~~l~~~~~~~~~~-~~l~~~l~~~l-~~kr~LlVLDdv~~~~~-----~~~~---~l~~~l~~~~~gs~IiiT  324 (533)
                               +........+. ..+...+.+.- .+++.+|++|+++....     ..-+   .+...+..+  .-++|-|
T Consensus       254 ---------l~ag~~~~ge~e~~lk~ii~e~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~l~~G--~l~~Iga  322 (852)
T TIGR03345       254 ---------LQAGASVKGEFENRLKSVIDEVKASPQPIILFIDEAHTLIGAGGQAGQGDAANLLKPALARG--ELRTIAA  322 (852)
T ss_pred             ---------hhcccccchHHHHHHHHHHHHHHhcCCCeEEEEeChHHhccCCCccccccHHHHhhHHhhCC--CeEEEEe
Confidence                     00000011111 12222222221 24689999999966321     1111   133333222  2455555


Q ss_pred             ecchHHHhh-------hCCCCeeeCCCCChHhhHHHHHHh
Q 045152          325 TRDRSVALQ-------LGSIDIIPVKELAEEECWSLLERL  357 (533)
Q Consensus       325 tR~~~v~~~-------~~~~~~~~l~~L~~~~~~~Lf~~~  357 (533)
                      |..+.....       ......+.+++++.++..+++...
T Consensus       323 TT~~e~~~~~~~d~AL~rRf~~i~v~eps~~~~~~iL~~~  362 (852)
T TIGR03345       323 TTWAEYKKYFEKDPALTRRFQVVKVEEPDEETAIRMLRGL  362 (852)
T ss_pred             cCHHHHhhhhhccHHHHHhCeEEEeCCCCHHHHHHHHHHH
Confidence            554333211       123568999999999999997543

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.

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

Probab=98.12  E-value=1.1e-05  Score=82.07  Aligned_cols=119  Identities=15%  Similarity=0.174  Sum_probs=75.7

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAII  261 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il  261 (533)
                      .++++.++..+.+...|..        ...|.++|++|+|||++|+.+++.......|+.+.||++++.++..++...+.
T Consensus       175 ~d~~i~e~~le~l~~~L~~--------~~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI~G~r  246 (459)
T PRK11331        175 NDLFIPETTIETILKRLTI--------KKNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFIQGYR  246 (459)
T ss_pred             hcccCCHHHHHHHHHHHhc--------CCCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHhcccC
Confidence            4578889999999999853        34688899999999999999987544445778889999998887666553221


Q ss_pred             HHhCCCCCCCccH-HHHHHHHHHHh--CCceEEEEEeCCCCCCccc-cchhhhcc
Q 045152          262 EGLGVSASGLSEF-ESLMKQIQEYI--TRKKFFLVLDDVWDGDYKK-WNPFFSCL  312 (533)
Q Consensus       262 ~~l~~~~~~~~~~-~~l~~~l~~~l--~~kr~LlVLDdv~~~~~~~-~~~l~~~l  312 (533)
                          ....+..-. .-..+.+....  .++++++|+|++...+... +..+...+
T Consensus       247 ----P~~vgy~~~~G~f~~~~~~A~~~p~~~~vliIDEINRani~kiFGel~~lL  297 (459)
T PRK11331        247 ----PNGVGFRRKDGIFYNFCQQAKEQPEKKYVFIIDEINRANLSKVFGEVMMLM  297 (459)
T ss_pred             ----CCCCCeEecCchHHHHHHHHHhcccCCcEEEEehhhccCHHHhhhhhhhhc
Confidence                110010000 11112222222  2468999999997655332 44444433

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.09  E-value=6.4e-05  Score=76.70  Aligned_cols=180  Identities=18%  Similarity=0.212  Sum_probs=101.5

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhh------hccCCceEE-EEeCCchhHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEV------KRNFEKVIW-VCVSDTFEEI  254 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------~~~F~~~~w-v~vs~~~~~~  254 (533)
                      .+++|.+...+.+...+...     .-...+.++|++|+||||+|+.+.+...-      ...|...+. +......+..
T Consensus        17 ~~iig~~~~~~~l~~~i~~~-----~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~   91 (367)
T PRK14970         17 DDVVGQSHITNTLLNAIENN-----HLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFELDAASNNSVD   91 (367)
T ss_pred             HhcCCcHHHHHHHHHHHHcC-----CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEeccccCCCHH
Confidence            35789999999999988532     23468889999999999999888653110      011211111 1100000011


Q ss_pred             HHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEec-chHHHhh
Q 045152          255 RVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTR-DRSVALQ  333 (533)
Q Consensus       255 ~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR-~~~v~~~  333 (533)
                       -..++++.+..                .-..+++-++++|++.......+..+...+......+.+|++|. ...+...
T Consensus        92 -~i~~l~~~~~~----------------~p~~~~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl~~~  154 (367)
T PRK14970         92 -DIRNLIDQVRI----------------PPQTGKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKIIPT  154 (367)
T ss_pred             -HHHHHHHHHhh----------------ccccCCcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccCCHH
Confidence             11111111110                01123555899999966544456666666654444555655553 3222222


Q ss_pred             -hCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcch
Q 045152          334 -LGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLA  387 (533)
Q Consensus       334 -~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLa  387 (533)
                       ......+++++++.++....+...+...+ ..   --.+....+++.++|.+..
T Consensus       155 l~sr~~~v~~~~~~~~~l~~~l~~~~~~~g-~~---i~~~al~~l~~~~~gdlr~  205 (367)
T PRK14970        155 ILSRCQIFDFKRITIKDIKEHLAGIAVKEG-IK---FEDDALHIIAQKADGALRD  205 (367)
T ss_pred             HHhcceeEecCCccHHHHHHHHHHHHHHcC-CC---CCHHHHHHHHHhCCCCHHH
Confidence             22345789999999999888887664211 11   1145667788888886553

>PF13855 LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RFS_A 3G39_A 3VQ2_A 3VQ1_B 2Z64_A 2Z66_C 3FXI_A 2Z63_A

Probab=98.07  E-value=3.8e-06  Score=61.47  Aligned_cols=59  Identities=20%  Similarity=0.415  Sum_probs=49.7

Q ss_pred             CccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCc-CCCCCCCcceeeccCCc
Q 045152          445 TTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPD-SLLQITTLKELGMEGSP  506 (533)
Q Consensus       445 ~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~-~~~~l~~L~~L~~~~c~  506 (533)
                      ++|++|++++| .+..+|. ..+..+++|++|+|++ .+++.+|+ .+.++++|++|++++|+
T Consensus         1 p~L~~L~l~~n-~l~~i~~-~~f~~l~~L~~L~l~~-N~l~~i~~~~f~~l~~L~~L~l~~N~   60 (61)
T PF13855_consen    1 PNLESLDLSNN-KLTEIPP-DSFSNLPNLETLDLSN-NNLTSIPPDAFSNLPNLRYLDLSNNN   60 (61)
T ss_dssp             TTESEEEETSS-TESEECT-TTTTTGTTESEEEETS-SSESEEETTTTTTSTTESEEEETSSS
T ss_pred             CcCcEEECCCC-CCCccCH-HHHcCCCCCCEeEccC-CccCccCHHHHcCCCCCCEEeCcCCc
Confidence            46889999987 5888885 4677899999999996 68888885 67889999999999886

...

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

Probab=98.07  E-value=3.4e-05  Score=85.62  Aligned_cols=156  Identities=21%  Similarity=0.196  Sum_probs=85.6

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchh---hhccC-CceEEEEeCCchhHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDE---VKRNF-EKVIWVCVSDTFEEIRVA  257 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~---~~~~F-~~~~wv~vs~~~~~~~l~  257 (533)
                      .+++||+++++++++.|....      ..-+.++|++|+|||++|+.+.+.-.   +...+ ...+|..     +...+.
T Consensus       182 ~~~igr~~ei~~~~~~L~~~~------~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~-----~~~~l~  250 (731)
T TIGR02639       182 DPLIGREDELERTIQVLCRRK------KNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSL-----DMGSLL  250 (731)
T ss_pred             CcccCcHHHHHHHHHHHhcCC------CCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEe-----cHHHHh
Confidence            368999999999999885432      33467999999999999998886311   11111 3344421     111111


Q ss_pred             HHHHHHhCCCCCCCccHHHHHHHHHHHh-CCceEEEEEeCCCCCCc---------cccchhhhcccCCCCCceEEEEecc
Q 045152          258 KAIIEGLGVSASGLSEFESLMKQIQEYI-TRKKFFLVLDDVWDGDY---------KKWNPFFSCLKNGHHESKILITTRD  327 (533)
Q Consensus       258 ~~il~~l~~~~~~~~~~~~l~~~l~~~l-~~kr~LlVLDdv~~~~~---------~~~~~l~~~l~~~~~gs~IiiTtR~  327 (533)
                      .    .    .....+.+.....+.+.+ ..++.+|++|+++....         +.-+.+...+..+  .-++|-+|..
T Consensus       251 a----~----~~~~g~~e~~l~~i~~~~~~~~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l~~g--~i~~IgaTt~  320 (731)
T TIGR02639       251 A----G----TKYRGDFEERLKAVVSEIEKEPNAILFIDEIHTIVGAGATSGGSMDASNLLKPALSSG--KLRCIGSTTY  320 (731)
T ss_pred             h----h----ccccchHHHHHHHHHHHHhccCCeEEEEecHHHHhccCCCCCccHHHHHHHHHHHhCC--CeEEEEecCH
Confidence            0    0    000112222233333333 34678999999964210         1111233333221  2344444443


Q ss_pred             hHHHh------h-hCCCCeeeCCCCChHhhHHHHHHhh
Q 045152          328 RSVAL------Q-LGSIDIIPVKELAEEECWSLLERLA  358 (533)
Q Consensus       328 ~~v~~------~-~~~~~~~~l~~L~~~~~~~Lf~~~a  358 (533)
                      ++...      . ......+.++.++.++..++++...
T Consensus       321 ~e~~~~~~~d~al~rRf~~i~v~~p~~~~~~~il~~~~  358 (731)
T TIGR02639       321 EEYKNHFEKDRALSRRFQKIDVGEPSIEETVKILKGLK  358 (731)
T ss_pred             HHHHHHhhhhHHHHHhCceEEeCCCCHHHHHHHHHHHH
Confidence            22211      1 1224578999999999999998654

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=98.06  E-value=2.8e-05  Score=79.63  Aligned_cols=178  Identities=16%  Similarity=0.134  Sum_probs=97.4

Q ss_pred             CceeechhhHHHHHHHHhCCCcc-------CCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSE-------QQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEI  254 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~-------~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~  254 (533)
                      .++.|+++.++++.+.+...-..       +-..++.|.++|++|+|||++|+.+++.  ....     |+.++.    .
T Consensus       131 ~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~--~~~~-----~i~v~~----~  199 (389)
T PRK03992        131 EDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHE--TNAT-----FIRVVG----S  199 (389)
T ss_pred             HHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHH--hCCC-----EEEeeh----H
Confidence            46899999999998876321100       1134567899999999999999999873  2222     333221    1


Q ss_pred             HHHHHHHHHhCCCCCCCccHHHHHHHHHHHh-CCceEEEEEeCCCCCC-----------ccccchhhhccc---C--CCC
Q 045152          255 RVAKAIIEGLGVSASGLSEFESLMKQIQEYI-TRKKFFLVLDDVWDGD-----------YKKWNPFFSCLK---N--GHH  317 (533)
Q Consensus       255 ~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l-~~kr~LlVLDdv~~~~-----------~~~~~~l~~~l~---~--~~~  317 (533)
                      ++.    ....+      ........+.+.. ...+.+|+|||++...           ......+...+.   .  ...
T Consensus       200 ~l~----~~~~g------~~~~~i~~~f~~a~~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~~~~  269 (389)
T PRK03992        200 ELV----QKFIG------EGARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDPRG  269 (389)
T ss_pred             HHh----Hhhcc------chHHHHHHHHHHHHhcCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccCCCC
Confidence            111    11111      0111222222222 3467899999996421           001111222221   1  123


Q ss_pred             CceEEEEecchHHHh-hh----CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCc
Q 045152          318 ESKILITTRDRSVAL-QL----GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLP  385 (533)
Q Consensus       318 gs~IiiTtR~~~v~~-~~----~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlP  385 (533)
                      +..||.||...+... .+    .....+.+++.+.++-.++|+.+.... ......+    ...+++.+.|.-
T Consensus       270 ~v~VI~aTn~~~~ld~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~~~-~~~~~~~----~~~la~~t~g~s  337 (389)
T PRK03992        270 NVKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKM-NLADDVD----LEELAELTEGAS  337 (389)
T ss_pred             CEEEEEecCChhhCCHHHcCCccCceEEEECCCCHHHHHHHHHHHhccC-CCCCcCC----HHHHHHHcCCCC
Confidence            566777777643322 11    124578999999999999999876421 1111122    355677777755

>CHL00181 cbbX CbbX; Provisional

Probab=98.05  E-value=0.00024  Score=69.51  Aligned_cols=135  Identities=11%  Similarity=0.057  Sum_probs=72.5

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRK  288 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~k  288 (533)
                      ...+.++|++|+||||+|+.++........-...-|+.++..    ++    ...+.+..     .......+.. ..  
T Consensus        59 ~~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~~----~l----~~~~~g~~-----~~~~~~~l~~-a~--  122 (287)
T CHL00181         59 GLHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTRD----DL----VGQYIGHT-----APKTKEVLKK-AM--  122 (287)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecHH----HH----HHHHhccc-----hHHHHHHHHH-cc--
Confidence            445889999999999999999763111111111124444421    22    22221111     0111222222 22  


Q ss_pred             eEEEEEeCCCCC---------CccccchhhhcccCCCCCceEEEEecchHHHhhh--------CCCCeeeCCCCChHhhH
Q 045152          289 KFFLVLDDVWDG---------DYKKWNPFFSCLKNGHHESKILITTRDRSVALQL--------GSIDIIPVKELAEEECW  351 (533)
Q Consensus       289 r~LlVLDdv~~~---------~~~~~~~l~~~l~~~~~gs~IiiTtR~~~v~~~~--------~~~~~~~l~~L~~~~~~  351 (533)
                      .-+|+||++...         ..+....+...+.....+.+||+++....+....        .....+.+++++.++..
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            248999999642         0111223344444444556777777644332211        12457899999999999


Q ss_pred             HHHHHhhc
Q 045152          352 SLLERLAF  359 (533)
Q Consensus       352 ~Lf~~~a~  359 (533)
                      +++...+-
T Consensus       203 ~I~~~~l~  210 (287)
T CHL00181        203 QIAKIMLE  210 (287)
T ss_pred             HHHHHHHH
Confidence            99888764

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

Probab=98.04  E-value=5e-05  Score=71.37  Aligned_cols=175  Identities=22%  Similarity=0.216  Sum_probs=101.5

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAII  261 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il  261 (533)
                      .+|+|-+.-++.+.-++..... .+..+--+.++|++|.||||||.-+.+...+  .+    -++-.....-        
T Consensus        26 ~efiGQ~~vk~~L~ifI~AAk~-r~e~lDHvLl~GPPGlGKTTLA~IIA~Emgv--n~----k~tsGp~leK--------   90 (332)
T COG2255          26 DEFIGQEKVKEQLQIFIKAAKK-RGEALDHVLLFGPPGLGKTTLAHIIANELGV--NL----KITSGPALEK--------   90 (332)
T ss_pred             HHhcChHHHHHHHHHHHHHHHh-cCCCcCeEEeeCCCCCcHHHHHHHHHHHhcC--Ce----EecccccccC--------
Confidence            3689998888888777754432 4566889999999999999999999874322  21    1111111110        


Q ss_pred             HHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhccc--------CCCCCce-----------EE
Q 045152          262 EGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLK--------NGHHESK-----------IL  322 (533)
Q Consensus       262 ~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~--------~~~~gs~-----------Ii  322 (533)
                                  ..++...+- .|+ +.=++.+|.++..+...-+.+..+..        ..++++|           |=
T Consensus        91 ------------~gDlaaiLt-~Le-~~DVLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLppFTLIG  156 (332)
T COG2255          91 ------------PGDLAAILT-NLE-EGDVLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLPPFTLIG  156 (332)
T ss_pred             ------------hhhHHHHHh-cCC-cCCeEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCccceEeccCCCeeEee
Confidence                        111111111 122 23356678876644322222222211        1133343           33


Q ss_pred             EEecchHHHhhhCC--CCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhH
Q 045152          323 ITTRDRSVALQLGS--IDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAK  389 (533)
Q Consensus       323 iTtR~~~v~~~~~~--~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~  389 (533)
                      .|||.-.+...+..  .-+.+++.-+.+|-.++..+.+..-    ...--++-+.+|+++..|-|.-+.
T Consensus       157 ATTr~G~lt~PLrdRFGi~~rlefY~~~eL~~Iv~r~a~~l----~i~i~~~~a~eIA~rSRGTPRIAn  221 (332)
T COG2255         157 ATTRAGMLTNPLRDRFGIIQRLEFYTVEELEEIVKRSAKIL----GIEIDEEAALEIARRSRGTPRIAN  221 (332)
T ss_pred             eccccccccchhHHhcCCeeeeecCCHHHHHHHHHHHHHHh----CCCCChHHHHHHHHhccCCcHHHH
Confidence            48887544433322  3467888899999999998877321    111225668999999999997554

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.03  E-value=0.00017  Score=75.59  Aligned_cols=181  Identities=17%  Similarity=0.162  Sum_probs=104.4

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhh---h----------------ccCCceE
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEV---K----------------RNFEKVI  243 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~---~----------------~~F~~~~  243 (533)
                      +++|-+.-...+..++...     .-...+.++|+.|+||||+|+.+.....-   .                ..|...+
T Consensus        17 diiGq~~i~~~L~~~i~~~-----~i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~nc~~i~~g~~~d~~   91 (486)
T PRK14953         17 EVIGQEIVVRILKNAVKLQ-----RVSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENCVEIDKGSFPDLI   91 (486)
T ss_pred             HccChHHHHHHHHHHHHcC-----CCCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHHHHHhcCCCCcEE
Confidence            5789999999999888543     23456778999999999999887652110   0                0011112


Q ss_pred             EEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHH-hCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEE
Q 045152          244 WVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEY-ITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKIL  322 (533)
Q Consensus       244 wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~-l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~Ii  322 (533)
                      ++..+....                  ..+...+...+... ..+++-++|+|+++.......+.+...+........+|
T Consensus        92 eidaas~~g------------------vd~ir~I~~~~~~~P~~~~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~v~I  153 (486)
T PRK14953         92 EIDAASNRG------------------IDDIRALRDAVSYTPIKGKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTIFI  153 (486)
T ss_pred             EEeCccCCC------------------HHHHHHHHHHHHhCcccCCeeEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEE
Confidence            221111111                  11112222222111 13566799999997665555666777776554455555


Q ss_pred             EEe-cchHHHhh-hCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHH
Q 045152          323 ITT-RDRSVALQ-LGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKV  390 (533)
Q Consensus       323 iTt-R~~~v~~~-~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~  390 (533)
                      ++| +...+... ......+.+.+++.++....+.+.+-..+-    ..-.+....|++.++|.+..+..
T Consensus       154 l~tt~~~kl~~tI~SRc~~i~f~~ls~~el~~~L~~i~k~egi----~id~~al~~La~~s~G~lr~al~  219 (486)
T PRK14953        154 LCTTEYDKIPPTILSRCQRFIFSKPTKEQIKEYLKRICNEEKI----EYEEKALDLLAQASEGGMRDAAS  219 (486)
T ss_pred             EEECCHHHHHHHHHHhceEEEcCCCCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCCHHHHHH
Confidence            555 33333322 223457899999999988888876531111    11234567788888887764433

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=98.02  E-value=5.5e-05  Score=75.52  Aligned_cols=148  Identities=15%  Similarity=0.130  Sum_probs=84.6

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAII  261 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il  261 (533)
                      .+++|.++..+.+..++...     .-..++.++|++|+||||+|+.+++..  ..   ....++.+. ... +..+..+
T Consensus        21 ~~~~~~~~~~~~l~~~~~~~-----~~~~~lll~G~~G~GKT~la~~l~~~~--~~---~~~~i~~~~-~~~-~~i~~~l   88 (316)
T PHA02544         21 DECILPAADKETFKSIVKKG-----RIPNMLLHSPSPGTGKTTVAKALCNEV--GA---EVLFVNGSD-CRI-DFVRNRL   88 (316)
T ss_pred             HHhcCcHHHHHHHHHHHhcC-----CCCeEEEeeCcCCCCHHHHHHHHHHHh--Cc---cceEeccCc-ccH-HHHHHHH
Confidence            46899999999999988532     235677889999999999999998732  11   123344333 111 1111111


Q ss_pred             HHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCc-cccchhhhcccCCCCCceEEEEecchHH-Hhh-hCCCC
Q 045152          262 EGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDY-KKWNPFFSCLKNGHHESKILITTRDRSV-ALQ-LGSID  338 (533)
Q Consensus       262 ~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~-~~~~~l~~~l~~~~~gs~IiiTtR~~~v-~~~-~~~~~  338 (533)
                      ..+..             ..  .+.+.+-++|+||++.... .....+...+.....++++|+||..... ... .....
T Consensus        89 ~~~~~-------------~~--~~~~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~~l~~~l~sR~~  153 (316)
T PHA02544         89 TRFAS-------------TV--SLTGGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKNGIIEPLRSRCR  153 (316)
T ss_pred             HHHHH-------------hh--cccCCCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCChhhchHHHHhhce
Confidence            11100             00  0113455789999965522 2223344445444567788888865421 111 12234


Q ss_pred             eeeCCCCChHhhHHHHHH
Q 045152          339 IIPVKELAEEECWSLLER  356 (533)
Q Consensus       339 ~~~l~~L~~~~~~~Lf~~  356 (533)
                      .+.++..+.++..+++..
T Consensus       154 ~i~~~~p~~~~~~~il~~  171 (316)
T PHA02544        154 VIDFGVPTKEEQIEMMKQ  171 (316)
T ss_pred             EEEeCCCCHHHHHHHHHH
Confidence            677777777777666543

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=98.01  E-value=0.00013  Score=76.69  Aligned_cols=179  Identities=15%  Similarity=0.130  Sum_probs=107.8

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhh--hcc----------------CC-ce
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEV--KRN----------------FE-KV  242 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~--~~~----------------F~-~~  242 (533)
                      .+++|-+.-.+.+...+..+     .-...+.++|+.|+||||+|+.+.+..--  ...                +. .+
T Consensus        14 deiiGqe~v~~~L~~~I~~g-----rl~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C~~~~~~~h~dv   88 (535)
T PRK08451         14 DELIGQESVSKTLSLALDNN-----RLAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQCQSALENRHIDI   88 (535)
T ss_pred             HHccCcHHHHHHHHHHHHcC-----CCCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhhcCCCeE
Confidence            36899888888888888432     23456789999999999999877642100  000                00 11


Q ss_pred             EEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHH----hCCceEEEEEeCCCCCCccccchhhhcccCCCCC
Q 045152          243 IWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEY----ITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHE  318 (533)
Q Consensus       243 ~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~----l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~g  318 (533)
                      +.+..+..                     ...+.+...+...    ..+++-++|+|+++..+.+..+.|+..+......
T Consensus        89 ~eldaas~---------------------~gId~IRelie~~~~~P~~~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~  147 (535)
T PRK08451         89 IEMDAASN---------------------RGIDDIRELIEQTKYKPSMARFKIFIIDEVHMLTKEAFNALLKTLEEPPSY  147 (535)
T ss_pred             EEeccccc---------------------cCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHHhhcCCc
Confidence            11111111                     1122222222211    1245668999999887766777787777666666


Q ss_pred             ceEEEEecch-HHHh-hhCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHH
Q 045152          319 SKILITTRDR-SVAL-QLGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKV  390 (533)
Q Consensus       319 s~IiiTtR~~-~v~~-~~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~  390 (533)
                      +++|++|.+. .+.. .......+++.+++.++....+.+.+...+    ..--.+....|++.++|.+.-+..
T Consensus       148 t~FIL~ttd~~kL~~tI~SRc~~~~F~~Ls~~ei~~~L~~Il~~EG----i~i~~~Al~~Ia~~s~GdlR~aln  217 (535)
T PRK08451        148 VKFILATTDPLKLPATILSRTQHFRFKQIPQNSIISHLKTILEKEG----VSYEPEALEILARSGNGSLRDTLT  217 (535)
T ss_pred             eEEEEEECChhhCchHHHhhceeEEcCCCCHHHHHHHHHHHHHHcC----CCCCHHHHHHHHHHcCCcHHHHHH
Confidence            7777776653 2221 112256899999999999888876653211    111245567788888888855443

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.01  E-value=0.00012  Score=78.68  Aligned_cols=196  Identities=15%  Similarity=0.179  Sum_probs=105.2

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEE-eCCchhHHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVC-VSDTFEEIRVAKAI  260 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~-vs~~~~~~~l~~~i  260 (533)
                      .+++|-+.-+..|..++..+     .-...+.++|+.|+||||+|+.+.+.-.-...++.-.|.. +......-...+.+
T Consensus        16 ~eivGQe~i~~~L~~~i~~~-----ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~~~Cg~C~sC~~~   90 (620)
T PRK14954         16 ADITAQEHITHTIQNSLRMD-----RVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVTEPCGECESCRDF   90 (620)
T ss_pred             HHhcCcHHHHHHHHHHHHcC-----CCCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccCCCCccCHHHHHH
Confidence            36899888888888887432     2345688999999999999987765311111110000100 00000000011111


Q ss_pred             HHHhCC-----CCCCCccHHHHHHHHHHH----hCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEe-cchHH
Q 045152          261 IEGLGV-----SASGLSEFESLMKQIQEY----ITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITT-RDRSV  330 (533)
Q Consensus       261 l~~l~~-----~~~~~~~~~~l~~~l~~~----l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTt-R~~~v  330 (533)
                      ...-..     ........+++...+...    ..+++-++|+|+++..+....+.|...+......+.+|++| +...+
T Consensus        91 ~~g~~~n~~~~d~~s~~~vd~Ir~l~e~~~~~P~~~~~KVvIIdEad~Lt~~a~naLLK~LEePp~~tv~IL~t~~~~kL  170 (620)
T PRK14954         91 DAGTSLNISEFDAASNNSVDDIRQLRENVRYGPQKGRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFATTELHKI  170 (620)
T ss_pred             hccCCCCeEEecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEeChhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhh
Confidence            100000     000111123333222222    23455678999997766556777888777655556555544 43444


Q ss_pred             Hhh-hCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcc
Q 045152          331 ALQ-LGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPL  386 (533)
Q Consensus       331 ~~~-~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPL  386 (533)
                      ... ......+++.+++.++....+.+.+-..+.    .--.+.+..|++.++|..-
T Consensus       171 l~TI~SRc~~vef~~l~~~ei~~~L~~i~~~egi----~I~~eal~~La~~s~Gdlr  223 (620)
T PRK14954        171 PATIASRCQRFNFKRIPLDEIQSQLQMICRAEGI----QIDADALQLIARKAQGSMR  223 (620)
T ss_pred             hHHHHhhceEEecCCCCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHhCCCHH
Confidence            332 233678999999999988887765531111    1124456778888988554

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

Probab=97.99  E-value=0.00011  Score=71.78  Aligned_cols=166  Identities=18%  Similarity=0.244  Sum_probs=105.1

Q ss_pred             CCceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHH
Q 045152          181 EGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAI  260 (533)
Q Consensus       181 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i  260 (533)
                      ++.+.+|+.++..+...+...+.   .-++.|.|.|-.|.|||.+.+.+++..     =...+|+++-+.++...++..|
T Consensus         5 ~~~v~~Re~qi~~L~~Llg~~~~---~~PS~~~iyG~sgTGKT~~~r~~l~~~-----n~~~vw~n~~ecft~~~lle~I   76 (438)
T KOG2543|consen    5 EPNVPCRESQIRRLKSLLGNNSC---TIPSIVHIYGHSGTGKTYLVRQLLRKL-----NLENVWLNCVECFTYAILLEKI   76 (438)
T ss_pred             ccCccchHHHHHHHHHHhCCCCc---ccceeEEEeccCCCchhHHHHHHHhhc-----CCcceeeehHHhccHHHHHHHH
Confidence            46788999999999998865431   345667999999999999999999753     2246899999999999999999


Q ss_pred             HHHhCCCCCCC-------ccHHHHHHHHHH--Hh--CCceEEEEEeCCCCCCccccch-hhhc-c--c--CCCCCceEEE
Q 045152          261 IEGLGVSASGL-------SEFESLMKQIQE--YI--TRKKFFLVLDDVWDGDYKKWNP-FFSC-L--K--NGHHESKILI  323 (533)
Q Consensus       261 l~~l~~~~~~~-------~~~~~l~~~l~~--~l--~~kr~LlVLDdv~~~~~~~~~~-l~~~-l--~--~~~~gs~Iii  323 (533)
                      +.+.+..+.+.       .........+.+  ..  +++.++||||+++.-.  +.+. +... +  .  -..+.. .|+
T Consensus        77 L~~~~~~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~lr--D~~a~ll~~l~~L~el~~~~~i-~ii  153 (438)
T KOG2543|consen   77 LNKSQLADKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADALR--DMDAILLQCLFRLYELLNEPTI-VII  153 (438)
T ss_pred             HHHhccCCCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHhhh--ccchHHHHHHHHHHHHhCCCce-EEE
Confidence            99986322211       122333344443  12  2468999999995432  1221 1111 1  1  112223 344


Q ss_pred             Eecc--hHH-HhhhCC--CCeeeCCCCChHhhHHHHHHh
Q 045152          324 TTRD--RSV-ALQLGS--IDIIPVKELAEEECWSLLERL  357 (533)
Q Consensus       324 TtR~--~~v-~~~~~~--~~~~~l~~L~~~~~~~Lf~~~  357 (533)
                      ++-.  +.. ...++.  ...+..+.-+.++...++.+.
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 222344  345677888888888887653

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=97.99  E-value=0.00015  Score=78.47  Aligned_cols=187  Identities=18%  Similarity=0.238  Sum_probs=103.9

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCce---EEEE---eCCchhHHHH
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKV---IWVC---VSDTFEEIRV  256 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~---~wv~---vs~~~~~~~l  256 (533)
                      +++|-+.-++.+..++...     .-...+.++|+.|+||||+|+.+.... ...+....   +-.|   ....++..  
T Consensus        19 dIiGQe~~v~~L~~aI~~~-----rl~HAYLF~GP~GtGKTt~AriLAk~L-nC~~~~~~~~pC~~C~~~~~~~~Dvi--   90 (725)
T PRK07133         19 DIVGQDHIVQTLKNIIKSN-----KISHAYLFSGPRGTGKTSVAKIFANAL-NCSHKTDLLEPCQECIENVNNSLDII--   90 (725)
T ss_pred             HhcCcHHHHHHHHHHHHcC-----CCCeEEEEECCCCCcHHHHHHHHHHHh-cccccCCCCCchhHHHHhhcCCCcEE--
Confidence            5889988888999888533     235567899999999999998886521 11010000   0000   00000000  


Q ss_pred             HHHHHHHhCCCC-CCCccHHHHHHHHHHH-hCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEE-EecchHHHhh
Q 045152          257 AKAIIEGLGVSA-SGLSEFESLMKQIQEY-ITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILI-TTRDRSVALQ  333 (533)
Q Consensus       257 ~~~il~~l~~~~-~~~~~~~~l~~~l~~~-l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~Iii-TtR~~~v~~~  333 (533)
                            .+.... ....+..++...+... ..+++-++|+|+++......+..|...+......+.+|+ |+....+...
T Consensus        91 ------eidaasn~~vd~IReLie~~~~~P~~g~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifILaTte~~KLl~T  164 (725)
T PRK07133         91 ------EMDAASNNGVDEIRELIENVKNLPTQSKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVHKIPLT  164 (725)
T ss_pred             ------EEeccccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEEcCChhhhhHH
Confidence                  000000 0011122222222211 235666899999987766677777777765544555554 4444444432


Q ss_pred             -hCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcch
Q 045152          334 -LGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLA  387 (533)
Q Consensus       334 -~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLa  387 (533)
                       ......+++.+++.++....+...+-..+-    ..-.+.+..|++.++|.+.-
T Consensus       165 I~SRcq~ieF~~L~~eeI~~~L~~il~kegI----~id~eAl~~LA~lS~GslR~  215 (725)
T PRK07133        165 ILSRVQRFNFRRISEDEIVSRLEFILEKENI----SYEKNALKLIAKLSSGSLRD  215 (725)
T ss_pred             HHhhceeEEccCCCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCCHHH
Confidence             233568999999999998888775431111    11133467788888886643

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.98  E-value=8.5e-05  Score=83.48  Aligned_cols=154  Identities=21%  Similarity=0.157  Sum_probs=84.4

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchh---hhccC-CceEEEEeCCchhHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDE---VKRNF-EKVIWVCVSDTFEEIRVA  257 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~---~~~~F-~~~~wv~vs~~~~~~~l~  257 (533)
                      .+++||+++++++++.|....      ..-+.++|++|+|||++|+.+.....   +.... ...+|.-     +...++
T Consensus       179 ~~~igr~~ei~~~~~~L~r~~------~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l-----~~~~l~  247 (821)
T CHL00095        179 DPVIGREKEIERVIQILGRRT------KNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITL-----DIGLLL  247 (821)
T ss_pred             CCCCCcHHHHHHHHHHHcccc------cCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEe-----eHHHHh
Confidence            368999999999999996442      33457999999999999988876311   11111 2344531     222111


Q ss_pred             HHHHHHhCCCCCCCccHHHHHHHHHH-HhCCceEEEEEeCCCCCC-----cc--ccch-hhhcccCCCCCceEEEEecch
Q 045152          258 KAIIEGLGVSASGLSEFESLMKQIQE-YITRKKFFLVLDDVWDGD-----YK--KWNP-FFSCLKNGHHESKILITTRDR  328 (533)
Q Consensus       258 ~~il~~l~~~~~~~~~~~~l~~~l~~-~l~~kr~LlVLDdv~~~~-----~~--~~~~-l~~~l~~~~~gs~IiiTtR~~  328 (533)
                      .       +. ....+.++....+.+ .-..++.+|++|+++...     ..  .... |...+..+  .-++|.+|..+
T Consensus       248 a-------g~-~~~ge~e~rl~~i~~~~~~~~~~ILfiDEih~l~~~g~~~g~~~~a~lLkp~l~rg--~l~~IgaTt~~  317 (821)
T CHL00095        248 A-------GT-KYRGEFEERLKRIFDEIQENNNIILVIDEVHTLIGAGAAEGAIDAANILKPALARG--ELQCIGATTLD  317 (821)
T ss_pred             c-------cC-CCccHHHHHHHHHHHHHHhcCCeEEEEecHHHHhcCCCCCCcccHHHHhHHHHhCC--CcEEEEeCCHH
Confidence            1       11 111222222222222 223568899999996321     00  1111 22222222  24455555554


Q ss_pred             HHHhh-------hCCCCeeeCCCCChHhhHHHHHH
Q 045152          329 SVALQ-------LGSIDIIPVKELAEEECWSLLER  356 (533)
Q Consensus       329 ~v~~~-------~~~~~~~~l~~L~~~~~~~Lf~~  356 (533)
                      .....       ......+.++..+.++...++..
T Consensus       318 ey~~~ie~D~aL~rRf~~I~v~ep~~~e~~aILr~  352 (821)
T CHL00095        318 EYRKHIEKDPALERRFQPVYVGEPSVEETIEILFG  352 (821)
T ss_pred             HHHHHHhcCHHHHhcceEEecCCCCHHHHHHHHHH
Confidence            43221       12245688888999998888764

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.97  E-value=0.00019  Score=77.48  Aligned_cols=193  Identities=16%  Similarity=0.171  Sum_probs=106.2

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHH
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIE  262 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~  262 (533)
                      +++|.+.-...|..++....     -...+.++|+.|+||||+|+.+.+...- ...+...    ..........+.+..
T Consensus        17 ~liGq~~i~~~L~~~l~~~r-----l~~a~Lf~Gp~G~GKttlA~~lAk~L~c-~~~~~~~----~~~Cg~C~~C~~i~~   86 (620)
T PRK14948         17 ELVGQEAIATTLKNALISNR-----IAPAYLFTGPRGTGKTSSARILAKSLNC-LNSDKPT----PEPCGKCELCRAIAA   86 (620)
T ss_pred             hccChHHHHHHHHHHHHcCC-----CCceEEEECCCCCChHHHHHHHHHHhcC-CCcCCCC----CCCCcccHHHHHHhc
Confidence            57899988999988885432     2356789999999999999988763211 1110000    000011111122211


Q ss_pred             HhCC-----CCCCCccHHHHHHHHHHH----hCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecc-hHHHh
Q 045152          263 GLGV-----SASGLSEFESLMKQIQEY----ITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRD-RSVAL  332 (533)
Q Consensus       263 ~l~~-----~~~~~~~~~~l~~~l~~~----l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~-~~v~~  332 (533)
                      ....     ........+.+.+.+...    ..+++-++|+|+++..+...++.|+..+......+.+|++|.+ ..+..
T Consensus        87 g~h~D~~ei~~~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t~~~~~llp  166 (620)
T PRK14948         87 GNALDVIEIDAASNTGVDNIRELIERAQFAPVQARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATTDPQRVLP  166 (620)
T ss_pred             CCCccEEEEeccccCCHHHHHHHHHHHhhChhcCCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEeCChhhhhH
Confidence            1100     000111222222222111    1245568899999877666677787777655455555555544 33332


Q ss_pred             hh-CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhH
Q 045152          333 QL-GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAK  389 (533)
Q Consensus       333 ~~-~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~  389 (533)
                      .+ .....+++..++.++....+.+.+...+. .   --.+....|++.++|.+..+.
T Consensus       167 TIrSRc~~~~f~~l~~~ei~~~L~~ia~kegi-~---is~~al~~La~~s~G~lr~A~  220 (620)
T PRK14948        167 TIISRCQRFDFRRIPLEAMVQHLSEIAEKESI-E---IEPEALTLVAQRSQGGLRDAE  220 (620)
T ss_pred             HHHhheeEEEecCCCHHHHHHHHHHHHHHhCC-C---CCHHHHHHHHHHcCCCHHHHH
Confidence            22 23567888899998888777765531111 1   113456788888888775443

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=97.96  E-value=9.7e-05  Score=71.52  Aligned_cols=161  Identities=14%  Similarity=0.109  Sum_probs=79.9

Q ss_pred             ceeechhhHHHHHHHHhC---C------CccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhH
Q 045152          183 EVCGRVEEKNELLSKLLC---E------SSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEE  253 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~---~------~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~  253 (533)
                      .++|.+..++.+.+....   .      .-...+....+.++|++|+||||+|+.+.+...-...-....++.++..   
T Consensus         7 ~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l~~~~~~~~~~~v~~~~~---   83 (261)
T TIGR02881         7 RMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLFKEMNVLSKGHLIEVERA---   83 (261)
T ss_pred             HhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHHHhcCcccCCceEEecHH---
Confidence            478888777666543211   0      0001234567889999999999999999763110010111123332221   


Q ss_pred             HHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCc--------cccchhhhcccCCCCCceEEEEe
Q 045152          254 IRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDY--------KKWNPFFSCLKNGHHESKILITT  325 (533)
Q Consensus       254 ~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~--------~~~~~l~~~l~~~~~gs~IiiTt  325 (533)
                       ++.    ....+.     ........+.. ..  .-+|+||+++.-..        +..+.+...+........+|+++
T Consensus        84 -~l~----~~~~g~-----~~~~~~~~~~~-a~--~~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~~~~~~~vila~  150 (261)
T TIGR02881        84 -DLV----GEYIGH-----TAQKTREVIKK-AL--GGVLFIDEAYSLARGGEKDFGKEAIDTLVKGMEDNRNEFVLILAG  150 (261)
T ss_pred             -Hhh----hhhccc-----hHHHHHHHHHh-cc--CCEEEEechhhhccCCccchHHHHHHHHHHHHhccCCCEEEEecC
Confidence             111    111100     01112222222 12  24889999965221        12233433333333333455555


Q ss_pred             cchHHHh------hh-CC-CCeeeCCCCChHhhHHHHHHhhc
Q 045152          326 RDRSVAL------QL-GS-IDIIPVKELAEEECWSLLERLAF  359 (533)
Q Consensus       326 R~~~v~~------~~-~~-~~~~~l~~L~~~~~~~Lf~~~a~  359 (533)
                      .......      .+ .. ...+++++++.++..+++.+.+.
T Consensus       151 ~~~~~~~~~~~~p~L~sRf~~~i~f~~~~~~el~~Il~~~~~  192 (261)
T TIGR02881       151 YSDEMDYFLSLNPGLRSRFPISIDFPDYTVEELMEIAERMVK  192 (261)
T ss_pred             CcchhHHHHhcChHHHhccceEEEECCCCHHHHHHHHHHHHH
Confidence            4332211      11 11 34688999999999999987764

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.

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.96  E-value=0.00016  Score=78.07  Aligned_cols=176  Identities=16%  Similarity=0.176  Sum_probs=106.5

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchh---------------------hhccCC
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDE---------------------VKRNFE  240 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~---------------------~~~~F~  240 (533)
                      .+++|-+...+.|..++...     .-...+.++|+.|+||||+|+.+.....                     ...+|+
T Consensus        17 ~~viGq~~~~~~L~~~i~~~-----~l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~~~~~~~n   91 (614)
T PRK14971         17 ESVVGQEALTTTLKNAIATN-----KLAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAFNEQRSYN   91 (614)
T ss_pred             HHhcCcHHHHHHHHHHHHcC-----CCCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHHhcCCCCc
Confidence            36899999999999988532     2345688999999999999977654211                     011222


Q ss_pred             ceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHH----hCCceEEEEEeCCCCCCccccchhhhcccCCC
Q 045152          241 KVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEY----ITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGH  316 (533)
Q Consensus       241 ~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~----l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~  316 (533)
                      . ..+..+....                     .+++...+.+.    ..+++-++|+|+++..+...++.|...+....
T Consensus        92 ~-~~ld~~~~~~---------------------vd~Ir~li~~~~~~P~~~~~KVvIIdea~~Ls~~a~naLLK~LEepp  149 (614)
T PRK14971         92 I-HELDAASNNS---------------------VDDIRNLIEQVRIPPQIGKYKIYIIDEVHMLSQAAFNAFLKTLEEPP  149 (614)
T ss_pred             e-EEecccccCC---------------------HHHHHHHHHHHhhCcccCCcEEEEEECcccCCHHHHHHHHHHHhCCC
Confidence            1 1122111111                     12222222111    12355588999998776667778888887665


Q ss_pred             CCceEEEEe-cchHHHhhh-CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchh
Q 045152          317 HESKILITT-RDRSVALQL-GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAA  388 (533)
Q Consensus       317 ~gs~IiiTt-R~~~v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai  388 (533)
                      ..+.+|++| ....+...+ .....+++++++.++....+.+.+-..+ .   .--.+....|++.++|...-+
T Consensus       150 ~~tifIL~tt~~~kIl~tI~SRc~iv~f~~ls~~ei~~~L~~ia~~eg-i---~i~~~al~~La~~s~gdlr~a  219 (614)
T PRK14971        150 SYAIFILATTEKHKILPTILSRCQIFDFNRIQVADIVNHLQYVASKEG-I---TAEPEALNVIAQKADGGMRDA  219 (614)
T ss_pred             CCeEEEEEeCCchhchHHHHhhhheeecCCCCHHHHHHHHHHHHHHcC-C---CCCHHHHHHHHHHcCCCHHHH
Confidence            566666544 444444332 3356799999999999888887653111 1   111345677888888866433

>KOG0617 consensus Ras suppressor protein (contains leucine-rich repeats) [Signal transduction mechanisms]

Probab=97.94  E-value=7.5e-07  Score=77.03  Aligned_cols=85  Identities=29%  Similarity=0.382  Sum_probs=72.7

Q ss_pred             ccccccceEEEeecC-CcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCC
Q 045152          418 SIMPCLSVLRVYLCP-KLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITT  496 (533)
Q Consensus       418 ~ilp~L~~L~l~~c~-~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~  496 (533)
                      ..+|.|.+|++.|.. +-..||..+..++.|+.|.+++ ..++-+|  +++++|++||.|.+++ ..|-+||..++.|+.
T Consensus        99 gs~p~levldltynnl~e~~lpgnff~m~tlralyl~d-ndfe~lp--~dvg~lt~lqil~lrd-ndll~lpkeig~lt~  174 (264)
T KOG0617|consen   99 GSFPALEVLDLTYNNLNENSLPGNFFYMTTLRALYLGD-NDFEILP--PDVGKLTNLQILSLRD-NDLLSLPKEIGDLTR  174 (264)
T ss_pred             CCCchhhhhhccccccccccCCcchhHHHHHHHHHhcC-CCcccCC--hhhhhhcceeEEeecc-CchhhCcHHHHHHHH
Confidence            458889999998832 2256898888999999999985 4488899  8999999999999999 899999999999999


Q ss_pred             cceeeccCCc
Q 045152          497 LKELGMEGSP  506 (533)
Q Consensus       497 L~~L~~~~c~  506 (533)
                      |++|+|.|+.
T Consensus       175 lrelhiqgnr  184 (264)
T KOG0617|consen  175 LRELHIQGNR  184 (264)
T ss_pred             HHHHhcccce
Confidence            9999998873

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=97.94  E-value=0.00024  Score=73.49  Aligned_cols=180  Identities=17%  Similarity=0.170  Sum_probs=99.8

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcchhhhccC--CceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhC
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNNDEVKRNF--EKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYIT  286 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F--~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~  286 (533)
                      ...+.|+|+.|+|||+|++.+++.  +....  ..+++++      ..++...+...+...     ....    +.+.+.
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~~--l~~~~~~~~v~yi~------~~~~~~~~~~~~~~~-----~~~~----~~~~~~  198 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGNE--ILENNPNAKVVYVS------SEKFTNDFVNALRNN-----KMEE----FKEKYR  198 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHH--HHHhCCCCcEEEEE------HHHHHHHHHHHHHcC-----CHHH----HHHHHH
Confidence            456899999999999999999984  33322  2345554      233444455444321     1222    222332


Q ss_pred             CceEEEEEeCCCCCCcccc--chhhhcccC-CCCCceEEEEecc-hHHH--------hhhCCCCeeeCCCCChHhhHHHH
Q 045152          287 RKKFFLVLDDVWDGDYKKW--NPFFSCLKN-GHHESKILITTRD-RSVA--------LQLGSIDIIPVKELAEEECWSLL  354 (533)
Q Consensus       287 ~kr~LlVLDdv~~~~~~~~--~~l~~~l~~-~~~gs~IiiTtR~-~~v~--------~~~~~~~~~~l~~L~~~~~~~Lf  354 (533)
                      + .-+|+|||++......+  +.+...+.. ...|..+|+|+.. +...        ..+.....+.+++.+.++-..++
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 34899999965322111  223333321 1235568887764 2211        12222346899999999999999


Q ss_pred             HHhhccCCCccccccchHHHHHHHhHhCCCcchhHH----HH---HHhhcccchHHHHHHHhh
Q 045152          355 ERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKV----IW---NLLRSKSTVKEWQRILDS  410 (533)
Q Consensus       355 ~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~----~~---~~L~~~~~~~~w~~~l~~  410 (533)
                      .+.+....    ..--+++...|++.+.|....+.-    +.   ......-+.+..+.++..
T Consensus       278 ~~~~~~~~----~~l~~e~l~~ia~~~~~~~r~l~~~l~~l~~~a~~~~~~it~~~~~~~L~~  336 (405)
T TIGR00362       278 QKKAEEEG----LELPDEVLEFIAKNIRSNVRELEGALNRLLAYASLTGKPITLELAKEALKD  336 (405)
T ss_pred             HHHHHHcC----CCCCHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHH
Confidence            98874221    111256677888888887664332    21   111122255666666653

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).

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.93  E-value=0.0001  Score=79.27  Aligned_cols=189  Identities=14%  Similarity=0.201  Sum_probs=102.2

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAII  261 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il  261 (533)
                      .+++|-+.-...|...+...     .-...+.++|+.|+||||+|+.+.+...-....+.       .+.+.......|.
T Consensus        16 ~~iiGq~~v~~~L~~~i~~~-----~~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~-------~~c~~c~~c~~i~   83 (576)
T PRK14965         16 SDLTGQEHVSRTLQNAIDTG-----RVAHAFLFTGARGVGKTSTARILAKALNCEQGLTA-------EPCNVCPPCVEIT   83 (576)
T ss_pred             HHccCcHHHHHHHHHHHHcC-----CCCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCC-------CCCCccHHHHHHh
Confidence            36899998889998888532     23456789999999999999888653110000000       0000000000010


Q ss_pred             HH-------hCCC-CCCCccHHHHHHHHHHH-hCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEe-cchHHH
Q 045152          262 EG-------LGVS-ASGLSEFESLMKQIQEY-ITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITT-RDRSVA  331 (533)
Q Consensus       262 ~~-------l~~~-~~~~~~~~~l~~~l~~~-l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTt-R~~~v~  331 (533)
                      ..       +... .....+..++...+... ..+++-++|+|+++..+....+.|...+......+.+|++| ....+.
T Consensus        84 ~g~~~d~~eid~~s~~~v~~ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fIl~t~~~~kl~  163 (576)
T PRK14965         84 EGRSVDVFEIDGASNTGVDDIRELRENVKYLPSRSRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATTEPHKVP  163 (576)
T ss_pred             cCCCCCeeeeeccCccCHHHHHHHHHHHHhccccCCceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEEEEeCChhhhh
Confidence            00       0000 00011122222222111 13455688999998776666777877776655566666554 444444


Q ss_pred             hhh-CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcc
Q 045152          332 LQL-GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPL  386 (533)
Q Consensus       332 ~~~-~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPL  386 (533)
                      ..+ .....+++.+++.++....+...+-..+-    .--.+....|++.++|...
T Consensus       164 ~tI~SRc~~~~f~~l~~~~i~~~L~~i~~~egi----~i~~~al~~la~~a~G~lr  215 (576)
T PRK14965        164 ITILSRCQRFDFRRIPLQKIVDRLRYIADQEGI----SISDAALALVARKGDGSMR  215 (576)
T ss_pred             HHHHHhhhhhhcCCCCHHHHHHHHHHHHHHhCC----CCCHHHHHHHHHHcCCCHH
Confidence            322 23567889999999888777765421111    1113445677788887653

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=97.92  E-value=0.00016  Score=75.39  Aligned_cols=177  Identities=17%  Similarity=0.195  Sum_probs=101.8

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhh---------------------ccCC
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVK---------------------RNFE  240 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~---------------------~~F~  240 (533)
                      .+++|.+..++.+..++...     .-...+.++|+.|+||||+|+.+.+...-.                     .+++
T Consensus        17 ~diiGq~~~v~~L~~~i~~~-----~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~~i~~~~~~d   91 (451)
T PRK06305         17 SEILGQDAVVAVLKNALRFN-----RAAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCKEISSGTSLD   91 (451)
T ss_pred             HHhcCcHHHHHHHHHHHHcC-----CCceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHHHHhcCCCCc
Confidence            36899999999999888532     224678899999999999998876521100                     0111


Q ss_pred             ceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHH-HhCCceEEEEEeCCCCCCccccchhhhcccCCCCCc
Q 045152          241 KVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQE-YITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHES  319 (533)
Q Consensus       241 ~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~-~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs  319 (533)
                       .+++........                  .+...+...+.. ...+++-++|+|+++.......+.|...+......+
T Consensus        92 -~~~i~g~~~~gi------------------d~ir~i~~~l~~~~~~~~~kvvIIdead~lt~~~~n~LLk~lEep~~~~  152 (451)
T PRK06305         92 -VLEIDGASHRGI------------------EDIRQINETVLFTPSKSRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHV  152 (451)
T ss_pred             -eEEeeccccCCH------------------HHHHHHHHHHHhhhhcCCCEEEEEecHHhhCHHHHHHHHHHhhcCCCCc
Confidence             111111001001                  111111111111 113566788999997655445566777776655566


Q ss_pred             eEEEEecc-hHHHhh-hCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcc
Q 045152          320 KILITTRD-RSVALQ-LGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPL  386 (533)
Q Consensus       320 ~IiiTtR~-~~v~~~-~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPL  386 (533)
                      .+|++|.. ..+... ......+++++++.++....+...+-..+ .   .--.+....|++.++|.+.
T Consensus       153 ~~Il~t~~~~kl~~tI~sRc~~v~f~~l~~~el~~~L~~~~~~eg-~---~i~~~al~~L~~~s~gdlr  217 (451)
T PRK06305        153 KFFLATTEIHKIPGTILSRCQKMHLKRIPEETIIDKLALIAKQEG-I---ETSREALLPIARAAQGSLR  217 (451)
T ss_pred             eEEEEeCChHhcchHHHHhceEEeCCCCCHHHHHHHHHHHHHHcC-C---CCCHHHHHHHHHHcCCCHH
Confidence            66666643 323222 22356789999999998888877653111 1   1123456778888888654

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

Probab=97.89  E-value=0.00011  Score=68.48  Aligned_cols=125  Identities=21%  Similarity=0.256  Sum_probs=73.3

Q ss_pred             cCCceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHH
Q 045152          180 DEGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKA  259 (533)
Q Consensus       180 ~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~  259 (533)
                      .-.+++|.+.+++.|.+-....-  ......-+.++|..|.|||+|++.+.+...-+.    .--|.|...         
T Consensus        25 ~l~~L~Gie~Qk~~l~~Nt~~Fl--~G~pannvLL~G~rGtGKSSlVkall~~y~~~G----LRlIev~k~---------   89 (249)
T PF05673_consen   25 RLDDLIGIERQKEALIENTEQFL--QGLPANNVLLWGARGTGKSSLVKALLNEYADQG----LRLIEVSKE---------   89 (249)
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHH--cCCCCcceEEecCCCCCHHHHHHHHHHHHhhcC----ceEEEECHH---------
Confidence            34579999999988877543222  123456778899999999999999986321111    112222221         


Q ss_pred             HHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCC-CCccccchhhhcccCC----CCCceEEEEecchHHH
Q 045152          260 IIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWD-GDYKKWNPFFSCLKNG----HHESKILITTRDRSVA  331 (533)
Q Consensus       260 il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~-~~~~~~~~l~~~l~~~----~~gs~IiiTtR~~~v~  331 (533)
                                +..++..+...++.  ...||+|.+||+-= .....+..|.+.|..+    .....|..||...+..
T Consensus        90 ----------~L~~l~~l~~~l~~--~~~kFIlf~DDLsFe~~d~~yk~LKs~LeGgle~~P~NvliyATSNRRHLv  154 (249)
T PF05673_consen   90 ----------DLGDLPELLDLLRD--RPYKFILFCDDLSFEEGDTEYKALKSVLEGGLEARPDNVLIYATSNRRHLV  154 (249)
T ss_pred             ----------HhccHHHHHHHHhc--CCCCEEEEecCCCCCCCcHHHHHHHHHhcCccccCCCcEEEEEecchhhcc
Confidence                      12233334444432  45799999999842 2234566666666533    2334455566555443

>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=97.89  E-value=3.2e-05  Score=66.17  Aligned_cols=21  Identities=48%  Similarity=0.477  Sum_probs=19.3

Q ss_pred             EEEEcCCCChHHHHHHHHhcc
Q 045152          212 ISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~  232 (533)
                      |.|+|++|+||||+|+.+.+.
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            579999999999999999974

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 ....

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=97.85  E-value=0.00017  Score=70.56  Aligned_cols=133  Identities=12%  Similarity=0.069  Sum_probs=71.2

Q ss_pred             EEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceE
Q 045152          211 VISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKF  290 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~  290 (533)
                      .+.++|++|.||||+|+.+.....-........|+.++.    .++    +..+.+..     .......+.+ .  ..-
T Consensus        60 ~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~----~~l----~~~~~g~~-----~~~~~~~~~~-a--~~g  123 (284)
T TIGR02880        60 HMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVTR----DDL----VGQYIGHT-----APKTKEILKR-A--MGG  123 (284)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEecH----HHH----hHhhcccc-----hHHHHHHHHH-c--cCc
Confidence            588999999999999977765211111111112444442    122    22222211     1112222222 2  235


Q ss_pred             EEEEeCCCCC---------CccccchhhhcccCCCCCceEEEEecchHHHhhh--C------CCCeeeCCCCChHhhHHH
Q 045152          291 FLVLDDVWDG---------DYKKWNPFFSCLKNGHHESKILITTRDRSVALQL--G------SIDIIPVKELAEEECWSL  353 (533)
Q Consensus       291 LlVLDdv~~~---------~~~~~~~l~~~l~~~~~gs~IiiTtR~~~v~~~~--~------~~~~~~l~~L~~~~~~~L  353 (533)
                      +|+||++...         ..+.++.+...+.....+.+||+++.........  .      ....+++++++.+|..++
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            8899999632         0112334445554444566677776543222111  1      135689999999999999


Q ss_pred             HHHhhc
Q 045152          354 LERLAF  359 (533)
Q Consensus       354 f~~~a~  359 (533)
                      +.+.+-
T Consensus       204 ~~~~l~  209 (284)
T TIGR02880       204 AGLMLK  209 (284)
T ss_pred             HHHHHH
Confidence            988763

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.

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=97.82  E-value=0.00017  Score=74.93  Aligned_cols=159  Identities=15%  Similarity=0.150  Sum_probs=91.4

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcchhhhcc-CC-ceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhC
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNNDEVKRN-FE-KVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYIT  286 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~-F~-~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~  286 (533)
                      ...+.|+|++|+|||+|++.+.+.  +... .. .++|++      ..++..++...+...     ...    .+.+...
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~~--l~~~~~~~~v~yi~------~~~f~~~~~~~~~~~-----~~~----~f~~~~~  192 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGNY--VVQNEPDLRVMYIT------SEKFLNDLVDSMKEG-----KLN----EFREKYR  192 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHHH--HHHhCCCCeEEEEE------HHHHHHHHHHHHhcc-----cHH----HHHHHHH
Confidence            446999999999999999999984  3332 23 345554      344555565555321     122    2223333


Q ss_pred             CceEEEEEeCCCCCCc-ccc-chhhhcccC-CCCCceEEEEec-chHHH--------hhhCCCCeeeCCCCChHhhHHHH
Q 045152          287 RKKFFLVLDDVWDGDY-KKW-NPFFSCLKN-GHHESKILITTR-DRSVA--------LQLGSIDIIPVKELAEEECWSLL  354 (533)
Q Consensus       287 ~kr~LlVLDdv~~~~~-~~~-~~l~~~l~~-~~~gs~IiiTtR-~~~v~--------~~~~~~~~~~l~~L~~~~~~~Lf  354 (533)
                      .+.-+|+|||+..... ..+ +.+...+.. ...|..||+||. .+.-.        ..+.....+.+++.+.+.-..++
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            3456899999964311 111 123222221 122456888874 33221        12233457889999999999999


Q ss_pred             HHhhccCCCccccccchHHHHHHHhHhCCCcchh
Q 045152          355 ERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAA  388 (533)
Q Consensus       355 ~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai  388 (533)
                      ++.+.... ..   --+++...|++.+.|.-..+
T Consensus       273 ~~~~~~~~-~~---l~~ev~~~Ia~~~~~~~R~L  302 (440)
T PRK14088        273 RKMLEIEH-GE---LPEEVLNFVAENVDDNLRRL  302 (440)
T ss_pred             HHHHHhcC-CC---CCHHHHHHHHhccccCHHHH
Confidence            98874211 11   12456777888877765443

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=97.82  E-value=0.00016  Score=75.11  Aligned_cols=154  Identities=20%  Similarity=0.202  Sum_probs=85.7

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRK  288 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~k  288 (533)
                      ...+.|+|+.|+|||+|++.+.+.  +......+++++      ...+...+...+...     .    ...++.... .
T Consensus       141 ~npl~L~G~~G~GKTHLl~Ai~~~--l~~~~~~v~yi~------~~~f~~~~~~~l~~~-----~----~~~f~~~~~-~  202 (445)
T PRK12422        141 FNPIYLFGPEGSGKTHLMQAAVHA--LRESGGKILYVR------SELFTEHLVSAIRSG-----E----MQRFRQFYR-N  202 (445)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHH--HHHcCCCEEEee------HHHHHHHHHHHHhcc-----h----HHHHHHHcc-c
Confidence            457889999999999999999984  322223445554      233444555544321     1    122333333 3


Q ss_pred             eEEEEEeCCCCCCcccc--chhhhcccC-CCCCceEEEEecc-hH--------HHhhhCCCCeeeCCCCChHhhHHHHHH
Q 045152          289 KFFLVLDDVWDGDYKKW--NPFFSCLKN-GHHESKILITTRD-RS--------VALQLGSIDIIPVKELAEEECWSLLER  356 (533)
Q Consensus       289 r~LlVLDdv~~~~~~~~--~~l~~~l~~-~~~gs~IiiTtR~-~~--------v~~~~~~~~~~~l~~L~~~~~~~Lf~~  356 (533)
                      .-+|++||+.......+  +.+...+.. ...|..||+||.. +.        +...+.....+.+.+++.++...++.+
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            45888999965432222  223332221 1235578888854 21        122223346789999999999999998


Q ss_pred             hhccCCCccccccchHHHHHHHhHhCCC
Q 045152          357 LAFFRRSVDDHEKLEPIGRKIAHKCKGL  384 (533)
Q Consensus       357 ~a~~~~~~~~~~~l~~~~~~I~~~c~Gl  384 (533)
                      .+-..+ ...   -.++..-|+..+.|.
T Consensus       283 k~~~~~-~~l---~~evl~~la~~~~~d  306 (445)
T PRK12422        283 KAEALS-IRI---EETALDFLIEALSSN  306 (445)
T ss_pred             HHHHcC-CCC---CHHHHHHHHHhcCCC
Confidence            774221 111   134445555555543

>PRK06620 hypothetical protein; Validated

Probab=97.81  E-value=0.0002  Score=66.91  Aligned_cols=135  Identities=16%  Similarity=0.119  Sum_probs=78.4

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCce
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKK  289 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr  289 (533)
                      ..+.|+|++|+|||+|++.+.+...       ..++.  ..+..                     .       +.. ...
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~~-------~~~~~--~~~~~---------------------~-------~~~-~~~   86 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLSN-------AYIIK--DIFFN---------------------E-------EIL-EKY   86 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhccC-------CEEcc--hhhhc---------------------h-------hHH-hcC
Confidence            6789999999999999998876421       12221  10000                     0       001 123


Q ss_pred             EEEEEeCCCCCCccccchhhhcccC-CCCCceEEEEecch-------HHHhhhCCCCeeeCCCCChHhhHHHHHHhhccC
Q 045152          290 FFLVLDDVWDGDYKKWNPFFSCLKN-GHHESKILITTRDR-------SVALQLGSIDIIPVKELAEEECWSLLERLAFFR  361 (533)
Q Consensus       290 ~LlVLDdv~~~~~~~~~~l~~~l~~-~~~gs~IiiTtR~~-------~v~~~~~~~~~~~l~~L~~~~~~~Lf~~~a~~~  361 (533)
                      -++++||++....   ..+...+.. ...|..||+|++.+       +....+.....+++++++.++-..++.+.+.. 
T Consensus        87 d~lliDdi~~~~~---~~lf~l~N~~~e~g~~ilits~~~p~~l~l~~L~SRl~~gl~~~l~~pd~~~~~~~l~k~~~~-  162 (214)
T PRK06620         87 NAFIIEDIENWQE---PALLHIFNIINEKQKYLLLTSSDKSRNFTLPDLSSRIKSVLSILLNSPDDELIKILIFKHFSI-  162 (214)
T ss_pred             CEEEEeccccchH---HHHHHHHHHHHhcCCEEEEEcCCCccccchHHHHHHHhCCceEeeCCCCHHHHHHHHHHHHHH-
Confidence            4788999953211   122222211 13466889988743       22233344558999999999988888877641 


Q ss_pred             CCccccccchHHHHHHHhHhCCCcchhH
Q 045152          362 RSVDDHEKLEPIGRKIAHKCKGLPLAAK  389 (533)
Q Consensus       362 ~~~~~~~~l~~~~~~I~~~c~GlPLai~  389 (533)
                      ..   -.--+++..-|++.+.|.-..+.
T Consensus       163 ~~---l~l~~ev~~~L~~~~~~d~r~l~  187 (214)
T PRK06620        163 SS---VTISRQIIDFLLVNLPREYSKII  187 (214)
T ss_pred             cC---CCCCHHHHHHHHHHccCCHHHHH
Confidence            11   11125667778888877655443

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=97.81  E-value=0.00049  Score=73.45  Aligned_cols=190  Identities=12%  Similarity=0.095  Sum_probs=106.6

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHH
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIE  262 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~  262 (533)
                      +++|-+.-++.+..++...     .-...+.++|+.|+||||+|+.+.+...-......   ..+....+-    +.|..
T Consensus        17 diiGqe~iv~~L~~~i~~~-----~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~---~pC~~C~~C----~~i~~   84 (563)
T PRK06647         17 SLEGQDFVVETLKHSIESN-----KIANAYIFSGPRGVGKTSSARAFARCLNCVNGPTP---MPCGECSSC----KSIDN   84 (563)
T ss_pred             HccCcHHHHHHHHHHHHcC-----CCCeEEEEECCCCCCHHHHHHHHHHhhccccCCCC---CCCccchHH----HHHHc
Confidence            6899998899999988533     23557889999999999999988763111100000   000000000    11110


Q ss_pred             HhC-----CCCCCCccHHHHHHHH---HH-HhCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecc-hHHHh
Q 045152          263 GLG-----VSASGLSEFESLMKQI---QE-YITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRD-RSVAL  332 (533)
Q Consensus       263 ~l~-----~~~~~~~~~~~l~~~l---~~-~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~-~~v~~  332 (533)
                      .-.     .........+++....   .. -..+++-++|+|+++..+...++.|...+......+.+|++|.. ..+..
T Consensus        85 ~~~~dv~~idgas~~~vddIr~l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~tte~~kL~~  164 (563)
T PRK06647         85 DNSLDVIEIDGASNTSVQDVRQIKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEVHKLPA  164 (563)
T ss_pred             CCCCCeEEecCcccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEecCChHHhHH
Confidence            000     0000011122222221   11 12356668999999877666677787777765556666665543 33332


Q ss_pred             hh-CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchh
Q 045152          333 QL-GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAA  388 (533)
Q Consensus       333 ~~-~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai  388 (533)
                      .+ .....+++.+++.++....+.+.+...+    ..--.+....|++.++|.+..+
T Consensus       165 tI~SRc~~~~f~~l~~~el~~~L~~i~~~eg----i~id~eAl~lLa~~s~GdlR~a  217 (563)
T PRK06647        165 TIKSRCQHFNFRLLSLEKIYNMLKKVCLEDQ----IKYEDEALKWIAYKSTGSVRDA  217 (563)
T ss_pred             HHHHhceEEEecCCCHHHHHHHHHHHHHHcC----CCCCHHHHHHHHHHcCCCHHHH
Confidence            22 2245689999999999888887653211    1112445667788888877543

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=97.81  E-value=0.00052  Score=72.87  Aligned_cols=155  Identities=15%  Similarity=0.166  Sum_probs=89.6

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcchhhhccC--CceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCC
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNNDEVKRNF--EKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITR  287 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F--~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~  287 (533)
                      ..+.|+|..|.|||.|++.+.+.  ....+  -.+++++      ..++..++...+...     ..+    .+++.+..
T Consensus       315 NpL~LyG~sGsGKTHLL~AIa~~--a~~~~~g~~V~Yit------aeef~~el~~al~~~-----~~~----~f~~~y~~  377 (617)
T PRK14086        315 NPLFIYGESGLGKTHLLHAIGHY--ARRLYPGTRVRYVS------SEEFTNEFINSIRDG-----KGD----SFRRRYRE  377 (617)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHH--HHHhCCCCeEEEee------HHHHHHHHHHHHHhc-----cHH----HHHHHhhc
Confidence            45899999999999999999984  33222  2345553      334444444443211     111    22233322


Q ss_pred             ceEEEEEeCCCCCCcc-ccc-hhhhcccC-CCCCceEEEEecch---------HHHhhhCCCCeeeCCCCChHhhHHHHH
Q 045152          288 KKFFLVLDDVWDGDYK-KWN-PFFSCLKN-GHHESKILITTRDR---------SVALQLGSIDIIPVKELAEEECWSLLE  355 (533)
Q Consensus       288 kr~LlVLDdv~~~~~~-~~~-~l~~~l~~-~~~gs~IiiTtR~~---------~v~~~~~~~~~~~l~~L~~~~~~~Lf~  355 (533)
                       .=+|||||+...... .|. .|...+.. ...|..|||||+..         .+...+...-.+.|+..+.+.-..++.
T Consensus       378 -~DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~~P~eL~~l~~rL~SRf~~GLvv~I~~PD~EtR~aIL~  456 (617)
T PRK14086        378 -MDILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSDRPPKQLVTLEDRLRNRFEWGLITDVQPPELETRIAILR  456 (617)
T ss_pred             -CCEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecCCChHhhhhccHHHHhhhhcCceEEcCCCCHHHHHHHHH
Confidence             347899999654222 222 23333321 13356688888752         233334446678999999999999999


Q ss_pred             HhhccCCCccccccchHHHHHHHhHhCCCcc
Q 045152          356 RLAFFRRSVDDHEKLEPIGRKIAHKCKGLPL  386 (533)
Q Consensus       356 ~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPL  386 (533)
                      +++... ...   --+++..-|++.+.+..-
T Consensus       457 kka~~r-~l~---l~~eVi~yLa~r~~rnvR  483 (617)
T PRK14086        457 KKAVQE-QLN---APPEVLEFIASRISRNIR  483 (617)
T ss_pred             HHHHhc-CCC---CCHHHHHHHHHhccCCHH
Confidence            887422 111   124566667766665543

>PRK08116 hypothetical protein; Validated

Probab=97.79  E-value=8.3e-05  Score=71.97  Aligned_cols=104  Identities=21%  Similarity=0.217  Sum_probs=60.2

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCce
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKK  289 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr  289 (533)
                      ..+.++|..|+|||.||..+++.  ...+...+++++      ..+++..+...+....  .....    .+.+.+.+-.
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~--l~~~~~~v~~~~------~~~ll~~i~~~~~~~~--~~~~~----~~~~~l~~~d  180 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANE--LIEKGVPVIFVN------FPQLLNRIKSTYKSSG--KEDEN----EIIRSLVNAD  180 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH--HHHcCCeEEEEE------HHHHHHHHHHHHhccc--cccHH----HHHHHhcCCC
Confidence            46889999999999999999985  322333455664      3445555555443211  11111    2233343333


Q ss_pred             EEEEEeCCCCCCccccch--hhhcccC-CCCCceEEEEecch
Q 045152          290 FFLVLDDVWDGDYKKWNP--FFSCLKN-GHHESKILITTRDR  328 (533)
Q Consensus       290 ~LlVLDdv~~~~~~~~~~--l~~~l~~-~~~gs~IiiTtR~~  328 (533)
                       ||||||+.......|..  +...+.. -..|..+||||...
T Consensus       181 -lLviDDlg~e~~t~~~~~~l~~iin~r~~~~~~~IiTsN~~  221 (268)
T PRK08116        181 -LLILDDLGAERDTEWAREKVYNIIDSRYRKGLPTIVTTNLS  221 (268)
T ss_pred             -EEEEecccCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence             89999996543344543  3333322 13456799998753

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

Probab=97.79  E-value=8.2e-05  Score=70.70  Aligned_cols=183  Identities=16%  Similarity=0.128  Sum_probs=109.8

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEE-EEeCCchhHHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIW-VCVSDTFEEIRVAKAI  260 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~w-v~vs~~~~~~~l~~~i  260 (533)
                      .+++|-+..+.-+...+..      ........+|++|.|||+-|..+.....-.+.|.+++- .|+|..-... +..  
T Consensus        36 de~~gQe~vV~~L~~a~~~------~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSderGis-vvr--  106 (346)
T KOG0989|consen   36 DELAGQEHVVQVLKNALLR------RILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERGIS-VVR--  106 (346)
T ss_pred             HhhcchHHHHHHHHHHHhh------cCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhccccccccc-chh--
Confidence            3588988889999888864      35678899999999999999877753222344554432 3344332211 000  


Q ss_pred             HHHhCCCCCCCccHHHHHHHHHHHh--CCce-EEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecc-hHHHhhh-C
Q 045152          261 IEGLGVSASGLSEFESLMKQIQEYI--TRKK-FFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRD-RSVALQL-G  335 (533)
Q Consensus       261 l~~l~~~~~~~~~~~~l~~~l~~~l--~~kr-~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~-~~v~~~~-~  335 (533)
                              ....+...+........  ..++ -.+|||+++....+.|..+...+......++.|+.+.. ..+...+ .
T Consensus       107 --------~Kik~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii~pi~S  178 (346)
T KOG0989|consen  107 --------EKIKNFAKLTVLLKRSDGYPCPPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILICNYLSRIIRPLVS  178 (346)
T ss_pred             --------hhhcCHHHHhhccccccCCCCCcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEcCChhhCChHHHh
Confidence                    00111111111111011  0123 47899999988888999999988776666776655543 2222222 2


Q ss_pred             CCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCc
Q 045152          336 SIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLP  385 (533)
Q Consensus       336 ~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlP  385 (533)
                      ...-|..++|..++...-++..+-..+    .+--.+..+.|++.++|--
T Consensus       179 RC~KfrFk~L~d~~iv~rL~~Ia~~E~----v~~d~~al~~I~~~S~GdL  224 (346)
T KOG0989|consen  179 RCQKFRFKKLKDEDIVDRLEKIASKEG----VDIDDDALKLIAKISDGDL  224 (346)
T ss_pred             hHHHhcCCCcchHHHHHHHHHHHHHhC----CCCCHHHHHHHHHHcCCcH
Confidence            245688999999988888877763211    1112344577888888743

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=97.78  E-value=0.00058  Score=67.61  Aligned_cols=195  Identities=16%  Similarity=0.199  Sum_probs=110.6

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcch---h---------h-hccCCceEEEEeCC
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNND---E---------V-KRNFEKVIWVCVSD  249 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~---~---------~-~~~F~~~~wv~vs~  249 (533)
                      +++|-+..++.+...+..+     .-.....++|+.|+||+++|..+.+.-   .         + ...++-..|+.-..
T Consensus         5 ~iiGq~~~~~~L~~~i~~~-----rl~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~hPDl~~i~p~~   79 (314)
T PRK07399          5 NLIGQPLAIELLTAAIKQN-----RIAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNHPDLLWVEPTY   79 (314)
T ss_pred             HhCCHHHHHHHHHHHHHhC-----CCCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCCCCEEEEeccc
Confidence            5789999999999988533     235789999999999999996664421   0         0 11222334442100


Q ss_pred             chhHHHHHHHHHHHhCC--CCCCCccHHHHHHHHHHHh-----CCceEEEEEeCCCCCCccccchhhhcccCCCCCceEE
Q 045152          250 TFEEIRVAKAIIEGLGV--SASGLSEFESLMKQIQEYI-----TRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKIL  322 (533)
Q Consensus       250 ~~~~~~l~~~il~~l~~--~~~~~~~~~~l~~~l~~~l-----~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~Ii  322 (533)
                      ..+-..+-..-+...+.  ........++.. .+.+.+     .+++-++|+|+++..+......|+..+.... .+.+|
T Consensus        80 ~~~g~~~~~~~~~~~~~~~~~~~~I~id~ir-~i~~~l~~~p~~~~~kVvII~~ae~m~~~aaNaLLK~LEEPp-~~~fI  157 (314)
T PRK07399         80 QHQGKLITASEAEEAGLKRKAPPQIRLEQIR-EIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEPG-NGTLI  157 (314)
T ss_pred             cccccccchhhhhhccccccccccCcHHHHH-HHHHHHccCcccCCceEEEEEchhhcCHHHHHHHHHHHhCCC-CCeEE
Confidence            00000000011111110  111112223322 233333     3566789999998877667777887776554 34555


Q ss_pred             EEecc-hHHHhhh-CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHHH
Q 045152          323 ITTRD-RSVALQL-GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVI  391 (533)
Q Consensus       323 iTtR~-~~v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~  391 (533)
                      ++|.+ ..+...+ .....+++.+++.++..+.+......  . .    .......++..++|.|..+...
T Consensus       158 Li~~~~~~Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~~~~--~-~----~~~~~~~l~~~a~Gs~~~al~~  221 (314)
T PRK07399        158 LIAPSPESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLGDE--E-I----LNINFPELLALAQGSPGAAIAN  221 (314)
T ss_pred             EEECChHhCcHHHHhhceEEecCCCCHHHHHHHHHHhhcc--c-c----chhHHHHHHHHcCCCHHHHHHH
Confidence            55544 3333322 33678999999999999999876421  1 0    1111357788999999766543

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=97.78  E-value=0.0005  Score=72.12  Aligned_cols=181  Identities=16%  Similarity=0.140  Sum_probs=100.9

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCC--ceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHh
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFE--KVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYI  285 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~--~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l  285 (533)
                      ....+.|+|+.|+|||+|++.+.+.  +...+.  .+++++.      .++...+...+...     ...    .+.+.+
T Consensus       147 ~~~~l~l~G~~G~GKThL~~ai~~~--~~~~~~~~~v~yi~~------~~~~~~~~~~~~~~-----~~~----~~~~~~  209 (450)
T PRK00149        147 AYNPLFIYGGVGLGKTHLLHAIGNY--ILEKNPNAKVVYVTS------EKFTNDFVNALRNN-----TME----EFKEKY  209 (450)
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHHH--HHHhCCCCeEEEEEH------HHHHHHHHHHHHcC-----cHH----HHHHHH
Confidence            3456899999999999999999984  333332  3445542      23334444444211     112    223333


Q ss_pred             CCceEEEEEeCCCCCCccc--cchhhhcccC-CCCCceEEEEecchH---------HHhhhCCCCeeeCCCCChHhhHHH
Q 045152          286 TRKKFFLVLDDVWDGDYKK--WNPFFSCLKN-GHHESKILITTRDRS---------VALQLGSIDIIPVKELAEEECWSL  353 (533)
Q Consensus       286 ~~kr~LlVLDdv~~~~~~~--~~~l~~~l~~-~~~gs~IiiTtR~~~---------v~~~~~~~~~~~l~~L~~~~~~~L  353 (533)
                      + +.-+|||||++......  -+.+...+.. ...|..||+|+....         +...+.....+++++.+.++-..+
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 34489999996532111  1223332221 123455888776431         122233345789999999999999


Q ss_pred             HHHhhccCCCccccccchHHHHHHHhHhCCCcchhH----HHHH---HhhcccchHHHHHHHhh
Q 045152          354 LERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAK----VIWN---LLRSKSTVKEWQRILDS  410 (533)
Q Consensus       354 f~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~----~~~~---~L~~~~~~~~w~~~l~~  410 (533)
                      +.+.+... .   ..--+++...|++.+.|....+.    .+..   .....-+.+..+.++..
T Consensus       289 l~~~~~~~-~---~~l~~e~l~~ia~~~~~~~R~l~~~l~~l~~~~~~~~~~it~~~~~~~l~~  348 (450)
T PRK00149        289 LKKKAEEE-G---IDLPDEVLEFIAKNITSNVRELEGALNRLIAYASLTGKPITLELAKEALKD  348 (450)
T ss_pred             HHHHHHHc-C---CCCCHHHHHHHHcCcCCCHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHH
Confidence            99887421 1   11224567788888888766432    2221   11222256666666654

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=97.76  E-value=0.00072  Score=72.40  Aligned_cols=191  Identities=17%  Similarity=0.169  Sum_probs=103.6

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAII  261 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il  261 (533)
                      .+++|.+...+.+..++...     .-...+.++|+.|+||||+|+.+.....-...-+.       .+.+.-...+.|.
T Consensus        16 ~~viGq~~v~~~L~~~i~~~-----~~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~~-------~pC~~C~~C~~i~   83 (559)
T PRK05563         16 EDVVGQEHITKTLKNAIKQG-----KISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPDG-------EPCNECEICKAIT   83 (559)
T ss_pred             HhccCcHHHHHHHHHHHHcC-----CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCC-------CCCCccHHHHHHh
Confidence            36899999999999988543     23566788999999999999888642100000000       0000001111111


Q ss_pred             HHhCC-----CCCCCccHH---HHHHHHHHH-hCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEe-cchHHH
Q 045152          262 EGLGV-----SASGLSEFE---SLMKQIQEY-ITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITT-RDRSVA  331 (533)
Q Consensus       262 ~~l~~-----~~~~~~~~~---~l~~~l~~~-l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTt-R~~~v~  331 (533)
                      .....     ........+   ++...+... ..+++-++|+|+++......+..|...+........+|++| ....+.
T Consensus        84 ~g~~~dv~eidaas~~~vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt~~~ki~  163 (559)
T PRK05563         84 NGSLMDVIEIDAASNNGVDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPHKIP  163 (559)
T ss_pred             cCCCCCeEEeeccccCCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeCChhhCc
Confidence            10000     000001122   222222211 23566788999997766566777777766544455555544 433333


Q ss_pred             hh-hCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchh
Q 045152          332 LQ-LGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAA  388 (533)
Q Consensus       332 ~~-~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai  388 (533)
                      .. ......+.+.+++.++....+...+-..+ .   .--.+....|++.++|.+..+
T Consensus       164 ~tI~SRc~~~~f~~~~~~ei~~~L~~i~~~eg-i---~i~~~al~~ia~~s~G~~R~a  217 (559)
T PRK05563        164 ATILSRCQRFDFKRISVEDIVERLKYILDKEG-I---EYEDEALRLIARAAEGGMRDA  217 (559)
T ss_pred             HHHHhHheEEecCCCCHHHHHHHHHHHHHHcC-C---CCCHHHHHHHHHHcCCCHHHH
Confidence            22 22356788999999998888877653111 1   111345567788888876543

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=97.75  E-value=0.00052  Score=68.32  Aligned_cols=97  Identities=12%  Similarity=0.100  Sum_probs=66.9

Q ss_pred             CceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecchH-HHhh-hCCCCeeeCCCCChHhhHHHHHHhhccCCCc
Q 045152          287 RKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRS-VALQ-LGSIDIIPVKELAEEECWSLLERLAFFRRSV  364 (533)
Q Consensus       287 ~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~~-v~~~-~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~  364 (533)
                      +++-++|+|+++..+......+...+.....++.+|+||.+.. +... ......+.+.+++.+++.+.+..... .   
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            3444567899988887788888888876666777777777653 3322 23357799999999999988876531 0   


Q ss_pred             cccccchHHHHHHHhHhCCCcchhHHH
Q 045152          365 DDHEKLEPIGRKIAHKCKGLPLAAKVI  391 (533)
Q Consensus       365 ~~~~~l~~~~~~I~~~c~GlPLai~~~  391 (533)
                      .    ..+.+..++..++|.|+.+..+
T Consensus       181 ~----~~~~~~~~l~la~Gsp~~A~~l  203 (328)
T PRK05707        181 S----DERERIELLTLAGGSPLRALQL  203 (328)
T ss_pred             C----ChHHHHHHHHHcCCCHHHHHHH
Confidence            0    1233456788999999866544

>COG3903 Predicted ATPase [General function prediction only]

Probab=97.74  E-value=2.1e-05  Score=77.84  Aligned_cols=181  Identities=22%  Similarity=0.224  Sum_probs=114.6

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEE-EEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhC
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIW-VCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYIT  286 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~w-v~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~  286 (533)
                      ..+-+.++|.|||||||++-.+..   +...|..-.| +....-.+...+.-.+...++.....   -+.....+.....
T Consensus        13 ~~RlvtL~g~ggvgkttl~~~~a~---~~~~~~~~v~~vdl~pitD~~~v~~~~ag~~gl~~~~---g~~~~~~~~~~~~   86 (414)
T COG3903          13 ALRLVTLTGAGGVGKTTLALQAAH---AASEYADGVAFVDLAPITDPALVFPTLAGALGLHVQP---GDSAVDTLVRRIG   86 (414)
T ss_pred             hhheeeeeccCccceehhhhhhHh---HhhhcccceeeeeccccCchhHhHHHHHhhccccccc---chHHHHHHHHHHh
Confidence            467899999999999999988875   5667755554 44444334444444444445544322   1233445666777


Q ss_pred             CceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecchHHHhhhCCCCeeeCCCCChH-hhHHHHHHhhccC-CCc
Q 045152          287 RKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRSVALQLGSIDIIPVKELAEE-ECWSLLERLAFFR-RSV  364 (533)
Q Consensus       287 ~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~~v~~~~~~~~~~~l~~L~~~-~~~~Lf~~~a~~~-~~~  364 (533)
                      +++.++|+||..+.- ..-..+...+-.+...-.|+.|+|....   ........+++|+.. ++.++|...+... ...
T Consensus        87 ~rr~llvldncehl~-~~~a~~i~all~~~~~~~~~atsre~~l---~~ge~~~~~~~L~~~d~a~~lf~~ra~~~~~~f  162 (414)
T COG3903          87 DRRALLVLDNCEHLL-DACAALIVALLGACPRLAILATSREAIL---VAGEVHRRVPSLSLFDEAIELFVCRAVLVALSF  162 (414)
T ss_pred             hhhHHHHhcCcHHHH-HHHHHHHHHHHccchhhhhHHHhHhhhc---ccccccccCCccccCCchhHHHHHHHHHhccce
Confidence            899999999994321 1111223334444555668888886533   233456777777765 6888887766422 111


Q ss_pred             cccccchHHHHHHHhHhCCCcchhHHHHHHhhcc
Q 045152          365 DDHEKLEPIGRKIAHKCKGLPLAAKVIWNLLRSK  398 (533)
Q Consensus       365 ~~~~~l~~~~~~I~~~c~GlPLai~~~~~~L~~~  398 (533)
                      .....-.....+|.++..|.|++|...++..+.-
T Consensus       163 ~l~~~~~a~v~~icr~ldg~~laielaaarv~sl  196 (414)
T COG3903         163 WLTDDNAAAVAEICRRLDGIPLAIELAAARVRSL  196 (414)
T ss_pred             eecCCchHHHHHHHHHhhcchHHHHHHHHHHHhc
Confidence            2222335667899999999999999888776654

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.73  E-value=0.00031  Score=79.21  Aligned_cols=153  Identities=19%  Similarity=0.139  Sum_probs=82.4

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhcc------CCceEEEEeCCchhHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRN------FEKVIWVCVSDTFEEIR  255 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~------F~~~~wv~vs~~~~~~~  255 (533)
                      .+++||+.++.++++.|....      ...+.++|++|+|||++|+.+...  +...      ....+|..     ++..
T Consensus       173 ~~~igr~~ei~~~~~~l~r~~------~~n~lL~G~pGvGKT~l~~~la~~--i~~~~~p~~l~~~~~~~l-----~~~~  239 (852)
T TIGR03346       173 DPVIGRDEEIRRTIQVLSRRT------KNNPVLIGEPGVGKTAIVEGLAQR--IVNGDVPESLKNKRLLAL-----DMGA  239 (852)
T ss_pred             CcCCCcHHHHHHHHHHHhcCC------CCceEEEcCCCCCHHHHHHHHHHH--HhccCCchhhcCCeEEEe-----eHHH
Confidence            358999999999999995432      344568999999999999888763  2211      12333321     1111


Q ss_pred             HHHHHHHHhCCCCCCCccHHHHHHHHHHHh-C-CceEEEEEeCCCCCCc-----c---ccchhhhcccCCCCCceEEEEe
Q 045152          256 VAKAIIEGLGVSASGLSEFESLMKQIQEYI-T-RKKFFLVLDDVWDGDY-----K---KWNPFFSCLKNGHHESKILITT  325 (533)
Q Consensus       256 l~~~il~~l~~~~~~~~~~~~l~~~l~~~l-~-~kr~LlVLDdv~~~~~-----~---~~~~l~~~l~~~~~gs~IiiTt  325 (533)
                      +.    .   +. ....+.+.....+.+.+ + +++.+|++|+++....     .   .-+.+...+ ..+ .-++|-+|
T Consensus       240 l~----a---~~-~~~g~~e~~l~~~l~~~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~~~Lk~~l-~~g-~i~~IgaT  309 (852)
T TIGR03346       240 LI----A---GA-KYRGEFEERLKAVLNEVTKSEGQIILFIDELHTLVGAGKAEGAMDAGNMLKPAL-ARG-ELHCIGAT  309 (852)
T ss_pred             Hh----h---cc-hhhhhHHHHHHHHHHHHHhcCCCeEEEeccHHHhhcCCCCcchhHHHHHhchhh-hcC-ceEEEEeC
Confidence            11    0   00 00012222222222222 2 4689999999974310     0   011122222 111 23445455


Q ss_pred             cchHHHhh-------hCCCCeeeCCCCChHhhHHHHHHh
Q 045152          326 RDRSVALQ-------LGSIDIIPVKELAEEECWSLLERL  357 (533)
Q Consensus       326 R~~~v~~~-------~~~~~~~~l~~L~~~~~~~Lf~~~  357 (533)
                      ..+.....       ......+.++..+.++...++...
T Consensus       310 t~~e~r~~~~~d~al~rRf~~i~v~~p~~~~~~~iL~~~  348 (852)
T TIGR03346       310 TLDEYRKYIEKDAALERRFQPVFVDEPTVEDTISILRGL  348 (852)
T ss_pred             cHHHHHHHhhcCHHHHhcCCEEEeCCCCHHHHHHHHHHH
Confidence            44433221       122456889999999999988764

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.

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

Probab=97.72  E-value=0.00033  Score=77.17  Aligned_cols=156  Identities=17%  Similarity=0.172  Sum_probs=85.3

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhcc-----CCceEEEEeCCchhHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRN-----FEKVIWVCVSDTFEEIRV  256 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~-----F~~~~wv~vs~~~~~~~l  256 (533)
                      ..++||+.++.++++.|....      ..-+.++|++|+|||++|+.+.... +...     .++.+|..     +... 
T Consensus       186 ~~liGR~~ei~~~i~iL~r~~------~~n~LLvGppGvGKT~lae~la~~i-~~~~vP~~l~~~~~~~l-----~~~~-  252 (758)
T PRK11034        186 DPLIGREKELERAIQVLCRRR------KNNPLLVGESGVGKTAIAEGLAWRI-VQGDVPEVMADCTIYSL-----DIGS-  252 (758)
T ss_pred             CcCcCCCHHHHHHHHHHhccC------CCCeEEECCCCCCHHHHHHHHHHHH-HhcCCCchhcCCeEEec-----cHHH-
Confidence            368999999999999886532      2344689999999999999988631 1111     13444421     1111 


Q ss_pred             HHHHHHHhCCCCCCCccHHHHHHHHHHHh-CCceEEEEEeCCCCC------C--ccccchhhhcccCCCCCceEEEEecc
Q 045152          257 AKAIIEGLGVSASGLSEFESLMKQIQEYI-TRKKFFLVLDDVWDG------D--YKKWNPFFSCLKNGHHESKILITTRD  327 (533)
Q Consensus       257 ~~~il~~l~~~~~~~~~~~~l~~~l~~~l-~~kr~LlVLDdv~~~------~--~~~~~~l~~~l~~~~~gs~IiiTtR~  327 (533)
                         ++.   +. ....+.+.....+.+.+ +.++.+|+||+++..      .  ..+...+..++... ..-++|-+|..
T Consensus       253 ---lla---G~-~~~Ge~e~rl~~l~~~l~~~~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L~~-g~i~vIgATt~  324 (758)
T PRK11034        253 ---LLA---GT-KYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSS-GKIRVIGSTTY  324 (758)
T ss_pred             ---Hhc---cc-chhhhHHHHHHHHHHHHHhcCCCEEEeccHHHHhccCCCCCcHHHHHHHHHHHHhC-CCeEEEecCCh
Confidence               111   00 00112222222232223 346679999999642      0  11111122222221 12345555544


Q ss_pred             hHHHhh-------hCCCCeeeCCCCChHhhHHHHHHhh
Q 045152          328 RSVALQ-------LGSIDIIPVKELAEEECWSLLERLA  358 (533)
Q Consensus       328 ~~v~~~-------~~~~~~~~l~~L~~~~~~~Lf~~~a  358 (533)
                      ++....       ......+.++..+.++..+++....
T Consensus       325 ~E~~~~~~~D~AL~rRFq~I~v~ePs~~~~~~IL~~~~  362 (758)
T PRK11034        325 QEFSNIFEKDRALARRFQKIDITEPSIEETVQIINGLK  362 (758)
T ss_pred             HHHHHHhhccHHHHhhCcEEEeCCCCHHHHHHHHHHHH
Confidence            433211       1224679999999999999998643

>KOG0472 consensus Leucine-rich repeat protein [Function unknown]

Probab=97.69  E-value=1.4e-05  Score=78.30  Aligned_cols=85  Identities=24%  Similarity=0.345  Sum_probs=62.4

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCC----------------------ccCCCCCCCcceEE
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPI----------------------LEDHIFLPRLSSLR  477 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~----------------------~~~~~~l~~L~~L~  477 (533)
                      ++.|..|+++. .-+..+|..++.+..||.|+++. ..+..+|.                      ...+++|.+|.+|+
T Consensus       434 l~kLt~L~L~N-N~Ln~LP~e~~~lv~Lq~LnlS~-NrFr~lP~~~y~lq~lEtllas~nqi~~vd~~~l~nm~nL~tLD  511 (565)
T KOG0472|consen  434 LQKLTFLDLSN-NLLNDLPEEMGSLVRLQTLNLSF-NRFRMLPECLYELQTLETLLASNNQIGSVDPSGLKNMRNLTTLD  511 (565)
T ss_pred             hhcceeeeccc-chhhhcchhhhhhhhhheecccc-cccccchHHHhhHHHHHHHHhccccccccChHHhhhhhhcceec
Confidence            44555555554 44556666666666666666663 23444442                      02388899999999


Q ss_pred             eccCCCCCCCCcCCCCCCCcceeeccCCch
Q 045152          478 IEYCPKLKLLPDSLLQITTLKELGMEGSPL  507 (533)
Q Consensus       478 l~~C~~l~~lP~~~~~l~~L~~L~~~~c~~  507 (533)
                      |.+ ..|..+|+.++++++|++|+++|+|-
T Consensus       512 L~n-Ndlq~IPp~LgnmtnL~hLeL~gNpf  540 (565)
T KOG0472|consen  512 LQN-NDLQQIPPILGNMTNLRHLELDGNPF  540 (565)
T ss_pred             cCC-CchhhCChhhccccceeEEEecCCcc
Confidence            999 89999999999999999999999985

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.69  E-value=0.00016  Score=62.06  Aligned_cols=88  Identities=23%  Similarity=0.135  Sum_probs=45.9

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCc-
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRK-  288 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~k-  288 (533)
                      ..+.|+|++|+||||+++.+...  .......++++..+...........  ...................+.+..... 
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~--~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARE--LGPPGGGVIYIDGEDILEEVLDQLL--LIIVGGKKASGSGELRLRLALALARKLK   78 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhc--cCCCCCCEEEECCEEccccCHHHHH--hhhhhccCCCCCHHHHHHHHHHHHHhcC
Confidence            57899999999999999999874  2222223555554433222111111  111111111112222233444444433 


Q ss_pred             eEEEEEeCCCCCC
Q 045152          289 KFFLVLDDVWDGD  301 (533)
Q Consensus       289 r~LlVLDdv~~~~  301 (533)
                      ..++++|++....
T Consensus        79 ~~viiiDei~~~~   91 (148)
T smart00382       79 PDVLILDEITSLL   91 (148)
T ss_pred             CCEEEEECCcccC
Confidence            4899999997653

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.

>TIGR03689 pup_AAA proteasome ATPase

Probab=97.69  E-value=0.00038  Score=72.86  Aligned_cols=167  Identities=11%  Similarity=0.070  Sum_probs=90.0

Q ss_pred             CceeechhhHHHHHHHHhCCCc-------cCCCCeEEEEEEcCCCChHHHHHHHHhcchhhh---ccCCceEEEEeCCch
Q 045152          182 GEVCGRVEEKNELLSKLLCESS-------EQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVK---RNFEKVIWVCVSDTF  251 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~-------~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~---~~F~~~~wv~vs~~~  251 (533)
                      .++.|.+..++++.+.+...-.       .+-..++-+.++|++|.|||++|+.+++.....   ..+....|+++....
T Consensus       182 ~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl~v~~~e  261 (512)
T TIGR03689       182 ADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFLNIKGPE  261 (512)
T ss_pred             HHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeEEeccchh
Confidence            3578899999888887532110       011245678999999999999999999842111   012234455544321


Q ss_pred             hHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHh-CCceEEEEEeCCCCCCc-------ccc-----chhhhcccCC--C
Q 045152          252 EEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYI-TRKKFFLVLDDVWDGDY-------KKW-----NPFFSCLKNG--H  316 (533)
Q Consensus       252 ~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l-~~kr~LlVLDdv~~~~~-------~~~-----~~l~~~l~~~--~  316 (533)
                              ++....++  .......+....++.. .+++++|+||+++..-.       ...     ..+...+...  .
T Consensus       262 --------Ll~kyvGe--te~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~LDgl~~~  331 (512)
T TIGR03689       262 --------LLNKYVGE--TERQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSELDGVESL  331 (512)
T ss_pred             --------hcccccch--HHHHHHHHHHHHHHHhhcCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHHhcccccC
Confidence                    11111000  0001112222222222 34789999999964210       011     1232223211  2


Q ss_pred             CCceEEEEecchHHHh-h-h---CCCCeeeCCCCChHhhHHHHHHhh
Q 045152          317 HESKILITTRDRSVAL-Q-L---GSIDIIPVKELAEEECWSLLERLA  358 (533)
Q Consensus       317 ~gs~IiiTtR~~~v~~-~-~---~~~~~~~l~~L~~~~~~~Lf~~~a  358 (533)
                      .+..||.||...+... . .   .....++++..+.++..++|..+.
T Consensus       332 ~~ViVI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l  378 (512)
T TIGR03689       332 DNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFSKYL  378 (512)
T ss_pred             CceEEEeccCChhhCCHhhcCccccceEEEeCCCCHHHHHHHHHHHh
Confidence            3445566666554322 1 1   124568999999999999999875

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.

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

Probab=97.69  E-value=0.0019  Score=60.20  Aligned_cols=181  Identities=17%  Similarity=0.165  Sum_probs=107.7

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeC-CchhHHHHHHHHHHHhCCCCCCCc--cHHHHHHHHHH
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVS-DTFEEIRVAKAIIEGLGVSASGLS--EFESLMKQIQE  283 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs-~~~~~~~l~~~il~~l~~~~~~~~--~~~~l~~~l~~  283 (533)
                      .+-+++.++|.-|.|||++.+.......    -+.++-|.++ ...+...+...++..+........  ......+.+..
T Consensus        49 d~qg~~~vtGevGsGKTv~~Ral~~s~~----~d~~~~v~i~~~~~s~~~~~~ai~~~l~~~p~~~~~~~~e~~~~~L~a  124 (269)
T COG3267          49 DGQGILAVTGEVGSGKTVLRRALLASLN----EDQVAVVVIDKPTLSDATLLEAIVADLESQPKVNVNAVLEQIDRELAA  124 (269)
T ss_pred             cCCceEEEEecCCCchhHHHHHHHHhcC----CCceEEEEecCcchhHHHHHHHHHHHhccCccchhHHHHHHHHHHHHH
Confidence            3456899999999999999994443111    1112223333 345677888888888876322211  12333344444


Q ss_pred             Hh-CCce-EEEEEeCCCCCCccccchhhhcccCCCCCc---eEEEEec--------chHHHhhhCCCCe-eeCCCCChHh
Q 045152          284 YI-TRKK-FFLVLDDVWDGDYKKWNPFFSCLKNGHHES---KILITTR--------DRSVALQLGSIDI-IPVKELAEEE  349 (533)
Q Consensus       284 ~l-~~kr-~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs---~IiiTtR--------~~~v~~~~~~~~~-~~l~~L~~~~  349 (533)
                      .. ++++ ..+++||....+.+..+.++-.......++   +|+..-.        .......-..... |.+.|++.++
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 5677 899999998766666665544332111111   2333222        1111111122344 9999999999


Q ss_pred             hHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHHHH
Q 045152          350 CWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIW  392 (533)
Q Consensus       350 ~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~~  392 (533)
                      ...++..+..... ...+---.+....|.....|.|.+|..++
T Consensus       205 t~~yl~~~Le~a~-~~~~l~~~~a~~~i~~~sqg~P~lin~~~  246 (269)
T COG3267         205 TGLYLRHRLEGAG-LPEPLFSDDALLLIHEASQGIPRLINNLA  246 (269)
T ss_pred             HHHHHHHHHhccC-CCcccCChhHHHHHHHHhccchHHHHHHH
Confidence            9999888765332 22222234566889999999999998765

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=97.68  E-value=1.3e-05  Score=89.52  Aligned_cols=83  Identities=27%  Similarity=0.366  Sum_probs=75.4

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcce
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKE  499 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~  499 (533)
                      ||.|.+|++++|.++.+||++++.|-+||+|+++++. +..||  .++++|.+|.+||+..+..+..+|..+..|++|++
T Consensus       570 m~~LrVLDLs~~~~l~~LP~~I~~Li~LryL~L~~t~-I~~LP--~~l~~Lk~L~~Lnl~~~~~l~~~~~i~~~L~~Lr~  646 (889)
T KOG4658|consen  570 LPLLRVLDLSGNSSLSKLPSSIGELVHLRYLDLSDTG-ISHLP--SGLGNLKKLIYLNLEVTGRLESIPGILLELQSLRV  646 (889)
T ss_pred             CcceEEEECCCCCccCcCChHHhhhhhhhcccccCCC-ccccc--hHHHHHHhhheeccccccccccccchhhhcccccE
Confidence            7889999999999999999999999999999999654 99999  79999999999999999999999876666999999


Q ss_pred             eeccCC
Q 045152          500 LGMEGS  505 (533)
Q Consensus       500 L~~~~c  505 (533)
                      |.+...
T Consensus       647 L~l~~s  652 (889)
T KOG4658|consen  647 LRLPRS  652 (889)
T ss_pred             EEeecc
Confidence            998543

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.66  E-value=0.00074  Score=76.03  Aligned_cols=45  Identities=27%  Similarity=0.307  Sum_probs=37.0

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .+++||+.++.++++.|....      ...+.++|++|+|||+||+.+...
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            369999999999999996432      345668999999999999888763

>PF13855 LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RFS_A 3G39_A 3VQ2_A 3VQ1_B 2Z64_A 2Z66_C 3FXI_A 2Z63_A

Probab=97.63  E-value=6.4e-05  Score=54.88  Aligned_cols=59  Identities=22%  Similarity=0.314  Sum_probs=49.9

Q ss_pred             cccceEEEeecCCcccCCc-cccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCC
Q 045152          421 PCLSVLRVYLCPKLKVLPD-YLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCP  482 (533)
Q Consensus       421 p~L~~L~l~~c~~l~~lp~-~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~  482 (533)
                      |.|++|.+++| .+..+|. .+..+++|++|+++++ .+..+|. ..+..+++|++|++++|+
T Consensus         1 p~L~~L~l~~n-~l~~i~~~~f~~l~~L~~L~l~~N-~l~~i~~-~~f~~l~~L~~L~l~~N~   60 (61)
T PF13855_consen    1 PNLESLDLSNN-KLTEIPPDSFSNLPNLETLDLSNN-NLTSIPP-DAFSNLPNLRYLDLSNNN   60 (61)
T ss_dssp             TTESEEEETSS-TESEECTTTTTTGTTESEEEETSS-SESEEET-TTTTTSTTESEEEETSSS
T ss_pred             CcCcEEECCCC-CCCccCHHHHcCCCCCCEeEccCC-ccCccCH-HHHcCCCCCCEEeCcCCc
Confidence            57899999996 8888885 5678999999999954 4888885 567899999999999973

...

>PF14516 AAA_35: AAA-like domain

Probab=97.60  E-value=0.0018  Score=64.79  Aligned_cols=200  Identities=14%  Similarity=0.174  Sum_probs=115.1

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCc-----hhHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT-----FEEIRV  256 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~-----~~~~~l  256 (533)
                      +-.|+|..--+++.+.+..       ....+.|.|+-.+|||+|...+.+..+- ..+ .++++++...     .+...+
T Consensus        11 ~~Yi~R~~~e~~~~~~i~~-------~G~~~~I~apRq~GKTSll~~l~~~l~~-~~~-~~v~id~~~~~~~~~~~~~~f   81 (331)
T PF14516_consen   11 PFYIERPPAEQECYQEIVQ-------PGSYIRIKAPRQMGKTSLLLRLLERLQQ-QGY-RCVYIDLQQLGSAIFSDLEQF   81 (331)
T ss_pred             CcccCchHHHHHHHHHHhc-------CCCEEEEECcccCCHHHHHHHHHHHHHH-CCC-EEEEEEeecCCCcccCCHHHH
Confidence            3456888566666666643       2458999999999999999998874322 233 4457775431     234444


Q ss_pred             HHHH----HHHhCCCCC-------CCccHHHHHHHHHHHh---CCceEEEEEeCCCCCCc--cccchhhhccc----CCC
Q 045152          257 AKAI----IEGLGVSAS-------GLSEFESLMKQIQEYI---TRKKFFLVLDDVWDGDY--KKWNPFFSCLK----NGH  316 (533)
Q Consensus       257 ~~~i----l~~l~~~~~-------~~~~~~~l~~~l~~~l---~~kr~LlVLDdv~~~~~--~~~~~l~~~l~----~~~  316 (533)
                      ++.+    .++++....       ...........+.+.+   .+++.+|+||+++..-.  ...+++...+.    ...
T Consensus        82 ~~~~~~~i~~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~~~~~~~dF~~~LR~~~~~~~  161 (331)
T PF14516_consen   82 LRWFCEEISRQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDRLFEYPQIADDFFGLLRSWYEQRK  161 (331)
T ss_pred             HHHHHHHHHHHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhhhccCcchHHHHHHHHHHHHHhcc
Confidence            4444    444443321       0112223333444432   26899999999965321  11123333222    110


Q ss_pred             ----CCc-eEEE-EecchHHHhh-----hCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCc
Q 045152          317 ----HES-KILI-TTRDRSVALQ-----LGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLP  385 (533)
Q Consensus       317 ----~gs-~Iii-TtR~~~v~~~-----~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlP  385 (533)
                          ... ++++ .+........     ++....++|++++.+|...|+...-.   . -.    ....++|...++|+|
T Consensus       162 ~~~~~~~L~li~~~~t~~~~~~~~~~SPFNIg~~i~L~~Ft~~ev~~L~~~~~~---~-~~----~~~~~~l~~~tgGhP  233 (331)
T PF14516_consen  162 NNPIWQKLRLILAGSTEDYIILDINQSPFNIGQPIELPDFTPEEVQELAQRYGL---E-FS----QEQLEQLMDWTGGHP  233 (331)
T ss_pred             cCcccceEEEEEecCcccccccCCCCCCcccccceeCCCCCHHHHHHHHHhhhc---c-CC----HHHHHHHHHHHCCCH
Confidence                011 1222 2211111111     12245789999999999999887642   1 11    222788999999999


Q ss_pred             chhHHHHHHhhcc
Q 045152          386 LAAKVIWNLLRSK  398 (533)
Q Consensus       386 Lai~~~~~~L~~~  398 (533)
                      ..+..++..+..+
T Consensus       234 ~Lv~~~~~~l~~~  246 (331)
T PF14516_consen  234 YLVQKACYLLVEE  246 (331)
T ss_pred             HHHHHHHHHHHHc
Confidence            9999999999765

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

Probab=97.60  E-value=0.0021  Score=64.94  Aligned_cols=135  Identities=18%  Similarity=0.181  Sum_probs=82.6

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCC
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITR  287 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~  287 (533)
                      ....+.|+|..|.|||.|++.+.+.  ...+......++++    .+....+.+..+..         .-...+++..  
T Consensus       112 ~~nplfi~G~~GlGKTHLl~Aign~--~~~~~~~a~v~y~~----se~f~~~~v~a~~~---------~~~~~Fk~~y--  174 (408)
T COG0593         112 AYNPLFIYGGVGLGKTHLLQAIGNE--ALANGPNARVVYLT----SEDFTNDFVKALRD---------NEMEKFKEKY--  174 (408)
T ss_pred             cCCcEEEECCCCCCHHHHHHHHHHH--HHhhCCCceEEecc----HHHHHHHHHHHHHh---------hhHHHHHHhh--
Confidence            5778999999999999999999984  44455433333333    33344444444322         1133444444  


Q ss_pred             ceEEEEEeCCCCCCc-cccc-hhhhcccC-CCCCceEEEEecc---------hHHHhhhCCCCeeeCCCCChHhhHHHHH
Q 045152          288 KKFFLVLDDVWDGDY-KKWN-PFFSCLKN-GHHESKILITTRD---------RSVALQLGSIDIIPVKELAEEECWSLLE  355 (533)
Q Consensus       288 kr~LlVLDdv~~~~~-~~~~-~l~~~l~~-~~~gs~IiiTtR~---------~~v~~~~~~~~~~~l~~L~~~~~~~Lf~  355 (533)
                      .-=++++||++-... +.|+ .+...+.. ...|..||+|++.         +.+...+...-.+.+.+.+.+....++.
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            334889999965211 1222 23333321 1234489999864         2344445556789999999999999999


Q ss_pred             Hhhc
Q 045152          356 RLAF  359 (533)
Q Consensus       356 ~~a~  359 (533)
                      +.+.
T Consensus       255 kka~  258 (408)
T COG0593         255 KKAE  258 (408)
T ss_pred             HHHH
Confidence            8764

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.59  E-value=0.0012  Score=74.72  Aligned_cols=137  Identities=18%  Similarity=0.287  Sum_probs=78.0

Q ss_pred             CceeechhhHHHHHHHHhCCCc---cCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESS---EQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAK  258 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~---~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~  258 (533)
                      ..++|.+..++.+...+.....   .......++.++|+.|+|||++|+.+...  ....-...+.++++...+...+  
T Consensus       565 ~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~--l~~~~~~~i~~d~s~~~~~~~~--  640 (852)
T TIGR03346       565 ERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEF--LFDDEDAMVRIDMSEYMEKHSV--  640 (852)
T ss_pred             cccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHH--hcCCCCcEEEEechhhcccchH--
Confidence            4589999999999988865321   01223567889999999999999998863  2111223344444432221111  


Q ss_pred             HHHHHhCCCCC--CCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCC-----------CCCceEEEEe
Q 045152          259 AIIEGLGVSAS--GLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNG-----------HHESKILITT  325 (533)
Q Consensus       259 ~il~~l~~~~~--~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~-----------~~gs~IiiTt  325 (533)
                        ..-++.++.  +......+...++   .....+|+||++...+...+..|...+..+           ...+-||+||
T Consensus       641 --~~l~g~~~g~~g~~~~g~l~~~v~---~~p~~vlllDeieka~~~v~~~Ll~~l~~g~l~d~~g~~vd~rn~iiI~TS  715 (852)
T TIGR03346       641 --ARLIGAPPGYVGYEEGGQLTEAVR---RKPYSVVLFDEVEKAHPDVFNVLLQVLDDGRLTDGQGRTVDFRNTVIIMTS  715 (852)
T ss_pred             --HHhcCCCCCccCcccccHHHHHHH---cCCCcEEEEeccccCCHHHHHHHHHHHhcCceecCCCeEEecCCcEEEEeC
Confidence              111222211  1111122222222   223458999999887777777777766443           1334477787


Q ss_pred             cc
Q 045152          326 RD  327 (533)
Q Consensus       326 R~  327 (533)
                      ..
T Consensus       716 n~  717 (852)
T TIGR03346       716 NL  717 (852)
T ss_pred             Cc
Confidence            65

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.

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=97.59  E-value=0.0008  Score=75.56  Aligned_cols=206  Identities=19%  Similarity=0.250  Sum_probs=110.5

Q ss_pred             CceeechhhHHHHHHHHhCCC---ccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCES---SEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAK  258 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~---~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~  258 (533)
                      ..++|-+.-++.+.+.+....   ........++.++|+.|+|||.||+.+...  .-......+-++++.-.+.    .
T Consensus       566 ~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~--l~~~~~~~~~~dmse~~~~----~  639 (852)
T TIGR03345       566 ERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAEL--LYGGEQNLITINMSEFQEA----H  639 (852)
T ss_pred             CeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHH--HhCCCcceEEEeHHHhhhh----h
Confidence            468999999999988875431   112345568999999999999999887652  2111122222222221111    1


Q ss_pred             HHHHHhCCCCCCC---ccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCCC-----------CCceEEEE
Q 045152          259 AIIEGLGVSASGL---SEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGH-----------HESKILIT  324 (533)
Q Consensus       259 ~il~~l~~~~~~~---~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~-----------~gs~IiiT  324 (533)
                      .+ ..+.+.+++.   .....+...++   +...-+|+||++...+...++.|...+..+.           ..+-||+|
T Consensus       640 ~~-~~l~g~~~gyvg~~~~g~L~~~v~---~~p~svvllDEieka~~~v~~~Llq~ld~g~l~d~~Gr~vd~~n~iiI~T  715 (852)
T TIGR03345       640 TV-SRLKGSPPGYVGYGEGGVLTEAVR---RKPYSVVLLDEVEKAHPDVLELFYQVFDKGVMEDGEGREIDFKNTVILLT  715 (852)
T ss_pred             hh-ccccCCCCCcccccccchHHHHHH---hCCCcEEEEechhhcCHHHHHHHHHHhhcceeecCCCcEEeccccEEEEe
Confidence            11 1222221111   11122333333   2455799999998777666777766665442           45667778


Q ss_pred             ecchH--HHh------------------------hh-----CCCCeeeCCCCChHhhHHHHHHhhccC-----CC-cccc
Q 045152          325 TRDRS--VAL------------------------QL-----GSIDIIPVKELAEEECWSLLERLAFFR-----RS-VDDH  367 (533)
Q Consensus       325 tR~~~--v~~------------------------~~-----~~~~~~~l~~L~~~~~~~Lf~~~a~~~-----~~-~~~~  367 (533)
                      |....  +..                        .+     +...++.+.+|+.++...++....-.-     .. ...-
T Consensus       716 SNlg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~PEflnRi~iI~F~pLs~e~l~~Iv~~~L~~l~~rl~~~~gi~l  795 (852)
T TIGR03345       716 SNAGSDLIMALCADPETAPDPEALLEALRPELLKVFKPAFLGRMTVIPYLPLDDDVLAAIVRLKLDRIARRLKENHGAEL  795 (852)
T ss_pred             CCCchHHHHHhccCcccCcchHHHHHHHHHHHHHhccHHHhcceeEEEeCCCCHHHHHHHHHHHHHHHHHHHHHhcCceE
Confidence            65310  000                        01     112466778888888888776543210     00 0011


Q ss_pred             ccchHHHHHHHhHhCCCcchhHHHHHHhhc
Q 045152          368 EKLEPIGRKIAHKCKGLPLAAKVIWNLLRS  397 (533)
Q Consensus       368 ~~l~~~~~~I~~~c~GlPLai~~~~~~L~~  397 (533)
                      .--.+....|++.+.+-...+..+-+.+..
T Consensus       796 ~i~d~a~~~La~~g~~~~~GAR~L~r~Ie~  825 (852)
T TIGR03345       796 VYSEALVEHIVARCTEVESGARNIDAILNQ  825 (852)
T ss_pred             EECHHHHHHHHHHcCCCCCChHHHHHHHHH
Confidence            112344556777777666666666665554

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.

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.58  E-value=4.3e-05  Score=76.95  Aligned_cols=77  Identities=30%  Similarity=0.564  Sum_probs=58.7

Q ss_pred             ccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEe--ccCCCCCCCCcCCCCC-----
Q 045152          422 CLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRI--EYCPKLKLLPDSLLQI-----  494 (533)
Q Consensus       422 ~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l--~~C~~l~~lP~~~~~l-----  494 (533)
                      +|+.|.+++|.++..+|+.+.  .+|++|++++|+++..+|  +.      |+.|.+  ..|..+..||+++..|     
T Consensus        73 sLtsL~Lsnc~nLtsLP~~LP--~nLe~L~Ls~Cs~L~sLP--~s------Le~L~L~~n~~~~L~~LPssLk~L~I~~~  142 (426)
T PRK15386         73 ELTEITIENCNNLTTLPGSIP--EGLEKLTVCHCPEISGLP--ES------VRSLEIKGSATDSIKNVPNGLTSLSINSY  142 (426)
T ss_pred             CCcEEEccCCCCcccCCchhh--hhhhheEccCcccccccc--cc------cceEEeCCCCCcccccCcchHhheecccc
Confidence            689999999999988887664  689999999998888888  33      444444  3456678888777655     


Q ss_pred             -------------CCcceeeccCCchh
Q 045152          495 -------------TTLKELGMEGSPLL  508 (533)
Q Consensus       495 -------------~~L~~L~~~~c~~l  508 (533)
                                   ++|++|++++|..+
T Consensus       143 n~~~~~~lp~~LPsSLk~L~Is~c~~i  169 (426)
T PRK15386        143 NPENQARIDNLISPSLKTLSLTGCSNI  169 (426)
T ss_pred             ccccccccccccCCcccEEEecCCCcc
Confidence                         37899999998854

>PLN00113 leucine-rich repeat receptor-like protein kinase; Provisional

Probab=97.57  E-value=6.6e-05  Score=86.83  Aligned_cols=86  Identities=19%  Similarity=0.206  Sum_probs=72.0

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcce
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKE  499 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~  499 (533)
                      ++.|++|++++|.....+|..+..+++|++|++++|.-...+|  ..++.+++|++|+|++|.-...+|..+.++++|++
T Consensus       163 l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~~p--~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~  240 (968)
T PLN00113        163 FSSLKVLDLGGNVLVGKIPNSLTNLTSLEFLTLASNQLVGQIP--RELGQMKSLKWIYLGYNNLSGEIPYEIGGLTSLNH  240 (968)
T ss_pred             CCCCCEEECccCcccccCChhhhhCcCCCeeeccCCCCcCcCC--hHHcCcCCccEEECcCCccCCcCChhHhcCCCCCE
Confidence            6788899998877667788888889999999998887555678  68888999999999997666688988999999999


Q ss_pred             eeccCCch
Q 045152          500 LGMEGSPL  507 (533)
Q Consensus       500 L~~~~c~~  507 (533)
                      |++++|..
T Consensus       241 L~L~~n~l  248 (968)
T PLN00113        241 LDLVYNNL  248 (968)
T ss_pred             EECcCcee
Confidence            99988853

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

Probab=97.57  E-value=0.0015  Score=72.68  Aligned_cols=167  Identities=17%  Similarity=0.256  Sum_probs=90.5

Q ss_pred             CCceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHH
Q 045152          181 EGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAI  260 (533)
Q Consensus       181 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i  260 (533)
                      +.+.+|.++-+++|.++|............++.++|++|+||||+|+.+...  ....|   +-+..+...+...+...-
T Consensus       321 ~~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~--l~~~~---~~i~~~~~~d~~~i~g~~  395 (784)
T PRK10787        321 DTDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKA--TGRKY---VRMALGGVRDEAEIRGHR  395 (784)
T ss_pred             hhhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHH--hCCCE---EEEEcCCCCCHHHhccch
Confidence            3468999999999999886322111234568999999999999999999862  22222   123333332322211111


Q ss_pred             HHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccc----cchhhhcccC---------------CCCCceE
Q 045152          261 IEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKK----WNPFFSCLKN---------------GHHESKI  321 (533)
Q Consensus       261 l~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~----~~~l~~~l~~---------------~~~gs~I  321 (533)
                      ....+.     . ...+...+... ....-+++||+++......    .+.+...+..               .....-+
T Consensus       396 ~~~~g~-----~-~G~~~~~l~~~-~~~~~villDEidk~~~~~~g~~~~aLlevld~~~~~~~~d~~~~~~~dls~v~~  468 (784)
T PRK10787        396 RTYIGS-----M-PGKLIQKMAKV-GVKNPLFLLDEIDKMSSDMRGDPASALLEVLDPEQNVAFSDHYLEVDYDLSDVMF  468 (784)
T ss_pred             hccCCC-----C-CcHHHHHHHhc-CCCCCEEEEEChhhcccccCCCHHHHHHHHhccccEEEEecccccccccCCceEE
Confidence            001110     0 11223333322 2234578999997643221    1233333321               1123444


Q ss_pred             EEEecchHHHhhh-CCCCeeeCCCCChHhhHHHHHHhhc
Q 045152          322 LITTRDRSVALQL-GSIDIIPVKELAEEECWSLLERLAF  359 (533)
Q Consensus       322 iiTtR~~~v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~a~  359 (533)
                      |.|+....+...+ .....+++.+++.++-.++.+++..
T Consensus       469 i~TaN~~~i~~aLl~R~~ii~~~~~t~eek~~Ia~~~L~  507 (784)
T PRK10787        469 VATSNSMNIPAPLLDRMEVIRLSGYTEDEKLNIAKRHLL  507 (784)
T ss_pred             EEcCCCCCCCHHHhcceeeeecCCCCHHHHHHHHHHhhh
Confidence            5555443332221 2356789999999999888877653

>PLN00113 leucine-rich repeat receptor-like protein kinase; Provisional

Probab=97.57  E-value=7e-05  Score=86.67  Aligned_cols=86  Identities=21%  Similarity=0.167  Sum_probs=76.6

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcce
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKE  499 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~  499 (533)
                      ++.|++|.++.|.....+|..+..+++|++|+++++.-...+|  ..++.+++|++|++++|.-...+|..+.++++|++
T Consensus       187 l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p--~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~  264 (968)
T PLN00113        187 LTSLEFLTLASNQLVGQIPRELGQMKSLKWIYLGYNNLSGEIP--YEIGGLTSLNHLDLVYNNLTGPIPSSLGNLKNLQY  264 (968)
T ss_pred             CcCCCeeeccCCCCcCcCChHHcCcCCccEEECcCCccCCcCC--hhHhcCCCCCEEECcCceeccccChhHhCCCCCCE
Confidence            6789999999988777899999999999999999887555788  68999999999999998766789999999999999


Q ss_pred             eeccCCch
Q 045152          500 LGMEGSPL  507 (533)
Q Consensus       500 L~~~~c~~  507 (533)
                      |++++|..
T Consensus       265 L~L~~n~l  272 (968)
T PLN00113        265 LFLYQNKL  272 (968)
T ss_pred             EECcCCee
Confidence            99998863

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.57  E-value=0.00057  Score=76.89  Aligned_cols=138  Identities=17%  Similarity=0.264  Sum_probs=75.2

Q ss_pred             CceeechhhHHHHHHHHhCCCc---cCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESS---EQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAK  258 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~---~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~  258 (533)
                      ..++|.+.-++.+...+.....   ..+....++.++|+.|+|||+||+.+.+.  ....-...+.++++.-.. .    
T Consensus       568 ~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~--l~~~~~~~i~id~se~~~-~----  640 (857)
T PRK10865        568 HRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANF--MFDSDDAMVRIDMSEFME-K----  640 (857)
T ss_pred             CeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHH--hhcCCCcEEEEEhHHhhh-h----
Confidence            4688999998888888754321   01223468889999999999999998853  211122334444432211 1    


Q ss_pred             HHHHHhCCCCCCCccHHHHHHHHHHHhC-CceEEEEEeCCCCCCccccchhhhcccCC-----------CCCceEEEEec
Q 045152          259 AIIEGLGVSASGLSEFESLMKQIQEYIT-RKKFFLVLDDVWDGDYKKWNPFFSCLKNG-----------HHESKILITTR  326 (533)
Q Consensus       259 ~il~~l~~~~~~~~~~~~l~~~l~~~l~-~kr~LlVLDdv~~~~~~~~~~l~~~l~~~-----------~~gs~IiiTtR  326 (533)
                      .....+.+.++.....+. ...+.+.++ ...-+|+|||+...+...+..+...+..+           ...+.||+||.
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            112222222211111110 111222222 23369999999877666777776666433           12233777876


Q ss_pred             c
Q 045152          327 D  327 (533)
Q Consensus       327 ~  327 (533)
                      .
T Consensus       720 ~  720 (857)
T PRK10865        720 L  720 (857)
T ss_pred             c
Confidence            5

>TIGR00602 rad24 checkpoint protein rad24

Probab=97.55  E-value=0.00041  Score=74.55  Aligned_cols=50  Identities=16%  Similarity=0.223  Sum_probs=39.5

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .+++|-++.++++..++..... ......++.|+|++|+||||+++.+...
T Consensus        84 del~~~~~ki~~l~~~l~~~~~-~~~~~~illL~GP~GsGKTTl~~~la~~  133 (637)
T TIGR00602        84 HELAVHKKKIEEVETWLKAQVL-ENAPKRILLITGPSGCGKSTTIKILSKE  133 (637)
T ss_pred             HHhcCcHHHHHHHHHHHHhccc-ccCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            4689999999999999865432 1233467999999999999999999864

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PRK12377 putative replication protein; Provisional

Probab=97.55  E-value=0.00017  Score=68.56  Aligned_cols=102  Identities=21%  Similarity=0.118  Sum_probs=57.8

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRK  288 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~k  288 (533)
                      ...+.++|.+|+|||+||..+.+.  .......++++++.      +++..+-......    .....    +.+.+ .+
T Consensus       101 ~~~l~l~G~~GtGKThLa~AIa~~--l~~~g~~v~~i~~~------~l~~~l~~~~~~~----~~~~~----~l~~l-~~  163 (248)
T PRK12377        101 CTNFVFSGKPGTGKNHLAAAIGNR--LLAKGRSVIVVTVP------DVMSRLHESYDNG----QSGEK----FLQEL-CK  163 (248)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH--HHHcCCCeEEEEHH------HHHHHHHHHHhcc----chHHH----HHHHh-cC
Confidence            357899999999999999999984  33334445666543      4444444333211    11111    22222 35


Q ss_pred             eEEEEEeCCCCCCccccch--hhhcccCC-CCCceEEEEecc
Q 045152          289 KFFLVLDDVWDGDYKKWNP--FFSCLKNG-HHESKILITTRD  327 (533)
Q Consensus       289 r~LlVLDdv~~~~~~~~~~--l~~~l~~~-~~gs~IiiTtR~  327 (533)
                      .-||||||+.......|..  +...+... .+.-.+||||..
T Consensus       164 ~dLLiIDDlg~~~~s~~~~~~l~~ii~~R~~~~~ptiitSNl  205 (248)
T PRK12377        164 VDLLVLDEIGIQRETKNEQVVLNQIIDRRTASMRSVGMLTNL  205 (248)
T ss_pred             CCEEEEcCCCCCCCCHHHHHHHHHHHHHHHhcCCCEEEEcCC
Confidence            5699999996544344543  33333321 223447888764

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

Probab=97.54  E-value=0.0014  Score=67.11  Aligned_cols=181  Identities=12%  Similarity=0.089  Sum_probs=96.3

Q ss_pred             CceeechhhHHHHHHHHhCCCc-------cCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESS-------EQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEI  254 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~-------~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~  254 (533)
                      .++.|.+..+++|.+.+...-.       -+-..++.+.++|++|.|||+||+.+.+.  ....|     +.+..    .
T Consensus       145 ~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~--l~~~f-----i~i~~----s  213 (398)
T PTZ00454        145 SDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHH--TTATF-----IRVVG----S  213 (398)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHh--cCCCE-----EEEeh----H
Confidence            3588999888888876531110       01134677899999999999999999874  22222     22211    1


Q ss_pred             HHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCC------cc----c----cchhhhcccC--CCCC
Q 045152          255 RVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGD------YK----K----WNPFFSCLKN--GHHE  318 (533)
Q Consensus       255 ~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~------~~----~----~~~l~~~l~~--~~~g  318 (533)
                      .+    .....+.     ....+...+.......+.+|+||+++..-      ..    .    +..+...+..  ...+
T Consensus       214 ~l----~~k~~ge-----~~~~lr~lf~~A~~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~~~~~  284 (398)
T PTZ00454        214 EF----VQKYLGE-----GPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQTTN  284 (398)
T ss_pred             HH----HHHhcch-----hHHHHHHHHHHHHhcCCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccCCCCC
Confidence            11    1111110     11122222333334578899999985421      00    0    1112222211  2235


Q ss_pred             ceEEEEecchHHHhh--h---CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcch
Q 045152          319 SKILITTRDRSVALQ--L---GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLA  387 (533)
Q Consensus       319 s~IiiTtR~~~v~~~--~---~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLa  387 (533)
                      ..||+||...+....  .   .....+.++..+.++..++|..... ........++    .++++.+.|.--|
T Consensus       285 v~VI~aTN~~d~LDpAllR~GRfd~~I~~~~P~~~~R~~Il~~~~~-~~~l~~dvd~----~~la~~t~g~sga  353 (398)
T PTZ00454        285 VKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITS-KMNLSEEVDL----EDFVSRPEKISAA  353 (398)
T ss_pred             EEEEEecCCchhCCHHHcCCCcccEEEEeCCcCHHHHHHHHHHHHh-cCCCCcccCH----HHHHHHcCCCCHH
Confidence            678888876543321  1   1255688999999988888886543 1111122223    4566677666543

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=97.54  E-value=0.0025  Score=62.98  Aligned_cols=93  Identities=11%  Similarity=0.095  Sum_probs=67.2

Q ss_pred             CceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecch-HHH-hhhCCCCeeeCCCCChHhhHHHHHHhhccCCCc
Q 045152          287 RKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDR-SVA-LQLGSIDIIPVKELAEEECWSLLERLAFFRRSV  364 (533)
Q Consensus       287 ~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~-~v~-~~~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~  364 (533)
                      +++=++|+|+++..+......+...+.....++.+|++|.+. .+. +.......+.+.+++.+++.+.+.....     
T Consensus       107 ~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTI~SRCq~~~~~~~~~~~~~~~L~~~~~-----  181 (319)
T PRK06090        107 NGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIVSRCQQWVVTPPSTAQAMQWLKGQGI-----  181 (319)
T ss_pred             CCceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhcceeEeCCCCCHHHHHHHHHHcCC-----
Confidence            445688999998888778888888887776777777776654 333 3334467899999999999888865311     


Q ss_pred             cccccchHHHHHHHhHhCCCcchhHHH
Q 045152          365 DDHEKLEPIGRKIAHKCKGLPLAAKVI  391 (533)
Q Consensus       365 ~~~~~l~~~~~~I~~~c~GlPLai~~~  391 (533)
                      .       ....++..++|.|+.+..+
T Consensus       182 ~-------~~~~~l~l~~G~p~~A~~~  201 (319)
T PRK06090        182 T-------VPAYALKLNMGSPLKTLAM  201 (319)
T ss_pred             c-------hHHHHHHHcCCCHHHHHHH
Confidence            1       1346788999999977644

>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.54  E-value=0.0011  Score=68.11  Aligned_cols=117  Identities=21%  Similarity=0.300  Sum_probs=73.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceE
Q 045152          211 VISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKF  290 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~  290 (533)
                      ++.|.|+-++||||+++.+...  ....   .++++..+......-+.+                 ....+...-..++.
T Consensus        39 i~~i~GpR~~GKTtll~~l~~~--~~~~---~iy~~~~d~~~~~~~l~d-----------------~~~~~~~~~~~~~~   96 (398)
T COG1373          39 IILILGPRQVGKTTLLKLLIKG--LLEE---IIYINFDDLRLDRIELLD-----------------LLRAYIELKEREKS   96 (398)
T ss_pred             EEEEECCccccHHHHHHHHHhh--CCcc---eEEEEecchhcchhhHHH-----------------HHHHHHHhhccCCc
Confidence            9999999999999999666542  1111   555553332111110111                 11111111122778


Q ss_pred             EEEEeCCCCCCccccchhhhcccCCCCCceEEEEecchHHHh-----h-hCCCCeeeCCCCChHhhHH
Q 045152          291 FLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRSVAL-----Q-LGSIDIIPVKELAEEECWS  352 (533)
Q Consensus       291 LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~~v~~-----~-~~~~~~~~l~~L~~~~~~~  352 (533)
                      .++||.|...  ..|......+.+.++. +|++|+.+.....     . .|....+.+-||+..|...
T Consensus        97 yifLDEIq~v--~~W~~~lk~l~d~~~~-~v~itgsss~ll~~~~~~~L~GR~~~~~l~PlSF~Efl~  161 (398)
T COG1373          97 YIFLDEIQNV--PDWERALKYLYDRGNL-DVLITGSSSSLLSKEISESLAGRGKDLELYPLSFREFLK  161 (398)
T ss_pred             eEEEecccCc--hhHHHHHHHHHccccc-eEEEECCchhhhccchhhhcCCCceeEEECCCCHHHHHh
Confidence            9999999655  6788888877766555 7888887654432     2 2336788999999999875

>TIGR00763 lon ATP-dependent protease La

Probab=97.53  E-value=0.0044  Score=69.42  Aligned_cols=165  Identities=15%  Similarity=0.211  Sum_probs=85.3

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAII  261 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il  261 (533)
                      .+++|.++-++++.+++............++.++|++|+|||++|+.+.+.  ....|   +-++++...+..++...  
T Consensus       320 ~~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~--l~~~~---~~i~~~~~~~~~~i~g~--  392 (775)
T TIGR00763       320 EDHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKA--LNRKF---VRFSLGGVRDEAEIRGH--  392 (775)
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHH--hcCCe---EEEeCCCcccHHHHcCC--
Confidence            458899999999988764221111223458999999999999999999873  32233   12223332222221110  


Q ss_pred             HHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccc----cchhhhccc--------CC-------CCCceEE
Q 045152          262 EGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKK----WNPFFSCLK--------NG-------HHESKIL  322 (533)
Q Consensus       262 ~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~----~~~l~~~l~--------~~-------~~gs~Ii  322 (533)
                         . ..........+...+.... .++-+++||+++......    ...+...+.        +.       ..+..+|
T Consensus       393 ---~-~~~~g~~~g~i~~~l~~~~-~~~~villDEidk~~~~~~~~~~~aLl~~ld~~~~~~f~d~~~~~~~d~s~v~~I  467 (775)
T TIGR00763       393 ---R-RTYVGAMPGRIIQGLKKAK-TKNPLFLLDEIDKIGSSFRGDPASALLEVLDPEQNNAFSDHYLDVPFDLSKVIFI  467 (775)
T ss_pred             ---C-CceeCCCCchHHHHHHHhC-cCCCEEEEechhhcCCccCCCHHHHHHHhcCHHhcCccccccCCceeccCCEEEE
Confidence               0 0000011122333333332 333478999996643211    111222221        00       1233345


Q ss_pred             EEecchH-HHh-hhCCCCeeeCCCCChHhhHHHHHHhh
Q 045152          323 ITTRDRS-VAL-QLGSIDIIPVKELAEEECWSLLERLA  358 (533)
Q Consensus       323 iTtR~~~-v~~-~~~~~~~~~l~~L~~~~~~~Lf~~~a  358 (533)
                      .||.... +.. .......+.+.+++.++-.+++.+..
T Consensus       468 ~TtN~~~~i~~~L~~R~~vi~~~~~~~~e~~~I~~~~l  505 (775)
T TIGR00763       468 ATANSIDTIPRPLLDRMEVIELSGYTEEEKLEIAKKYL  505 (775)
T ss_pred             EecCCchhCCHHHhCCeeEEecCCCCHHHHHHHHHHHH
Confidence            5555432 111 12334678999999999888887643

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.

>PRK08118 topology modulation protein; Reviewed

Probab=97.53  E-value=5.1e-05  Score=68.00  Aligned_cols=34  Identities=32%  Similarity=0.614  Sum_probs=27.3

Q ss_pred             EEEEEcCCCChHHHHHHHHhcchhhh-ccCCceEE
Q 045152          211 VISLVGLGGIGKTTLAQLAYNNDEVK-RNFEKVIW  244 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~~~~~-~~F~~~~w  244 (533)
                      .|.|+|++|+||||||+.+++...+. -+|+..+|
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~   37 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFW   37 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCceecchhhc
Confidence            58999999999999999999864443 45677775

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

Probab=97.53  E-value=0.00085  Score=74.58  Aligned_cols=164  Identities=16%  Similarity=0.251  Sum_probs=92.3

Q ss_pred             CceeechhhHHHHHHHHhCCCc---cCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESS---EQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAK  258 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~---~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~  258 (533)
                      ..++|-+..++.+...+.....   .......++.++|+.|+|||+||+.+...  .   +...+.++.+.-.+...   
T Consensus       454 ~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~--l---~~~~~~~d~se~~~~~~---  525 (731)
T TIGR02639       454 AKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEA--L---GVHLERFDMSEYMEKHT---  525 (731)
T ss_pred             cceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHH--h---cCCeEEEeCchhhhccc---
Confidence            3578888888888887753211   01234567899999999999999999863  2   23345555544222111   


Q ss_pred             HHHHHhCCCCC--CCccHHHHHHHHHHHhC-CceEEEEEeCCCCCCccccchhhhcccCC-----------CCCceEEEE
Q 045152          259 AIIEGLGVSAS--GLSEFESLMKQIQEYIT-RKKFFLVLDDVWDGDYKKWNPFFSCLKNG-----------HHESKILIT  324 (533)
Q Consensus       259 ~il~~l~~~~~--~~~~~~~l~~~l~~~l~-~kr~LlVLDdv~~~~~~~~~~l~~~l~~~-----------~~gs~IiiT  324 (533)
                       +..-++....  +......    +.+.++ ...-+++||+++..+.+.++.|...+..+           ...+.||+|
T Consensus       526 -~~~lig~~~gyvg~~~~~~----l~~~~~~~p~~VvllDEieka~~~~~~~Ll~~ld~g~~~d~~g~~vd~~~~iii~T  600 (731)
T TIGR02639       526 -VSRLIGAPPGYVGFEQGGL----LTEAVRKHPHCVLLLDEIEKAHPDIYNILLQVMDYATLTDNNGRKADFRNVILIMT  600 (731)
T ss_pred             -HHHHhcCCCCCcccchhhH----HHHHHHhCCCeEEEEechhhcCHHHHHHHHHhhccCeeecCCCcccCCCCCEEEEC
Confidence             1111222211  1111122    233333 33469999999887766677776665433           123446777


Q ss_pred             ecch--HHH--------------------hhhC-----C-CCeeeCCCCChHhhHHHHHHhh
Q 045152          325 TRDR--SVA--------------------LQLG-----S-IDIIPVKELAEEECWSLLERLA  358 (533)
Q Consensus       325 tR~~--~v~--------------------~~~~-----~-~~~~~l~~L~~~~~~~Lf~~~a  358 (533)
                      |..-  .+.                    ..+.     . ..++.+++|+.++..+++....
T Consensus       601 sn~g~~~~~~~~~~f~~~~~~~~~~~~~~~~f~pef~~Rid~Vi~F~pLs~e~l~~Iv~~~L  662 (731)
T TIGR02639       601 SNAGASEMSKPPIGFGSENVESKSDKAIKKLFSPEFRNRLDAIIHFNPLSEEVLEKIVQKFV  662 (731)
T ss_pred             CCcchhhhhhccCCcchhhhHHHHHHHHHhhcChHHHhcCCeEEEcCCCCHHHHHHHHHHHH
Confidence            6431  010                    0111     1 3567788888888877776543

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

Probab=97.51  E-value=0.0028  Score=67.24  Aligned_cols=164  Identities=18%  Similarity=0.287  Sum_probs=90.8

Q ss_pred             CCceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHH
Q 045152          181 EGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAI  260 (533)
Q Consensus       181 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i  260 (533)
                      +.+-+|.++-+++|++.|.-..-...-...++++||++|+|||+|++.+.+  .....|   +-+++..--|..++    
T Consensus       322 d~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~--al~Rkf---vR~sLGGvrDEAEI----  392 (782)
T COG0466         322 DKDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAK--ALGRKF---VRISLGGVRDEAEI----  392 (782)
T ss_pred             cccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHH--HhCCCE---EEEecCccccHHHh----
Confidence            345689999999999998543321234568999999999999999999986  344444   22233333232211    


Q ss_pred             HHHhCCC-CC--CCccHHHHHHHHHHHhCCceEEEEEeCCCCCCcccc----chhhhccc-CCC------------CCce
Q 045152          261 IEGLGVS-AS--GLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKW----NPFFSCLK-NGH------------HESK  320 (533)
Q Consensus       261 l~~l~~~-~~--~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~----~~l~~~l~-~~~------------~gs~  320 (533)
                          .+. ..  +.+. ..+...++ ..+.+.-+++||.++....+--    ..++..|. ..+            -=|.
T Consensus       393 ----RGHRRTYIGamP-GrIiQ~mk-ka~~~NPv~LLDEIDKm~ss~rGDPaSALLEVLDPEQN~~F~DhYLev~yDLS~  466 (782)
T COG0466         393 ----RGHRRTYIGAMP-GKIIQGMK-KAGVKNPVFLLDEIDKMGSSFRGDPASALLEVLDPEQNNTFSDHYLEVPYDLSK  466 (782)
T ss_pred             ----ccccccccccCC-hHHHHHHH-HhCCcCCeEEeechhhccCCCCCChHHHHHhhcCHhhcCchhhccccCccchhh
Confidence                111 00  1111 11222222 2245678999999965432111    11222221 100            0133


Q ss_pred             E-EEEecc-hH-H-HhhhCCCCeeeCCCCChHhhHHHHHHhhc
Q 045152          321 I-LITTRD-RS-V-ALQLGSIDIIPVKELAEEECWSLLERLAF  359 (533)
Q Consensus       321 I-iiTtR~-~~-v-~~~~~~~~~~~l~~L~~~~~~~Lf~~~a~  359 (533)
                      | .|||-+ -+ + +..+....++++.+-+++|-.++-+++..
T Consensus       467 VmFiaTANsl~tIP~PLlDRMEiI~lsgYt~~EKl~IAk~~Li  509 (782)
T COG0466         467 VMFIATANSLDTIPAPLLDRMEVIRLSGYTEDEKLEIAKRHLI  509 (782)
T ss_pred             eEEEeecCccccCChHHhcceeeeeecCCChHHHHHHHHHhcc
Confidence            3 344433 22 2 22334568899999999998888777654

>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=97.51  E-value=0.0012  Score=58.70  Aligned_cols=138  Identities=18%  Similarity=0.158  Sum_probs=74.6

Q ss_pred             chhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhh------------------ccCCceEEEEeC
Q 045152          187 RVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVK------------------RNFEKVIWVCVS  248 (533)
Q Consensus       187 R~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~------------------~~F~~~~wv~vs  248 (533)
                      -+...+.+...+...     .-...+.++|+.|+||+|+|..+.+.---.                  ..+.-..|+.-.
T Consensus         2 q~~~~~~L~~~~~~~-----~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~   76 (162)
T PF13177_consen    2 QEEIIELLKNLIKSG-----RLPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKPD   76 (162)
T ss_dssp             -HHHHHHHHHHHHCT-----C--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEETT
T ss_pred             cHHHHHHHHHHHHcC-----CcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEecc
Confidence            345556666666332     235578999999999999997775421000                  122333444322


Q ss_pred             Cc---hhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEe
Q 045152          249 DT---FEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITT  325 (533)
Q Consensus       249 ~~---~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTt  325 (533)
                      ..   ..++++- ++...+....                ..++.=++||||++..+.+....|+..+.....++.+|++|
T Consensus        77 ~~~~~i~i~~ir-~i~~~~~~~~----------------~~~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fiL~t  139 (162)
T PF13177_consen   77 KKKKSIKIDQIR-EIIEFLSLSP----------------SEGKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFILIT  139 (162)
T ss_dssp             TSSSSBSHHHHH-HHHHHCTSS-----------------TTSSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEEEEE
T ss_pred             cccchhhHHHHH-HHHHHHHHHH----------------hcCCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEEEEE
Confidence            21   2222222 2333222111                12356689999999888888888988888877889998888


Q ss_pred             cchH-HHh-hhCCCCeeeCCCCC
Q 045152          326 RDRS-VAL-QLGSIDIIPVKELA  346 (533)
Q Consensus       326 R~~~-v~~-~~~~~~~~~l~~L~  346 (533)
                      .+.. +.. .......+.+++++
T Consensus       140 ~~~~~il~TI~SRc~~i~~~~ls  162 (162)
T PF13177_consen  140 NNPSKILPTIRSRCQVIRFRPLS  162 (162)
T ss_dssp             S-GGGS-HHHHTTSEEEEE----
T ss_pred             CChHHChHHHHhhceEEecCCCC
Confidence            8754 222 22334556665553

...

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=97.47  E-value=0.002  Score=64.48  Aligned_cols=148  Identities=11%  Similarity=0.108  Sum_probs=87.7

Q ss_pred             ceee-chhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhc--------------------cCCc
Q 045152          183 EVCG-RVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKR--------------------NFEK  241 (533)
Q Consensus       183 ~~vG-R~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~--------------------~F~~  241 (533)
                      .++| -+.-++.+...+..+     .-.....++|+.|+||||+|+.+.+..--..                    |.|.
T Consensus         6 ~i~~~q~~~~~~L~~~~~~~-----~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~~cg~C~~c~~~~~~~hpD~   80 (329)
T PRK08058          6 QLTALQPVVVKMLQNSIAKN-----RLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTNCKRIDSGNHPDV   80 (329)
T ss_pred             HHHhhHHHHHHHHHHHHHcC-----CCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCcCHHHHHHhcCCCCCE
Confidence            3556 445566666666422     2356779999999999999987754210000                    1111


Q ss_pred             eEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHH----hCCceEEEEEeCCCCCCccccchhhhcccCCCC
Q 045152          242 VIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEY----ITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHH  317 (533)
Q Consensus       242 ~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~----l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~  317 (533)
                       .++...                    ......+++.+.+...    ..+++-++|+|+++..+......|...+.....
T Consensus        81 -~~i~~~--------------------~~~i~id~ir~l~~~~~~~~~~~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~  139 (329)
T PRK08058         81 -HLVAPD--------------------GQSIKKDQIRYLKEEFSKSGVESNKKVYIIEHADKMTASAANSLLKFLEEPSG  139 (329)
T ss_pred             -EEeccc--------------------cccCCHHHHHHHHHHHhhCCcccCceEEEeehHhhhCHHHHHHHHHHhcCCCC
Confidence             111100                    0111222332222211    234556799999987776667778888877667


Q ss_pred             CceEEEEecchH-HHhhh-CCCCeeeCCCCChHhhHHHHHH
Q 045152          318 ESKILITTRDRS-VALQL-GSIDIIPVKELAEEECWSLLER  356 (533)
Q Consensus       318 gs~IiiTtR~~~-v~~~~-~~~~~~~l~~L~~~~~~~Lf~~  356 (533)
                      ++.+|++|.+.. +...+ .....+++.+++.++..+.+..
T Consensus       140 ~~~~Il~t~~~~~ll~TIrSRc~~i~~~~~~~~~~~~~L~~  180 (329)
T PRK08058        140 GTTAILLTENKHQILPTILSRCQVVEFRPLPPESLIQRLQE  180 (329)
T ss_pred             CceEEEEeCChHhCcHHHHhhceeeeCCCCCHHHHHHHHHH
Confidence            777777776533 32222 3367899999999999887765

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

Probab=97.46  E-value=0.0003  Score=72.41  Aligned_cols=157  Identities=14%  Similarity=0.094  Sum_probs=86.4

Q ss_pred             CceeechhhHHHHHHHHhCCCcc-------CCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSE-------QQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEI  254 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~-------~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~  254 (533)
                      .++.|.+..++++.+.+.-.-..       +-.....+.++|++|.|||++|+.+.+.  ....|     +.+...    
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            35789999988888876321100       1124456889999999999999999973  33333     222111    


Q ss_pred             HHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCc------cc--------cchhhhcccC--CCCC
Q 045152          255 RVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDY------KK--------WNPFFSCLKN--GHHE  318 (533)
Q Consensus       255 ~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~------~~--------~~~l~~~l~~--~~~g  318 (533)
                      ++.    ....+.     ....+...+.......+.+|+||+++....      ..        ...+...+..  ...+
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    111110     011122222222345678999999843210      00        0111111211  1335


Q ss_pred             ceEEEEecchHHHhh-h----CCCCeeeCCCCChHhhHHHHHHhh
Q 045152          319 SKILITTRDRSVALQ-L----GSIDIIPVKELAEEECWSLLERLA  358 (533)
Q Consensus       319 s~IiiTtR~~~v~~~-~----~~~~~~~l~~L~~~~~~~Lf~~~a  358 (533)
                      ..||.||...+.... +    .....+.++..+.++..++|..+.
T Consensus       323 V~VI~ATNr~d~LDpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~  367 (438)
T PTZ00361        323 VKVIMATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHT  367 (438)
T ss_pred             eEEEEecCChHHhhHHhccCCeeEEEEEeCCCCHHHHHHHHHHHH
Confidence            678888876544332 1    125678999999999999998765

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=97.46  E-value=0.0031  Score=62.31  Aligned_cols=95  Identities=11%  Similarity=0.070  Sum_probs=66.2

Q ss_pred             CceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecch-HHHhh-hCCCCeeeCCCCChHhhHHHHHHhhccCCCc
Q 045152          287 RKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDR-SVALQ-LGSIDIIPVKELAEEECWSLLERLAFFRRSV  364 (533)
Q Consensus       287 ~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~-~v~~~-~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~  364 (533)
                      +++-++|||+++..+...-..|...+.....++.+|++|.+. .+..- ......+.+.+++.+++.+.+.....     
T Consensus       112 g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrSRCq~i~~~~~~~~~~~~~L~~~~~-----  186 (319)
T PRK08769        112 GIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRSRCQRLEFKLPPAHEALAWLLAQGV-----  186 (319)
T ss_pred             CCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHhhheEeeCCCcCHHHHHHHHHHcCC-----
Confidence            456789999998877666677777777666677777777653 33322 23367789999999999888865311     


Q ss_pred             cccccchHHHHHHHhHhCCCcchhHHH
Q 045152          365 DDHEKLEPIGRKIAHKCKGLPLAAKVI  391 (533)
Q Consensus       365 ~~~~~l~~~~~~I~~~c~GlPLai~~~  391 (533)
                       .    ...+..++..++|.|+.+..+
T Consensus       187 -~----~~~a~~~~~l~~G~p~~A~~~  208 (319)
T PRK08769        187 -S----ERAAQEALDAARGHPGLAAQW  208 (319)
T ss_pred             -C----hHHHHHHHHHcCCCHHHHHHH
Confidence             1    222567789999999876543

>CHL00176 ftsH cell division protein; Validated

Probab=97.44  E-value=0.0011  Score=71.69  Aligned_cols=179  Identities=16%  Similarity=0.138  Sum_probs=94.7

Q ss_pred             CceeechhhHHHHHHH---HhCCCc---cCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHH
Q 045152          182 GEVCGRVEEKNELLSK---LLCESS---EQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIR  255 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~---L~~~~~---~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~  255 (533)
                      .++.|.++.++++.+.   +.....   -+....+-+.++|++|.|||+||+.+....  .     .-|+.++..    +
T Consensus       183 ~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~--~-----~p~i~is~s----~  251 (638)
T CHL00176        183 RDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEA--E-----VPFFSISGS----E  251 (638)
T ss_pred             HhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHh--C-----CCeeeccHH----H
Confidence            3578887766655544   322210   011234568999999999999999998632  1     123333221    1


Q ss_pred             HHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCC----------ccccc----hhhhccc--CCCCCc
Q 045152          256 VAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGD----------YKKWN----PFFSCLK--NGHHES  319 (533)
Q Consensus       256 l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~----------~~~~~----~l~~~l~--~~~~gs  319 (533)
                      +..    ...+     .....+...+.......+++|+|||++...          ...+.    .+...+.  ....+.
T Consensus       252 f~~----~~~g-----~~~~~vr~lF~~A~~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~~~~V  322 (638)
T CHL00176        252 FVE----MFVG-----VGAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGNKGV  322 (638)
T ss_pred             HHH----Hhhh-----hhHHHHHHHHHHHhcCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccCCCCe
Confidence            110    0000     011223334444556678999999995421          01111    1222221  123455


Q ss_pred             eEEEEecchHHHhh-h----CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCc
Q 045152          320 KILITTRDRSVALQ-L----GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLP  385 (533)
Q Consensus       320 ~IiiTtR~~~v~~~-~----~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlP  385 (533)
                      .||.||...+.... +    .....+.+...+.++-.++++.++.. .....    ......+++.+.|..
T Consensus       323 iVIaaTN~~~~LD~ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~-~~~~~----d~~l~~lA~~t~G~s  388 (638)
T CHL00176        323 IVIAATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARN-KKLSP----DVSLELIARRTPGFS  388 (638)
T ss_pred             eEEEecCchHhhhhhhhccccCceEEEECCCCHHHHHHHHHHHHhh-cccch----hHHHHHHHhcCCCCC
Confidence            67777766543221 1    12467888888999999999887642 11111    122356677777733

>PRK08181 transposase; Validated

Probab=97.43  E-value=0.00035  Score=67.34  Aligned_cols=101  Identities=21%  Similarity=0.185  Sum_probs=55.9

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCce
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKK  289 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr  289 (533)
                      ..+.++|++|+|||.||..+.+.  .......++|++      ..++...+.....     ..........    + .+.
T Consensus       107 ~nlll~Gp~GtGKTHLa~Aia~~--a~~~g~~v~f~~------~~~L~~~l~~a~~-----~~~~~~~l~~----l-~~~  168 (269)
T PRK08181        107 ANLLLFGPPGGGKSHLAAAIGLA--LIENGWRVLFTR------TTDLVQKLQVARR-----ELQLESAIAK----L-DKF  168 (269)
T ss_pred             ceEEEEecCCCcHHHHHHHHHHH--HHHcCCceeeee------HHHHHHHHHHHHh-----CCcHHHHHHH----H-hcC
Confidence            35899999999999999999873  222333455554      3445555433321     1122222222    2 134


Q ss_pred             EEEEEeCCCCCCccccc--hhhhcccCCCCCceEEEEecch
Q 045152          290 FFLVLDDVWDGDYKKWN--PFFSCLKNGHHESKILITTRDR  328 (533)
Q Consensus       290 ~LlVLDdv~~~~~~~~~--~l~~~l~~~~~gs~IiiTtR~~  328 (533)
                      -||||||+.......|.  .+...+...-.+..+||||..+
T Consensus       169 dLLIIDDlg~~~~~~~~~~~Lf~lin~R~~~~s~IiTSN~~  209 (269)
T PRK08181        169 DLLILDDLAYVTKDQAETSVLFELISARYERRSILITANQP  209 (269)
T ss_pred             CEEEEeccccccCCHHHHHHHHHHHHHHHhCCCEEEEcCCC
Confidence            59999999654433332  2444443211123588888764

>PF12799 LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_A 1XEU_A 2OMX_A 2OMU_A 2UZY_A 2WQU_D 1D0B_A 2WQW_A 1OTO_A 2WQV_B

Probab=97.41  E-value=0.00011  Score=49.56  Aligned_cols=34  Identities=24%  Similarity=0.472  Sum_probs=17.0

Q ss_pred             CcceEEeccCCCCCCCCcCCCCCCCcceeeccCCc
Q 045152          472 RLSSLRIEYCPKLKLLPDSLLQITTLKELGMEGSP  506 (533)
Q Consensus       472 ~L~~L~l~~C~~l~~lP~~~~~l~~L~~L~~~~c~  506 (533)
                      +|++|++++ .+++.+|+.+.+|++|++|++++|+
T Consensus         2 ~L~~L~l~~-N~i~~l~~~l~~l~~L~~L~l~~N~   35 (44)
T PF12799_consen    2 NLEELDLSN-NQITDLPPELSNLPNLETLNLSNNP   35 (44)
T ss_dssp             T-SEEEETS-SS-SSHGGHGTTCTTSSEEEETSSC
T ss_pred             cceEEEccC-CCCcccCchHhCCCCCCEEEecCCC
Confidence            455555555 3555555445555555555555554

...

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=97.38  E-value=0.0015  Score=69.46  Aligned_cols=179  Identities=15%  Similarity=0.101  Sum_probs=92.6

Q ss_pred             CceeechhhHHHHHHHHh---CCCc---cCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHH
Q 045152          182 GEVCGRVEEKNELLSKLL---CESS---EQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIR  255 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~---~~~~---~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~  255 (533)
                      .+++|-++.++++.+.+.   ....   .+....+-+.++|++|.|||+||+.+.+..  ...     ++.++..    +
T Consensus        55 ~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~--~~~-----~~~i~~~----~  123 (495)
T TIGR01241        55 KDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEA--GVP-----FFSISGS----D  123 (495)
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHc--CCC-----eeeccHH----H
Confidence            367888877666655442   1100   011234568899999999999999998642  111     2333211    1


Q ss_pred             HHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCc----------cccch----hhhccc--CCCCCc
Q 045152          256 VAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDY----------KKWNP----FFSCLK--NGHHES  319 (533)
Q Consensus       256 l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~----------~~~~~----l~~~l~--~~~~gs  319 (533)
                      +..    ...+     .....+...+.......+.+|+|||++....          ..+..    +...+.  ....+.
T Consensus       124 ~~~----~~~g-----~~~~~l~~~f~~a~~~~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~~~~v  194 (495)
T TIGR01241       124 FVE----MFVG-----VGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTNTGV  194 (495)
T ss_pred             HHH----HHhc-----ccHHHHHHHHHHHHhcCCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccCCCCe
Confidence            111    1100     0112233334444445678999999954210          01111    111111  122344


Q ss_pred             eEEEEecchHHHh-hh----CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCc
Q 045152          320 KILITTRDRSVAL-QL----GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLP  385 (533)
Q Consensus       320 ~IiiTtR~~~v~~-~~----~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlP  385 (533)
                      .||.||..+.... .+    .....+.++..+.++-.++|....... ......+    ...+++.+.|.-
T Consensus       195 ~vI~aTn~~~~ld~al~r~gRfd~~i~i~~Pd~~~R~~il~~~l~~~-~~~~~~~----l~~la~~t~G~s  260 (495)
T TIGR01241       195 IVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNK-KLAPDVD----LKAVARRTPGFS  260 (495)
T ss_pred             EEEEecCChhhcCHHHhcCCcceEEEEcCCCCHHHHHHHHHHHHhcC-CCCcchh----HHHHHHhCCCCC
Confidence            5666776543221 11    225678899999988889888765311 1111112    246777777744

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.

>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=97.36  E-value=0.00039  Score=65.34  Aligned_cols=37  Identities=22%  Similarity=0.420  Sum_probs=29.4

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEe
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCV  247 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v  247 (533)
                      .-.++|+|..|.|||||+..+..+  ....|..+++++-
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            346789999999999999888864  6678877776653

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

>PRK10536 hypothetical protein; Provisional

Probab=97.34  E-value=0.0021  Score=60.75  Aligned_cols=136  Identities=13%  Similarity=0.187  Sum_probs=73.1

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEE--e--CC-----chh
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVC--V--SD-----TFE  252 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~--v--s~-----~~~  252 (533)
                      ..+.++......+..++..        ...+.++|++|.|||+||..+..+.-....|+..+...  +  .+     +-+
T Consensus        55 ~~i~p~n~~Q~~~l~al~~--------~~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP~v~~ge~LGfLPG~  126 (262)
T PRK10536         55 SPILARNEAQAHYLKAIES--------KQLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPVLQADEDLGFLPGD  126 (262)
T ss_pred             ccccCCCHHHHHHHHHHhc--------CCeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCCCCCchhhhCcCCCC
Confidence            3467788888888888842        24899999999999999988776422233444333321  1  10     001


Q ss_pred             HH----HHHHHHHHHhCCCCCCCccHHHHHH--------HHHHHhCCceE---EEEEeCCCCCCccccchhhhcccCCCC
Q 045152          253 EI----RVAKAIIEGLGVSASGLSEFESLMK--------QIQEYITRKKF---FLVLDDVWDGDYKKWNPFFSCLKNGHH  317 (533)
Q Consensus       253 ~~----~l~~~il~~l~~~~~~~~~~~~l~~--------~l~~~l~~kr~---LlVLDdv~~~~~~~~~~l~~~l~~~~~  317 (533)
                      ..    -.+.-+...+..-- .....+....        .=..++++..+   ++|+|++.+.+..   .+...+...+.
T Consensus       127 ~~eK~~p~~~pi~D~L~~~~-~~~~~~~~~~~~~~~Iei~~l~ymRGrtl~~~~vIvDEaqn~~~~---~~k~~ltR~g~  202 (262)
T PRK10536        127 IAEKFAPYFRPVYDVLVRRL-GASFMQYCLRPEIGKVEIAPFAYMRGRTFENAVVILDEAQNVTAA---QMKMFLTRLGE  202 (262)
T ss_pred             HHHHHHHHHHHHHHHHHHHh-ChHHHHHHHHhccCcEEEecHHHhcCCcccCCEEEEechhcCCHH---HHHHHHhhcCC
Confidence            11    11222222221100 0001111100        01135566654   9999999665543   33444445567


Q ss_pred             CceEEEEecchH
Q 045152          318 ESKILITTRDRS  329 (533)
Q Consensus       318 gs~IiiTtR~~~  329 (533)
                      +|++|+|--..+
T Consensus       203 ~sk~v~~GD~~Q  214 (262)
T PRK10536        203 NVTVIVNGDITQ  214 (262)
T ss_pred             CCEEEEeCChhh
Confidence            899998876543

>KOG0617 consensus Ras suppressor protein (contains leucine-rich repeats) [Signal transduction mechanisms]

Probab=97.33  E-value=4.1e-05  Score=66.47  Aligned_cols=81  Identities=26%  Similarity=0.408  Sum_probs=59.0

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcce
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKE  499 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~  499 (533)
                      +.....|.+++ .++...|..+-.+.+|+.|++++-. +++||  .++..|+.|+.|++. ..+|..+|.+++.++.|+.
T Consensus        32 ~s~ITrLtLSH-NKl~~vppnia~l~nlevln~~nnq-ie~lp--~~issl~klr~lnvg-mnrl~~lprgfgs~p~lev  106 (264)
T KOG0617|consen   32 MSNITRLTLSH-NKLTVVPPNIAELKNLEVLNLSNNQ-IEELP--TSISSLPKLRILNVG-MNRLNILPRGFGSFPALEV  106 (264)
T ss_pred             hhhhhhhhccc-CceeecCCcHHHhhhhhhhhcccch-hhhcC--hhhhhchhhhheecc-hhhhhcCccccCCCchhhh
Confidence            33455566666 5667777777778888888887544 77888  677778888888875 3677788888888888888


Q ss_pred             eeccCC
Q 045152          500 LGMEGS  505 (533)
Q Consensus       500 L~~~~c  505 (533)
                      ||+..+
T Consensus       107 ldltyn  112 (264)
T KOG0617|consen  107 LDLTYN  112 (264)
T ss_pred             hhcccc
Confidence            887544

>PRK06526 transposase; Provisional

Probab=97.32  E-value=0.00032  Score=67.24  Aligned_cols=101  Identities=16%  Similarity=0.206  Sum_probs=53.8

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRK  288 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~k  288 (533)
                      ...+.|+|++|+|||+||..+.... ....+. +.|+      +..++...+......     ..   ....+...  .+
T Consensus        98 ~~nlll~Gp~GtGKThLa~al~~~a-~~~g~~-v~f~------t~~~l~~~l~~~~~~-----~~---~~~~l~~l--~~  159 (254)
T PRK06526         98 KENVVFLGPPGTGKTHLAIGLGIRA-CQAGHR-VLFA------TAAQWVARLAAAHHA-----GR---LQAELVKL--GR  159 (254)
T ss_pred             CceEEEEeCCCCchHHHHHHHHHHH-HHCCCc-hhhh------hHHHHHHHHHHHHhc-----Cc---HHHHHHHh--cc
Confidence            3468999999999999999987642 222332 3333      334444444332111     11   11222222  23


Q ss_pred             eEEEEEeCCCCCCccccc--hhhhcccC-CCCCceEEEEecch
Q 045152          289 KFFLVLDDVWDGDYKKWN--PFFSCLKN-GHHESKILITTRDR  328 (533)
Q Consensus       289 r~LlVLDdv~~~~~~~~~--~l~~~l~~-~~~gs~IiiTtR~~  328 (533)
                      .-+|||||+.......+.  .+...+.. ...++ +|+||..+
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            458999999654322222  23333321 12344 88888764

>PRK09183 transposase/IS protein; Provisional

Probab=97.31  E-value=0.00067  Score=65.36  Aligned_cols=102  Identities=19%  Similarity=0.230  Sum_probs=53.0

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRK  288 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~k  288 (533)
                      ...+.|+|++|+|||+||..+.... ....+ .+.+++      ..++...+......     ..   +...+...+ .+
T Consensus       102 ~~~v~l~Gp~GtGKThLa~al~~~a-~~~G~-~v~~~~------~~~l~~~l~~a~~~-----~~---~~~~~~~~~-~~  164 (259)
T PRK09183        102 NENIVLLGPSGVGKTHLAIALGYEA-VRAGI-KVRFTT------AADLLLQLSTAQRQ-----GR---YKTTLQRGV-MA  164 (259)
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHH-HHcCC-eEEEEe------HHHHHHHHHHHHHC-----Cc---HHHHHHHHh-cC
Confidence            3467899999999999999997532 22222 233443      23333333222111     01   112222222 34


Q ss_pred             eEEEEEeCCCCCCccccc--hhhhcccC-CCCCceEEEEecch
Q 045152          289 KFFLVLDDVWDGDYKKWN--PFFSCLKN-GHHESKILITTRDR  328 (533)
Q Consensus       289 r~LlVLDdv~~~~~~~~~--~l~~~l~~-~~~gs~IiiTtR~~  328 (533)
                      .-++||||+.......+.  .+...+.. ...++ +||||...
T Consensus       165 ~dlLiiDdlg~~~~~~~~~~~lf~li~~r~~~~s-~iiTsn~~  206 (259)
T PRK09183        165 PRLLIIDEIGYLPFSQEEANLFFQVIAKRYEKGS-MILTSNLP  206 (259)
T ss_pred             CCEEEEcccccCCCChHHHHHHHHHHHHHHhcCc-EEEecCCC
Confidence            569999999754333332  24333321 12344 88888753

>PLN03150 hypothetical protein; Provisional

Probab=97.28  E-value=0.00028  Score=76.95  Aligned_cols=79  Identities=20%  Similarity=0.238  Sum_probs=40.6

Q ss_pred             eEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcceeeccC
Q 045152          425 VLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKELGMEG  504 (533)
Q Consensus       425 ~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~L~~~~  504 (533)
                      .|.++.+.--..+|..+..+++|+.|+|+++.--..+|  ..++.|++|+.|+|++|.--..+|+.+.+|++|++|++++
T Consensus       422 ~L~L~~n~L~g~ip~~i~~L~~L~~L~Ls~N~l~g~iP--~~~~~l~~L~~LdLs~N~lsg~iP~~l~~L~~L~~L~Ls~  499 (623)
T PLN03150        422 GLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIP--PSLGSITSLEVLDLSYNSFNGSIPESLGQLTSLRILNLNG  499 (623)
T ss_pred             EEECCCCCccccCCHHHhCCCCCCEEECCCCcccCcCC--hHHhCCCCCCEEECCCCCCCCCCchHHhcCCCCCEEECcC
Confidence            34444433223455555555666666665543222455  4555556666666655433334555555566666666555


Q ss_pred             C
Q 045152          505 S  505 (533)
Q Consensus       505 c  505 (533)
                      |
T Consensus       500 N  500 (623)
T PLN03150        500 N  500 (623)
T ss_pred             C
Confidence            4

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=97.28  E-value=0.00033  Score=63.40  Aligned_cols=101  Identities=22%  Similarity=0.399  Sum_probs=51.6

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRK  288 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~k  288 (533)
                      ..-+.++|..|+|||.||..+.+. .+...+ .+.|++      ..+++..+-..-    . ..........    +. +
T Consensus        47 ~~~l~l~G~~G~GKThLa~ai~~~-~~~~g~-~v~f~~------~~~L~~~l~~~~----~-~~~~~~~~~~----l~-~  108 (178)
T PF01695_consen   47 GENLILYGPPGTGKTHLAVAIANE-AIRKGY-SVLFIT------ASDLLDELKQSR----S-DGSYEELLKR----LK-R  108 (178)
T ss_dssp             --EEEEEESTTSSHHHHHHHHHHH-HHHTT---EEEEE------HHHHHHHHHCCH----C-CTTHCHHHHH----HH-T
T ss_pred             CeEEEEEhhHhHHHHHHHHHHHHH-hccCCc-ceeEee------cCceeccccccc----c-ccchhhhcCc----cc-c
Confidence            456999999999999999998874 233333 355664      344444443221    1 1122222222    22 3


Q ss_pred             eEEEEEeCCCCCCccccch--hhhcccCC-CCCceEEEEecch
Q 045152          289 KFFLVLDDVWDGDYKKWNP--FFSCLKNG-HHESKILITTRDR  328 (533)
Q Consensus       289 r~LlVLDdv~~~~~~~~~~--l~~~l~~~-~~gs~IiiTtR~~  328 (533)
                      .=||||||+.......|..  +...+... .++ .+||||...
T Consensus       109 ~dlLilDDlG~~~~~~~~~~~l~~ii~~R~~~~-~tIiTSN~~  150 (178)
T PF01695_consen  109 VDLLILDDLGYEPLSEWEAELLFEIIDERYERK-PTIITSNLS  150 (178)
T ss_dssp             SSCEEEETCTSS---HHHHHCTHHHHHHHHHT--EEEEEESS-
T ss_pred             ccEecccccceeeecccccccchhhhhHhhccc-CeEeeCCCc
Confidence            3588999997654444432  32322211 223 578888753

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.

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=97.27  E-value=0.003  Score=61.14  Aligned_cols=140  Identities=17%  Similarity=0.161  Sum_probs=71.1

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHH--------HH----hCCCCC-CCccHHH
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAII--------EG----LGVSAS-GLSEFES  276 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il--------~~----l~~~~~-~~~~~~~  276 (533)
                      ..+.+.|++|+|||+||+.+..  ...   ...+.++.....+..+++....        ..    ...... ....+. 
T Consensus        22 ~~vLL~G~~GtGKT~lA~~la~--~lg---~~~~~i~~~~~~~~~dllg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-   95 (262)
T TIGR02640        22 YPVHLRGPAGTGKTTLAMHVAR--KRD---RPVMLINGDAELTTSDLVGSYAGYTRKKVHDQFIHNVVKLEDIVRQNWV-   95 (262)
T ss_pred             CeEEEEcCCCCCHHHHHHHHHH--HhC---CCEEEEeCCccCCHHHHhhhhcccchhhHHHHHHHHhhhhhcccceeec-
Confidence            3567899999999999999985  221   2344556555555444432210        00    000000 000000 


Q ss_pred             HHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCC----------------CCCceEEEEecchHHH------h-h
Q 045152          277 LMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNG----------------HHESKILITTRDRSVA------L-Q  333 (533)
Q Consensus       277 l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~----------------~~gs~IiiTtR~~~v~------~-~  333 (533)
                       ...+..... +...+++|++...+.+....|...+..+                .++.+||+|+......      . .
T Consensus        96 -~g~l~~A~~-~g~~lllDEi~r~~~~~q~~Ll~~Le~~~~~i~~~~~~~~~i~~~~~frvIaTsN~~~~~g~~~l~~aL  173 (262)
T TIGR02640        96 -DNRLTLAVR-EGFTLVYDEFTRSKPETNNVLLSVFEEGVLELPGKRGTSRYVDVHPEFRVIFTSNPVEYAGVHETQDAL  173 (262)
T ss_pred             -CchHHHHHH-cCCEEEEcchhhCCHHHHHHHHHHhcCCeEEccCCCCCCceEecCCCCEEEEeeCCccccceecccHHH
Confidence             001111111 3468899999776555555555544221                1356788888753211      0 1


Q ss_pred             hCCCCeeeCCCCChHhhHHHHHHh
Q 045152          334 LGSIDIIPVKELAEEECWSLLERL  357 (533)
Q Consensus       334 ~~~~~~~~l~~L~~~~~~~Lf~~~  357 (533)
                      ......+.+...+.++-.+++..+
T Consensus       174 ~~R~~~i~i~~P~~~~e~~Il~~~  197 (262)
T TIGR02640       174 LDRLITIFMDYPDIDTETAILRAK  197 (262)
T ss_pred             HhhcEEEECCCCCHHHHHHHHHHh
Confidence            111334566666766666666655

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).

>PRK06921 hypothetical protein; Provisional

Probab=97.27  E-value=0.0011  Score=63.98  Aligned_cols=101  Identities=22%  Similarity=0.338  Sum_probs=54.6

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCC
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITR  287 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~  287 (533)
                      ....+.++|..|+|||+||..+.+.. .+..-..++|++.      .+++..+...+          +.....+. .+ .
T Consensus       116 ~~~~l~l~G~~G~GKThLa~aia~~l-~~~~g~~v~y~~~------~~l~~~l~~~~----------~~~~~~~~-~~-~  176 (266)
T PRK06921        116 RKNSIALLGQPGSGKTHLLTAAANEL-MRKKGVPVLYFPF------VEGFGDLKDDF----------DLLEAKLN-RM-K  176 (266)
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHH-hhhcCceEEEEEH------HHHHHHHHHHH----------HHHHHHHH-Hh-c
Confidence            35678999999999999999998742 2221344566653      22333332221          11111222 22 2


Q ss_pred             ceEEEEEeCCCC-----CCccccch--hhhcccCC-CCCceEEEEecc
Q 045152          288 KKFFLVLDDVWD-----GDYKKWNP--FFSCLKNG-HHESKILITTRD  327 (533)
Q Consensus       288 kr~LlVLDdv~~-----~~~~~~~~--l~~~l~~~-~~gs~IiiTtR~  327 (533)
                      +--||||||+..     +....|..  +...+... ..+..+||||..
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  44433321 234558888864

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=97.27  E-value=0.0047  Score=61.66  Aligned_cols=93  Identities=16%  Similarity=0.141  Sum_probs=65.5

Q ss_pred             CceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecc-hHHHh-hhCCCCeeeCCCCChHhhHHHHHHhhccCCCc
Q 045152          287 RKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRD-RSVAL-QLGSIDIIPVKELAEEECWSLLERLAFFRRSV  364 (533)
Q Consensus       287 ~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~-~~v~~-~~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~  364 (533)
                      +++-++|+|+++..+......|+..+....+++.+|++|.+ ..+.. .......+.+.+++.++..+.+.....   . 
T Consensus       131 ~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~LLpTI~SRcq~i~~~~~~~~~~~~~L~~~~~---~-  206 (342)
T PRK06964        131 GGARVVVLYPAEALNVAAANALLKTLEEPPPGTVFLLVSARIDRLLPTILSRCRQFPMTVPAPEAAAAWLAAQGV---A-  206 (342)
T ss_pred             CCceEEEEechhhcCHHHHHHHHHHhcCCCcCcEEEEEECChhhCcHHHHhcCEEEEecCCCHHHHHHHHHHcCC---C-
Confidence            45568899999988888888898888877777777666655 44432 233357899999999999988876421   0 


Q ss_pred             cccccchHHHHHHHhHhCCCcchhHHH
Q 045152          365 DDHEKLEPIGRKIAHKCKGLPLAAKVI  391 (533)
Q Consensus       365 ~~~~~l~~~~~~I~~~c~GlPLai~~~  391 (533)
                          .    ...++..++|.|+.+..+
T Consensus       207 ----~----~~~~l~~~~Gsp~~Al~~  225 (342)
T PRK06964        207 ----D----ADALLAEAGGAPLAALAL  225 (342)
T ss_pred             ----h----HHHHHHHcCCCHHHHHHH
Confidence                0    123577889999765543

>PRK08939 primosomal protein DnaI; Reviewed

Probab=97.26  E-value=0.0014  Score=64.53  Aligned_cols=122  Identities=15%  Similarity=0.196  Sum_probs=69.1

Q ss_pred             echhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhC
Q 045152          186 GRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLG  265 (533)
Q Consensus       186 GR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~  265 (533)
                      ++..-.....+++.....  .....-+.|+|..|+|||.||..+.+.. ....+ .+.++++      ..++.++...+.
T Consensus       135 ~~~~~~~~~~~fi~~~~~--~~~~~gl~L~G~~G~GKThLa~Aia~~l-~~~g~-~v~~~~~------~~l~~~lk~~~~  204 (306)
T PRK08939        135 DRLDALMAALDFLEAYPP--GEKVKGLYLYGDFGVGKSYLLAAIANEL-AKKGV-SSTLLHF------PEFIRELKNSIS  204 (306)
T ss_pred             HHHHHHHHHHHHHHHhhc--cCCCCeEEEECCCCCCHHHHHHHHHHHH-HHcCC-CEEEEEH------HHHHHHHHHHHh
Confidence            344444455555543221  1234679999999999999999999853 23333 3456654      345555544442


Q ss_pred             CCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccch--hhhcc-cCC-CCCceEEEEecc
Q 045152          266 VSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNP--FFSCL-KNG-HHESKILITTRD  327 (533)
Q Consensus       266 ~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~--l~~~l-~~~-~~gs~IiiTtR~  327 (533)
                      ..     +......    .+ .+.=||||||+.......|..  +...+ ... ..+..+|+||..
T Consensus       205 ~~-----~~~~~l~----~l-~~~dlLiIDDiG~e~~s~~~~~~ll~~Il~~R~~~~~~ti~TSNl  260 (306)
T PRK08939        205 DG-----SVKEKID----AV-KEAPVLMLDDIGAEQMSSWVRDEVLGVILQYRMQEELPTFFTSNF  260 (306)
T ss_pred             cC-----cHHHHHH----Hh-cCCCEEEEecCCCccccHHHHHHHHHHHHHHHHHCCCeEEEECCC
Confidence            11     1222222    22 245689999997766666754  43333 222 234568888864

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=97.26  E-value=0.0085  Score=59.38  Aligned_cols=94  Identities=10%  Similarity=0.010  Sum_probs=66.4

Q ss_pred             CceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecch-HHHhh-hCCCCeeeCCCCChHhhHHHHHHhhccCCCc
Q 045152          287 RKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDR-SVALQ-LGSIDIIPVKELAEEECWSLLERLAFFRRSV  364 (533)
Q Consensus       287 ~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~-~v~~~-~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~  364 (533)
                      +++-++|+|+++..+......++..+.....++.+|++|.+. .+..- ......+.+.+++.++..+.+.....  .  
T Consensus       106 g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~SRC~~~~~~~~~~~~~~~~L~~~~~--~--  181 (325)
T PRK06871        106 GGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSRCQTWLIHPPEEQQALDWLQAQSS--A--  181 (325)
T ss_pred             CCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHhhceEEeCCCCCHHHHHHHHHHHhc--c--
Confidence            556688899998888777888888887777777777777654 33322 23367899999999999988876531  1  


Q ss_pred             cccccchHHHHHHHhHhCCCcchhH
Q 045152          365 DDHEKLEPIGRKIAHKCKGLPLAAK  389 (533)
Q Consensus       365 ~~~~~l~~~~~~I~~~c~GlPLai~  389 (533)
                       .    ...+...+..++|.|+.+.
T Consensus       182 -~----~~~~~~~~~l~~g~p~~A~  201 (325)
T PRK06871        182 -E----ISEILTALRINYGRPLLAL  201 (325)
T ss_pred             -C----hHHHHHHHHHcCCCHHHHH
Confidence             1    1124566788999996443

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

Probab=97.23  E-value=0.0043  Score=60.58  Aligned_cols=188  Identities=16%  Similarity=0.132  Sum_probs=107.5

Q ss_pred             ceeechhhHHHHHHHHhCCCcc-------CCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHH
Q 045152          183 EVCGRVEEKNELLSKLLCESSE-------QQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIR  255 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~-------~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~  255 (533)
                      ++=|-++++++|.+...-.-.+       +-..++-|.++|++|.|||-||++|.+.  ....     |+.|...     
T Consensus       152 dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~--T~At-----FIrvvgS-----  219 (406)
T COG1222         152 DIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQ--TDAT-----FIRVVGS-----  219 (406)
T ss_pred             hccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhc--cCce-----EEEeccH-----
Confidence            4567888898888875322110       2346778899999999999999999984  3333     3444332     


Q ss_pred             HHHHHHHHhCCCCCCCccHHHHHHHHHHHhCC-ceEEEEEeCCCCCC-----------ccc---cchhhhcccC--CCCC
Q 045152          256 VAKAIIEGLGVSASGLSEFESLMKQIQEYITR-KKFFLVLDDVWDGD-----------YKK---WNPFFSCLKN--GHHE  318 (533)
Q Consensus       256 l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~-kr~LlVLDdv~~~~-----------~~~---~~~l~~~l~~--~~~g  318 (533)
                         ++.+..-+      +...++..+.+..+. .+..|.+|.++...           .+.   .-+|+..+..  ....
T Consensus       220 ---ElVqKYiG------EGaRlVRelF~lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~~~n  290 (406)
T COG1222         220 ---ELVQKYIG------EGARLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDPRGN  290 (406)
T ss_pred             ---HHHHHHhc------cchHHHHHHHHHHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCCCCC
Confidence               12222211      123455666666654 57899999985421           010   1112222221  1345


Q ss_pred             ceEEEEecchHHHhh--hC---CCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcch----hH
Q 045152          319 SKILITTRDRSVALQ--LG---SIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLA----AK  389 (533)
Q Consensus       319 s~IiiTtR~~~v~~~--~~---~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLa----i~  389 (533)
                      .+||..|...++...  +.   -+..++++.-+.+.-.++|+-+.- .-+....-++    ..+++.|.|.-=|    +.
T Consensus       291 vKVI~ATNR~D~LDPALLRPGR~DRkIEfplPd~~gR~~Il~IHtr-kM~l~~dvd~----e~la~~~~g~sGAdlkaic  365 (406)
T COG1222         291 VKVIMATNRPDILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHTR-KMNLADDVDL----ELLARLTEGFSGADLKAIC  365 (406)
T ss_pred             eEEEEecCCccccChhhcCCCcccceeecCCCCHHHHHHHHHHHhh-hccCccCcCH----HHHHHhcCCCchHHHHHHH
Confidence            689988877655432  12   266788886666666677766553 2222333344    5567777777644    33


Q ss_pred             HHHHHhh
Q 045152          390 VIWNLLR  396 (533)
Q Consensus       390 ~~~~~L~  396 (533)
                      +=|+++.
T Consensus       366 tEAGm~A  372 (406)
T COG1222         366 TEAGMFA  372 (406)
T ss_pred             HHHhHHH
Confidence            4455554

>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=97.23  E-value=9.7e-05  Score=64.04  Aligned_cols=88  Identities=26%  Similarity=0.209  Sum_probs=46.8

Q ss_pred             EEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEE
Q 045152          212 ISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFF  291 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~L  291 (533)
                      |.|+|++|+|||+||+.+..-  ..   ....-+.++...+..+++...--. ...  .......+...+     .+..+
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            679999999999999999863  21   123345667766666554322211 000  000000000001     17889


Q ss_pred             EEEeCCCCCCccccchhhhcc
Q 045152          292 LVLDDVWDGDYKKWNPFFSCL  312 (533)
Q Consensus       292 lVLDdv~~~~~~~~~~l~~~l  312 (533)
                      +|||++...+...+..+...+
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            999999765544444454443

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.

>PRK06835 DNA replication protein DnaC; Validated

Probab=97.22  E-value=0.00061  Score=67.69  Aligned_cols=102  Identities=19%  Similarity=0.250  Sum_probs=55.2

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCce
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKK  289 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr  289 (533)
                      ..+.++|..|+|||.||..+.+.. +... ..++|+++      .+++..+...-. ..  ..+...   .+ +.+. .-
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~l-~~~g-~~V~y~t~------~~l~~~l~~~~~-~~--~~~~~~---~~-~~l~-~~  247 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKEL-LDRG-KSVIYRTA------DELIEILREIRF-NN--DKELEE---VY-DLLI-NC  247 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHH-HHCC-CeEEEEEH------HHHHHHHHHHHh-cc--chhHHH---HH-HHhc-cC
Confidence            669999999999999999998742 2223 34556643      233333322111 10  111111   11 2222 23


Q ss_pred             EEEEEeCCCCCCccccch--hhhcccCC-CCCceEEEEecc
Q 045152          290 FFLVLDDVWDGDYKKWNP--FFSCLKNG-HHESKILITTRD  327 (533)
Q Consensus       290 ~LlVLDdv~~~~~~~~~~--l~~~l~~~-~~gs~IiiTtR~  327 (533)
                      =||||||+.......|..  +...+... ..+..+||||..
T Consensus       248 DLLIIDDlG~e~~t~~~~~~Lf~iin~R~~~~k~tIiTSNl  288 (329)
T PRK06835        248 DLLIIDDLGTEKITEFSKSELFNLINKRLLRQKKMIISTNL  288 (329)
T ss_pred             CEEEEeccCCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCC
Confidence            489999996654344432  44433321 234568888874

>PRK07261 topology modulation protein; Provisional

Probab=97.21  E-value=0.00078  Score=60.61  Aligned_cols=22  Identities=36%  Similarity=0.599  Sum_probs=19.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhcc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .|.|+|++|+||||||+.+...
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~   23 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQH   23 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            4889999999999999988753

>PRK07952 DNA replication protein DnaC; Validated

Probab=97.20  E-value=0.002  Score=61.26  Aligned_cols=103  Identities=14%  Similarity=0.144  Sum_probs=57.9

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRK  288 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~k  288 (533)
                      ...+.++|.+|+|||+||..+.+..  ...-..+++++      ..++...+-.....   .......    +.+.+. +
T Consensus        99 ~~~~~l~G~~GtGKThLa~aia~~l--~~~g~~v~~it------~~~l~~~l~~~~~~---~~~~~~~----~l~~l~-~  162 (244)
T PRK07952         99 IASFIFSGKPGTGKNHLAAAICNEL--LLRGKSVLIIT------VADIMSAMKDTFSN---SETSEEQ----LLNDLS-N  162 (244)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHH--HhcCCeEEEEE------HHHHHHHHHHHHhh---ccccHHH----HHHHhc-c
Confidence            3578999999999999999999852  22233455553      34444444443321   1111222    223343 3


Q ss_pred             eEEEEEeCCCCCCccccch--hhhcccC-CCCCceEEEEecc
Q 045152          289 KFFLVLDDVWDGDYKKWNP--FFSCLKN-GHHESKILITTRD  327 (533)
Q Consensus       289 r~LlVLDdv~~~~~~~~~~--l~~~l~~-~~~gs~IiiTtR~  327 (533)
                      .=+|||||+.......|..  +...+.. -.....+||||..
T Consensus       163 ~dlLvIDDig~~~~s~~~~~~l~~Ii~~Ry~~~~~tiitSNl  204 (244)
T PRK07952        163 VDLLVIDEIGVQTESRYEKVIINQIVDRRSSSKRPTGMLTNS  204 (244)
T ss_pred             CCEEEEeCCCCCCCCHHHHHHHHHHHHHHHhCCCCEEEeCCC
Confidence            4588999997665455653  3333321 1223457777764

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.19  E-value=0.00036  Score=70.42  Aligned_cols=64  Identities=25%  Similarity=0.458  Sum_probs=53.8

Q ss_pred             cccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCC
Q 045152          421 PCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLL  492 (533)
Q Consensus       421 p~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~  492 (533)
                      +.+..|+++.| .+..||.   ...+|+.|.+.+|.++..+|  ..+  .++|++|++++|++|..||+++.
T Consensus        52 ~~l~~L~Is~c-~L~sLP~---LP~sLtsL~Lsnc~nLtsLP--~~L--P~nLe~L~Ls~Cs~L~sLP~sLe  115 (426)
T PRK15386         52 RASGRLYIKDC-DIESLPV---LPNELTEITIENCNNLTTLP--GSI--PEGLEKLTVCHCPEISGLPESVR  115 (426)
T ss_pred             cCCCEEEeCCC-CCcccCC---CCCCCcEEEccCCCCcccCC--chh--hhhhhheEccCcccccccccccc
Confidence            56889999998 8899983   23579999999999999999  444  46999999999999999997653

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=97.18  E-value=0.00076  Score=64.69  Aligned_cols=82  Identities=18%  Similarity=0.219  Sum_probs=50.0

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCC
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITR  287 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~  287 (533)
                      +..-+.++|.+|+|||.||..+.+..  ...--.+.+++      ..++..++.......    .    ....+.+.+ .
T Consensus       104 ~~~nl~l~G~~G~GKThLa~Ai~~~l--~~~g~sv~f~~------~~el~~~Lk~~~~~~----~----~~~~l~~~l-~  166 (254)
T COG1484         104 RGENLVLLGPPGVGKTHLAIAIGNEL--LKAGISVLFIT------APDLLSKLKAAFDEG----R----LEEKLLREL-K  166 (254)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHHH--HHcCCeEEEEE------HHHHHHHHHHHHhcC----c----hHHHHHHHh-h
Confidence            45578999999999999999999853  23223455554      445556665554321    1    111222212 1


Q ss_pred             ceEEEEEeCCCCCCccccc
Q 045152          288 KKFFLVLDDVWDGDYKKWN  306 (533)
Q Consensus       288 kr~LlVLDdv~~~~~~~~~  306 (533)
                      +-=||||||+.......|.
T Consensus       167 ~~dlLIiDDlG~~~~~~~~  185 (254)
T COG1484         167 KVDLLIIDDIGYEPFSQEE  185 (254)
T ss_pred             cCCEEEEecccCccCCHHH
Confidence            3348999999776555555

>PRK13531 regulatory ATPase RavA; Provisional

Probab=97.18  E-value=0.0012  Score=67.97  Aligned_cols=41  Identities=22%  Similarity=0.180  Sum_probs=36.0

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .++||++.++.+...+..+.        .|.|.|++|+|||+||+.+..
T Consensus        21 ~i~gre~vI~lll~aalag~--------hVLL~GpPGTGKT~LAraLa~   61 (498)
T PRK13531         21 GLYERSHAIRLCLLAALSGE--------SVFLLGPPGIAKSLIARRLKF   61 (498)
T ss_pred             hccCcHHHHHHHHHHHccCC--------CEEEECCCChhHHHHHHHHHH
Confidence            57999999999999886554        588999999999999999986

>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=97.16  E-value=0.017  Score=57.81  Aligned_cols=41  Identities=20%  Similarity=0.216  Sum_probs=31.3

Q ss_pred             hhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          189 EEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       189 ~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .-.+.+.+.+....   .....+|+|.|.=|+||||+.+.+.+.
T Consensus         3 ~~a~~la~~I~~~~---~~~~~~IgL~G~WGsGKSs~l~~l~~~   43 (325)
T PF07693_consen    3 PYAKALAEIIKNPD---SDDPFVIGLYGEWGSGKSSFLNMLKEE   43 (325)
T ss_pred             HHHHHHHHHHhccC---CCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            34456666665442   257889999999999999999998764

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 [].

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=97.15  E-value=0.002  Score=64.43  Aligned_cols=144  Identities=18%  Similarity=0.163  Sum_probs=82.8

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhc-------------------cCCceE
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKR-------------------NFEKVI  243 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~-------------------~F~~~~  243 (533)
                      .++|-+....++..+.....    .-...+.++|++|+||||+|..+.+.-.-..                   .++.+.
T Consensus         2 ~~~~~~~~~~~l~~~~~~~~----~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~l   77 (325)
T COG0470           2 ELVPWQEAVKRLLVQALESG----RLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFL   77 (325)
T ss_pred             CcccchhHHHHHHHHHHhcC----CCCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceE
Confidence            35677778888888886432    1233599999999999999988876311000                   112333


Q ss_pred             EEEeCCchh---HHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCCCCCce
Q 045152          244 WVCVSDTFE---EIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESK  320 (533)
Q Consensus       244 wv~vs~~~~---~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~  320 (533)
                      .++-+....   ..+..+++.+.......                .++.-++++|+++..+.+.-..+...+......++
T Consensus        78 el~~s~~~~~~i~~~~vr~~~~~~~~~~~----------------~~~~kviiidead~mt~~A~nallk~lEep~~~~~  141 (325)
T COG0470          78 ELNPSDLRKIDIIVEQVRELAEFLSESPL----------------EGGYKVVIIDEADKLTEDAANALLKTLEEPPKNTR  141 (325)
T ss_pred             EecccccCCCcchHHHHHHHHHHhccCCC----------------CCCceEEEeCcHHHHhHHHHHHHHHHhccCCCCeE
Confidence            444333322   12222222222221110                25677899999987766555666666666667788


Q ss_pred             EEEEecch-HHHhhhC-CCCeeeCCCCC
Q 045152          321 ILITTRDR-SVALQLG-SIDIIPVKELA  346 (533)
Q Consensus       321 IiiTtR~~-~v~~~~~-~~~~~~l~~L~  346 (533)
                      +|++|... .+...+. ....+++.+.+
T Consensus       142 ~il~~n~~~~il~tI~SRc~~i~f~~~~  169 (325)
T COG0470         142 FILITNDPSKILPTIRSRCQRIRFKPPS  169 (325)
T ss_pred             EEEEcCChhhccchhhhcceeeecCCch
Confidence            88888743 3322222 24556666633

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

Probab=97.13  E-value=0.0013  Score=60.18  Aligned_cols=44  Identities=18%  Similarity=0.193  Sum_probs=35.6

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .++||-++.++++.-.-.      +++..-+.|.||+|+||||-+..+.+
T Consensus        27 ~dIVGNe~tv~rl~via~------~gnmP~liisGpPG~GKTTsi~~LAr   70 (333)
T KOG0991|consen   27 QDIVGNEDTVERLSVIAK------EGNMPNLIISGPPGTGKTTSILCLAR   70 (333)
T ss_pred             HHhhCCHHHHHHHHHHHH------cCCCCceEeeCCCCCchhhHHHHHHH
Confidence            368999998888876653      35678899999999999998877665

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

Probab=97.13  E-value=0.0035  Score=69.24  Aligned_cols=133  Identities=16%  Similarity=0.257  Sum_probs=73.2

Q ss_pred             ceeechhhHHHHHHHHhCCC---ccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHH
Q 045152          183 EVCGRVEEKNELLSKLLCES---SEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKA  259 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~---~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~  259 (533)
                      .++|-++.++.+.+.+....   .........+.++|++|+|||++|+.+...  ..   ...+.++++......    .
T Consensus       459 ~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~--l~---~~~i~id~se~~~~~----~  529 (758)
T PRK11034        459 LVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKA--LG---IELLRFDMSEYMERH----T  529 (758)
T ss_pred             eEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHH--hC---CCcEEeechhhcccc----c
Confidence            47898888888888875321   111234568899999999999999988763  21   223344443322111    1


Q ss_pred             HHHHhCCCCCCCccHHHHHHHHHHHhC-CceEEEEEeCCCCCCccccchhhhcccCC-----------CCCceEEEEec
Q 045152          260 IIEGLGVSASGLSEFESLMKQIQEYIT-RKKFFLVLDDVWDGDYKKWNPFFSCLKNG-----------HHESKILITTR  326 (533)
Q Consensus       260 il~~l~~~~~~~~~~~~l~~~l~~~l~-~kr~LlVLDdv~~~~~~~~~~l~~~l~~~-----------~~gs~IiiTtR  326 (533)
                      +.+-++.+.. ....+ ....+.+.++ ....+++||++...+.+.+..+...+..+           ...+-||+||.
T Consensus       530 ~~~LiG~~~g-yvg~~-~~g~L~~~v~~~p~sVlllDEieka~~~v~~~LLq~ld~G~ltd~~g~~vd~rn~iiI~TsN  606 (758)
T PRK11034        530 VSRLIGAPPG-YVGFD-QGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNLLLQVMDNGTLTDNNGRKADFRNVVLVMTTN  606 (758)
T ss_pred             HHHHcCCCCC-ccccc-ccchHHHHHHhCCCcEEEeccHhhhhHHHHHHHHHHHhcCeeecCCCceecCCCcEEEEeCC
Confidence            1111222211 10000 0112223332 33469999999887766677776655432           12344777775

>KOG0444 consensus Cytoskeletal regulator Flightless-I (contains leucine-rich and gelsolin repeats) [Cytoskeleton]

Probab=97.13  E-value=0.00011  Score=75.90  Aligned_cols=90  Identities=21%  Similarity=0.322  Sum_probs=76.2

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcce
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKE  499 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~  499 (533)
                      |.-|..|++++ ..++..|.++...+++-+|+|++ ++++.+|. +-+.+|+-|-+|+|++ .+|..||+.+..|..||+
T Consensus       102 l~dLt~lDLSh-NqL~EvP~~LE~AKn~iVLNLS~-N~IetIPn-~lfinLtDLLfLDLS~-NrLe~LPPQ~RRL~~Lqt  177 (1255)
T KOG0444|consen  102 LKDLTILDLSH-NQLREVPTNLEYAKNSIVLNLSY-NNIETIPN-SLFINLTDLLFLDLSN-NRLEMLPPQIRRLSMLQT  177 (1255)
T ss_pred             cccceeeecch-hhhhhcchhhhhhcCcEEEEccc-CccccCCc-hHHHhhHhHhhhcccc-chhhhcCHHHHHHhhhhh
Confidence            44688899998 77899999999999999999995 56999994 2344799999999999 899999999999999999


Q ss_pred             eeccCCchhHHhhc
Q 045152          500 LGMEGSPLLEKRYE  513 (533)
Q Consensus       500 L~~~~c~~l~~~~~  513 (533)
                      |.++++|..-=+++
T Consensus       178 L~Ls~NPL~hfQLr  191 (1255)
T KOG0444|consen  178 LKLSNNPLNHFQLR  191 (1255)
T ss_pred             hhcCCChhhHHHHh
Confidence            99999997554443

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.13  E-value=0.0014  Score=73.82  Aligned_cols=136  Identities=18%  Similarity=0.259  Sum_probs=75.3

Q ss_pred             CceeechhhHHHHHHHHhCCCc---cCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESS---EQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAK  258 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~---~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~  258 (533)
                      ..++|-+.-++.+...+.....   ..+....++.++|+.|+|||+||+.+.+.  .-..-...+-++.+.-.+...+  
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            4688988888888887753211   11233556789999999999999888752  1111123333444332211111  


Q ss_pred             HHHHHhCCCCC--CCccHHHHHHHHHHHhCCce-EEEEEeCCCCCCccccchhhhcccCC-----------CCCceEEEE
Q 045152          259 AIIEGLGVSAS--GLSEFESLMKQIQEYITRKK-FFLVLDDVWDGDYKKWNPFFSCLKNG-----------HHESKILIT  324 (533)
Q Consensus       259 ~il~~l~~~~~--~~~~~~~l~~~l~~~l~~kr-~LlVLDdv~~~~~~~~~~l~~~l~~~-----------~~gs~IiiT  324 (533)
                        ..-++.++.  +.....    .+.+.++.++ .+++||+++..+.+.+..|...+..+           ...+-+|+|
T Consensus       585 --~~l~g~~~gyvg~~~~~----~l~~~~~~~p~~VvllDeieka~~~v~~~Llq~le~g~~~d~~g~~v~~~~~i~I~T  658 (821)
T CHL00095        585 --SKLIGSPPGYVGYNEGG----QLTEAVRKKPYTVVLFDEIEKAHPDIFNLLLQILDDGRLTDSKGRTIDFKNTLIIMT  658 (821)
T ss_pred             --HHhcCCCCcccCcCccc----hHHHHHHhCCCeEEEECChhhCCHHHHHHHHHHhccCceecCCCcEEecCceEEEEe
Confidence              111222111  111112    2333444444 58999999887766777777666543           234556777


Q ss_pred             ecc
Q 045152          325 TRD  327 (533)
Q Consensus       325 tR~  327 (533)
                      |..
T Consensus       659 sn~  661 (821)
T CHL00095        659 SNL  661 (821)
T ss_pred             CCc
Confidence            664

>PF12799 LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_A 1XEU_A 2OMX_A 2OMU_A 2UZY_A 2WQU_D 1D0B_A 2WQW_A 1OTO_A 2WQV_B

Probab=97.12  E-value=0.00037  Score=46.94  Aligned_cols=40  Identities=20%  Similarity=0.384  Sum_probs=31.9

Q ss_pred             CccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCC
Q 045152          445 TTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLP  488 (533)
Q Consensus       445 ~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP  488 (533)
                      ++|++|+++++. ++.+|  +.++.|++|++|++++| .++++|
T Consensus         1 ~~L~~L~l~~N~-i~~l~--~~l~~l~~L~~L~l~~N-~i~~i~   40 (44)
T PF12799_consen    1 KNLEELDLSNNQ-ITDLP--PELSNLPNLETLNLSNN-PISDIS   40 (44)
T ss_dssp             TT-SEEEETSSS--SSHG--GHGTTCTTSSEEEETSS-CCSBEG
T ss_pred             CcceEEEccCCC-CcccC--chHhCCCCCCEEEecCC-CCCCCc
Confidence            478999999765 88998  56899999999999996 687776

...

>PRK04132 replication factor C small subunit; Provisional

Probab=97.11  E-value=0.0047  Score=68.46  Aligned_cols=154  Identities=12%  Similarity=0.000  Sum_probs=95.0

Q ss_pred             CCCChHHHHHHHHhcchhhhccC-CceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEe
Q 045152          217 LGGIGKTTLAQLAYNNDEVKRNF-EKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLD  295 (533)
Q Consensus       217 ~gGiGKTtLA~~v~~~~~~~~~F-~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLD  295 (533)
                      |.++||||+|..+.++. ....+ ...+-++.++..+.. ..++++..+....+.              -..+.-++|||
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            77899999999998742 11222 235667777654443 333333332110000              01245799999


Q ss_pred             CCCCCCccccchhhhcccCCCCCceEEEEecch-HHHhhh-CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHH
Q 045152          296 DVWDGDYKKWNPFFSCLKNGHHESKILITTRDR-SVALQL-GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPI  373 (533)
Q Consensus       296 dv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~-~v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~  373 (533)
                      +++..+......|...+......+++|++|.+. .+...+ .....+++.+++.++....+...+... ...   --.+.
T Consensus       638 EaD~Lt~~AQnALLk~lEep~~~~~FILi~N~~~kIi~tIrSRC~~i~F~~ls~~~i~~~L~~I~~~E-gi~---i~~e~  713 (846)
T PRK04132        638 EADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENE-GLE---LTEEG  713 (846)
T ss_pred             CcccCCHHHHHHHHHHhhCCCCCeEEEEEeCChhhCchHHhhhceEEeCCCCCHHHHHHHHHHHHHhc-CCC---CCHHH
Confidence            998887667777877776555567777766654 332222 236789999999999888877655311 111   11446


Q ss_pred             HHHHHhHhCCCcchhHH
Q 045152          374 GRKIAHKCKGLPLAAKV  390 (533)
Q Consensus       374 ~~~I~~~c~GlPLai~~  390 (533)
                      ...|++.++|.+..+..
T Consensus       714 L~~Ia~~s~GDlR~AIn  730 (846)
T PRK04132        714 LQAILYIAEGDMRRAIN  730 (846)
T ss_pred             HHHHHHHcCCCHHHHHH
Confidence            78899999998865443

>smart00763 AAA_PrkA PrkA AAA domain

Probab=97.10  E-value=0.00045  Score=68.56  Aligned_cols=50  Identities=16%  Similarity=0.253  Sum_probs=41.5

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      +++|.++.++++++++...........+++.++|++|.||||||+.+.+.
T Consensus        52 ~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~  101 (361)
T smart00763       52 DFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRG  101 (361)
T ss_pred             hccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            79999999999999996654212345688999999999999999999864

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

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.10  E-value=0.017  Score=59.23  Aligned_cols=149  Identities=24%  Similarity=0.285  Sum_probs=88.3

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhC
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYIT  286 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~  286 (533)
                      .....+.+.|++|+|||+||..+..    ...|+.+--++   +-++.          +.  .+......+...+.+.-+
T Consensus       536 s~lvSvLl~Gp~~sGKTaLAA~iA~----~S~FPFvKiiS---pe~mi----------G~--sEsaKc~~i~k~F~DAYk  596 (744)
T KOG0741|consen  536 SPLVSVLLEGPPGSGKTALAAKIAL----SSDFPFVKIIS---PEDMI----------GL--SESAKCAHIKKIFEDAYK  596 (744)
T ss_pred             CcceEEEEecCCCCChHHHHHHHHh----hcCCCeEEEeC---hHHcc----------Cc--cHHHHHHHHHHHHHHhhc
Confidence            4677888999999999999998874    56787655442   11111          10  011122334444555556


Q ss_pred             CceEEEEEeCCCCCCccccch------------hhhcccCC-CCCceE--EEEecchHHHhhhCC----CCeeeCCCCCh
Q 045152          287 RKKFFLVLDDVWDGDYKKWNP------------FFSCLKNG-HHESKI--LITTRDRSVALQLGS----IDIIPVKELAE  347 (533)
Q Consensus       287 ~kr~LlVLDdv~~~~~~~~~~------------l~~~l~~~-~~gs~I--iiTtR~~~v~~~~~~----~~~~~l~~L~~  347 (533)
                      ..--.||+||+..-  -+|-.            |...+... .+|-|+  +-||....+...|+-    ...|+++.++.
T Consensus       597 S~lsiivvDdiErL--iD~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~i~~~F~~~i~Vpnl~~  674 (744)
T KOG0741|consen  597 SPLSIIVVDDIERL--LDYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMGILDCFSSTIHVPNLTT  674 (744)
T ss_pred             CcceEEEEcchhhh--hcccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcCHHHhhhheeecCccCc
Confidence            67789999999432  23332            22233322 334454  447777788877764    56789999988


Q ss_pred             -HhhHHHHHHhhccCCCccccccchHHHHHHHhHh
Q 045152          348 -EECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKC  381 (533)
Q Consensus       348 -~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c  381 (533)
                       ++..+.++..-.     -.+.+.+.++.+...+|
T Consensus       675 ~~~~~~vl~~~n~-----fsd~~~~~~~~~~~~~~  704 (744)
T KOG0741|consen  675 GEQLLEVLEELNI-----FSDDEVRAIAEQLLSKK  704 (744)
T ss_pred             hHHHHHHHHHccC-----CCcchhHHHHHHHhccc
Confidence             777777776431     12333445555555555

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=97.08  E-value=0.0022  Score=59.74  Aligned_cols=49  Identities=20%  Similarity=0.297  Sum_probs=36.4

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHH
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAK  258 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~  258 (533)
                      +...++.|+|++|+|||+++.++...  .......++|++... ++...+.+
T Consensus        10 ~~g~i~~i~G~~GsGKT~l~~~~~~~--~~~~g~~v~yi~~e~-~~~~rl~~   58 (209)
T TIGR02237        10 ERGTITQIYGPPGSGKTNICMILAVN--AARQGKKVVYIDTEG-LSPERFKQ   58 (209)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH--HHhCCCeEEEEECCC-CCHHHHHH
Confidence            45789999999999999999887653  223456789998865 55554443

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

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=97.07  E-value=0.0012  Score=71.52  Aligned_cols=134  Identities=21%  Similarity=0.350  Sum_probs=81.5

Q ss_pred             CceeechhhHHHHHHHHhCCC---ccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccC---CceEEEEeCCchhHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCES---SEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNF---EKVIWVCVSDTFEEIR  255 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~---~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F---~~~~wv~vs~~~~~~~  255 (533)
                      ..++|-++-++.+.+.+....   .+.+....+...+|+.|||||.||+.+...     -|   +..+-+++|+-.... 
T Consensus       491 ~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~-----Lfg~e~aliR~DMSEy~EkH-  564 (786)
T COG0542         491 KRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEA-----LFGDEQALIRIDMSEYMEKH-  564 (786)
T ss_pred             cceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHH-----hcCCCccceeechHHHHHHH-
Confidence            468999998888888775332   113456778889999999999999888752     23   334444433322111 


Q ss_pred             HHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceE-EEEEeCCCCCCccccchhhhcccCC----C-------CCceEEE
Q 045152          256 VAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKF-FLVLDDVWDGDYKKWNPFFSCLKNG----H-------HESKILI  323 (533)
Q Consensus       256 l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~-LlVLDdv~~~~~~~~~~l~~~l~~~----~-------~gs~Iii  323 (533)
                          -...+-+.+++.--.++ -..|-+..+.++| +|.||++...+.+.++.|...|.++    +       ..+-||+
T Consensus       565 ----sVSrLIGaPPGYVGyee-GG~LTEaVRr~PySViLlDEIEKAHpdV~nilLQVlDdGrLTD~~Gr~VdFrNtiIIm  639 (786)
T COG0542         565 ----SVSRLIGAPPGYVGYEE-GGQLTEAVRRKPYSVILLDEIEKAHPDVFNLLLQVLDDGRLTDGQGRTVDFRNTIIIM  639 (786)
T ss_pred             ----HHHHHhCCCCCCceecc-ccchhHhhhcCCCeEEEechhhhcCHHHHHHHHHHhcCCeeecCCCCEEecceeEEEE
Confidence                12333333332221111 2345555667776 8889999877777777777776654    2       2455677


Q ss_pred             Eec
Q 045152          324 TTR  326 (533)
Q Consensus       324 TtR  326 (533)
                      ||.
T Consensus       640 TSN  642 (786)
T COG0542         640 TSN  642 (786)
T ss_pred             ecc
Confidence            774

>KOG0444 consensus Cytoskeletal regulator Flightless-I (contains leucine-rich and gelsolin repeats) [Cytoskeleton]

Probab=97.05  E-value=0.00013  Score=75.43  Aligned_cols=106  Identities=19%  Similarity=0.298  Sum_probs=83.0

Q ss_pred             chHHHHHHHhhhhhhcccccc-------cccceEEEee-cCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCC
Q 045152          400 TVKEWQRILDSEMWKENISIM-------PCLSVLRVYL-CPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLP  471 (533)
Q Consensus       400 ~~~~w~~~l~~~~~~~~~~il-------p~L~~L~l~~-c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~  471 (533)
                      +.++|.++-.-...-..-..+       +.|+.|++-. --.|+.+|.+++.|..|+++...+ ++|+-.|  ++++..+
T Consensus       263 ~~~~W~~lEtLNlSrNQLt~LP~avcKL~kL~kLy~n~NkL~FeGiPSGIGKL~~Levf~aan-N~LElVP--EglcRC~  339 (1255)
T KOG0444|consen  263 TEGEWENLETLNLSRNQLTVLPDAVCKLTKLTKLYANNNKLTFEGIPSGIGKLIQLEVFHAAN-NKLELVP--EGLCRCV  339 (1255)
T ss_pred             cHHHHhhhhhhccccchhccchHHHhhhHHHHHHHhccCcccccCCccchhhhhhhHHHHhhc-cccccCc--hhhhhhH
Confidence            568898764433322222233       3566665533 346788999999999999999885 4588889  8999999


Q ss_pred             CcceEEeccCCCCCCCCcCCCCCCCcceeeccCCchhH
Q 045152          472 RLSSLRIEYCPKLKLLPDSLLQITTLKELGMEGSPLLE  509 (533)
Q Consensus       472 ~L~~L~l~~C~~l~~lP~~~~~l~~L~~L~~~~c~~l~  509 (533)
                      .|+.|+| +|..|..||+.|.-|+.|..||++.+|+|.
T Consensus       340 kL~kL~L-~~NrLiTLPeaIHlL~~l~vLDlreNpnLV  376 (1255)
T KOG0444|consen  340 KLQKLKL-DHNRLITLPEAIHLLPDLKVLDLRENPNLV  376 (1255)
T ss_pred             HHHHhcc-cccceeechhhhhhcCCcceeeccCCcCcc
Confidence            9999999 569999999999999999999999999887

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=97.02  E-value=0.0036  Score=59.13  Aligned_cols=47  Identities=21%  Similarity=0.252  Sum_probs=34.9

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHH
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRV  256 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l  256 (533)
                      ....++.|+|.+|+|||++|.++...  ....-..++|++.. .++...+
T Consensus        21 ~~g~i~~i~G~~GsGKT~l~~~la~~--~~~~~~~v~yi~~e-~~~~~r~   67 (225)
T PRK09361         21 ERGTITQIYGPPGSGKTNICLQLAVE--AAKNGKKVIYIDTE-GLSPERF   67 (225)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH--HHHCCCeEEEEECC-CCCHHHH
Confidence            45789999999999999999888753  22334678899877 5555443

>PHA00729 NTP-binding motif containing protein

Probab=97.02  E-value=0.0082  Score=55.86  Aligned_cols=25  Identities=32%  Similarity=0.387  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ....|.|+|.+|+||||||..+.+.
T Consensus        16 ~f~nIlItG~pGvGKT~LA~aLa~~   40 (226)
T PHA00729         16 GFVSAVIFGKQGSGKTTYALKVARD   40 (226)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHH
Confidence            4567899999999999999998763

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=97.01  E-value=0.002  Score=69.95  Aligned_cols=153  Identities=22%  Similarity=0.212  Sum_probs=84.4

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhc-cC-----CceEEEEeCCchhHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKR-NF-----EKVIWVCVSDTFEEIR  255 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~-~F-----~~~~wv~vs~~~~~~~  255 (533)
                      .+++||++|+.++++.|.....    +-.  .++|.+|+|||++|.-+..  ++.. .-     +..++.     .++. 
T Consensus       170 DPvIGRd~EI~r~iqIL~RR~K----NNP--vLiGEpGVGKTAIvEGLA~--rIv~g~VP~~L~~~~i~s-----LD~g-  235 (786)
T COG0542         170 DPVIGRDEEIRRTIQILSRRTK----NNP--VLVGEPGVGKTAIVEGLAQ--RIVNGDVPESLKDKRIYS-----LDLG-  235 (786)
T ss_pred             CCCcChHHHHHHHHHHHhccCC----CCC--eEecCCCCCHHHHHHHHHH--HHhcCCCCHHHcCCEEEE-----ecHH-
Confidence            3689999999999999976642    222  3689999999999866654  2211 11     111111     0111 


Q ss_pred             HHHHHHHHhCCCCCCCccHHHHHHHHHHHh-CCceEEEEEeCCCCCC---------ccccchhhhcccCCCCCceEEEEe
Q 045152          256 VAKAIIEGLGVSASGLSEFESLMKQIQEYI-TRKKFFLVLDDVWDGD---------YKKWNPFFSCLKNGHHESKILITT  325 (533)
Q Consensus       256 l~~~il~~l~~~~~~~~~~~~l~~~l~~~l-~~kr~LlVLDdv~~~~---------~~~~~~l~~~l~~~~~gs~IiiTt  325 (533)
                            .-+-+ ..--.++++....+.+.+ +.++..|++|.++..-         .+.-.-+..+|..+. --.|-.||
T Consensus       236 ------~LvAG-akyRGeFEeRlk~vl~ev~~~~~vILFIDEiHtiVGAG~~~G~a~DAaNiLKPaLARGe-L~~IGATT  307 (786)
T COG0542         236 ------SLVAG-AKYRGEFEERLKAVLKEVEKSKNVILFIDEIHTIVGAGATEGGAMDAANLLKPALARGE-LRCIGATT  307 (786)
T ss_pred             ------HHhcc-ccccCcHHHHHHHHHHHHhcCCCeEEEEechhhhcCCCcccccccchhhhhHHHHhcCC-eEEEEecc
Confidence                  11111 111233444444444444 3458999999997621         111122333343332 23355666


Q ss_pred             cchHHH------hhhCCCCeeeCCCCChHhhHHHHHH
Q 045152          326 RDRSVA------LQLGSIDIIPVKELAEEECWSLLER  356 (533)
Q Consensus       326 R~~~v~------~~~~~~~~~~l~~L~~~~~~~Lf~~  356 (533)
                      -++.--      ........+.+...+.+++..+++-
T Consensus       308 ~~EYRk~iEKD~AL~RRFQ~V~V~EPs~e~ti~ILrG  344 (786)
T COG0542         308 LDEYRKYIEKDAALERRFQKVLVDEPSVEDTIAILRG  344 (786)
T ss_pred             HHHHHHHhhhchHHHhcCceeeCCCCCHHHHHHHHHH
Confidence            554221      1112356788999999999988864

>PRK05541 adenylylsulfate kinase; Provisional

Probab=97.00  E-value=0.0029  Score=57.21  Aligned_cols=37  Identities=38%  Similarity=0.606  Sum_probs=28.8

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEE
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWV  245 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  245 (533)
                      ....+|.+.|+.|+||||+|+.+++  .....+...+++
T Consensus         5 ~~~~~I~i~G~~GsGKst~a~~l~~--~l~~~~~~~~~~   41 (176)
T PRK05541          5 PNGYVIWITGLAGSGKTTIAKALYE--RLKLKYSNVIYL   41 (176)
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHHH--HHHHcCCcEEEE
Confidence            3556999999999999999999987  344455555555

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=96.99  E-value=0.0066  Score=58.76  Aligned_cols=174  Identities=17%  Similarity=0.185  Sum_probs=96.5

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhH-HHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEE-IRVAKAI  260 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~-~~l~~~i  260 (533)
                      ..++|-.++..++-.++....-  .++...+.|+|+.|.|||+|...+..+  .+..=+..+-|........ .-.++.|
T Consensus        24 ~~l~g~~~~~~~l~~~lkqt~~--~gEsnsviiigprgsgkT~li~~~Ls~--~q~~~E~~l~v~Lng~~~~dk~al~~I   99 (408)
T KOG2228|consen   24 INLFGVQDEQKHLSELLKQTIL--HGESNSVIIIGPRGSGKTILIDTRLSD--IQENGENFLLVRLNGELQTDKIALKGI   99 (408)
T ss_pred             cceeehHHHHHHHHHHHHHHHH--hcCCCceEEEccCCCCceEeeHHHHhh--HHhcCCeEEEEEECccchhhHHHHHHH
Confidence            3578999999988888854331  244567889999999999999888875  2222233344444443332 2234445


Q ss_pred             HHHhCCC----CCCCccHHHHHHHHHHHhC------CceEEEEEeCCCCCCccccchh-hhccc----CCCCCceEEEEe
Q 045152          261 IEGLGVS----ASGLSEFESLMKQIQEYIT------RKKFFLVLDDVWDGDYKKWNPF-FSCLK----NGHHESKILITT  325 (533)
Q Consensus       261 l~~l~~~----~~~~~~~~~l~~~l~~~l~------~kr~LlVLDdv~~~~~~~~~~l-~~~l~----~~~~gs~IiiTt  325 (533)
                      .+++..+    .....+..+....+-..|+      +-++++|+|.++-.....-..+ ...|.    ...+-|-|-+||
T Consensus       100 ~rql~~e~~~~~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Piciig~Tt  179 (408)
T KOG2228|consen  100 TRQLALELNRIVKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSARAPICIIGVTT  179 (408)
T ss_pred             HHHHHHHHhhhheeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhcCCCeEEEEeec
Confidence            4444322    1112223333334444442      2368888988854321111111 11221    234556677888


Q ss_pred             cchHH-------HhhhCCCCeeeCCCCChHhhHHHHHHhhc
Q 045152          326 RDRSV-------ALQLGSIDIIPVKELAEEECWSLLERLAF  359 (533)
Q Consensus       326 R~~~v-------~~~~~~~~~~~l~~L~~~~~~~Lf~~~a~  359 (533)
                      |-.-.       -..+.-..++-++.++.++...++++...
T Consensus       180 rld~lE~LEKRVKSRFshr~I~m~~~~~l~~yv~l~r~ll~  220 (408)
T KOG2228|consen  180 RLDILELLEKRVKSRFSHRVIFMLPSLPLGDYVDLYRKLLS  220 (408)
T ss_pred             cccHHHHHHHHHHhhcccceeeccCCCChHHHHHHHHHHhc
Confidence            86322       22222223566678888888888887663

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=96.99  E-value=0.018  Score=57.56  Aligned_cols=95  Identities=13%  Similarity=0.008  Sum_probs=66.4

Q ss_pred             CCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecch-HHHhh-hCCCCeeeCCCCChHhhHHHHHHhhccCCC
Q 045152          286 TRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDR-SVALQ-LGSIDIIPVKELAEEECWSLLERLAFFRRS  363 (533)
Q Consensus       286 ~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~-~v~~~-~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~  363 (533)
                      .+++-++|+|+++..+...-..|+..+.....++.+|++|.+. .+..- ......+.+.+++.++..+.+.....    
T Consensus       106 ~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIrSRCq~~~~~~~~~~~~~~~L~~~~~----  181 (334)
T PRK07993        106 LGGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLRSRCRLHYLAPPPEQYALTWLSREVT----  181 (334)
T ss_pred             cCCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhccccccCCCCCHHHHHHHHHHccC----
Confidence            3566789999998887777788888887766677777777653 34432 33356789999999999887765321    


Q ss_pred             ccccccchHHHHHHHhHhCCCcchhH
Q 045152          364 VDDHEKLEPIGRKIAHKCKGLPLAAK  389 (533)
Q Consensus       364 ~~~~~~l~~~~~~I~~~c~GlPLai~  389 (533)
                       ..    .+.+..++..++|.|..+.
T Consensus       182 -~~----~~~a~~~~~la~G~~~~Al  202 (334)
T PRK07993        182 -MS----QDALLAALRLSAGAPGAAL  202 (334)
T ss_pred             -CC----HHHHHHHHHHcCCCHHHHH
Confidence             01    2235677899999997543

>PRK04296 thymidine kinase; Provisional

Probab=96.99  E-value=0.0013  Score=60.28  Aligned_cols=112  Identities=15%  Similarity=0.095  Sum_probs=60.0

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCC--CccHHHHHHHHHHHhCC
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASG--LSEFESLMKQIQEYITR  287 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~--~~~~~~l~~~l~~~l~~  287 (533)
                      .++.|+|+.|.||||+|..+...  ...+-..++.+.  ..++.......+..+++.....  .....++...+.+ ..+
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            47889999999999999777653  222333333331  1112222233445555432211  1233444445544 333


Q ss_pred             ceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecch
Q 045152          288 KKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDR  328 (533)
Q Consensus       288 kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~  328 (533)
                      +.-+||+|.+.-.+.++...+...+  ...|..||+|.++.
T Consensus        78 ~~dvviIDEaq~l~~~~v~~l~~~l--~~~g~~vi~tgl~~  116 (190)
T PRK04296         78 KIDCVLIDEAQFLDKEQVVQLAEVL--DDLGIPVICYGLDT  116 (190)
T ss_pred             CCCEEEEEccccCCHHHHHHHHHHH--HHcCCeEEEEecCc
Confidence            5568999999433222222233322  24577899998874

>PRK12608 transcription termination factor Rho; Provisional

Probab=96.97  E-value=0.004  Score=62.25  Aligned_cols=102  Identities=14%  Similarity=0.053  Sum_probs=63.7

Q ss_pred             HHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCc-eEEEEeCC-chhHHHHHHHHHHHhCCCC
Q 045152          191 KNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEK-VIWVCVSD-TFEEIRVAKAIIEGLGVSA  268 (533)
Q Consensus       191 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~-~~wv~vs~-~~~~~~l~~~il~~l~~~~  268 (533)
                      ..++++.+..-     +...-+.|+|.+|+|||||++.+.+.. ...+-+. ++|+.+.+ ..++.++++.+...+....
T Consensus       120 ~~RvID~l~Pi-----GkGQR~LIvG~pGtGKTTLl~~la~~i-~~~~~dv~~vv~lIgER~~EV~df~~~i~~~Vvast  193 (380)
T PRK12608        120 SMRVVDLVAPI-----GKGQRGLIVAPPRAGKTVLLQQIAAAV-AANHPEVHLMVLLIDERPEEVTDMRRSVKGEVYAST  193 (380)
T ss_pred             hHhhhhheeec-----CCCceEEEECCCCCCHHHHHHHHHHHH-HhcCCCceEEEEEecCCCCCHHHHHHHHhhhEEeec
Confidence            45577777543     234567999999999999999988742 1223344 46666654 4567888888887766543


Q ss_pred             CCCccHH-----HHHHHHHHHh--CCceEEEEEeCCC
Q 045152          269 SGLSEFE-----SLMKQIQEYI--TRKKFFLVLDDVW  298 (533)
Q Consensus       269 ~~~~~~~-----~l~~~l~~~l--~~kr~LlVLDdv~  298 (533)
                      .+.....     .....+.+++  .+++.+||+|++.
T Consensus       194 ~de~~~~~~~v~~~~~~~Ae~f~~~GkdVVLvlDslt  230 (380)
T PRK12608        194 FDRPPDEHIRVAELVLERAKRLVEQGKDVVILLDSLT  230 (380)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEeCcH
Confidence            2221111     1111222222  5789999999993

>PLN03150 hypothetical protein; Provisional

Probab=96.97  E-value=0.00085  Score=73.17  Aligned_cols=88  Identities=16%  Similarity=0.058  Sum_probs=72.7

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCC-CCcc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQI-TTLK  498 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l-~~L~  498 (533)
                      ++.|+.|.++.+..-..+|..+..+.+|+.|+|+++.--..+|  +.++.|++|+.|+|++|.--..+|..+..+ .++.
T Consensus       441 L~~L~~L~Ls~N~l~g~iP~~~~~l~~L~~LdLs~N~lsg~iP--~~l~~L~~L~~L~Ls~N~l~g~iP~~l~~~~~~~~  518 (623)
T PLN03150        441 LRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIP--ESLGQLTSLRILNLNGNSLSGRVPAALGGRLLHRA  518 (623)
T ss_pred             CCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCc--hHHhcCCCCCEEECcCCcccccCChHHhhccccCc
Confidence            5689999999876556899999999999999999876444788  789999999999999976556899887763 5778


Q ss_pred             eeeccCCchhH
Q 045152          499 ELGMEGSPLLE  509 (533)
Q Consensus       499 ~L~~~~c~~l~  509 (533)
                      .+++.+++.+.
T Consensus       519 ~l~~~~N~~lc  529 (623)
T PLN03150        519 SFNFTDNAGLC  529 (623)
T ss_pred             eEEecCCcccc
Confidence            89988887544

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=96.92  E-value=0.0091  Score=66.65  Aligned_cols=180  Identities=16%  Similarity=0.152  Sum_probs=94.9

Q ss_pred             CceeechhhHHHHHHHHhCCCcc-------CCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSE-------QQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEI  254 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~-------~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~  254 (533)
                      .++.|.+..++.|.+.+...-..       +-...+-+.++|++|.|||+||+.+.+.  ....|     +.+...    
T Consensus       453 ~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e--~~~~f-----i~v~~~----  521 (733)
T TIGR01243       453 SDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATE--SGANF-----IAVRGP----  521 (733)
T ss_pred             hhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHh--cCCCE-----EEEehH----
Confidence            35778888777777765321100       1123456889999999999999999874  22222     222211    


Q ss_pred             HHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCC------ccc------cchhhhcccC--CCCCce
Q 045152          255 RVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGD------YKK------WNPFFSCLKN--GHHESK  320 (533)
Q Consensus       255 ~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~------~~~------~~~l~~~l~~--~~~gs~  320 (533)
                          +++....+     .....+...+...-...+.+|+||+++...      ...      ...+...+..  ...+..
T Consensus       522 ----~l~~~~vG-----ese~~i~~~f~~A~~~~p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~~~~~~v~  592 (733)
T TIGR01243       522 ----EILSKWVG-----ESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQELSNVV  592 (733)
T ss_pred             ----HHhhcccC-----cHHHHHHHHHHHHHhcCCEEEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhcccCCCCEE
Confidence                11111111     111222233333334567899999985320      000      1112222221  123445


Q ss_pred             EEEEecchHHHhh--h---CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcc
Q 045152          321 ILITTRDRSVALQ--L---GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPL  386 (533)
Q Consensus       321 IiiTtR~~~v~~~--~---~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPL  386 (533)
                      ||.||..++....  .   .....+.++..+.++-.++|+.... ........++    ..+++.+.|.-=
T Consensus       593 vI~aTn~~~~ld~allRpgRfd~~i~v~~Pd~~~R~~i~~~~~~-~~~~~~~~~l----~~la~~t~g~sg  658 (733)
T TIGR01243       593 VIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTR-SMPLAEDVDL----EELAEMTEGYTG  658 (733)
T ss_pred             EEEeCCChhhCCHhhcCCCccceEEEeCCcCHHHHHHHHHHHhc-CCCCCccCCH----HHHHHHcCCCCH
Confidence            6667766543321  1   2256788899999999999876542 1111122223    556777877653

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.

>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=96.92  E-value=0.019  Score=57.99  Aligned_cols=112  Identities=13%  Similarity=0.087  Sum_probs=69.1

Q ss_pred             eEEEEEeCCCCCCcc---ccchhh---hcccCCCCCceEEEEecchHHHh----hhC--CCCeeeCCCCChHhhHHHHHH
Q 045152          289 KFFLVLDDVWDGDYK---KWNPFF---SCLKNGHHESKILITTRDRSVAL----QLG--SIDIIPVKELAEEECWSLLER  356 (533)
Q Consensus       289 r~LlVLDdv~~~~~~---~~~~l~---~~l~~~~~gs~IiiTtR~~~v~~----~~~--~~~~~~l~~L~~~~~~~Lf~~  356 (533)
                      +-+||||+.-.....   -|+.+.   ..+-. .+-..||++|-+.....    .+.  ..+.+.|...+.+.|..+...
T Consensus       149 ~PVVVIdnF~~k~~~~~~iy~~laeWAa~Lv~-~nIAHVIFlT~dv~~~k~LskaLPn~vf~tI~L~Das~~~Ak~yV~~  227 (431)
T PF10443_consen  149 RPVVVIDNFLHKAEENDFIYDKLAEWAASLVQ-NNIAHVIFLTDDVSYSKPLSKALPNRVFKTISLSDASPESAKQYVLS  227 (431)
T ss_pred             CCEEEEcchhccCcccchHHHHHHHHHHHHHh-cCccEEEEECCCCchhhhHHHhCCCCceeEEeecCCCHHHHHHHHHH
Confidence            679999999553211   122221   22222 23456888877654433    332  257789999999999999998


Q ss_pred             hhccCCCc------------ccc----ccchHHHHHHHhHhCCCcchhHHHHHHhhcccch
Q 045152          357 LAFFRRSV------------DDH----EKLEPIGRKIAHKCKGLPLAAKVIWNLLRSKSTV  401 (533)
Q Consensus       357 ~a~~~~~~------------~~~----~~l~~~~~~I~~~c~GlPLai~~~~~~L~~~~~~  401 (533)
                      +.-.....            ...    .....-....+..+||=-.-+..+++-++...++
T Consensus       228 ~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~eld~~i~~LGGRltDLe~lvrRiksGe~p  288 (431)
T PF10443_consen  228 QLDEDTEDSSDSKESNEQNKNDKSAENEKDLAELDECIEPLGGRLTDLEFLVRRIKSGESP  288 (431)
T ss_pred             HhcccccccccccccccccccccccccccchHHHHHHHHHcCCcHHHHHHHHHHHHcCCCH
Confidence            77422100            000    1233444667888899888899888888876644

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 [].

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

Probab=96.92  E-value=0.00069  Score=58.61  Aligned_cols=108  Identities=16%  Similarity=0.167  Sum_probs=61.4

Q ss_pred             eechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhh-hccCCceEEEEeCCchhHHHHHHHHHHH
Q 045152          185 CGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEV-KRNFEKVIWVCVSDTFEEIRVAKAIIEG  263 (533)
Q Consensus       185 vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~-~~~F~~~~wv~vs~~~~~~~l~~~il~~  263 (533)
                      ||....+.++.+.+..-.    .....|.|.|..|.||+++|+.++..... ...|...   .... .+     .++++.
T Consensus         1 vG~S~~~~~l~~~l~~~a----~~~~pvli~GE~GtGK~~~A~~lh~~~~~~~~~~~~~---~~~~-~~-----~~~l~~   67 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLA----KSSSPVLITGEPGTGKSLLARALHRYSGRANGPFIVI---DCAS-LP-----AELLEQ   67 (138)
T ss_dssp             --SCHHHHHHHHHHHHHH----CSSS-EEEECCTTSSHHHHHHCCHHTTTTCCS-CCCC---CHHC-TC-----HHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHh----CCCCcEEEEcCCCCCHHHHHHHHHhhcCccCCCeEEe---chhh-Cc-----HHHHHH
Confidence            567777777777765432    23456799999999999999999874221 1112110   0000 00     111111


Q ss_pred             hCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCC-CCCceEEEEecch
Q 045152          264 LGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNG-HHESKILITTRDR  328 (533)
Q Consensus       264 l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~-~~gs~IiiTtR~~  328 (533)
                                           .  +.--++|+|+..-+.+....+...+... ....|+|.||...
T Consensus        68 ---------------------a--~~gtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~RlI~ss~~~  110 (138)
T PF14532_consen   68 ---------------------A--KGGTLYLKNIDRLSPEAQRRLLDLLKRQERSNVRLIASSSQD  110 (138)
T ss_dssp             ---------------------C--TTSEEEEECGCCS-HHHHHHHHHHHHHCTTTTSEEEEEECC-
T ss_pred             ---------------------c--CCCEEEECChHHCCHHHHHHHHHHHHhcCCCCeEEEEEeCCC
Confidence                                 1  3345789999776655555666666532 5678999998753

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

Probab=96.87  E-value=0.017  Score=61.38  Aligned_cols=50  Identities=20%  Similarity=0.287  Sum_probs=41.2

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .+-+|.++-+++|++++.-..-.++-+..+++.+|++|||||++|+.+..
T Consensus       411 eDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~  460 (906)
T KOG2004|consen  411 EDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIAR  460 (906)
T ss_pred             ccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHH
Confidence            45689999999999998544322345678999999999999999999986

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=96.87  E-value=0.0019  Score=68.29  Aligned_cols=78  Identities=22%  Similarity=0.262  Sum_probs=55.2

Q ss_pred             CCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHh
Q 045152          206 QKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYI  285 (533)
Q Consensus       206 ~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l  285 (533)
                      .+.-+++.+.|++|+||||||..+.++.    .| .++=|+.|+.-+...+-..|...+.......             .
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            3567899999999999999999998642    23 3567888888777777666666554322110             1


Q ss_pred             CCceEEEEEeCCCCCC
Q 045152          286 TRKKFFLVLDDVWDGD  301 (533)
Q Consensus       286 ~~kr~LlVLDdv~~~~  301 (533)
                      .+++..+|+|.++...
T Consensus       385 dsrP~CLViDEIDGa~  400 (877)
T KOG1969|consen  385 DSRPVCLVIDEIDGAP  400 (877)
T ss_pred             CCCcceEEEecccCCc
Confidence            2577889999996654

>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=96.86  E-value=0.0021  Score=57.50  Aligned_cols=45  Identities=22%  Similarity=0.225  Sum_probs=32.6

Q ss_pred             eeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          184 VCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       184 ~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ++|.+..+.++.+.+....    .....|.|+|..|.||+.+|+.+++.
T Consensus         1 liG~s~~m~~~~~~~~~~a----~~~~pVlI~GE~GtGK~~lA~~IH~~   45 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAA----SSDLPVLITGETGTGKELLARAIHNN   45 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHT----TSTS-EEEECSTTSSHHHHHHHHHHC
T ss_pred             CEeCCHHHHHHHHHHHHHh----CCCCCEEEEcCCCCcHHHHHHHHHHh
Confidence            4677888888888775443    22356779999999999999999973

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 ....

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=96.85  E-value=0.008  Score=56.08  Aligned_cols=178  Identities=19%  Similarity=0.155  Sum_probs=97.5

Q ss_pred             CceeechhhHH---HHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHH
Q 045152          182 GEVCGRVEEKN---ELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAK  258 (533)
Q Consensus       182 ~~~vGR~~e~~---~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~  258 (533)
                      ++++|-++.+.   -|++.|...+.-++-.++-|..+|++|.|||.+|+.+.+...+  .|     +.+.    ..+   
T Consensus       121 ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~kv--p~-----l~vk----at~---  186 (368)
T COG1223         121 DDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAKV--PL-----LLVK----ATE---  186 (368)
T ss_pred             hhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcccCC--ce-----EEec----hHH---
Confidence            46889877654   4566665444334566889999999999999999999985322  22     2211    111   


Q ss_pred             HHHHHhCCCCCCCccHHHHHHHHHHHh-CCceEEEEEeCCCCCCc------------cccchhhhccc--CCCCCceEEE
Q 045152          259 AIIEGLGVSASGLSEFESLMKQIQEYI-TRKKFFLVLDDVWDGDY------------KKWNPFFSCLK--NGHHESKILI  323 (533)
Q Consensus       259 ~il~~l~~~~~~~~~~~~l~~~l~~~l-~~kr~LlVLDdv~~~~~------------~~~~~l~~~l~--~~~~gs~Iii  323 (533)
                      -|-+.++       +....+..+.+.. +.-++++.||.++....            +....|+.-+.  ..+.|...|-
T Consensus       187 liGehVG-------dgar~Ihely~rA~~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~eneGVvtIa  259 (368)
T COG1223         187 LIGEHVG-------DGARRIHELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEGVVTIA  259 (368)
T ss_pred             HHHHHhh-------hHHHHHHHHHHHHHhcCCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccCCceEEEe
Confidence            1222221       1122222333333 44689999998853210            01111222221  1245666666


Q ss_pred             EecchHHHhhh-C--CCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCc
Q 045152          324 TTRDRSVALQL-G--SIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLP  385 (533)
Q Consensus       324 TtR~~~v~~~~-~--~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlP  385 (533)
                      .|.++...... .  ....++...-+.+|-.+++...+-.  -   +-....-.+.++++.+|+.
T Consensus       260 aTN~p~~LD~aiRsRFEeEIEF~LP~~eEr~~ile~y~k~--~---Plpv~~~~~~~~~~t~g~S  319 (368)
T COG1223         260 ATNRPELLDPAIRSRFEEEIEFKLPNDEERLEILEYYAKK--F---PLPVDADLRYLAAKTKGMS  319 (368)
T ss_pred             ecCChhhcCHHHHhhhhheeeeeCCChHHHHHHHHHHHHh--C---CCccccCHHHHHHHhCCCC
Confidence            66666554322 1  2445677777888888888887631  1   1111222466777777765

>cd01394 radB RadB

Probab=96.84  E-value=0.0073  Score=56.66  Aligned_cols=44  Identities=20%  Similarity=0.147  Sum_probs=32.0

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchh
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFE  252 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~  252 (533)
                      ....++.|.|.+|+||||+|.++...  ....-..++|++....+.
T Consensus        17 ~~g~i~~i~G~~GsGKT~l~~~~a~~--~~~~g~~v~yi~~e~~~~   60 (218)
T cd01394          17 ERGTVTQVYGPPGTGKTNIAIQLAVE--TAGQGKKVAYIDTEGLSS   60 (218)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHH--HHhcCCeEEEEECCCCCH
Confidence            45789999999999999999887753  222334677887655544

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

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=96.84  E-value=0.0062  Score=63.53  Aligned_cols=164  Identities=18%  Similarity=0.234  Sum_probs=94.7

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHH
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIE  262 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~  262 (533)
                      ++||-+.-...|...+....     -..-....|+-|+||||+|+.+..-..-..      + ....+.+.-..-+.|..
T Consensus        17 evvGQe~v~~~L~nal~~~r-----i~hAYlfsG~RGvGKTt~Ari~AkalNC~~------~-~~~ePC~~C~~Ck~I~~   84 (515)
T COG2812          17 DVVGQEHVVKTLSNALENGR-----IAHAYLFSGPRGVGKTTIARILAKALNCEN------G-PTAEPCGKCISCKEINE   84 (515)
T ss_pred             HhcccHHHHHHHHHHHHhCc-----chhhhhhcCCCCcCchhHHHHHHHHhcCCC------C-CCCCcchhhhhhHhhhc
Confidence            57999888899988885432     344556789999999999988764211010      0 00111111111122222


Q ss_pred             HhCC--------CCCCCccHHHHHHHHHHHh-CCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecc-hHHH-
Q 045152          263 GLGV--------SASGLSEFESLMKQIQEYI-TRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRD-RSVA-  331 (533)
Q Consensus       263 ~l~~--------~~~~~~~~~~l~~~l~~~l-~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~-~~v~-  331 (533)
                      .-..        ......+..++.+.+.-.- .++.=+.|+|+|+-.....|..++..+.........|+.|.+ ..+. 
T Consensus        85 g~~~DviEiDaASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATTe~~Kip~  164 (515)
T COG2812          85 GSLIDVIEIDAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEPQKIPN  164 (515)
T ss_pred             CCcccchhhhhhhccChHHHHHHHHHhccCCccccceEEEEecHHhhhHHHHHHHhcccccCccCeEEEEecCCcCcCch
Confidence            1000        0111122222222222111 345568899999877777888888877766556666665554 3333 


Q ss_pred             hhhCCCCeeeCCCCChHhhHHHHHHhh
Q 045152          332 LQLGSIDIIPVKELAEEECWSLLERLA  358 (533)
Q Consensus       332 ~~~~~~~~~~l~~L~~~~~~~Lf~~~a  358 (533)
                      ........|.++.++.++-...+...+
T Consensus       165 TIlSRcq~f~fkri~~~~I~~~L~~i~  191 (515)
T COG2812         165 TILSRCQRFDFKRLDLEEIAKHLAAIL  191 (515)
T ss_pred             hhhhccccccccCCCHHHHHHHHHHHH
Confidence            233446789999999998888777665

>KOG0472 consensus Leucine-rich repeat protein [Function unknown]

Probab=96.83  E-value=0.00023  Score=69.96  Aligned_cols=81  Identities=30%  Similarity=0.430  Sum_probs=67.5

Q ss_pred             cceEEEeecCCcccCCcccc-ccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcceee
Q 045152          423 LSVLRVYLCPKLKVLPDYLL-QTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKELG  501 (533)
Q Consensus       423 L~~L~l~~c~~l~~lp~~l~-~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~L~  501 (533)
                      |+.|.+.. ..++.+|..++ ++.+|.+|++.+-+ +++.|  .+++.|.+|++|++++ ..+..||.+++++ .|+.|-
T Consensus       230 L~Elh~g~-N~i~~lpae~~~~L~~l~vLDLRdNk-lke~P--de~clLrsL~rLDlSN-N~is~Lp~sLgnl-hL~~L~  303 (565)
T KOG0472|consen  230 LKELHVGE-NQIEMLPAEHLKHLNSLLVLDLRDNK-LKEVP--DEICLLRSLERLDLSN-NDISSLPYSLGNL-HLKFLA  303 (565)
T ss_pred             HHHHHhcc-cHHHhhHHHHhcccccceeeeccccc-cccCc--hHHHHhhhhhhhcccC-CccccCCcccccc-eeeehh
Confidence            44444443 45567776665 79999999999654 99999  7999999999999999 8999999999999 999999


Q ss_pred             ccCCchhH
Q 045152          502 MEGSPLLE  509 (533)
Q Consensus       502 ~~~c~~l~  509 (533)
                      +.|+|.-+
T Consensus       304 leGNPlrT  311 (565)
T KOG0472|consen  304 LEGNPLRT  311 (565)
T ss_pred             hcCCchHH
Confidence            99999543

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

Probab=96.83  E-value=0.0084  Score=56.57  Aligned_cols=89  Identities=18%  Similarity=0.192  Sum_probs=53.2

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccC------CceEEEEeCCchhHHHHHHHHHHHhCCCC---------CCC
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNF------EKVIWVCVSDTFEEIRVAKAIIEGLGVSA---------SGL  271 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F------~~~~wv~vs~~~~~~~l~~~il~~l~~~~---------~~~  271 (533)
                      ....++.|+|.+|.|||+||..+....  ....      ..++|++....++...+. .+........         ...
T Consensus        17 ~~g~v~~I~G~~GsGKT~l~~~ia~~~--~~~~~~~g~~~~v~yi~~e~~~~~~rl~-~~~~~~~~~~~~~~~~i~~~~~   93 (226)
T cd01393          17 PTGRITEIFGEFGSGKTQLCLQLAVEA--QLPGELGGLEGKVVYIDTEGAFRPERLV-QLAVRFGLDPEEVLDNIYVARP   93 (226)
T ss_pred             cCCcEEEEeCCCCCChhHHHHHHHHHh--hcccccCCCcceEEEEecCCCCCHHHHH-HHHHHhccchhhhhccEEEEeC
Confidence            456799999999999999998876431  1222      567899887776655443 3333322110         011


Q ss_pred             ccHHHHHHHHHHHhC----CceEEEEEeCCC
Q 045152          272 SEFESLMKQIQEYIT----RKKFFLVLDDVW  298 (533)
Q Consensus       272 ~~~~~l~~~l~~~l~----~kr~LlVLDdv~  298 (533)
                      .+.+++...+.....    .+.-|+|+|.+.
T Consensus        94 ~~~~~~~~~l~~~~~~~~~~~~~lvVIDsis  124 (226)
T cd01393          94 YNGEQQLEIVEELERIMSSGRVDLVVVDSVA  124 (226)
T ss_pred             CCHHHHHHHHHHHHHHhhcCCeeEEEEcCcc
Confidence            234444444444432    345588899883

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.

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=96.82  E-value=0.0061  Score=57.36  Aligned_cols=207  Identities=13%  Similarity=0.135  Sum_probs=113.7

Q ss_pred             eeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcc----hhhhccCCceEEEEeCC----------
Q 045152          184 VCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNN----DEVKRNFEKVIWVCVSD----------  249 (533)
Q Consensus       184 ~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~----~~~~~~F~~~~wv~vs~----------  249 (533)
                      +.++++....+.....      .....-+.++|+.|.||-|.+-.+.+.    .--+-.-+...|.+-+.          
T Consensus        15 l~~~~e~~~~Lksl~~------~~d~PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~~tpS~kklEistvsS   88 (351)
T KOG2035|consen   15 LIYHEELANLLKSLSS------TGDFPHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTFTTPSKKKLEISTVSS   88 (351)
T ss_pred             cccHHHHHHHHHHhcc------cCCCCeEEEECCCCCCchhhHHHHHHHHhCCCchheeeeeEEEecCCCceEEEEEecc
Confidence            5566666666666553      245678899999999999887554432    11122233444543222          


Q ss_pred             ch-----------hHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceE-EEEEeCCCCCCccccchhhhcccCCCC
Q 045152          250 TF-----------EEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKF-FLVLDDVWDGDYKKWNPFFSCLKNGHH  317 (533)
Q Consensus       250 ~~-----------~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~-LlVLDdv~~~~~~~~~~l~~~l~~~~~  317 (533)
                      ++           ...-+.++|+++.....+-.            .-..+.| ++|+-.+++-..+.-..+......-.+
T Consensus        89 ~yHlEitPSDaG~~DRvViQellKevAQt~qie------------~~~qr~fKvvvi~ead~LT~dAQ~aLRRTMEkYs~  156 (351)
T KOG2035|consen   89 NYHLEITPSDAGNYDRVVIQELLKEVAQTQQIE------------TQGQRPFKVVVINEADELTRDAQHALRRTMEKYSS  156 (351)
T ss_pred             cceEEeChhhcCcccHHHHHHHHHHHHhhcchh------------hccccceEEEEEechHhhhHHHHHHHHHHHHHHhc
Confidence            21           11233444444432211100            0012333 566777755443444445554444456


Q ss_pred             CceEEEEecch-HHHhhh-CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHHHHHHh
Q 045152          318 ESKILITTRDR-SVALQL-GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLL  395 (533)
Q Consensus       318 gs~IiiTtR~~-~v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~~~~L  395 (533)
                      .+|+|+...+- .+...+ ...-.++++..+++|....+++.+-  .+.-..|  .+++.+|+++++|+-.-+..+-..+
T Consensus       157 ~~RlIl~cns~SriIepIrSRCl~iRvpaps~eeI~~vl~~v~~--kE~l~lp--~~~l~rIa~kS~~nLRrAllmlE~~  232 (351)
T KOG2035|consen  157 NCRLILVCNSTSRIIEPIRSRCLFIRVPAPSDEEITSVLSKVLK--KEGLQLP--KELLKRIAEKSNRNLRRALLMLEAV  232 (351)
T ss_pred             CceEEEEecCcccchhHHhhheeEEeCCCCCHHHHHHHHHHHHH--HhcccCc--HHHHHHHHHHhcccHHHHHHHHHHH
Confidence            78888755432 122222 2245689999999999999988763  1111222  6789999999999765544444433


Q ss_pred             hccc----------chHHHHHHHhhhh
Q 045152          396 RSKS----------TVKEWQRILDSEM  412 (533)
Q Consensus       396 ~~~~----------~~~~w~~~l~~~~  412 (533)
                      +.+.          ..-+|+-++.+..
T Consensus       233 ~~~n~~~~a~~~~i~~~dWe~~i~e~a  259 (351)
T KOG2035|consen  233 RVNNEPFTANSQVIPKPDWEIYIQEIA  259 (351)
T ss_pred             HhccccccccCCCCCCccHHHHHHHHH
Confidence            3221          2357888876533

>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=96.82  E-value=0.00082  Score=56.56  Aligned_cols=21  Identities=43%  Similarity=0.498  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045152          211 VISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +|.|.|++|+||||+|+.+.+
T Consensus         1 vI~I~G~~gsGKST~a~~La~   21 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAE   21 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999999986

...

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

Probab=96.81  E-value=0.036  Score=58.84  Aligned_cols=202  Identities=15%  Similarity=0.123  Sum_probs=117.0

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhh------hccCCceEEEEeCCchhHHHH
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEV------KRNFEKVIWVCVSDTFEEIRV  256 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~------~~~F~~~~wv~vs~~~~~~~l  256 (533)
                      .+-+|+.|..+|..++...-++ +...+.+-|.|-+|.|||..+..|.+....      -..|+ .+.|+.-.-..+.++
T Consensus       397 sLpcRe~E~~~I~~f~~~~i~~-~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~-yveINgm~l~~~~~~  474 (767)
T KOG1514|consen  397 SLPCRENEFSEIEDFLRSFISD-QGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFD-YVEINGLRLASPREI  474 (767)
T ss_pred             cccchhHHHHHHHHHHHhhcCC-CCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCcc-EEEEcceeecCHHHH
Confidence            4668999999999988665542 345569999999999999999999874221      12343 344555555568899


Q ss_pred             HHHHHHHhCCCCCCCccHHHHHHHHHHHhC-----CceEEEEEeCCCCCCccccchhhhcccC-CCCCceEEEEecc--h
Q 045152          257 AKAIIEGLGVSASGLSEFESLMKQIQEYIT-----RKKFFLVLDDVWDGDYKKWNPFFSCLKN-GHHESKILITTRD--R  328 (533)
Q Consensus       257 ~~~il~~l~~~~~~~~~~~~l~~~l~~~l~-----~kr~LlVLDdv~~~~~~~~~~l~~~l~~-~~~gs~IiiTtR~--~  328 (533)
                      +..|..++.+....   .......+..+..     .+..++++|+++.--...-+-+...|.+ ..++|+++|.+=.  .
T Consensus       475 Y~~I~~~lsg~~~~---~~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~QdVlYn~fdWpt~~~sKLvvi~IaNTm  551 (767)
T KOG1514|consen  475 YEKIWEALSGERVT---WDAALEALNFRFTVPKPKRSTTVVLIDELDILVTRSQDVLYNIFDWPTLKNSKLVVIAIANTM  551 (767)
T ss_pred             HHHHHHhcccCccc---HHHHHHHHHHhhccCCCCCCCEEEEeccHHHHhcccHHHHHHHhcCCcCCCCceEEEEecccc
Confidence            99999999875422   2233334444432     3568899998843211111224444443 3567777664421  1


Q ss_pred             H---------HHhhhCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHHH
Q 045152          329 S---------VALQLGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVI  391 (533)
Q Consensus       329 ~---------v~~~~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~  391 (533)
                      +         ++..++ ...+...+-++++-.++...+..+. ......-.+=++++|+.-.|-.-.|+...
T Consensus       552 dlPEr~l~nrvsSRlg-~tRi~F~pYth~qLq~Ii~~RL~~~-~~f~~~aielvarkVAavSGDaRraldic  621 (767)
T KOG1514|consen  552 DLPERLLMNRVSSRLG-LTRICFQPYTHEQLQEIISARLKGL-DAFENKAIELVARKVAAVSGDARRALDIC  621 (767)
T ss_pred             cCHHHHhccchhhhcc-ceeeecCCCCHHHHHHHHHHhhcch-hhcchhHHHHHHHHHHhccccHHHHHHHH
Confidence            1         111111 2456677777887777776665321 11222223334555555555555554443

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=96.81  E-value=0.01  Score=59.01  Aligned_cols=71  Identities=10%  Similarity=0.108  Sum_probs=46.4

Q ss_pred             CceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecchH-HHhhh-CCCCeeeCCCCChHhhHHHHHHh
Q 045152          287 RKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRS-VALQL-GSIDIIPVKELAEEECWSLLERL  357 (533)
Q Consensus       287 ~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~~-v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~  357 (533)
                      +++-++|+|++...+...-..+...+.....++.+|++|.+.. +...+ .....+.+.+++.++..+.+...
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            3444556788877665556666666654445566777777643 33222 22567899999999998887653

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=96.79  E-value=0.0075  Score=67.33  Aligned_cols=178  Identities=15%  Similarity=0.104  Sum_probs=90.6

Q ss_pred             ceeechhhHHHHHHHHhCCCcc-------CCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHH
Q 045152          183 EVCGRVEEKNELLSKLLCESSE-------QQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIR  255 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~-------~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~  255 (533)
                      ++.|.+..++++.+++...-..       +-...+.+.++|++|.|||+||+.+.+.  ....     ++.++..    +
T Consensus       179 di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~--~~~~-----~i~i~~~----~  247 (733)
T TIGR01243       179 DIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANE--AGAY-----FISINGP----E  247 (733)
T ss_pred             HhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHH--hCCe-----EEEEecH----H
Confidence            5789999999888876321100       1123467889999999999999999873  2222     2222211    1


Q ss_pred             HHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCcc-----------ccchhhhcccCC-CCCceEEE
Q 045152          256 VAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYK-----------KWNPFFSCLKNG-HHESKILI  323 (533)
Q Consensus       256 l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~-----------~~~~l~~~l~~~-~~gs~Iii  323 (533)
                      +    .....     ......+...+.......+.+|+|||++.....           ....+...+... ..+..++|
T Consensus       248 i----~~~~~-----g~~~~~l~~lf~~a~~~~p~il~iDEid~l~~~r~~~~~~~~~~~~~~Ll~~ld~l~~~~~vivI  318 (733)
T TIGR01243       248 I----MSKYY-----GESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRGRVIVI  318 (733)
T ss_pred             H----hcccc-----cHHHHHHHHHHHHHHhcCCcEEEeehhhhhcccccCCcchHHHHHHHHHHHHhhccccCCCEEEE
Confidence            1    11100     011122333333344556789999998542100           011233323211 22333444


Q ss_pred             -EecchH-HHhhh----CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCc
Q 045152          324 -TTRDRS-VALQL----GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLP  385 (533)
Q Consensus       324 -TtR~~~-v~~~~----~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlP  385 (533)
                       ||.... +...+    .....+.+...+.++-.+++....- ........    ....+++.+.|.-
T Consensus       319 ~atn~~~~ld~al~r~gRfd~~i~i~~P~~~~R~~Il~~~~~-~~~l~~d~----~l~~la~~t~G~~  381 (733)
T TIGR01243       319 GATNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTR-NMPLAEDV----DLDKLAEVTHGFV  381 (733)
T ss_pred             eecCChhhcCHHHhCchhccEEEEeCCcCHHHHHHHHHHHhc-CCCCcccc----CHHHHHHhCCCCC
Confidence             554432 21111    1135677888888888888875432 11111111    2355666777654

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.

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=96.78  E-value=0.0029  Score=67.49  Aligned_cols=44  Identities=27%  Similarity=0.381  Sum_probs=35.8

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      +++|.+..++.+...+...      ....+.|+|++|+|||++|+.+++.
T Consensus        66 ~iiGqs~~i~~l~~al~~~------~~~~vLi~Ge~GtGKt~lAr~i~~~  109 (531)
T TIGR02902        66 EIIGQEEGIKALKAALCGP------NPQHVIIYGPPGVGKTAAARLVLEE  109 (531)
T ss_pred             HeeCcHHHHHHHHHHHhCC------CCceEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999988876432      3456789999999999999999863

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.

>CHL00195 ycf46 Ycf46; Provisional

Probab=96.77  E-value=0.012  Score=61.70  Aligned_cols=181  Identities=15%  Similarity=0.092  Sum_probs=91.1

Q ss_pred             ceeechhhHHHHHHHHhCC----CccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHH
Q 045152          183 EVCGRVEEKNELLSKLLCE----SSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAK  258 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~----~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~  258 (533)
                      ++.|.+..++.+.+....-    ...+-...+-|.++|++|.|||.+|+.+.+.  ....|   +-+..+      .   
T Consensus       229 dvgGl~~lK~~l~~~~~~~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e--~~~~~---~~l~~~------~---  294 (489)
T CHL00195        229 DIGGLDNLKDWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIAND--WQLPL---LRLDVG------K---  294 (489)
T ss_pred             HhcCHHHHHHHHHHHHHHhhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHH--hCCCE---EEEEhH------H---
Confidence            5677766665555432110    0001234577899999999999999999873  22221   111111      1   


Q ss_pred             HHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCc--cc----------cchhhhcccCCCCCceEEEEec
Q 045152          259 AIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDY--KK----------WNPFFSCLKNGHHESKILITTR  326 (533)
Q Consensus       259 ~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~--~~----------~~~l~~~l~~~~~gs~IiiTtR  326 (533)
                       +.....+     .....+...+...-...+++|++|+++..-.  ..          ...+...+.....+.-||.||.
T Consensus       295 -l~~~~vG-----ese~~l~~~f~~A~~~~P~IL~IDEID~~~~~~~~~~d~~~~~rvl~~lL~~l~~~~~~V~vIaTTN  368 (489)
T CHL00195        295 -LFGGIVG-----ESESRMRQMIRIAEALSPCILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLSEKKSPVFVVATAN  368 (489)
T ss_pred             -hcccccC-----hHHHHHHHHHHHHHhcCCcEEEehhhhhhhccccCCCCchHHHHHHHHHHHHHhcCCCceEEEEecC
Confidence             1111100     1112222223222235789999999964210  00          0112222222233444666776


Q ss_pred             chHHH-hhh----CCCCeeeCCCCChHhhHHHHHHhhccCCCc-cccccchHHHHHHHhHhCCCcch
Q 045152          327 DRSVA-LQL----GSIDIIPVKELAEEECWSLLERLAFFRRSV-DDHEKLEPIGRKIAHKCKGLPLA  387 (533)
Q Consensus       327 ~~~v~-~~~----~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~-~~~~~l~~~~~~I~~~c~GlPLa  387 (533)
                      +.... ..+    .....+.++.-+.++-.++|..+....... ....+    ...+++.+.|.-=|
T Consensus       369 ~~~~Ld~allR~GRFD~~i~v~lP~~~eR~~Il~~~l~~~~~~~~~~~d----l~~La~~T~GfSGA  431 (489)
T CHL00195        369 NIDLLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKFRPKSWKKYD----IKKLSKLSNKFSGA  431 (489)
T ss_pred             ChhhCCHHHhCCCcCCeEEEeCCcCHHHHHHHHHHHHhhcCCCcccccC----HHHHHhhcCCCCHH
Confidence            54321 111    225678888889999999998776421111 11122    35566677666543

>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51

Probab=96.70  E-value=0.008  Score=57.81  Aligned_cols=89  Identities=25%  Similarity=0.381  Sum_probs=53.5

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhc----cCCceEEEEeCCchhHHHHHHHHHHHhCCCCC---------CCccH
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKR----NFEKVIWVCVSDTFEEIRVAKAIIEGLGVSAS---------GLSEF  274 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~----~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~---------~~~~~  274 (533)
                      ...+.=|+|++|+|||.|+..++-...+..    .=..++||+....|+..++.+ |++..+....         ...+.
T Consensus        37 ~g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~~-i~~~~~~~~~~~l~~I~v~~~~~~  115 (256)
T PF08423_consen   37 TGSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQQ-IAERFGLDPEEILDNIFVIRVFDL  115 (256)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHHH-HHHHTTS-HHHHHHTEEEEE-SSH
T ss_pred             CCcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHHH-HhhccccccchhhhceeeeecCCH
Confidence            456888999999999999977754322222    224699999999998877754 6665443210         01122


Q ss_pred             HHH---HHHHHHHh-CCceEEEEEeCC
Q 045152          275 ESL---MKQIQEYI-TRKKFFLVLDDV  297 (533)
Q Consensus       275 ~~l---~~~l~~~l-~~kr~LlVLDdv  297 (533)
                      +++   ...+...+ .++--|||+|.+
T Consensus       116 ~~l~~~L~~l~~~l~~~~ikLIVIDSI  142 (256)
T PF08423_consen  116 EELLELLEQLPKLLSESKIKLIVIDSI  142 (256)
T ss_dssp             HHHHHHHHHHHHHHHHSCEEEEEEETS
T ss_pred             HHHHHHHHHHHhhccccceEEEEecch
Confidence            233   33333333 344568888888

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 ....

>PF14580 LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQD_A

Probab=96.68  E-value=0.001  Score=59.71  Aligned_cols=82  Identities=24%  Similarity=0.349  Sum_probs=35.2

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCC-CCCCCcceEEeccCCCCCCCCc--CCCCCCC
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDH-IFLPRLSSLRIEYCPKLKLLPD--SLLQITT  496 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~-~~l~~L~~L~l~~C~~l~~lP~--~~~~l~~  496 (533)
                      +..|+.|+++. ..+..++ ++..+..|+.|++++ ..+..++  +.+ ..+|+|+.|++++ .++..+-+  .+..+++
T Consensus        41 l~~L~~L~Ls~-N~I~~l~-~l~~L~~L~~L~L~~-N~I~~i~--~~l~~~lp~L~~L~L~~-N~I~~l~~l~~L~~l~~  114 (175)
T PF14580_consen   41 LDKLEVLDLSN-NQITKLE-GLPGLPRLKTLDLSN-NRISSIS--EGLDKNLPNLQELYLSN-NKISDLNELEPLSSLPK  114 (175)
T ss_dssp             -TT--EEE-TT-S--S--T-T----TT--EEE--S-S---S-C--HHHHHH-TT--EEE-TT-S---SCCCCGGGGG-TT
T ss_pred             hcCCCEEECCC-CCCcccc-CccChhhhhhcccCC-CCCCccc--cchHHhCCcCCEEECcC-CcCCChHHhHHHHcCCC
Confidence            45678888877 4556665 566788888898884 4577775  333 3578999999988 77777653  4566888


Q ss_pred             cceeeccCCch
Q 045152          497 LKELGMEGSPL  507 (533)
Q Consensus       497 L~~L~~~~c~~  507 (533)
                      |++|++.|+|.
T Consensus       115 L~~L~L~~NPv  125 (175)
T PF14580_consen  115 LRVLSLEGNPV  125 (175)
T ss_dssp             --EEE-TT-GG
T ss_pred             cceeeccCCcc
Confidence            99999999985

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=96.68  E-value=0.01  Score=56.36  Aligned_cols=90  Identities=18%  Similarity=0.262  Sum_probs=53.3

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhc----cCCceEEEEeCCchhHHHHHHHHHHHhCCCC------------CC
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKR----NFEKVIWVCVSDTFEEIRVAKAIIEGLGVSA------------SG  270 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~----~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~------------~~  270 (533)
                      ....++.|+|.+|+|||+|+.++.-......    ....++|++....++..++.+ +++..+...            ..
T Consensus        17 ~~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl~~-~~~~~~~~~~~~~~~i~~~~~~~   95 (235)
T cd01123          17 ETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERLVQ-IAERFGLDPEEVLDNIYVARAYN   95 (235)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHHHH-HHHHhccChHhHhcCEEEEecCC
Confidence            4568999999999999999988864322221    136789999887776554433 333332211            01


Q ss_pred             CccHHHHHHHHHHHhC-C-ceEEEEEeCC
Q 045152          271 LSEFESLMKQIQEYIT-R-KKFFLVLDDV  297 (533)
Q Consensus       271 ~~~~~~l~~~l~~~l~-~-kr~LlVLDdv  297 (533)
                      ..+.......+...+. . +.-++|+|.+
T Consensus        96 ~~~l~~~l~~l~~~l~~~~~~~liVIDSi  124 (235)
T cd01123          96 SDHQLQLLEELEAILIESSRIKLVIVDSV  124 (235)
T ss_pred             HHHHHHHHHHHHHHHhhcCCeeEEEEeCc
Confidence            1122233344444442 3 5668888888

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 .

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=96.68  E-value=0.0091  Score=58.34  Aligned_cols=88  Identities=23%  Similarity=0.249  Sum_probs=46.0

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCc-hhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhC
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT-FEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYIT  286 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~-~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~  286 (533)
                      ...++.|+|++|+||||++..+......+..-..+..|+.... ......+....+.++.+.....+...+...+.. +.
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D~~r~~a~eql~~~~~~~~~p~~~~~~~~~l~~~l~~-~~  271 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITTDTYRIGAVEQLKTYAKILGVPVKVARDPKELRKALDR-LR  271 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECCccchhHHHHHHHHHHHhCCceeccCCHHHHHHHHHH-cc
Confidence            4679999999999999999888753222211124555654331 112223333333344332222333444444443 33


Q ss_pred             CceEEEEEeCC
Q 045152          287 RKKFFLVLDDV  297 (533)
Q Consensus       287 ~kr~LlVLDdv  297 (533)
                      + .=+|++|..
T Consensus       272 ~-~d~vliDt~  281 (282)
T TIGR03499       272 D-KDLILIDTA  281 (282)
T ss_pred             C-CCEEEEeCC
Confidence            3 347777754

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.67  E-value=0.017  Score=58.03  Aligned_cols=90  Identities=12%  Similarity=0.267  Sum_probs=48.6

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCc-hhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhC
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT-FEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYIT  286 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~-~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~  286 (533)
                      ..++|+++|++|+||||++..+...  ....-..+..++.... ....+-++...+.++.+-....+...+...+...-.
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~~--L~~~GkkVglI~aDt~RiaAvEQLk~yae~lgipv~v~~d~~~L~~aL~~lk~  317 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAWQ--FHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKE  317 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHH--HHHcCCcEEEEecCCcchHHHHHHHHHhhhcCCcEEecCCHHHHHHHHHHHHh
Confidence            4579999999999999999888753  2222123445543321 122333334444444332222344455554444322


Q ss_pred             C-ceEEEEEeCCCC
Q 045152          287 R-KKFFLVLDDVWD  299 (533)
Q Consensus       287 ~-kr~LlVLDdv~~  299 (533)
                      . +.=++++|-.-.
T Consensus       318 ~~~~DvVLIDTaGR  331 (436)
T PRK11889        318 EARVDYILIDTAGK  331 (436)
T ss_pred             ccCCCEEEEeCccc
Confidence            1 345778887754

>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]

Probab=96.67  E-value=0.013  Score=61.43  Aligned_cols=132  Identities=22%  Similarity=0.313  Sum_probs=73.8

Q ss_pred             CeEEEEEEcCCCChHHH-HHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCC------------CC---
Q 045152          208 GLHVISLVGLGGIGKTT-LAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSAS------------GL---  271 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTt-LA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~------------~~---  271 (533)
                      .-.||.|+|..|.|||| |+|.+|.+.-..   ...+=++-....-...+.+.+.+.++..-.            ..   
T Consensus       370 ~n~vvvivgETGSGKTTQl~QyL~edGY~~---~GmIGcTQPRRvAAiSVAkrVa~EM~~~lG~~VGYsIRFEdvT~~~T  446 (1042)
T KOG0924|consen  370 ENQVVVIVGETGSGKTTQLAQYLYEDGYAD---NGMIGCTQPRRVAAISVAKRVAEEMGVTLGDTVGYSIRFEDVTSEDT  446 (1042)
T ss_pred             hCcEEEEEecCCCCchhhhHHHHHhccccc---CCeeeecCchHHHHHHHHHHHHHHhCCccccccceEEEeeecCCCce
Confidence            45699999999999987 678888752111   122222222333445666777777644311            00   


Q ss_pred             -----ccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhccc---CCCCCceEEEEecc---hHHHhhhCCCCee
Q 045152          272 -----SEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLK---NGHHESKILITTRD---RSVALQLGSIDII  340 (533)
Q Consensus       272 -----~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~---~~~~gs~IiiTtR~---~~v~~~~~~~~~~  340 (533)
                           .+.--+.+.|.+..-+|--.||+|..++... .-+.+...+.   .....-++||||-.   +..+..++....+
T Consensus       447 ~IkymTDGiLLrEsL~d~~L~kYSviImDEAHERsl-NtDilfGllk~~larRrdlKliVtSATm~a~kf~nfFgn~p~f  525 (1042)
T KOG0924|consen  447 KIKYMTDGILLRESLKDRDLDKYSVIIMDEAHERSL-NTDILFGLLKKVLARRRDLKLIVTSATMDAQKFSNFFGNCPQF  525 (1042)
T ss_pred             eEEEeccchHHHHHhhhhhhhheeEEEechhhhccc-chHHHHHHHHHHHHhhccceEEEeeccccHHHHHHHhCCCcee
Confidence                 1222344445555556777999999976532 2233333332   23346789999865   4455556644444


Q ss_pred             eCC
Q 045152          341 PVK  343 (533)
Q Consensus       341 ~l~  343 (533)
                      .++
T Consensus       526 ~Ip  528 (1042)
T KOG0924|consen  526 TIP  528 (1042)
T ss_pred             eec
Confidence            443

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=96.65  E-value=0.02  Score=51.10  Aligned_cols=125  Identities=22%  Similarity=0.253  Sum_probs=71.9

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEE---------------------eCCch---------------
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVC---------------------VSDTF---------------  251 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~---------------------vs~~~---------------  251 (533)
                      ....+.|+|++|.|||||.+.+|...+.   =...+|++                     |-+++               
T Consensus        27 ~Gef~fl~GpSGAGKSTllkLi~~~e~p---t~G~i~~~~~dl~~l~~~~iP~LRR~IGvVFQD~rLL~~~tvyeNVA~p  103 (223)
T COG2884          27 KGEFVFLTGPSGAGKSTLLKLIYGEERP---TRGKILVNGHDLSRLKGREIPFLRRQIGVVFQDFRLLPDRTVYENVALP  103 (223)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhhhcC---CCceEEECCeecccccccccchhhheeeeEeeeccccccchHhhhhhhh
Confidence            4568999999999999999999975322   22344442                     00111               


Q ss_pred             ------hHHHH---HHHHHHHhCCC------CCCCccHHHHHHHHHHHhCCceEEEEEeCCCC-CC-ccccchhhhcccC
Q 045152          252 ------EEIRV---AKAIIEGLGVS------ASGLSEFESLMKQIQEYITRKKFFLVLDDVWD-GD-YKKWNPFFSCLKN  314 (533)
Q Consensus       252 ------~~~~l---~~~il~~l~~~------~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~-~~-~~~~~~l~~~l~~  314 (533)
                            ...++   ..+.++.++..      +....--++..-.+...+-+++-+++-|.--- -+ ...|+-+.-.-.-
T Consensus       104 L~v~G~~~~~i~~rV~~~L~~VgL~~k~~~lP~~LSGGEQQRvaIARAiV~~P~vLlADEPTGNLDp~~s~~im~lfeei  183 (223)
T COG2884         104 LRVIGKPPREIRRRVSEVLDLVGLKHKARALPSQLSGGEQQRVAIARAIVNQPAVLLADEPTGNLDPDLSWEIMRLFEEI  183 (223)
T ss_pred             hhccCCCHHHHHHHHHHHHHHhccchhhhcCccccCchHHHHHHHHHHHccCCCeEeecCCCCCCChHHHHHHHHHHHHH
Confidence                  11122   22223333322      11223344555566777778888999886521 11 1345543332234


Q ss_pred             CCCCceEEEEecchHHHhhhC
Q 045152          315 GHHESKILITTRDRSVALQLG  335 (533)
Q Consensus       315 ~~~gs~IiiTtR~~~v~~~~~  335 (533)
                      +..|+.|+++|.+..+-..+.
T Consensus       184 nr~GtTVl~ATHd~~lv~~~~  204 (223)
T COG2884         184 NRLGTTVLMATHDLELVNRMR  204 (223)
T ss_pred             hhcCcEEEEEeccHHHHHhcc
Confidence            567999999999988776653

>PRK13695 putative NTPase; Provisional

Probab=96.64  E-value=0.0017  Score=58.56  Aligned_cols=22  Identities=36%  Similarity=0.425  Sum_probs=19.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhcc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      -|+|+|.+|+|||||++.+++.
T Consensus         2 ~i~ltG~~G~GKTTll~~i~~~   23 (174)
T PRK13695          2 KIGITGPPGVGKTTLVLKIAEL   23 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3789999999999999998864

>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=0.0095  Score=54.77  Aligned_cols=89  Identities=22%  Similarity=0.225  Sum_probs=50.8

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeC-CchhHHHHHHHHHHHhCCCC---CCCccH-HHHHHHHHH
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVS-DTFEEIRVAKAIIEGLGVSA---SGLSEF-ESLMKQIQE  283 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs-~~~~~~~l~~~il~~l~~~~---~~~~~~-~~l~~~l~~  283 (533)
                      +.+|.++|+.|+||||.+-++......  +-..+..++.. ......+-++...+.++.+.   ....+. +.+...+.+
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~~~--~~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~~~~~~~~~~~~~~l~~   78 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARLKL--KGKKVALISADTYRIGAVEQLKTYAEILGVPFYVARTESDPAEIAREALEK   78 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHHHH--TT--EEEEEESTSSTHHHHHHHHHHHHHTEEEEESSTTSCHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHHhh--ccccceeecCCCCCccHHHHHHHHHHHhccccchhhcchhhHHHHHHHHHH
Confidence            468999999999999998777653222  24456667654 23455666777777777542   112222 223333433


Q ss_pred             HhCCceEEEEEeCCCC
Q 045152          284 YITRKKFFLVLDDVWD  299 (533)
Q Consensus       284 ~l~~kr~LlVLDdv~~  299 (533)
                      .-..+.=++++|=.-.
T Consensus        79 ~~~~~~D~vlIDT~Gr   94 (196)
T PF00448_consen   79 FRKKGYDLVLIDTAGR   94 (196)
T ss_dssp             HHHTTSSEEEEEE-SS
T ss_pred             HhhcCCCEEEEecCCc
Confidence            3233344778886643

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 ....

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=96.63  E-value=0.0072  Score=60.43  Aligned_cols=45  Identities=18%  Similarity=0.129  Sum_probs=34.2

Q ss_pred             eeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          184 VCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       184 ~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ++|....+.++.+.+....    .....|.|+|..|+||+++|+.+++.
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    23456899999999999999999863

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

>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli []

Probab=96.63  E-value=0.0034  Score=57.68  Aligned_cols=132  Identities=22%  Similarity=0.267  Sum_probs=61.4

Q ss_pred             echhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeC----Cch-----hHH--
Q 045152          186 GRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVS----DTF-----EEI--  254 (533)
Q Consensus       186 GR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs----~~~-----~~~--  254 (533)
                      .+..+....++.|.        ...++.+.|++|.|||.||-...-+.-....|+..+++.-.    +..     +..  
T Consensus         4 p~~~~Q~~~~~al~--------~~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~~~~~lGflpG~~~eK   75 (205)
T PF02562_consen    4 PKNEEQKFALDALL--------NNDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPVEAGEDLGFLPGDLEEK   75 (205)
T ss_dssp             --SHHHHHHHHHHH--------H-SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--TT----SS-------
T ss_pred             CCCHHHHHHHHHHH--------hCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCCCCccccccCCCCHHHH
Confidence            35566667777775        23589999999999999997666544445777777776411    110     000  


Q ss_pred             --HHHHHHHHHhCCCCCCCccHHHHHHH------HHHHhCCc---eEEEEEeCCCCCCccccchhhhcccCCCCCceEEE
Q 045152          255 --RVAKAIIEGLGVSASGLSEFESLMKQ------IQEYITRK---KFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILI  323 (533)
Q Consensus       255 --~l~~~il~~l~~~~~~~~~~~~l~~~------l~~~l~~k---r~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~Iii  323 (533)
                        -.+.-+...+..-- .....+.+...      -..+++++   ..++|+|++.+....++..+   +-..+.||++|+
T Consensus        76 ~~p~~~p~~d~l~~~~-~~~~~~~~~~~~~Ie~~~~~~iRGrt~~~~~iIvDEaQN~t~~~~k~i---lTR~g~~skii~  151 (205)
T PF02562_consen   76 MEPYLRPIYDALEELF-GKEKLEELIQNGKIEIEPLAFIRGRTFDNAFIIVDEAQNLTPEELKMI---LTRIGEGSKIII  151 (205)
T ss_dssp             --TTTHHHHHHHTTTS--TTCHHHHHHTTSEEEEEGGGGTT--B-SEEEEE-SGGG--HHHHHHH---HTTB-TT-EEEE
T ss_pred             HHHHHHHHHHHHHHHh-ChHhHHHHhhcCeEEEEehhhhcCccccceEEEEecccCCCHHHHHHH---HcccCCCcEEEE
Confidence              01111122221100 11112221110      01234554   46999999966554444444   555677899999


Q ss_pred             EecchH
Q 045152          324 TTRDRS  329 (533)
Q Consensus       324 TtR~~~  329 (533)
                      +--..+
T Consensus       152 ~GD~~Q  157 (205)
T PF02562_consen  152 TGDPSQ  157 (205)
T ss_dssp             EE----
T ss_pred             ecCcee
Confidence            876543

; GO: 0005524 ATP binding; PDB: 3B85_A.

>PRK06696 uridine kinase; Validated

Probab=96.62  E-value=0.0024  Score=60.16  Aligned_cols=43  Identities=23%  Similarity=0.237  Sum_probs=34.7

Q ss_pred             chhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          187 RVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       187 R~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      |.+-+++|.+.+....   .+...+|+|.|.+|+||||||+.+.+.
T Consensus         3 ~~~~~~~la~~~~~~~---~~~~~iI~I~G~sgsGKSTlA~~L~~~   45 (223)
T PRK06696          3 RKQLIKELAEHILTLN---LTRPLRVAIDGITASGKTTFADELAEE   45 (223)
T ss_pred             HHHHHHHHHHHHHHhC---CCCceEEEEECCCCCCHHHHHHHHHHH
Confidence            5667778888876533   256889999999999999999999863

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=96.61  E-value=0.011  Score=58.44  Aligned_cols=59  Identities=24%  Similarity=0.327  Sum_probs=41.9

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhh----ccCCceEEEEeCCchhHHHHHHHHHHHhCC
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVK----RNFEKVIWVCVSDTFEEIRVAKAIIEGLGV  266 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~----~~F~~~~wv~vs~~~~~~~l~~~il~~l~~  266 (533)
                      ...+++-|+|++|+|||+|+..+.-.....    ..-..++||+....|+.+++.+ +++.++.
T Consensus        94 ~~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~~-~a~~~g~  156 (313)
T TIGR02238        94 ESMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRA-IAERFGV  156 (313)
T ss_pred             cCCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHHH-HHHHcCC
Confidence            456889999999999999997665322221    1124789999998888887654 5566554

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=96.59  E-value=0.0091  Score=58.95  Aligned_cols=85  Identities=21%  Similarity=0.225  Sum_probs=55.0

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCC-----CCCccHHHHHHHH
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSA-----SGLSEFESLMKQI  281 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~-----~~~~~~~~l~~~l  281 (533)
                      +.-+++-|+|++|+||||||.+++..  ....-..++||+....++..     .++.++...     ....+.++....+
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            46779999999999999999877653  33345678899887766653     333443321     1122345555555


Q ss_pred             HHHhC-CceEEEEEeCCC
Q 045152          282 QEYIT-RKKFFLVLDDVW  298 (533)
Q Consensus       282 ~~~l~-~kr~LlVLDdv~  298 (533)
                      ...++ +..-++|+|-+-
T Consensus       126 ~~li~s~~~~lIVIDSva  143 (325)
T cd00983         126 DSLVRSGAVDLIVVDSVA  143 (325)
T ss_pred             HHHHhccCCCEEEEcchH
Confidence            55554 356689999983

RecA couples ATP hydrolysis to DNA strand exchange.

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=96.58  E-value=0.0096  Score=55.00  Aligned_cols=107  Identities=20%  Similarity=0.257  Sum_probs=65.0

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAII  261 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il  261 (533)
                      ..++|-+..++.+.+--....  .....--|.+||.-|.|||+|++++.+.  +.......+-|+  ..           
T Consensus        60 ~~l~Gvd~qk~~L~~NT~~F~--~G~pANnVLLwGaRGtGKSSLVKA~~~e--~~~~glrLVEV~--k~-----------  122 (287)
T COG2607          60 ADLVGVDRQKEALVRNTEQFA--EGLPANNVLLWGARGTGKSSLVKALLNE--YADEGLRLVEVD--KE-----------  122 (287)
T ss_pred             HHHhCchHHHHHHHHHHHHHH--cCCcccceEEecCCCCChHHHHHHHHHH--HHhcCCeEEEEc--HH-----------
Confidence            358999988888877543322  1234456889999999999999999873  444443333322  11           


Q ss_pred             HHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCC-CCccccchhhhcccCC
Q 045152          262 EGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWD-GDYKKWNPFFSCLKNG  315 (533)
Q Consensus       262 ~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~-~~~~~~~~l~~~l~~~  315 (533)
                              +..++..+.+.++  ...+||.|..||+-- .....+..+...+..+
T Consensus       123 --------dl~~Lp~l~~~Lr--~~~~kFIlFcDDLSFe~gd~~yK~LKs~LeG~  167 (287)
T COG2607         123 --------DLATLPDLVELLR--ARPEKFILFCDDLSFEEGDDAYKALKSALEGG  167 (287)
T ss_pred             --------HHhhHHHHHHHHh--cCCceEEEEecCCCCCCCchHHHHHHHHhcCC
Confidence                    1111222222222  246899999999942 2334567777777644

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=96.56  E-value=0.0016  Score=68.13  Aligned_cols=49  Identities=22%  Similarity=0.291  Sum_probs=39.6

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +++|.++.+++|++.|......-....+++.++|++|+||||||+.+.+
T Consensus        77 d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~  125 (644)
T PRK15455         77 EFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKS  125 (644)
T ss_pred             cccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHH
Confidence            5899999999999999433211234567999999999999999999986

>PF14580 LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQD_A

Probab=96.55  E-value=0.0013  Score=58.97  Aligned_cols=79  Identities=19%  Similarity=0.278  Sum_probs=29.2

Q ss_pred             ccceEEEeecCCcccCCcccc-ccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCC-CCCCcce
Q 045152          422 CLSVLRVYLCPKLKVLPDYLL-QTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLL-QITTLKE  499 (533)
Q Consensus       422 ~L~~L~l~~c~~l~~lp~~l~-~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~-~l~~L~~  499 (533)
                      .++.|++.+ ..+..+ +.+. .+.+|+.|+++++. +..++   ++..|++|+.|++++ .+|+++++++. ++++|++
T Consensus        20 ~~~~L~L~~-n~I~~I-e~L~~~l~~L~~L~Ls~N~-I~~l~---~l~~L~~L~~L~L~~-N~I~~i~~~l~~~lp~L~~   92 (175)
T PF14580_consen   20 KLRELNLRG-NQISTI-ENLGATLDKLEVLDLSNNQ-ITKLE---GLPGLPRLKTLDLSN-NRISSISEGLDKNLPNLQE   92 (175)
T ss_dssp             ------------------S--TT-TT--EEE-TTS---S--T---T----TT--EEE--S-S---S-CHHHHHH-TT--E
T ss_pred             ccccccccc-cccccc-cchhhhhcCCCEEECCCCC-Ccccc---CccChhhhhhcccCC-CCCCccccchHHhCCcCCE
Confidence            356677766 333443 3555 57899999999766 77777   677799999999999 89999987664 5899999


Q ss_pred             eeccCCch
Q 045152          500 LGMEGSPL  507 (533)
Q Consensus       500 L~~~~c~~  507 (533)
                      |+++++.+
T Consensus        93 L~L~~N~I  100 (175)
T PF14580_consen   93 LYLSNNKI  100 (175)
T ss_dssp             EE-TTS--
T ss_pred             EECcCCcC
Confidence            99987764

>TIGR01817 nifA Nif-specific regulatory protein

Probab=96.54  E-value=0.011  Score=63.45  Aligned_cols=49  Identities=16%  Similarity=0.239  Sum_probs=39.2

Q ss_pred             cCCceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          180 DEGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       180 ~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ....++|....+.++.+.+....    .....|.|+|..|+|||++|+.+++.
T Consensus       194 ~~~~liG~s~~~~~~~~~~~~~a----~~~~pvli~Ge~GtGK~~lA~~ih~~  242 (534)
T TIGR01817       194 KEDGIIGKSPAMRQVVDQARVVA----RSNSTVLLRGESGTGKELIAKAIHYL  242 (534)
T ss_pred             ccCceEECCHHHHHHHHHHHHHh----CcCCCEEEECCCCccHHHHHHHHHHh
Confidence            34579999999999888875443    23456789999999999999999874

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.

>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=96.52  E-value=0.021  Score=51.86  Aligned_cols=121  Identities=17%  Similarity=0.192  Sum_probs=65.1

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEE---eCCchhHHH------HHHHHHHHhCCCC------CCCc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVC---VSDTFEEIR------VAKAIIEGLGVSA------SGLS  272 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~---vs~~~~~~~------l~~~il~~l~~~~------~~~~  272 (533)
                      ...+++|+|..|.|||||.+.+...   .......+++.   +.. .+...      ...++++.++...      ....
T Consensus        24 ~G~~~~l~G~nGsGKStLl~~i~G~---~~~~~G~v~~~g~~~~~-~~~~~~~~~i~~~~q~l~~~gl~~~~~~~~~~LS   99 (180)
T cd03214          24 AGEIVGILGPNGAGKSTLLKTLAGL---LKPSSGEILLDGKDLAS-LSPKELARKIAYVPQALELLGLAHLADRPFNELS   99 (180)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC---CCCCCcEEEECCEECCc-CCHHHHHHHHhHHHHHHHHcCCHhHhcCCcccCC
Confidence            3468999999999999999999863   22344444443   111 11111      1112445544321      1112


Q ss_pred             cHHHHHHHHHHHhCCceEEEEEeCCCCC-CccccchhhhcccCC-CC-CceEEEEecchHHHh
Q 045152          273 EFESLMKQIQEYITRKKFFLVLDDVWDG-DYKKWNPFFSCLKNG-HH-ESKILITTRDRSVAL  332 (533)
Q Consensus       273 ~~~~l~~~l~~~l~~kr~LlVLDdv~~~-~~~~~~~l~~~l~~~-~~-gs~IiiTtR~~~v~~  332 (533)
                      .-+...-.+...+-..+-++++|+.-.. +....+.+...+... .. |..||++|.+.....
T Consensus       100 ~G~~qrl~laral~~~p~llllDEP~~~LD~~~~~~~~~~l~~~~~~~~~tiii~sh~~~~~~  162 (180)
T cd03214         100 GGERQRVLLARALAQEPPILLLDEPTSHLDIAHQIELLELLRRLARERGKTVVMVLHDLNLAA  162 (180)
T ss_pred             HHHHHHHHHHHHHhcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHHHH
Confidence            2222333345556667788999987432 222333344444322 12 567888888766543

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.

>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=96.49  E-value=0.0015  Score=58.71  Aligned_cols=40  Identities=25%  Similarity=0.248  Sum_probs=28.0

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhh-ccCCceEEEEeCC
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVK-RNFEKVIWVCVSD  249 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~-~~F~~~~wv~vs~  249 (533)
                      +..++.+.|+.|+|||.||+.+.+.  .. ......+-++.+.
T Consensus         2 p~~~~ll~GpsGvGKT~la~~la~~--l~~~~~~~~~~~d~s~   42 (171)
T PF07724_consen    2 PKSNFLLAGPSGVGKTELAKALAEL--LFVGSERPLIRIDMSE   42 (171)
T ss_dssp             -SEEEEEESSTTSSHHHHHHHHHHH--HT-SSCCEEEEEEGGG
T ss_pred             CEEEEEEECCCCCCHHHHHHHHHHH--hccCCccchHHHhhhc
Confidence            3578899999999999999988863  22 3334555555543

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 ....

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=96.49  E-value=0.018  Score=50.84  Aligned_cols=40  Identities=35%  Similarity=0.424  Sum_probs=29.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchh
Q 045152          211 VISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFE  252 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~  252 (533)
                      ++.|+|.+|.||||++..+...  ....-..++|+.......
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~--~~~~~~~v~~~~~e~~~~   40 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALN--IATKGGKVVYVDIEEEIE   40 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHH--HHhcCCEEEEEECCcchH
Confidence            3689999999999999988764  222345677877665543

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.

>cd01133 F1-ATPase_beta F1 ATP synthase beta subunit, nucleotide-binding domain

Probab=96.49  E-value=0.013  Score=56.40  Aligned_cols=88  Identities=20%  Similarity=0.216  Sum_probs=53.8

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccC-CceEEEEeCCch-hHHHHHHHHHHHhCCC-------CCCCccHH---
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNF-EKVIWVCVSDTF-EEIRVAKAIIEGLGVS-------ASGLSEFE---  275 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F-~~~~wv~vs~~~-~~~~l~~~il~~l~~~-------~~~~~~~~---  275 (533)
                      +-.-++|+|.+|.|||||++.+++.  ++.+| +.++++.+.+.. .+.++..++...-...       ..+.....   
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            4567899999999999999999984  44455 445566565543 4456666655431111       11111111   


Q ss_pred             --HHHHHHHHHh---CCceEEEEEeCC
Q 045152          276 --SLMKQIQEYI---TRKKFFLVLDDV  297 (533)
Q Consensus       276 --~l~~~l~~~l---~~kr~LlVLDdv  297 (533)
                        ...-.+.+++   .++.+|+++||+
T Consensus       146 ~~~~a~~~AEyfr~~~g~~Vl~~~Dsl  172 (274)
T cd01133         146 VALTGLTMAEYFRDEEGQDVLLFIDNI  172 (274)
T ss_pred             HHHHHHHHHHHHHHhcCCeEEEEEeCh
Confidence              1222344444   388999999999

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.

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=96.49  E-value=0.013  Score=52.74  Aligned_cols=119  Identities=17%  Similarity=0.139  Sum_probs=59.8

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCC--chhHHHHHHHHHHHhCC--CCCC----------Ccc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD--TFEEIRVAKAIIEGLGV--SASG----------LSE  273 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~--~~~~~~l~~~il~~l~~--~~~~----------~~~  273 (533)
                      ...+++|+|+.|.|||||.+.+..-   .......+++.-..  .......    .+.++.  ....          ...
T Consensus        27 ~G~~~~l~G~nGsGKstLl~~i~G~---~~~~~G~i~~~g~~~~~~~~~~~----~~~i~~~~~~~~~~~~t~~e~lLS~   99 (171)
T cd03228          27 PGEKVAIVGPSGSGKSTLLKLLLRL---YDPTSGEILIDGVDLRDLDLESL----RKNIAYVPQDPFLFSGTIRENILSG   99 (171)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcC---CCCCCCEEEECCEEhhhcCHHHH----HhhEEEEcCCchhccchHHHHhhCH
Confidence            3468999999999999999999863   22233444332110  0000110    011110  0000          011


Q ss_pred             HHHHHHHHHHHhCCceEEEEEeCCCCC-CccccchhhhcccCCCCCceEEEEecchHHHhh
Q 045152          274 FESLMKQIQEYITRKKFFLVLDDVWDG-DYKKWNPFFSCLKNGHHESKILITTRDRSVALQ  333 (533)
Q Consensus       274 ~~~l~~~l~~~l~~kr~LlVLDdv~~~-~~~~~~~l~~~l~~~~~gs~IiiTtR~~~v~~~  333 (533)
                      .+...-.+...+..++-+++||+-... +......+...+.....+..||++|.+......
T Consensus       100 G~~~rl~la~al~~~p~llllDEP~~gLD~~~~~~l~~~l~~~~~~~tii~~sh~~~~~~~  160 (171)
T cd03228         100 GQRQRIAIARALLRDPPILILDEATSALDPETEALILEALRALAKGKTVIVIAHRLSTIRD  160 (171)
T ss_pred             HHHHHHHHHHHHhcCCCEEEEECCCcCCCHHHHHHHHHHHHHhcCCCEEEEEecCHHHHHh
Confidence            111222344455567789999997532 222233344444322235668888888766543

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.

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.44  E-value=0.034  Score=53.66  Aligned_cols=80  Identities=19%  Similarity=0.286  Sum_probs=47.5

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcchhhh--ccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhC
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNNDEVK--RNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYIT  286 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~--~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~  286 (533)
                      -++|.++|++|.|||+|.+.+++...++  ..|....-+-++..    .++..-.    .+.  ..-+..+.+.+.+.+.
T Consensus       177 NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEinsh----sLFSKWF----sES--gKlV~kmF~kI~ELv~  246 (423)
T KOG0744|consen  177 NRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEINSH----SLFSKWF----SES--GKLVAKMFQKIQELVE  246 (423)
T ss_pred             eeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEEehh----HHHHHHH----hhh--hhHHHHHHHHHHHHHh
Confidence            4789999999999999999998864443  34444444433322    2222222    111  1224455666667776


Q ss_pred             Cce--EEEEEeCCC
Q 045152          287 RKK--FFLVLDDVW  298 (533)
Q Consensus       287 ~kr--~LlVLDdv~  298 (533)
                      ++.  +++.+|.|.
T Consensus       247 d~~~lVfvLIDEVE  260 (423)
T KOG0744|consen  247 DRGNLVFVLIDEVE  260 (423)
T ss_pred             CCCcEEEEEeHHHH
Confidence            654  455688883

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=96.43  E-value=0.012  Score=53.40  Aligned_cols=119  Identities=18%  Similarity=0.117  Sum_probs=59.9

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCC--C-------------CCCCc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGV--S-------------ASGLS  272 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~--~-------------~~~~~  272 (533)
                      ...+++|+|+.|.|||||++.+..-.   ......+++.-.   +.......+-+.++.  +             .....
T Consensus        27 ~Ge~~~i~G~nGsGKStLl~~l~G~~---~~~~G~i~~~g~---~~~~~~~~~~~~i~~~~q~~~~~~~tv~~~i~~~LS  100 (178)
T cd03247          27 QGEKIALLGRSGSGKSTLLQLLTGDL---KPQQGEITLDGV---PVSDLEKALSSLISVLNQRPYLFDTTLRNNLGRRFS  100 (178)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccC---CCCCCEEEECCE---EHHHHHHHHHhhEEEEccCCeeecccHHHhhcccCC
Confidence            34589999999999999999998631   222333333211   111111111111110  0             00111


Q ss_pred             cHHHHHHHHHHHhCCceEEEEEeCCCCC-CccccchhhhcccCCCCCceEEEEecchHHHh
Q 045152          273 EFESLMKQIQEYITRKKFFLVLDDVWDG-DYKKWNPFFSCLKNGHHESKILITTRDRSVAL  332 (533)
Q Consensus       273 ~~~~l~~~l~~~l~~kr~LlVLDdv~~~-~~~~~~~l~~~l~~~~~gs~IiiTtR~~~v~~  332 (533)
                      ..+...-.+...+-.++-+++||+.... +....+.+...+.....+..||++|.+.....
T Consensus       101 ~G~~qrv~laral~~~p~~lllDEP~~~LD~~~~~~l~~~l~~~~~~~tii~~sh~~~~~~  161 (178)
T cd03247         101 GGERQRLALARILLQDAPIVLLDEPTVGLDPITERQLLSLIFEVLKDKTLIWITHHLTGIE  161 (178)
T ss_pred             HHHHHHHHHHHHHhcCCCEEEEECCcccCCHHHHHHHHHHHHHHcCCCEEEEEecCHHHHH
Confidence            1122233344555667788999998542 22222333333332223667888888876654

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.

>KOG1259 consensus Nischarin, modulator of integrin alpha5 subunit action [Signal transduction mechanisms; Cytoskeleton]

Probab=96.43  E-value=0.00044  Score=65.47  Aligned_cols=42  Identities=21%  Similarity=0.324  Sum_probs=35.5

Q ss_pred             cCCCCCCCcceEEeccCCCCCCCC--cCCCCCCCcceeeccCCch
Q 045152          465 EDHIFLPRLSSLRIEYCPKLKLLP--DSLLQITTLKELGMEGSPL  507 (533)
Q Consensus       465 ~~~~~l~~L~~L~l~~C~~l~~lP--~~~~~l~~L~~L~~~~c~~  507 (533)
                      ..+++|-+|.+|++++ .++..+-  .+|++|++|++|.+.++|.
T Consensus       368 SGL~KLYSLvnLDl~~-N~Ie~ldeV~~IG~LPCLE~l~L~~NPl  411 (490)
T KOG1259|consen  368 SGLRKLYSLVNLDLSS-NQIEELDEVNHIGNLPCLETLRLTGNPL  411 (490)
T ss_pred             hhhHhhhhheeccccc-cchhhHHHhcccccccHHHHHhhcCCCc
Confidence            3678889999999988 7887776  4899999999999999984

>TIGR02012 tigrfam_recA protein RecA

Probab=96.42  E-value=0.014  Score=57.65  Aligned_cols=85  Identities=20%  Similarity=0.220  Sum_probs=54.8

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCC-----CCCccHHHHHHHH
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSA-----SGLSEFESLMKQI  281 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~-----~~~~~~~~l~~~l  281 (533)
                      +.-+++-|.|++|+||||||.++...  ....-..++||...+.++..     .+++++...     ......++....+
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            56789999999999999999877653  23334567899877666553     344444321     1122345555555


Q ss_pred             HHHhC-CceEEEEEeCCC
Q 045152          282 QEYIT-RKKFFLVLDDVW  298 (533)
Q Consensus       282 ~~~l~-~kr~LlVLDdv~  298 (533)
                      ...++ +..-++|+|.+-
T Consensus       126 ~~li~~~~~~lIVIDSv~  143 (321)
T TIGR02012       126 ETLVRSGAVDIIVVDSVA  143 (321)
T ss_pred             HHHhhccCCcEEEEcchh
Confidence            55553 456789999983

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.

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.37  E-value=0.014  Score=60.83  Aligned_cols=97  Identities=16%  Similarity=0.208  Sum_probs=61.8

Q ss_pred             ceeechhhHHHHHHHHhCCCcc------CCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHH
Q 045152          183 EVCGRVEEKNELLSKLLCESSE------QQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRV  256 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~------~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l  256 (533)
                      ++=|.+....++.+++..-...      +-..++-|.++|++|.|||.||+.+.+...+       -|+.++.+      
T Consensus       191 diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~v-------Pf~~isAp------  257 (802)
T KOG0733|consen  191 DIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGV-------PFLSISAP------  257 (802)
T ss_pred             hccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCC-------ceEeecch------
Confidence            4668888888887776432210      1235678899999999999999999985322       23444432      


Q ss_pred             HHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCC
Q 045152          257 AKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWD  299 (533)
Q Consensus       257 ~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~  299 (533)
                        +|+..+.++     +.+.+.+.+.+.-..-++++++|+++.
T Consensus       258 --eivSGvSGE-----SEkkiRelF~~A~~~aPcivFiDeIDA  293 (802)
T KOG0733|consen  258 --EIVSGVSGE-----SEKKIRELFDQAKSNAPCIVFIDEIDA  293 (802)
T ss_pred             --hhhcccCcc-----cHHHHHHHHHHHhccCCeEEEeecccc
Confidence              233333222     233444445555566899999999965

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=96.36  E-value=0.02  Score=57.18  Aligned_cols=59  Identities=24%  Similarity=0.265  Sum_probs=42.3

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhh----ccCCceEEEEeCCchhHHHHHHHHHHHhCC
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVK----RNFEKVIWVCVSDTFEEIRVAKAIIEGLGV  266 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~----~~F~~~~wv~vs~~~~~~~l~~~il~~l~~  266 (533)
                      ...+++-|+|.+|+|||+|+..++-.....    ..-..++||+....|+..++.+ +++.++.
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            456788899999999999997775322221    1124789999999888887655 5555554

>KOG0618 consensus Serine/threonine phosphatase 2C containing leucine-rich repeats, similar to SCN circadian oscillatory protein (SCOP) [Signal transduction mechanisms]

Probab=96.36  E-value=0.00087  Score=72.60  Aligned_cols=78  Identities=18%  Similarity=0.282  Sum_probs=64.1

Q ss_pred             cceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcceeec
Q 045152          423 LSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKELGM  502 (533)
Q Consensus       423 L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~L~~  502 (533)
                      |+.|+++. ......|-.+..+.+|+.|+++ |..+.+.|  .+++.+.+|++|+|.+ ..+..+|.++..+++|+.|++
T Consensus        47 L~~l~lsn-n~~~~fp~~it~l~~L~~ln~s-~n~i~~vp--~s~~~~~~l~~lnL~~-n~l~~lP~~~~~lknl~~Ldl  121 (1081)
T KOG0618|consen   47 LKSLDLSN-NQISSFPIQITLLSHLRQLNLS-RNYIRSVP--SSCSNMRNLQYLNLKN-NRLQSLPASISELKNLQYLDL  121 (1081)
T ss_pred             eEEeeccc-cccccCCchhhhHHHHhhcccc-hhhHhhCc--hhhhhhhcchhheecc-chhhcCchhHHhhhccccccc
Confidence            77777776 4556667778888888899888 67788888  6888899999998854 899999999999999999998


Q ss_pred             cCC
Q 045152          503 EGS  505 (533)
Q Consensus       503 ~~c  505 (533)
                      +.+
T Consensus       122 S~N  124 (1081)
T KOG0618|consen  122 SFN  124 (1081)
T ss_pred             chh
Confidence            755

>cd01131 PilT Pilus retraction ATPase PilT

Probab=96.36  E-value=0.0052  Score=56.75  Aligned_cols=109  Identities=16%  Similarity=0.175  Sum_probs=58.0

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHH---HHHHHhCCCCCCCccHHHHHHHHHHHhC
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAK---AIIEGLGVSASGLSEFESLMKQIQEYIT  286 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~---~il~~l~~~~~~~~~~~~l~~~l~~~l~  286 (533)
                      ..|.|+|+.|.||||++..+...  +..+....++.- .++..  -...   .+..+-..    ..+.......++..+.
T Consensus         2 GlilI~GptGSGKTTll~~ll~~--~~~~~~~~i~t~-e~~~E--~~~~~~~~~i~q~~v----g~~~~~~~~~i~~aLr   72 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDY--INKNKTHHILTI-EDPIE--FVHESKRSLINQREV----GLDTLSFENALKAALR   72 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH--hhhcCCcEEEEE-cCCcc--ccccCccceeeeccc----CCCccCHHHHHHHHhc
Confidence            47899999999999999887653  322333344432 22211  0000   01111000    0111234456667777


Q ss_pred             CceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecchHHHh
Q 045152          287 RKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRSVAL  332 (533)
Q Consensus       287 ~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~~v~~  332 (533)
                      ..+=.+++|++.+.  +.......   ....|..++.|+...++..
T Consensus        73 ~~pd~ii~gEird~--e~~~~~l~---~a~~G~~v~~t~Ha~~~~~  113 (198)
T cd01131          73 QDPDVILVGEMRDL--ETIRLALT---AAETGHLVMSTLHTNSAAK  113 (198)
T ss_pred             CCcCEEEEcCCCCH--HHHHHHHH---HHHcCCEEEEEecCCcHHH
Confidence            66779999999543  33333222   2234566777777665543

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.

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=96.35  E-value=0.0041  Score=57.28  Aligned_cols=106  Identities=20%  Similarity=0.218  Sum_probs=51.7

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHh----
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYI----  285 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l----  285 (533)
                      +++.|.|++|.||||++..+...  +... ...+.+.....--...+.+.    .+...   ..+..........-    
T Consensus        19 ~~~~l~G~aGtGKT~~l~~~~~~--~~~~-g~~v~~~apT~~Aa~~L~~~----~~~~a---~Ti~~~l~~~~~~~~~~~   88 (196)
T PF13604_consen   19 RVSVLQGPAGTGKTTLLKALAEA--LEAA-GKRVIGLAPTNKAAKELREK----TGIEA---QTIHSFLYRIPNGDDEGR   88 (196)
T ss_dssp             SEEEEEESTTSTHHHHHHHHHHH--HHHT-T--EEEEESSHHHHHHHHHH----HTS-E---EEHHHHTTEECCEECCSS
T ss_pred             eEEEEEECCCCCHHHHHHHHHHH--HHhC-CCeEEEECCcHHHHHHHHHh----hCcch---hhHHHHHhcCCccccccc
Confidence            57888999999999999888763  2222 23444443433333333332    22110   11110000000000    


Q ss_pred             --CCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecc
Q 045152          286 --TRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRD  327 (533)
Q Consensus       286 --~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~  327 (533)
                        ..++-++|+|++.-.+...+..+....+.  .|+++|+.--.
T Consensus        89 ~~~~~~~vliVDEasmv~~~~~~~ll~~~~~--~~~klilvGD~  130 (196)
T PF13604_consen   89 PELPKKDVLIVDEASMVDSRQLARLLRLAKK--SGAKLILVGDP  130 (196)
T ss_dssp             CC-TSTSEEEESSGGG-BHHHHHHHHHHS-T---T-EEEEEE-T
T ss_pred             ccCCcccEEEEecccccCHHHHHHHHHHHHh--cCCEEEEECCc
Confidence              12345999999976655556666555544  46788776543

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=96.35  E-value=0.0083  Score=59.99  Aligned_cols=46  Identities=17%  Similarity=0.164  Sum_probs=37.4

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..++|+...+.++.+.+....    .....|.|+|..|+||+++|+.++.
T Consensus         6 ~~liG~S~~~~~~~~~i~~~a----~~~~pVlI~GE~GtGK~~lA~~iH~   51 (326)
T PRK11608          6 DNLLGEANSFLEVLEQVSRLA----PLDKPVLIIGERGTGKELIASRLHY   51 (326)
T ss_pred             CccEECCHHHHHHHHHHHHHh----CCCCCEEEECCCCCcHHHHHHHHHH
Confidence            358999999988888875543    2345788999999999999999985

>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]

Probab=96.34  E-value=0.02  Score=54.22  Aligned_cols=126  Identities=19%  Similarity=0.153  Sum_probs=71.3

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCC-----chhHHHHHHHHHHHhCCCC------CCC-ccHH
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD-----TFEEIRVAKAIIEGLGVSA------SGL-SEFE  275 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~-----~~~~~~l~~~il~~l~~~~------~~~-~~~~  275 (533)
                      +..+++|||..|.|||||++.+..   ....-...+++.-.+     .....+-..++++.++...      +.. ...+
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            456899999999999999999985   333333444443211     2223345566677766432      111 2222


Q ss_pred             HHHHHHHHHhCCceEEEEEeCCCCCCc-cccchhhhccc--CCCCCceEEEEecchHHHhhhCC
Q 045152          276 SLMKQIQEYITRKKFFLVLDDVWDGDY-KKWNPFFSCLK--NGHHESKILITTRDRSVALQLGS  336 (533)
Q Consensus       276 ~l~~~l~~~l~~kr~LlVLDdv~~~~~-~~~~~l~~~l~--~~~~gs~IiiTtR~~~v~~~~~~  336 (533)
                      ...-.+...+.-++-++|.|+.-..-. ..-.++...+.  ....|-..+..|-+-.+...+..
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            233345566778889999998733211 11122222222  12335667778888777766543

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=96.32  E-value=0.026  Score=56.01  Aligned_cols=59  Identities=22%  Similarity=0.232  Sum_probs=40.0

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhc----cCCceEEEEeCCchhHHHHHHHHHHHhCC
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKR----NFEKVIWVCVSDTFEEIRVAKAIIEGLGV  266 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~----~F~~~~wv~vs~~~~~~~l~~~il~~l~~  266 (533)
                      ....++.|.|.+|+|||||+..++.......    .-..++|++....++..++ .++.+.++.
T Consensus        94 ~~g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~f~~~Rl-~~ia~~~~~  156 (316)
T TIGR02239        94 ETGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPERL-LAIAERYGL  156 (316)
T ss_pred             CCCeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCCCCHHHH-HHHHHHcCC
Confidence            4578999999999999999988764222211    1135799998887777663 334555443

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).

>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=96.31  E-value=0.016  Score=52.19  Aligned_cols=115  Identities=17%  Similarity=0.252  Sum_probs=60.8

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcch-hh--hc---cCC--ceEEEEeCCchhHHHHHHHHHHHhCCCCC----C---Cc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNND-EV--KR---NFE--KVIWVCVSDTFEEIRVAKAIIEGLGVSAS----G---LS  272 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~-~~--~~---~F~--~~~wv~vs~~~~~~~l~~~il~~l~~~~~----~---~~  272 (533)
                      ...+++|+|+.|+|||||.+.+..+. .+  ..   .|.  ...|+  .+        .+.++.++....    .   ..
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            44689999999999999999885321 11  11   111  12232  21        345566654321    1   11


Q ss_pred             cHHHHHHHHHHHhCCc--eEEEEEeCCCCC-CccccchhhhcccCC-CCCceEEEEecchHHHh
Q 045152          273 EFESLMKQIQEYITRK--KFFLVLDDVWDG-DYKKWNPFFSCLKNG-HHESKILITTRDRSVAL  332 (533)
Q Consensus       273 ~~~~l~~~l~~~l~~k--r~LlVLDdv~~~-~~~~~~~l~~~l~~~-~~gs~IiiTtR~~~v~~  332 (533)
                      .-....-.+...+-.+  +-++++|+.-.. +......+...+... ..|..||++|.+.....
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            1222233344444455  678888987432 222233344433321 24667888888876653

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.

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=96.31  E-value=0.012  Score=65.14  Aligned_cols=134  Identities=17%  Similarity=0.214  Sum_probs=72.2

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAII  261 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il  261 (533)
                      ..++|+...+..+.+.+....    .....|.|+|..|+|||++|+.+++... + .-...+.+++..-. ...+-..+.
T Consensus       376 ~~liG~S~~~~~~~~~~~~~a----~~~~pVLI~GE~GTGK~~lA~~ih~~s~-r-~~~~~v~i~c~~~~-~~~~~~~lf  448 (686)
T PRK15429        376 GEIIGRSEAMYSVLKQVEMVA----QSDSTVLILGETGTGKELIARAIHNLSG-R-NNRRMVKMNCAAMP-AGLLESDLF  448 (686)
T ss_pred             cceeecCHHHHHHHHHHHHHh----CCCCCEEEECCCCcCHHHHHHHHHHhcC-C-CCCCeEEEecccCC-hhHhhhhhc
Confidence            368999998888877765332    2345789999999999999999987421 1 11233444444321 111111121


Q ss_pred             HHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCC-----------CCCceEEEEecc
Q 045152          262 EGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNG-----------HHESKILITTRD  327 (533)
Q Consensus       262 ~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~-----------~~gs~IiiTtR~  327 (533)
                      ....+......  ......+.   ....-.|+||||..........+...+..+           ..+.|||.||..
T Consensus       449 g~~~~~~~g~~--~~~~g~le---~a~~GtL~Ldei~~L~~~~Q~~L~~~l~~~~~~~~g~~~~~~~~~RiI~~t~~  520 (686)
T PRK15429        449 GHERGAFTGAS--AQRIGRFE---LADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKIIQTDVRLIAATNR  520 (686)
T ss_pred             Ccccccccccc--cchhhHHH---hcCCCeEEEechhhCCHHHHHHHHHHHHhCCEEeCCCCCcccceEEEEEeCCC
Confidence            11111000000  00111121   122346899999776555555566555432           134588888764

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

Probab=96.30  E-value=0.021  Score=52.51  Aligned_cols=81  Identities=20%  Similarity=0.287  Sum_probs=44.2

Q ss_pred             EEEEEcCCCChHHHHHHHHhcchhhhccCC---ceEEEEeCCchhHHHHHHHHHHH---hCCCCCCCccHHHHHHHHHHH
Q 045152          211 VISLVGLGGIGKTTLAQLAYNNDEVKRNFE---KVIWVCVSDTFEEIRVAKAIIEG---LGVSASGLSEFESLMKQIQEY  284 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~---~~~wv~vs~~~~~~~l~~~il~~---l~~~~~~~~~~~~l~~~l~~~  284 (533)
                      ||+|.|++|+||||+|+.+..... +....   ....++....+........--..   .....+...+.+.+...+...
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~L~-~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~p~a~d~~~l~~~l~~L   79 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQILN-KRGIPAMEMDIILSLDDFYDDYHLRDRKGRGENRYNFDHPDAFDFDLLKEDLKAL   79 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHT-TCTTTCCCSEEEEEGGGGBHHHHHHHHHHHCTTTSSTTSGGGBSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhC-ccCcCccceeEEEeecccccccchhhHhhccccccCCCCccccCHHHHHHHHHHH
Confidence            699999999999999999986311 12222   23444433333222222221111   111223345677777778777


Q ss_pred             hCCceEEE
Q 045152          285 ITRKKFFL  292 (533)
Q Consensus       285 l~~kr~Ll  292 (533)
                      ..++..-+
T Consensus        80 ~~g~~i~~   87 (194)
T PF00485_consen   80 KNGGSIEI   87 (194)
T ss_dssp             HTTSCEEE
T ss_pred             hCCCcccc
Confidence            66666444

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 ....

>PRK09354 recA recombinase A; Provisional

Probab=96.27  E-value=0.02  Score=57.00  Aligned_cols=85  Identities=19%  Similarity=0.220  Sum_probs=56.0

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCC-----CCCccHHHHHHHH
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSA-----SGLSEFESLMKQI  281 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~-----~~~~~~~~l~~~l  281 (533)
                      +.-+++-|+|++|+||||||.++...  ....-..++||.....++..     .++.++...     ......++....+
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            56789999999999999999877653  33345678899887777653     344444321     1122345555555


Q ss_pred             HHHhC-CceEEEEEeCCC
Q 045152          282 QEYIT-RKKFFLVLDDVW  298 (533)
Q Consensus       282 ~~~l~-~kr~LlVLDdv~  298 (533)
                      ...++ +..-++|+|-|-
T Consensus       131 ~~li~s~~~~lIVIDSva  148 (349)
T PRK09354        131 DTLVRSGAVDLIVVDSVA  148 (349)
T ss_pred             HHHhhcCCCCEEEEeChh
Confidence            55554 356689999983

>PHA02244 ATPase-like protein

Probab=96.25  E-value=0.015  Score=57.93  Aligned_cols=22  Identities=27%  Similarity=0.323  Sum_probs=19.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhcc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .|.|+|++|+|||+||+.+...
T Consensus       121 PVLL~GppGtGKTtLA~aLA~~  142 (383)
T PHA02244        121 PVFLKGGAGSGKNHIAEQIAEA  142 (383)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4788999999999999999863

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=96.25  E-value=0.046  Score=50.91  Aligned_cols=62  Identities=15%  Similarity=0.117  Sum_probs=38.1

Q ss_pred             HHHHHHHHHHHhCCceEEEEEeCCCC-CCccccchhhhcccC--CCCCceEEEEecchHHHhhhC
Q 045152          274 FESLMKQIQEYITRKKFFLVLDDVWD-GDYKKWNPFFSCLKN--GHHESKILITTRDRSVALQLG  335 (533)
Q Consensus       274 ~~~l~~~l~~~l~~kr~LlVLDdv~~-~~~~~~~~l~~~l~~--~~~gs~IiiTtR~~~v~~~~~  335 (533)
                      -++..-.+.+.+-..+-+|+.|+--. -+...-+.+...+..  ...|..||+.|.++.++..+.
T Consensus       146 GqqQRVAIARAL~~~P~iilADEPTgnLD~~t~~~V~~ll~~~~~~~g~tii~VTHd~~lA~~~d  210 (226)
T COG1136         146 GQQQRVAIARALINNPKIILADEPTGNLDSKTAKEVLELLRELNKERGKTIIMVTHDPELAKYAD  210 (226)
T ss_pred             HHHHHHHHHHHHhcCCCeEEeeCccccCChHHHHHHHHHHHHHHHhcCCEEEEEcCCHHHHHhCC
Confidence            34445556677778888889997521 111222334444432  234778999999999998543

>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=96.22  E-value=0.03  Score=48.73  Aligned_cols=106  Identities=22%  Similarity=0.220  Sum_probs=56.5

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCC
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITR  287 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~  287 (533)
                      ...+++|+|..|.|||||++.+....   ......+|+.-..             .+.--. +....+...-.+...+..
T Consensus        25 ~Ge~~~i~G~nGsGKStLl~~l~G~~---~~~~G~i~~~~~~-------------~i~~~~-~lS~G~~~rv~laral~~   87 (144)
T cd03221          25 PGDRIGLVGRNGAGKSTLLKLIAGEL---EPDEGIVTWGSTV-------------KIGYFE-QLSGGEKMRLALAKLLLE   87 (144)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcCCC---CCCceEEEECCeE-------------EEEEEc-cCCHHHHHHHHHHHHHhc
Confidence            34689999999999999999998632   2233444432100             000000 011112222334445556


Q ss_pred             ceEEEEEeCCCCC-CccccchhhhcccCCCCCceEEEEecchHHHh
Q 045152          288 KKFFLVLDDVWDG-DYKKWNPFFSCLKNGHHESKILITTRDRSVAL  332 (533)
Q Consensus       288 kr~LlVLDdv~~~-~~~~~~~l~~~l~~~~~gs~IiiTtR~~~v~~  332 (533)
                      ++-++++|+.-.. +......+...+...  +..||++|.+.....
T Consensus        88 ~p~illlDEP~~~LD~~~~~~l~~~l~~~--~~til~~th~~~~~~  131 (144)
T cd03221          88 NPNLLLLDEPTNHLDLESIEALEEALKEY--PGTVILVSHDRYFLD  131 (144)
T ss_pred             CCCEEEEeCCccCCCHHHHHHHHHHHHHc--CCEEEEEECCHHHHH
Confidence            6678899987432 222333444444332  245888887765544

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.

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.22  E-value=0.025  Score=59.17  Aligned_cols=90  Identities=20%  Similarity=0.175  Sum_probs=46.2

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCC-chhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhC
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD-TFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYIT  286 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~  286 (533)
                      ...+|+|+|++|+||||++..+......+.....+..++... .....+.+....+.++.......+...+...+.. +.
T Consensus       349 ~G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLIdtDtyRigA~EQLk~ya~iLgv~v~~a~d~~~L~~aL~~-l~  427 (559)
T PRK12727        349 RGGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGREQLHSYGRQLGIAVHEADSAESLLDLLER-LR  427 (559)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEecccccccHHHHHHHhhcccCceeEecCcHHHHHHHHHH-hc
Confidence            457999999999999999988765311111123445554322 1112222333333333322222233344444433 33


Q ss_pred             CceEEEEEeCCCC
Q 045152          287 RKKFFLVLDDVWD  299 (533)
Q Consensus       287 ~kr~LlVLDdv~~  299 (533)
                       ..=+|++|..-.
T Consensus       428 -~~DLVLIDTaG~  439 (559)
T PRK12727        428 -DYKLVLIDTAGM  439 (559)
T ss_pred             -cCCEEEecCCCc
Confidence             345788888743

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=96.21  E-value=0.025  Score=49.81  Aligned_cols=116  Identities=16%  Similarity=0.175  Sum_probs=60.4

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCC---chhHHHHHHHHHHHh-----CCC----CCCC-cc---
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD---TFEEIRVAKAIIEGL-----GVS----ASGL-SE---  273 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~---~~~~~~l~~~il~~l-----~~~----~~~~-~~---  273 (533)
                      ..|-|++..|.||||+|....-. .....+ .+.++.+-.   ......+++.+ ..+     +..    ..+. .+   
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-ALGHGY-RVGVVQFLKGGWKYGELKALERL-PNIEIHRMGRGFFWTTENDEEDIAA   79 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH-HHHCCC-eEEEEEEeCCCCccCHHHHHHhC-CCcEEEECCCCCccCCCChHHHHHH
Confidence            46788888899999999655532 122222 333433222   23333333333 011     000    0000 11   


Q ss_pred             HHHHHHHHHHHhC-CceEEEEEeCCCCC---CccccchhhhcccCCCCCceEEEEecch
Q 045152          274 FESLMKQIQEYIT-RKKFFLVLDDVWDG---DYKKWNPFFSCLKNGHHESKILITTRDR  328 (533)
Q Consensus       274 ~~~l~~~l~~~l~-~kr~LlVLDdv~~~---~~~~~~~l~~~l~~~~~gs~IiiTtR~~  328 (533)
                      ........++.+. ++-=|+|||++-..   ..-..+.+...+.....+.-+|+|.|+.
T Consensus        80 a~~~~~~a~~~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~~  138 (159)
T cd00561          80 AAEGWAFAKEAIASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRNA  138 (159)
T ss_pred             HHHHHHHHHHHHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCCC
Confidence            1122233334443 35569999998432   2233455666666666677899999984

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.

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.19  E-value=0.02  Score=57.79  Aligned_cols=91  Identities=18%  Similarity=0.173  Sum_probs=49.5

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCC-chhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhC
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD-TFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYIT  286 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~  286 (533)
                      ...++.++|+.|+||||++..+......+.....+..++... .....+-++...+.++.+.....+..++...+. .+.
T Consensus       136 ~g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l~~~l~-~l~  214 (374)
T PRK14722        136 RGGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVHAVKDGGDLQLALA-ELR  214 (374)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceEecCCcccHHHHHH-Hhc
Confidence            346899999999999999988876321121223455555322 123344455555555544322222222333333 334


Q ss_pred             CceEEEEEeCCCCC
Q 045152          287 RKKFFLVLDDVWDG  300 (533)
Q Consensus       287 ~kr~LlVLDdv~~~  300 (533)
                      ++ -++++|..-..
T Consensus       215 ~~-DlVLIDTaG~~  227 (374)
T PRK14722        215 NK-HMVLIDTIGMS  227 (374)
T ss_pred             CC-CEEEEcCCCCC
Confidence            44 45669988543

>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=96.18  E-value=0.051  Score=55.87  Aligned_cols=51  Identities=31%  Similarity=0.247  Sum_probs=36.8

Q ss_pred             ceeechh---hHHHHHHHHhCCCcc---CCCCeEEEEEEcCCCChHHHHHHHHhcch
Q 045152          183 EVCGRVE---EKNELLSKLLCESSE---QQKGLHVISLVGLGGIGKTTLAQLAYNND  233 (533)
Q Consensus       183 ~~vGR~~---e~~~l~~~L~~~~~~---~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  233 (533)
                      ++-|-++   |+++|+++|.+...-   +..-++-|.++|++|.|||-||++|.-..
T Consensus       305 dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA  361 (752)
T KOG0734|consen  305 DVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEA  361 (752)
T ss_pred             cccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhccc
Confidence            4566654   678888888554311   12346778999999999999999998753

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.18  E-value=0.034  Score=56.55  Aligned_cols=91  Identities=15%  Similarity=0.228  Sum_probs=52.5

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhh--ccCCceEEEEeCCc-hhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHH
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVK--RNFEKVIWVCVSDT-FEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEY  284 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~--~~F~~~~wv~vs~~-~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~  284 (533)
                      ...+|.++|+.|+||||.+..+.......  .+-..+..+++... .....-++...+.++.+-........+...+...
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            45799999999999999998877532221  11224455554431 1223335555555655433333445555544443


Q ss_pred             hCCceEEEEEeCCCCC
Q 045152          285 ITRKKFFLVLDDVWDG  300 (533)
Q Consensus       285 l~~kr~LlVLDdv~~~  300 (533)
                        .+.-++++|.....
T Consensus       253 --~~~DlVLIDTaGr~  266 (388)
T PRK12723        253 --KDFDLVLVDTIGKS  266 (388)
T ss_pred             --CCCCEEEEcCCCCC
Confidence              34568899988554

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

Probab=96.17  E-value=0.023  Score=53.48  Aligned_cols=62  Identities=16%  Similarity=0.177  Sum_probs=39.5

Q ss_pred             CCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEe---------CCchhHHH--HHHHHHHHhCCCCC
Q 045152          206 QKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCV---------SDTFEEIR--VAKAIIEGLGVSAS  269 (533)
Q Consensus       206 ~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v---------s~~~~~~~--l~~~il~~l~~~~~  269 (533)
                      ...+.+|.++||+|.||||..|.++.+.  ...+..-.-|+.         ..+.++.+  -+++.+++.+..+.
T Consensus        16 ~~~p~~ilVvGMAGSGKTTF~QrL~~hl--~~~~~ppYviNLDPAv~~vpy~aniDIRDtVkYkEvMkqY~LGPN   88 (366)
T KOG1532|consen   16 IQRPVIILVVGMAGSGKTTFMQRLNSHL--HAKKTPPYVINLDPAVRNVPYPANIDIRDTVKYKEVMKQYQLGPN   88 (366)
T ss_pred             ccCCcEEEEEecCCCCchhHHHHHHHHH--hhccCCCeEEeCCHHHhcCCCccCCchhhhhhHHHHHHHhCCCCC
Confidence            3567788999999999999999998753  333333333332         22334433  26677887765543

>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]

Probab=96.15  E-value=0.009  Score=58.52  Aligned_cols=136  Identities=24%  Similarity=0.272  Sum_probs=71.5

Q ss_pred             eeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcc-hhhhccCCceEE----EEeCCch-------
Q 045152          184 VCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNN-DEVKRNFEKVIW----VCVSDTF-------  251 (533)
Q Consensus       184 ~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~-~~~~~~F~~~~w----v~vs~~~-------  251 (533)
                      +-+|..+..--++.|+.      +.+..|.+.|.+|.|||-||-+..-. ...+..|..++-    +.+.++.       
T Consensus       226 i~prn~eQ~~ALdlLld------~dI~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~KiiVtRp~vpvG~dIGfLPG~e  299 (436)
T COG1875         226 IRPRNAEQRVALDLLLD------DDIDLVSLGGKAGTGKTLLALAAGLEQVLERKRYRKIIVTRPTVPVGEDIGFLPGTE  299 (436)
T ss_pred             cCcccHHHHHHHHHhcC------CCCCeEEeeccCCccHhHHHHHHHHHHHHHHhhhceEEEecCCcCcccccCcCCCch
Confidence            34577777777777764      46889999999999999999443211 122333432221    1122211       


Q ss_pred             --hHHHHHHHHHHHhCCCC-CCCccHHHHHHHHH---------HHhCCc---eEEEEEeCCCCCCccccchhhhcccCCC
Q 045152          252 --EEIRVAKAIIEGLGVSA-SGLSEFESLMKQIQ---------EYITRK---KFFLVLDDVWDGDYKKWNPFFSCLKNGH  316 (533)
Q Consensus       252 --~~~~l~~~il~~l~~~~-~~~~~~~~l~~~l~---------~~l~~k---r~LlVLDdv~~~~~~~~~~l~~~l~~~~  316 (533)
                        .+.-..+.|...+..-. .+......+...+.         .+++++   .-++|+|.+.+-..   ..+...+...+
T Consensus       300 EeKm~PWmq~i~DnLE~L~~~~~~~~~~l~~~l~~~~iev~alt~IRGRSl~~~FiIIDEaQNLTp---heikTiltR~G  376 (436)
T COG1875         300 EEKMGPWMQAIFDNLEVLFSPNEPGDRALEEILSRGRIEVEALTYIRGRSLPDSFIIIDEAQNLTP---HELKTILTRAG  376 (436)
T ss_pred             hhhccchHHHHHhHHHHHhcccccchHHHHHHHhccceeeeeeeeecccccccceEEEehhhccCH---HHHHHHHHhcc
Confidence              12223333433332110 01011111111111         223443   45899999965433   33455566778


Q ss_pred             CCceEEEEecch
Q 045152          317 HESKILITTRDR  328 (533)
Q Consensus       317 ~gs~IiiTtR~~  328 (533)
                      .||||+.|--..
T Consensus       377 ~GsKIVl~gd~a  388 (436)
T COG1875         377 EGSKIVLTGDPA  388 (436)
T ss_pred             CCCEEEEcCCHH
Confidence            899999887544

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=96.15  E-value=0.0062  Score=67.33  Aligned_cols=74  Identities=20%  Similarity=0.366  Sum_probs=40.6

Q ss_pred             cccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCccee
Q 045152          421 PCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKEL  500 (533)
Q Consensus       421 p~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~L  500 (533)
                      +.|+.|.++.| .+..+|..+.  .+|+.|+++ |++|..+|  ..+.  ++|++|++++| +|+.+|..+.  ++|+.|
T Consensus       241 ~~L~~L~Ls~N-~L~~LP~~l~--s~L~~L~Ls-~N~L~~LP--~~l~--~sL~~L~Ls~N-~Lt~LP~~lp--~sL~~L  309 (754)
T PRK15370        241 DTIQEMELSIN-RITELPERLP--SALQSLDLF-HNKISCLP--ENLP--EELRYLSVYDN-SIRTLPAHLP--SGITHL  309 (754)
T ss_pred             ccccEEECcCC-ccCcCChhHh--CCCCEEECc-CCccCccc--cccC--CCCcEEECCCC-ccccCcccch--hhHHHH
Confidence            35555655553 3445555443  356666666 34466666  3332  46666666664 5666665443  356666


Q ss_pred             eccCC
Q 045152          501 GMEGS  505 (533)
Q Consensus       501 ~~~~c  505 (533)
                      ++++|
T Consensus       310 ~Ls~N  314 (754)
T PRK15370        310 NVQSN  314 (754)
T ss_pred             HhcCC
Confidence            66655

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=96.13  E-value=0.036  Score=55.45  Aligned_cols=59  Identities=20%  Similarity=0.243  Sum_probs=41.9

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhc----cCCceEEEEeCCchhHHHHHHHHHHHhCC
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKR----NFEKVIWVCVSDTFEEIRVAKAIIEGLGV  266 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~----~F~~~~wv~vs~~~~~~~l~~~il~~l~~  266 (533)
                      ....++-|.|.+|+|||+|+..++-......    .-..++||+....|+..++. +|++.++.
T Consensus       121 ~~g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl~-qia~~~~~  183 (342)
T PLN03186        121 ETGSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRLI-QIAERFGL  183 (342)
T ss_pred             cCceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHHH-HHHHHcCC
Confidence            4577888999999999999977764322111    11368999999988887764 45666554

>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=96.13  E-value=0.037  Score=49.48  Aligned_cols=116  Identities=16%  Similarity=0.046  Sum_probs=59.4

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEE-------EeCCchhH--HHHHHHHHHHhCCCCCCCccHHHHH
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWV-------CVSDTFEE--IRVAKAIIEGLGVSASGLSEFESLM  278 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv-------~vs~~~~~--~~l~~~il~~l~~~~~~~~~~~~l~  278 (533)
                      .-.+++|+|+.|.|||||++.+..-..   .....+++       .+.+....  ..+...+.-.   .......-+...
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l~G~~~---~~~G~i~~~~~~~i~~~~q~~~~~~~tv~~nl~~~---~~~~LS~G~~~r   99 (166)
T cd03223          26 PGDRLLITGPSGTGKSSLFRALAGLWP---WGSGRIGMPEGEDLLFLPQRPYLPLGTLREQLIYP---WDDVLSGGEQQR   99 (166)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCC---CCCceEEECCCceEEEECCCCccccccHHHHhhcc---CCCCCCHHHHHH
Confidence            345899999999999999999986421   11222211       12222211  1222222110   112222223333


Q ss_pred             HHHHHHhCCceEEEEEeCCCCC-CccccchhhhcccCCCCCceEEEEecchHHH
Q 045152          279 KQIQEYITRKKFFLVLDDVWDG-DYKKWNPFFSCLKNGHHESKILITTRDRSVA  331 (533)
Q Consensus       279 ~~l~~~l~~kr~LlVLDdv~~~-~~~~~~~l~~~l~~~~~gs~IiiTtR~~~v~  331 (533)
                      -.+...+-.++-++++|+--.. +......+...+...  +..||++|.+....
T Consensus       100 v~laral~~~p~~lllDEPt~~LD~~~~~~l~~~l~~~--~~tiiivsh~~~~~  151 (166)
T cd03223         100 LAFARLLLHKPKFVFLDEATSALDEESEDRLYQLLKEL--GITVISVGHRPSLW  151 (166)
T ss_pred             HHHHHHHHcCCCEEEEECCccccCHHHHHHHHHHHHHh--CCEEEEEeCChhHH
Confidence            3445555567778899987432 222233343434332  35688888876654

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

>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=96.12  E-value=0.025  Score=51.06  Aligned_cols=104  Identities=19%  Similarity=0.106  Sum_probs=55.8

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEE------eCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHH
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVC------VSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQI  281 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~------vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l  281 (533)
                      .-.+++|+|+.|.|||||.+.+..-   .......+++.      +.+...                  ...-+...-.+
T Consensus        24 ~Ge~~~l~G~nGsGKSTLl~~l~Gl---~~p~~G~i~~~g~~i~~~~q~~~------------------LSgGq~qrv~l   82 (177)
T cd03222          24 EGEVIGIVGPNGTGKTTAVKILAGQ---LIPNGDNDEWDGITPVYKPQYID------------------LSGGELQRVAI   82 (177)
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcC---CCCCCcEEEECCEEEEEEcccCC------------------CCHHHHHHHHH
Confidence            3458999999999999999998753   12223333322      111110                  11122233344


Q ss_pred             HHHhCCceEEEEEeCCCCC-CccccchhhhcccCC-CC-CceEEEEecchHHHh
Q 045152          282 QEYITRKKFFLVLDDVWDG-DYKKWNPFFSCLKNG-HH-ESKILITTRDRSVAL  332 (533)
Q Consensus       282 ~~~l~~kr~LlVLDdv~~~-~~~~~~~l~~~l~~~-~~-gs~IiiTtR~~~v~~  332 (533)
                      ...+..++-++++|+.-.. +......+...+... .. +..||++|.+.....
T Consensus        83 aral~~~p~lllLDEPts~LD~~~~~~l~~~l~~~~~~~~~tiiivsH~~~~~~  136 (177)
T cd03222          83 AAALLRNATFYLFDEPSAYLDIEQRLNAARAIRRLSEEGKKTALVVEHDLAVLD  136 (177)
T ss_pred             HHHHhcCCCEEEEECCcccCCHHHHHHHHHHHHHHHHcCCCEEEEEECCHHHHH
Confidence            4555567778999987432 212222233333221 12 255777887765544

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.

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.12  E-value=0.054  Score=57.63  Aligned_cols=133  Identities=19%  Similarity=0.098  Sum_probs=71.2

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCc--hhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHh
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT--FEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYI  285 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~--~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l  285 (533)
                      ...-|.|.|+.|+|||+||+.+++... +.+.-.+.+++++.-  -..+.+++.+                 ...+.+.+
T Consensus       430 ~~~~Ill~G~~GsGKT~L~kal~~~~~-k~~~~hv~~v~Cs~l~~~~~e~iQk~l-----------------~~vfse~~  491 (952)
T KOG0735|consen  430 RHGNILLNGPKGSGKTNLVKALFDYYS-KDLIAHVEIVSCSTLDGSSLEKIQKFL-----------------NNVFSEAL  491 (952)
T ss_pred             ccccEEEeCCCCCCHhHHHHHHHHHhc-cccceEEEEEechhccchhHHHHHHHH-----------------HHHHHHHH
Confidence            345788999999999999999997533 444444555554432  1122222222                 22233445


Q ss_pred             CCceEEEEEeCCCC------CCccccchh----hhccc-----CCCCCce--EEEEecchHHHh-hh----CCCCeeeCC
Q 045152          286 TRKKFFLVLDDVWD------GDYKKWNPF----FSCLK-----NGHHESK--ILITTRDRSVAL-QL----GSIDIIPVK  343 (533)
Q Consensus       286 ~~kr~LlVLDdv~~------~~~~~~~~l----~~~l~-----~~~~gs~--IiiTtR~~~v~~-~~----~~~~~~~l~  343 (533)
                      ...+-+|||||++-      .+..+|...    ..++.     ....+.+  +|.|.....-.. .+    -......++
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            56788999999943      111233321    11111     1233444  344444322111 11    113467888


Q ss_pred             CCChHhhHHHHHHhh
Q 045152          344 ELAEEECWSLLERLA  358 (533)
Q Consensus       344 ~L~~~~~~~Lf~~~a  358 (533)
                      .+...+--++++...
T Consensus       572 ap~~~~R~~IL~~~~  586 (952)
T KOG0735|consen  572 APAVTRRKEILTTIF  586 (952)
T ss_pred             CcchhHHHHHHHHHH
Confidence            888887777766543

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=96.12  E-value=0.026  Score=53.56  Aligned_cols=87  Identities=21%  Similarity=0.231  Sum_probs=54.0

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCC------------------
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSA------------------  268 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~------------------  268 (533)
                      +..+++.|+|.+|+|||+|+.++... ..+ +=..++|++..+..  .++.+++ ++++...                  
T Consensus        23 ~~g~~~~i~G~~GsGKt~l~~~~~~~-~~~-~g~~~~y~~~e~~~--~~~~~~~-~~~g~~~~~~~~~g~l~i~~~~~~~   97 (234)
T PRK06067         23 PFPSLILIEGDHGTGKSVLSQQFVYG-ALK-QGKKVYVITTENTS--KSYLKQM-ESVKIDISDFFLWGYLRIFPLNTEG   97 (234)
T ss_pred             cCCcEEEEECCCCCChHHHHHHHHHH-HHh-CCCEEEEEEcCCCH--HHHHHHH-HHCCCChhHHHhCCCceEEeccccc
Confidence            56789999999999999999887542 122 34578888876543  3444443 2232110                  


Q ss_pred             --CCCccHHHHHHHHHHHhCC-ceEEEEEeCCC
Q 045152          269 --SGLSEFESLMKQIQEYITR-KKFFLVLDDVW  298 (533)
Q Consensus       269 --~~~~~~~~l~~~l~~~l~~-kr~LlVLDdv~  298 (533)
                        ......+.+...+.+.+.. +.-++|+|.+-
T Consensus        98 ~~~~~~~~~~ll~~l~~~i~~~~~~~iviDs~t  130 (234)
T PRK06067         98 FEWNSTLANKLLELIIEFIKSKREDVIIIDSLT  130 (234)
T ss_pred             cccCcchHHHHHHHHHHHHHhcCCCEEEEecHH
Confidence              0112235566666666653 55689999984

>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=96.11  E-value=0.022  Score=53.40  Aligned_cols=73  Identities=15%  Similarity=0.134  Sum_probs=38.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcchhhhc-cC-CceEEEEeCCchhHHHHHHHHHHHhC-CCCCCCccHHHHHHHHHHHhC
Q 045152          211 VISLVGLGGIGKTTLAQLAYNNDEVKR-NF-EKVIWVCVSDTFEEIRVAKAIIEGLG-VSASGLSEFESLMKQIQEYIT  286 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~~~~~~-~F-~~~~wv~vs~~~~~~~l~~~il~~l~-~~~~~~~~~~~l~~~l~~~l~  286 (533)
                      +|+|.|..|+||||||+.+...  ... .. ..+..++...-+.......... .+. ...+...+.+.+...+.....
T Consensus         1 IigI~G~sGSGKTTla~~L~~~--l~~~~~~~~v~vi~~D~f~~~~~~~~~~~-~~~~~g~p~~~d~~~l~~~L~~l~~   76 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQAL--LSRWPDHPNVELITTDGFLYPNKELIERG-LMDRKGFPESYDMEALLKFLKDIKS   76 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHH--HhhcCCCCcEEEEecCcccCcHHHHHHhh-hhhcCCCcccCCHHHHHHHHHHHHC
Confidence            5899999999999999988863  221 01 2344555444332222222211 111 111234455666666655554

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

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.09  E-value=0.034  Score=57.56  Aligned_cols=89  Identities=18%  Similarity=0.198  Sum_probs=47.5

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCch-hHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCC
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTF-EEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITR  287 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~-~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~  287 (533)
                      ..++.++|++|+||||++..+.........-..+..|+....- ...+-+....+.++.+.....+..++...+.. +. 
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~~r~~a~eqL~~~a~~~~vp~~~~~~~~~l~~~l~~-~~-  298 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDTYRIGAVEQLKTYAKIMGIPVEVVYDPKELAKALEQ-LR-  298 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCccHHHHHHHHHHHHHHhCCceEccCCHHhHHHHHHH-hC-
Confidence            4699999999999999997775422111223356666654321 12222333334344332222333444444543 22 


Q ss_pred             ceEEEEEeCCCC
Q 045152          288 KKFFLVLDDVWD  299 (533)
Q Consensus       288 kr~LlVLDdv~~  299 (533)
                      ..=++++|..-.
T Consensus       299 ~~DlVlIDt~G~  310 (424)
T PRK05703        299 DCDVILIDTAGR  310 (424)
T ss_pred             CCCEEEEeCCCC
Confidence            346788997744

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=96.08  E-value=0.044  Score=54.45  Aligned_cols=58  Identities=21%  Similarity=0.282  Sum_probs=40.4

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhc----cCCceEEEEeCCchhHHHHHHHHHHHhC
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKR----NFEKVIWVCVSDTFEEIRVAKAIIEGLG  265 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~----~F~~~~wv~vs~~~~~~~l~~~il~~l~  265 (533)
                      ....++-|+|++|+|||+++.+++.......    .-..++||+....|+..++.+ +++.++
T Consensus        93 ~~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~~-~~~~~g  154 (310)
T TIGR02236        93 ETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIMQ-MAEARG  154 (310)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHHH-HHHHcC
Confidence            4578999999999999999977764322210    113789999988888776543 444444

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.

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=96.07  E-value=0.052  Score=54.14  Aligned_cols=58  Identities=22%  Similarity=0.337  Sum_probs=40.4

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhcc----CCceEEEEeCCchhHHHHHHHHHHHhC
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRN----FEKVIWVCVSDTFEEIRVAKAIIEGLG  265 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~----F~~~~wv~vs~~~~~~~l~~~il~~l~  265 (533)
                      +...++-|+|++|+|||+++.++.-.......    =..++||+....++...+.+ +++.++
T Consensus       100 ~~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~-~~~~~g  161 (317)
T PRK04301        100 ETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQ-MAEALG  161 (317)
T ss_pred             cCCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHH-HHHHcC
Confidence            45788999999999999999777643211111    14789999988888776654 344443

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=96.06  E-value=0.015  Score=51.89  Aligned_cols=118  Identities=18%  Similarity=0.171  Sum_probs=61.4

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCC--chhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHh
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD--TFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYI  285 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~--~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l  285 (533)
                      ...+++|+|+.|.|||||.+.+...   .......+++.-..  ..+..+..   .+.++.- .+....+...-.+...+
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~i~G~---~~~~~G~v~~~g~~~~~~~~~~~~---~~~i~~~-~qLS~G~~qrl~laral   97 (163)
T cd03216          25 RGEVHALLGENGAGKSTLMKILSGL---YKPDSGEILVDGKEVSFASPRDAR---RAGIAMV-YQLSVGERQMVEIARAL   97 (163)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC---CCCCCeEEEECCEECCcCCHHHHH---hcCeEEE-EecCHHHHHHHHHHHHH
Confidence            3458999999999999999999863   23344555543111  01111111   1111110 01122223333444555


Q ss_pred             CCceEEEEEeCCCCC-CccccchhhhcccCC-CCCceEEEEecchHHHh
Q 045152          286 TRKKFFLVLDDVWDG-DYKKWNPFFSCLKNG-HHESKILITTRDRSVAL  332 (533)
Q Consensus       286 ~~kr~LlVLDdv~~~-~~~~~~~l~~~l~~~-~~gs~IiiTtR~~~v~~  332 (533)
                      -.++-++++|+.-.. +......+...+... ..|..||++|.+.....
T Consensus        98 ~~~p~illlDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~~~~  146 (163)
T cd03216          98 ARNARLLILDEPTAALTPAEVERLFKVIRRLRAQGVAVIFISHRLDEVF  146 (163)
T ss_pred             hcCCCEEEEECCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHHH
Confidence            667788899987432 222333344444321 23667888888865443

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.

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.05  E-value=0.021  Score=58.05  Aligned_cols=24  Identities=33%  Similarity=0.285  Sum_probs=21.1

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...++.++|++|+||||++..+..
T Consensus       222 ~~~vi~lvGptGvGKTTtaaKLA~  245 (432)
T PRK12724        222 QRKVVFFVGPTGSGKTTSIAKLAA  245 (432)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            357899999999999999988875

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.03  E-value=0.058  Score=56.97  Aligned_cols=157  Identities=17%  Similarity=0.087  Sum_probs=80.1

Q ss_pred             ceeechhhHHHHHHHHhCCCcc-------CCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHH
Q 045152          183 EVCGRVEEKNELLSKLLCESSE-------QQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIR  255 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~-------~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~  255 (533)
                      ++=|-++-+.+|.+...-.-..       +-..++-|..+|++|.|||++|+.+.+.  ....|     +.++.+-    
T Consensus       435 dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne--~~~nF-----lsvkgpE----  503 (693)
T KOG0730|consen  435 DIGGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANE--AGMNF-----LSVKGPE----  503 (693)
T ss_pred             hccCHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhh--hcCCe-----eeccCHH----
Confidence            3445666666666544322110       1246778999999999999999999983  33344     3333221    


Q ss_pred             HHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCc-------c----ccchhhhcccCCCC--CceEE
Q 045152          256 VAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDY-------K----KWNPFFSCLKNGHH--ESKIL  322 (533)
Q Consensus       256 l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~-------~----~~~~l~~~l~~~~~--gs~Ii  322 (533)
                          ++....+     .+...+...+.+.-.-.+.++.||.++....       .    ....|+.-+.....  +--||
T Consensus       504 ----L~sk~vG-----eSEr~ir~iF~kAR~~aP~IiFfDEiDsi~~~R~g~~~~v~~RVlsqLLtEmDG~e~~k~V~Vi  574 (693)
T KOG0730|consen  504 ----LFSKYVG-----ESERAIREVFRKARQVAPCIIFFDEIDALAGSRGGSSSGVTDRVLSQLLTEMDGLEALKNVLVI  574 (693)
T ss_pred             ----HHHHhcC-----chHHHHHHHHHHHhhcCCeEEehhhHHhHhhccCCCccchHHHHHHHHHHHcccccccCcEEEE
Confidence                1111111     1112222222222233558888888853210       0    01112222221122  22233


Q ss_pred             EEecchHHHh--hhC---CCCeeeCCCCChHhhHHHHHHhhc
Q 045152          323 ITTRDRSVAL--QLG---SIDIIPVKELAEEECWSLLERLAF  359 (533)
Q Consensus       323 iTtR~~~v~~--~~~---~~~~~~l~~L~~~~~~~Lf~~~a~  359 (533)
                      -.|..++...  .+.   .+..+.++.-+.+.-.++|+.++-
T Consensus       575 AATNRpd~ID~ALlRPGRlD~iiyVplPD~~aR~~Ilk~~~k  616 (693)
T KOG0730|consen  575 AATNRPDMIDPALLRPGRLDRIIYVPLPDLEARLEILKQCAK  616 (693)
T ss_pred             eccCChhhcCHHHcCCcccceeEeecCccHHHHHHHHHHHHh
Confidence            3344333322  122   267788888888888999998874

>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]

Probab=96.03  E-value=0.034  Score=53.69  Aligned_cols=89  Identities=19%  Similarity=0.176  Sum_probs=58.2

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhC---C-CCCCCccHHHHHHHHH
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLG---V-SASGLSEFESLMKQIQ  282 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~---~-~~~~~~~~~~l~~~l~  282 (533)
                      +.-+++=|+|+.|.||||+|.+++-.  .+..-..++||+.-..+++..+.+-....+.   . .+.....-..+...+.
T Consensus        58 ~~g~ItEiyG~~gsGKT~lal~~~~~--aq~~g~~a~fIDtE~~l~p~r~~~l~~~~~d~l~v~~~~~~e~q~~i~~~~~  135 (279)
T COG0468          58 PRGRITEIYGPESSGKTTLALQLVAN--AQKPGGKAAFIDTEHALDPERAKQLGVDLLDNLLVSQPDTGEQQLEIAEKLA  135 (279)
T ss_pred             ccceEEEEecCCCcchhhHHHHHHHH--hhcCCCeEEEEeCCCCCCHHHHHHHHHhhhcceeEecCCCHHHHHHHHHHHH
Confidence            56788889999999999999777653  4444558999999998888765543333121   1 1122222334444444


Q ss_pred             HHhCCceEEEEEeCC
Q 045152          283 EYITRKKFFLVLDDV  297 (533)
Q Consensus       283 ~~l~~kr~LlVLDdv  297 (533)
                      .....+--|+|+|.+
T Consensus       136 ~~~~~~i~LvVVDSv  150 (279)
T COG0468         136 RSGAEKIDLLVVDSV  150 (279)
T ss_pred             HhccCCCCEEEEecC
Confidence            444445679999998

>PTZ00035 Rad51 protein; Provisional

Probab=96.01  E-value=0.051  Score=54.44  Aligned_cols=59  Identities=24%  Similarity=0.281  Sum_probs=39.6

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhh----ccCCceEEEEeCCchhHHHHHHHHHHHhCC
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVK----RNFEKVIWVCVSDTFEEIRVAKAIIEGLGV  266 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~----~~F~~~~wv~vs~~~~~~~l~~~il~~l~~  266 (533)
                      ....++.|+|.+|+|||||+..+.-.....    ..-..++||+....++..++ .++.+.++.
T Consensus       116 ~~G~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~~f~~eri-~~ia~~~g~  178 (337)
T PTZ00035        116 ETGSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPERI-VQIAERFGL  178 (337)
T ss_pred             CCCeEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEccCCCCHHHH-HHHHHHhCC
Confidence            467899999999999999998776432211    11235679988777776664 334555443

>PRK14974 cell division protein FtsY; Provisional

Probab=96.01  E-value=0.055  Score=53.98  Aligned_cols=91  Identities=25%  Similarity=0.215  Sum_probs=48.1

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCch--hHHHHHHHHHHHhCCCCC---CCccHHH-HHHH
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTF--EEIRVAKAIIEGLGVSAS---GLSEFES-LMKQ  280 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~--~~~~l~~~il~~l~~~~~---~~~~~~~-l~~~  280 (533)
                      .++.+|.++|++|+||||++..+.... ....+ .++.++ .+.+  ...+-++...+.++.+..   ...+... ....
T Consensus       138 ~~~~vi~~~G~~GvGKTTtiakLA~~l-~~~g~-~V~li~-~Dt~R~~a~eqL~~~a~~lgv~v~~~~~g~dp~~v~~~a  214 (336)
T PRK14974        138 GKPVVIVFVGVNGTGKTTTIAKLAYYL-KKNGF-SVVIAA-GDTFRAGAIEQLEEHAERLGVKVIKHKYGADPAAVAYDA  214 (336)
T ss_pred             CCCeEEEEEcCCCCCHHHHHHHHHHHH-HHcCC-eEEEec-CCcCcHHHHHHHHHHHHHcCCceecccCCCCHHHHHHHH
Confidence            347899999999999999887777532 12223 233443 2222  233445556666654321   1122222 2233


Q ss_pred             HHHHhCCceEEEEEeCCCCC
Q 045152          281 IQEYITRKKFFLVLDDVWDG  300 (533)
Q Consensus       281 l~~~l~~kr~LlVLDdv~~~  300 (533)
                      +........=++++|-....
T Consensus       215 i~~~~~~~~DvVLIDTaGr~  234 (336)
T PRK14974        215 IEHAKARGIDVVLIDTAGRM  234 (336)
T ss_pred             HHHHHhCCCCEEEEECCCcc
Confidence            33222222338999988543

>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A

Probab=96.00  E-value=0.0099  Score=57.65  Aligned_cols=95  Identities=27%  Similarity=0.277  Sum_probs=49.5

Q ss_pred             HHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHH-hCCCCCC
Q 045152          192 NELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEG-LGVSASG  270 (533)
Q Consensus       192 ~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~-l~~~~~~  270 (533)
                      ..+++.+...       -+-+.++|+.|+|||++++....... ...| ...-++.+...+...++ .+++. +......
T Consensus        23 ~~ll~~l~~~-------~~pvLl~G~~GtGKT~li~~~l~~l~-~~~~-~~~~~~~s~~Tts~~~q-~~ie~~l~k~~~~   92 (272)
T PF12775_consen   23 SYLLDLLLSN-------GRPVLLVGPSGTGKTSLIQNFLSSLD-SDKY-LVITINFSAQTTSNQLQ-KIIESKLEKRRGR   92 (272)
T ss_dssp             HHHHHHHHHC-------TEEEEEESSTTSSHHHHHHHHHHCST-TCCE-EEEEEES-TTHHHHHHH-HCCCTTECECTTE
T ss_pred             HHHHHHHHHc-------CCcEEEECCCCCchhHHHHhhhccCC-cccc-ceeEeeccCCCCHHHHH-HHHhhcEEcCCCC
Confidence            4556666533       35679999999999999988875311 1111 13345556554444433 33322 1111000


Q ss_pred             CccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccc
Q 045152          271 LSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWN  306 (533)
Q Consensus       271 ~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~  306 (533)
                      .          ..--.+|+.++.+||+.-+..+.|.
T Consensus        93 ~----------~gP~~~k~lv~fiDDlN~p~~d~yg  118 (272)
T PF12775_consen   93 V----------YGPPGGKKLVLFIDDLNMPQPDKYG  118 (272)
T ss_dssp             E----------EEEESSSEEEEEEETTT-S---TTS
T ss_pred             C----------CCCCCCcEEEEEecccCCCCCCCCC
Confidence            0          0001468899999999655444444

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=95.98  E-value=0.0067  Score=54.36  Aligned_cols=80  Identities=15%  Similarity=0.175  Sum_probs=42.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCC---ccHHHHHHHHHHHhCC
Q 045152          211 VISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGL---SEFESLMKQIQEYITR  287 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~---~~~~~l~~~l~~~l~~  287 (533)
                      ++.|.|.+|.||||+|..+....  .   ...+++.....++ .+..+.|..........-   .....+...+.....+
T Consensus         3 ~ili~G~~~sGKS~~a~~l~~~~--~---~~~~~iat~~~~~-~e~~~ri~~h~~~R~~~w~t~E~~~~l~~~i~~~~~~   76 (170)
T PRK05800          3 LILVTGGARSGKSRFAERLAAQS--G---LQVLYIATAQPFD-DEMAARIAHHRQRRPAHWQTVEEPLDLAELLRADAAP   76 (170)
T ss_pred             EEEEECCCCccHHHHHHHHHHHc--C---CCcEeCcCCCCCh-HHHHHHHHHHHhcCCCCCeEecccccHHHHHHhhcCC
Confidence            68999999999999998887531  1   1234554444433 345555544332221111   1112234444443332


Q ss_pred             ceEEEEEeCC
Q 045152          288 KKFFLVLDDV  297 (533)
Q Consensus       288 kr~LlVLDdv  297 (533)
                       .-++++|.+
T Consensus        77 -~~~VlID~L   85 (170)
T PRK05800         77 -GRCVLVDCL   85 (170)
T ss_pred             -CCEEEehhH
Confidence             236888887

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=95.96  E-value=0.0074  Score=52.24  Aligned_cols=24  Identities=33%  Similarity=0.365  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .--|.|.||+|+||||+++.+.+.
T Consensus         5 ~mki~ITG~PGvGKtTl~~ki~e~   28 (179)
T COG1618           5 AMKIFITGRPGVGKTTLVLKIAEK   28 (179)
T ss_pred             ceEEEEeCCCCccHHHHHHHHHHH
Confidence            456899999999999999999863

>PRK07667 uridine kinase; Provisional

Probab=95.95  E-value=0.0099  Score=54.62  Aligned_cols=38  Identities=26%  Similarity=0.355  Sum_probs=29.1

Q ss_pred             HHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          191 KNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       191 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .+.|.+.+....    +...+|+|-|.+|.||||+|+.+...
T Consensus         3 ~~~~~~~~~~~~----~~~~iIgI~G~~gsGKStla~~L~~~   40 (193)
T PRK07667          3 TNELINIMKKHK----ENRFILGIDGLSRSGKTTFVANLKEN   40 (193)
T ss_pred             HHHHHHHHHhcC----CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            456666664433    44589999999999999999999863

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=95.95  E-value=0.041  Score=53.64  Aligned_cols=79  Identities=20%  Similarity=0.154  Sum_probs=43.0

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccC--CceEEEEeCCchhHHHHHHHHHHHh-CCCCCCCccHHHHHHHHHH
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNF--EKVIWVCVSDTFEEIRVAKAIIEGL-GVSASGLSEFESLMKQIQE  283 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F--~~~~wv~vs~~~~~~~l~~~il~~l-~~~~~~~~~~~~l~~~l~~  283 (533)
                      ..+.+|+|.|..|+||||+|+.+..-  .....  ..+..++...-+.........- .+ ....+...+...+...+..
T Consensus        60 ~~p~IIGIaG~~GSGKSTlar~L~~l--l~~~~~~g~V~vi~~D~f~~~~~~l~~~g-~~~~~g~P~s~D~~~l~~~L~~  136 (290)
T TIGR00554        60 KIPYIISIAGSVAVGKSTTARILQAL--LSRWPEHRKVELITTDGFLHPNQVLKERN-LMKKKGFPESYDMHRLVKFLSD  136 (290)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH--HhhcCCCCceEEEecccccccHHHHHHcC-CccccCCChhccHHHHHHHHHH
Confidence            46789999999999999999877541  22111  1344555444332222222110 00 0112334566667777766


Q ss_pred             HhCCc
Q 045152          284 YITRK  288 (533)
Q Consensus       284 ~l~~k  288 (533)
                      ...++
T Consensus       137 Lk~g~  141 (290)
T TIGR00554       137 LKSGK  141 (290)
T ss_pred             HHCCC
Confidence            66554

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.

>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=95.94  E-value=0.0049  Score=52.22  Aligned_cols=21  Identities=38%  Similarity=0.561  Sum_probs=19.1

Q ss_pred             EEEEcCCCChHHHHHHHHhcc
Q 045152          212 ISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~  232 (533)
                      |.|.|.+|+||||+|+.+.+.
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            689999999999999999864

...

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=95.93  E-value=0.056  Score=56.51  Aligned_cols=157  Identities=18%  Similarity=0.202  Sum_probs=89.3

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCC
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITR  287 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~  287 (533)
                      .+.-|.++|++|.|||-||++|.|.  ...+|     ++|-.+    +    ++...-++     +.......+++.-..
T Consensus       544 ~PsGvLL~GPPGCGKTLlAKAVANE--ag~NF-----isVKGP----E----LlNkYVGE-----SErAVR~vFqRAR~s  603 (802)
T KOG0733|consen  544 APSGVLLCGPPGCGKTLLAKAVANE--AGANF-----ISVKGP----E----LLNKYVGE-----SERAVRQVFQRARAS  603 (802)
T ss_pred             CCCceEEeCCCCccHHHHHHHHhhh--ccCce-----EeecCH----H----HHHHHhhh-----HHHHHHHHHHHhhcC
Confidence            4567899999999999999999994  34444     444433    1    22221111     112233333333456


Q ss_pred             ceEEEEEeCCCCC-----Cccccc------hhhhccc--CCCCCceEEEEecchHHHhh--hCC---CCeeeCCCCChHh
Q 045152          288 KKFFLVLDDVWDG-----DYKKWN------PFFSCLK--NGHHESKILITTRDRSVALQ--LGS---IDIIPVKELAEEE  349 (533)
Q Consensus       288 kr~LlVLDdv~~~-----~~~~~~------~l~~~l~--~~~~gs~IiiTtR~~~v~~~--~~~---~~~~~l~~L~~~~  349 (533)
                      .+++|.||.++.-     +...|.      +|+.-+.  ....|.-||-.|..+++...  +.+   .....+..-+.+|
T Consensus       604 aPCVIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPDiIDpAiLRPGRlDk~LyV~lPn~~e  683 (802)
T KOG0733|consen  604 APCVIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGLEERRGVYVIAATNRPDIIDPAILRPGRLDKLLYVGLPNAEE  683 (802)
T ss_pred             CCeEEEecchhhcCcccCCCCchhHHHHHHHHHHHhcccccccceEEEeecCCCcccchhhcCCCccCceeeecCCCHHH
Confidence            7999999999541     111221      2222222  12456667777776655432  122   5677788888889


Q ss_pred             hHHHHHHhhccCCCc--cccccchHHHHHHHhHhCCCcch
Q 045152          350 CWSLLERLAFFRRSV--DDHEKLEPIGRKIAHKCKGLPLA  387 (533)
Q Consensus       350 ~~~Lf~~~a~~~~~~--~~~~~l~~~~~~I~~~c~GlPLa  387 (533)
                      -.++++...-. ...  ...-++.++++  ..+|.|.-=|
T Consensus       684 R~~ILK~~tkn-~k~pl~~dVdl~eia~--~~~c~gftGA  720 (802)
T KOG0733|consen  684 RVAILKTITKN-TKPPLSSDVDLDEIAR--NTKCEGFTGA  720 (802)
T ss_pred             HHHHHHHHhcc-CCCCCCcccCHHHHhh--cccccCCchh
Confidence            88998877631 122  22345555555  3567776543

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=95.93  E-value=0.054  Score=51.29  Aligned_cols=122  Identities=19%  Similarity=0.269  Sum_probs=66.6

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcchh-----hh------ccC---CceEEEEe----CCc--hhH---------------
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNNDE-----VK------RNF---EKVIWVCV----SDT--FEE---------------  253 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~~~-----~~------~~F---~~~~wv~v----s~~--~~~---------------  253 (533)
                      ...++|+|+.|.|||||.+.+..-..     +.      ..+   ..+.||.-    ...  .++               
T Consensus        30 G~~~~iiGPNGaGKSTLlK~iLGll~p~~G~i~~~g~~~~~~~~~~~IgYVPQ~~~~d~~fP~tV~d~V~~g~~~~~g~~  109 (254)
T COG1121          30 GEITALIGPNGAGKSTLLKAILGLLKPSSGEIKIFGKPVRKRRKRLRIGYVPQKSSVDRSFPITVKDVVLLGRYGKKGWF  109 (254)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCcCCcceEEEccccccccccCCeEEEcCcccccCCCCCcCHHHHHHccCccccccc
Confidence            46899999999999999999975210     10      001   13444421    000  011               


Q ss_pred             -------HHHHHHHHHHhCCCC-----CCCccHHH-HHHHHHHHhCCceEEEEEeCCCCC-C---ccccchhhhcccCCC
Q 045152          254 -------IRVAKAIIEGLGVSA-----SGLSEFES-LMKQIQEYITRKKFFLVLDDVWDG-D---YKKWNPFFSCLKNGH  316 (533)
Q Consensus       254 -------~~l~~~il~~l~~~~-----~~~~~~~~-l~~~l~~~l~~kr~LlVLDdv~~~-~---~~~~~~l~~~l~~~~  316 (533)
                             .+...+.++.++...     -...+-.+ ..-.+.+.|..++=|++||.--.. +   ....-.+...+... 
T Consensus       110 ~~~~~~d~~~v~~aL~~Vgm~~~~~r~i~~LSGGQ~QRV~lARAL~~~p~lllLDEP~~gvD~~~~~~i~~lL~~l~~e-  188 (254)
T COG1121         110 RRLNKKDKEKVDEALERVGMEDLRDRQIGELSGGQKQRVLLARALAQNPDLLLLDEPFTGVDVAGQKEIYDLLKELRQE-  188 (254)
T ss_pred             ccccHHHHHHHHHHHHHcCchhhhCCcccccCcHHHHHHHHHHHhccCCCEEEecCCcccCCHHHHHHHHHHHHHHHHC-
Confidence                   234444555555431     11222233 344566778889999999976332 1   12222333333333 


Q ss_pred             CCceEEEEecchHHHh
Q 045152          317 HESKILITTRDRSVAL  332 (533)
Q Consensus       317 ~gs~IiiTtR~~~v~~  332 (533)
                       |..|+++|-+-....
T Consensus       189 -g~tIl~vtHDL~~v~  203 (254)
T COG1121         189 -GKTVLMVTHDLGLVM  203 (254)
T ss_pred             -CCEEEEEeCCcHHhH
Confidence             888999998855443

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=95.93  E-value=0.034  Score=52.57  Aligned_cols=25  Identities=28%  Similarity=0.477  Sum_probs=23.0

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +...+++|.|+.|.|||||++.+..
T Consensus        31 ~~~~iigi~G~~GsGKTTl~~~L~~   55 (229)
T PRK09270         31 QRRTIVGIAGPPGAGKSTLAEFLEA   55 (229)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            5688999999999999999998886

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=95.91  E-value=0.021  Score=60.91  Aligned_cols=135  Identities=15%  Similarity=0.193  Sum_probs=74.0

Q ss_pred             CCceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHH
Q 045152          181 EGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAI  260 (533)
Q Consensus       181 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i  260 (533)
                      ...++|....+.++.+.+....    .....|.|+|..|+|||++|+.+++..  ...-...+.|++..-.+ ..+...+
T Consensus       186 ~~~iig~s~~~~~~~~~i~~~a----~~~~pVlI~Ge~GtGK~~~A~~ih~~s--~r~~~p~v~v~c~~~~~-~~~e~~l  258 (509)
T PRK05022        186 EGEMIGQSPAMQQLKKEIEVVA----ASDLNVLILGETGVGKELVARAIHAAS--PRADKPLVYLNCAALPE-SLAESEL  258 (509)
T ss_pred             CCceeecCHHHHHHHHHHHHHh----CCCCcEEEECCCCccHHHHHHHHHHhC--CcCCCCeEEEEcccCCh-HHHHHHh
Confidence            4568999999999888886543    345678999999999999999998732  11222345555544321 1111122


Q ss_pred             HHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCCC-----------CCceEEEEecc
Q 045152          261 IEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGH-----------HESKILITTRD  327 (533)
Q Consensus       261 l~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~-----------~gs~IiiTtR~  327 (533)
                      +-...+.......  .....+ +. .+ .-.|+||++..-.......+...+..+.           ...|||.||..
T Consensus       259 fG~~~g~~~ga~~--~~~g~~-~~-a~-gGtL~ldeI~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~~t~~  331 (509)
T PRK05022        259 FGHVKGAFTGAIS--NRSGKF-EL-AD-GGTLFLDEIGELPLALQAKLLRVLQYGEIQRVGSDRSLRVDVRVIAATNR  331 (509)
T ss_pred             cCccccccCCCcc--cCCcch-hh-cC-CCEEEecChhhCCHHHHHHHHHHHhcCCEeeCCCCcceecceEEEEecCC
Confidence            1111110000000  000011 11 12 2246899997766555556666554321           24588888764

>PRK05439 pantothenate kinase; Provisional

Probab=95.91  E-value=0.046  Score=53.77  Aligned_cols=80  Identities=21%  Similarity=0.240  Sum_probs=45.3

Q ss_pred             CCCeEEEEEEcCCCChHHHHHHHHhcchhhhcc--CCceEEEEeCCchhHHHHHHH--HHHHhCCCCCCCccHHHHHHHH
Q 045152          206 QKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRN--FEKVIWVCVSDTFEEIRVAKA--IIEGLGVSASGLSEFESLMKQI  281 (533)
Q Consensus       206 ~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~--F~~~~wv~vs~~~~~~~l~~~--il~~l~~~~~~~~~~~~l~~~l  281 (533)
                      .+..-+|+|.|.+|+||||+|+.+..  .....  ...+.-++..+-+.....+..  ++..-+  .+..-+.+.+...+
T Consensus        83 ~~~~~iIgIaG~~gsGKSTla~~L~~--~l~~~~~~~~v~vi~~DdFy~~~~~l~~~~l~~~kg--~Pes~D~~~l~~~L  158 (311)
T PRK05439         83 QKVPFIIGIAGSVAVGKSTTARLLQA--LLSRWPEHPKVELVTTDGFLYPNAVLEERGLMKRKG--FPESYDMRALLRFL  158 (311)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHH--HHHhhCCCCceEEEeccccccCHHHHhhhhccccCC--CcccccHHHHHHHH
Confidence            35678999999999999999988875  22221  123444554443332222221  111111  12334566677777


Q ss_pred             HHHhCCce
Q 045152          282 QEYITRKK  289 (533)
Q Consensus       282 ~~~l~~kr  289 (533)
                      .....++.
T Consensus       159 ~~Lk~G~~  166 (311)
T PRK05439        159 SDVKSGKP  166 (311)
T ss_pred             HHHHcCCC
Confidence            76666654

>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=95.89  E-value=0.069  Score=58.01  Aligned_cols=181  Identities=18%  Similarity=0.107  Sum_probs=100.2

Q ss_pred             ceeechhh---HHHHHHHHhCCCcc---CCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHH
Q 045152          183 EVCGRVEE---KNELLSKLLCESSE---QQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRV  256 (533)
Q Consensus       183 ~~vGR~~e---~~~l~~~L~~~~~~---~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l  256 (533)
                      ++.|-++-   +++++++|.....-   +..-++-+.++|++|.|||-||+++.-...       +-|++++..-     
T Consensus       312 DVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEAg-------VPF~svSGSE-----  379 (774)
T KOG0731|consen  312 DVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEAG-------VPFFSVSGSE-----  379 (774)
T ss_pred             cccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhcccC-------CceeeechHH-----
Confidence            56777654   55556666433210   123567889999999999999999997433       3345555431     


Q ss_pred             HHHHHHHhCCCCCCCccHHHHHHHHHHHh-CCceEEEEEeCCCCCCcc---------------ccchhhhcccCCC--CC
Q 045152          257 AKAIIEGLGVSASGLSEFESLMKQIQEYI-TRKKFFLVLDDVWDGDYK---------------KWNPFFSCLKNGH--HE  318 (533)
Q Consensus       257 ~~~il~~l~~~~~~~~~~~~l~~~l~~~l-~~kr~LlVLDdv~~~~~~---------------~~~~l~~~l~~~~--~g  318 (533)
                         .++-+.+.  +    ...+..+.... ...+.++.+|+++.....               .+.++..-+....  .+
T Consensus       380 ---FvE~~~g~--~----asrvr~lf~~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~~~~  450 (774)
T KOG0731|consen  380 ---FVEMFVGV--G----ASRVRDLFPLARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFETSKG  450 (774)
T ss_pred             ---HHHHhccc--c----hHHHHHHHHHhhccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCcCCCc
Confidence               11111110  0    11222233332 346788888988542111               1222222222222  22


Q ss_pred             ceEEEEecchHHHhh--hC---CCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchh
Q 045152          319 SKILITTRDRSVALQ--LG---SIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAA  388 (533)
Q Consensus       319 s~IiiTtR~~~v~~~--~~---~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai  388 (533)
                      --++-+|+..++...  +.   .+..+.+..-+.....++|.-++-.   .....+..++++ |+...-|++=|.
T Consensus       451 vi~~a~tnr~d~ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~---~~~~~e~~dl~~-~a~~t~gf~gad  521 (774)
T KOG0731|consen  451 VIVLAATNRPDILDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRK---KKLDDEDVDLSK-LASLTPGFSGAD  521 (774)
T ss_pred             EEEEeccCCccccCHHhcCCCccccceeccCCchhhhHHHHHHHhhc---cCCCcchhhHHH-HHhcCCCCcHHH
Confidence            333445665555432  11   2677888888888889999988742   222244556666 888888888664

>TIGR00235 udk uridine kinase

Probab=95.89  E-value=0.0075  Score=56.11  Aligned_cols=25  Identities=36%  Similarity=0.433  Sum_probs=22.6

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +...+|+|+|++|+|||||++.+..
T Consensus         4 ~~g~vi~I~G~sGsGKSTl~~~l~~   28 (207)
T TIGR00235         4 PKGIIIGIGGGSGSGKTTVARKIYE   28 (207)
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHHH
Confidence            4568999999999999999999986

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

>TIGR00959 ffh signal recognition particle protein

Probab=95.89  E-value=0.074  Score=54.88  Aligned_cols=25  Identities=44%  Similarity=0.414  Sum_probs=21.2

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..+.++.++|.+|+||||+|..+..
T Consensus        97 ~~p~vi~~vG~~GsGKTTtaakLA~  121 (428)
T TIGR00959        97 KPPTVILMVGLQGSGKTTTCGKLAY  121 (428)
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHHH
Confidence            3468999999999999999877664

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.

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=95.87  E-value=0.018  Score=53.03  Aligned_cols=78  Identities=18%  Similarity=0.285  Sum_probs=43.4

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHh--CCCCCCCccHHHHHHHHHHH
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGL--GVSASGLSEFESLMKQIQEY  284 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l--~~~~~~~~~~~~l~~~l~~~  284 (533)
                      ..+.+|+|.|.+|.||||+|+.+++.  ...+  ...-++...-+...+ ........  .-..+...+.+-+...|...
T Consensus         6 ~~~iiIgIaG~SgSGKTTva~~l~~~--~~~~--~~~~I~~D~YYk~~~-~~~~~~~~~~n~d~p~A~D~dLl~~~L~~L   80 (218)
T COG0572           6 EKVIIIGIAGGSGSGKTTVAKELSEQ--LGVE--KVVVISLDDYYKDQS-HLPFEERNKINYDHPEAFDLDLLIEHLKDL   80 (218)
T ss_pred             CceEEEEEeCCCCCCHHHHHHHHHHH--hCcC--cceEeeccccccchh-hcCHhhcCCcCccChhhhcHHHHHHHHHHH
Confidence            45789999999999999999999873  3322  122222211111000 00011111  11223345667777788888


Q ss_pred             hCCce
Q 045152          285 ITRKK  289 (533)
Q Consensus       285 l~~kr  289 (533)
                      +.+++
T Consensus        81 ~~g~~   85 (218)
T COG0572          81 KQGKP   85 (218)
T ss_pred             HcCCc
Confidence            88877

>PF00560 LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Leucine-rich repeats (LRR) consist of 2-45 motifs of 20-30 amino acids in length that generally folds into an arc or horseshoe shape []

Probab=95.87  E-value=0.0033  Score=35.25  Aligned_cols=21  Identities=24%  Similarity=0.319  Sum_probs=14.8

Q ss_pred             CcceEEeccCCCCCCCCcCCCC
Q 045152          472 RLSSLRIEYCPKLKLLPDSLLQ  493 (533)
Q Consensus       472 ~L~~L~l~~C~~l~~lP~~~~~  493 (533)
                      +|++|+|++| +++.+|+++.+
T Consensus         1 ~L~~Ldls~n-~l~~ip~~~~~   21 (22)
T PF00560_consen    1 NLEYLDLSGN-NLTSIPSSFSN   21 (22)
T ss_dssp             TESEEEETSS-EESEEGTTTTT
T ss_pred             CccEEECCCC-cCEeCChhhcC
Confidence            5777777777 77777776554

LRRs occur in proteins ranging from viruses to eukaryotes, and appear to provide a structural framework for the formation of protein-protein interactions [, ].Proteins containing LRRs include tyrosine kinase receptors, cell-adhesion molecules, virulence factors, and extracellular matrix-binding glycoproteins, and are involved in a variety of biological processes, including signal transduction, cell adhesion, DNA repair, recombination, transcription, RNA processing, disease resistance, apoptosis, and the immune response []. Sequence analyses of LRR proteins suggested the existence of several different subfamilies of LRRs. The significance of this classification is that repeats from different subfamilies never occur simultaneously and have most probably evolved independently. It is, however, now clear that all major classes of LRR have curved horseshoe structures with a parallel beta sheet on the concave side and mostly helical elements on the convex side. At least six families of LRR proteins, characterised by different lengths and consensus sequences of the repeats, have been identified. Eleven-residue segments of the LRRs (LxxLxLxxN/CxL), corresponding to the beta-strand and adjacent loop regions, are conserved in LRR proteins, whereas the remaining parts of the repeats (herein termed variable) may be very different. Despite the differences, each of the variable parts contains two half-turns at both ends and a "linear" segment (as the chain follows a linear path overall), usually formed by a helix, in the middle. The concave face and the adjacent loops are the most common protein interaction surfaces on LRR proteins. 3D structure of some LRR proteins-ligand complexes show that the concave surface of LRR domain is ideal for interaction with alpha-helix, thus supporting earlier conclusions that the elongated and curved LRR structure provides an outstanding framework for achieving diverse protein-protein interactions []. Molecular modeling suggests that the conserved pattern LxxLxL, which is shorter than the previously proposed LxxLxLxxN/CxL is sufficient to impart the characteristic horseshoe curvature to proteins with 20- to 30-residue repeats []. ; GO: 0005515 protein binding; PDB: 4ECO_B 2A0Z_A 3ULU_A 1ZIW_A 3ULV_A 1DCE_C 1LTX_A 3J0A_B 3A79_B 4FCG_A ....

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=95.84  E-value=0.016  Score=54.13  Aligned_cols=121  Identities=12%  Similarity=0.137  Sum_probs=58.2

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCC---CCccHHHHHHHHHHH-
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSAS---GLSEFESLMKQIQEY-  284 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~---~~~~~~~l~~~l~~~-  284 (533)
                      .+++.|+|+.|.|||||.+.+...... .+-...+|..  . .. ...+.++...+.....   .......-...+... 
T Consensus        29 ~~~~~itGpNg~GKStlLk~i~~~~~l-a~~G~~v~a~--~-~~-~~~~d~i~~~l~~~~si~~~~S~f~~el~~l~~~l  103 (213)
T cd03281          29 PSIMVITGPNSSGKSVYLKQVALIVFL-AHIGSFVPAD--S-AT-IGLVDKIFTRMSSRESVSSGQSAFMIDLYQVSKAL  103 (213)
T ss_pred             ceEEEEECCCCCChHHHHHHHHHHHHH-HhCCCeeEcC--C-cE-EeeeeeeeeeeCCccChhhccchHHHHHHHHHHHH
Confidence            478999999999999999888642111 1111112211  0 00 0111122222222111   111111112222222 


Q ss_pred             -hCCceEEEEEeCCCCCCc-cccc----hhhhcccCC-CCCceEEEEecchHHHhhh
Q 045152          285 -ITRKKFFLVLDDVWDGDY-KKWN----PFFSCLKNG-HHESKILITTRDRSVALQL  334 (533)
Q Consensus       285 -l~~kr~LlVLDdv~~~~~-~~~~----~l~~~l~~~-~~gs~IiiTtR~~~v~~~~  334 (533)
                       +..++.|++||+.-.... .+..    .+...+... ..+..+|+||.+.......
T Consensus       104 ~~~~~~slvllDE~~~gtd~~~~~~~~~ail~~l~~~~~~~~~vli~TH~~~l~~~~  160 (213)
T cd03281         104 RLATRRSLVLIDEFGKGTDTEDGAGLLIATIEHLLKRGPECPRVIVSTHFHELFNRS  160 (213)
T ss_pred             HhCCCCcEEEeccccCCCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEcChHHHHHhh
Confidence             246788999999865321 1111    122223222 2345799999988777654

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

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.83  E-value=0.0011  Score=59.55  Aligned_cols=67  Identities=21%  Similarity=0.406  Sum_probs=51.5

Q ss_pred             cccccCccceeecccCCCCCCCCCccCCC-CCCCcceEEeccCCCCCCCC-cCCCCCCCcceeeccCCch
Q 045152          440 YLLQTTTLQKLRILQCPSMEELPILEDHI-FLPRLSSLRIEYCPKLKLLP-DSLLQITTLKELGMEGSPL  507 (533)
Q Consensus       440 ~l~~l~~L~~L~l~~~~~l~~lp~~~~~~-~l~~L~~L~l~~C~~l~~lP-~~~~~l~~L~~L~~~~c~~  507 (533)
                      ++..++.++.|.+.+|.++...-. +.++ -.+||+.|+|++|+++++-- ..+.++++|+.|++.+-|.
T Consensus       120 ~L~~l~~i~~l~l~~ck~~dD~~L-~~l~~~~~~L~~L~lsgC~rIT~~GL~~L~~lknLr~L~l~~l~~  188 (221)
T KOG3864|consen  120 HLRDLRSIKSLSLANCKYFDDWCL-ERLGGLAPSLQDLDLSGCPRITDGGLACLLKLKNLRRLHLYDLPY  188 (221)
T ss_pred             HHhccchhhhheeccccchhhHHH-HHhcccccchheeeccCCCeechhHHHHHHHhhhhHHHHhcCchh
Confidence            456678888999999998775332 1222 48999999999999997743 3677899999999988773

>PRK08233 hypothetical protein; Provisional

Probab=95.83  E-value=0.0073  Score=54.76  Aligned_cols=24  Identities=29%  Similarity=0.465  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ..+|+|.|.+|+||||||+.+...
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~   26 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHK   26 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhh
Confidence            478999999999999999999863

>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=95.82  E-value=0.05  Score=48.91  Aligned_cols=21  Identities=57%  Similarity=0.623  Sum_probs=19.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045152          211 VISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ++.++|++|+||||++..+..
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~   22 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLAL   22 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            678999999999999988876

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.

>PRK05480 uridine/cytidine kinase; Provisional

Probab=95.82  E-value=0.0076  Score=56.16  Aligned_cols=26  Identities=38%  Similarity=0.541  Sum_probs=23.0

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .+..+|+|.|.+|+|||||++.+...
T Consensus         4 ~~~~iI~I~G~sGsGKTTl~~~l~~~   29 (209)
T PRK05480          4 KKPIIIGIAGGSGSGKTTVASTIYEE   29 (209)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            35789999999999999999999863

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=95.80  E-value=0.019  Score=57.10  Aligned_cols=26  Identities=23%  Similarity=0.367  Sum_probs=23.9

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ..+..++|+|++|.|||.+|+.+++.
T Consensus       146 k~PlgllL~GPPGcGKTllAraiA~e  171 (413)
T PLN00020        146 KVPLILGIWGGKGQGKSFQCELVFKK  171 (413)
T ss_pred             CCCeEEEeeCCCCCCHHHHHHHHHHH
Confidence            56789999999999999999999984

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

Probab=95.80  E-value=0.021  Score=51.57  Aligned_cols=22  Identities=36%  Similarity=0.468  Sum_probs=19.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhcc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .|.|.|++|+||||+|+.+.+.
T Consensus         2 riiilG~pGaGK~T~A~~La~~   23 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKK   23 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999999874

>PRK00889 adenylylsulfate kinase; Provisional

Probab=95.79  E-value=0.049  Score=49.09  Aligned_cols=25  Identities=32%  Similarity=0.398  Sum_probs=22.1

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ...+|.|+|++|+||||+|+.+...
T Consensus         3 ~g~~i~~~G~~GsGKST~a~~la~~   27 (175)
T PRK00889          3 RGVTVWFTGLSGAGKTTIARALAEK   27 (175)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4569999999999999999999864

>PF08298 AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 This is entry is found at the N terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length

Probab=95.78  E-value=0.011  Score=58.37  Aligned_cols=51  Identities=25%  Similarity=0.335  Sum_probs=43.6

Q ss_pred             CCceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          181 EGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       181 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...|+|.++.++++++.+.......+..-+++.++|+.|.||||||+.+-+
T Consensus        60 ~~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~  110 (358)
T PF08298_consen   60 EDEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKR  110 (358)
T ss_pred             cccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHH
Confidence            357999999999999999766543456789999999999999999998875

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=95.77  E-value=0.068  Score=58.55  Aligned_cols=129  Identities=13%  Similarity=0.084  Sum_probs=68.7

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCce
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKK  289 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr  289 (533)
                      +-|.|+|++|.|||++|+.+...  ....|     +.++..    ++..    ....     .....+...+.......+
T Consensus       186 ~gill~G~~G~GKt~~~~~~a~~--~~~~f-----~~is~~----~~~~----~~~g-----~~~~~~~~~f~~a~~~~P  245 (644)
T PRK10733        186 KGVLMVGPPGTGKTLLAKAIAGE--AKVPF-----FTISGS----DFVE----MFVG-----VGASRVRDMFEQAKKAAP  245 (644)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHH--cCCCE-----EEEehH----HhHH----hhhc-----ccHHHHHHHHHHHHhcCC
Confidence            45899999999999999999863  22222     222211    1110    0000     011222333333334567


Q ss_pred             EEEEEeCCCCCCc----------cccch----hhhcccC--CCCCceEEEEecchHHHhhh-----CCCCeeeCCCCChH
Q 045152          290 FFLVLDDVWDGDY----------KKWNP----FFSCLKN--GHHESKILITTRDRSVALQL-----GSIDIIPVKELAEE  348 (533)
Q Consensus       290 ~LlVLDdv~~~~~----------~~~~~----l~~~l~~--~~~gs~IiiTtR~~~v~~~~-----~~~~~~~l~~L~~~  348 (533)
                      .+|+||+++....          ..+..    +...+..  ...+.-+|.||..++.....     .....+.+...+.+
T Consensus       246 ~IifIDEiD~l~~~r~~~~~g~~~~~~~~ln~lL~~mdg~~~~~~vivIaaTN~p~~lD~Al~RpgRfdr~i~v~~Pd~~  325 (644)
T PRK10733        246 CIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVR  325 (644)
T ss_pred             cEEEehhHhhhhhccCCCCCCCchHHHHHHHHHHHhhhcccCCCCeeEEEecCChhhcCHHHhCCcccceEEEcCCCCHH
Confidence            8999999955310          11111    1111111  12344555677766543211     12567888888888


Q ss_pred             hhHHHHHHhh
Q 045152          349 ECWSLLERLA  358 (533)
Q Consensus       349 ~~~~Lf~~~a  358 (533)
                      +-.+++..+.
T Consensus       326 ~R~~Il~~~~  335 (644)
T PRK10733        326 GREQILKVHM  335 (644)
T ss_pred             HHHHHHHHHh
Confidence            8888887765

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=95.76  E-value=0.074  Score=51.60  Aligned_cols=90  Identities=24%  Similarity=0.286  Sum_probs=47.7

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhH--HHHHHHHHHHhCCCC---CCCccH-HHHHHH
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEE--IRVAKAIIEGLGVSA---SGLSEF-ESLMKQ  280 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~--~~l~~~il~~l~~~~---~~~~~~-~~l~~~  280 (533)
                      .+.+++.++|++|+||||++..+...  ....-..+.+++.. .+..  .+-+....+..+.+-   ....+. ......
T Consensus        70 ~~~~vi~l~G~~G~GKTTt~akLA~~--l~~~g~~V~li~~D-~~r~~a~~ql~~~~~~~~i~~~~~~~~~dp~~~~~~~  146 (272)
T TIGR00064        70 NKPNVILFVGVNGVGKTTTIAKLANK--LKKQGKSVLLAAGD-TFRAAAIEQLEEWAKRLGVDVIKQKEGADPAAVAFDA  146 (272)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHH--HHhcCCEEEEEeCC-CCCHHHHHHHHHHHHhCCeEEEeCCCCCCHHHHHHHH
Confidence            45689999999999999999877653  22222345555543 2222  222333344443221   111122 222333


Q ss_pred             HHHHhCCceEEEEEeCCCC
Q 045152          281 IQEYITRKKFFLVLDDVWD  299 (533)
Q Consensus       281 l~~~l~~kr~LlVLDdv~~  299 (533)
                      +........-++++|-.-.
T Consensus       147 l~~~~~~~~D~ViIDT~G~  165 (272)
T TIGR00064       147 IQKAKARNIDVVLIDTAGR  165 (272)
T ss_pred             HHHHHHCCCCEEEEeCCCC
Confidence            4444444456788887743

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.

>KOG0532 consensus Leucine-rich repeat (LRR) protein, contains calponin homology domain [Cytoskeleton]

Probab=95.76  E-value=0.002  Score=66.36  Aligned_cols=68  Identities=32%  Similarity=0.519  Sum_probs=42.3

Q ss_pred             ccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcceeeccCCch
Q 045152          435 KVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKELGMEGSPL  507 (533)
Q Consensus       435 ~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~L~~~~c~~  507 (533)
                      ..+|..++.+.+|+.|++. -.++..+|  +.++.| .|..|+++ |.++..+|-.+.+++.||+|-+.++|.
T Consensus       179 ~slpsql~~l~slr~l~vr-Rn~l~~lp--~El~~L-pLi~lDfS-cNkis~iPv~fr~m~~Lq~l~LenNPL  246 (722)
T KOG0532|consen  179 QSLPSQLGYLTSLRDLNVR-RNHLEDLP--EELCSL-PLIRLDFS-CNKISYLPVDFRKMRHLQVLQLENNPL  246 (722)
T ss_pred             hhchHHhhhHHHHHHHHHh-hhhhhhCC--HHHhCC-ceeeeecc-cCceeecchhhhhhhhheeeeeccCCC
Confidence            3344444444444444443 12244444  444433 46677774 689999999999999999999988874

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=95.75  E-value=0.08  Score=50.34  Aligned_cols=49  Identities=24%  Similarity=0.312  Sum_probs=33.9

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHH
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKA  259 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~  259 (533)
                      +..+++.|.|.+|.|||++|.++... .. ..-..++|++...  +..++.+.
T Consensus        19 ~~gs~~lI~G~pGsGKT~la~~~l~~-~~-~~ge~~lyvs~ee--~~~~i~~~   67 (237)
T TIGR03877        19 PERNVVLLSGGPGTGKSIFSQQFLWN-GL-QMGEPGIYVALEE--HPVQVRRN   67 (237)
T ss_pred             cCCeEEEEEcCCCCCHHHHHHHHHHH-HH-HcCCcEEEEEeeC--CHHHHHHH
Confidence            46789999999999999999765432 12 2345788887665  33444444

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.

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=95.75  E-value=0.034  Score=50.04  Aligned_cols=121  Identities=15%  Similarity=0.129  Sum_probs=58.6

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCC--chhHHHHHHHHHHHhCCCCC--C-------CccHHH
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD--TFEEIRVAKAIIEGLGVSAS--G-------LSEFES  276 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~--~~~~~~l~~~il~~l~~~~~--~-------~~~~~~  276 (533)
                      ...+++|+|+.|.|||||.+.+..-   .......+++.-..  ..........+ ..+.....  .       ....+.
T Consensus        27 ~Ge~~~i~G~nGsGKStLl~~l~G~---~~~~~G~i~~~g~~~~~~~~~~~~~~i-~~~~q~~~~~~~tv~~~lLS~G~~  102 (173)
T cd03246          27 PGESLAIIGPSGSGKSTLARLILGL---LRPTSGRVRLDGADISQWDPNELGDHV-GYLPQDDELFSGSIAENILSGGQR  102 (173)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhc---cCCCCCeEEECCEEcccCCHHHHHhhe-EEECCCCccccCcHHHHCcCHHHH
Confidence            3458999999999999999999853   22233333332100  00111111110 00000000  0       111122


Q ss_pred             HHHHHHHHhCCceEEEEEeCCCCC-CccccchhhhcccC-CCCCceEEEEecchHHHh
Q 045152          277 LMKQIQEYITRKKFFLVLDDVWDG-DYKKWNPFFSCLKN-GHHESKILITTRDRSVAL  332 (533)
Q Consensus       277 l~~~l~~~l~~kr~LlVLDdv~~~-~~~~~~~l~~~l~~-~~~gs~IiiTtR~~~v~~  332 (533)
                      ..-.+...+-.++-+++||+.-.. +......+...+.. ...|..||++|.+.....
T Consensus       103 qrv~la~al~~~p~~lllDEPt~~LD~~~~~~l~~~l~~~~~~~~tii~~sh~~~~~~  160 (173)
T cd03246         103 QRLGLARALYGNPRILVLDEPNSHLDVEGERALNQAIAALKAAGATRIVIAHRPETLA  160 (173)
T ss_pred             HHHHHHHHHhcCCCEEEEECCccccCHHHHHHHHHHHHHHHhCCCEEEEEeCCHHHHH
Confidence            223344455566678899988432 22222333333322 123667888888876554

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

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=95.73  E-value=0.086  Score=50.20  Aligned_cols=21  Identities=38%  Similarity=0.482  Sum_probs=18.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045152          211 VISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +..|+|++|+|||+||..+.-
T Consensus         3 ~~ll~g~~G~GKS~lal~la~   23 (239)
T cd01125           3 VSALVAPGGTGKSSLLLVLAL   23 (239)
T ss_pred             eeEEEcCCCCCHHHHHHHHHH
Confidence            567899999999999977764

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.

>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=95.71  E-value=0.016  Score=50.79  Aligned_cols=36  Identities=39%  Similarity=0.296  Sum_probs=26.7

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEE
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVC  246 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~  246 (533)
                      ..+|.|.|.+|.||||||+.+..  +....-..++++.
T Consensus         2 g~vIwltGlsGsGKtTlA~~L~~--~L~~~g~~~~~LD   37 (156)
T PF01583_consen    2 GFVIWLTGLSGSGKTTLARALER--RLFARGIKVYLLD   37 (156)
T ss_dssp             -EEEEEESSTTSSHHHHHHHHHH--HHHHTTS-EEEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH--HHHHcCCcEEEec
Confidence            46899999999999999999987  3444444555554

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 ....

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=95.70  E-value=0.066  Score=55.36  Aligned_cols=88  Identities=26%  Similarity=0.241  Sum_probs=47.3

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCC-chhHHHHHHHHHHHhCCCCCC---CccHHHHHHHHHH
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD-TFEEIRVAKAIIEGLGVSASG---LSEFESLMKQIQE  283 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~l~~~il~~l~~~~~~---~~~~~~l~~~l~~  283 (533)
                      .+.+|.++|.+|+||||++..+..... +..+ .+..|+... .....+.++.+.++++.+...   ..+.........+
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 KPQTIMLVGLQGSGKTTTAAKLARYFK-KKGL-KVGLVAADTYRPAAYDQLKQLAEKIGVPFYGDPDNKDAVEIAKEGLE  171 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHH-HcCC-eEEEecCCCCCHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHHH
Confidence            468999999999999999988876322 2222 334444322 112344555666665543211   1222222222222


Q ss_pred             HhCCceEEEEEeCCC
Q 045152          284 YITRKKFFLVLDDVW  298 (533)
Q Consensus       284 ~l~~kr~LlVLDdv~  298 (533)
                      .+.+. -++|+|..-
T Consensus       172 ~~~~~-DvVIIDTAG  185 (437)
T PRK00771        172 KFKKA-DVIIVDTAG  185 (437)
T ss_pred             HhhcC-CEEEEECCC
Confidence            33333 567888773

>PTZ00301 uridine kinase; Provisional

Probab=95.70  E-value=0.014  Score=54.25  Aligned_cols=23  Identities=30%  Similarity=0.469  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..+|+|.|.+|+||||||+.+.+
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~   25 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVS   25 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHH
Confidence            46899999999999999998875

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=95.69  E-value=0.081  Score=51.42  Aligned_cols=53  Identities=19%  Similarity=0.198  Sum_probs=35.5

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHH
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEG  263 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~  263 (533)
                      ...++.|.|.+|+||||++.++.... ...+-..++|+++..  +..++...+...
T Consensus        29 ~g~~~~i~g~~G~GKT~l~~~~~~~~-~~~~g~~vl~iS~E~--~~~~~~~r~~~~   81 (271)
T cd01122          29 KGELIILTAGTGVGKTTFLREYALDL-ITQHGVRVGTISLEE--PVVRTARRLLGQ   81 (271)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH-HHhcCceEEEEEccc--CHHHHHHHHHHH
Confidence            44588899999999999998876532 222234677887655  344555555544

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>PF12061 DUF3542: Protein of unknown function (DUF3542); InterPro: IPR021929 R1 is a gene for resistance to late blight, the most destructive disease in potato cultivation worldwide

Probab=95.65  E-value=0.026  Score=53.93  Aligned_cols=77  Identities=17%  Similarity=0.253  Sum_probs=59.3

Q ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHH-HhccccCChHHHHHHHHHHhhccchhhhHH
Q 045152            4 AIVSSLLGQLTSVAADEVKQHVRLVTGVGEEVKKLTSNLRAIRAVLEDA-EKRQMQRDNAVTFWLDQLRDASYDMEDVLD   82 (533)
Q Consensus         4 ~~v~~~l~kl~~~l~~~~~~e~~~~~~~~~~~~~L~~~L~~i~~~l~~a-e~~~~~~~~~~~~Wl~~lrd~ayd~eD~lD   82 (533)
                      +.|..++++|-.+...    -...+.-++.+++-++.+++.+|.||+.. +..+..+++ .+....++-..||++|.++|
T Consensus       296 GyVdFlL~NLkdfq~r----ysdSlaflKnQiqvIQ~elesLqpFLk~V~ee~~nkh~~-~ed~a~~ii~kAyevEYVVD  370 (402)
T PF12061_consen  296 GYVDFLLKNLKDFQGR----YSDSLAFLKNQIQVIQTELESLQPFLKHVVEEPHNKHDT-NEDCATQIIRKAYEVEYVVD  370 (402)
T ss_pred             cHHHHHHhhHHHHhcc----ccchHHHHHHHHHHHHHHHHHhhHHHHHHHhccchhhhh-hhhHHHHHHHHHhheeeeee
Confidence            3566777777766332    22345567889999999999999999986 554555444 89999999999999999999


Q ss_pred             HHH
Q 045152           83 EWT   85 (533)
Q Consensus        83 ~~~   85 (533)
                      -+.
T Consensus       371 aCi  373 (402)
T PF12061_consen  371 ACI  373 (402)
T ss_pred             hhh
Confidence            774

The R1 gene belongs to the class of plant genes for pathogen resistance that have a leucine zipper motif, a putative nucleotide binding domain and a leucine-rich repeat domain []. Most proteins matching this entry are found associated with PF00931 from PFAM.

>PRK10867 signal recognition particle protein; Provisional

Probab=95.63  E-value=0.067  Score=55.22  Aligned_cols=25  Identities=48%  Similarity=0.492  Sum_probs=20.7

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..+.+|.++|++|+||||++..+..
T Consensus        98 ~~p~vI~~vG~~GsGKTTtaakLA~  122 (433)
T PRK10867         98 KPPTVIMMVGLQGAGKTTTAGKLAK  122 (433)
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHHH
Confidence            3468999999999999998866654

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.61  E-value=0.062  Score=53.93  Aligned_cols=91  Identities=18%  Similarity=0.141  Sum_probs=53.2

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCc-hhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHh
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT-FEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYI  285 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~-~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l  285 (533)
                      ....++.++|+.|+||||++..+...  ....-..+.+|+.... ....+-++...+.++.+.....+..++...+...-
T Consensus       204 ~~~~ii~lvGptGvGKTTt~akLA~~--l~~~g~~V~lItaDtyR~gAveQLk~yae~lgvpv~~~~dp~dL~~al~~l~  281 (407)
T PRK12726        204 SNHRIISLIGQTGVGKTTTLVKLGWQ--LLKQNRTVGFITTDTFRSGAVEQFQGYADKLDVELIVATSPAELEEAVQYMT  281 (407)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCeEEEEeCCccCccHHHHHHHHhhcCCCCEEecCCHHHHHHHHHHHH
Confidence            34689999999999999999888753  2222234566665432 12344555555555543222234455555454332


Q ss_pred             -CCceEEEEEeCCCC
Q 045152          286 -TRKKFFLVLDDVWD  299 (533)
Q Consensus       286 -~~kr~LlVLDdv~~  299 (533)
                       .+..=++++|-.-.
T Consensus       282 ~~~~~D~VLIDTAGr  296 (407)
T PRK12726        282 YVNCVDHILIDTVGR  296 (407)
T ss_pred             hcCCCCEEEEECCCC
Confidence             13456788888754

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=95.61  E-value=0.011  Score=65.29  Aligned_cols=76  Identities=29%  Similarity=0.418  Sum_probs=61.3

Q ss_pred             cccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCccee
Q 045152          421 PCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKEL  500 (533)
Q Consensus       421 p~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~L  500 (533)
                      +.|+.|++++ ..+..+|..   ..+|+.|+++++. +..+|.  .   ..+|+.|++++ .+|+.+|+++.++++|+.|
T Consensus       382 ~~L~~LdLs~-N~Lt~LP~l---~s~L~~LdLS~N~-LssIP~--l---~~~L~~L~Ls~-NqLt~LP~sl~~L~~L~~L  450 (788)
T PRK15387        382 SGLKELIVSG-NRLTSLPVL---PSELKELMVSGNR-LTSLPM--L---PSGLLSLSVYR-NQLTRLPESLIHLSSETTV  450 (788)
T ss_pred             cccceEEecC-CcccCCCCc---ccCCCEEEccCCc-CCCCCc--c---hhhhhhhhhcc-CcccccChHHhhccCCCeE
Confidence            4688888887 456777754   3678899999765 888883  2   35788999998 6899999999999999999


Q ss_pred             eccCCch
Q 045152          501 GMEGSPL  507 (533)
Q Consensus       501 ~~~~c~~  507 (533)
                      ++++++.
T Consensus       451 dLs~N~L  457 (788)
T PRK15387        451 NLEGNPL  457 (788)
T ss_pred             ECCCCCC
Confidence            9999984

>cd03282 ABC_MSH4_euk MutS4 homolog in eukaryotes

Probab=95.60  E-value=0.021  Score=52.83  Aligned_cols=121  Identities=18%  Similarity=0.231  Sum_probs=60.5

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCC---ccHHHHHHHHHHH
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGL---SEFESLMKQIQEY  284 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~---~~~~~l~~~l~~~  284 (533)
                      ...++.|.|+.|.||||+.+.+.... +-.+.  -.+|..  ......+...|+..++......   .....-...+...
T Consensus        28 ~~~~~~l~G~n~~GKstll~~i~~~~-~la~~--G~~vpa--~~~~l~~~d~I~~~~~~~d~~~~~~S~fs~e~~~~~~i  102 (204)
T cd03282          28 SSRFHIITGPNMSGKSTYLKQIALLA-IMAQI--GCFVPA--EYATLPIFNRLLSRLSNDDSMERNLSTFASEMSETAYI  102 (204)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH-HHHHc--CCCcch--hhcCccChhheeEecCCccccchhhhHHHHHHHHHHHH
Confidence            34789999999999999998886431 11111  111111  1111122333333333321111   1111111122222


Q ss_pred             h--CCceEEEEEeCCCCCC-ccc----cchhhhcccCCCCCceEEEEecchHHHhhhC
Q 045152          285 I--TRKKFFLVLDDVWDGD-YKK----WNPFFSCLKNGHHESKILITTRDRSVALQLG  335 (533)
Q Consensus       285 l--~~kr~LlVLDdv~~~~-~~~----~~~l~~~l~~~~~gs~IiiTtR~~~v~~~~~  335 (533)
                      +  ..++-|+++|+..... ..+    ...+...+..  .|+.+|++|...+++..+.
T Consensus       103 l~~~~~~~lvllDE~~~gt~~~~~~~l~~~il~~l~~--~~~~~i~~TH~~~l~~~~~  158 (204)
T cd03282         103 LDYADGDSLVLIDELGRGTSSADGFAISLAILECLIK--KESTVFFATHFRDIAAILG  158 (204)
T ss_pred             HHhcCCCcEEEeccccCCCCHHHHHHHHHHHHHHHHh--cCCEEEEECChHHHHHHhh
Confidence            2  3567899999984421 111    1122223322  2788999999988877654

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

>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=95.59  E-value=0.0094  Score=44.56  Aligned_cols=22  Identities=32%  Similarity=0.516  Sum_probs=19.3

Q ss_pred             EEEEEcCCCChHHHHHHHHhcc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      +|.|.|..|+||||+++.+.+.
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~   22 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQ   22 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999988763

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.

>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=95.58  E-value=0.0097  Score=51.53  Aligned_cols=21  Identities=43%  Similarity=0.515  Sum_probs=19.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045152          211 VISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +|.+.|++|+||||+|+.+..
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            578999999999999999874

...

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=95.56  E-value=0.027  Score=48.91  Aligned_cols=43  Identities=28%  Similarity=0.364  Sum_probs=31.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCC
Q 045152          211 VISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGV  266 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~  266 (533)
                      +|.|.|++|.||||+|+.+.++....       .      .+.-.++++|++..+.
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~gl~-------~------vsaG~iFR~~A~e~gm   44 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHLGLK-------L------VSAGTIFREMARERGM   44 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHhCCc-------e------eeccHHHHHHHHHcCC
Confidence            68999999999999999998742221       1      1334677888887665

>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=95.55  E-value=0.038  Score=54.44  Aligned_cols=85  Identities=20%  Similarity=0.194  Sum_probs=51.8

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCC-----CCccHHHHHHHH
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSAS-----GLSEFESLMKQI  281 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~-----~~~~~~~l~~~l  281 (533)
                      +..+++-|+|+.|+||||||..+...  ....-..++||.....++..     .++.++....     .....++....+
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  44445678999987776654     3444444311     112334445555


Q ss_pred             HHHhCC-ceEEEEEeCCC
Q 045152          282 QEYITR-KKFFLVLDDVW  298 (533)
Q Consensus       282 ~~~l~~-kr~LlVLDdv~  298 (533)
                      ...++. ..-++|+|-|-
T Consensus       124 e~lirsg~~~lVVvDSv~  141 (322)
T PF00154_consen  124 EQLIRSGAVDLVVVDSVA  141 (322)
T ss_dssp             HHHHHTTSESEEEEE-CT
T ss_pred             HHHhhcccccEEEEecCc
Confidence            555543 44588999983

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 ....

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

Probab=95.55  E-value=0.036  Score=48.53  Aligned_cols=21  Identities=48%  Similarity=0.638  Sum_probs=19.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045152          211 VISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +|.|+|.+|+||||||+.+..
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~   21 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEE   21 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHH
Confidence            578999999999999998876

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

>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.54  E-value=0.099  Score=48.26  Aligned_cols=64  Identities=13%  Similarity=0.107  Sum_probs=38.4

Q ss_pred             HHHHHHHHhCCceEEEEEeCCCCC-CccccchhhhcccC-CCCCceEEEEecchHHHhhhCCCCee
Q 045152          277 LMKQIQEYITRKKFFLVLDDVWDG-DYKKWNPFFSCLKN-GHHESKILITTRDRSVALQLGSIDII  340 (533)
Q Consensus       277 l~~~l~~~l~~kr~LlVLDdv~~~-~~~~~~~l~~~l~~-~~~gs~IiiTtR~~~v~~~~~~~~~~  340 (533)
                      -...+.+.+-=++-+.|||..++. +.+....+...+.. ..+|+-++|.|..+.++....++..+
T Consensus       151 KR~EilQ~~~lePkl~ILDE~DSGLDIdalk~V~~~i~~lr~~~~~~liITHy~rll~~i~pD~vh  216 (251)
T COG0396         151 KRNEILQLLLLEPKLAILDEPDSGLDIDALKIVAEGINALREEGRGVLIITHYQRLLDYIKPDKVH  216 (251)
T ss_pred             HHHHHHHHHhcCCCEEEecCCCcCccHHHHHHHHHHHHHHhcCCCeEEEEecHHHHHhhcCCCEEE
Confidence            344455555556778999998653 22333333333321 23467788888888898887664443

>PRK06762 hypothetical protein; Provisional

Probab=95.53  E-value=0.011  Score=52.93  Aligned_cols=23  Identities=35%  Similarity=0.434  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..+|.|.|++|+||||+|+.+.+
T Consensus         2 ~~li~i~G~~GsGKST~A~~L~~   24 (166)
T PRK06762          2 TTLIIIRGNSGSGKTTIAKQLQE   24 (166)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            36899999999999999999886

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=95.51  E-value=0.067  Score=51.71  Aligned_cols=127  Identities=14%  Similarity=0.100  Sum_probs=65.0

Q ss_pred             HHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCC-
Q 045152          191 KNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSAS-  269 (533)
Q Consensus       191 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~-  269 (533)
                      .+.++..|...     +....++|+|+.|.|||||.+.+...   -......+++.- ......+-..++...+..-.. 
T Consensus        98 ~~~~l~~l~~~-----~~~~~~~i~g~~g~GKttl~~~l~~~---~~~~~G~i~~~g-~~v~~~d~~~ei~~~~~~~~q~  168 (270)
T TIGR02858        98 ADKLLPYLVRN-----NRVLNTLIISPPQCGKTTLLRDLARI---LSTGISQLGLRG-KKVGIVDERSEIAGCVNGVPQH  168 (270)
T ss_pred             HHHHHHHHHhC-----CCeeEEEEEcCCCCCHHHHHHHHhCc---cCCCCceEEECC-EEeecchhHHHHHHHhcccccc
Confidence            45555555422     34578999999999999999999863   223333444321 111110111222222211000 


Q ss_pred             ------CC-ccHHHHHHHHHHHh-CCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecchHHHh
Q 045152          270 ------GL-SEFESLMKQIQEYI-TRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRSVAL  332 (533)
Q Consensus       270 ------~~-~~~~~l~~~l~~~l-~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~~v~~  332 (533)
                            +. ..... ...+...+ ...+-++++|.+-..  +.+..+...+   ..|..+|+||.+..+..
T Consensus       169 ~~~~r~~v~~~~~k-~~~~~~~i~~~~P~villDE~~~~--e~~~~l~~~~---~~G~~vI~ttH~~~~~~  233 (270)
T TIGR02858       169 DVGIRTDVLDGCPK-AEGMMMLIRSMSPDVIVVDEIGRE--EDVEALLEAL---HAGVSIIATAHGRDVED  233 (270)
T ss_pred             cccccccccccchH-HHHHHHHHHhCCCCEEEEeCCCcH--HHHHHHHHHH---hCCCEEEEEechhHHHH
Confidence                  00 11111 11223333 247789999998432  3344444443   24778999998766643

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.

>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=95.51  E-value=0.069  Score=48.05  Aligned_cols=119  Identities=21%  Similarity=0.200  Sum_probs=60.1

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCC--CCC---C---------Ccc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGV--SAS---G---------LSE  273 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~--~~~---~---------~~~  273 (533)
                      .-.+++|+|+.|.|||||.+.+....   ......+++.-.......   ..+...++.  +..   .         ...
T Consensus        25 ~Ge~~~i~G~nGsGKStLl~~l~G~~---~~~~G~i~~~g~~~~~~~---~~~~~~i~~~~q~~~~~~~~tv~~~~~LS~   98 (173)
T cd03230          25 KGEIYGLLGPNGAGKTTLIKIILGLL---KPDSGEIKVLGKDIKKEP---EEVKRRIGYLPEEPSLYENLTVRENLKLSG   98 (173)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC---CCCCeEEEECCEEcccch---HhhhccEEEEecCCccccCCcHHHHhhcCH
Confidence            34589999999999999999997631   223344443211000000   011111110  000   0         111


Q ss_pred             HHHHHHHHHHHhCCceEEEEEeCCCCC-CccccchhhhcccCC-CCCceEEEEecchHHHh
Q 045152          274 FESLMKQIQEYITRKKFFLVLDDVWDG-DYKKWNPFFSCLKNG-HHESKILITTRDRSVAL  332 (533)
Q Consensus       274 ~~~l~~~l~~~l~~kr~LlVLDdv~~~-~~~~~~~l~~~l~~~-~~gs~IiiTtR~~~v~~  332 (533)
                      .+...-.+...+..++-++++|+.-.. +......+...+... ..|..||++|.+.....
T Consensus        99 G~~qrv~laral~~~p~illlDEPt~~LD~~~~~~l~~~l~~~~~~g~tiii~th~~~~~~  159 (173)
T cd03230          99 GMKQRLALAQALLHDPELLILDEPTSGLDPESRREFWELLRELKKEGKTILLSSHILEEAE  159 (173)
T ss_pred             HHHHHHHHHHHHHcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHCCCEEEEECCCHHHHH
Confidence            122223455556677888999998432 222233344434321 23667888888876554

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.

>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=95.46  E-value=0.054  Score=50.39  Aligned_cols=84  Identities=19%  Similarity=0.287  Sum_probs=51.9

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCc-hhHHHHHHHHHHHhCC-------CCCCCccH-----
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT-FEEIRVAKAIIEGLGV-------SASGLSEF-----  274 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~-~~~~~l~~~il~~l~~-------~~~~~~~~-----  274 (533)
                      +..-++|+|.+|+|||+|+..+.++.    .-+..+++.+.+. ..+.++.+++...-..       ...+....     
T Consensus        14 ~Gqr~~I~g~~g~GKt~Ll~~i~~~~----~~d~~V~~~iGer~~Ev~~~~~~~~~~~~~~~t~vv~~t~~~~~~~r~~~   89 (215)
T PF00006_consen   14 RGQRIGIFGGAGVGKTVLLQEIANNQ----DADVVVYALIGERGREVTEFIEELKGEGALERTVVVAATSDEPPAARYRA   89 (215)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHC----TTTEEEEEEESECHHHHHHHHHHHHHTTGGGGEEEEEEETTS-HHHHHHH
T ss_pred             cCCEEEEEcCcccccchhhHHHHhcc----cccceeeeeccccchhHHHHHHHHhhcccccccccccccchhhHHHHhhh
Confidence            34678999999999999999888642    2334477777755 4556666666443111       11111111     


Q ss_pred             ----HHHHHHHHHHhCCceEEEEEeCC
Q 045152          275 ----ESLMKQIQEYITRKKFFLVLDDV  297 (533)
Q Consensus       275 ----~~l~~~l~~~l~~kr~LlVLDdv  297 (533)
                          -...+.+++  .++.+|+++||+
T Consensus        90 ~~~a~t~AEyfrd--~G~dVlli~Dsl  114 (215)
T PF00006_consen   90 PYTALTIAEYFRD--QGKDVLLIIDSL  114 (215)
T ss_dssp             HHHHHHHHHHHHH--TTSEEEEEEETH
T ss_pred             hccchhhhHHHhh--cCCceeehhhhh
Confidence                112223333  689999999999

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 ....

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=95.39  E-value=0.073  Score=53.99  Aligned_cols=84  Identities=23%  Similarity=0.304  Sum_probs=48.9

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCC-----CccHHHHHHHH
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASG-----LSEFESLMKQI  281 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~-----~~~~~~l~~~l  281 (533)
                      ....++.|.|.+|+|||||+.++...  ....-..++|++..+..  ..+. .-.+.++.....     ..+.+.+.+.+
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--LAKRGGKVLYVSGEESP--EQIK-LRADRLGISTENLYLLAETNLEDILASI  154 (372)
T ss_pred             cCCeEEEEEeCCCCCHHHHHHHHHHH--HHhcCCeEEEEECCcCH--HHHH-HHHHHcCCCcccEEEEccCcHHHHHHHH
Confidence            34679999999999999999888753  22233467787754432  2222 223444432211     12334444433


Q ss_pred             HHHhCCceEEEEEeCCC
Q 045152          282 QEYITRKKFFLVLDDVW  298 (533)
Q Consensus       282 ~~~l~~kr~LlVLDdv~  298 (533)
                      .   ..+.-++|+|.+.
T Consensus       155 ~---~~~~~lVVIDSIq  168 (372)
T cd01121         155 E---ELKPDLVIIDSIQ  168 (372)
T ss_pred             H---hcCCcEEEEcchH
Confidence            2   2356688999883

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.

>PRK06547 hypothetical protein; Provisional

Probab=95.38  E-value=0.022  Score=51.18  Aligned_cols=26  Identities=35%  Similarity=0.414  Sum_probs=23.0

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ....+|+|.|++|+||||+|+.+.+.
T Consensus        13 ~~~~~i~i~G~~GsGKTt~a~~l~~~   38 (172)
T PRK06547         13 GGMITVLIDGRSGSGKTTLAGALAAR   38 (172)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            46789999999999999999999763

>PTZ00494 tuzin-like protein; Provisional

Probab=95.36  E-value=0.3  Score=49.67  Aligned_cols=168  Identities=15%  Similarity=0.174  Sum_probs=102.2

Q ss_pred             ccCCceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHH
Q 045152          179 IDEGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAK  258 (533)
Q Consensus       179 ~~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~  258 (533)
                      .....+|.|++|-..+.+.|..-+.   ..++++.+.|.-|.||++|.+.....+.     -..++|.+...   ++-++
T Consensus       368 a~~~~~V~R~~eE~~vRqvL~qld~---aHPRIvV~TG~~GcGKSslcRsAvrkE~-----~paV~VDVRg~---EDtLr  436 (664)
T PTZ00494        368 AAEAFEVRREDEEALVRSVLTQMAP---SHPRIVALAGGSGGGRCVPCRRAVRVEG-----VALVHVDVGGT---EDTLR  436 (664)
T ss_pred             cccccccchhhHHHHHHHHHhhccC---CCCcEEEEecCCCCCchHHHHHHHHHcC-----CCeEEEEecCC---cchHH
Confidence            3456789999998888888866543   5789999999999999999988775322     24567776654   45677


Q ss_pred             HHHHHhCCCCCCC-cc-HHHHHH---HHHHHhCCceEEEEEeCCCCCCc-cccchhhhcccCCCCCceEEEEecchHHHh
Q 045152          259 AIIEGLGVSASGL-SE-FESLMK---QIQEYITRKKFFLVLDDVWDGDY-KKWNPFFSCLKNGHHESKILITTRDRSVAL  332 (533)
Q Consensus       259 ~il~~l~~~~~~~-~~-~~~l~~---~l~~~l~~kr~LlVLDdv~~~~~-~~~~~l~~~l~~~~~gs~IiiTtR~~~v~~  332 (533)
                      .+.+.++.+..+. .+ ++-+.+   .-.....++.-+||+-=-.-.+. ..+.+. ..|.....-|.|++---.+.+..
T Consensus       437 sVVKALgV~nve~CGDlLdFI~ea~~~A~~~~~g~~P~lVlkLREGssL~RVYnE~-vaLacDrRlCHvv~EVplESLT~  515 (664)
T PTZ00494        437 SVVRALGVSNVEVCGDLLGFVEEAMRGATVKASDGVPFLVMRLREGSDLGRVYGEV-VSLVSDCQACHIVLAVPMKALTP  515 (664)
T ss_pred             HHHHHhCCCChhhhccHHHHHHHHHHHHHHhcCCCCCEEEEEeccCCcHHHHHHHH-HHHHccchhheeeeechHhhhch
Confidence            8888888764332 12 222222   22223456666777653211110 011111 11223334566666544443322


Q ss_pred             hh---CCCCeeeCCCCChHhhHHHHHHhh
Q 045152          333 QL---GSIDIIPVKELAEEECWSLLERLA  358 (533)
Q Consensus       333 ~~---~~~~~~~l~~L~~~~~~~Lf~~~a  358 (533)
                      ..   .....|.+++++.+++.++.++..
T Consensus       516 ~n~~LPRLDFy~VPnFSr~QAf~YtqH~l  544 (664)
T PTZ00494        516 LNVSSRRLDFYCIPPFSRRQAFAYAEHTL  544 (664)
T ss_pred             hhccCccceeEecCCcCHHHHHHHHhccc
Confidence            11   224678999999999999877643

>PRK03846 adenylylsulfate kinase; Provisional

Probab=95.35  E-value=0.047  Score=50.36  Aligned_cols=25  Identities=32%  Similarity=0.356  Sum_probs=22.5

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ....+|.|+|++|+||||||+.+..
T Consensus        22 ~~~~~i~i~G~~GsGKSTla~~l~~   46 (198)
T PRK03846         22 HKGVVLWFTGLSGSGKSTVAGALEE   46 (198)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4577999999999999999999876

>PTZ00088 adenylate kinase 1; Provisional

Probab=95.33  E-value=0.02  Score=54.02  Aligned_cols=21  Identities=38%  Similarity=0.583  Sum_probs=19.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045152          211 VISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      -|.|+|++|+||||+|+.+.+
T Consensus         8 rIvl~G~PGsGK~T~a~~La~   28 (229)
T PTZ00088          8 KIVLFGAPGVGKGTFAEILSK   28 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            388999999999999999875

>PRK03839 putative kinase; Provisional

Probab=95.32  E-value=0.012  Score=53.31  Aligned_cols=22  Identities=36%  Similarity=0.696  Sum_probs=19.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhcc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .|.|+|++|+||||+++.+.+.
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~   23 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEK   23 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4889999999999999999874

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=95.32  E-value=0.28  Score=48.12  Aligned_cols=133  Identities=14%  Similarity=0.152  Sum_probs=76.8

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcch---h---hh--ccCCceEEEEe-CCchhHHHHHHHHHHHhCCCCCCCccHHHHH
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNND---E---VK--RNFEKVIWVCV-SDTFEEIRVAKAIIEGLGVSASGLSEFESLM  278 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~---~---~~--~~F~~~~wv~v-s~~~~~~~l~~~il~~l~~~~~~~~~~~~l~  278 (533)
                      -..+..++|..|.||+++|..+.+.-   .   +.  .|-+...++.. .....+.++. ++.+.+...+          
T Consensus        17 l~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d~~g~~i~vd~Ir-~l~~~~~~~~----------   85 (299)
T PRK07132         17 ISHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDIFDKDLSKSEFL-SAINKLYFSS----------   85 (299)
T ss_pred             CCeEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEeccCCCcCCHHHHH-HHHHHhccCC----------
Confidence            34667799999999999998776521   0   01  11112222221 1111111111 1222221110          


Q ss_pred             HHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecc-hHHHhh-hCCCCeeeCCCCChHhhHHHHHH
Q 045152          279 KQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRD-RSVALQ-LGSIDIIPVKELAEEECWSLLER  356 (533)
Q Consensus       279 ~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~-~~v~~~-~~~~~~~~l~~L~~~~~~~Lf~~  356 (533)
                           .-.+++-++|+|++...+......+...+.....++.+|++|.+ ..+... ......+++.+++.++..+.+..
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                 00146778899999776656677788888777777777766644 333322 33367899999999998877665

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=95.29  E-value=0.078  Score=56.45  Aligned_cols=133  Identities=14%  Similarity=0.078  Sum_probs=75.4

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhC
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYIT  286 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~  286 (533)
                      ...+.+.++|++|.|||.||+++.+.  ...+|     +.+... +       ++....+     .....+...+....+
T Consensus       274 ~~~~giLl~GpPGtGKT~lAkava~~--~~~~f-----i~v~~~-~-------l~sk~vG-----esek~ir~~F~~A~~  333 (494)
T COG0464         274 RPPKGVLLYGPPGTGKTLLAKAVALE--SRSRF-----ISVKGS-E-------LLSKWVG-----ESEKNIRELFEKARK  333 (494)
T ss_pred             CCCCeeEEECCCCCCHHHHHHHHHhh--CCCeE-----EEeeCH-H-------Hhccccc-----hHHHHHHHHHHHHHc
Confidence            45668999999999999999999972  23333     222222 1       1111111     112223333444445


Q ss_pred             CceEEEEEeCCCCC-----Cc------cccchhhhccc--CCCCCceEEEEecchHHHhhh-----CCCCeeeCCCCChH
Q 045152          287 RKKFFLVLDDVWDG-----DY------KKWNPFFSCLK--NGHHESKILITTRDRSVALQL-----GSIDIIPVKELAEE  348 (533)
Q Consensus       287 ~kr~LlVLDdv~~~-----~~------~~~~~l~~~l~--~~~~gs~IiiTtR~~~v~~~~-----~~~~~~~l~~L~~~  348 (533)
                      ..+..|.+|+++..     ..      .....+...+.  ....+..||-||..+......     .-...+.++.-+.+
T Consensus       334 ~~p~iiFiDEiDs~~~~r~~~~~~~~~r~~~~lL~~~d~~e~~~~v~vi~aTN~p~~ld~a~lR~gRfd~~i~v~~pd~~  413 (494)
T COG0464         334 LAPSIIFIDEIDSLASGRGPSEDGSGRRVVGQLLTELDGIEKAEGVLVIAATNRPDDLDPALLRPGRFDRLIYVPLPDLE  413 (494)
T ss_pred             CCCcEEEEEchhhhhccCCCCCchHHHHHHHHHHHHhcCCCccCceEEEecCCCccccCHhhcccCccceEeecCCCCHH
Confidence            78899999999541     00      11122222232  122334455566554433321     22567889999999


Q ss_pred             hhHHHHHHhhc
Q 045152          349 ECWSLLERLAF  359 (533)
Q Consensus       349 ~~~~Lf~~~a~  359 (533)
                      +..+.|+.+..
T Consensus       414 ~r~~i~~~~~~  424 (494)
T COG0464         414 ERLEIFKIHLR  424 (494)
T ss_pred             HHHHHHHHHhc
Confidence            99999998874

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=95.29  E-value=0.025  Score=62.63  Aligned_cols=80  Identities=24%  Similarity=0.297  Sum_probs=60.5

Q ss_pred             ccccccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCC
Q 045152          416 NISIMPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQIT  495 (533)
Q Consensus       416 ~~~ilp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~  495 (533)
                      +..+.++|+.|++++| .+..+|..+.  .+|+.|++++|. +..+|  ..+  .++|++|++++ .+|..+|+.+.  +
T Consensus       215 P~~l~~nL~~L~Ls~N-~LtsLP~~l~--~~L~~L~Ls~N~-L~~LP--~~l--~s~L~~L~Ls~-N~L~~LP~~l~--~  283 (754)
T PRK15370        215 PENLQGNIKTLYANSN-QLTSIPATLP--DTIQEMELSINR-ITELP--ERL--PSALQSLDLFH-NKISCLPENLP--E  283 (754)
T ss_pred             ChhhccCCCEEECCCC-ccccCChhhh--ccccEEECcCCc-cCcCC--hhH--hCCCCEEECcC-CccCccccccC--C
Confidence            3344557888888864 5777887654  578888888765 77888  444  36899999975 68999998775  5


Q ss_pred             CcceeeccCCc
Q 045152          496 TLKELGMEGSP  506 (533)
Q Consensus       496 ~L~~L~~~~c~  506 (533)
                      +|++|++++|.
T Consensus       284 sL~~L~Ls~N~  294 (754)
T PRK15370        284 ELRYLSVYDNS  294 (754)
T ss_pred             CCcEEECCCCc
Confidence            89999999884

>cd03244 ABCC_MRP_domain2 Domain 2 of the ABC subfamily C

Probab=95.26  E-value=0.15  Score=47.85  Aligned_cols=24  Identities=25%  Similarity=0.383  Sum_probs=21.1

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+++|+|+.|.|||||++.+..
T Consensus        29 ~Ge~~~i~G~nGsGKSTLl~~l~G   52 (221)
T cd03244          29 PGEKVGIVGRTGSGKSSLLLALFR   52 (221)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHc
Confidence            346899999999999999999864

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.

>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=95.26  E-value=0.04  Score=48.68  Aligned_cols=119  Identities=19%  Similarity=0.188  Sum_probs=60.7

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRK  288 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~k  288 (533)
                      ..+++|+|..|.|||||.+.+...   -......+++........  ........+..-. +....+...-.+...+...
T Consensus        25 g~~~~i~G~nGsGKStll~~l~g~---~~~~~G~i~~~~~~~~~~--~~~~~~~~i~~~~-qlS~G~~~r~~l~~~l~~~   98 (157)
T cd00267          25 GEIVALVGPNGSGKSTLLRAIAGL---LKPTSGEILIDGKDIAKL--PLEELRRRIGYVP-QLSGGQRQRVALARALLLN   98 (157)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC---CCCCccEEEECCEEcccC--CHHHHHhceEEEe-eCCHHHHHHHHHHHHHhcC
Confidence            368999999999999999999863   223445555432111000  0001111111100 0111222233344555556


Q ss_pred             eEEEEEeCCCCC-CccccchhhhcccCC-CCCceEEEEecchHHHhh
Q 045152          289 KFFLVLDDVWDG-DYKKWNPFFSCLKNG-HHESKILITTRDRSVALQ  333 (533)
Q Consensus       289 r~LlVLDdv~~~-~~~~~~~l~~~l~~~-~~gs~IiiTtR~~~v~~~  333 (533)
                      +-++++|+.-.. +......+...+... ..+..++++|.+......
T Consensus        99 ~~i~ilDEp~~~lD~~~~~~l~~~l~~~~~~~~tii~~sh~~~~~~~  145 (157)
T cd00267          99 PDLLLLDEPTSGLDPASRERLLELLRELAEEGRTVIIVTHDPELAEL  145 (157)
T ss_pred             CCEEEEeCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHHHH
Confidence            788999998432 222233333333321 124668888887666554

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.

>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2

Probab=95.26  E-value=0.032  Score=50.58  Aligned_cols=22  Identities=41%  Similarity=0.596  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      +|+|.|.+|+||||||+.+...
T Consensus         1 ii~i~G~sgsGKttla~~l~~~   22 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQ   22 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999988863

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

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=95.23  E-value=0.015  Score=52.96  Aligned_cols=24  Identities=29%  Similarity=0.315  Sum_probs=21.4

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +..+|.|+|++|+||||+|+.+..
T Consensus         2 ~~~ii~i~G~~GsGKsTl~~~l~~   25 (188)
T TIGR01360         2 KCKIIFIVGGPGSGKGTQCEKIVE   25 (188)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            357899999999999999998875

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.

>PF13504 LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OOK_G 1QYY_G 1SQ0_B 1P9A_G 1GWB_A 1P8V_A 1M0Z_A 1U0N_D

Probab=95.22  E-value=0.011  Score=30.72  Aligned_cols=17  Identities=35%  Similarity=0.577  Sum_probs=8.6

Q ss_pred             CCcceEEeccCCCCCCCC
Q 045152          471 PRLSSLRIEYCPKLKLLP  488 (533)
Q Consensus       471 ~~L~~L~l~~C~~l~~lP  488 (533)
                      ++|+.|+|++|. |++||
T Consensus         1 ~~L~~L~l~~n~-L~~lP   17 (17)
T PF13504_consen    1 PNLRTLDLSNNR-LTSLP   17 (17)
T ss_dssp             TT-SEEEETSS---SSE-
T ss_pred             CccCEEECCCCC-CCCCc
Confidence            466777777765 66665

...

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=95.21  E-value=0.11  Score=57.58  Aligned_cols=120  Identities=18%  Similarity=0.240  Sum_probs=68.5

Q ss_pred             ceeechhhHHHHHHHHhCCCccCC--CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHH
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQ--KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAI  260 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~--~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i  260 (533)
                      .++|-++-+..|-+.+........  .....+.+.|+.|+|||-||+.+...  +-...+..+-|+.+.      ... +
T Consensus       563 ~V~gQ~eAv~aIa~AI~~sr~gl~~~~~~awflflGpdgvGKt~lAkaLA~~--~Fgse~~~IriDmse------~~e-v  633 (898)
T KOG1051|consen  563 RVIGQDEAVAAIAAAIRRSRAGLKDPNPDAWFLFLGPDGVGKTELAKALAEY--VFGSEENFIRLDMSE------FQE-V  633 (898)
T ss_pred             hccchHHHHHHHHHHHHhhhcccCCCCCCeEEEEECCCchhHHHHHHHHHHH--HcCCccceEEechhh------hhh-h
Confidence            467777777777777765442112  25778889999999999999888752  323333444443332      222 3


Q ss_pred             HHHhCCCCCCCccHHHHHHHHHHHhCCceE-EEEEeCCCCCCccccchhhhccc
Q 045152          261 IEGLGVSASGLSEFESLMKQIQEYITRKKF-FLVLDDVWDGDYKKWNPFFSCLK  313 (533)
Q Consensus       261 l~~l~~~~~~~~~~~~l~~~l~~~l~~kr~-LlVLDdv~~~~~~~~~~l~~~l~  313 (533)
                      .+-++.++ .... .+....|.+.++.++| +|.||||...+......+...+.
T Consensus       634 skligsp~-gyvG-~e~gg~LteavrrrP~sVVLfdeIEkAh~~v~n~llq~lD  685 (898)
T KOG1051|consen  634 SKLIGSPP-GYVG-KEEGGQLTEAVKRRPYSVVLFEEIEKAHPDVLNILLQLLD  685 (898)
T ss_pred             hhccCCCc-cccc-chhHHHHHHHHhcCCceEEEEechhhcCHHHHHHHHHHHh
Confidence            33333322 1111 1122355666666654 77799997766555554444444

>PRK04328 hypothetical protein; Provisional

Probab=95.20  E-value=0.12  Score=49.53  Aligned_cols=43  Identities=23%  Similarity=0.241  Sum_probs=31.3

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCch
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTF  251 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~  251 (533)
                      +..+++.|.|.+|.|||+||.++... .. ..-..++|++.....
T Consensus        21 p~gs~ili~G~pGsGKT~l~~~fl~~-~~-~~ge~~lyis~ee~~   63 (249)
T PRK04328         21 PERNVVLLSGGPGTGKSIFSQQFLWN-GL-QMGEPGVYVALEEHP   63 (249)
T ss_pred             cCCcEEEEEcCCCCCHHHHHHHHHHH-HH-hcCCcEEEEEeeCCH
Confidence            45789999999999999999776542 22 234567888876643

>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1)

Probab=95.19  E-value=0.21  Score=46.31  Aligned_cols=24  Identities=33%  Similarity=0.458  Sum_probs=21.1

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+++|+|..|.|||||++.+..
T Consensus        33 ~G~~~~i~G~nGsGKSTLl~~l~G   56 (207)
T cd03369          33 AGEKIGIVGRTGAGKSTLILALFR   56 (207)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            346899999999999999999864

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.

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=95.18  E-value=0.1  Score=49.38  Aligned_cols=50  Identities=18%  Similarity=0.140  Sum_probs=31.5

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHH
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAI  260 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i  260 (533)
                      +...++.|.|.+|.||||||.++... ..+.. ..+++++...  +..++.+.+
T Consensus        22 ~~g~~~~i~G~~G~GKTtl~~~~~~~-~~~~g-~~~~yi~~e~--~~~~~~~~~   71 (230)
T PRK08533         22 PAGSLILIEGDESTGKSILSQRLAYG-FLQNG-YSVSYVSTQL--TTTEFIKQM   71 (230)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHH-HHhCC-CcEEEEeCCC--CHHHHHHHH
Confidence            34569999999999999998555432 22222 4456666333  345555554

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.17  E-value=0.18  Score=55.47  Aligned_cols=24  Identities=38%  Similarity=0.421  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ..++.++|+.|+||||++..+...
T Consensus       185 g~Vi~lVGpnGvGKTTTiaKLA~~  208 (767)
T PRK14723        185 GGVLALVGPTGVGKTTTTAKLAAR  208 (767)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHhh
Confidence            579999999999999999887753

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=95.17  E-value=0.037  Score=59.13  Aligned_cols=46  Identities=13%  Similarity=0.055  Sum_probs=35.3

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..++|....+.++.+.+....    ..-..|.|+|..|.||+++|+.++.
T Consensus       204 ~~~ig~s~~~~~~~~~~~~~A----~~~~pvlI~GE~GtGK~~lA~aiH~  249 (520)
T PRK10820        204 SQIVAVSPKMRQVVEQARKLA----MLDAPLLITGDTGTGKDLLAYACHL  249 (520)
T ss_pred             cceeECCHHHHHHHHHHHHHh----CCCCCEEEECCCCccHHHHHHHHHH
Confidence            368999888888877764332    1234588999999999999999875

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

Probab=95.17  E-value=0.011  Score=48.46  Aligned_cols=21  Identities=43%  Similarity=0.543  Sum_probs=18.5

Q ss_pred             EEEEcCCCChHHHHHHHHhcc
Q 045152          212 ISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~  232 (533)
                      |.|+|++|+|||+||+.+..+
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~   21 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKD   21 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999998764

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

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

Probab=95.16  E-value=0.17  Score=46.31  Aligned_cols=125  Identities=18%  Similarity=0.210  Sum_probs=69.6

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeC-------------------Cch-----------------
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVS-------------------DTF-----------------  251 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs-------------------~~~-----------------  251 (533)
                      ...|++|.|++|.|||||.+.+-.   ....-...+||.-.                   +.|                 
T Consensus        27 ~Gevv~iiGpSGSGKSTlLRclN~---LE~~~~G~I~i~g~~~~~~~~~~~~R~~vGmVFQ~fnLFPHlTvleNv~lap~  103 (240)
T COG1126          27 KGEVVVIIGPSGSGKSTLLRCLNG---LEEPDSGSITVDGEDVGDKKDILKLRRKVGMVFQQFNLFPHLTVLENVTLAPV  103 (240)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHC---CcCCCCceEEECCEeccchhhHHHHHHhcCeecccccccccchHHHHHHhhhH
Confidence            456999999999999999998864   22233344444310                   111                 


Q ss_pred             --------hHHHHHHHHHHHhCCCCC------CCccHHHHHHHHHHHhCCceEEEEEeCCCCC-Cccccchhhhccc-CC
Q 045152          252 --------EEIRVAKAIIEGLGVSAS------GLSEFESLMKQIQEYITRKKFFLVLDDVWDG-DYKKWNPFFSCLK-NG  315 (533)
Q Consensus       252 --------~~~~l~~~il~~l~~~~~------~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~-~~~~~~~l~~~l~-~~  315 (533)
                              ...+...++++.++....      ...--++..-.+.+.|.=++-++.+|..-+. +.+.-.++...+. -.
T Consensus       104 ~v~~~~k~eA~~~A~~lL~~VGL~~ka~~yP~qLSGGQqQRVAIARALaM~P~vmLFDEPTSALDPElv~EVL~vm~~LA  183 (240)
T COG1126         104 KVKKLSKAEAREKALELLEKVGLADKADAYPAQLSGGQQQRVAIARALAMDPKVMLFDEPTSALDPELVGEVLDVMKDLA  183 (240)
T ss_pred             HHcCCCHHHHHHHHHHHHHHcCchhhhhhCccccCcHHHHHHHHHHHHcCCCCEEeecCCcccCCHHHHHHHHHHHHHHH
Confidence                    223344455555554321      1122334444566777777788899998432 2222222222222 12


Q ss_pred             CCCceEEEEecchHHHhhhC
Q 045152          316 HHESKILITTRDRSVALQLG  335 (533)
Q Consensus       316 ~~gs~IiiTtR~~~v~~~~~  335 (533)
                      ..|-.+|+.|..-..|..+.
T Consensus       184 ~eGmTMivVTHEM~FAr~Va  203 (240)
T COG1126         184 EEGMTMIIVTHEMGFAREVA  203 (240)
T ss_pred             HcCCeEEEEechhHHHHHhh
Confidence            44667788888776666543

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=95.14  E-value=0.014  Score=53.07  Aligned_cols=24  Identities=42%  Similarity=0.499  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ..+|+|-||-|+||||||+.+.++
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~   27 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEH   27 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHH
Confidence            468999999999999999999874

>KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]

Probab=95.14  E-value=0.34  Score=45.15  Aligned_cols=155  Identities=15%  Similarity=0.111  Sum_probs=84.8

Q ss_pred             ceee-chhhHHHHHHHHhCCCcc-------CCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHH
Q 045152          183 EVCG-RVEEKNELLSKLLCESSE-------QQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEI  254 (533)
Q Consensus       183 ~~vG-R~~e~~~l~~~L~~~~~~-------~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~  254 (533)
                      +++| -+..+.+|.+.+.-.-.+       +-.++.-+.++|++|.|||-||+.|++       +..+-|+.||..--+.
T Consensus       147 eMiGgLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVah-------ht~c~firvsgselvq  219 (404)
T KOG0728|consen  147 EMIGGLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAH-------HTDCTFIRVSGSELVQ  219 (404)
T ss_pred             HHhccHHHHHHHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchhHHHHHHHh-------hcceEEEEechHHHHH
Confidence            3555 466677776655322110       234667889999999999999999996       3456678887653221


Q ss_pred             HHHHHHHHHhCCCCCCCccHHHHHHHHHHHh-CCceEEEEEeCCCCCCc-----------cccc---hhhhccc--CCCC
Q 045152          255 RVAKAIIEGLGVSASGLSEFESLMKQIQEYI-TRKKFFLVLDDVWDGDY-----------KKWN---PFFSCLK--NGHH  317 (533)
Q Consensus       255 ~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l-~~kr~LlVLDdv~~~~~-----------~~~~---~l~~~l~--~~~~  317 (533)
                         +-|-+           .......+.-.. ..-+..|..|.++....           +.-.   .+...+.  ...+
T Consensus       220 ---k~ige-----------gsrmvrelfvmarehapsiifmdeidsigs~r~e~~~ggdsevqrtmlellnqldgfeatk  285 (404)
T KOG0728|consen  220 ---KYIGE-----------GSRMVRELFVMAREHAPSIIFMDEIDSIGSSRVESGSGGDSEVQRTMLELLNQLDGFEATK  285 (404)
T ss_pred             ---HHhhh-----------hHHHHHHHHHHHHhcCCceEeeecccccccccccCCCCccHHHHHHHHHHHHhcccccccc
Confidence               11111           011112222111 34566788888754210           0001   1222222  1245


Q ss_pred             CceEEEEecchHHHhhh--C---CCCeeeCCCCChHhhHHHHHHhh
Q 045152          318 ESKILITTRDRSVALQL--G---SIDIIPVKELAEEECWSLLERLA  358 (533)
Q Consensus       318 gs~IiiTtR~~~v~~~~--~---~~~~~~l~~L~~~~~~~Lf~~~a  358 (533)
                      .-+||..|..-++....  .   .+..++.++-+++.-.++++-+.
T Consensus       286 nikvimatnridild~allrpgridrkiefp~p~e~ar~~ilkihs  331 (404)
T KOG0728|consen  286 NIKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILKIHS  331 (404)
T ss_pred             ceEEEEeccccccccHhhcCCCcccccccCCCCCHHHHHHHHHHhh
Confidence            66788877665443321  1   25667888888887777776543

>TIGR01069 mutS2 MutS2 family protein

Probab=95.14  E-value=0.019  Score=63.92  Aligned_cols=23  Identities=22%  Similarity=0.140  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..++.|+|+.|.|||||.+.+.-
T Consensus       322 ~~~liItGpNg~GKSTlLK~i~~  344 (771)
T TIGR01069       322 KRVLAITGPNTGGKTVTLKTLGL  344 (771)
T ss_pred             ceEEEEECCCCCCchHHHHHHHH
Confidence            47899999999999999988864

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.

>KOG0618 consensus Serine/threonine phosphatase 2C containing leucine-rich repeats, similar to SCN circadian oscillatory protein (SCOP) [Signal transduction mechanisms]

Probab=95.13  E-value=0.0041  Score=67.65  Aligned_cols=84  Identities=27%  Similarity=0.456  Sum_probs=47.7

Q ss_pred             ccccceEEEeecCCcccCCcc-ccccCccceeecccCCCCCCCCC--------------------ccCCCCCCCcceEEe
Q 045152          420 MPCLSVLRVYLCPKLKVLPDY-LLQTTTLQKLRILQCPSMEELPI--------------------LEDHIFLPRLSSLRI  478 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~-l~~l~~L~~L~l~~~~~l~~lp~--------------------~~~~~~l~~L~~L~l  478 (533)
                      +++|+.|.++| ..+..+|+. +.++..|+.|+++|-. |+.||.                    .+++..++.|+.+++
T Consensus       382 ~~hLKVLhLsy-NrL~~fpas~~~kle~LeeL~LSGNk-L~~Lp~tva~~~~L~tL~ahsN~l~~fPe~~~l~qL~~lDl  459 (1081)
T KOG0618|consen  382 FKHLKVLHLSY-NRLNSFPASKLRKLEELEELNLSGNK-LTTLPDTVANLGRLHTLRAHSNQLLSFPELAQLPQLKVLDL  459 (1081)
T ss_pred             ccceeeeeecc-cccccCCHHHHhchHHhHHHhcccch-hhhhhHHHHhhhhhHHHhhcCCceeechhhhhcCcceEEec
Confidence            44788888888 455556644 3455666666666432 555551                    125555666666666


Q ss_pred             ccCCCCCC--CCcCCCCCCCcceeeccCCch
Q 045152          479 EYCPKLKL--LPDSLLQITTLKELGMEGSPL  507 (533)
Q Consensus       479 ~~C~~l~~--lP~~~~~l~~L~~L~~~~c~~  507 (533)
                      + |.+|+.  +|..... ++|++||++|++.
T Consensus       460 S-~N~L~~~~l~~~~p~-p~LkyLdlSGN~~  488 (1081)
T KOG0618|consen  460 S-CNNLSEVTLPEALPS-PNLKYLDLSGNTR  488 (1081)
T ss_pred             c-cchhhhhhhhhhCCC-cccceeeccCCcc
Confidence            3 456543  3322222 6667777766663

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=95.10  E-value=0.074  Score=56.09  Aligned_cols=134  Identities=15%  Similarity=0.199  Sum_probs=68.5

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHH
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIE  262 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~  262 (533)
                      .++|......++...+....    .....+.|.|..|.||+++|+.+....  .......+-+++..-  ..+.+...+ 
T Consensus       135 ~lig~s~~~~~v~~~i~~~a----~~~~~vli~Ge~GtGK~~~A~~ih~~~--~~~~~~~~~~~c~~~--~~~~~~~~l-  205 (463)
T TIGR01818       135 ELIGEAPAMQEVFRAIGRLS----RSDITVLINGESGTGKELVARALHRHS--PRANGPFIALNMAAI--PKDLIESEL-  205 (463)
T ss_pred             ceeecCHHHHHHHHHHHHHh----CcCCeEEEECCCCCCHHHHHHHHHHhC--CCCCCCeEEEeCCCC--CHHHHHHHh-
Confidence            57888777777776664332    233467899999999999999998632  112223333443332  122333222 


Q ss_pred             HhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCCC-----------CCceEEEEecch
Q 045152          263 GLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGH-----------HESKILITTRDR  328 (533)
Q Consensus       263 ~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~-----------~gs~IiiTtR~~  328 (533)
                       ++..........  .......-....-.|+||++..........+...+..+.           ...|||+||...
T Consensus       206 -fg~~~~~~~~~~--~~~~g~~~~a~~gtl~l~ei~~l~~~~q~~ll~~l~~~~~~~~~~~~~~~~~~rii~~~~~~  279 (463)
T TIGR01818       206 -FGHEKGAFTGAN--TRRQGRFEQADGGTLFLDEIGDMPLDAQTRLLRVLADGEFYRVGGRTPIKVDVRIVAATHQN  279 (463)
T ss_pred             -cCCCCCCCCCcc--cCCCCcEEECCCCeEEEEchhhCCHHHHHHHHHHHhcCcEEECCCCceeeeeeEEEEeCCCC
Confidence             221110000000  000000001123348899997766555556665554321           245788887643

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.

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.07  E-value=0.14  Score=52.67  Aligned_cols=24  Identities=33%  Similarity=0.350  Sum_probs=20.9

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+++++|+.|+||||++..+..
T Consensus       190 ~g~vi~lvGpnG~GKTTtlakLA~  213 (420)
T PRK14721        190 QGGVYALIGPTGVGKTTTTAKLAA  213 (420)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            457999999999999999987764

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=95.06  E-value=0.16  Score=49.10  Aligned_cols=91  Identities=12%  Similarity=0.262  Sum_probs=49.0

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCc-hhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhC
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT-FEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYIT  286 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~-~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~  286 (533)
                      +..+++++|.+|+||||++..+...  ....=..+.+++.... .....-++...+.++.+.....+...+...+...-.
T Consensus        74 ~~~~i~~~G~~g~GKTtl~~~l~~~--l~~~~~~v~~i~~D~~ri~~~~ql~~~~~~~~~~~~~~~~~~~l~~~l~~l~~  151 (270)
T PRK06731         74 EVQTIALIGPTGVGKTTTLAKMAWQ--FHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKE  151 (270)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHH--HHHcCCeEEEEecCCCCHHHHHHHHHHhhhcCceEEecCCHHHHHHHHHHHHh
Confidence            3469999999999999999888653  2222124555654432 122222333333343322222333444444433222


Q ss_pred             -CceEEEEEeCCCCC
Q 045152          287 -RKKFFLVLDDVWDG  300 (533)
Q Consensus       287 -~kr~LlVLDdv~~~  300 (533)
                       .+.=++++|..-..
T Consensus       152 ~~~~D~ViIDt~Gr~  166 (270)
T PRK06731        152 EARVDYILIDTAGKN  166 (270)
T ss_pred             cCCCCEEEEECCCCC
Confidence             24568899988554

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=95.05  E-value=0.054  Score=59.59  Aligned_cols=131  Identities=18%  Similarity=0.122  Sum_probs=70.0

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAII  261 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il  261 (533)
                      +.++|....+.++.+......    .....|.|+|..|+||+++|+.+++..  ...-...+.|++..-. ...+..+++
T Consensus       325 ~~l~g~s~~~~~~~~~~~~~a----~~~~pvli~Ge~GtGK~~~A~~ih~~s--~r~~~pfv~vnc~~~~-~~~~~~elf  397 (638)
T PRK11388        325 DHMPQDSPQMRRLIHFGRQAA----KSSFPVLLCGEEGVGKALLAQAIHNES--ERAAGPYIAVNCQLYP-DEALAEEFL  397 (638)
T ss_pred             cceEECCHHHHHHHHHHHHHh----CcCCCEEEECCCCcCHHHHHHHHHHhC--CccCCCeEEEECCCCC-hHHHHHHhc
Confidence            357899888888877775443    223457899999999999999998731  1111233444444322 222222332


Q ss_pred             HHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCCC-----------CCceEEEEecc
Q 045152          262 EGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGH-----------HESKILITTRD  327 (533)
Q Consensus       262 ~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~-----------~gs~IiiTtR~  327 (533)
                      ...........     ...+.   ....=.|+||++..........|...+..+.           ...|||.||..
T Consensus       398 g~~~~~~~~~~-----~g~~~---~a~~GtL~ldei~~l~~~~Q~~Ll~~l~~~~~~~~~~~~~~~~~~riI~~t~~  466 (638)
T PRK11388        398 GSDRTDSENGR-----LSKFE---LAHGGTLFLEKVEYLSPELQSALLQVLKTGVITRLDSRRLIPVDVRVIATTTA  466 (638)
T ss_pred             CCCCcCccCCC-----CCcee---ECCCCEEEEcChhhCCHHHHHHHHHHHhcCcEEeCCCCceEEeeEEEEEeccC
Confidence            21111000000     00000   1123358999997766555566666654321           13467776654

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=95.03  E-value=0.014  Score=53.80  Aligned_cols=21  Identities=38%  Similarity=0.558  Sum_probs=19.2

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045152          211 VISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +|+|.|++|+|||||++.+..
T Consensus         1 iigi~G~~GsGKSTl~~~l~~   21 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIE   21 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998875

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.

>COG4618 ArpD ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]

Probab=95.03  E-value=0.15  Score=52.49  Aligned_cols=24  Identities=33%  Similarity=0.542  Sum_probs=20.8

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+++|+|+.|.||||||+.+.-
T Consensus       361 ~G~~lgIIGPSgSGKSTLaR~lvG  384 (580)
T COG4618         361 AGEALGIIGPSGSGKSTLARLLVG  384 (580)
T ss_pred             CCceEEEECCCCccHHHHHHHHHc
Confidence            345899999999999999999863

>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis

Probab=95.03  E-value=0.035  Score=48.91  Aligned_cols=35  Identities=31%  Similarity=0.446  Sum_probs=29.7

Q ss_pred             hhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          189 EEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       189 ~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      +.+++|.+.|.        + ++++++|..|+|||||...+..+
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            56788888882        3 68999999999999999999875

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.

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=95.02  E-value=0.12  Score=54.00  Aligned_cols=24  Identities=33%  Similarity=0.371  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ..|++++|+.|+||||++..+...
T Consensus       256 g~Vi~LvGpnGvGKTTTiaKLA~~  279 (484)
T PRK06995        256 GGVFALMGPTGVGKTTTTAKLAAR  279 (484)
T ss_pred             CcEEEEECCCCccHHHHHHHHHHH
Confidence            479999999999999999888763

>PRK04040 adenylate kinase; Provisional

Probab=95.02  E-value=0.018  Score=52.58  Aligned_cols=23  Identities=35%  Similarity=0.645  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..+|+|+|++|+||||+++.+.+
T Consensus         2 ~~~i~v~G~pG~GKtt~~~~l~~   24 (188)
T PRK04040          2 MKVVVVTGVPGVGKTTVLNKALE   24 (188)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHH
Confidence            35899999999999999999876

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=95.00  E-value=0.032  Score=47.46  Aligned_cols=40  Identities=25%  Similarity=0.121  Sum_probs=28.3

Q ss_pred             hhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          189 EEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       189 ~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ++..++-+.|...-    ....+|.+.|.-|.||||+++.+.+.
T Consensus         6 ~~t~~l~~~l~~~l----~~~~~i~l~G~lGaGKTtl~~~l~~~   45 (133)
T TIGR00150         6 KAMDKFGKAFAKPL----DFGTVVLLKGDLGAGKTTLVQGLLQG   45 (133)
T ss_pred             HHHHHHHHHHHHhC----CCCCEEEEEcCCCCCHHHHHHHHHHH
Confidence            34445555553221    23458999999999999999999874

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.

>KOG1259 consensus Nischarin, modulator of integrin alpha5 subunit action [Signal transduction mechanisms; Cytoskeleton]

Probab=94.99  E-value=0.008  Score=57.17  Aligned_cols=100  Identities=18%  Similarity=0.285  Sum_probs=72.3

Q ss_pred             hHHHHHHHhh-----hhhhccc--ccccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCc
Q 045152          401 VKEWQRILDS-----EMWKENI--SIMPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRL  473 (533)
Q Consensus       401 ~~~w~~~l~~-----~~~~~~~--~ilp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L  473 (533)
                      .+.|+.+-.-     .+..+.+  ..+|.++.|.+++ ..+..+- ++..+.+|+.|++++-. |.++-  ...-+|.|+
T Consensus       280 ~dTWq~LtelDLS~N~I~~iDESvKL~Pkir~L~lS~-N~i~~v~-nLa~L~~L~~LDLS~N~-Ls~~~--Gwh~KLGNI  354 (490)
T KOG1259|consen  280 ADTWQELTELDLSGNLITQIDESVKLAPKLRRLILSQ-NRIRTVQ-NLAELPQLQLLDLSGNL-LAECV--GWHLKLGNI  354 (490)
T ss_pred             cchHhhhhhccccccchhhhhhhhhhccceeEEeccc-cceeeeh-hhhhcccceEeecccch-hHhhh--hhHhhhcCE
Confidence            4567665432     2222333  4578999999998 4444433 37788999999999644 66665  455678999


Q ss_pred             ceEEeccCCCCCCCCcCCCCCCCcceeeccCCch
Q 045152          474 SSLRIEYCPKLKLLPDSLLQITTLKELGMEGSPL  507 (533)
Q Consensus       474 ~~L~l~~C~~l~~lP~~~~~l~~L~~L~~~~c~~  507 (533)
                      +.|+|.+ ..+.+|. ++++|-+|..||++++.+
T Consensus       355 KtL~La~-N~iE~LS-GL~KLYSLvnLDl~~N~I  386 (490)
T KOG1259|consen  355 KTLKLAQ-NKIETLS-GLRKLYSLVNLDLSSNQI  386 (490)
T ss_pred             eeeehhh-hhHhhhh-hhHhhhhheeccccccch
Confidence            9999988 6778877 899999999999998864

>PRK00131 aroK shikimate kinase; Reviewed

Probab=94.98  E-value=0.018  Score=51.70  Aligned_cols=25  Identities=32%  Similarity=0.434  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ....|.|+|++|+||||+|+.+.+.
T Consensus         3 ~~~~i~l~G~~GsGKstla~~La~~   27 (175)
T PRK00131          3 KGPNIVLIGFMGAGKSTIGRLLAKR   27 (175)
T ss_pred             CCCeEEEEcCCCCCHHHHHHHHHHH
Confidence            3458999999999999999999863

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=94.96  E-value=0.026  Score=50.45  Aligned_cols=26  Identities=23%  Similarity=0.348  Sum_probs=22.5

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ....+++|+|..|+|||||++.+...
T Consensus         4 ~~~~ii~ivG~sgsGKTTLi~~li~~   29 (173)
T PRK10751          4 TMIPLLAIAAWSGTGKTTLLKKLIPA   29 (173)
T ss_pred             CCceEEEEECCCCChHHHHHHHHHHH
Confidence            35679999999999999999998863

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

Probab=94.96  E-value=0.019  Score=51.98  Aligned_cols=23  Identities=39%  Similarity=0.534  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .+++|+|+.|+|||||++.+...
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~   24 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARAR   24 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            37899999999999999988763

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.

>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component

Probab=94.93  E-value=0.1  Score=48.14  Aligned_cols=25  Identities=36%  Similarity=0.445  Sum_probs=21.8

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ...+++|+|..|.|||||.+.+...
T Consensus        25 ~Ge~~~i~G~nGsGKStLl~~l~G~   49 (200)
T cd03217          25 KGEVHALMGPNGSGKSTLAKTIMGH   49 (200)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCC
Confidence            4469999999999999999988764

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.

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=94.90  E-value=0.17  Score=45.09  Aligned_cols=117  Identities=15%  Similarity=0.129  Sum_probs=60.4

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcchhhhccCCceE--EEEeCCchhHHHHHHHHHHHh-----CCC----CCCC-cc---
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVI--WVCVSDTFEEIRVAKAIIEGL-----GVS----ASGL-SE---  273 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~--wv~vs~~~~~~~l~~~il~~l-----~~~----~~~~-~~---  273 (533)
                      ...|-|++..|.||||.|-.+.-. .....+...+  |+--........++..+  .+     +..    ..+. .+   
T Consensus         5 ~Gli~v~~g~GkGKtt~a~g~a~r-a~~~g~~v~ivQFlKg~~~~GE~~~l~~~--~~~~~~~g~g~~~~~~~~~~~~~~   81 (173)
T TIGR00708         5 RGIIIVHTGNGKGKTTAAFGMALR-ALGHGKKVGVIQFIKGAWPNGERAAFEPH--GVEFQVMGTGFTWETQNREADTAI   81 (173)
T ss_pred             ccEEEEECCCCCChHHHHHHHHHH-HHHCCCeEEEEEEecCCcccChHHHHHhc--CcEEEECCCCCeecCCCcHHHHHH
Confidence            367888888999999999555432 1222232211  22222122333333332  11     110    0011 11   


Q ss_pred             HHHHHHHHHHHhCC-ceEEEEEeCCCC---CCccccchhhhcccCCCCCceEEEEecch
Q 045152          274 FESLMKQIQEYITR-KKFFLVLDDVWD---GDYKKWNPFFSCLKNGHHESKILITTRDR  328 (533)
Q Consensus       274 ~~~l~~~l~~~l~~-kr~LlVLDdv~~---~~~~~~~~l~~~l~~~~~gs~IiiTtR~~  328 (533)
                      ..+..+..++.+.. +--|+|||.+-.   ...-..+.+...+.....+.-||+|-|+.
T Consensus        82 ~~~~~~~a~~~l~~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evVlTGR~~  140 (173)
T TIGR00708        82 AKAAWQHAKEMLADPELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRGC  140 (173)
T ss_pred             HHHHHHHHHHHHhcCCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEEEECCCC
Confidence            12233334444444 456999999832   11233445666666666677899999985

Alternate name: corrinoid adenosyltransferase.

>PRK00625 shikimate kinase; Provisional

Probab=94.89  E-value=0.019  Score=51.67  Aligned_cols=21  Identities=33%  Similarity=0.457  Sum_probs=19.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045152          211 VISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .|.|+||+|+||||+++.+.+
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~   22 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAK   22 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            378999999999999999976

>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=94.89  E-value=0.023  Score=47.67  Aligned_cols=27  Identities=37%  Similarity=0.566  Sum_probs=18.1

Q ss_pred             EEEEcCCCChHHHHHHHHhcchhhhccCC
Q 045152          212 ISLVGLGGIGKTTLAQLAYNNDEVKRNFE  240 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~~~~~~~F~  240 (533)
                      |.|+|.+|+||||+|+.+..  .+...|.
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            67999999999999999986  3555564

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.

>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR)

Probab=94.87  E-value=0.15  Score=46.78  Aligned_cols=24  Identities=25%  Similarity=0.344  Sum_probs=21.4

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+++|.|+.|.|||||.+.+..
T Consensus        34 ~Ge~~~l~G~nGsGKStLl~~i~G   57 (194)
T cd03213          34 PGELTAIMGPSGAGKSTLLNALAG   57 (194)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhC
Confidence            446899999999999999999876

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.

>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=94.87  E-value=0.62  Score=47.41  Aligned_cols=155  Identities=15%  Similarity=0.098  Sum_probs=81.3

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRK  288 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~k  288 (533)
                      -+--.++||+|.|||+++.++.+..    .|+..- +..+...+-.+ ++.++..                      ...
T Consensus       235 KRGYLLYGPPGTGKSS~IaAmAn~L----~ydIyd-LeLt~v~~n~d-Lr~LL~~----------------------t~~  286 (457)
T KOG0743|consen  235 KRGYLLYGPPGTGKSSFIAAMANYL----NYDIYD-LELTEVKLDSD-LRHLLLA----------------------TPN  286 (457)
T ss_pred             hccceeeCCCCCCHHHHHHHHHhhc----CCceEE-eeeccccCcHH-HHHHHHh----------------------CCC
Confidence            3567899999999999999998742    232211 11111111111 2222211                      234


Q ss_pred             eEEEEEeCCCCC--------C-c---------cccchhhhccc--C-CCCCceEE-EEecchHHHh--hhC---CCCeee
Q 045152          289 KFFLVLDDVWDG--------D-Y---------KKWNPFFSCLK--N-GHHESKIL-ITTRDRSVAL--QLG---SIDIIP  341 (533)
Q Consensus       289 r~LlVLDdv~~~--------~-~---------~~~~~l~~~l~--~-~~~gs~Ii-iTtR~~~v~~--~~~---~~~~~~  341 (533)
                      +-+||+.|++-.        . .         -.+.-|+.++.  + ...+-||| +||...+-..  .+.   .+..+.
T Consensus       287 kSIivIEDIDcs~~l~~~~~~~~~~~~~~~~~VTlSGLLNfiDGlwSscg~ERIivFTTNh~EkLDPALlRpGRmDmhI~  366 (457)
T KOG0743|consen  287 KSILLIEDIDCSFDLRERRKKKKENFEGDLSRVTLSGLLNFLDGLWSSCGDERIIVFTTNHKEKLDPALLRPGRMDMHIY  366 (457)
T ss_pred             CcEEEEeecccccccccccccccccccCCcceeehHHhhhhhccccccCCCceEEEEecCChhhcCHhhcCCCcceeEEE
Confidence            566777777431        0 0         01112333332  1 12234555 5666543322  112   256788


Q ss_pred             CCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHHHHHHh-hcc
Q 045152          342 VKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLL-RSK  398 (533)
Q Consensus       342 l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~~~~L-~~~  398 (533)
                      |..=+.+....||.+......   +    ..+..+|.+...|.-+.-..++..| ..+
T Consensus       367 mgyCtf~~fK~La~nYL~~~~---~----h~L~~eie~l~~~~~~tPA~V~e~lm~~~  417 (457)
T KOG0743|consen  367 MGYCTFEAFKTLASNYLGIEE---D----HRLFDEIERLIEETEVTPAQVAEELMKNK  417 (457)
T ss_pred             cCCCCHHHHHHHHHHhcCCCC---C----cchhHHHHHHhhcCccCHHHHHHHHhhcc
Confidence            999999999999998764211   2    2345566666666666655555544 444

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

Probab=94.86  E-value=0.035  Score=48.00  Aligned_cols=39  Identities=26%  Similarity=0.336  Sum_probs=27.8

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCC
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD  249 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~  249 (533)
                      .+|.|+|..|+|||||++.+.+. ..+..+...+..+...
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~-l~~~g~~v~~ik~~~~   39 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINE-LKRRGYRVAVIKHTDH   39 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHH-HHHTT--EEEEEE-ST
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH-HhHcCCceEEEEEccC
Confidence            37999999999999999999985 2345666666666544

>TIGR03522 GldA_ABC_ATP gliding motility-associated ABC transporter ATP-binding subunit GldA

Probab=94.86  E-value=0.21  Score=49.44  Aligned_cols=24  Identities=21%  Similarity=0.415  Sum_probs=21.3

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+++|+|+.|.|||||.+.+..
T Consensus        27 ~Gei~~l~G~NGaGKTTLl~~l~G   50 (301)
T TIGR03522        27 KGRIVGFLGPNGAGKSTTMKIITG   50 (301)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhC
Confidence            446899999999999999999875

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.

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=94.85  E-value=0.017  Score=52.47  Aligned_cols=21  Identities=29%  Similarity=0.311  Sum_probs=19.2

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045152          211 VISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +|.|+|++|+||||+|+.+..
T Consensus         1 ~i~i~G~pGsGKst~a~~la~   21 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVE   21 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            578999999999999999875

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.

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=94.85  E-value=0.045  Score=51.68  Aligned_cols=39  Identities=36%  Similarity=0.501  Sum_probs=28.2

Q ss_pred             hHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          190 EKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       190 e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      +..++++.+....    ++..+|+|.|++|+|||||...+...
T Consensus        14 ~~~~ll~~l~~~~----g~a~~iGiTG~PGaGKSTli~~l~~~   52 (266)
T PF03308_consen   14 EARELLKRLYPHT----GRAHVIGITGPPGAGKSTLIDALIRE   52 (266)
T ss_dssp             HHHHHHHHHGGGT----T-SEEEEEEE-TTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhc----CCceEEEeeCCCCCcHHHHHHHHHHH
Confidence            4556666665432    46789999999999999999887653

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.

>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=94.84  E-value=0.69  Score=40.15  Aligned_cols=84  Identities=13%  Similarity=0.218  Sum_probs=59.8

Q ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHHhccccCChHHHHHHHHHHhhccchhhhH
Q 045152            2 VDAIVSSLLGQLTSVAADEVKQHVRLVTGVGEEVKKLTSNLRAIRAVLEDAEKRQMQRDNAVTFWLDQLRDASYDMEDVL   81 (533)
Q Consensus         2 a~~~v~~~l~kl~~~l~~~~~~e~~~~~~~~~~~~~L~~~L~~i~~~l~~ae~~~~~~~~~~~~Wl~~lrd~ayd~eD~l   81 (533)
                      ||-+.+++++...+.+...+.+..+.....+.-+++|..+++.|.-++++.+.....-+..-+.-+++|.+...++++++
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            44455555555555444446666666667788899999999999999998887543323333666888999999999998


Q ss_pred             HHHH
Q 045152           82 DEWT   85 (533)
Q Consensus        82 D~~~   85 (533)
                      +.|.
T Consensus        83 ~k~s   86 (147)
T PF05659_consen   83 EKCS   86 (147)
T ss_pred             HHhc
Confidence            8774

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 [].

>TIGR03263 guanyl_kin guanylate kinase

Probab=94.82  E-value=0.022  Score=51.52  Aligned_cols=22  Identities=32%  Similarity=0.561  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ++|+|+|+.|+|||||++.+..
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~   23 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLE   23 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHc
Confidence            4799999999999999999987

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.

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR

Probab=94.82  E-value=0.05  Score=57.85  Aligned_cols=46  Identities=15%  Similarity=0.195  Sum_probs=37.3

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      +++|....+.++.+.+..-.    .....|.|.|..|.||+++|+.+++.
T Consensus       213 ~iiG~S~~m~~~~~~i~~~A----~~~~pVLI~GE~GTGKe~lA~~IH~~  258 (526)
T TIGR02329       213 DLLGASAPMEQVRALVRLYA----RSDATVLILGESGTGKELVAQAIHQL  258 (526)
T ss_pred             heeeCCHHHHHHHHHHHHHh----CCCCcEEEECCCCcCHHHHHHHHHHh
Confidence            58999998888888774333    23467899999999999999999863

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.

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=94.82  E-value=0.046  Score=46.70  Aligned_cols=70  Identities=17%  Similarity=0.246  Sum_probs=40.9

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRK  288 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~k  288 (533)
                      ..-|.|.|-+|+|||||++.+..-.       ..-|+++|+-.....++...=+..   ....-+.+.+.+.|...+.+.
T Consensus         7 ~PNILvtGTPG~GKstl~~~lae~~-------~~~~i~isd~vkEn~l~~gyDE~y---~c~i~DEdkv~D~Le~~m~~G   76 (176)
T KOG3347|consen    7 RPNILVTGTPGTGKSTLAERLAEKT-------GLEYIEISDLVKENNLYEGYDEEY---KCHILDEDKVLDELEPLMIEG   76 (176)
T ss_pred             CCCEEEeCCCCCCchhHHHHHHHHh-------CCceEehhhHHhhhcchhcccccc---cCccccHHHHHHHHHHHHhcC
Confidence            4568899999999999999998521       134677665433333222211111   122345566666676666543

>cd04159 Arl10_like Arl10-like subfamily

Probab=94.81  E-value=0.13  Score=44.69  Aligned_cols=21  Identities=48%  Similarity=0.640  Sum_probs=19.2

Q ss_pred             EEEEcCCCChHHHHHHHHhcc
Q 045152          212 ISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~  232 (533)
                      |+|+|..|+|||||.+.+...
T Consensus         2 i~i~G~~~~GKssl~~~l~~~   22 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAGG   22 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHccC
Confidence            689999999999999999875

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.

>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=94.79  E-value=0.8  Score=45.37  Aligned_cols=49  Identities=29%  Similarity=0.182  Sum_probs=32.6

Q ss_pred             eeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchh
Q 045152          339 IIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAA  388 (533)
Q Consensus       339 ~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai  388 (533)
                      ++++++++.+|+..++....-.+-- .....-+...+++....+|+|.-+
T Consensus       258 ~i~v~~~s~~E~~~ll~yy~~~~~l-~~~~~~~~~~e~~~~~s~GNp~el  306 (309)
T PF10236_consen  258 PIEVPRLSKEEARSLLEYYADSGWL-RSRVDEELVLEKLFLSSNGNPREL  306 (309)
T ss_pred             eEEeCCCCHHHHHHHHHHHHHCCcc-ccCCCCHHHHHHHHHhcCCCHHHh
Confidence            7899999999999999887642211 111223445566666679998643

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).

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=94.77  E-value=0.14  Score=49.72  Aligned_cols=87  Identities=20%  Similarity=0.161  Sum_probs=47.4

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCC-------CCccHHHHHH
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSAS-------GLSEFESLMK  279 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~-------~~~~~~~l~~  279 (533)
                      .+..++.|+|.+|.|||||...+.+.  ..... ..+.+ ..+..+..+  .+.++..+.+..       --.+...+..
T Consensus       102 ~~~~~v~l~G~pGsGKTTLl~~l~~~--l~~~~-~~~VI-~gD~~t~~D--a~rI~~~g~pvvqi~tG~~Chl~a~mv~~  175 (290)
T PRK10463        102 RKQLVLNLVSSPGSGKTTLLTETLMR--LKDSV-PCAVI-EGDQQTVND--AARIRATGTPAIQVNTGKGCHLDAQMIAD  175 (290)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHH--hccCC-CEEEE-CCCcCcHHH--HHHHHhcCCcEEEecCCCCCcCcHHHHHH
Confidence            57899999999999999999988863  22333 22222 222222222  122333332210       0122334455


Q ss_pred             HHHHHhCCceEEEEEeCCCC
Q 045152          280 QIQEYITRKKFFLVLDDVWD  299 (533)
Q Consensus       280 ~l~~~l~~kr~LlVLDdv~~  299 (533)
                      .+........-++|++++..
T Consensus       176 Al~~L~~~~~d~liIEnvGn  195 (290)
T PRK10463        176 AAPRLPLDDNGILFIENVGN  195 (290)
T ss_pred             HHHHHhhcCCcEEEEECCCC
Confidence            55554444456788999843

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

Probab=94.76  E-value=0.031  Score=50.80  Aligned_cols=36  Identities=36%  Similarity=0.445  Sum_probs=27.7

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEE
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVC  246 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~  246 (533)
                      .++|.|+|+.|+|||||++.+..  .....|...+..+
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~--~~~~~~~~~v~~T   37 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQ--EFPDKFGRVVSHT   37 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHH--HSTTTEEEEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH--hcccccccceeec
Confidence            46899999999999999999987  3445665555544

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 ....

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=94.76  E-value=0.2  Score=47.33  Aligned_cols=42  Identities=19%  Similarity=0.290  Sum_probs=30.3

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT  250 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~  250 (533)
                      +....+.|.|.+|.||||||..+.... .+ .-..++|++....
T Consensus        18 ~~G~~~~i~G~~G~GKT~l~~~~~~~~-~~-~g~~~~~is~e~~   59 (229)
T TIGR03881        18 PRGFFVAVTGEPGTGKTIFCLHFAYKG-LR-DGDPVIYVTTEES   59 (229)
T ss_pred             cCCeEEEEECCCCCChHHHHHHHHHHH-Hh-cCCeEEEEEccCC
Confidence            456899999999999999998765421 22 3456788876443

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.

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=94.76  E-value=0.2  Score=53.08  Aligned_cols=60  Identities=20%  Similarity=0.122  Sum_probs=38.1

Q ss_pred             HHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHH
Q 045152          192 NELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKA  259 (533)
Q Consensus       192 ~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~  259 (533)
                      ..+-+.|..+-    ..-+++.|.|++|+|||||+.++...  ...+-..+++++..+.  ..++...
T Consensus       250 ~~lD~~lgGG~----~~gs~~li~G~~G~GKt~l~~~f~~~--~~~~ge~~~y~s~eEs--~~~i~~~  309 (484)
T TIGR02655       250 VRLDEMCGGGF----FKDSIILATGATGTGKTLLVSKFLEN--ACANKERAILFAYEES--RAQLLRN  309 (484)
T ss_pred             HhHHHHhcCCc----cCCcEEEEECCCCCCHHHHHHHHHHH--HHHCCCeEEEEEeeCC--HHHHHHH
Confidence            44555553332    46789999999999999999777653  2223345677765543  3444444

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.

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=94.72  E-value=0.044  Score=55.20  Aligned_cols=112  Identities=15%  Similarity=0.155  Sum_probs=60.1

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRK  288 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~k  288 (533)
                      ...|.|.|+.|.||||+.+.+.+.  +..+....++. +.++...  .......-+.....+ .........++..++..
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--VHRNKRSLINQREVG-LDTLSFANALRAALRED  195 (343)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHh--hCcCCCCEEEE-EcCChhh--hccCccceEEccccC-CCCcCHHHHHHHhhccC
Confidence            468999999999999999988763  33344455543 3332211  100000000000001 11123455677778888


Q ss_pred             eEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecchHHH
Q 045152          289 KFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRSVA  331 (533)
Q Consensus       289 r~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~~v~  331 (533)
                      +=.|++|++.+.  +.+....   .....|..++.|.-..+..
T Consensus       196 pd~i~vgEird~--~~~~~~l---~aa~tGh~v~~T~Ha~~~~  233 (343)
T TIGR01420       196 PDVILIGEMRDL--ETVELAL---TAAETGHLVFGTLHTNSAA  233 (343)
T ss_pred             CCEEEEeCCCCH--HHHHHHH---HHHHcCCcEEEEEcCCCHH
Confidence            889999999543  3333322   2233456566666554443

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.

>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic

Probab=94.71  E-value=0.1  Score=52.01  Aligned_cols=21  Identities=38%  Similarity=0.434  Sum_probs=18.6

Q ss_pred             EEEEcCCCChHHHHHHHHhcc
Q 045152          212 ISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~  232 (533)
                      +.+.|++|.||||+++.+.+.
T Consensus         2 ~~l~Gl~GaGKST~~~~l~~~   22 (340)
T TIGR03575         2 CVLCGLPAAGKSTLARSLSAT   22 (340)
T ss_pred             eEEECCCCCCHHHHHHHHHHH
Confidence            578999999999999998864

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.

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=94.71  E-value=0.11  Score=52.03  Aligned_cols=83  Identities=24%  Similarity=0.380  Sum_probs=51.0

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCC-----CccHHHHHHHHH
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASG-----LSEFESLMKQIQ  282 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~-----~~~~~~l~~~l~  282 (533)
                      .-++|.|-|.+|||||||.-++..+  ....- .+.+|+-.+...-.   +--.++++....+     ..+++.+...+.
T Consensus        92 ~Gs~iLIgGdPGIGKSTLLLQva~~--lA~~~-~vLYVsGEES~~Qi---klRA~RL~~~~~~l~l~aEt~~e~I~~~l~  165 (456)
T COG1066          92 PGSVILIGGDPGIGKSTLLLQVAAR--LAKRG-KVLYVSGEESLQQI---KLRADRLGLPTNNLYLLAETNLEDIIAELE  165 (456)
T ss_pred             cccEEEEccCCCCCHHHHHHHHHHH--HHhcC-cEEEEeCCcCHHHH---HHHHHHhCCCccceEEehhcCHHHHHHHHH
Confidence            4679999999999999999888874  33333 67777644432211   2223455533221     234444444443


Q ss_pred             HHhCCceEEEEEeCCCC
Q 045152          283 EYITRKKFFLVLDDVWD  299 (533)
Q Consensus       283 ~~l~~kr~LlVLDdv~~  299 (533)
                         ..++-++|+|-+..
T Consensus       166 ---~~~p~lvVIDSIQT  179 (456)
T COG1066         166 ---QEKPDLVVIDSIQT  179 (456)
T ss_pred             ---hcCCCEEEEeccce
Confidence               36788999999843

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=94.70  E-value=0.14  Score=46.75  Aligned_cols=42  Identities=29%  Similarity=0.392  Sum_probs=27.1

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcchhhhccC--------CceEEEEeCCch
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNNDEVKRNF--------EKVIWVCVSDTF  251 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F--------~~~~wv~vs~~~  251 (533)
                      .++.|.|++|+||||++..+.........|        ..++|++.....
T Consensus        33 ~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~~   82 (193)
T PF13481_consen   33 ELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDSE   82 (193)
T ss_dssp             SEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS-H
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCCH
Confidence            478899999999999997776542222222        367788766653

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

Probab=94.65  E-value=0.044  Score=52.92  Aligned_cols=43  Identities=26%  Similarity=0.264  Sum_probs=34.6

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCch
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTF  251 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~  251 (533)
                      +..+++.|+|.+|+|||+++.++...  ...+...++||+.....
T Consensus        21 p~g~~~lI~G~pGsGKT~f~~qfl~~--~~~~ge~vlyvs~~e~~   63 (260)
T COG0467          21 PRGSVVLITGPPGTGKTIFALQFLYE--GAREGEPVLYVSTEESP   63 (260)
T ss_pred             cCCcEEEEEcCCCCcHHHHHHHHHHH--HHhcCCcEEEEEecCCH
Confidence            56789999999999999999776652  44458889999877653

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=94.64  E-value=0.042  Score=51.81  Aligned_cols=87  Identities=28%  Similarity=0.317  Sum_probs=48.4

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCC---------------CCC-
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVS---------------ASG-  270 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~---------------~~~-  270 (533)
                      +..+++.|.|.+|+|||+|+.++... ..+..=..++|++...+.  .++.+.+- .++..               ... 
T Consensus        17 p~gs~~li~G~~GsGKT~l~~q~l~~-~~~~~ge~vlyvs~ee~~--~~l~~~~~-s~g~d~~~~~~~g~l~~~d~~~~~   92 (226)
T PF06745_consen   17 PKGSVVLISGPPGSGKTTLALQFLYN-GLKNFGEKVLYVSFEEPP--EELIENMK-SFGWDLEEYEDSGKLKIIDAFPER   92 (226)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHH-HHHHHT--EEEEESSS-H--HHHHHHHH-TTTS-HHHHHHTTSEEEEESSGGG
T ss_pred             CCCcEEEEEeCCCCCcHHHHHHHHHH-hhhhcCCcEEEEEecCCH--HHHHHHHH-HcCCcHHHHhhcCCEEEEeccccc
Confidence            45679999999999999999665432 222213467888876543  33333322 33211               000 


Q ss_pred             ----CccHHHHHHHHHHHhCC-ceEEEEEeCC
Q 045152          271 ----LSEFESLMKQIQEYITR-KKFFLVLDDV  297 (533)
Q Consensus       271 ----~~~~~~l~~~l~~~l~~-kr~LlVLDdv  297 (533)
                          ..+.+.+...+.+.++. +...+|+|.+
T Consensus        93 ~~~~~~~~~~l~~~i~~~i~~~~~~~vVIDsl  124 (226)
T PF06745_consen   93 IGWSPNDLEELLSKIREAIEELKPDRVVIDSL  124 (226)
T ss_dssp             ST-TSCCHHHHHHHHHHHHHHHTSSEEEEETH
T ss_pred             ccccccCHHHHHHHHHHHHHhcCCCEEEEECH
Confidence                23455555555555543 3367777776

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 ....

>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=94.64  E-value=0.49  Score=45.39  Aligned_cols=96  Identities=23%  Similarity=0.274  Sum_probs=58.8

Q ss_pred             ceeechhhHHHHHHHHhCCC------ccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHH
Q 045152          183 EVCGRVEEKNELLSKLLCES------SEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRV  256 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~------~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l  256 (533)
                      ++-|.+..++.|.+...-.-      .......+-|.++|++|.||+.||+.|.....       .-|.+||...     
T Consensus       134 DVAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATEAn-------STFFSvSSSD-----  201 (439)
T KOG0739|consen  134 DVAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEAN-------STFFSVSSSD-----  201 (439)
T ss_pred             hhccchhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHHHHHHhhcC-------CceEEeehHH-----
Confidence            46788888888777542111      00124578899999999999999999987421       2234454432     


Q ss_pred             HHHHHHHhCCCCCCCccHHHHHHHHHHHh-CCceEEEEEeCCCC
Q 045152          257 AKAIIEGLGVSASGLSEFESLMKQIQEYI-TRKKFFLVLDDVWD  299 (533)
Q Consensus       257 ~~~il~~l~~~~~~~~~~~~l~~~l~~~l-~~kr~LlVLDdv~~  299 (533)
                         ++....+      +.+.++..|.+.. .+|+-+|.+|.++.
T Consensus       202 ---LvSKWmG------ESEkLVknLFemARe~kPSIIFiDEiDs  236 (439)
T KOG0739|consen  202 ---LVSKWMG------ESEKLVKNLFEMARENKPSIIFIDEIDS  236 (439)
T ss_pred             ---HHHHHhc------cHHHHHHHHHHHHHhcCCcEEEeehhhh
Confidence               1222111      1234455555544 45889999999853

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=94.63  E-value=0.14  Score=55.02  Aligned_cols=25  Identities=28%  Similarity=0.361  Sum_probs=21.8

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +....++|+|+.|.|||||++.+..
T Consensus       359 ~~G~~vaIvG~SGsGKSTLl~lL~g  383 (529)
T TIGR02868       359 PPGERVAILGPSGSGKSTLLMLLTG  383 (529)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhc
Confidence            3557899999999999999999864

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.

>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]

Probab=94.63  E-value=0.19  Score=55.97  Aligned_cols=137  Identities=18%  Similarity=0.254  Sum_probs=80.5

Q ss_pred             hhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCC
Q 045152          188 VEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVS  267 (533)
Q Consensus       188 ~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~  267 (533)
                      ...+.+|.+.+.        .-.|+.|.|..|.||||-.-+++-+.-.  .....+-++-........+...+.++++..
T Consensus        52 ~~~~~~i~~ai~--------~~~vvii~getGsGKTTqlP~~lle~g~--~~~g~I~~tQPRRlAArsvA~RvAeel~~~  121 (845)
T COG1643          52 TAVRDEILKAIE--------QNQVVIIVGETGSGKTTQLPQFLLEEGL--GIAGKIGCTQPRRLAARSVAERVAEELGEK  121 (845)
T ss_pred             HHHHHHHHHHHH--------hCCEEEEeCCCCCChHHHHHHHHHhhhc--ccCCeEEecCchHHHHHHHHHHHHHHhCCC
Confidence            356778888773        4569999999999999988444432111  223445444455566778888888888764


Q ss_pred             CCC-------------------CccHHHHHHHHH-HHhCCceEEEEEeCCCCCCccccchhhhccc----CCCCCceEEE
Q 045152          268 ASG-------------------LSEFESLMKQIQ-EYITRKKFFLVLDDVWDGDYKKWNPFFSCLK----NGHHESKILI  323 (533)
Q Consensus       268 ~~~-------------------~~~~~~l~~~l~-~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~----~~~~gs~Iii  323 (533)
                      ..+                   .++...+...++ +.+-.+--.+|+|.+++-+. .-+-++..+.    .-..--||||
T Consensus       122 ~G~~VGY~iRfe~~~s~~Trik~mTdGiLlrei~~D~~Ls~ys~vIiDEaHERSl-~tDilLgllk~~~~~rr~DLKiIi  200 (845)
T COG1643         122 LGETVGYSIRFESKVSPRTRIKVMTDGILLREIQNDPLLSGYSVVIIDEAHERSL-NTDILLGLLKDLLARRRDDLKLII  200 (845)
T ss_pred             cCceeeEEEEeeccCCCCceeEEeccHHHHHHHhhCcccccCCEEEEcchhhhhH-HHHHHHHHHHHHHhhcCCCceEEE
Confidence            211                   122334444443 33344556899999987542 2222333222    2222478999


Q ss_pred             Eecc---hHHHhhhC
Q 045152          324 TTRD---RSVALQLG  335 (533)
Q Consensus       324 TtR~---~~v~~~~~  335 (533)
                      +|=.   +..+..++
T Consensus       201 mSATld~~rfs~~f~  215 (845)
T COG1643         201 MSATLDAERFSAYFG  215 (845)
T ss_pred             EecccCHHHHHHHcC
Confidence            8754   34444444

>TIGR03498 FliI_clade3 flagellar protein export ATPase FliI

Probab=94.63  E-value=0.19  Score=51.59  Aligned_cols=87  Identities=22%  Similarity=0.227  Sum_probs=48.3

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCC-------CCCCccHHH----
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVS-------ASGLSEFES----  276 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~-------~~~~~~~~~----  276 (533)
                      ....++|+|..|+|||||++.+.....   ....++...-...-.+.++....+..-+..       ..+......    
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            446899999999999999998886421   222222222222334555555544332211       111111111    


Q ss_pred             -HHHHHHHHh--CCceEEEEEeCC
Q 045152          277 -LMKQIQEYI--TRKKFFLVLDDV  297 (533)
Q Consensus       277 -l~~~l~~~l--~~kr~LlVLDdv  297 (533)
                       ....+.+++  +++.+|+++||+
T Consensus       216 ~~a~~iAEyfrd~G~~Vll~~Dsl  239 (418)
T TIGR03498       216 YTATAIAEYFRDQGKDVLLLMDSV  239 (418)
T ss_pred             HHHHHHHHHHHHcCCCEEEeccch
Confidence             222244444  578999999999

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.

>PRK06002 fliI flagellum-specific ATP synthase; Validated

Probab=94.61  E-value=0.19  Score=51.85  Aligned_cols=87  Identities=22%  Similarity=0.182  Sum_probs=47.4

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCC-----C-CCCccH-----HH
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVS-----A-SGLSEF-----ES  276 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~-----~-~~~~~~-----~~  276 (533)
                      ....++|+|..|+|||||++.+....   .....++++.-...-++.++....+......     . .+....     ..
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            45689999999999999999887532   2223444443223334444444333332110     1 111111     11


Q ss_pred             HHHHHHHHh--CCceEEEEEeCC
Q 045152          277 LMKQIQEYI--TRKKFFLVLDDV  297 (533)
Q Consensus       277 l~~~l~~~l--~~kr~LlVLDdv  297 (533)
                      ....+.+++  +++.+|+++||+
T Consensus       241 ~a~~iAEyfrd~G~~Vll~~Dsl  263 (450)
T PRK06002        241 TATAIAEYFRDRGENVLLIVDSV  263 (450)
T ss_pred             HHHHHHHHHHHcCCCEEEeccch
Confidence            122233343  478999999999

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

Probab=94.61  E-value=0.021  Score=51.86  Aligned_cols=22  Identities=36%  Similarity=0.540  Sum_probs=19.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhcc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      +|+|.|.+|+||||||+.+...
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~   22 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRI   22 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999999863

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.

>PRK06217 hypothetical protein; Validated

Probab=94.61  E-value=0.023  Score=51.64  Aligned_cols=22  Identities=32%  Similarity=0.422  Sum_probs=19.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhcc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .|.|.|.+|.||||+|+.+.+.
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~   24 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAER   24 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999999999864

>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=94.61  E-value=0.026  Score=47.01  Aligned_cols=21  Identities=33%  Similarity=0.552  Sum_probs=19.2

Q ss_pred             EEEEcCCCChHHHHHHHHhcc
Q 045152          212 ISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~  232 (533)
                      |.|+|..|+|||||.+.+...
T Consensus         2 I~V~G~~g~GKTsLi~~l~~~   22 (119)
T PF08477_consen    2 IVVLGDSGVGKTSLIRRLCGG   22 (119)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECcCCCCHHHHHHHHhcC
Confidence            789999999999999999865

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.

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=94.60  E-value=0.026  Score=50.97  Aligned_cols=23  Identities=26%  Similarity=0.349  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ++|.+.|++|+||||+|+.+...
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~   25 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSV   25 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHh
Confidence            48999999999999999998763

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

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=94.60  E-value=0.21  Score=51.33  Aligned_cols=25  Identities=40%  Similarity=0.405  Sum_probs=21.4

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ....+|.++|..|+||||++..+..
T Consensus        98 ~~~~vi~lvG~~GvGKTTtaaKLA~  122 (429)
T TIGR01425        98 GKQNVIMFVGLQGSGKTTTCTKLAY  122 (429)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3468999999999999999977764

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.

>PRK00300 gmk guanylate kinase; Provisional

Probab=94.60  E-value=0.027  Score=52.20  Aligned_cols=25  Identities=32%  Similarity=0.391  Sum_probs=22.0

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ...+|+|+|+.|+|||||++.+...
T Consensus         4 ~g~~i~i~G~sGsGKstl~~~l~~~   28 (205)
T PRK00300          4 RGLLIVLSGPSGAGKSTLVKALLER   28 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhh
Confidence            4568999999999999999999863

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=94.59  E-value=0.13  Score=46.00  Aligned_cols=78  Identities=15%  Similarity=0.210  Sum_probs=44.2

Q ss_pred             EEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCC---ccHHHHHHHHHHHhCCc
Q 045152          212 ISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGL---SEFESLMKQIQEYITRK  288 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~---~~~~~l~~~l~~~l~~k  288 (533)
                      +.|.|.+|.|||++|.++...     ....++++.....++. ++.+.|.+.....+..-   .....+...+.+. . +
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~-----~~~~~~y~at~~~~d~-em~~rI~~H~~~R~~~w~t~E~~~~l~~~l~~~-~-~   73 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAE-----LGGPVTYIATAEAFDD-EMAERIARHRKRRPAHWRTIETPRDLVSALKEL-D-P   73 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHh-----cCCCeEEEEccCcCCH-HHHHHHHHHHHhCCCCceEeecHHHHHHHHHhc-C-C
Confidence            679999999999999887642     2346777777766654 34444443222221111   1122333333221 2 2


Q ss_pred             eEEEEEeCC
Q 045152          289 KFFLVLDDV  297 (533)
Q Consensus       289 r~LlVLDdv  297 (533)
                      .-.+++|.+
T Consensus        74 ~~~VLIDcl   82 (169)
T cd00544          74 GDVVLIDCL   82 (169)
T ss_pred             CCEEEEEcH
Confidence            337899987

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.

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=94.59  E-value=0.12  Score=49.75  Aligned_cols=41  Identities=20%  Similarity=0.327  Sum_probs=29.8

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCC
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD  249 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~  249 (533)
                      +..+++.|.|++|.|||++|.++... ..+ .=..+++++...
T Consensus        34 p~gs~~lI~G~pGtGKT~l~~qf~~~-~a~-~Ge~vlyis~Ee   74 (259)
T TIGR03878        34 PAYSVINITGVSDTGKSLMVEQFAVT-QAS-RGNPVLFVTVES   74 (259)
T ss_pred             ECCcEEEEEcCCCCCHHHHHHHHHHH-HHh-CCCcEEEEEecC
Confidence            45679999999999999999776542 122 234677888754

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>PRK07594 type III secretion system ATPase SsaN; Validated

Probab=94.58  E-value=0.2  Score=51.53  Aligned_cols=86  Identities=17%  Similarity=0.258  Sum_probs=50.0

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCC-chhHHHHHHHHHHHhCCC-------CCCCccHHH---
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD-TFEEIRVAKAIIEGLGVS-------ASGLSEFES---  276 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~l~~~il~~l~~~-------~~~~~~~~~---  276 (533)
                      ....++|+|..|+|||||.+.+.+..    +.+..++..+.+ ...+.+++.+....-...       ..+......   
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            45689999999999999999998632    344455555554 334445555543211000       111111111   


Q ss_pred             --HHHHHHHHh--CCceEEEEEeCC
Q 045152          277 --LMKQIQEYI--TRKKFFLVLDDV  297 (533)
Q Consensus       277 --l~~~l~~~l--~~kr~LlVLDdv  297 (533)
                        ....+.+++  +++++|+++||+
T Consensus       230 ~~~a~tiAEyfrd~G~~VLl~~Dsl  254 (433)
T PRK07594        230 LFVATTIAEFFRDNGKRVVLLADSL  254 (433)
T ss_pred             HHHHHHHHHHHHHCCCcEEEEEeCH
Confidence              122233444  578999999999

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

Probab=94.56  E-value=0.024  Score=49.65  Aligned_cols=22  Identities=27%  Similarity=0.566  Sum_probs=19.2

Q ss_pred             EEEEEcCCCChHHHHHHHHhcc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ++.|.|++|+||||+|+.+...
T Consensus         1 li~l~G~~GsGKST~a~~l~~~   22 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAER   22 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhh
Confidence            3688999999999999998763

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

>PRK14738 gmk guanylate kinase; Provisional

Probab=94.51  E-value=0.037  Score=51.40  Aligned_cols=25  Identities=16%  Similarity=0.287  Sum_probs=22.4

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .....|.|+|++|+|||||++.+.+
T Consensus        11 ~~~~~ivi~GpsG~GK~tl~~~L~~   35 (206)
T PRK14738         11 AKPLLVVISGPSGVGKDAVLARMRE   35 (206)
T ss_pred             CCCeEEEEECcCCCCHHHHHHHHHh
Confidence            4678899999999999999999875

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=94.49  E-value=0.092  Score=53.38  Aligned_cols=51  Identities=20%  Similarity=0.226  Sum_probs=35.8

Q ss_pred             CceeechhhHHHHHHHHhCC--------CccCCCCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          182 GEVCGRVEEKNELLSKLLCE--------SSEQQKGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~--------~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ..++|.++.+..+.-.+...        .-.....++.|.++|++|+|||++|+.+...
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            35788888887776655432        0001123467899999999999999999863

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.

>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family

Probab=94.49  E-value=0.033  Score=50.78  Aligned_cols=118  Identities=19%  Similarity=0.180  Sum_probs=56.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCC---CCCccHHHHHHHHHHHhCC
Q 045152          211 VISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSA---SGLSEFESLMKQIQEYITR  287 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~---~~~~~~~~l~~~l~~~l~~  287 (533)
                      ++.|+|+.|.||||+.+.+.-.. +-.+-.+.+|-.  . .. ......++..++...   ........-...+...+..
T Consensus         1 ~~~ltG~N~~GKst~l~~i~~~~-~la~~G~~v~a~--~-~~-~~~~d~il~~~~~~d~~~~~~s~fs~~~~~l~~~l~~   75 (185)
T smart00534        1 VVIITGPNMGGKSTYLRQVGLIV-IMAQIGSFVPAE--S-AE-LPVFDRIFTRIGASDSLAQGLSTFMVEMKETANILKN   75 (185)
T ss_pred             CEEEECCCCCcHHHHHHHHHHHH-HHHHhCCCeeeh--h-eE-ecccceEEEEeCCCCchhccccHHHHHHHHHHHHHHh
Confidence            46799999999999998887321 111111111110  0 00 000111111111111   1111222223334444433


Q ss_pred             --ceEEEEEeCCCCCC-ccccch----hhhcccCCCCCceEEEEecchHHHhhh
Q 045152          288 --KKFFLVLDDVWDGD-YKKWNP----FFSCLKNGHHESKILITTRDRSVALQL  334 (533)
Q Consensus       288 --kr~LlVLDdv~~~~-~~~~~~----l~~~l~~~~~gs~IiiTtR~~~v~~~~  334 (533)
                        ++-|+++|+.-..- ...-..    +...+.. ..++.+|++|...++....
T Consensus        76 ~~~~~llllDEp~~g~d~~~~~~~~~~~l~~l~~-~~~~~iii~TH~~~l~~~~  128 (185)
T smart00534       76 ATENSLVLLDELGRGTSTYDGVAIAAAVLEYLLE-KIGALTLFATHYHELTKLA  128 (185)
T ss_pred             CCCCeEEEEecCCCCCCHHHHHHHHHHHHHHHHh-cCCCeEEEEecHHHHHHHh
Confidence              78899999985431 111111    2222222 1367799999988776654

>PRK14737 gmk guanylate kinase; Provisional

Probab=94.48  E-value=0.037  Score=50.44  Aligned_cols=25  Identities=20%  Similarity=0.324  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ...+|.|+|++|+|||||++.+...
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~~   27 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLEE   27 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhc
Confidence            4678999999999999999999863

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=94.47  E-value=0.12  Score=48.69  Aligned_cols=52  Identities=17%  Similarity=0.089  Sum_probs=29.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhcchh-----hhccCCceEEEEeCCchhHHHHHHHHHH
Q 045152          211 VISLVGLGGIGKTTLAQLAYNNDE-----VKRNFEKVIWVCVSDTFEEIRVAKAIIE  262 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~~~-----~~~~F~~~~wv~vs~~~~~~~l~~~il~  262 (533)
                      +..|+|++|.||||++..+.....     ....-...+-++...+..+..++..+.+
T Consensus        19 ~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~   75 (236)
T PF13086_consen   19 ITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKK   75 (236)
T ss_dssp             -EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC
T ss_pred             CEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHh
Confidence            788999999999987755554320     1133445555555555555555555554

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=94.46  E-value=0.083  Score=52.97  Aligned_cols=63  Identities=22%  Similarity=0.184  Sum_probs=45.4

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHH
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAK  258 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~  258 (533)
                      .++|+++....+...+...        +.+.+.|++|+|||+||+.+...  ..   ...++|.+.......++.-
T Consensus        25 ~~~g~~~~~~~~l~a~~~~--------~~vll~G~PG~gKT~la~~lA~~--l~---~~~~~i~~t~~l~p~d~~G   87 (329)
T COG0714          25 VVVGDEEVIELALLALLAG--------GHVLLEGPPGVGKTLLARALARA--LG---LPFVRIQCTPDLLPSDLLG   87 (329)
T ss_pred             eeeccHHHHHHHHHHHHcC--------CCEEEECCCCccHHHHHHHHHHH--hC---CCeEEEecCCCCCHHHhcC
Confidence            4788888888877777644        35889999999999999999863  22   3345666666666655443

>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=94.46  E-value=0.026  Score=49.02  Aligned_cols=21  Identities=38%  Similarity=0.613  Sum_probs=19.3

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045152          211 VISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +|.|+|++|+||||+|+.+..
T Consensus         1 ~I~i~G~~GsGKst~a~~la~   21 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAK   21 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998886

>PTZ00185 ATPase alpha subunit; Provisional

Probab=94.45  E-value=0.22  Score=51.82  Aligned_cols=90  Identities=18%  Similarity=0.218  Sum_probs=53.1

Q ss_pred             CeEEEEEEcCCCChHHHHH-HHHhcchhhh-----ccCCceEEEEeCCchhHHHHHHHHHHHhCC-C-------CCCCcc
Q 045152          208 GLHVISLVGLGGIGKTTLA-QLAYNNDEVK-----RNFEKVIWVCVSDTFEEIRVAKAIIEGLGV-S-------ASGLSE  273 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA-~~v~~~~~~~-----~~F~~~~wv~vs~~~~~~~l~~~il~~l~~-~-------~~~~~~  273 (533)
                      +..-++|.|..|+|||+|| ..+.+...+.     .+-..++++.+.+......-+.+.+++-+. +       ..+...
T Consensus       188 RGQR~lIfGd~GtGKTtLAld~IinQ~~~~~~~~~~~~~v~VyvaIGeR~rEV~ei~~~L~e~GaL~~TvVV~AtAdep~  267 (574)
T PTZ00185        188 RGQRELIVGDRQTGKTSIAVSTIINQVRINQQILSKNAVISIYVSIGQRCSNVARIHRLLRSYGALRYTTVMAATAAEPA  267 (574)
T ss_pred             CCCEEEeecCCCCChHHHHHHHHHhhhhhccccccCCCCEEEEEEeccchHHHHHHHHHHHhcCCccceEEEEECCCCCH
Confidence            4567899999999999997 6666653221     244578888888766543334444444331 1       011111


Q ss_pred             HH-----HHHHHHHHHh--CCceEEEEEeCC
Q 045152          274 FE-----SLMKQIQEYI--TRKKFFLVLDDV  297 (533)
Q Consensus       274 ~~-----~l~~~l~~~l--~~kr~LlVLDdv  297 (533)
                      ..     -....+.+++  +++..|+|+||+
T Consensus       268 ~~r~~Apy~a~tiAEYFrd~GkdVLiv~DDL  298 (574)
T PTZ00185        268 GLQYLAPYSGVTMGEYFMNRGRHCLCVYDDL  298 (574)
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCCEEEEEcCc
Confidence            11     1112233333  578999999999

>cd01878 HflX HflX subfamily

Probab=94.43  E-value=0.074  Score=49.18  Aligned_cols=26  Identities=35%  Similarity=0.535  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcch
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNND  233 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~  233 (533)
                      ....|+|+|.+|+|||||...+....
T Consensus        40 ~~~~I~iiG~~g~GKStLl~~l~~~~   65 (204)
T cd01878          40 GIPTVALVGYTNAGKSTLFNALTGAD   65 (204)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHhcch
Confidence            45689999999999999999888753

A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.

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

Probab=94.43  E-value=0.057  Score=51.80  Aligned_cols=62  Identities=27%  Similarity=0.283  Sum_probs=38.0

Q ss_pred             HHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHH
Q 045152          192 NELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVA  257 (533)
Q Consensus       192 ~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~  257 (533)
                      .+++..+...    .++..+|+|.|.||+|||||...+-....-+.+--.++=|.=|.+++--.++
T Consensus        38 ~~ll~~l~p~----tG~a~viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlAVDPSSp~TGGsiL   99 (323)
T COG1703          38 RELLRALYPR----TGNAHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLAVDPSSPFTGGSIL   99 (323)
T ss_pred             HHHHHHHhhc----CCCCcEEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEEECCCCCCCCcccc
Confidence            4455555433    3678899999999999999998877643223332233334445555544443

>cd00116 LRR_RI Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily

Probab=94.42  E-value=0.0099  Score=59.13  Aligned_cols=84  Identities=19%  Similarity=0.113  Sum_probs=51.6

Q ss_pred             ccccceEEEeecCCc----ccCCccccccCccceeecccCCCCC-----CCCCccCCCCCCCcceEEeccCCCCCC----
Q 045152          420 MPCLSVLRVYLCPKL----KVLPDYLLQTTTLQKLRILQCPSME-----ELPILEDHIFLPRLSSLRIEYCPKLKL----  486 (533)
Q Consensus       420 lp~L~~L~l~~c~~l----~~lp~~l~~l~~L~~L~l~~~~~l~-----~lp~~~~~~~l~~L~~L~l~~C~~l~~----  486 (533)
                      ++.|+.|++++|.--    ..++..+...++|++|++++|. +.     .++  ..+..+++|++|++++|+ +..    
T Consensus       164 ~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~-i~~~~~~~l~--~~~~~~~~L~~L~ls~n~-l~~~~~~  239 (319)
T cd00116         164 NRDLKELNLANNGIGDAGIRALAEGLKANCNLEVLDLNNNG-LTDEGASALA--ETLASLKSLEVLNLGDNN-LTDAGAA  239 (319)
T ss_pred             CCCcCEEECcCCCCchHHHHHHHHHHHhCCCCCEEeccCCc-cChHHHHHHH--HHhcccCCCCEEecCCCc-CchHHHH
Confidence            346788888775422    2344444555788888888775 33     223  345567888889988874 432    


Q ss_pred             -CCcCC-CCCCCcceeeccCCch
Q 045152          487 -LPDSL-LQITTLKELGMEGSPL  507 (533)
Q Consensus       487 -lP~~~-~~l~~L~~L~~~~c~~  507 (533)
                       +...+ .+.+.|++|++++|..
T Consensus       240 ~l~~~~~~~~~~L~~L~l~~n~i  262 (319)
T cd00116         240 ALASALLSPNISLLTLSLSCNDI  262 (319)
T ss_pred             HHHHHHhccCCCceEEEccCCCC
Confidence             11111 1247888898888864

LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond to structural units consisting of a beta strand (LxxLxLxxN/CxL conserved pattern) and an alpha helix. This alignment contains 12 strands corresponding to 11 full repeats, consistent with the extent observed in the subfamily acting as Ran GTPase Activating Proteins (RanGAP1).

>KOG4194 consensus Membrane glycoprotein LIG-1 [Signal transduction mechanisms]

Probab=94.41  E-value=0.014  Score=60.53  Aligned_cols=103  Identities=17%  Similarity=0.266  Sum_probs=0.0

Q ss_pred             cccceEEEeecCCcccCCccccc-------------------------cCccceeeccc---CCCCCCCCCccCCCCCCC
Q 045152          421 PCLSVLRVYLCPKLKVLPDYLLQ-------------------------TTTLQKLRILQ---CPSMEELPILEDHIFLPR  472 (533)
Q Consensus       421 p~L~~L~l~~c~~l~~lp~~l~~-------------------------l~~L~~L~l~~---~~~l~~lp~~~~~~~l~~  472 (533)
                      +.|+.|++++ ..+..++++-..                         +.+|+.|+|..   ...++.-.  .-+..|++
T Consensus       317 qkL~~LdLs~-N~i~~l~~~sf~~L~~Le~LnLs~Nsi~~l~e~af~~lssL~~LdLr~N~ls~~IEDaa--~~f~gl~~  393 (873)
T KOG4194|consen  317 QKLKELDLSS-NRITRLDEGSFRVLSQLEELNLSHNSIDHLAEGAFVGLSSLHKLDLRSNELSWCIEDAA--VAFNGLPS  393 (873)
T ss_pred             ccceeEeccc-cccccCChhHHHHHHHhhhhcccccchHHHHhhHHHHhhhhhhhcCcCCeEEEEEecch--hhhccchh


Q ss_pred             cceEEeccCCCCCCCC-cCCCCCCCcceeeccCCchhHHhhccCCCCCCcccccCCcccccC
Q 045152          473 LSSLRIEYCPKLKLLP-DSLLQITTLKELGMEGSPLLEKRYEEGKGEDWRKISHIPHIMRSA  533 (533)
Q Consensus       473 L~~L~l~~C~~l~~lP-~~~~~l~~L~~L~~~~c~~l~~~~~~~~~~~~~~~~~i~~~~~~~  533 (533)
                      |+.|.+.| .+||.+| .-+..|.+|++|++-++++-.=+..+     +.+| |...+++++
T Consensus       394 LrkL~l~g-Nqlk~I~krAfsgl~~LE~LdL~~NaiaSIq~nA-----Fe~m-~Lk~Lv~nS  448 (873)
T KOG4194|consen  394 LRKLRLTG-NQLKSIPKRAFSGLEALEHLDLGDNAIASIQPNA-----FEPM-ELKELVMNS  448 (873)
T ss_pred             hhheeecC-ceeeecchhhhccCcccceecCCCCcceeecccc-----cccc-hhhhhhhcc

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=94.40  E-value=0.037  Score=49.41  Aligned_cols=24  Identities=33%  Similarity=0.501  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ...+.|.|++|+|||||++.++++
T Consensus         4 G~l~vlsgPSG~GKsTl~k~L~~~   27 (191)
T COG0194           4 GLLIVLSGPSGVGKSTLVKALLED   27 (191)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhh
Confidence            468899999999999999999975

>PF13245 AAA_19: Part of AAA domain

Probab=94.40  E-value=0.1  Score=39.71  Aligned_cols=23  Identities=26%  Similarity=0.225  Sum_probs=16.9

Q ss_pred             eEEEEEEcCCCChHHHHH-HHHhc
Q 045152          209 LHVISLVGLGGIGKTTLA-QLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA-~~v~~  231 (533)
                      .+++.|.|++|.|||+++ +.+..
T Consensus        10 ~~~~vv~g~pGtGKT~~~~~~i~~   33 (76)
T PF13245_consen   10 SPLFVVQGPPGTGKTTTLAARIAE   33 (76)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH
Confidence            357888999999999555 44443

>PHA02774 E1; Provisional

Probab=94.40  E-value=0.12  Score=54.49  Aligned_cols=49  Identities=12%  Similarity=0.057  Sum_probs=32.7

Q ss_pred             HHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeC
Q 045152          191 KNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVS  248 (533)
Q Consensus       191 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs  248 (533)
                      ...+..+|.     +.++...+.|+|++|.|||.+|-.+.+-  .  .-..+.||+..
T Consensus       421 l~~lk~~l~-----~~PKknciv~~GPP~TGKS~fa~sL~~~--L--~G~vi~fvN~~  469 (613)
T PHA02774        421 LTALKDFLK-----GIPKKNCLVIYGPPDTGKSMFCMSLIKF--L--KGKVISFVNSK  469 (613)
T ss_pred             HHHHHHHHh-----cCCcccEEEEECCCCCCHHHHHHHHHHH--h--CCCEEEEEECc
Confidence            345555552     2245569999999999999999888762  1  12345677653

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=94.40  E-value=0.028  Score=50.26  Aligned_cols=21  Identities=38%  Similarity=0.550  Sum_probs=18.1

Q ss_pred             EEEEcCCCChHHHHHHHHhcc
Q 045152          212 ISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~  232 (533)
                      |.|.|.+|+|||||++.+.+.
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            689999999999999998864

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.

>PRK08972 fliI flagellum-specific ATP synthase; Validated

Probab=94.39  E-value=0.2  Score=51.52  Aligned_cols=86  Identities=17%  Similarity=0.235  Sum_probs=51.1

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCch-hHHHHHHHHHHHhCCC-------CCCCccHH----
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTF-EEIRVAKAIIEGLGVS-------ASGLSEFE----  275 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~-~~~~l~~~il~~l~~~-------~~~~~~~~----  275 (533)
                      ....++|+|..|+|||||++.+...    ...+.++++-+.+.. .+.++..+++..-+..       ..+.....    
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 KGQRMGLFAGSGVGKSVLLGMMTRG----TTADVIVVGLVGERGREVKEFIEEILGEEGRARSVVVAAPADTSPLMRLKG  236 (444)
T ss_pred             CCCEEEEECCCCCChhHHHHHhccC----CCCCEEEEEEEcCChHHHHHHHHHhhccCCcccEEEEEECCCCCHHHHHHH
Confidence            4467999999999999999999863    122455566565543 3455666554432111       11111111    


Q ss_pred             -HHHHHHHHHh--CCceEEEEEeCC
Q 045152          276 -SLMKQIQEYI--TRKKFFLVLDDV  297 (533)
Q Consensus       276 -~l~~~l~~~l--~~kr~LlVLDdv  297 (533)
                       ...-.+.+++  +++.+|+++||+
T Consensus       237 ~~~A~tiAEyfrd~G~~VLl~~Dsl  261 (444)
T PRK08972        237 CETATTIAEYFRDQGLNVLLLMDSL  261 (444)
T ss_pred             HHHHHHHHHHHHHcCCCEEEEEcCh
Confidence             1122233444  579999999999

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=94.39  E-value=0.033  Score=50.77  Aligned_cols=23  Identities=30%  Similarity=0.420  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .++.|+|+.|+|||||++.+...
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~   25 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQR   25 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcc
Confidence            37899999999999999999763

>PF13479 AAA_24: AAA domain

Probab=94.38  E-value=0.16  Score=47.35  Aligned_cols=21  Identities=43%  Similarity=0.360  Sum_probs=18.4

Q ss_pred             eEEEEEEcCCCChHHHHHHHH
Q 045152          209 LHVISLVGLGGIGKTTLAQLA  229 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v  229 (533)
                      .-.+.|+|.+|+||||+|..+
T Consensus         3 ~~~~lIyG~~G~GKTt~a~~~   23 (213)
T PF13479_consen    3 PIKILIYGPPGSGKTTLAASL   23 (213)
T ss_pred             ceEEEEECCCCCCHHHHHHhC
Confidence            356889999999999999876

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=94.38  E-value=0.029  Score=48.34  Aligned_cols=21  Identities=38%  Similarity=0.586  Sum_probs=19.1

Q ss_pred             EEEEcCCCChHHHHHHHHhcc
Q 045152          212 ISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~  232 (533)
                      |+|+|+.|+|||||++.+...
T Consensus         2 i~i~GpsGsGKstl~~~L~~~   22 (137)
T cd00071           2 IVLSGPSGVGKSTLLKRLLEE   22 (137)
T ss_pred             EEEECCCCCCHHHHHHHHHhc
Confidence            789999999999999999863

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.

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=94.38  E-value=0.32  Score=48.32  Aligned_cols=26  Identities=38%  Similarity=0.474  Sum_probs=22.5

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ....++.++|++|+||||++..+...
T Consensus       112 ~~~~vi~lvGpnGsGKTTt~~kLA~~  137 (318)
T PRK10416        112 KKPFVILVVGVNGVGKTTTIGKLAHK  137 (318)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHH
Confidence            35689999999999999999888753

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional

Probab=94.37  E-value=0.08  Score=56.31  Aligned_cols=47  Identities=19%  Similarity=0.309  Sum_probs=37.8

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .+++|....++++.+.+....    .....|.|.|..|.||+++|+.+++.
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            358999998888888775433    23457899999999999999999874

>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=94.36  E-value=0.062  Score=54.24  Aligned_cols=76  Identities=18%  Similarity=0.215  Sum_probs=46.1

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhh----hccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHH
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEV----KRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQ  282 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~----~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~  282 (533)
                      ..++-+-|+|..|.|||.|.-.+|+...+    +-||..          =+.++.+.+-..-    .....    ...+.
T Consensus        60 ~~~~GlYl~G~vG~GKT~Lmd~f~~~lp~~~k~R~HFh~----------Fm~~vh~~l~~~~----~~~~~----l~~va  121 (362)
T PF03969_consen   60 PPPKGLYLWGPVGRGKTMLMDLFYDSLPIKRKRRVHFHE----------FMLDVHSRLHQLR----GQDDP----LPQVA  121 (362)
T ss_pred             CCCceEEEECCCCCchhHHHHHHHHhCCccccccccccH----------HHHHHHHHHHHHh----CCCcc----HHHHH
Confidence            45788999999999999999999986433    224321          1223333333222    11112    23344


Q ss_pred             HHhCCceEEEEEeCCCCC
Q 045152          283 EYITRKKFFLVLDDVWDG  300 (533)
Q Consensus       283 ~~l~~kr~LlVLDdv~~~  300 (533)
                      +.+.++..||.||++.-.
T Consensus       122 ~~l~~~~~lLcfDEF~V~  139 (362)
T PF03969_consen  122 DELAKESRLLCFDEFQVT  139 (362)
T ss_pred             HHHHhcCCEEEEeeeecc
Confidence            555667779999998543

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

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

Probab=94.32  E-value=0.032  Score=49.10  Aligned_cols=20  Identities=40%  Similarity=0.712  Sum_probs=18.2

Q ss_pred             EEEEEcCCCChHHHHHHHHh
Q 045152          211 VISLVGLGGIGKTTLAQLAY  230 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~  230 (533)
                      .|+|.|.+|+||||++..+-
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            48999999999999998876

>KOG3665 consensus ZYG-1-like serine/threonine protein kinases [General function prediction only]

Probab=94.31  E-value=0.024  Score=62.13  Aligned_cols=83  Identities=22%  Similarity=0.199  Sum_probs=43.1

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCC-------cCCC
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLP-------DSLL  492 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP-------~~~~  492 (533)
                      +|+|..|++|. +++..+ .++..|++|+.|.+.+.+ ++.-+.+.++..|++|+.|++|. .+-..-|       +.-.
T Consensus       172 FpNL~sLDIS~-TnI~nl-~GIS~LknLq~L~mrnLe-~e~~~~l~~LF~L~~L~vLDIS~-~~~~~~~~ii~qYlec~~  247 (699)
T KOG3665|consen  172 FPNLRSLDISG-TNISNL-SGISRLKNLQVLSMRNLE-FESYQDLIDLFNLKKLRVLDISR-DKNNDDTKIIEQYLECGM  247 (699)
T ss_pred             cCccceeecCC-CCccCc-HHHhccccHHHHhccCCC-CCchhhHHHHhcccCCCeeeccc-cccccchHHHHHHHHhcc
Confidence            45555555555 444444 345555666665555443 33333334555677777777765 3322222       1122


Q ss_pred             CCCCcceeeccCCc
Q 045152          493 QITTLKELGMEGSP  506 (533)
Q Consensus       493 ~l~~L~~L~~~~c~  506 (533)
                      .|++|+.||++|+-
T Consensus       248 ~LpeLrfLDcSgTd  261 (699)
T KOG3665|consen  248 VLPELRFLDCSGTD  261 (699)
T ss_pred             cCccccEEecCCcc
Confidence            36677777777664

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=94.29  E-value=0.18  Score=55.63  Aligned_cols=85  Identities=21%  Similarity=0.182  Sum_probs=56.3

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCC-----CCccHHHHHHHH
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSAS-----GLSEFESLMKQI  281 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~-----~~~~~~~l~~~l  281 (533)
                      +..+++-|.|++|+|||||+.++...  ....-..++||.....++.     ..+++++....     .....+.....+
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--AQAAGGVAAFIDAEHALDP-----DYAKKLGVDTDSLLVSQPDTGEQALEIA  130 (790)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEECCccchhH-----HHHHHcCCChhHeEEecCCCHHHHHHHH
Confidence            46788999999999999999776542  2233356889988777764     25666665421     122334455555


Q ss_pred             HHHhC-CceEEEEEeCCC
Q 045152          282 QEYIT-RKKFFLVLDDVW  298 (533)
Q Consensus       282 ~~~l~-~kr~LlVLDdv~  298 (533)
                      ...++ ++.-|+|+|-+-
T Consensus       131 ~~lv~~~~~~LVVIDSI~  148 (790)
T PRK09519        131 DMLIRSGALDIVVIDSVA  148 (790)
T ss_pred             HHHhhcCCCeEEEEcchh
Confidence            55554 356789999984

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=94.29  E-value=0.4  Score=46.65  Aligned_cols=59  Identities=8%  Similarity=0.082  Sum_probs=39.9

Q ss_pred             CceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecc-hHHHhh-hCCCCeeeCCCC
Q 045152          287 RKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRD-RSVALQ-LGSIDIIPVKEL  345 (533)
Q Consensus       287 ~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~-~~v~~~-~~~~~~~~l~~L  345 (533)
                      ++.-++|+|+++..+.+.+..++..+.....++.+|++|.+ ..+... ......+.+.++
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            45568899999888878888888888776667777666665 444322 223455666544

>KOG1859 consensus Leucine-rich repeat proteins [General function prediction only]

Probab=94.27  E-value=0.0087  Score=63.50  Aligned_cols=82  Identities=18%  Similarity=0.253  Sum_probs=62.7

Q ss_pred             ccccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCc
Q 045152          418 SIMPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTL  497 (533)
Q Consensus       418 ~ilp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L  497 (533)
                      ..+|+++.|++++ ..+...- .+..++.|++|+|+ .+.|..+|-+..  --..|+.|+|+| +.|++|- ++.+|++|
T Consensus       184 qll~ale~LnLsh-Nk~~~v~-~Lr~l~~LkhLDls-yN~L~~vp~l~~--~gc~L~~L~lrn-N~l~tL~-gie~LksL  256 (1096)
T KOG1859|consen  184 QLLPALESLNLSH-NKFTKVD-NLRRLPKLKHLDLS-YNCLRHVPQLSM--VGCKLQLLNLRN-NALTTLR-GIENLKSL  256 (1096)
T ss_pred             HHHHHhhhhccch-hhhhhhH-HHHhcccccccccc-cchhccccccch--hhhhheeeeecc-cHHHhhh-hHHhhhhh
Confidence            3578899999988 4444444 67788999999998 566888884222  234599999999 7888888 79999999


Q ss_pred             ceeeccCCc
Q 045152          498 KELGMEGSP  506 (533)
Q Consensus       498 ~~L~~~~c~  506 (533)
                      +.||++.+-
T Consensus       257 ~~LDlsyNl  265 (1096)
T KOG1859|consen  257 YGLDLSYNL  265 (1096)
T ss_pred             hccchhHhh
Confidence            999987653

>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]

Probab=94.26  E-value=0.35  Score=45.54  Aligned_cols=96  Identities=19%  Similarity=0.193  Sum_probs=55.3

Q ss_pred             ceeechhhHHHHHHHHhCCCcc-------CCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHH
Q 045152          183 EVCGRVEEKNELLSKLLCESSE-------QQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIR  255 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~-------~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~  255 (533)
                      ++=|=.++++++.+.....--+       +-+.+.-|.++|++|.|||-+|+.|.|  +....|     |.|-..     
T Consensus       178 dvggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravan--rtdacf-----irvigs-----  245 (435)
T KOG0729|consen  178 DVGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVAN--RTDACF-----IRVIGS-----  245 (435)
T ss_pred             cccchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhc--ccCceE-----EeehhH-----
Confidence            3456677788877754221100       123566788999999999999999998  343333     333221     


Q ss_pred             HHHHHHHHhCCCCCCCccHHHHHHHHHHHhCC-ceEEEEEeCCCC
Q 045152          256 VAKAIIEGLGVSASGLSEFESLMKQIQEYITR-KKFFLVLDDVWD  299 (533)
Q Consensus       256 l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~-kr~LlVLDdv~~  299 (533)
                         ++....-+      +.......+.+..+. |-++|.+|.++.
T Consensus       246 ---elvqkyvg------egarmvrelf~martkkaciiffdeida  281 (435)
T KOG0729|consen  246 ---ELVQKYVG------EGARMVRELFEMARTKKACIIFFDEIDA  281 (435)
T ss_pred             ---HHHHHHhh------hhHHHHHHHHHHhcccceEEEEeecccc
Confidence               11111111      112344455555555 568888998843

>PLN02348 phosphoribulokinase

Probab=94.26  E-value=0.23  Score=50.20  Aligned_cols=26  Identities=31%  Similarity=0.362  Sum_probs=23.3

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      +...+|+|.|.+|.||||+|+.+.+.
T Consensus        47 ~~p~IIGIaG~SGSGKSTfA~~L~~~   72 (395)
T PLN02348         47 DGTVVIGLAADSGCGKSTFMRRLTSV   72 (395)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            56789999999999999999998863

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=94.26  E-value=0.26  Score=51.01  Aligned_cols=90  Identities=20%  Similarity=0.165  Sum_probs=54.0

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCch-hHHHHHHHHHHHhCCC-------CCCCccHH---
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTF-EEIRVAKAIIEGLGVS-------ASGLSEFE---  275 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~-~~~~l~~~il~~l~~~-------~~~~~~~~---  275 (533)
                      ..-.-++|+|.+|+|||||+..+..+... .+-+.++++-+.+.. .+.+++.+++..-...       ..+.....   
T Consensus       142 gkGQR~gIfa~~GvGKt~Ll~~i~~~~~~-~~~~v~V~~liGER~rEv~efi~~~~~~~~l~rsvvV~atsd~p~~~r~~  220 (463)
T PRK09280        142 AKGGKIGLFGGAGVGKTVLIQELINNIAK-EHGGYSVFAGVGERTREGNDLYHEMKESGVLDKTALVFGQMNEPPGARLR  220 (463)
T ss_pred             ccCCEEEeecCCCCChhHHHHHHHHHHHh-cCCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHH
Confidence            34568999999999999999887653211 122456677665543 4566666666532111       11111111   


Q ss_pred             --HHHHHHHHHh---CCceEEEEEeCC
Q 045152          276 --SLMKQIQEYI---TRKKFFLVLDDV  297 (533)
Q Consensus       276 --~l~~~l~~~l---~~kr~LlVLDdv  297 (533)
                        ...-.+.+++   +++.+|+++|++
T Consensus       221 a~~~a~tiAEyfrd~~G~~VLll~Dsl  247 (463)
T PRK09280        221 VALTGLTMAEYFRDVEGQDVLLFIDNI  247 (463)
T ss_pred             HHHHHHHHHHHHHHhcCCceEEEecch
Confidence              1223345555   678999999999

>PRK13947 shikimate kinase; Provisional

Probab=94.25  E-value=0.032  Score=50.06  Aligned_cols=21  Identities=38%  Similarity=0.537  Sum_probs=19.3

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045152          211 VISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .|.|+|++|+||||+|+.+.+
T Consensus         3 ~I~l~G~~GsGKst~a~~La~   23 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVAT   23 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHH
Confidence            488999999999999999876

>TIGR00416 sms DNA repair protein RadA

Probab=94.25  E-value=0.33  Score=50.78  Aligned_cols=96  Identities=23%  Similarity=0.239  Sum_probs=53.1

Q ss_pred             HHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCC-
Q 045152          191 KNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSAS-  269 (533)
Q Consensus       191 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~-  269 (533)
                      ...+-+.|..+-    ....++.|.|.+|+|||||+.++...  ....-..++|++..+..  ..+... ++.++.... 
T Consensus        80 i~~LD~vLgGGi----~~GsvilI~G~pGsGKTTL~lq~a~~--~a~~g~kvlYvs~EEs~--~qi~~r-a~rlg~~~~~  150 (454)
T TIGR00416        80 FGELDRVLGGGI----VPGSLILIGGDPGIGKSTLLLQVACQ--LAKNQMKVLYVSGEESL--QQIKMR-AIRLGLPEPN  150 (454)
T ss_pred             cHHHHHHhcCCc----cCCeEEEEEcCCCCCHHHHHHHHHHH--HHhcCCcEEEEECcCCH--HHHHHH-HHHcCCChHH
Confidence            344545553322    45679999999999999999887653  22222357788755432  222221 233332211 


Q ss_pred             ----CCccHHHHHHHHHHHhCCceEEEEEeCCC
Q 045152          270 ----GLSEFESLMKQIQEYITRKKFFLVLDDVW  298 (533)
Q Consensus       270 ----~~~~~~~l~~~l~~~l~~kr~LlVLDdv~  298 (533)
                          ...+.+.+...+.+   .+.-++|+|.+-
T Consensus       151 l~~~~e~~~~~I~~~i~~---~~~~~vVIDSIq  180 (454)
T TIGR00416       151 LYVLSETNWEQICANIEE---ENPQACVIDSIQ  180 (454)
T ss_pred             eEEcCCCCHHHHHHHHHh---cCCcEEEEecch
Confidence                12234444444332   355689999884

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)).

>PRK15115 response regulator GlrR; Provisional

Probab=94.25  E-value=0.072  Score=55.85  Aligned_cols=46  Identities=24%  Similarity=0.208  Sum_probs=32.7

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .++|....+.++.+......    ..-..+.|.|.+|.|||++|+.+.+.
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            46777777766666543322    12345779999999999999999864

>PRK13949 shikimate kinase; Provisional

Probab=94.22  E-value=0.033  Score=49.91  Aligned_cols=22  Identities=45%  Similarity=0.499  Sum_probs=19.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhcc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      -|.|+|++|+||||+++.+.+.
T Consensus         3 ~I~liG~~GsGKstl~~~La~~   24 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALARE   24 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999998863

>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B

Probab=94.21  E-value=0.24  Score=47.65  Aligned_cols=90  Identities=16%  Similarity=0.188  Sum_probs=54.7

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhh--hccCCceEEEEeCCch-hHHHHHHHHHHHhCCC-------CCCCccHH--
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEV--KRNFEKVIWVCVSDTF-EEIRVAKAIIEGLGVS-------ASGLSEFE--  275 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~--~~~F~~~~wv~vs~~~-~~~~l~~~il~~l~~~-------~~~~~~~~--  275 (533)
                      .-.-++|+|-.|+|||+|+..+.++...  +.+-+.++++-+.+.. ++.+++.++...=...       ..+.....  
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            4567899999999999999888764321  1234678888887654 4556666665432111       11111111  


Q ss_pred             ---HHHHHHHHHh---CCceEEEEEeCC
Q 045152          276 ---SLMKQIQEYI---TRKKFFLVLDDV  297 (533)
Q Consensus       276 ---~l~~~l~~~l---~~kr~LlVLDdv  297 (533)
                         .....+.+++   .++++|+++||+
T Consensus       148 ~a~~~a~aiAEyfrd~~g~~VLl~~D~l  175 (276)
T cd01135         148 ITPRMALTTAEYLAYEKGKHVLVILTDM  175 (276)
T ss_pred             HHHHHHHHHHHHHHhccCCeEEEEEcCh
Confidence               1222344444   368999999999

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.

>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed

Probab=94.20  E-value=0.028  Score=62.76  Aligned_cols=176  Identities=19%  Similarity=0.164  Sum_probs=79.4

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCC---CCccHHHHHHHHHHH
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSAS---GLSEFESLMKQIQEY  284 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~---~~~~~~~l~~~l~~~  284 (533)
                      ..+++.|+|+.+.||||+.+.+.-.. +  ....-++|.+... ....++..|+..++....   ....+..-...+...
T Consensus       326 ~~~~~iITGpN~gGKTt~lktigl~~-~--maq~G~~vpa~~~-~~i~~~~~i~~~ig~~~si~~~lStfS~~m~~~~~I  401 (782)
T PRK00409        326 DKTVLVITGPNTGGKTVTLKTLGLAA-L--MAKSGLPIPANEP-SEIPVFKEIFADIGDEQSIEQSLSTFSGHMTNIVRI  401 (782)
T ss_pred             CceEEEEECCCCCCcHHHHHHHHHHH-H--HHHhCCCcccCCC-ccccccceEEEecCCccchhhchhHHHHHHHHHHHH
Confidence            45789999999999999998885321 0  0011112222110 001111112212221110   111111112222222


Q ss_pred             hC--CceEEEEEeCCCCCC-ccccchh----hhcccCCCCCceEEEEecchHHHhhhCCCCeeeCCCCCh-HhhHHHHHH
Q 045152          285 IT--RKKFFLVLDDVWDGD-YKKWNPF----FSCLKNGHHESKILITTRDRSVALQLGSIDIIPVKELAE-EECWSLLER  356 (533)
Q Consensus       285 l~--~kr~LlVLDdv~~~~-~~~~~~l----~~~l~~~~~gs~IiiTtR~~~v~~~~~~~~~~~l~~L~~-~~~~~Lf~~  356 (533)
                      +.  ..+-|++||...... ......+    ...+.  ..|+.+|+||....+.........+.-..+.. ++... +..
T Consensus       402 l~~~~~~sLvLlDE~~~GtDp~eg~ala~aile~l~--~~~~~vIitTH~~el~~~~~~~~~v~~~~~~~d~~~l~-~~Y  478 (782)
T PRK00409        402 LEKADKNSLVLFDELGAGTDPDEGAALAISILEYLR--KRGAKIIATTHYKELKALMYNREGVENASVEFDEETLR-PTY  478 (782)
T ss_pred             HHhCCcCcEEEecCCCCCCCHHHHHHHHHHHHHHHH--HCCCEEEEECChHHHHHHHhcCCCeEEEEEEEecCcCc-EEE
Confidence            22  477899999986432 1222223    22222  24788999999987766543311111000000 01100 000


Q ss_pred             hhccCCCccccccchHHHHHHHhHhCCCcchhHHHHHHhhc
Q 045152          357 LAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLLRS  397 (533)
Q Consensus       357 ~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~~~~L~~  397 (533)
                      ....|    .  .-...|-+|++++ |+|-.+..-|.-+-.
T Consensus       479 kl~~G----~--~g~S~a~~iA~~~-Glp~~ii~~A~~~~~  512 (782)
T PRK00409        479 RLLIG----I--PGKSNAFEIAKRL-GLPENIIEEAKKLIG  512 (782)
T ss_pred             EEeeC----C--CCCcHHHHHHHHh-CcCHHHHHHHHHHHh
Confidence            00000    0  1144577777776 788888777765543

>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=94.20  E-value=0.12  Score=49.36  Aligned_cols=77  Identities=21%  Similarity=0.184  Sum_probs=42.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchh--HHHHHHHHHHH----hCCCC--CCCccHHHHHHHHH
Q 045152          211 VISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFE--EIRVAKAIIEG----LGVSA--SGLSEFESLMKQIQ  282 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~--~~~l~~~il~~----l~~~~--~~~~~~~~l~~~l~  282 (533)
                      +|+|.|.+|+||||+++.+...  ....-..+..++...-+.  -...-..+...    .....  ++..+.+.+.+.++
T Consensus         1 IIgItG~SGSGKTTv~~~l~~~--l~~~g~~v~vI~~D~yyr~~r~~~~~~~~~a~~~~~nfdHf~PeAnd~dlL~~~l~   78 (277)
T cd02029           1 VIAVTGSSGAGTTTVKRAFEHI--FAREGIHPAVVEGDSFHRYERMEMKMAIAEALDAGRNFSHFGPEANLFDLLEELFR   78 (277)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH--HHhcCCceEEEeccccccCCchhHHHHHHHHhhcCCCCCCCCcccccHHHHHHHHH
Confidence            5899999999999999988753  221111244454332222  11222222221    12222  34556777777887


Q ss_pred             HHhCCce
Q 045152          283 EYITRKK  289 (533)
Q Consensus       283 ~~l~~kr  289 (533)
                      .+.+++.
T Consensus        79 ~L~~g~~   85 (277)
T cd02029          79 TYGETGR   85 (277)
T ss_pred             HHHcCCC
Confidence            7776553

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.

>PRK05973 replicative DNA helicase; Provisional

Probab=94.19  E-value=0.25  Score=46.64  Aligned_cols=50  Identities=22%  Similarity=0.134  Sum_probs=32.2

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHH
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAI  260 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~i  260 (533)
                      ....++.|.|.+|+|||+++.++.... .+. -..+++++....  ..++...+
T Consensus        62 ~~Gsl~LIaG~PG~GKT~lalqfa~~~-a~~-Ge~vlyfSlEes--~~~i~~R~  111 (237)
T PRK05973         62 KPGDLVLLGARPGHGKTLLGLELAVEA-MKS-GRTGVFFTLEYT--EQDVRDRL  111 (237)
T ss_pred             CCCCEEEEEeCCCCCHHHHHHHHHHHH-Hhc-CCeEEEEEEeCC--HHHHHHHH
Confidence            355689999999999999997765432 232 345666665543  34444443

>PRK08927 fliI flagellum-specific ATP synthase; Validated

Probab=94.19  E-value=0.3  Score=50.38  Aligned_cols=86  Identities=17%  Similarity=0.221  Sum_probs=50.5

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCch-hHHHHHHHHHHHhCCC-------CCCCccHH----
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTF-EEIRVAKAIIEGLGVS-------ASGLSEFE----  275 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~-~~~~l~~~il~~l~~~-------~~~~~~~~----  275 (533)
                      ....++|+|..|+|||||++.+.+..    ..+.++++-+.+.. .+.++..+.+..-+..       ..+.....    
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 RGQRMGIFAGSGVGKSVLLSMLARNA----DADVSVIGLIGERGREVQEFLQDDLGPEGLARSVVVVATSDEPALMRRQA  232 (442)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcc----CCCEEEEEEEecCcHHHHHHHHHHhhccCceeEEEEEECCCCCHHHHHHH
Confidence            45688999999999999999998642    22445555555543 3445554444432211       11111111    


Q ss_pred             -HHHHHHHHHh--CCceEEEEEeCC
Q 045152          276 -SLMKQIQEYI--TRKKFFLVLDDV  297 (533)
Q Consensus       276 -~l~~~l~~~l--~~kr~LlVLDdv  297 (533)
                       ...-.+.+++  .++.+|+++||+
T Consensus       233 ~~~a~tiAEyfrd~G~~Vll~~Dsl  257 (442)
T PRK08927        233 AYLTLAIAEYFRDQGKDVLCLMDSV  257 (442)
T ss_pred             HHHHHHHHHHHHHCCCcEEEEEeCc
Confidence             1222234444  578999999999

>COG4886 Leucine-rich repeat (LRR) protein [Function unknown]

Probab=94.18  E-value=0.014  Score=60.26  Aligned_cols=80  Identities=24%  Similarity=0.317  Sum_probs=58.1

Q ss_pred             ccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcceee
Q 045152          422 CLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKELG  501 (533)
Q Consensus       422 ~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~L~  501 (533)
                      .|+.|+++. ..+..+|..+..+++|+.|++++++ +..+|  ...+.+++|+.|++++ .++..+|..+..+..|++|.
T Consensus       141 nL~~L~l~~-N~i~~l~~~~~~l~~L~~L~l~~N~-l~~l~--~~~~~~~~L~~L~ls~-N~i~~l~~~~~~~~~L~~l~  215 (394)
T COG4886         141 NLKELDLSD-NKIESLPSPLRNLPNLKNLDLSFND-LSDLP--KLLSNLSNLNNLDLSG-NKISDLPPEIELLSALEELD  215 (394)
T ss_pred             hcccccccc-cchhhhhhhhhccccccccccCCch-hhhhh--hhhhhhhhhhheeccC-CccccCchhhhhhhhhhhhh
Confidence            577777776 6667777777778888888888666 77777  4444677888888877 67888887665566677777


Q ss_pred             ccCCc
Q 045152          502 MEGSP  506 (533)
Q Consensus       502 ~~~c~  506 (533)
                      +++.+
T Consensus       216 ~~~N~  220 (394)
T COG4886         216 LSNNS  220 (394)
T ss_pred             hcCCc
Confidence            77663

>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=94.17  E-value=0.045  Score=44.58  Aligned_cols=22  Identities=36%  Similarity=0.339  Sum_probs=19.8

Q ss_pred             eEEEEEEcCCCChHHHHHHHHh
Q 045152          209 LHVISLVGLGGIGKTTLAQLAY  230 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~  230 (533)
                      -..++|+|+.|.|||||+..+.
T Consensus        15 ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          15 KVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             CEEEEEEcCCCCCHHHHHHHhh
Confidence            4689999999999999999876

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

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

Probab=94.16  E-value=0.35  Score=48.74  Aligned_cols=89  Identities=25%  Similarity=0.290  Sum_probs=47.1

Q ss_pred             CeEEEEEEcCCCChHHH-HHHHHhcchhhhccCCceEEEEeCC-chhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHh
Q 045152          208 GLHVISLVGLGGIGKTT-LAQLAYNNDEVKRNFEKVIWVCVSD-TFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYI  285 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTt-LA~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l  285 (533)
                      +.++|.+||+.|+|||| ||+....-. ....-..+..|+... .....+-++...+-++.+-....+..++...+.. +
T Consensus       202 ~~~vi~LVGPTGVGKTTTlAKLAar~~-~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~vv~~~~el~~ai~~-l  279 (407)
T COG1419         202 QKRVIALVGPTGVGKTTTLAKLAARYV-MLKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPLEVVYSPKELAEAIEA-L  279 (407)
T ss_pred             cCcEEEEECCCCCcHHHHHHHHHHHHH-hhccCcceEEEEeccchhhHHHHHHHHHHHhCCceEEecCHHHHHHHHHH-h
Confidence            37899999999999975 555544321 122334566666432 1233344444455555543333344444444432 2


Q ss_pred             CCceEEEEEeCCCC
Q 045152          286 TRKKFFLVLDDVWD  299 (533)
Q Consensus       286 ~~kr~LlVLDdv~~  299 (533)
                      ++. =+|.+|-+..
T Consensus       280 ~~~-d~ILVDTaGr  292 (407)
T COG1419         280 RDC-DVILVDTAGR  292 (407)
T ss_pred             hcC-CEEEEeCCCC
Confidence            233 4566676654

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

Probab=94.14  E-value=0.04  Score=51.27  Aligned_cols=24  Identities=38%  Similarity=0.502  Sum_probs=21.0

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+++|+|..|.|||||++.+.-
T Consensus        32 ~Ge~lgivGeSGsGKSTL~r~l~G   55 (252)
T COG1124          32 RGETLGIVGESGSGKSTLARLLAG   55 (252)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhc
Confidence            456899999999999999999853

>PRK11823 DNA repair protein RadA; Provisional

Probab=94.10  E-value=0.22  Score=52.05  Aligned_cols=84  Identities=24%  Similarity=0.298  Sum_probs=49.6

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCC-----CCccHHHHHHHH
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSAS-----GLSEFESLMKQI  281 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~-----~~~~~~~l~~~l  281 (533)
                      ....++.|.|.+|+|||||+.++....  ...-..++|++..+..  ..+... ++.++....     ...+.+.+...+
T Consensus        78 ~~Gs~~lI~G~pG~GKTtL~lq~a~~~--a~~g~~vlYvs~Ees~--~qi~~r-a~rlg~~~~~l~~~~e~~l~~i~~~i  152 (446)
T PRK11823         78 VPGSVVLIGGDPGIGKSTLLLQVAARL--AAAGGKVLYVSGEESA--SQIKLR-AERLGLPSDNLYLLAETNLEAILATI  152 (446)
T ss_pred             cCCEEEEEECCCCCCHHHHHHHHHHHH--HhcCCeEEEEEccccH--HHHHHH-HHHcCCChhcEEEeCCCCHHHHHHHH
Confidence            346799999999999999998887642  2223456787765433  233222 344443211     113344444444


Q ss_pred             HHHhCCceEEEEEeCCC
Q 045152          282 QEYITRKKFFLVLDDVW  298 (533)
Q Consensus       282 ~~~l~~kr~LlVLDdv~  298 (533)
                      .+   .+.-++|+|.+.
T Consensus       153 ~~---~~~~lVVIDSIq  166 (446)
T PRK11823        153 EE---EKPDLVVIDSIQ  166 (446)
T ss_pred             Hh---hCCCEEEEechh
Confidence            32   355689999984

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=94.10  E-value=0.32  Score=46.23  Aligned_cols=53  Identities=15%  Similarity=0.192  Sum_probs=35.3

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHH
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEG  263 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~  263 (533)
                      ...++.|.|.+|+|||+++..+..+. ...+=..++|++...  +..++...++..
T Consensus        12 ~G~l~lI~G~~G~GKT~~~~~~~~~~-~~~~g~~vly~s~E~--~~~~~~~r~~~~   64 (242)
T cd00984          12 PGDLIIIAARPSMGKTAFALNIAENI-AKKQGKPVLFFSLEM--SKEQLLQRLLAS   64 (242)
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH-HHhCCCceEEEeCCC--CHHHHHHHHHHH
Confidence            45789999999999999998776542 223234567776544  445566665543

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.

>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain

Probab=94.09  E-value=0.15  Score=48.96  Aligned_cols=86  Identities=19%  Similarity=0.205  Sum_probs=49.0

Q ss_pred             CeEEEEEEcCCCChHHHHH-HHHhcchhhhccCCce-EEEEeCCch-hHHHHHHHHHHHhCCC-------CCCCccHHH-
Q 045152          208 GLHVISLVGLGGIGKTTLA-QLAYNNDEVKRNFEKV-IWVCVSDTF-EEIRVAKAIIEGLGVS-------ASGLSEFES-  276 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA-~~v~~~~~~~~~F~~~-~wv~vs~~~-~~~~l~~~il~~l~~~-------~~~~~~~~~-  276 (533)
                      +-.-++|+|..|+|||+|| +.+.+.    .+-+.+ +++-+.+.. .+.++.+++...-...       ..+...... 
T Consensus        68 rGQr~~Ifg~~g~GKt~L~l~~i~~~----~~~~v~~V~~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~  143 (274)
T cd01132          68 RGQRELIIGDRQTGKTAIAIDTIINQ----KGKKVYCIYVAIGQKASTVAQVVKTLEEHGAMEYTIVVAATASDPAPLQY  143 (274)
T ss_pred             cCCEEEeeCCCCCCccHHHHHHHHHh----cCCCeEEEEEecccchHHHHHHHHHHHhcCccceeEEEEeCCCCchhHHH
Confidence            4567899999999999996 656542    123444 566666553 4556666665432111       111111111 


Q ss_pred             ----HHHHHHHHh--CCceEEEEEeCC
Q 045152          277 ----LMKQIQEYI--TRKKFFLVLDDV  297 (533)
Q Consensus       277 ----l~~~l~~~l--~~kr~LlVLDdv  297 (533)
                          ..-.+.+++  +++.+|+++||+
T Consensus       144 ~a~~~a~aiAE~fr~~G~~Vlvl~Dsl  170 (274)
T cd01132         144 LAPYTGCAMGEYFMDNGKHALIIYDDL  170 (274)
T ss_pred             HHHHHHHHHHHHHHHCCCCEEEEEcCh
Confidence                112223333  578999999999

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.

>COG4133 CcmA ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]

Probab=94.08  E-value=0.45  Score=42.66  Aligned_cols=53  Identities=9%  Similarity=0.080  Sum_probs=30.9

Q ss_pred             HHHHHHHHHhCCceEEEEEeCCCCCCc-cccchhhhccc-CCCCCceEEEEecch
Q 045152          276 SLMKQIQEYITRKKFFLVLDDVWDGDY-KKWNPFFSCLK-NGHHESKILITTRDR  328 (533)
Q Consensus       276 ~l~~~l~~~l~~kr~LlVLDdv~~~~~-~~~~~l~~~l~-~~~~gs~IiiTtR~~  328 (533)
                      +..-.+.+..-.++-|-+||+....-. +.-..+...+. ....|..||.||-.+
T Consensus       136 qRRvAlArL~ls~~pLWiLDEP~taLDk~g~a~l~~l~~~H~~~GGiVllttHq~  190 (209)
T COG4133         136 QRRVALARLWLSPAPLWILDEPFTALDKEGVALLTALMAAHAAQGGIVLLTTHQP  190 (209)
T ss_pred             HHHHHHHHHHcCCCCceeecCcccccCHHHHHHHHHHHHHHhcCCCEEEEecCCc
Confidence            334445566678889999999854311 11122222222 345677788888755

>PRK15453 phosphoribulokinase; Provisional

Probab=94.04  E-value=0.3  Score=47.12  Aligned_cols=78  Identities=19%  Similarity=0.175  Sum_probs=42.7

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCch--hHHHHHHHHH--HHh--CCCC--CCCccHHHHHH
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTF--EEIRVAKAII--EGL--GVSA--SGLSEFESLMK  279 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~--~~~~l~~~il--~~l--~~~~--~~~~~~~~l~~  279 (533)
                      ...+|+|.|.+|+||||+|+.+.+.  ....-...+.++...-+  +-...-..+.  +.-  +...  ++..+.+.+.+
T Consensus         4 k~piI~ItG~SGsGKTTva~~l~~i--f~~~~~~~~vi~~D~yh~ydr~~~~~~~~~~~r~g~nfdhf~PdAnd~dlL~~   81 (290)
T PRK15453          4 KHPIIAVTGSSGAGTTTVKRAFEKI--FRRENINAAVVEGDSFHRYTRPEMKAAIAKARAAGRHFSHFGPEANLFDELEQ   81 (290)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH--HhhcCCCeEEEecccccccChhhHhhhhHHHHhcCCCCCCCCCCcccHHHHHH
Confidence            4579999999999999999988742  21111123444433222  2222222111  111  1122  34556777777


Q ss_pred             HHHHHhCC
Q 045152          280 QIQEYITR  287 (533)
Q Consensus       280 ~l~~~l~~  287 (533)
                      .++.+..+
T Consensus        82 ~l~~l~~~   89 (290)
T PRK15453         82 LFREYGET   89 (290)
T ss_pred             HHHHHhcC
Confidence            77776653

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=94.03  E-value=0.19  Score=52.21  Aligned_cols=90  Identities=19%  Similarity=0.170  Sum_probs=55.8

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCch-hHHHHHHHHHHHhCCC-------CCCCccH----
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTF-EEIRVAKAIIEGLGVS-------ASGLSEF----  274 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~-~~~~l~~~il~~l~~~-------~~~~~~~----  274 (533)
                      ..-.-++|+|.+|+|||||+..+.+... +.+-+.++++-+.+.. .+.++..++...-...       ..+....    
T Consensus       141 gkGQR~gIfa~~G~GKt~Ll~~~~~~~~-~~~~dv~V~~liGER~rEv~ef~~~~~~~~~l~rsvvv~atsd~~~~~R~~  219 (461)
T PRK12597        141 AKGGKTGLFGGAGVGKTVLMMELIFNIS-KQHSGSSVFAGVGERSREGHELYHEMKESGVLDKTVMVYGQMNEPPGARMR  219 (461)
T ss_pred             ccCCEEEeecCCCCChhHHHHHHHHHHH-hhCCCEEEEEcCCcchHHHHHHHHHHHhcCCcceeEEEecCCCCCHHHHHH
Confidence            3456899999999999999988776422 2356777787776543 4456666665432111       1111111    


Q ss_pred             -HHHHHHHHHHh---CCceEEEEEeCC
Q 045152          275 -ESLMKQIQEYI---TRKKFFLVLDDV  297 (533)
Q Consensus       275 -~~l~~~l~~~l---~~kr~LlVLDdv  297 (533)
                       ......+.+++   .++.+|+++||+
T Consensus       220 a~~~a~tiAEyfrd~~G~~VLl~~Dsl  246 (461)
T PRK12597        220 VVLTGLTIAEYLRDEEKEDVLLFIDNI  246 (461)
T ss_pred             HHHHHHHHHHHHHHhcCCceEEEeccc
Confidence             12223344555   378999999999

>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=94.03  E-value=0.055  Score=52.30  Aligned_cols=23  Identities=39%  Similarity=0.319  Sum_probs=17.8

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ..|.|.|.+|+||||+|+.+...
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            36889999999999999988863

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>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=94.02  E-value=0.038  Score=48.45  Aligned_cols=20  Identities=45%  Similarity=0.697  Sum_probs=18.6

Q ss_pred             EEEEcCCCChHHHHHHHHhc
Q 045152          212 ISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~  231 (533)
                      |.|+|++|.||||+|+.+..
T Consensus         2 i~l~G~~GsGKstla~~la~   21 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAK   21 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHH
Confidence            78999999999999999975

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.

>PRK14530 adenylate kinase; Provisional

Probab=94.01  E-value=0.038  Score=51.71  Aligned_cols=21  Identities=33%  Similarity=0.330  Sum_probs=19.3

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045152          211 VISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .|.|+|++|+||||+|+.+..
T Consensus         5 ~I~i~G~pGsGKsT~~~~La~   25 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLAE   25 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999975

>PRK12678 transcription termination factor Rho; Provisional

Probab=93.98  E-value=0.13  Score=54.26  Aligned_cols=99  Identities=17%  Similarity=0.102  Sum_probs=52.2

Q ss_pred             HHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEE-EeCCch-hHHHHHHHHHHHhCCCCCC
Q 045152          193 ELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWV-CVSDTF-EEIRVAKAIIEGLGVSASG  270 (533)
Q Consensus       193 ~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv-~vs~~~-~~~~l~~~il~~l~~~~~~  270 (533)
                      ++++.|..-     +.-.-.+|+|++|+|||||++.+.+.. ...+-++.++| -|.+.. .+.++.+.+-..+-....+
T Consensus       405 RvIDll~PI-----GkGQR~LIvgpp~aGKTtLL~~IAn~i-~~n~~~~~~ivvLIgERpeEVtdm~rsVkgeVVasT~D  478 (672)
T PRK12678        405 RVIDLIMPI-----GKGQRGLIVSPPKAGKTTILQNIANAI-TTNNPECHLMVVLVDERPEEVTDMQRSVKGEVIASTFD  478 (672)
T ss_pred             eeeeeeccc-----ccCCEeEEeCCCCCCHHHHHHHHHHHH-hhcCCCeEEEEEEEeCchhhHHHHHHhccceEEEECCC
Confidence            455555432     345678999999999999999988731 12233444433 344432 2333322221111111111


Q ss_pred             Cc-----cHHHHHHHHHHHh--CCceEEEEEeCC
Q 045152          271 LS-----EFESLMKQIQEYI--TRKKFFLVLDDV  297 (533)
Q Consensus       271 ~~-----~~~~l~~~l~~~l--~~kr~LlVLDdv  297 (533)
                      ..     ....+.-.+.+++  .++.+||++|++
T Consensus       479 ~p~~~~~~~a~~ai~~Ae~fre~G~dVlillDSl  512 (672)
T PRK12678        479 RPPSDHTTVAELAIERAKRLVELGKDVVVLLDSI  512 (672)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEeCc
Confidence            11     1122333344444  678999999999

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=93.97  E-value=0.048  Score=50.13  Aligned_cols=24  Identities=21%  Similarity=0.389  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ..+|.|.|.+|+||||+|+.+...
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~   26 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARH   26 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHh
Confidence            468999999999999999998863

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=93.96  E-value=0.11  Score=56.52  Aligned_cols=43  Identities=23%  Similarity=0.289  Sum_probs=33.5

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .+++|.++.++.+...+...        ..+.++|++|+||||+|+.+.+.
T Consensus        18 ~~viG~~~a~~~l~~a~~~~--------~~~ll~G~pG~GKT~la~~la~~   60 (608)
T TIGR00764        18 DQVIGQEEAVEIIKKAAKQK--------RNVLLIGEPGVGKSMLAKAMAEL   60 (608)
T ss_pred             hhccCHHHHHHHHHHHHHcC--------CCEEEECCCCCCHHHHHHHHHHH
Confidence            46889988887777766421        25669999999999999999863

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

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=93.96  E-value=0.035  Score=49.39  Aligned_cols=20  Identities=35%  Similarity=0.586  Sum_probs=18.0

Q ss_pred             EEEEcCCCChHHHHHHHHhc
Q 045152          212 ISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~  231 (533)
                      |.|+|++|+||||+|+.+..
T Consensus         1 i~l~G~~GsGKSTla~~l~~   20 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAH   20 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHH
Confidence            46899999999999998876

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.

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=93.95  E-value=0.24  Score=44.87  Aligned_cols=119  Identities=17%  Similarity=0.067  Sum_probs=62.2

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCC---chhHHHHHHHHH--HH--hCCC----C-CCCcc--
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD---TFEEIRVAKAII--EG--LGVS----A-SGLSE--  273 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~---~~~~~~l~~~il--~~--l~~~----~-~~~~~--  273 (533)
                      ....|.|+|..|-||||.|.-+.-. .....+ .+..+.+-.   ......++..+-  .-  .+..    . ....+  
T Consensus        21 ~~g~v~v~~g~GkGKtt~a~g~a~r-a~g~G~-~V~ivQFlKg~~~~GE~~~l~~l~~v~~~~~g~~~~~~~~~~~e~~~   98 (191)
T PRK05986         21 EKGLLIVHTGNGKGKSTAAFGMALR-AVGHGK-KVGVVQFIKGAWSTGERNLLEFGGGVEFHVMGTGFTWETQDRERDIA   98 (191)
T ss_pred             cCCeEEEECCCCCChHHHHHHHHHH-HHHCCC-eEEEEEEecCCCccCHHHHHhcCCCcEEEECCCCCcccCCCcHHHHH
Confidence            3468899999999999999655432 112222 233333221   223333333310  00  0100    0 00011  


Q ss_pred             -HHHHHHHHHHHhC-CceEEEEEeCCCC---CCccccchhhhcccCCCCCceEEEEecch
Q 045152          274 -FESLMKQIQEYIT-RKKFFLVLDDVWD---GDYKKWNPFFSCLKNGHHESKILITTRDR  328 (533)
Q Consensus       274 -~~~l~~~l~~~l~-~kr~LlVLDdv~~---~~~~~~~~l~~~l~~~~~gs~IiiTtR~~  328 (533)
                       .....+..++.+. ++-=|+|||.+-.   ...-..+++...+.....+.-||+|-|+.
T Consensus        99 ~~~~~~~~a~~~l~~~~ydlvVLDEi~~Al~~gli~~eevi~~L~~rp~~~evVlTGR~~  158 (191)
T PRK05986         99 AAREGWEEAKRMLADESYDLVVLDELTYALKYGYLDVEEVLEALNARPGMQHVVITGRGA  158 (191)
T ss_pred             HHHHHHHHHHHHHhCCCCCEEEEehhhHHHHCCCccHHHHHHHHHcCCCCCEEEEECCCC
Confidence             1223333444444 4556999999832   12234556667776666678899999975

>cd00046 DEXDc DEAD-like helicases superfamily

Probab=93.95  E-value=0.27  Score=41.56  Aligned_cols=36  Identities=22%  Similarity=0.063  Sum_probs=24.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEE
Q 045152          211 VISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVC  246 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~  246 (533)
                      .+.|.|+.|.|||+.+................+|++
T Consensus         2 ~~~i~~~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~   37 (144)
T cd00046           2 DVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLA   37 (144)
T ss_pred             CEEEECCCCCchhHHHHHHHHHHHhcccCCCEEEEc
Confidence            467999999999999977765432222345556654

A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=93.93  E-value=0.048  Score=50.70  Aligned_cols=26  Identities=38%  Similarity=0.553  Sum_probs=23.5

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .++++|+++|..|+|||||.+++...
T Consensus        20 ~~~~~i~~~G~~gsGKTTli~~l~~~   45 (207)
T TIGR00073        20 HGLVVLNFMSSPGSGKTTLIEKLIDN   45 (207)
T ss_pred             cCcEEEEEECCCCCCHHHHHHHHHHH
Confidence            57999999999999999999988763

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

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=93.93  E-value=0.066  Score=56.69  Aligned_cols=59  Identities=25%  Similarity=0.275  Sum_probs=42.5

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEE
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVC  246 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~  246 (533)
                      +++--.+-++++..||..... +....+++.+.|++|+||||.++.+.+.    -.|+.+-|.+
T Consensus        20 eLavhkkKv~eV~~wl~~~~~-~~~~~~iLlLtGP~G~GKtttv~~La~e----lg~~v~Ew~n   78 (519)
T PF03215_consen   20 ELAVHKKKVEEVRSWLEEMFS-GSSPKRILLLTGPSGCGKTTTVKVLAKE----LGFEVQEWIN   78 (519)
T ss_pred             HhhccHHHHHHHHHHHHHHhc-cCCCcceEEEECCCCCCHHHHHHHHHHH----hCCeeEEecC
Confidence            344445677888888865432 2234579999999999999999999863    3566677765

>CHL00206 ycf2 Ycf2; Provisional

Probab=93.90  E-value=0.97  Score=54.19  Aligned_cols=25  Identities=24%  Similarity=0.292  Sum_probs=22.5

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .++-|.++|++|.|||.||++++.+
T Consensus      1629 pPKGILLiGPPGTGKTlLAKALA~e 1653 (2281)
T CHL00206       1629 PSRGILVIGSIGTGRSYLVKYLATN 1653 (2281)
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHh
Confidence            4668899999999999999999975

>PRK06793 fliI flagellum-specific ATP synthase; Validated

Probab=93.89  E-value=0.22  Score=51.23  Aligned_cols=88  Identities=23%  Similarity=0.220  Sum_probs=50.0

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCC-------CCCCcc-----HH
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVS-------ASGLSE-----FE  275 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~-------~~~~~~-----~~  275 (533)
                      ....++|+|..|.|||||++.+.....   ....++...-.....+.+++...+..-+..       ..+...     ..
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 IGQKIGIFAGSGVGKSTLLGMIAKNAK---ADINVISLVGERGREVKDFIRKELGEEGMRKSVVVVATSDESHLMQLRAA  231 (432)
T ss_pred             CCcEEEEECCCCCChHHHHHHHhccCC---CCeEEEEeCCCCcccHHHHHHHHhhhcccceeEEEEECCCCCHHHHHHHH
Confidence            456889999999999999999886422   112233222223355666666555442211       111111     11


Q ss_pred             HHHHHHHHHh--CCceEEEEEeCCC
Q 045152          276 SLMKQIQEYI--TRKKFFLVLDDVW  298 (533)
Q Consensus       276 ~l~~~l~~~l--~~kr~LlVLDdv~  298 (533)
                      .....+.+++  +++..|+++||+-
T Consensus       232 ~~a~~iAEyfr~~G~~VLlilDslT  256 (432)
T PRK06793        232 KLATSIAEYFRDQGNNVLLMMDSVT  256 (432)
T ss_pred             HHHHHHHHHHHHcCCcEEEEecchH
Confidence            2222333444  4789999999993

>PRK10923 glnG nitrogen regulation protein NR(I); Provisional

Probab=93.89  E-value=0.12  Score=54.55  Aligned_cols=46  Identities=15%  Similarity=0.224  Sum_probs=35.8

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .++|+...+.++.+.+....    .....+.|+|.+|+|||++|+.++..
T Consensus       139 ~lig~s~~~~~l~~~~~~~~----~~~~~vli~Ge~GtGK~~lA~~ih~~  184 (469)
T PRK10923        139 DIIGEAPAMQDVFRIIGRLS----RSSISVLINGESGTGKELVAHALHRH  184 (469)
T ss_pred             cceecCHHHHHHHHHHHHHh----ccCCeEEEEeCCCCcHHHHHHHHHhc
Confidence            58998888888777664322    23456889999999999999999874

>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]

Probab=93.88  E-value=0.052  Score=47.40  Aligned_cols=23  Identities=35%  Similarity=0.668  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..++.|+|.+|+||||+.+.+-.
T Consensus         4 ~kvvvitGVpGvGKTTVl~~~~~   26 (189)
T COG2019           4 RKVVVITGVPGVGKTTVLKIALK   26 (189)
T ss_pred             ceEEEEEcCCCCChHHHHHHHHH
Confidence            57999999999999999987765

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=93.88  E-value=0.33  Score=44.40  Aligned_cols=23  Identities=39%  Similarity=0.476  Sum_probs=20.9

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ..|+|.|..|+||||+++.+.+.
T Consensus         4 ~~IvieG~~GsGKsT~~~~L~~~   26 (195)
T TIGR00041         4 MFIVIEGIDGAGKTTQANLLKKL   26 (195)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            57999999999999999999864

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.

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=93.88  E-value=0.089  Score=57.05  Aligned_cols=74  Identities=15%  Similarity=0.166  Sum_probs=50.3

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAII  261 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il  261 (533)
                      .+++|.++-++.+...+...        +.+.++|++|+||||+|+.+.+. -...+++..+|+.-+ ..+...+++.+.
T Consensus        31 ~~vigq~~a~~~L~~~~~~~--------~~~l~~G~~G~GKttla~~l~~~-l~~~~~~~~~~~~np-~~~~~~~~~~v~  100 (637)
T PRK13765         31 DQVIGQEHAVEVIKKAAKQR--------RHVMMIGSPGTGKSMLAKAMAEL-LPKEELQDILVYPNP-EDPNNPKIRTVP  100 (637)
T ss_pred             HHcCChHHHHHHHHHHHHhC--------CeEEEECCCCCcHHHHHHHHHHH-cChHhHHHheEeeCC-CcchHHHHHHHH
Confidence            35889888888777766321        36889999999999999998863 223345777886643 334555555555


Q ss_pred             HHhC
Q 045152          262 EGLG  265 (533)
Q Consensus       262 ~~l~  265 (533)
                      .+++
T Consensus       101 ~~~G  104 (637)
T PRK13765        101 AGKG  104 (637)
T ss_pred             HhcC
Confidence            4443

>PRK13975 thymidylate kinase; Provisional

Probab=93.87  E-value=0.047  Score=50.16  Aligned_cols=23  Identities=39%  Similarity=0.544  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ..|.|.|+.|+||||+|+.+.+.
T Consensus         3 ~~I~ieG~~GsGKtT~~~~L~~~   25 (196)
T PRK13975          3 KFIVFEGIDGSGKTTQAKLLAEK   25 (196)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999999873

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=93.86  E-value=0.12  Score=45.66  Aligned_cols=25  Identities=36%  Similarity=0.436  Sum_probs=22.6

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .+..+|-+.|.+|.||||+|..++.
T Consensus        21 ~~~~viW~TGLSGsGKSTiA~ale~   45 (197)
T COG0529          21 QKGAVIWFTGLSGSGKSTIANALEE   45 (197)
T ss_pred             CCCeEEEeecCCCCCHHHHHHHHHH
Confidence            4567999999999999999999986

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs

Probab=93.85  E-value=0.069  Score=48.55  Aligned_cols=38  Identities=26%  Similarity=0.267  Sum_probs=26.6

Q ss_pred             EEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT  250 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~  250 (533)
                      ++.|.|++|+|||+||.++.... .+ .=..++|++....
T Consensus         1 ~~li~G~~G~GKT~l~~~~~~~~-~~-~g~~v~~~s~e~~   38 (187)
T cd01124           1 STLLSGGPGTGKTTFALQFLYAG-LA-RGEPGLYVTLEES   38 (187)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHH-HH-CCCcEEEEECCCC
Confidence            36799999999999998776532 22 2245778876543

A related protein is found in archaea.

>smart00487 DEXDc DEAD-like helicases superfamily

Probab=93.83  E-value=0.17  Score=45.77  Aligned_cols=52  Identities=21%  Similarity=0.121  Sum_probs=28.9

Q ss_pred             EEEEEEcCCCChHHH-HHHHHhcchhhhccC-CceEEEEeCCchhHHHHHHHHHHHh
Q 045152          210 HVISLVGLGGIGKTT-LAQLAYNNDEVKRNF-EKVIWVCVSDTFEEIRVAKAIIEGL  264 (533)
Q Consensus       210 ~vi~I~G~gGiGKTt-LA~~v~~~~~~~~~F-~~~~wv~vs~~~~~~~l~~~il~~l  264 (533)
                      ..+.|.|..|.|||+ ++..++..  ..... ...+++ +....-...+...+...+
T Consensus        25 ~~~~i~~~~GsGKT~~~~~~~~~~--~~~~~~~~~l~~-~p~~~~~~~~~~~~~~~~   78 (201)
T smart00487       25 RDVILAAPTGSGKTLAALLPALEA--LKRGKGKRVLVL-VPTRELAEQWAEELKKLG   78 (201)
T ss_pred             CcEEEECCCCCchhHHHHHHHHHH--hcccCCCcEEEE-eCCHHHHHHHHHHHHHHh
Confidence            678999999999999 44555542  22221 234444 333333344444444433

>cd01136 ATPase_flagellum-secretory_path_III Flagellum-specific ATPase/type III secretory pathway virulence-related protein

Probab=93.83  E-value=0.38  Score=47.70  Aligned_cols=86  Identities=17%  Similarity=0.221  Sum_probs=48.2

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeC-CchhHHHHHHHHHHHhCCC-------CCCCccH-----
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVS-DTFEEIRVAKAIIEGLGVS-------ASGLSEF-----  274 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs-~~~~~~~l~~~il~~l~~~-------~~~~~~~-----  274 (533)
                      ....++|+|..|.|||||.+.+.....    -+..+...+. ..-++.++....+..-...       ..+....     
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            346789999999999999998886421    2233333333 2334555555554432211       1111111     


Q ss_pred             HHHHHHHHHHh--CCceEEEEEeCC
Q 045152          275 ESLMKQIQEYI--TRKKFFLVLDDV  297 (533)
Q Consensus       275 ~~l~~~l~~~l--~~kr~LlVLDdv  297 (533)
                      ....-.+.+++  +++.+|+++||+
T Consensus       144 ~~~a~~~AEyfr~~g~~Vll~~Dsl  168 (326)
T cd01136         144 AYTATAIAEYFRDQGKDVLLLMDSL  168 (326)
T ss_pred             HHHHHHHHHHHHHcCCCeEEEeccc
Confidence            11122233333  578999999998

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.

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=93.82  E-value=0.048  Score=49.06  Aligned_cols=23  Identities=35%  Similarity=0.416  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ..|.|+|+.|.||||+++.+.+.
T Consensus         5 ~~I~liG~~GaGKStl~~~La~~   27 (172)
T PRK05057          5 RNIFLVGPMGAGKSTIGRQLAQQ   27 (172)
T ss_pred             CEEEEECCCCcCHHHHHHHHHHH
Confidence            46999999999999999999863

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=93.80  E-value=0.11  Score=43.42  Aligned_cols=40  Identities=23%  Similarity=0.294  Sum_probs=28.9

Q ss_pred             hHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          190 EKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       190 e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      -.+.|...+...   ...++-|++.+|.+|+|||.+++.+.+.
T Consensus        37 v~~ai~~~l~~~---~p~KpLVlSfHG~tGtGKn~v~~liA~~   76 (127)
T PF06309_consen   37 VVNAIKGHLANP---NPRKPLVLSFHGWTGTGKNFVSRLIAEH   76 (127)
T ss_pred             HHHHHHHHHcCC---CCCCCEEEEeecCCCCcHHHHHHHHHHH
Confidence            344555555443   3467899999999999999988776653

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

>PRK14527 adenylate kinase; Provisional

Probab=93.79  E-value=0.049  Score=49.89  Aligned_cols=24  Identities=29%  Similarity=0.311  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+|.|+|++|+||||+|+.+.+
T Consensus         5 ~~~~i~i~G~pGsGKsT~a~~La~   28 (191)
T PRK14527          5 KNKVVIFLGPPGAGKGTQAERLAQ   28 (191)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999998875

>PRK08149 ATP synthase SpaL; Validated

Probab=93.78  E-value=0.24  Score=50.91  Aligned_cols=86  Identities=15%  Similarity=0.241  Sum_probs=49.4

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCC-chhHHHHHHHHHHHhCCC-------CCCCccH-----
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD-TFEEIRVAKAIIEGLGVS-------ASGLSEF-----  274 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~l~~~il~~l~~~-------~~~~~~~-----  274 (533)
                      +...++|+|..|+|||||...+....    .-+.++...+.. ..++.++..+.+......       ..+....     
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 VGQRMGIFASAGCGKTSLMNMLIEHS----EADVFVIGLIGERGREVTEFVESLRASSRREKCVLVYATSDFSSVDRCNA  225 (428)
T ss_pred             cCCEEEEECCCCCChhHHHHHHhcCC----CCCeEEEEEEeeCCccHHHHHHHHhhcccccceEEEEECCCCCHHHHHhH
Confidence            45689999999999999999988632    223333333332 234555656665532211       1111111     


Q ss_pred             HHHHHHHHHHh--CCceEEEEEeCC
Q 045152          275 ESLMKQIQEYI--TRKKFFLVLDDV  297 (533)
Q Consensus       275 ~~l~~~l~~~l--~~kr~LlVLDdv  297 (533)
                      ......+.+++  .++.+|+++||+
T Consensus       226 ~~~a~tiAE~fr~~G~~Vll~~Dsl  250 (428)
T PRK08149        226 ALVATTVAEYFRDQGKRVVLFIDSM  250 (428)
T ss_pred             HHHHHHHHHHHHHcCCCEEEEccch
Confidence            11222233333  579999999999

>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor

Probab=93.76  E-value=0.13  Score=47.03  Aligned_cols=22  Identities=41%  Similarity=0.607  Sum_probs=20.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhcc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      +|+|.|+.|+||||+++.+.+.
T Consensus         2 ~I~ieG~~GsGKtT~~~~L~~~   23 (200)
T cd01672           2 FIVFEGIDGAGKTTLIELLAER   23 (200)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999999874

TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).

>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=93.73  E-value=0.081  Score=48.46  Aligned_cols=42  Identities=33%  Similarity=0.420  Sum_probs=29.2

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .+++|-+.-+..+.-...        ...-+.++|++|+|||++|+.+-.
T Consensus         3 ~dI~GQe~aKrAL~iAAa--------G~h~lLl~GppGtGKTmlA~~l~~   44 (206)
T PF01078_consen    3 SDIVGQEEAKRALEIAAA--------GGHHLLLIGPPGTGKTMLARRLPS   44 (206)
T ss_dssp             CCSSSTHHHHHHHHHHHH--------CC--EEEES-CCCTHHHHHHHHHH
T ss_pred             hhhcCcHHHHHHHHHHHc--------CCCCeEEECCCCCCHHHHHHHHHH
Confidence            357787776666655553        235799999999999999998853

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.

>KOG0532 consensus Leucine-rich repeat (LRR) protein, contains calponin homology domain [Cytoskeleton]

Probab=93.70  E-value=0.021  Score=59.02  Aligned_cols=81  Identities=27%  Similarity=0.432  Sum_probs=68.7

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcce
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKE  499 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~  499 (533)
                      +..|.+|+++. ..+..||.+++. -.|+.|-+++ +++..+|  ++++.++.|..|+.+. .++.++|..+++|.+|+.
T Consensus       120 L~~lt~l~ls~-NqlS~lp~~lC~-lpLkvli~sN-Nkl~~lp--~~ig~~~tl~~ld~s~-nei~slpsql~~l~slr~  193 (722)
T KOG0532|consen  120 LEALTFLDLSS-NQLSHLPDGLCD-LPLKVLIVSN-NKLTSLP--EEIGLLPTLAHLDVSK-NEIQSLPSQLGYLTSLRD  193 (722)
T ss_pred             hhHHHHhhhcc-chhhcCChhhhc-CcceeEEEec-CccccCC--cccccchhHHHhhhhh-hhhhhchHHhhhHHHHHH
Confidence            55788888887 777889999886 4588998885 5599999  7899999999999977 589999999999999999


Q ss_pred             eeccCCc
Q 045152          500 LGMEGSP  506 (533)
Q Consensus       500 L~~~~c~  506 (533)
                      |.++.+-
T Consensus       194 l~vrRn~  200 (722)
T KOG0532|consen  194 LNVRRNH  200 (722)
T ss_pred             HHHhhhh
Confidence            9987664

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=93.67  E-value=0.061  Score=51.09  Aligned_cols=33  Identities=27%  Similarity=0.248  Sum_probs=21.1

Q ss_pred             EEcCCCChHHHHHHHHhcchhhhccCCceEEEEeC
Q 045152          214 LVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVS  248 (533)
Q Consensus       214 I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs  248 (533)
                      |+||+|+||||+++.+.+..  ..+-..++-|+..
T Consensus         1 ViGpaGSGKTT~~~~~~~~~--~~~~~~~~~vNLD   33 (238)
T PF03029_consen    1 VIGPAGSGKTTFCKGLSEWL--ESNGRDVYIVNLD   33 (238)
T ss_dssp             -EESTTSSHHHHHHHHHHHH--TTT-S-EEEEE--
T ss_pred             CCCCCCCCHHHHHHHHHHHH--HhccCCceEEEcc
Confidence            68999999999999998742  3333345556543

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=93.67  E-value=0.16  Score=46.07  Aligned_cols=26  Identities=38%  Similarity=0.428  Sum_probs=22.6

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ....++.|.|.+|.||||+|+.+...
T Consensus        16 ~~~~~i~i~G~~GsGKstla~~l~~~   41 (184)
T TIGR00455        16 HRGVVIWLTGLSGSGKSTIANALEKK   41 (184)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            34579999999999999999999863

Important residue (active site in E.coli) is residue 100 of the seed alignment.

>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

Probab=93.67  E-value=0.58  Score=49.91  Aligned_cols=182  Identities=20%  Similarity=0.157  Sum_probs=93.5

Q ss_pred             CCceeechhhHH---HHHHHHhCCCcc---CCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHH
Q 045152          181 EGEVCGRVEEKN---ELLSKLLCESSE---QQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEI  254 (533)
Q Consensus       181 ~~~~vGR~~e~~---~l~~~L~~~~~~---~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~  254 (533)
                      -.++-|.++.++   ++++.|.....-   +..-++-+.++|++|.|||.||+++.....+-  |     .++|...-+ 
T Consensus       149 F~DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA~VP--F-----f~iSGS~FV-  220 (596)
T COG0465         149 FADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVP--F-----FSISGSDFV-  220 (596)
T ss_pred             hhhhcCcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhcccCCC--c-----eeccchhhh-
Confidence            346778776655   555566433210   11346778999999999999999999864432  2     222221100 


Q ss_pred             HHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCC----------ccccchhhhc-cc--C-CC--CC
Q 045152          255 RVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGD----------YKKWNPFFSC-LK--N-GH--HE  318 (533)
Q Consensus       255 ~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~----------~~~~~~l~~~-l~--~-~~--~g  318 (533)
                          ++.-.++        .....+.+.+..+.-++.+++|.++...          .+++++.... +.  + ..  .|
T Consensus       221 ----emfVGvG--------AsRVRdLF~qAkk~aP~IIFIDEiDAvGr~Rg~g~GggnderEQTLNQlLvEmDGF~~~~g  288 (596)
T COG0465         221 ----EMFVGVG--------ASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGGNEG  288 (596)
T ss_pred             ----hhhcCCC--------cHHHHHHHHHhhccCCCeEEEehhhhcccccCCCCCCCchHHHHHHHHHHhhhccCCCCCc
Confidence                1111111        1223344455556668999999885421          1233332222 21  1 12  23


Q ss_pred             ceEEEEecchHHHhh--h---CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcch
Q 045152          319 SKILITTRDRSVALQ--L---GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLA  387 (533)
Q Consensus       319 s~IiiTtR~~~v~~~--~---~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLa  387 (533)
                      -.|+..|..++|...  +   ..+..+.++.-+...-.++++-++- ...-...-++    ..|++.+-|.-.|
T Consensus       289 viviaaTNRpdVlD~ALlRpgRFDRqI~V~~PDi~gRe~IlkvH~~-~~~l~~~Vdl----~~iAr~tpGfsGA  357 (596)
T COG0465         289 VIVIAATNRPDVLDPALLRPGRFDRQILVELPDIKGREQILKVHAK-NKPLAEDVDL----KKIARGTPGFSGA  357 (596)
T ss_pred             eEEEecCCCcccchHhhcCCCCcceeeecCCcchhhHHHHHHHHhh-cCCCCCcCCH----HHHhhhCCCcccc
Confidence            334444555555422  1   2255666666666666666665543 1111112222    2378888887766

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=93.62  E-value=0.05  Score=50.84  Aligned_cols=23  Identities=39%  Similarity=0.582  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .-|+|+|++|+|||||+..+..+
T Consensus         6 ~kivv~G~~g~GKTtl~~~l~~~   28 (219)
T COG1100           6 FKIVVLGDGGVGKTTLLNRLVGD   28 (219)
T ss_pred             EEEEEEcCCCccHHHHHHHHhcC
Confidence            56889999999999999999876

>PRK13545 tagH teichoic acids export protein ATP-binding subunit; Provisional

Probab=93.61  E-value=0.55  Score=49.56  Aligned_cols=25  Identities=32%  Similarity=0.565  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ...+++|+|+.|.|||||++.+..-
T Consensus        49 ~GEivgIiGpNGSGKSTLLkiLaGL   73 (549)
T PRK13545         49 EGEIVGIIGLNGSGKSTLSNLIAGV   73 (549)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCC
Confidence            3468999999999999999999763

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

Probab=93.60  E-value=0.16  Score=51.77  Aligned_cols=51  Identities=20%  Similarity=0.228  Sum_probs=36.4

Q ss_pred             CceeechhhHHHHHHHHhCC--------CccCCCCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          182 GEVCGRVEEKNELLSKLLCE--------SSEQQKGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~--------~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ..++|.++.+..+..++...        ..........|.++|++|+|||+||+.+...
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            45788888888887777431        0000112467899999999999999988763

>PF00025 Arf: ADP-ribosylation factor family The prints entry specific to Sar1 proteins The Prosite entry specific to Sar1 proteins; InterPro: IPR006689 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=93.60  E-value=0.21  Score=45.01  Aligned_cols=26  Identities=42%  Similarity=0.442  Sum_probs=22.1

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ..-.-|.|.|+.|+||||+.+.+...
T Consensus        12 ~~~~~ililGl~~sGKTtll~~l~~~   37 (175)
T PF00025_consen   12 KKEIKILILGLDGSGKTTLLNRLKNG   37 (175)
T ss_dssp             TSEEEEEEEESTTSSHHHHHHHHHSS
T ss_pred             CcEEEEEEECCCccchHHHHHHhhhc
Confidence            35567799999999999999999764

This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. This entry represents a branch of the small GTPase superfamily that includes the ADP ribosylation factor Arf, Arl (Arf-like), Arp (Arf-related proteins) and the remotely related Sar (Secretion-associated and Ras-related) proteins. Arf proteins are major regulators of vesicle biogenesis in intracellular traffic []. They cycle between inactive GDP-bound and active GTP-bound forms that bind selectively to effectors. The classical structural GDP/GTP switch is characterised by conformational changes at the so-called switch 1 and switch 2 regions, which bind tightly to the gamma-phosphate of GTP but poorly or not at all to the GDP nucleotide. Structural studies of Arf1 and Arf6 have revealed that although these proteins feature the switch 1 and 2 conformational changes, they depart from other small GTP-binding proteins in that they use an additional, unique switch to propagate structural information from one side of the protein to the other. The GDP/GTP structural cycles of human Arf1 and Arf6 feature a unique conformational change that affects the beta2-beta3 strands connecting switch 1 and switch 2 (interswitch) and also the amphipathic helical N terminus. In GDP-bound Arf1 and Arf6, the interswitch is retracted and forms a pocket to which the N-terminal helix binds, the latter serving as a molecular hasp to maintain the inactive conformation. In the GTP-bound form of these proteins, the interswitch undergoes a two-residue register shift that pulls switch 1 and switch 2 up, restoring an active conformation that can bind GTP. In this conformation, the interswitch projects out of the protein and extrudes the N-terminal hasp by occluding its binding pocket.; GO: 0005525 GTP binding; PDB: 2H57_B 2W83_B 3N5C_B 2J5X_A 3LVR_E 2BAO_A 3LVQ_E 2A5F_A 3PCR_B 1E0S_A ....

>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=93.59  E-value=0.057  Score=46.29  Aligned_cols=24  Identities=29%  Similarity=0.416  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ..+++|+|..|.|||||.+.+...
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            358999999999999999999763

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 ....

>PRK11176 lipid transporter ATP-binding/permease protein; Provisional

Probab=93.57  E-value=0.24  Score=53.88  Aligned_cols=24  Identities=38%  Similarity=0.540  Sum_probs=20.9

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ....++|+|..|.|||||++.+..
T Consensus       368 ~G~~~aIvG~sGsGKSTLl~ll~g  391 (582)
T PRK11176        368 AGKTVALVGRSGSGKSTIANLLTR  391 (582)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHh
Confidence            446799999999999999998864

>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=93.56  E-value=0.12  Score=51.09  Aligned_cols=48  Identities=25%  Similarity=0.324  Sum_probs=30.5

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHH
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAK  258 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~  258 (533)
                      .+++.+.|.||+||||+|....-.  .......+.-|++....+..+++.
T Consensus         2 ~riv~f~GKGGVGKTT~aaA~A~~--lA~~g~kvLlvStDPAhsL~d~f~   49 (322)
T COG0003           2 TRIVFFTGKGGVGKTTIAAATAVK--LAESGKKVLLVSTDPAHSLGDVFD   49 (322)
T ss_pred             cEEEEEecCCcccHHHHHHHHHHH--HHHcCCcEEEEEeCCCCchHhhhc
Confidence            478999999999999999774321  222224466666555554444433

>PRK15064 ABC transporter ATP-binding protein; Provisional

Probab=93.56  E-value=0.56  Score=50.42  Aligned_cols=25  Identities=28%  Similarity=0.485  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ...+++|+|+.|.|||||.+.+...
T Consensus        26 ~Ge~~~liG~NGsGKSTLl~~l~Gl   50 (530)
T PRK15064         26 GGNRYGLIGANGCGKSTFMKILGGD   50 (530)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3458999999999999999999863

>PRK05922 type III secretion system ATPase; Validated

Probab=93.55  E-value=0.33  Score=50.02  Aligned_cols=86  Identities=15%  Similarity=0.173  Sum_probs=48.3

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCC-chhHHHHHHHHHHHhCCCC-------CCCccH-----
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD-TFEEIRVAKAIIEGLGVSA-------SGLSEF-----  274 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~l~~~il~~l~~~~-------~~~~~~-----  274 (533)
                      ....++|+|..|+|||||.+.+....    ..+...++.+.. ...+.+.+.+.........       .+....     
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            44578999999999999999998642    223334433333 2233445544443332211       111111     


Q ss_pred             HHHHHHHHHHh--CCceEEEEEeCC
Q 045152          275 ESLMKQIQEYI--TRKKFFLVLDDV  297 (533)
Q Consensus       275 ~~l~~~l~~~l--~~kr~LlVLDdv  297 (533)
                      ....-.+.+++  .++.+|+++||+
T Consensus       232 ~~~a~tiAEyfrd~G~~VLl~~Dsl  256 (434)
T PRK05922        232 GRAAMTIAEYFRDQGHRVLFIMDSL  256 (434)
T ss_pred             HHHHHHHHHHHHHcCCCEEEeccch
Confidence            11222344444  579999999999

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=93.55  E-value=0.048  Score=48.04  Aligned_cols=22  Identities=36%  Similarity=0.457  Sum_probs=19.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhcc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      |++|+|+.|+|||||+..+...
T Consensus         1 vi~i~G~~gsGKTtl~~~l~~~   22 (155)
T TIGR00176         1 VLQIVGPKNSGKTTLIERLVKA   22 (155)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5789999999999999999874

This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.

>KOG3665 consensus ZYG-1-like serine/threonine protein kinases [General function prediction only]

Probab=93.54  E-value=0.038  Score=60.62  Aligned_cols=84  Identities=15%  Similarity=0.171  Sum_probs=58.4

Q ss_pred             ccccccceEEEeecCCccc-CCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCC--cCCCCC
Q 045152          418 SIMPCLSVLRVYLCPKLKV-LPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLP--DSLLQI  494 (533)
Q Consensus       418 ~ilp~L~~L~l~~c~~l~~-lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP--~~~~~l  494 (533)
                      ..+|.|+.|.+.+-.-... ...-...+++|.+||++++. +..+   .+++.|.||+.|.+++. .+.+-+  ..+-+|
T Consensus       145 ~~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~Tn-I~nl---~GIS~LknLq~L~mrnL-e~e~~~~l~~LF~L  219 (699)
T KOG3665|consen  145 TMLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGTN-ISNL---SGISRLKNLQVLSMRNL-EFESYQDLIDLFNL  219 (699)
T ss_pred             hhCcccceEEecCceecchhHHHHhhccCccceeecCCCC-ccCc---HHHhccccHHHHhccCC-CCCchhhHHHHhcc
Confidence            5699999999976211111 01111247899999999876 5555   48889999999999873 343333  256679


Q ss_pred             CCcceeeccCCc
Q 045152          495 TTLKELGMEGSP  506 (533)
Q Consensus       495 ~~L~~L~~~~c~  506 (533)
                      ++|+.||||.-.
T Consensus       220 ~~L~vLDIS~~~  231 (699)
T KOG3665|consen  220 KKLRVLDISRDK  231 (699)
T ss_pred             cCCCeeeccccc
Confidence            999999998654

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=93.51  E-value=0.27  Score=54.16  Aligned_cols=24  Identities=33%  Similarity=0.473  Sum_probs=21.0

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ....|+|+|..|.|||||++.+..
T Consensus       498 ~Ge~vaIvG~SGsGKSTL~KLL~g  521 (709)
T COG2274         498 PGEKVAIVGRSGSGKSTLLKLLLG  521 (709)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            456899999999999999998854

>PRK10875 recD exonuclease V subunit alpha; Provisional

Probab=93.51  E-value=0.23  Score=53.79  Aligned_cols=53  Identities=15%  Similarity=0.050  Sum_probs=31.9

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcchhh-hccCCceEEEEeCCchhHHHHHHHHH
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNNDEV-KRNFEKVIWVCVSDTFEEIRVAKAII  261 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~~~~-~~~F~~~~wv~vs~~~~~~~l~~~il  261 (533)
                      -++..|.|.+|.||||++..+.....- ...-...+.+..+..--...+.+.+-
T Consensus       167 ~~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~  220 (615)
T PRK10875        167 RRISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLG  220 (615)
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHH
Confidence            358889999999999999888753111 11112456665554444444444443

>PRK07196 fliI flagellum-specific ATP synthase; Validated

Probab=93.50  E-value=0.28  Score=50.50  Aligned_cols=26  Identities=19%  Similarity=0.258  Sum_probs=22.3

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .....++|+|..|+|||||++.+...
T Consensus       153 ~~GQ~igI~G~sGaGKSTLl~~I~g~  178 (434)
T PRK07196        153 GKGQRVGLMAGSGVGKSVLLGMITRY  178 (434)
T ss_pred             ecceEEEEECCCCCCccHHHHHHhcc
Confidence            34578999999999999999988763

>PLN02200 adenylate kinase family protein

Probab=93.49  E-value=0.064  Score=50.82  Aligned_cols=24  Identities=21%  Similarity=0.195  Sum_probs=21.3

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .+.+|.|.|++|+||||+|+.+..
T Consensus        42 ~~~ii~I~G~PGSGKsT~a~~La~   65 (234)
T PLN02200         42 TPFITFVLGGPGSGKGTQCEKIVE   65 (234)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            456899999999999999998875

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	533
3sfz_A	1249	Crystal Structure Of Full-Length Murine Apaf-1 Leng		3e-05
3shf_A	1256	Crystal Structure Of The R265s Mutant Of Full-Lengt		2e-04
1z6t_A	591	Structure Of The Apoptotic Protease-activating Fact		3e-04
3iza_B	1263	Structure Of An Apoptosome-Procaspase-9 Card Comple		7e-04

>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1 Length = 1249

Iteration: 1
 Score = 46.6 bits (109), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 52/204 (25%), Positives = 84/204 (41%), Gaps = 40/204 (19%)
Query: 212 ISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGL 271
           +++ G+ G GK+ LA  A  +  +          C S     + + K    GL +    L
Sbjct: 150 VTIYGMAGCGKSVLAAEAVRDHSLLEG-------CFSGGVHWVSIGKQDKSGLLMKLQNL 202
Query: 272 S---------------EFESLMKQIQEYITRK--KFFLVLDDVWDGDYKKWNPFFSCLKN 314
                             E    +++  + RK  +  L+LDDVWD       P+   LK 
Sbjct: 203 CMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWD-------PWV--LKA 253
Query: 315 GHHESKILITTRDRSVALQ-LGSIDIIPVKE-LAEEECWSLLERLAFFRRSVDDHEKLEP 372
             ++ +IL+TTRD+SV    +G   ++PV+  L  E+   +L      ++     E L  
Sbjct: 254 FDNQCQILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMKK-----EDLPA 308
Query: 373 IGRKIAHKCKGLPLAAKVIWNLLR 396
               I  +CKG PL   +I  LLR
Sbjct: 309 EAHSIIKECKGSPLVVSLIGALLR 332

>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length Murine Apaf-1 Length = 1256

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 51/204 (25%), Positives = 83/204 (40%), Gaps = 40/204 (19%)
Query: 212 ISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGL 271
           +++ G+ G GK+ LA  A  +  +          C S     + + K    GL +    L
Sbjct: 157 VTIYGMAGCGKSVLAAEAVRDHSLLEG-------CFSGGVHWVSIGKQDKSGLLMKLQNL 209
Query: 272 S---------------EFESLMKQIQEYITRK--KFFLVLDDVWDGDYKKWNPFFSCLKN 314
                             E    +++  + RK  +  L+LDDVWD       P+   LK 
Sbjct: 210 CMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWD-------PWV--LKA 260
Query: 315 GHHESKILITTRDRSVALQ-LGSIDIIPVKE-LAEEECWSLLERLAFFRRSVDDHEKLEP 372
             ++ +IL+TT D+SV    +G   ++PV+  L  E+   +L      ++     E L  
Sbjct: 261 FDNQCQILLTTSDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMKK-----EDLPA 315
Query: 373 IGRKIAHKCKGLPLAAKVIWNLLR 396
               I  +CKG PL   +I  LLR
Sbjct: 316 EAHSIIKECKGSPLVVSLIGALLR 339

>pdb|1Z6T|A Chain A, Structure Of The Apoptotic Protease-activating Factor 1 Bound To Adp Length = 591

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 52/204 (25%), Positives = 84/204 (41%), Gaps = 40/204 (19%)
Query: 212 ISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVS---- 267
           +++ G+ G GK+ LA  A  +         ++  C       + V K    GL +     
Sbjct: 150 VTIHGMAGCGKSVLAAEAVRD-------HSLLEGCFPGGVHWVSVGKQDKSGLLMKLQNL 202
Query: 268 ASGLSEFESLMKQIQEYITRKK-------------FFLVLDDVWDGDYKKWNPFFSCLKN 314
            + L + ES  +++   I   K               L+LDDVWD     W      LK 
Sbjct: 203 CTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDS----W-----VLKA 253
Query: 315 GHHESKILITTRDRSVALQ-LGSIDIIPVKE-LAEEECWSLLERLAFFRRSVDDHEKLEP 372
              + +IL+TTRD+SV    +G   ++PV+  L +E+   +L      +++      L  
Sbjct: 254 FDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFVNMKKA-----DLPE 308
Query: 373 IGRKIAHKCKGLPLAAKVIWNLLR 396
               I  +CKG PL   +I  LLR
Sbjct: 309 QAHSIIKECKGSPLVVSLIGALLR 332

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	533
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	3e-69
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	8e-60
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-48
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-04
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	3e-19
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	5e-17
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	6e-06
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	6e-06
1qzv_F	154	Plant photosystem I: subunit PSAF; photosynthesis,	8e-04

>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 =  232 bits (592), Expect = 3e-69
 Identities = 57/378 (15%), Positives = 119/378 (31%), Gaps = 40/378 (10%)

Query: 51  DAEKRQMQRDNAVTFWLDQLRDASYDMEDVLDEWTTARLKLQIEGIDDDNALALAPHKKK 110
           DA+ R     +         +D       ++D   +      +   +++        +++
Sbjct: 2   DAKARNCLLQH----REALEKD--IKTSYIMDHMISDGF---LTISEEEKVRNEPTQQQR 52

Query: 111 VRSFFCAVSNCFGSFKQLCLRHDIAVKIREINGKLDDIASQKDKFNFKFDENVSNNVKKP 170
                  +               +    +++   L D        + K   +   +  + 
Sbjct: 53  AAMLIKMILKKDNDSYVSFYNALLHEGYKDLAALLHDGIPVVSSSSGKDSVSGITSYVRT 112

Query: 171 ERVRTISLIDEGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAY 230
                           R +  N +  KL     + +     +++ G+ G GK+ LA  A 
Sbjct: 113 VLCEGGVPQRPVVFVTRKKLVNAIQQKLS----KLKGEPGWVTIHGMAGCGKSVLAAEAV 168

Query: 231 NNDEVKRNF--EKVIWVCVSDTF--EEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYIT 286
            +  +        V WV V        +   + +   L    S        +++ ++ + 
Sbjct: 169 RDHSLLEGCFPGGVHWVSVGKQDKSGLLMKLQNLCTRLDQDESFSQRLPLNIEEAKDRLR 228

Query: 287 R------KKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRSVALQLGSIDII 340
                   +  L+LDDVWD              +     +IL+TTRD+SV   +     +
Sbjct: 229 ILMLRKHPRSLLILDDVWDSWV------LKAFDSQ---CQILLTTRDKSVTDSVMGPKYV 279

Query: 341 PVKE--LAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLLRSK 398
              E  L +E+   +L               L      I  +CKG PL   +I  LLR  
Sbjct: 280 VPVESSLGKEKGLEILSLFVN-----MKKADLPEQAHSIIKECKGSPLVVSLIGALLRDF 334

Query: 399 -STVKEWQRILDSEMWKE 415
            +  + + + L ++ +K 
Sbjct: 335 PNRWEYYLKQLQNKQFKR 352

>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 =  206 bits (524), Expect = 8e-60
 Identities = 58/415 (13%), Positives = 123/415 (29%), Gaps = 47/415 (11%)

Query: 46  RAVLEDAEKRQMQRDNAVTFWLDQLRDASYDMEDVLDEWTTARLKLQIEGIDDDNALALA 105
              L  A  R +  D      L  L   +   ED  +  +    +L+             
Sbjct: 7   CRALSTAHTRLIH-DFEPRDALTYLEGKNIFTEDHSELISKMSTRLERI----------- 54

Query: 106 PHKKKVRSFFCAVSNCFGSFKQLCLRHDIAVKIREINGKLDDIASQKDKFNFKFDENVSN 165
                    +   ++  G        ++ +     +   +D   ++ D           +
Sbjct: 55  ---ANFLRIYRRQASELGPLIDFFNYNNQSHLADFLEDYIDFAINEPDLLRPVVIAPQFS 111

Query: 166 NVKKPERVRTISLIDEGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTL 225
                 ++   ++  +     R    + ++ KL             + L G  G GK+ +
Sbjct: 112 RQMLDRKLLLGNVPKQMTCYIREYHVDRVIKKLD---EMCDLDSFFLFLHGRAGSGKSVI 168

Query: 226 AQLAYNNDE--VKRNFEKVIWVCVSDTFEE-----IRVAKAIIEGLGVSASGLSEFESLM 278
           A  A +  +  +  N++ ++W+  S T  +           +++      +  S      
Sbjct: 169 ASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTS 228

Query: 279 KQIQEYITR-----KKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRSVALQ 333
             ++  I            V DDV   +  +W              + L+TTRD  ++  
Sbjct: 229 VVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQELRL--------RCLVTTRDVEISNA 280

Query: 334 LGS-IDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIW 392
                + I V  L  +EC+  LE        +   EK E +  K      G P    + +
Sbjct: 281 ASQTCEFIEVTSLEIDECYDFLEAYGM---PMPVGEKEEDVLNKTIELSSGNPATLMMFF 337

Query: 393 NLLRSKSTVKEWQRILDSEMWKENISIMPCLSVLRVYLCPKLK----VLPDYLLQ 443
                K T ++  ++ +    +  + +          L   L+    VL D    
Sbjct: 338 KSCEPK-TFEKMAQLNNKLESRGLVGVECITPYSYKSLAMALQRCVEVLSDEDRS 391

>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 =  178 bits (453), Expect = 3e-48
 Identities = 86/533 (16%), Positives = 173/533 (32%), Gaps = 106/533 (19%)

Query: 51  DAEKRQMQ---RDNAVTFWLDQLRDASYDMEDVLDEWTTARLKLQIEGIDDDNALALAPH 107
           D E  + Q   +D    F    + +  +D +DV D       K  +   + D+ +     
Sbjct: 8   DFETGEHQYQYKDILSVFEDAFVDN--FDCKDVQDM-----PKSILSKEEIDHIIMSKDA 60

Query: 108 KKKVRSFFCAV----SNCFGSFKQLCLRHD---IAVKIREINGKLDDIASQKDKFNFKFD 160
                  F  +          F +  LR +   +   I+      +          +   
Sbjct: 61  VSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKT-----EQRQPSMMTRMYIEQ 115

Query: 161 ENVSNNVKKPERVRTISLIDEGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGI 220
            +   N  +      +S         R++   +L   LL    E +   +V+ + G+ G 
Sbjct: 116 RDRLYNDNQVFAKYNVS---------RLQPYLKLRQALL----ELRPAKNVL-IDGVLGS 161

Query: 221 GKTTLAQLAYNNDEVKRNFE-KVIWVCVS--DTFEEI---------RVAKAIIEGLGVSA 268
           GKT +A     + +V+   + K+ W+ +   ++ E +         ++          S+
Sbjct: 162 GKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSS 221

Query: 269 SGLSEFESLMKQIQEYITRKKF---FLVLDDVWDGDYKKWNPF-FSCLKNGHHESKILIT 324
           +      S+  +++  +  K +    LVL +V +   K WN F  SC        KIL+T
Sbjct: 222 NIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNA--KAWNAFNLSC--------KILLT 271

Query: 325 TRDRSVALQLGSIDIIPVKELAEEECWSLLER--LAFFRRSVDDHEKLEPIGRKIAHKCK 382
           TR + V   L +     +    +    +L      +   + +D   +  P          
Sbjct: 272 TRFKQVTDFLSAATTTHISL--DHHSMTLTPDEVKSLLLKYLDCRPQDLP-----REVLT 324

Query: 383 GLPLAAKVIWNLLRSKSTVKEWQRILDSEMWKENISIMPCLSVL------RVYLCPKLKV 436
             P    +I   +R    +  W         K    I   L+VL      +++   +L V
Sbjct: 325 TNPRRLSIIAESIRDG--LATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFD--RLSV 380

Query: 437 LPDYLLQTTTLQKLRILQCPSMEELP--ILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQI 494
            P      T L  L ++    ++     ++     L + S +  +       +P   + +
Sbjct: 381 FPPSAHIPTIL--LSLIWFDVIKSDVMVVVNK---LHKYSLVEKQPKESTISIPS--IYL 433

Query: 495 TTLKELGMEGSPLLEKR----YEEGKGEDWRKI----------SHIPHIMRSA 533
               +L  E    L +     Y   K  D   +          SHI H +++ 
Sbjct: 434 ELKVKL--ENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNI 484

>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 = 42.1 bits (98), Expect = 5e-04
 Identities = 48/279 (17%), Positives = 81/279 (29%), Gaps = 87/279 (31%)

Query: 8   SLLGQLTSVAADE-----VKQHVRLVTGVGEEVK---------------KLTSNLRAIRA 47
           SLL +       +     +  + R ++ + E ++               KLT+ + +   
Sbjct: 305 SLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLN 364

Query: 48  VLEDAEKRQMQRDNAV-------------TFWLDQLRDASYDMEDVLDEWTTARL----- 89
           VLE AE R+M    +V               W D       D+  V+++     L     
Sbjct: 365 VLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFD---VIKSDVMVVVNKLHKYSLVEKQP 421

Query: 90  ---KLQIEGIDDD------NALALAPHKKKVRSFFCAVSNCFGSFKQLCL---------R 131
               + I  I  +      N  AL  H+  V  +    +          L          
Sbjct: 422 KESTISIPSIYLELKVKLENEYAL--HRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGH 479

Query: 132 H------------------D---IAVKIREINGKLDDIASQKDKFN-FKFDEN-VSNNVK 168
           H                  D   +  KIR  +   +   S  +     KF +  + +N  
Sbjct: 480 HLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDP 539

Query: 169 KPER-VRTIS--LIDEGEVCGRVEEKNELLSKLLCESSE 204
           K ER V  I   L    E     +  + L   L+ E   
Sbjct: 540 KYERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEA 578

>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 = 90.7 bits (225), Expect = 3e-19
 Identities = 60/297 (20%), Positives = 107/297 (36%), Gaps = 48/297 (16%)

Query: 119 SNCFGSFKQLCLRHDIAVKIREINGKLDDIASQKDKFNFKFDENVSNNVKKPERVRTISL 178
           +  + SF    L        +++   L                +   +          ++
Sbjct: 65  NCAYISFYNALLHEGY----KDLAALLQSGLPL-------VSSSSGKDTDGGITSFVRTV 113

Query: 179 IDEGEV-------CGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQ-LAY 230
           + EG V         R +  + +  KL   + E       +++ G+ G GK+ LA     
Sbjct: 114 LCEGGVPQRPVIFVTRKKLVHAIQQKLWKLNGEPG----WVTIYGMAGCGKSVLAAEAVR 169

Query: 231 NNDEVKRNFE-KVIWVCVSDTFEE------IRVAKAIIEGLGVSASGLSEFESLMKQIQE 283
           ++  ++  F   V WV +    +         +   + +    S       E    +++ 
Sbjct: 170 DHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRV 229

Query: 284 YITRK--KFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRSVALQL-GSIDII 340
            + RK  +  L+LDDVWD            LK   ++ +IL+TTRD+SV   + G   ++
Sbjct: 230 LMLRKHPRSLLILDDVWDPWV---------LKAFDNQCQILLTTRDKSVTDSVMGPKHVV 280

Query: 341 PVKE-LAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLLR 396
           PV+  L  E+   +L             E L      I  +CKG PL   +I  LLR
Sbjct: 281 PVESGLGREKGLEILSLFVNM-----KKEDLPAEAHSIIKECKGSPLVVSLIGALLR 332

>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 = 76.0 bits (187), Expect = 5e-17
 Identities = 28/131 (21%), Positives = 53/131 (40%), Gaps = 19/131 (14%)

Query: 6   VSSLLGQLTSVAADEVKQHVRLVTGVGEEVKKLTSNLRAIRAVLEDAEKRQM-QRDNAVT 64
           +S+L+ +L  +  +E K    L  GV + ++ L   L ++ A L    +    Q D+   
Sbjct: 3   ISNLIPKLGELLTEEFK----LHKGVKKNIEDLGKELESMNAALIKIGEVPREQLDSQDK 58

Query: 65  FWLDQLRDASYDMEDVLDEWTTARLKLQIEGIDDDNALALAPHKKKVRSFFCAVSNCFGS 124
            W D++R+ SY +EDV+D++                 +           F   +      
Sbjct: 59  LWADEVRELSYVIEDVVDKFLV--------------QVDGIKSDDNNNKFKGLMKRTTEL 104

Query: 125 FKQLCLRHDIA 135
            K++  +H IA
Sbjct: 105 LKKVKHKHGIA 115

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV} Length = 328

 Score = 47.2 bits (113), Expect = 6e-06
 Identities = 21/96 (21%), Positives = 36/96 (37%), Gaps = 4/96 (4%)

Query: 415 ENISIMPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIF-LPRL 473
             I  +P L  L +  C  L+  P        L++L +  C ++  LP     I  L +L
Sbjct: 223 PAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLP---LDIHRLTQL 279

Query: 474 SSLRIEYCPKLKLLPDSLLQITTLKELGMEGSPLLE 509
             L +  C  L  LP  + Q+     + +      +
Sbjct: 280 EKLDLRGCVNLSRLPSLIAQLPANCIILVPPHLQAQ 315

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV} Length = 328

 Score = 47.2 bits (113), Expect = 6e-06
 Identities = 20/97 (20%), Positives = 40/97 (41%), Gaps = 5/97 (5%)

Query: 415 ENISIMPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHI-FLPRL 473
            +I+ +  L  L++     L  L   +     L++L +  C ++   P           L
Sbjct: 200 ASIANLQNLKSLKIRNS-PLSALGPAIHHLPKLEELDLRGCTALRNYP---PIFGGRAPL 255

Query: 474 SSLRIEYCPKLKLLPDSLLQITTLKELGMEGSPLLEK 510
             L ++ C  L  LP  + ++T L++L + G   L +
Sbjct: 256 KRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSR 292

>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant photosynthetic reaction center, peripheral antenna; HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1 Length = 154

 Score = 39.2 bits (90), Expect = 8e-04
 Identities = 8/28 (28%), Positives = 15/28 (53%), Gaps = 10/28 (35%)

Query: 33 EEVKKLTSNLR----------AIRAVLE 50
          + +KKL ++L+          AI+A +E
Sbjct: 20 QALKKLQASLKLYADDSAPALAIKATME 47

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	533
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	100.0
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	99.94
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	99.94
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.92
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	99.71
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	99.55
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.54
2fna_A	357	Conserved hypothetical protein; structural genomic	99.53
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.38
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.35
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.35
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.34
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.31
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.29
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	99.11
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	98.96
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	98.89
2chq_A	319	Replication factor C small subunit; DNA-binding pr	98.76
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	98.75
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	98.68
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	98.64
3bos_A	242	Putative DNA replication factor; P-loop containing	98.57
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	98.56
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	98.54
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	98.52
3pvs_A	447	Replication-associated recombination protein A; ma	98.51
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	98.42
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	98.39
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	98.38
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	98.38
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	98.37
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	98.37
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	98.36
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	98.35
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	98.34
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	98.33
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	98.33
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	98.31
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	98.3
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	98.3
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	98.29
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	98.24
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.22
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	98.21
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	98.2
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.17
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	98.16
3e6j_A	229	Variable lymphocyte receptor diversity region; var	98.13
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	98.12
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	98.12
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	98.12
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	98.1
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.09
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	98.09
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	98.09
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	98.08
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	98.07
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	98.05
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	98.04
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	98.04
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	98.04
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	98.02
3e6j_A	229	Variable lymphocyte receptor diversity region; var	98.02
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.02
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	98.02
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	98.01
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	98.01
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	98.01
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	98.0
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	98.0
3co5_A	143	Putative two-component system transcriptional RES	97.99
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	97.98
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	97.98
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	97.98
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	97.97
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	97.97
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	97.97
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	97.95
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	97.95
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	97.95
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	97.95
3m19_A	251	Variable lymphocyte receptor A diversity region; a	97.94
3m19_A	251	Variable lymphocyte receptor A diversity region; a	97.93
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	97.92
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	97.91
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	97.91
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	97.91
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	97.9
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	97.9
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	97.89
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.88
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	97.88
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	97.87
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	97.87
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	97.86
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	97.86
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	97.86
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	97.85
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	97.85
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	97.85
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	97.83
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	97.83
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	97.82
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	97.81
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.79
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	97.79
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	97.78
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	97.77
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	97.77
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	97.76
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	97.76
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	97.76
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	97.76
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	97.75
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	97.75
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	97.73
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	97.72
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	97.71
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	97.71
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	97.7
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	97.7
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.69
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	97.69
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	97.68
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	97.67
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	97.67
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	97.67
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	97.67
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	97.67
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	97.66
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	97.66
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	97.64
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	97.64
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	97.64
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	97.64
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	97.63
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	97.62
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	97.61
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	97.61
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	97.6
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	97.6
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	97.6
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	97.6
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	97.6
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	97.59
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	97.58
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	97.58
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	97.57
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	97.57
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	97.57
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	97.57
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	97.56
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.56
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	97.55
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	97.55
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	97.54
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	97.54
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	97.53
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	97.53
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	97.53
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	97.52
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	97.52
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	97.52
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	97.52
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	97.51
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	97.51
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	97.51
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	97.51
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	97.51
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	97.51
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	97.5
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	97.5
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	97.5
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	97.5
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	97.5
1o6v_A	466	Internalin A; bacterial infection, extracellular r	97.49
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	97.49
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	97.48
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	97.48
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	97.47
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	97.47
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	97.47
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	97.46
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	97.45
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	97.45
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	97.44
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	97.41
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	97.38
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	97.38
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	97.37
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	97.37
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	97.37
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	97.37
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	97.36
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	97.35
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	97.31
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.28
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	97.28
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	97.22
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	97.22
2qgz_A	308	Helicase loader, putative primosome component; str	97.2
1o6v_A	466	Internalin A; bacterial infection, extracellular r	97.17
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.17
2r44_A	331	Uncharacterized protein; putative ATPase, structur	97.15
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	97.13
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.12
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	97.12
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	97.03
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	97.02
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	97.0
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	96.97
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	96.94
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	96.88
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	96.79
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	96.75
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	96.7
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	96.69
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	96.68
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	96.63
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	96.54
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	96.51
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	96.5
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	96.48
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	96.48
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	96.47
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	96.46
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	96.32
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	96.3
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	96.24
3io5_A	333	Recombination and repair protein; storage dimer, i	96.21
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.17
2z43_A	324	DNA repair and recombination protein RADA; archaea	96.12
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	95.93
1xp8_A	366	RECA protein, recombinase A; recombination, radior	95.9
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	95.86
1u94_A	356	RECA protein, recombinase A; homologous recombinat	95.77
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	95.66
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	95.57
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	95.55
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	95.53
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	95.5
3ice_A	422	Transcription termination factor RHO; transcriptio	95.49
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	95.44
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	95.42
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	95.4
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	95.34
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	95.33
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	95.3
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	95.29
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	95.28
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	95.24
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	95.23
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	95.2
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	95.19
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	95.18
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	95.18
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	95.17
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	95.16
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	95.12
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	95.12
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	95.04
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	95.01
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	95.01
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	94.99
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	94.98
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	94.96
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	94.95
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	94.93
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	94.93
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	94.91
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	94.9
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	94.89
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	94.85
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	94.84
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	94.83
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	94.8
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	94.79
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	94.78
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	94.76
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	94.72
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	94.71
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	94.69
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	94.64
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	94.64
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	94.63
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	94.62
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	94.61
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	94.61
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	94.59
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	94.59
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	94.58
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	94.56
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	94.54
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	94.53
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	94.53
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	94.49
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	94.48
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	94.47
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	94.47
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	94.46
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	94.44
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	94.43
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	94.39
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	94.36
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	94.36
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	94.35
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	94.35
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	94.35
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	94.35
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	94.35
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	94.32
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	94.31
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	94.3
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	94.29
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	94.28
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	94.27
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	94.26
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	94.24
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	94.23
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	94.23
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	94.2
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	94.19
2hf9_A	226	Probable hydrogenase nickel incorporation protein	94.17
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	94.17
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	94.13
1via_A	175	Shikimate kinase; structural genomics, transferase	94.11
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	94.09
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	94.09
2xxa_A	433	Signal recognition particle protein; protein trans	94.09
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	94.09
2vli_A	183	Antibiotic resistance protein; transferase, tunica	94.08
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	94.04
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	94.04
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	94.04
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	93.99
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	93.98
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	93.94
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	93.93
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	93.91
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	93.9
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	93.88
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	93.87
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	93.85
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	93.85
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	93.84
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	93.83
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	93.82
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	93.8
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	93.78
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	93.77
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	93.77
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	93.77
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	93.76
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	93.76
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	93.74
3fwy_A	314	Light-independent protochlorophyllide reductase I	93.74
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	93.7
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	93.63
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	93.63
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	93.6
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	93.56
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	93.48
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	93.47
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	93.44
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	93.44
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	93.43
4a74_A	231	DNA repair and recombination protein RADA; hydrola	93.41
2ged_A	193	SR-beta, signal recognition particle receptor beta	93.39
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	93.39
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	93.37
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	93.35
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	93.33
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	93.3
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	93.29
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	93.29
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	93.27
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	93.26
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	93.26
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	93.19
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	93.14
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	93.13
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	93.07
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	93.04
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	93.02
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	93.0
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	92.99
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	92.98
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	92.95
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	92.94
2r6a_A	454	DNAB helicase, replicative helicase; replication,	92.94
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	92.92
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	92.91
1b0u_A	262	Histidine permease; ABC transporter, transport pro	92.91
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	92.83
2og2_A	359	Putative signal recognition particle receptor; nuc	92.82
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	92.82
1ji0_A	240	ABC transporter; ATP binding protein, structural g	92.81
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	92.81
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	92.78
3l0o_A	427	Transcription termination factor RHO; helicase, RH	92.77
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	92.72
1g6h_A	257	High-affinity branched-chain amino acid transport	92.72
2wji_A	165	Ferrous iron transport protein B homolog; membrane	92.68
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	92.67
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	92.67
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	92.65
1sgw_A	214	Putative ABC transporter; structural genomics, P p	92.65
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	92.63
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	92.62
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	92.62
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	92.62
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	92.62
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	92.6
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	92.6
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	92.59
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	92.57
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	92.55
1tue_A	212	Replication protein E1; helicase, replication, E1E	92.53
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	92.52
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	92.51
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	92.49
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	92.47
2eyu_A	261	Twitching motility protein PILT; pilus retraction	92.45
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	92.43
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	92.4
2ghi_A	260	Transport protein; multidrug resistance protein, M	92.4
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	92.36
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	92.31
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	92.31
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	92.3
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	92.29
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	92.29
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	92.25
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	92.23
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	92.21
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	92.21
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	92.2
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	92.19
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	92.18
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	92.18
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	92.16
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	92.16
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	92.08
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	92.07
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	92.0
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	91.99
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	91.98
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	91.96
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	91.96
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	91.92
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	91.88
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	91.87
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	91.85
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	91.78
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	91.72
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	91.65
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	91.6
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	91.52
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	91.52
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	91.48
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	91.48
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	91.48
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	91.47
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	91.44
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	91.43
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	91.42
3kta_A	182	Chromosome segregation protein SMC; structural mai	91.42
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	91.42
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	91.4
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	91.39
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	91.39
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	91.34
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	91.3
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	91.28
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	91.26
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	91.24
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	91.17
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	91.16
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	91.15
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	91.13
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	91.09
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	91.06
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	91.02
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	91.02
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	90.99
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	90.97
1nrj_B	218	SR-beta, signal recognition particle receptor beta	90.96
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	90.94
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	90.92
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	90.91
3end_A	307	Light-independent protochlorophyllide reductase ir	90.91
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	90.9
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	90.87
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	90.87
3vr4_A	600	V-type sodium ATPase catalytic subunit A; V-ATPase	90.85
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	90.84
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	90.82
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	90.81
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	90.79
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	90.78

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*

Probab=100.00  E-value=1.5e-33  Score=301.01  Aligned_cols=214  Identities=21%  Similarity=0.266  Sum_probs=175.4

Q ss_pred             eechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhc--chhhhccCCceEEEEeCCch--hHHHHHHHH
Q 045152          185 CGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYN--NDEVKRNFEKVIWVCVSDTF--EEIRVAKAI  260 (533)
Q Consensus       185 vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~--~~~~~~~F~~~~wv~vs~~~--~~~~l~~~i  260 (533)
                      |||+.++++|.++|....   ....++|+|+||||+||||||+++|+  +.+++.+|+.++||++++..  +...++..|
T Consensus       131 ~GR~~~~~~l~~~L~~~~---~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~~~i  207 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMC---DLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDI  207 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHT---TSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhccc---CCCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEEEEEECCCCCCCHHHHHHHH
Confidence            699999999999996542   24689999999999999999999998  67899999999999999885  899999999


Q ss_pred             HHHhCCCCC-------CCccHHHHHHHHHHHhCCc-eEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecchHHHh
Q 045152          261 IEGLGVSAS-------GLSEFESLMKQIQEYITRK-KFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRSVAL  332 (533)
Q Consensus       261 l~~l~~~~~-------~~~~~~~l~~~l~~~l~~k-r~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~~v~~  332 (533)
                      +.+++....       ...+.+.+...+++.+.++ ||||||||||+.+...|..        .+||+||||||++.++.
T Consensus       208 l~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~~~~~~~--------~~gs~ilvTTR~~~v~~  279 (549)
T 2a5y_B          208 LLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQ--------ELRLRCLVTTRDVEISN  279 (549)
T ss_dssp             HHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHHHHHH--------HTTCEEEEEESBGGGGG
T ss_pred             HHHHhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCchhhcccc--------cCCCEEEEEcCCHHHHH
Confidence            999986521       2234567789999999996 9999999999863222221        27999999999999998


Q ss_pred             hhCC-CCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHHHHHHhhcccchHHHHHHHhhh
Q 045152          333 QLGS-IDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLLRSKSTVKEWQRILDSE  411 (533)
Q Consensus       333 ~~~~-~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~~~~L~~~~~~~~w~~~l~~~  411 (533)
                      .++. ...|+|++|+.+++|+||.+.+|...   ..+.+++++.+|+++|+|+||||+++|+.|+.+ + .+|...+.+.
T Consensus       280 ~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~---~~~~~~~~~~~I~~~c~GlPLAl~~~g~~l~~~-~-w~~~~~l~~~  354 (549)
T 2a5y_B          280 AASQTCEFIEVTSLEIDECYDFLEAYGMPMP---VGEKEEDVLNKTIELSSGNPATLMMFFKSCEPK-T-FEKMAQLNNK  354 (549)
T ss_dssp             GCCSCEEEEECCCCCHHHHHHHHHHTSCCCC-----CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSS-S-HHHHHHHHHH
T ss_pred             HcCCCCeEEECCCCCHHHHHHHHHHHhcCCC---CchhHHHHHHHHHHHhCCChHHHHHHHHHhccc-h-HHHHHHhHHH
Confidence            8763 46799999999999999999987432   246778899999999999999999999999876 2 3454556655


Q ss_pred             hhh
Q 045152          412 MWK  414 (533)
Q Consensus       412 ~~~  414 (533)
                      .|.
T Consensus       355 l~~  357 (549)
T 2a5y_B          355 LES  357 (549)
T ss_dssp             HHH
T ss_pred             hhc
Confidence            554

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A*

Probab=99.94  E-value=3e-26  Score=268.18  Aligned_cols=211  Identities=26%  Similarity=0.395  Sum_probs=167.7

Q ss_pred             cCCceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhh-hccC-CceEEEEeCCch--hHHH
Q 045152          180 DEGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEV-KRNF-EKVIWVCVSDTF--EEIR  255 (533)
Q Consensus       180 ~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~-~~~F-~~~~wv~vs~~~--~~~~  255 (533)
                      ..+.||||++++++|.++|....    +..++|+|+||||+||||||+++|++.+. ..+| +.++|+++++..  +...
T Consensus       122 ~~~~~vgR~~~~~~l~~~l~~~~----~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~  197 (1249)
T 3sfz_A          122 RPVIFVTRKKLVHAIQQKLWKLN----GEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLM  197 (1249)
T ss_dssp             CCSSCCCCHHHHHHHHHHHHTTT----TSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHHHHH
T ss_pred             CCceeccHHHHHHHHHHHHhhcc----CCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchHHHH
Confidence            44569999999999999997543    46899999999999999999999997544 4445 677799998843  4455


Q ss_pred             HHHHHHHHhCCCC----CCCccHHHHHHHHHHHhCCc--eEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecchH
Q 045152          256 VAKAIIEGLGVSA----SGLSEFESLMKQIQEYITRK--KFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRS  329 (533)
Q Consensus       256 l~~~il~~l~~~~----~~~~~~~~l~~~l~~~l~~k--r~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~~  329 (533)
                      .+..++..+....    ....+.+.+...++..+.++  |+||||||||+.  ..|..+       .+||+||||||++.
T Consensus       198 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~--~~~~~~-------~~~~~ilvTtR~~~  268 (1249)
T 3sfz_A          198 KLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDP--WVLKAF-------DNQCQILLTTRDKS  268 (1249)
T ss_dssp             HHHHHHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCH--HHHTTT-------CSSCEEEEEESSTT
T ss_pred             HHHHHHHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCH--HHHHhh-------cCCCEEEEEcCCHH
Confidence            5777777776542    22356788889999999877  999999999865  334332       57899999999999


Q ss_pred             HHhh-hCCCCeeeCCC-CChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHHHHHHhhcccchHHHHHH
Q 045152          330 VALQ-LGSIDIIPVKE-LAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLLRSKSTVKEWQRI  407 (533)
Q Consensus       330 v~~~-~~~~~~~~l~~-L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~~~~L~~~~~~~~w~~~  407 (533)
                      ++.. .+....+++++ |+.+++++||...++.     ..+.+.+.+.+|+++|+|+||||+++|++|+.++  ..|..+
T Consensus       269 ~~~~~~~~~~~~~~~~~l~~~~a~~l~~~~~~~-----~~~~~~~~~~~i~~~~~glPLal~~~~~~l~~~~--~~~~~~  341 (1249)
T 3sfz_A          269 VTDSVMGPKHVVPVESGLGREKGLEILSLFVNM-----KKEDLPAEAHSIIKECKGSPLVVSLIGALLRDFP--NRWAYY  341 (1249)
T ss_dssp             TTTTCCSCBCCEECCSSCCHHHHHHHHHHHHTS-----CSTTCCTHHHHHHHHTTTCHHHHHHHHHHHHHSS--SCHHHH
T ss_pred             HHHhhcCCceEEEecCCCCHHHHHHHHHHhhCC-----ChhhCcHHHHHHHHHhCCCHHHHHHHHHHhhcCh--hHHHHH
Confidence            9854 45567899996 9999999999988852     2345667899999999999999999999999875  467776


Q ss_pred             Hhh
Q 045152          408 LDS  410 (533)
Q Consensus       408 l~~  410 (533)
                      ++.
T Consensus       342 l~~  344 (1249)
T 3sfz_A          342 LRQ  344 (1249)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            654

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=99.94  E-value=8.1e-27  Score=253.86  Aligned_cols=199  Identities=22%  Similarity=0.269  Sum_probs=153.8

Q ss_pred             eeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCc-eEEEEeCCchhHHHHHHHHHH
Q 045152          184 VCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEK-VIWVCVSDTFEEIRVAKAIIE  262 (533)
Q Consensus       184 ~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~-~~wv~vs~~~~~~~l~~~il~  262 (533)
                      .|||++++++|.++|...     ...++|+|+||||+||||||+.+|++.+++.+|+. ++|+++++.++...++..|++
T Consensus       130 ~VGRe~eLeeL~elL~~~-----d~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~~d~~~IL~~Ll~  204 (1221)
T 1vt4_I          130 NVSRLQPYLKLRQALLEL-----RPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQK  204 (1221)
T ss_dssp             CCCCHHHHHHHHHHHHHC-----CSSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCSSSHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHhcc-----CCCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCCCCHHHHHHHHHH
Confidence            499999999999999743     23789999999999999999999988788999986 999999999888888877776


Q ss_pred             HhCC---C---CCC-----CccHHHHHHHHHHHh---CCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecch
Q 045152          263 GLGV---S---ASG-----LSEFESLMKQIQEYI---TRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDR  328 (533)
Q Consensus       263 ~l~~---~---~~~-----~~~~~~l~~~l~~~l---~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~  328 (533)
                      .++.   .   ..+     ..+.+.+...+++.+   .++|+||||||||+.  +.|+.+    +   +||+||||||++
T Consensus       205 lL~~i~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd~--eqLe~f----~---pGSRILVTTRd~  275 (1221)
T 1vt4_I          205 LLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNA--KAWNAF----N---LSCKILLTTRFK  275 (1221)
T ss_dssp             HHHHHCSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCCH--HHHHHH----H---SSCCEEEECSCS
T ss_pred             HHhhcCcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcChH--HHHHhh----C---CCeEEEEeccCh
Confidence            4321   1   000     123455666777765   789999999999984  445543    2   689999999999


Q ss_pred             HHHhhhCCCCeeeCC------CCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHHHHHHhhccc-ch
Q 045152          329 SVALQLGSIDIIPVK------ELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLLRSKS-TV  401 (533)
Q Consensus       329 ~v~~~~~~~~~~~l~------~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~~~~L~~~~-~~  401 (533)
                      .++..+.....+.++      +|+.+|||+||++... . .      ..++..+|   |+|+||||+++|+.|+.+. +.
T Consensus       276 ~Va~~l~g~~vy~LeL~d~dL~LS~eEA~eLF~~~~g-~-~------~eeL~~eI---CgGLPLALkLaGs~Lr~k~~s~  344 (1221)
T 1vt4_I          276 QVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLD-C-R------PQDLPREV---LTTNPRRLSIIAESIRDGLATW  344 (1221)
T ss_dssp             HHHHHHHHHSSCEEEECSSSSCCCHHHHHHHHHHHHC-C-C------TTTHHHHH---CCCCHHHHHHHHHHHHHSCSSH
T ss_pred             HHHHhcCCCeEEEecCccccCCcCHHHHHHHHHHHcC-C-C------HHHHHHHH---hCCCHHHHHHHHHHHhCCCCCH
Confidence            988655443456666      9999999999998832 1 1      22334444   9999999999999999885 67


Q ss_pred             HHHHHH
Q 045152          402 KEWQRI  407 (533)
Q Consensus       402 ~~w~~~  407 (533)
                      ++|...
T Consensus       345 eeW~~~  350 (1221)
T 1vt4_I          345 DNWKHV  350 (1221)
T ss_dssp             HHHHHC
T ss_pred             HHHhcC
Confidence            788754

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=99.92  E-value=1.2e-24  Score=234.98  Aligned_cols=209  Identities=24%  Similarity=0.330  Sum_probs=155.7

Q ss_pred             CCceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhh-hccC-CceEEEEeCCchh--HHHH
Q 045152          181 EGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEV-KRNF-EKVIWVCVSDTFE--EIRV  256 (533)
Q Consensus       181 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~-~~~F-~~~~wv~vs~~~~--~~~l  256 (533)
                      .+.||||+.++++|.++|....    +..++|+|+||||+||||||..++++..+ ..+| +.++|++++....  ....
T Consensus       123 ~~~~vGR~~~l~~L~~~L~~~~----~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~~~~~~~~~  198 (591)
T 1z6t_A          123 PVVFVTRKKLVNAIQQKLSKLK----GEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMK  198 (591)
T ss_dssp             CSSCCCCHHHHHHHHHHHTTST----TSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESCCHHHHHHH
T ss_pred             CCeecccHHHHHHHHHHHhccc----CCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCCchHHHHHH
Confidence            4569999999999999996532    45789999999999999999999998666 7889 5899999876522  2222


Q ss_pred             HHHHHHHhCCC----CCCCccHHHHHHHHHHHhCC--ceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecchHH
Q 045152          257 AKAIIEGLGVS----ASGLSEFESLMKQIQEYITR--KKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRSV  330 (533)
Q Consensus       257 ~~~il~~l~~~----~~~~~~~~~l~~~l~~~l~~--kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~~v  330 (533)
                      +..+...++..    .....+.+.+...+...+.+  +++||||||+|+..  .+.       ...+|++||||||++.+
T Consensus       199 l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~~--~l~-------~l~~~~~ilvTsR~~~~  269 (591)
T 1z6t_A          199 LQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSW--VLK-------AFDSQCQILLTTRDKSV  269 (591)
T ss_dssp             HHHHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCHH--HHH-------TTCSSCEEEEEESCGGG
T ss_pred             HHHHHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCHH--HHH-------HhcCCCeEEEECCCcHH
Confidence            33344455421    12334567777788887765  78999999998642  222       22568999999999988


Q ss_pred             HhhhCCCCeeeC---CCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHHHHHHhhcccchHHHHHH
Q 045152          331 ALQLGSIDIIPV---KELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLLRSKSTVKEWQRI  407 (533)
Q Consensus       331 ~~~~~~~~~~~l---~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~~~~L~~~~~~~~w~~~  407 (533)
                      +..+.. ..+.+   ++|+.+++++||...++.     ......+.+.+|+++|+|+|||+..+|+.|+.+.  ..|..+
T Consensus       270 ~~~~~~-~~~~v~~l~~L~~~ea~~L~~~~~~~-----~~~~~~~~~~~i~~~~~G~PLal~~~a~~l~~~~--~~w~~~  341 (591)
T 1z6t_A          270 TDSVMG-PKYVVPVESSLGKEKGLEILSLFVNM-----KKADLPEQAHSIIKECKGSPLVVSLIGALLRDFP--NRWEYY  341 (591)
T ss_dssp             GTTCCS-CEEEEECCSSCCHHHHHHHHHHHHTS-----CGGGSCTHHHHHHHHHTTCHHHHHHHHHHHHHST--TCHHHH
T ss_pred             HHhcCC-CceEeecCCCCCHHHHHHHHHHHhCC-----CcccccHHHHHHHHHhCCCcHHHHHHHHHHhcCc--hhHHHH
Confidence            765432 33333   689999999999998852     1223456789999999999999999999998864  368776


Q ss_pred             Hhh
Q 045152          408 LDS  410 (533)
Q Consensus       408 l~~  410 (533)
                      ++.
T Consensus       342 l~~  344 (591)
T 1z6t_A          342 LKQ  344 (591)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            654

>3qfl_A MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-binding domain, L rich repeat containing receptors, protein binding; 2.00A {Hordeum vulgare}

Probab=99.71  E-value=9.5e-18  Score=138.65  Aligned_cols=81  Identities=26%  Similarity=0.472  Sum_probs=74.9

Q ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHHhc--cccCChHHHHHHHHHHhhccchhhhH
Q 045152            4 AIVSSLLGQLTSVAADEVKQHVRLVTGVGEEVKKLTSNLRAIRAVLEDAEKR--QMQRDNAVTFWLDQLRDASYDMEDVL   81 (533)
Q Consensus         4 ~~v~~~l~kl~~~l~~~~~~e~~~~~~~~~~~~~L~~~L~~i~~~l~~ae~~--~~~~~~~~~~Wl~~lrd~ayd~eD~l   81 (533)
                      |+|+++++||+++    +.+|+.++.|+++++++|+++|++|++||.+|+.+  +.. +++++.|+++||++|||+||||
T Consensus         1 a~v~~ll~KL~~l----l~~E~~l~~gv~~~i~~Lk~eL~~m~a~L~da~~~~~~~~-d~~vk~W~~~vrdlaYD~ED~i   75 (115)
T 3qfl_A            1 AAISNLIPKLGEL----LTEEFKLHKGVKKNIEDLGKELESMNAALIKIGEVPREQL-DSQDKLWADEVRELSYVIEDVV   75 (115)
T ss_dssp             CTTCSHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCGGGC-CHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHH----HHHHHHHHhchHHHHHHHHHHHHHHHHHHHHHHHhccccC-CHHHHHHHHHHHHHHHHHHHHH
Confidence            3677899999999    88999999999999999999999999999999987  445 8999999999999999999999


Q ss_pred             HHHHHHHH
Q 045152           82 DEWTTARL   89 (533)
Q Consensus        82 D~~~~~~~   89 (533)
                      |+|.|+..
T Consensus        76 D~f~~~~~   83 (115)
T 3qfl_A           76 DKFLVQVD   83 (115)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHhc
Confidence            99999875

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.55  E-value=2.5e-14  Score=143.36  Aligned_cols=197  Identities=15%  Similarity=0.176  Sum_probs=129.0

Q ss_pred             cCCceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCch------hH
Q 045152          180 DEGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTF------EE  253 (533)
Q Consensus       180 ~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~------~~  253 (533)
                      .+..|+||+++++.+.+++..      +  +++.|+|++|+|||||++.+.+..      . .+|+++....      +.
T Consensus        10 ~~~~~~gR~~el~~L~~~l~~------~--~~v~i~G~~G~GKT~Ll~~~~~~~------~-~~~~~~~~~~~~~~~~~~   74 (350)
T 2qen_A           10 RREDIFDREEESRKLEESLEN------Y--PLTLLLGIRRVGKSSLLRAFLNER------P-GILIDCRELYAERGHITR   74 (350)
T ss_dssp             SGGGSCSCHHHHHHHHHHHHH------C--SEEEEECCTTSSHHHHHHHHHHHS------S-EEEEEHHHHHHTTTCBCH
T ss_pred             ChHhcCChHHHHHHHHHHHhc------C--CeEEEECCCcCCHHHHHHHHHHHc------C-cEEEEeecccccccCCCH
Confidence            445799999999999998842      1  689999999999999999998642      2 6777765432      45


Q ss_pred             HHHHHHHHHHhCC-----------------C-CCCCccHHHHHHHHHHHhCC-ceEEEEEeCCCCCCc-------cccch
Q 045152          254 IRVAKAIIEGLGV-----------------S-ASGLSEFESLMKQIQEYITR-KKFFLVLDDVWDGDY-------KKWNP  307 (533)
Q Consensus       254 ~~l~~~il~~l~~-----------------~-~~~~~~~~~l~~~l~~~l~~-kr~LlVLDdv~~~~~-------~~~~~  307 (533)
                      ..++..+.+.+..                 . .....+...+...+.+.... ++.+|||||++..+.       ..+..
T Consensus        75 ~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~~~~~~~~~~  154 (350)
T 2qen_A           75 EELIKELQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGKELLAL  154 (350)
T ss_dssp             HHHHHHHHHHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTTTTTHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCccchhhHHHH
Confidence            5666666655432                 0 00113455566666665543 389999999976432       11222


Q ss_pred             hhhcccCCCCCceEEEEecchHHHhhh-----------CC-CCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHH
Q 045152          308 FFSCLKNGHHESKILITTRDRSVALQL-----------GS-IDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGR  375 (533)
Q Consensus       308 l~~~l~~~~~gs~IiiTtR~~~v~~~~-----------~~-~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~  375 (533)
                      +...... .++.++|+|++.......+           +. ...+++.+|+.+++.+++..... .....   .-.+...
T Consensus       155 L~~~~~~-~~~~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~~~-~~~~~---~~~~~~~  229 (350)
T 2qen_A          155 FAYAYDS-LPNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFLKRGFR-EVNLD---VPENEIE  229 (350)
T ss_dssp             HHHHHHH-CTTEEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHHHHHHHHHHHH-TTTCC---CCHHHHH
T ss_pred             HHHHHHh-cCCeEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHHHHHHHHHHHH-HcCCC---CCHHHHH
Confidence            2222222 2467899998876432211           11 24789999999999999987532 11111   1235678


Q ss_pred             HHHhHhCCCcchhHHHHHHhh
Q 045152          376 KIAHKCKGLPLAAKVIWNLLR  396 (533)
Q Consensus       376 ~I~~~c~GlPLai~~~~~~L~  396 (533)
                      .|+..|+|+|+++..++..+.
T Consensus       230 ~i~~~tgG~P~~l~~~~~~~~  250 (350)
T 2qen_A          230 EAVELLDGIPGWLVVFGVEYL  250 (350)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHhCCCHHHHHHHHHHHh
Confidence            999999999999999886543

>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=99.54  E-value=4e-14  Score=145.35  Aligned_cols=211  Identities=15%  Similarity=0.067  Sum_probs=133.7

Q ss_pred             CCceeechhhHHHHHHHH-hCCCccCCCCeEEEEE--EcCCCChHHHHHHHHhcchhhh---ccCC-ceEEEEeCCchhH
Q 045152          181 EGEVCGRVEEKNELLSKL-LCESSEQQKGLHVISL--VGLGGIGKTTLAQLAYNNDEVK---RNFE-KVIWVCVSDTFEE  253 (533)
Q Consensus       181 ~~~~vGR~~e~~~l~~~L-~~~~~~~~~~~~vi~I--~G~gGiGKTtLA~~v~~~~~~~---~~F~-~~~wv~vs~~~~~  253 (533)
                      +..++||+++++.+.+++ .............+.|  +|++|+||||||+.+++.....   ..|. ..+|+++....+.
T Consensus        21 p~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  100 (412)
T 1w5s_A           21 PPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNL  100 (412)
T ss_dssp             CSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSH
T ss_pred             CCCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCCCCH
Confidence            367999999999999988 4321100023456666  9999999999999999753221   0122 3567776666778


Q ss_pred             HHHHHHHHHHhCCCCCC-CccHHHHHHHHHHHhC--CceEEEEEeCCCCCCc------cccchhhhcccCC---C--CCc
Q 045152          254 IRVAKAIIEGLGVSASG-LSEFESLMKQIQEYIT--RKKFFLVLDDVWDGDY------KKWNPFFSCLKNG---H--HES  319 (533)
Q Consensus       254 ~~l~~~il~~l~~~~~~-~~~~~~l~~~l~~~l~--~kr~LlVLDdv~~~~~------~~~~~l~~~l~~~---~--~gs  319 (533)
                      ..++..++.+++..... ..+...+...+.+.+.  +++++|||||+|....      +.+..+...+...   .  ...
T Consensus       101 ~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~~~v  180 (412)
T 1w5s_A          101 YTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRI  180 (412)
T ss_dssp             HHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCBE
T ss_pred             HHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhcccCCCCceE
Confidence            88999999998764321 2334555666666654  6799999999976321      2233233333211   2  344


Q ss_pred             eEEEEecchHHHhhhC--------C-CCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhC------CC
Q 045152          320 KILITTRDRSVALQLG--------S-IDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCK------GL  384 (533)
Q Consensus       320 ~IiiTtR~~~v~~~~~--------~-~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~------Gl  384 (533)
                      .+|+||+...+...+.        . ...+.+++++.++.+++|...+......  ..--.+....|++.|+      |.
T Consensus       181 ~lI~~~~~~~~~~~l~~~~~~~~~~~~~~i~l~~l~~~e~~~ll~~~~~~~~~~--~~~~~~~~~~i~~~~~~~~~~~G~  258 (412)
T 1w5s_A          181 GFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRD--TVWEPRHLELISDVYGEDKGGDGS  258 (412)
T ss_dssp             EEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCT--TSCCHHHHHHHHHHHCGGGTSCCC
T ss_pred             EEEEEeccccHHHHHhhhcchhhhhcCCeeeeCCCCHHHHHHHHHHHHHhcCCC--CCCChHHHHHHHHHHHHhccCCCc
Confidence            5787887655332111        1 2239999999999999998654211110  1112456788999999      99


Q ss_pred             cchhHHHHH
Q 045152          385 PLAAKVIWN  393 (533)
Q Consensus       385 PLai~~~~~  393 (533)
                      |..+..+..
T Consensus       259 p~~~~~l~~  267 (412)
T 1w5s_A          259 ARRAIVALK  267 (412)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            976655543

>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=99.53  E-value=9.5e-14  Score=139.49  Aligned_cols=196  Identities=14%  Similarity=0.188  Sum_probs=123.5

Q ss_pred             cCCceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCc-----hhHH
Q 045152          180 DEGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT-----FEEI  254 (533)
Q Consensus       180 ~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~-----~~~~  254 (533)
                      .+..|+||+++++.|.+ +.      .   +++.|+|++|+|||||++.+.+..  ..   ..+|+++...     .+..
T Consensus        11 ~~~~~~gR~~el~~L~~-l~------~---~~v~i~G~~G~GKT~L~~~~~~~~--~~---~~~~~~~~~~~~~~~~~~~   75 (357)
T 2fna_A           11 NRKDFFDREKEIEKLKG-LR------A---PITLVLGLRRTGKSSIIKIGINEL--NL---PYIYLDLRKFEERNYISYK   75 (357)
T ss_dssp             SGGGSCCCHHHHHHHHH-TC------S---SEEEEEESTTSSHHHHHHHHHHHH--TC---CEEEEEGGGGTTCSCCCHH
T ss_pred             CHHHhcChHHHHHHHHH-hc------C---CcEEEECCCCCCHHHHHHHHHHhc--CC---CEEEEEchhhccccCCCHH
Confidence            44579999999999999 72      1   589999999999999999998742  22   2578876532     2333


Q ss_pred             HHHHHHHHHhC--------------C------CCC---------CCccHHHHHHHHHHHhCCceEEEEEeCCCCCCc---
Q 045152          255 RVAKAIIEGLG--------------V------SAS---------GLSEFESLMKQIQEYITRKKFFLVLDDVWDGDY---  302 (533)
Q Consensus       255 ~l~~~il~~l~--------------~------~~~---------~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~---  302 (533)
                      .++..+.+.+.              .      ...         .......+...+.+... ++++|||||++..+.   
T Consensus        76 ~~~~~l~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~-~~~vlvlDe~~~~~~~~~  154 (357)
T 2fna_A           76 DFLLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASK-DNVIIVLDEAQELVKLRG  154 (357)
T ss_dssp             HHHHHHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCS-SCEEEEEETGGGGGGCTT
T ss_pred             HHHHHHHHHHHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcCC-CCeEEEEECHHHhhccCc
Confidence            33333333221              0      000         12234555555554433 489999999976431   


Q ss_pred             cccchhhhcccCCCCCceEEEEecchHHHhhh-----------CC-CCeeeCCCCChHhhHHHHHHhhccCCCccccccc
Q 045152          303 KKWNPFFSCLKNGHHESKILITTRDRSVALQL-----------GS-IDIIPVKELAEEECWSLLERLAFFRRSVDDHEKL  370 (533)
Q Consensus       303 ~~~~~l~~~l~~~~~gs~IiiTtR~~~v~~~~-----------~~-~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l  370 (533)
                      ..+..+...+.....+.++|+|++.......+           +. ...+++.+|+.+++.+++..... ... ....  
T Consensus       155 ~~~~~~l~~~~~~~~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~l~~~~~-~~~-~~~~--  230 (357)
T 2fna_A          155 VNLLPALAYAYDNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQ-EAD-IDFK--  230 (357)
T ss_dssp             CCCHHHHHHHHHHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHH-HHT-CCCC--
T ss_pred             hhHHHHHHHHHHcCCCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHHHHHHHH-HcC-CCCC--
Confidence            22333323222222467899999876532211           11 25789999999999999987542 101 1111  


Q ss_pred             hHHHHHHHhHhCCCcchhHHHHHHhhc
Q 045152          371 EPIGRKIAHKCKGLPLAAKVIWNLLRS  397 (533)
Q Consensus       371 ~~~~~~I~~~c~GlPLai~~~~~~L~~  397 (533)
                       .. ..|+..|+|+|+++..++..+..
T Consensus       231 -~~-~~i~~~t~G~P~~l~~~~~~~~~  255 (357)
T 2fna_A          231 -DY-EVVYEKIGGIPGWLTYFGFIYLD  255 (357)
T ss_dssp             -CH-HHHHHHHCSCHHHHHHHHHHHHH
T ss_pred             -cH-HHHHHHhCCCHHHHHHHHHHHcc
Confidence             12 78999999999999999877653

>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=99.38  E-value=3.2e-12  Score=129.90  Aligned_cols=226  Identities=13%  Similarity=0.051  Sum_probs=140.6

Q ss_pred             CCceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhh----cc--CCceEEEEeCCch-hH
Q 045152          181 EGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVK----RN--FEKVIWVCVSDTF-EE  253 (533)
Q Consensus       181 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~----~~--F~~~~wv~vs~~~-~~  253 (533)
                      +..++||+++++++..++.....  ....+.+.|+|++|+||||||+.+++...-.    ..  ....+|+++.... +.
T Consensus        19 p~~l~gr~~~~~~l~~~l~~~~~--~~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~   96 (384)
T 2qby_B           19 FKEIPFREDILRDAAIAIRYFVK--NEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTP   96 (384)
T ss_dssp             CSSCTTCHHHHHHHHHHHHHHHT--TCCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHHHHCSCH
T ss_pred             CCCCCChHHHHHHHHHHHHHHHc--CCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECccCCCCH
Confidence            36799999999999988854221  2345689999999999999999998742111    01  3356777766655 77


Q ss_pred             HHHHHHHHHHhCCCCC--CCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchh-hhcccCCCCCceEEEEecchHH
Q 045152          254 IRVAKAIIEGLGVSAS--GLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPF-FSCLKNGHHESKILITTRDRSV  330 (533)
Q Consensus       254 ~~l~~~il~~l~~~~~--~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l-~~~l~~~~~gs~IiiTtR~~~v  330 (533)
                      ..++..++..+.+...  .......+...+.+.+..++.+|||||++......+... ...+.....+..+|+||+....
T Consensus        97 ~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~iI~~t~~~~~  176 (384)
T 2qby_B           97 QAVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRRGGDIVLYQLLRSDANISVIMISNDINV  176 (384)
T ss_dssp             HHHHHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSSCEEEEEETTHHHHHSTTSHHHHHHHHTSSSCEEEEEECSSTTT
T ss_pred             HHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccCCCEEEEECHHHhccCCCCceeHHHHhcCCcceEEEEEECCCch
Confidence            7888888888733211  122345566777777877666999999966432221222 2223222267788889886532


Q ss_pred             H----hhh--CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhC---CCcch-hHHHHHHh--h--
Q 045152          331 A----LQL--GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCK---GLPLA-AKVIWNLL--R--  396 (533)
Q Consensus       331 ~----~~~--~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~---GlPLa-i~~~~~~L--~--  396 (533)
                      .    ..+  .....+.+++++.++..++|...+..+..  ...--.+....+++.++   |.|.. +..+-...  .  
T Consensus       177 ~~~l~~~l~sr~~~~i~l~~l~~~~~~~il~~~~~~~~~--~~~~~~~~~~~i~~~~~~~~G~~r~a~~~l~~a~~~a~~  254 (384)
T 2qby_B          177 RDYMEPRVLSSLGPSVIFKPYDAEQLKFILSKYAEYGLI--KGTYDDEILSYIAAISAKEHGDARKAVNLLFRAAQLASG  254 (384)
T ss_dssp             TTTSCHHHHHTCCCEEEECCCCHHHHHHHHHHHHHHTSC--TTSCCSHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHTTS
T ss_pred             HhhhCHHHHhcCCCeEEECCCCHHHHHHHHHHHHHhhcc--cCCcCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhcC
Confidence            1    111  11238999999999999999987531100  01112345677888887   88873 33332222  2  


Q ss_pred             -cccchHHHHHHHhh
Q 045152          397 -SKSTVKEWQRILDS  410 (533)
Q Consensus       397 -~~~~~~~w~~~l~~  410 (533)
                       ..-+.+.+..+++.
T Consensus       255 ~~~i~~~~v~~~~~~  269 (384)
T 2qby_B          255 GGIIRKEHVDKAIVD  269 (384)
T ss_dssp             SSCCCHHHHHHHHHH
T ss_pred             CCccCHHHHHHHHHH
Confidence             12256677666654

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.35  E-value=9.1e-12  Score=126.44  Aligned_cols=203  Identities=18%  Similarity=0.093  Sum_probs=129.9

Q ss_pred             CCceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhh----ccCCceEEEEeCCchhHHHH
Q 045152          181 EGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVK----RNFEKVIWVCVSDTFEEIRV  256 (533)
Q Consensus       181 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~----~~F~~~~wv~vs~~~~~~~l  256 (533)
                      +..++||+.+++.+..++....  .......+.|+|++|+||||||+.+++...-.    ..--..+|+++....+...+
T Consensus        18 p~~~~gr~~~~~~l~~~l~~~~--~~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~   95 (387)
T 2v1u_A           18 PDVLPHREAELRRLAEVLAPAL--RGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRV   95 (387)
T ss_dssp             CSCCTTCHHHHHHHHHTTGGGT--SSCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTSCSHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHHHH--cCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcCCCHHHH
Confidence            3679999999999999885432  12346689999999999999999998742111    00234677887777788889


Q ss_pred             HHHHHHHhCCCCCC-CccHHHHHHHHHHHh--CCceEEEEEeCCCCCCcc--ccchhhhccc---CC--CCCceEEEEec
Q 045152          257 AKAIIEGLGVSASG-LSEFESLMKQIQEYI--TRKKFFLVLDDVWDGDYK--KWNPFFSCLK---NG--HHESKILITTR  326 (533)
Q Consensus       257 ~~~il~~l~~~~~~-~~~~~~l~~~l~~~l--~~kr~LlVLDdv~~~~~~--~~~~l~~~l~---~~--~~gs~IiiTtR  326 (533)
                      +..++..++..... ......+...+.+.+  .+++.+|||||++.....  ..+.+...+.   ..  ..+..+|+||+
T Consensus        96 ~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~~~~~~~I~~t~  175 (387)
T 2v1u_A           96 ASAIAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLVGITN  175 (387)
T ss_dssp             HHHHHHHHSCCCCSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----CEEEEECS
T ss_pred             HHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcCCCceEEEEEEEC
Confidence            99999998764322 233555566666666  356899999999764322  1222322222   11  34567777877


Q ss_pred             chHHHh----h-hCCC--CeeeCCCCChHhhHHHHHHhhccC-CCccccccchHHHHHHHhHhC---CCcchh
Q 045152          327 DRSVAL----Q-LGSI--DIIPVKELAEEECWSLLERLAFFR-RSVDDHEKLEPIGRKIAHKCK---GLPLAA  388 (533)
Q Consensus       327 ~~~v~~----~-~~~~--~~~~l~~L~~~~~~~Lf~~~a~~~-~~~~~~~~l~~~~~~I~~~c~---GlPLai  388 (533)
                      ......    . ....  ..+.+++++.++..+++...+... .....   -.+....+++.++   |.|..+
T Consensus       176 ~~~~~~~l~~~l~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~G~~r~~  245 (387)
T 2v1u_A          176 SLGFVENLEPRVKSSLGEVELVFPPYTAPQLRDILETRAEEAFNPGVL---DPDVVPLCAALAAREHGDARRA  245 (387)
T ss_dssp             CSTTSSSSCHHHHTTTTSEECCBCCCCHHHHHHHHHHHHHHHBCTTTB---CSSHHHHHHHHHHSSSCCHHHH
T ss_pred             CCchHhhhCHHHHhcCCCeEEeeCCCCHHHHHHHHHHHHHhhccCCCC---CHHHHHHHHHHHHHhccCHHHH
Confidence            652211    1 1111  478999999999999999875311 11111   2345677888887   999433

>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=99.35  E-value=1.1e-11  Score=117.00  Aligned_cols=197  Identities=17%  Similarity=0.137  Sum_probs=118.0

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAII  261 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il  261 (533)
                      .+++||+..++.+..++....     ....+.|+|++|+||||||+.+++.......+..  + .........    .+.
T Consensus        23 ~~~~g~~~~~~~l~~~l~~~~-----~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~--~-~~~~~~~~~----~~~   90 (250)
T 1njg_A           23 ADVVGQEHVLTALANGLSLGR-----IHHAYLFSGTRGVGKTSIARLLAKGLNCETGITA--T-PCGVCDNCR----EIE   90 (250)
T ss_dssp             GGCCSCHHHHHHHHHHHHHTC-----CCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCS--S-CCSCSHHHH----HHH
T ss_pred             HHHhCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCC--C-CCcccHHHH----HHh
Confidence            358999999999999985432     2358899999999999999999864221111100  0 000000000    000


Q ss_pred             HHhC-----CCCCCCccHHHHHHHHHHH----hCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecchHH-H
Q 045152          262 EGLG-----VSASGLSEFESLMKQIQEY----ITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRSV-A  331 (533)
Q Consensus       262 ~~l~-----~~~~~~~~~~~l~~~l~~~----l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~~v-~  331 (533)
                      ....     ...........+...+...    ..+++.+|||||++..+...++.+...+.....+..+|+||+.... .
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~t~~~~~~~  170 (250)
T 1njg_A           91 QGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLP  170 (250)
T ss_dssp             TTCCSSEEEEETTCGGGHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSC
T ss_pred             ccCCcceEEecCcccccHHHHHHHHHHhhhchhcCCceEEEEECcccccHHHHHHHHHHHhcCCCceEEEEEeCChHhCC
Confidence            0000     0000001111122222111    1356799999999776555667777776665567888888876432 1


Q ss_pred             h-hhCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHHHHHH
Q 045152          332 L-QLGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNL  394 (533)
Q Consensus       332 ~-~~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~~~~  394 (533)
                      . .......+++++++.++..+++...+.... .   .--.+....|++.|+|+|..+..+...
T Consensus       171 ~~l~~r~~~i~l~~l~~~e~~~~l~~~~~~~~-~---~~~~~~~~~l~~~~~G~~~~~~~~~~~  230 (250)
T 1njg_A          171 VTILSRCLQFHLKALDVEQIRHQLEHILNEEH-I---AHEPRALQLLARAAEGSLRDALSLTDQ  230 (250)
T ss_dssp             HHHHTTSEEEECCCCCHHHHHHHHHHHHHHTT-C---CBCHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHhhhccCCCCCHHHHHHHHHHHHHhcC-C---CCCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            1 112246799999999999999998764211 1   112455688999999999998876543

>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=99.34  E-value=1.9e-11  Score=124.33  Aligned_cols=206  Identities=16%  Similarity=0.116  Sum_probs=136.0

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhcc-CCceEEEEeCCchhHHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRN-FEKVIWVCVSDTFEEIRVAKAI  260 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~-F~~~~wv~vs~~~~~~~l~~~i  260 (533)
                      +.++||+.+++.+..++........+..+.+.|+|++|+|||||++.+.+.  .... -...+|++++...+...++..+
T Consensus        17 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~--~~~~~~~~~~~i~~~~~~~~~~~~~~l   94 (389)
T 1fnn_A           17 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWEL--YKDKTTARFVYINGFIYRNFTAIIGEI   94 (389)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHH--HTTSCCCEEEEEETTTCCSHHHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHH--HhhhcCeeEEEEeCccCCCHHHHHHHH
Confidence            679999999999999886532101123348999999999999999999874  2222 1346777777777788899999


Q ss_pred             HHHhCCCCCC-CccHHHHHHHHHHHhC--CceEEEEEeCCCCCCccccchhhhcccCCC----CCceEEEEecchHHHhh
Q 045152          261 IEGLGVSASG-LSEFESLMKQIQEYIT--RKKFFLVLDDVWDGDYKKWNPFFSCLKNGH----HESKILITTRDRSVALQ  333 (533)
Q Consensus       261 l~~l~~~~~~-~~~~~~l~~~l~~~l~--~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~----~gs~IiiTtR~~~v~~~  333 (533)
                      +..++..... ......+...+...+.  +++.+|||||++..+......+...+....    .+..+|++|+.......
T Consensus        95 ~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~~~iI~~~~~~~~~~~  174 (389)
T 1fnn_A           95 ARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNN  174 (389)
T ss_dssp             HHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHHHT
T ss_pred             HHHhCccCCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECccccchHHHHHHHHHHHhCCCCCcCCEEEEEEECCchHHHH
Confidence            9888654322 2234555555555553  568899999997764444445544443211    36678888876644332


Q ss_pred             hC-------CCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHh---------CCCcchhHHH
Q 045152          334 LG-------SIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKC---------KGLPLAAKVI  391 (533)
Q Consensus       334 ~~-------~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c---------~GlPLai~~~  391 (533)
                      +.       ....+.+++++.++..+++...+.....  ...--.+....|++.+         .|.|..+..+
T Consensus       175 l~~~~~~r~~~~~i~~~pl~~~~~~~~l~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~~~G~~r~~~~~  246 (389)
T 1fnn_A          175 LDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLA--EGSYSEDILQMIADITGAQTPLDTNRGDARLAIDI  246 (389)
T ss_dssp             SCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHBC--TTSSCHHHHHHHHHHHSBSSTTCTTSCCHHHHHHH
T ss_pred             hCHHhhhcCCCceEEeCCCCHHHHHHHHHHHHHhhcC--CCCCCHHHHHHHHHHHhhcccCCCCCCcHHHHHHH
Confidence            21       1236999999999999999887531110  0112245667888999         7887655444

>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=99.31  E-value=5.8e-12  Score=127.77  Aligned_cols=204  Identities=17%  Similarity=0.122  Sum_probs=129.0

Q ss_pred             CCceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccC---CceEEEEeCCchhHHHHH
Q 045152          181 EGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNF---EKVIWVCVSDTFEEIRVA  257 (533)
Q Consensus       181 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F---~~~~wv~vs~~~~~~~l~  257 (533)
                      +..++||+.+++.+.+++.....  ......+.|+|++|+||||||+.+++.  ....+   ...+|+++....+...++
T Consensus        19 p~~~~gr~~e~~~l~~~l~~~~~--~~~~~~vli~G~~G~GKTtl~~~l~~~--~~~~~~~~~~~~~i~~~~~~~~~~~~   94 (386)
T 2qby_A           19 PDELPHREDQIRKIASILAPLYR--EEKPNNIFIYGLTGTGKTAVVKFVLSK--LHKKFLGKFKHVYINTRQIDTPYRVL   94 (386)
T ss_dssp             CSCCTTCHHHHHHHHHSSGGGGG--TCCCCCEEEEECTTSSHHHHHHHHHHH--HHHHTCSSCEEEEEEHHHHCSHHHHH
T ss_pred             CCCCCChHHHHHHHHHHHHHHHc--CCCCCeEEEECCCCCCHHHHHHHHHHH--HHHHhcCCceEEEEECCCCCCHHHHH
Confidence            46799999999999998864311  234668999999999999999999874  33332   246677766655667778


Q ss_pred             HHHHHHhCCCCCC-CccHHHHHHHHHHHhC--CceEEEEEeCCCCCC----ccccchhhhcccC-CCCCceEEEEecchH
Q 045152          258 KAIIEGLGVSASG-LSEFESLMKQIQEYIT--RKKFFLVLDDVWDGD----YKKWNPFFSCLKN-GHHESKILITTRDRS  329 (533)
Q Consensus       258 ~~il~~l~~~~~~-~~~~~~l~~~l~~~l~--~kr~LlVLDdv~~~~----~~~~~~l~~~l~~-~~~gs~IiiTtR~~~  329 (533)
                      ..++..++..... ..+.......+.+.+.  +++.+||||+++...    ...+..+...+.. ...+..+|+||+...
T Consensus        95 ~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~~~~~I~~~~~~~  174 (386)
T 2qby_A           95 ADLLESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITNDVK  174 (386)
T ss_dssp             HHHTTTTSCCCCSSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC--EEEEEEESCGG
T ss_pred             HHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcCCCeEEEEEEECCCC
Confidence            8888777553221 2234555555655553  458999999996532    1223333333321 233556788887654


Q ss_pred             HHhhhC-----C--CCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhC---CCcchhHH
Q 045152          330 VALQLG-----S--IDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCK---GLPLAAKV  390 (533)
Q Consensus       330 v~~~~~-----~--~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~---GlPLai~~  390 (533)
                      ....+.     .  ...+.+++++.++..+++...+.....  ...--.+....+++.++   |.|..+..
T Consensus       175 ~~~~~~~~~~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~G~~r~~~~  243 (386)
T 2qby_A          175 FVDLLDPRVKSSLSEEEIIFPPYNAEELEDILTKRAQMAFK--PGVLPDNVIKLCAALAAREHGDARRALD  243 (386)
T ss_dssp             GGGGCTTHHHHTTTTEEEEECCCCHHHHHHHHHHHHHHHBC--SSCSCHHHHHHHHHHHHHTTCCHHHHHH
T ss_pred             hHhhhCHHHhccCCCeeEEeCCCCHHHHHHHHHHHHHhhcc--CCCCCHHHHHHHHHHHHHhcCCHHHHHH
Confidence            322211     1  147999999999999999986521110  11122455677777777   99985433

>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=99.29  E-value=5.1e-11  Score=110.80  Aligned_cols=184  Identities=15%  Similarity=-0.010  Sum_probs=115.0

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCC-ceEEEEeCCchhHHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFE-KVIWVCVSDTFEEIRVAKAI  260 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~-~~~wv~vs~~~~~~~l~~~i  260 (533)
                      .+++|++..++.+.+++...      ....+.|+|++|+|||+||+.+++... ...+. ..+.++.+.......+...+
T Consensus        17 ~~~~g~~~~~~~l~~~l~~~------~~~~~ll~G~~G~GKT~l~~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (226)
T 2chg_A           17 DEVVGQDEVIQRLKGYVERK------NIPHLLFSGPPGTGKTATAIALARDLF-GENWRDNFIEMNASDERGIDVVRHKI   89 (226)
T ss_dssp             GGCCSCHHHHHHHHHHHHTT------CCCCEEEECSTTSSHHHHHHHHHHHHH-GGGGGGGEEEEETTCTTCHHHHHHHH
T ss_pred             HHHcCcHHHHHHHHHHHhCC------CCCeEEEECCCCCCHHHHHHHHHHHHh-ccccccceEEeccccccChHHHHHHH
Confidence            36899999999999999543      223489999999999999999986321 11222 23344433333322222111


Q ss_pred             HHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecchHHH-h-hhCCCC
Q 045152          261 IEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRSVA-L-QLGSID  338 (533)
Q Consensus       261 l~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~~v~-~-~~~~~~  338 (533)
                      ........               ...+++.+|||||++.......+.+...+.....+.++|+||+..... . ......
T Consensus        90 ~~~~~~~~---------------~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~l~~r~~  154 (226)
T 2chg_A           90 KEFARTAP---------------IGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCA  154 (226)
T ss_dssp             HHHHTSCC---------------STTCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSE
T ss_pred             HHHhcccC---------------CCccCceEEEEeChhhcCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcCHHHHHhCc
Confidence            11110000               013578899999997765445556666665555677888888765321 1 112244


Q ss_pred             eeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHHH
Q 045152          339 IIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVI  391 (533)
Q Consensus       339 ~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~  391 (533)
                      .+.+.+++.++..+++.+.+..... .   --.+....+++.++|.|..+..+
T Consensus       155 ~i~~~~~~~~~~~~~l~~~~~~~~~-~---~~~~~~~~l~~~~~g~~r~l~~~  203 (226)
T 2chg_A          155 VFRFKPVPKEAMKKRLLEICEKEGV-K---ITEDGLEALIYISGGDFRKAINA  203 (226)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHHHTC-C---BCHHHHHHHHHHHTTCHHHHHHH
T ss_pred             eeecCCCCHHHHHHHHHHHHHHcCC-C---CCHHHHHHHHHHcCCCHHHHHHH
Confidence            7899999999999999887632111 1   12355678899999999965544

>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=99.11  E-value=4.3e-10  Score=111.10  Aligned_cols=186  Identities=13%  Similarity=0.098  Sum_probs=114.6

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccC-CceEEEEeCCchhHHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNF-EKVIWVCVSDTFEEIRVAKAI  260 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F-~~~~wv~vs~~~~~~~l~~~i  260 (533)
                      .+++|++..++.+..++...      ....+.|+|++|+||||+|+.+++... ...+ ...++++.+....... .+++
T Consensus        21 ~~~~g~~~~~~~l~~~l~~~------~~~~~ll~G~~G~GKt~la~~l~~~l~-~~~~~~~~~~~~~~~~~~~~~-i~~~   92 (323)
T 1sxj_B           21 SDIVGNKETIDRLQQIAKDG------NMPHMIISGMPGIGKTTSVHCLAHELL-GRSYADGVLELNASDDRGIDV-VRNQ   92 (323)
T ss_dssp             GGCCSCTHHHHHHHHHHHSC------CCCCEEEECSTTSSHHHHHHHHHHHHH-GGGHHHHEEEECTTSCCSHHH-HHTH
T ss_pred             HHHHCCHHHHHHHHHHHHcC------CCCeEEEECcCCCCHHHHHHHHHHHhc-CCcccCCEEEecCccccChHH-HHHH
Confidence            46899999999999998543      223389999999999999999987421 1111 1233444333222111 1111


Q ss_pred             HHHhCCCCCCCccHHHHHHHHHHHh-CCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecchHH-Hh-hhCCC
Q 045152          261 IEGLGVSASGLSEFESLMKQIQEYI-TRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRSV-AL-QLGSI  337 (533)
Q Consensus       261 l~~l~~~~~~~~~~~~l~~~l~~~l-~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~~v-~~-~~~~~  337 (533)
                      +..+...              ...+ .+++.++|+||++......++.+...+.....++++|+||+...- .. .....
T Consensus        93 ~~~~~~~--------------~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~~~~~~l~~~l~sr~  158 (323)
T 1sxj_B           93 IKHFAQK--------------KLHLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQC  158 (323)
T ss_dssp             HHHHHHB--------------CCCCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTS
T ss_pred             HHHHHhc--------------cccCCCCCceEEEEECcccCCHHHHHHHHHHHhccCCCceEEEEeCChhhchhHHHhhc
Confidence            2111100              0011 346889999999876555566666666655567788888866421 11 12234


Q ss_pred             CeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcch-hHHHHH
Q 045152          338 DIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLA-AKVIWN  393 (533)
Q Consensus       338 ~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLa-i~~~~~  393 (533)
                      ..+++.+++.++..+++...+...+. .   --.+....|++.++|.|.. +..+..
T Consensus       159 ~~i~~~~~~~~~~~~~l~~~~~~~~~-~---~~~~~~~~l~~~~~G~~r~a~~~l~~  211 (323)
T 1sxj_B          159 AILRYSKLSDEDVLKRLLQIIKLEDV-K---YTNDGLEAIIFTAEGDMRQAINNLQS  211 (323)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHHHHTC-C---BCHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             eEEeecCCCHHHHHHHHHHHHHHcCC-C---CCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            58999999999999999886631111 1   1235568899999999955 444433

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=98.96  E-value=3.4e-09  Score=104.75  Aligned_cols=183  Identities=14%  Similarity=0.056  Sum_probs=113.8

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccC-CceEEEEeCCchhHHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNF-EKVIWVCVSDTFEEIRVAKAI  260 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F-~~~~wv~vs~~~~~~~l~~~i  260 (533)
                      .+++|++..++.+..++...      ....+.|+|++|+||||+|+.+++... ...+ ...+.++.+.......+ ...
T Consensus        25 ~~~~g~~~~~~~l~~~l~~~------~~~~~ll~G~~G~GKT~la~~l~~~l~-~~~~~~~~~~~~~~~~~~~~~~-~~~   96 (327)
T 1iqp_A           25 DDIVGQEHIVKRLKHYVKTG------SMPHLLFAGPPGVGKTTAALALARELF-GENWRHNFLELNASDERGINVI-REK   96 (327)
T ss_dssp             TTCCSCHHHHHHHHHHHHHT------CCCEEEEESCTTSSHHHHHHHHHHHHH-GGGHHHHEEEEETTCHHHHHTT-HHH
T ss_pred             HHhhCCHHHHHHHHHHHHcC------CCCeEEEECcCCCCHHHHHHHHHHHhc-CCcccCceEEeeccccCchHHH-HHH
Confidence            35899999999999988543      333489999999999999999987421 1111 12334443332221111 111


Q ss_pred             HHHhCCCCCCCccHHHHHHHHHH--HhCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecchHH-Hhh-hCC
Q 045152          261 IEGLGVSASGLSEFESLMKQIQE--YITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRSV-ALQ-LGS  336 (533)
Q Consensus       261 l~~l~~~~~~~~~~~~l~~~l~~--~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~~v-~~~-~~~  336 (533)
                      +..+                ...  ...+++.++|+||++......++.+...+.....++++|+||..... ... ...
T Consensus        97 ~~~~----------------~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr  160 (327)
T 1iqp_A           97 VKEF----------------ARTKPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSR  160 (327)
T ss_dssp             HHHH----------------HHSCCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHT
T ss_pred             HHHH----------------HhhCCcCCCCCeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCCccccCHHHHhh
Confidence            1110                000  11256789999999776555566676666655567888888876432 111 112


Q ss_pred             CCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHHHH
Q 045152          337 IDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIW  392 (533)
Q Consensus       337 ~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~~  392 (533)
                      ...+.+.+++.++...++...+...+ ..   --.+....|++.++|.|..+..+.
T Consensus       161 ~~~~~~~~l~~~~~~~~l~~~~~~~~-~~---~~~~~~~~l~~~~~g~~r~~~~~l  212 (327)
T 1iqp_A          161 CAIFRFRPLRDEDIAKRLRYIAENEG-LE---LTEEGLQAILYIAEGDMRRAINIL  212 (327)
T ss_dssp             EEEEECCCCCHHHHHHHHHHHHHTTT-CE---ECHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CcEEEecCCCHHHHHHHHHHHHHhcC-CC---CCHHHHHHHHHHCCCCHHHHHHHH
Confidence            34789999999999999987764211 11   123556788999999998765443

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=98.89  E-value=1.4e-08  Score=98.91  Aligned_cols=172  Identities=10%  Similarity=-0.002  Sum_probs=106.7

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhc---cC--CceEEEEeCCchhHHHHH
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKR---NF--EKVIWVCVSDTFEEIRVA  257 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~---~F--~~~~wv~vs~~~~~~~l~  257 (533)
                      .+.||++|+++|...|...-  ..+....+.|+|++|.|||++++.|.+......   ..  -..+.|+.....+...++
T Consensus        21 ~L~~Re~E~~~i~~~L~~~i--~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~~~   98 (318)
T 3te6_A           21 LLKSQVEDFTRIFLPIYDSL--MSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALY   98 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH--HTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HHHH
T ss_pred             ccCCHHHHHHHHHHHHHHHh--cCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCHHHHH
Confidence            37899999999998886543  235677889999999999999999997532111   11  135667777777888899


Q ss_pred             HHHHHHhCCCCCCC-ccHHHHHHHHHHH--hCCceEEEEEeCCCCCCccccchhhhcccCC-CCCce--EEEEecchH--
Q 045152          258 KAIIEGLGVSASGL-SEFESLMKQIQEY--ITRKKFFLVLDDVWDGDYKKWNPFFSCLKNG-HHESK--ILITTRDRS--  329 (533)
Q Consensus       258 ~~il~~l~~~~~~~-~~~~~l~~~l~~~--l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~-~~gs~--IiiTtR~~~--  329 (533)
                      ..|++++.+..... .....+...+...  -.+++++++||+++...  .-+.+...+... ...++  ||.++...+  
T Consensus        99 ~~I~~~L~g~~~~~~~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~--~q~~L~~l~~~~~~~~s~~~vI~i~n~~d~~  176 (318)
T 3te6_A           99 EKIWFAISKENLCGDISLEALNFYITNVPKAKKRKTLILIQNPENLL--SEKILQYFEKWISSKNSKLSIICVGGHNVTI  176 (318)
T ss_dssp             HHHHHHHSCCC--CCCCHHHHHHHHHHSCGGGSCEEEEEEECCSSSC--CTHHHHHHHHHHHCSSCCEEEEEECCSSCCC
T ss_pred             HHHHHHhcCCCCCchHHHHHHHHHHHHhhhccCCceEEEEecHHHhh--cchHHHHHHhcccccCCcEEEEEEecCcccc
Confidence            99999996643222 2233333333332  24578999999997653  222333333211 12232  333343321  


Q ss_pred             ---HH----hhhCCCCeeeCCCCChHhhHHHHHHhhc
Q 045152          330 ---VA----LQLGSIDIIPVKELAEEECWSLLERLAF  359 (533)
Q Consensus       330 ---v~----~~~~~~~~~~l~~L~~~~~~~Lf~~~a~  359 (533)
                         +.    ..++ ...+.+++.+.++..+++.+++-
T Consensus       177 ~~~L~~~v~SR~~-~~~i~F~pYt~~el~~Il~~Rl~  212 (318)
T 3te6_A          177 REQINIMPSLKAH-FTEIKLNKVDKNELQQMIITRLK  212 (318)
T ss_dssp             HHHHHTCHHHHTT-EEEEECCCCCHHHHHHHHHHHHH
T ss_pred             hhhcchhhhccCC-ceEEEeCCCCHHHHHHHHHHHHH
Confidence               11    1111 24689999999999999988764

>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=98.76  E-value=3.5e-08  Score=97.08  Aligned_cols=180  Identities=15%  Similarity=0.050  Sum_probs=110.6

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCC-ceEEEEeCCchhHHHHHHHHH
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFE-KVIWVCVSDTFEEIRVAKAII  261 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~-~~~wv~vs~~~~~~~l~~~il  261 (533)
                      +++|++..++.+..++...      ....+.++|++|+|||++|+.+.+... ...+. ..+.++.+....         
T Consensus        18 ~~~g~~~~~~~l~~~l~~~------~~~~~ll~G~~G~GKt~la~~l~~~l~-~~~~~~~~~~~~~~~~~~---------   81 (319)
T 2chq_A           18 EVVGQDEVIQRLKGYVERK------NIPHLLFSGPPGTGKTATAIALARDLF-GENWRDNFIEMNASDERG---------   81 (319)
T ss_dssp             GSCSCHHHHHHHHTTTTTT------CCCCEEEESSSSSSHHHHHHHHHHHHH-TTCHHHHCEEEETTSTTC---------
T ss_pred             HHhCCHHHHHHHHHHHhCC------CCCeEEEECcCCcCHHHHHHHHHHHhc-CCcccCCeEEEeCccccC---------
Confidence            5899999999998887432      333489999999999999999886311 11111 223344332111         


Q ss_pred             HHhCCCCCCCccHHHHHHHHHHH--h-CCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecchH-HHhh-hCC
Q 045152          262 EGLGVSASGLSEFESLMKQIQEY--I-TRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRS-VALQ-LGS  336 (533)
Q Consensus       262 ~~l~~~~~~~~~~~~l~~~l~~~--l-~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~~-v~~~-~~~  336 (533)
                               ..........+...  + .+++.++|+||++.......+.+...+.....++++|+||.... +... ...
T Consensus        82 ---------~~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr  152 (319)
T 2chq_A           82 ---------IDVVRHKIKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSR  152 (319)
T ss_dssp             ---------TTTSSHHHHHHHHSCCSSSCCCEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEESCGGGSCHHHHTT
T ss_pred             ---------hHHHHHHHHHHHhcCCCCCCCceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcchHHHhh
Confidence                     00111111111111  1 25678999999976654555667666665556778888876543 1111 123


Q ss_pred             CCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHHH
Q 045152          337 IDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVI  391 (533)
Q Consensus       337 ~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~  391 (533)
                      ...+.+.+++.++..+++...+...+ ..   --.+....++..++|.+..+...
T Consensus       153 ~~~i~~~~~~~~~~~~~l~~~~~~~~-~~---i~~~~l~~l~~~~~G~~r~~~~~  203 (319)
T 2chq_A          153 CAVFRFKPVPKEAMKKRLLEICEKEG-VK---ITEDGLEALIYISGGDFRKAINA  203 (319)
T ss_dssp             CEEEECCCCCHHHHHHHHHHHHHTTC-CC---BCHHHHHHHHHTTTTCHHHHHHH
T ss_pred             CeEEEecCCCHHHHHHHHHHHHHHcC-CC---CCHHHHHHHHHHcCCCHHHHHHH
Confidence            45799999999999999987763211 11   12345677889999999865543

>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=98.75  E-value=6.4e-08  Score=97.51  Aligned_cols=195  Identities=17%  Similarity=0.175  Sum_probs=113.3

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAII  261 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il  261 (533)
                      .+++|++..++.+...+....     ....+.|+|++|+||||+|+.+.+.......+..   ..+....+    ...+.
T Consensus        16 ~~~vg~~~~~~~L~~~l~~~~-----~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~---~~~~~~~~----~~~~~   83 (373)
T 1jr3_A           16 ADVVGQEHVLTALANGLSLGR-----IHHAYLFSGTRGVGKTSIARLLAKGLNCETGITA---TPCGVCDN----CREIE   83 (373)
T ss_dssp             TTSCSCHHHHHHHHHHHHHTC-----CCSEEEEESCTTSSHHHHHHHHHHHHSCTTCSCS---SCCSSSHH----HHHHH
T ss_pred             hhccCcHHHHHHHHHHHHhCC-----CCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCC---CCCcccHH----HHHHh
Confidence            358999999999999885432     2357889999999999999988763211111100   00000000    01111


Q ss_pred             HHh-------CCC-CCCCccHHHHHHHHHHH-hCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecchH-HH
Q 045152          262 EGL-------GVS-ASGLSEFESLMKQIQEY-ITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRS-VA  331 (533)
Q Consensus       262 ~~l-------~~~-~~~~~~~~~l~~~l~~~-l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~~-v~  331 (533)
                      ...       ... .........+...+... ..+++.++|+||++..+....+.+...+.....+..+|++|.... +.
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~  163 (373)
T 1jr3_A           84 QGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLP  163 (373)
T ss_dssp             TSCCSSCEEEETTCSCCSSCHHHHHHHTTSCCSSSSSEEEEEECGGGSCHHHHHHHHHHHHSCCSSEEEEEEESCGGGSC
T ss_pred             ccCCCceEEecccccCCHHHHHHHHHHHhhccccCCeEEEEEECcchhcHHHHHHHHHHHhcCCCceEEEEEeCChHhCc
Confidence            000       000 01112222222222111 135678999999977655556667776665555677777776432 11


Q ss_pred             h-hhCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHHHH
Q 045152          332 L-QLGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIW  392 (533)
Q Consensus       332 ~-~~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~~  392 (533)
                      . .......+++.+++.++..+++...+...+ ..   --.+....|++.++|.|..+..+.
T Consensus       164 ~~l~sr~~~i~~~~l~~~~~~~~l~~~~~~~~-~~---~~~~a~~~l~~~~~G~~r~~~~~l  221 (373)
T 1jr3_A          164 VTILSRCLQFHLKALDVEQIRHQLEHILNEEH-IA---HEPRALQLLARAAEGSLRDALSLT  221 (373)
T ss_dssp             HHHHTTSEEEECCCCCHHHHHHHHHHHHHHHT-CC---BCHHHHHHHHHHSSSCHHHHHHHH
T ss_pred             HHHHhheeEeeCCCCCHHHHHHHHHHHHHHcC-CC---CCHHHHHHHHHHCCCCHHHHHHHH
Confidence            1 122346789999999999999987653111 11   113456788999999998876553

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=98.68  E-value=4.5e-08  Score=88.27  Aligned_cols=45  Identities=27%  Similarity=0.288  Sum_probs=37.8

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ..++||+++++.+.+.+...      ....+.|+|++|+|||+||+.+.+.
T Consensus        22 ~~~~g~~~~~~~l~~~l~~~------~~~~~ll~G~~G~GKT~l~~~~~~~   66 (195)
T 1jbk_A           22 DPVIGRDEEIRRTIQVLQRR------TKNNPVLIGEPGVGKTAIVEGLAQR   66 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSS------SSCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cccccchHHHHHHHHHHhcC------CCCceEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999998542      3456789999999999999999874

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=98.64  E-value=5.7e-08  Score=95.90  Aligned_cols=182  Identities=16%  Similarity=0.143  Sum_probs=107.2

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAII  261 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il  261 (533)
                      .+++|++..+..+..++..... .......+.|+|++|+|||+||+.+.+.  ...   ..++++.+......       
T Consensus        12 ~~~ig~~~~~~~l~~~l~~~~~-~~~~~~~vll~G~~GtGKT~la~~i~~~--~~~---~~~~~~~~~~~~~~-------   78 (324)
T 1hqc_A           12 DEYIGQERLKQKLRVYLEAAKA-RKEPLEHLLLFGPPGLGKTTLAHVIAHE--LGV---NLRVTSGPAIEKPG-------   78 (324)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHH-HCSCCCCCEEECCTTCCCHHHHHHHHHH--HTC---CEEEECTTTCCSHH-------
T ss_pred             HHhhCHHHHHHHHHHHHHHHHc-cCCCCCcEEEECCCCCCHHHHHHHHHHH--hCC---CEEEEeccccCChH-------
Confidence            4689999999988888753211 0123457889999999999999999863  221   22344433222211       


Q ss_pred             HHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCC------------------CCCceEEE
Q 045152          262 EGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNG------------------HHESKILI  323 (533)
Q Consensus       262 ~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~------------------~~gs~Iii  323 (533)
                                    .+...+...+ .+..+|+|||++.........+...+...                  ..+.++|.
T Consensus        79 --------------~l~~~l~~~~-~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~i~  143 (324)
T 1hqc_A           79 --------------DLAAILANSL-EEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIG  143 (324)
T ss_dssp             --------------HHHHHHTTTC-CTTCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCCCEEEE
T ss_pred             --------------HHHHHHHHhc-cCCCEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCCCCEEEEE
Confidence                          1111111111 24568899999765433334343333211                  02345666


Q ss_pred             EecchH-HHhhh-CC-CCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHHHHHHh
Q 045152          324 TTRDRS-VALQL-GS-IDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLL  395 (533)
Q Consensus       324 TtR~~~-v~~~~-~~-~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~~~~L  395 (533)
                      ||.... +...+ .. ...+.+.+++.++..+++...+.... .   .--.+....+++.+.|.|..+..+...+
T Consensus       144 ~t~~~~~~~~~l~~R~~~~i~l~~~~~~e~~~~l~~~~~~~~-~---~~~~~~~~~l~~~~~G~~r~l~~~l~~~  214 (324)
T 1hqc_A          144 ATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLG-V---RITEEAALEIGRRSRGTMRVAKRLFRRV  214 (324)
T ss_dssp             EESCCSSCSCSTTTTCSCEEECCCCCHHHHHHHHHHHHHTTT-C---CCCHHHHHHHHHHSCSCHHHHHHHHHHH
T ss_pred             eCCCcccCCHHHHhcccEEEecCCCCHHHHHHHHHHHHHhcC-C---CCCHHHHHHHHHHccCCHHHHHHHHHHH
Confidence            665432 11111 11 25789999999999999988764211 1   1124567889999999998877655443

>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=98.57  E-value=1.5e-07  Score=88.34  Aligned_cols=172  Identities=14%  Similarity=0.103  Sum_probs=98.7

Q ss_pred             ceeech---hhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHH
Q 045152          183 EVCGRV---EEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKA  259 (533)
Q Consensus       183 ~~vGR~---~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~  259 (533)
                      +++|.+   ...+.+..+...      +....+.|+|++|+||||||+.+.+.  .......+.|++++.....      
T Consensus        29 ~~~~~~~~~~~~~~l~~~~~~------~~~~~~ll~G~~G~GKT~la~~l~~~--~~~~~~~~~~~~~~~~~~~------   94 (242)
T 3bos_A           29 SYYPAAGNDELIGALKSAASG------DGVQAIYLWGPVKSGRTHLIHAACAR--ANELERRSFYIPLGIHASI------   94 (242)
T ss_dssp             TSCC--CCHHHHHHHHHHHHT------CSCSEEEEECSTTSSHHHHHHHHHHH--HHHTTCCEEEEEGGGGGGS------
T ss_pred             hccCCCCCHHHHHHHHHHHhC------CCCCeEEEECCCCCCHHHHHHHHHHH--HHHcCCeEEEEEHHHHHHH------
Confidence            466633   445555555532      24568899999999999999999874  2223345567665432110      


Q ss_pred             HHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccc--cchhhhcccCC-CCCc-eEEEEecchH------
Q 045152          260 IIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKK--WNPFFSCLKNG-HHES-KILITTRDRS------  329 (533)
Q Consensus       260 il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~--~~~l~~~l~~~-~~gs-~IiiTtR~~~------  329 (533)
                      +.+                 .+ +.+ .++.+|||||++......  .+.+...+... ..+. ++|+||+...      
T Consensus        95 ~~~-----------------~~-~~~-~~~~vliiDe~~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~~~~~~~~~~~~~  155 (242)
T 3bos_A           95 STA-----------------LL-EGL-EQFDLICIDDVDAVAGHPLWEEAIFDLYNRVAEQKRGSLIVSASASPMEAGFV  155 (242)
T ss_dssp             CGG-----------------GG-TTG-GGSSEEEEETGGGGTTCHHHHHHHHHHHHHHHHHCSCEEEEEESSCTTTTTCC
T ss_pred             HHH-----------------HH-Hhc-cCCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCCeEEEEcCCCHHHHHHh
Confidence            000                 00 011 345789999997653322  23333333211 1222 4777776321      


Q ss_pred             ---HHhhhCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHHH
Q 045152          330 ---VALQLGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVI  391 (533)
Q Consensus       330 ---v~~~~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~  391 (533)
                         +...+.....+.+++++.++..+++...+.... .   .--.+....+++.++|.+..+..+
T Consensus       156 ~~~l~~r~~~~~~i~l~~~~~~~~~~~l~~~~~~~~-~---~~~~~~~~~l~~~~~g~~r~l~~~  216 (242)
T 3bos_A          156 LPDLVSRMHWGLTYQLQPMMDDEKLAALQRRAAMRG-L---QLPEDVGRFLLNRMARDLRTLFDV  216 (242)
T ss_dssp             CHHHHHHHHHSEEEECCCCCGGGHHHHHHHHHHHTT-C---CCCHHHHHHHHHHTTTCHHHHHHH
T ss_pred             hhhhhhHhhcCceEEeCCCCHHHHHHHHHHHHHHcC-C---CCCHHHHHHHHHHccCCHHHHHHH
Confidence               111222226799999999999999988763111 1   112456678899999998776543

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A*

Probab=98.56  E-value=5.3e-08  Score=107.88  Aligned_cols=109  Identities=15%  Similarity=0.137  Sum_probs=79.1

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcce
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKE  499 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~  499 (533)
                      ++.|++|+++++.--..+|..+..+++|+.|+++++.--..+|  ..++.|++|++|+|+++.--..+|..+.++++|++
T Consensus       631 l~~L~~LdLs~N~l~g~ip~~l~~l~~L~~L~Ls~N~l~g~ip--~~l~~L~~L~~LdLs~N~l~g~ip~~l~~l~~L~~  708 (768)
T 3rgz_A          631 NGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIP--DEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTE  708 (768)
T ss_dssp             SBCCCEEECCSSCCBSCCCGGGGGCTTCCEEECCSSCCCSCCC--GGGGGCTTCCEEECCSSCCEECCCGGGGGCCCCSE
T ss_pred             cccccEEECcCCcccccCCHHHhccccCCEEeCcCCccCCCCC--hHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCE
Confidence            5678999999977666899999999999999999877444788  78999999999999996544589999999999999


Q ss_pred             eeccCCch-----------------------hH----HhhccCCCCCCcccccCCccc
Q 045152          500 LGMEGSPL-----------------------LE----KRYEEGKGEDWRKISHIPHIM  530 (533)
Q Consensus       500 L~~~~c~~-----------------------l~----~~~~~~~~~~~~~~~~i~~~~  530 (533)
                      |++++|+.                       |.    ..|....+++|++|+|+|.++
T Consensus       709 L~ls~N~l~g~iP~~~~~~~~~~~~~~gN~~Lcg~~l~~C~~~~~~~~~~~~~~~~~~  766 (768)
T 3rgz_A          709 IDLSNNNLSGPIPEMGQFETFPPAKFLNNPGLCGYPLPRCDPSNADGYAHHQRSHHHH  766 (768)
T ss_dssp             EECCSSEEEEECCSSSSGGGSCGGGGCSCTEEESTTSCCCCSCC--------------
T ss_pred             EECcCCcccccCCCchhhccCCHHHhcCCchhcCCCCcCCCCCccCCCCCCCCccccC
Confidence            99988732                       11    378888999999999999886

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV}

Probab=98.54  E-value=1.4e-07  Score=93.26  Aligned_cols=85  Identities=21%  Similarity=0.324  Sum_probs=57.3

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcce
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKE  499 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~  499 (533)
                      ++.|++|.+++| .+..+|..+..+++|++|++++|.....+|  ..++.+++|++|+|++|..+..+|..+.++++|++
T Consensus       205 l~~L~~L~L~~N-~l~~l~~~l~~l~~L~~L~Ls~n~~~~~~p--~~~~~l~~L~~L~L~~n~~~~~~p~~~~~l~~L~~  281 (328)
T 4fcg_A          205 LQNLKSLKIRNS-PLSALGPAIHHLPKLEELDLRGCTALRNYP--PIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEK  281 (328)
T ss_dssp             CTTCCEEEEESS-CCCCCCGGGGGCTTCCEEECTTCTTCCBCC--CCTTCCCCCCEEECTTCTTCCBCCTTGGGCTTCCE
T ss_pred             CCCCCEEEccCC-CCCcCchhhccCCCCCEEECcCCcchhhhH--HHhcCCCCCCEEECCCCCchhhcchhhhcCCCCCE
Confidence            456667777663 345566666667777777777666666666  56666777777777777777777766777777777


Q ss_pred             eeccCCch
Q 045152          500 LGMEGSPL  507 (533)
Q Consensus       500 L~~~~c~~  507 (533)
                      |++++|+.
T Consensus       282 L~L~~n~~  289 (328)
T 4fcg_A          282 LDLRGCVN  289 (328)
T ss_dssp             EECTTCTT
T ss_pred             EeCCCCCc
Confidence            77777664

>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=98.52  E-value=3.1e-07  Score=91.68  Aligned_cols=194  Identities=12%  Similarity=0.059  Sum_probs=111.0

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCC-ceEEEEeCCchhHHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFE-KVIWVCVSDTFEEIRVAKAI  260 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~-~~~wv~vs~~~~~~~l~~~i  260 (533)
                      .+++|+++.++.+..++....      ...+.|+|++|+||||+|+.+.+.......+. ....++.+.......+ .+.
T Consensus        37 ~~i~g~~~~~~~l~~~l~~~~------~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~  109 (353)
T 1sxj_D           37 DEVTAQDHAVTVLKKTLKSAN------LPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIV-REK  109 (353)
T ss_dssp             TTCCSCCTTHHHHHHHTTCTT------CCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHH-TTH
T ss_pred             HHhhCCHHHHHHHHHHHhcCC------CCEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEccccccchHHH-HHH
Confidence            468999999999999985432      23389999999999999999987421111121 2233333332222221 221


Q ss_pred             HHHhCCC-CCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecchH-HHhh-hCCC
Q 045152          261 IEGLGVS-ASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRS-VALQ-LGSI  337 (533)
Q Consensus       261 l~~l~~~-~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~~-v~~~-~~~~  337 (533)
                      +..+... .......     .....-.+++-++++|+++.........+...+.......++|++|.... +... ....
T Consensus       110 ~~~~~~~~~~~~~~~-----~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~l~sR~  184 (353)
T 1sxj_D          110 VKNFARLTVSKPSKH-----DLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQC  184 (353)
T ss_dssp             HHHHHHSCCCCCCTT-----HHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHS
T ss_pred             HHHHhhhcccccchh-----hcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcCCCceEEEEeCchhhCcchhhccC
Confidence            2111100 0000000     00011123557999999976554445556666654445567777775432 1111 1123


Q ss_pred             CeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHHH
Q 045152          338 DIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVI  391 (533)
Q Consensus       338 ~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~  391 (533)
                      ..+.+.+++.++....+...+... ..   .--.+....|++.++|.|..+..+
T Consensus       185 ~~i~~~~~~~~~~~~~l~~~~~~~-~~---~i~~~~l~~l~~~~~G~~r~~~~~  234 (353)
T 1sxj_D          185 SKFRFKALDASNAIDRLRFISEQE-NV---KCDDGVLERILDISAGDLRRGITL  234 (353)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHHTT-TC---CCCHHHHHHHHHHTSSCHHHHHHH
T ss_pred             ceEEeCCCCHHHHHHHHHHHHHHh-CC---CCCHHHHHHHHHHcCCCHHHHHHH
Confidence            478999999999999998866311 11   112456788999999999875443

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=98.51  E-value=1.7e-06  Score=88.95  Aligned_cols=176  Identities=19%  Similarity=0.190  Sum_probs=100.4

Q ss_pred             CceeechhhH---HHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCc-hhHHHHH
Q 045152          182 GEVCGRVEEK---NELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT-FEEIRVA  257 (533)
Q Consensus       182 ~~~vGR~~e~---~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~-~~~~~l~  257 (533)
                      .+++|.+..+   ..+...+..      +....+.|+|++|+||||||+.+.+.  ....     ++.++.. ..... .
T Consensus        26 ~~ivGq~~~~~~~~~L~~~i~~------~~~~~vLL~GppGtGKTtlAr~ia~~--~~~~-----f~~l~a~~~~~~~-i   91 (447)
T 3pvs_A           26 AQYIGQQHLLAAGKPLPRAIEA------GHLHSMILWGPPGTGKTTLAEVIARY--ANAD-----VERISAVTSGVKE-I   91 (447)
T ss_dssp             TTCCSCHHHHSTTSHHHHHHHH------TCCCEEEEECSTTSSHHHHHHHHHHH--TTCE-----EEEEETTTCCHHH-H
T ss_pred             HHhCCcHHHHhchHHHHHHHHc------CCCcEEEEECCCCCcHHHHHHHHHHH--hCCC-----eEEEEeccCCHHH-H
Confidence            4588888777   666666643      34578999999999999999999873  2222     2222211 11111 1


Q ss_pred             HHHHHHhCCCCCCCccHHHHHHHHH-HHhCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEE-EecchH--H-Hh
Q 045152          258 KAIIEGLGVSASGLSEFESLMKQIQ-EYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILI-TTRDRS--V-AL  332 (533)
Q Consensus       258 ~~il~~l~~~~~~~~~~~~l~~~l~-~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~Iii-TtR~~~--v-~~  332 (533)
                      +.++                 .... ....+++.+|+||+++..+....+.|...+..+  ...+|. ||.+..  + ..
T Consensus        92 r~~~-----------------~~a~~~~~~~~~~iLfIDEI~~l~~~~q~~LL~~le~~--~v~lI~att~n~~~~l~~a  152 (447)
T 3pvs_A           92 REAI-----------------ERARQNRNAGRRTILFVDEVHRFNKSQQDAFLPHIEDG--TITFIGATTENPSFELNSA  152 (447)
T ss_dssp             HHHH-----------------HHHHHHHHTTCCEEEEEETTTCC------CCHHHHHTT--SCEEEEEESSCGGGSSCHH
T ss_pred             HHHH-----------------HHHHHhhhcCCCcEEEEeChhhhCHHHHHHHHHHHhcC--ceEEEecCCCCcccccCHH
Confidence            1111                 1111 112467889999999877655666676666542  233333 544432  1 11


Q ss_pred             hhCCCCeeeCCCCChHhhHHHHHHhhccCCCc---cccccchHHHHHHHhHhCCCcchhHH
Q 045152          333 QLGSIDIIPVKELAEEECWSLLERLAFFRRSV---DDHEKLEPIGRKIAHKCKGLPLAAKV  390 (533)
Q Consensus       333 ~~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~---~~~~~l~~~~~~I~~~c~GlPLai~~  390 (533)
                      .......+.+++++.++...++.+.+......   ....--.+....+++.++|.+..+..
T Consensus       153 L~sR~~v~~l~~l~~edi~~il~~~l~~~~~~~~~~~~~i~~~al~~L~~~~~Gd~R~lln  213 (447)
T 3pvs_A          153 LLSRARVYLLKSLSTEDIEQVLTQAMEDKTRGYGGQDIVLPDETRRAIAELVNGDARRALN  213 (447)
T ss_dssp             HHTTEEEEECCCCCHHHHHHHHHHHHHCTTTSSTTSSEECCHHHHHHHHHHHCSCHHHHHH
T ss_pred             HhCceeEEeeCCcCHHHHHHHHHHHHHHHhhhhccccCcCCHHHHHHHHHHCCCCHHHHHH
Confidence            22334578899999999999998876421000   11112245567788888888766543

>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=98.42  E-value=1.1e-06  Score=90.42  Aligned_cols=182  Identities=16%  Similarity=0.126  Sum_probs=105.6

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcchhhhccCC--ceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhC
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNNDEVKRNFE--KVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYIT  286 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~--~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~  286 (533)
                      ...+.|+|++|+||||||+.+++.  ....|.  .+++++.      ..+..++...+...     .    ...+...+.
T Consensus       130 ~~~lll~Gp~G~GKTtLa~aia~~--l~~~~~~~~v~~v~~------~~~~~~~~~~~~~~-----~----~~~~~~~~~  192 (440)
T 2z4s_A          130 YNPLFIYGGVGLGKTHLLQSIGNY--VVQNEPDLRVMYITS------EKFLNDLVDSMKEG-----K----LNEFREKYR  192 (440)
T ss_dssp             SCCEEEECSSSSSHHHHHHHHHHH--HHHHCCSSCEEEEEH------HHHHHHHHHHHHTT-----C----HHHHHHHHT
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH--HHHhCCCCeEEEeeH------HHHHHHHHHHHHcc-----c----HHHHHHHhc
Confidence            668999999999999999999973  333332  2344432      23334444443221     1    112333344


Q ss_pred             CceEEEEEeCCCCCCc--cccchhhhcccC-CCCCceEEEEecch---------HHHhhhCCCCeeeCCCCChHhhHHHH
Q 045152          287 RKKFFLVLDDVWDGDY--KKWNPFFSCLKN-GHHESKILITTRDR---------SVALQLGSIDIIPVKELAEEECWSLL  354 (533)
Q Consensus       287 ~kr~LlVLDdv~~~~~--~~~~~l~~~l~~-~~~gs~IiiTtR~~---------~v~~~~~~~~~~~l~~L~~~~~~~Lf  354 (533)
                      .+.-+|+|||++....  ..-+.+...+.. ...|..||+||.+.         .+...+.....+.+++++.++..+++
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            3667999999965432  122234333321 23467788888752         22222333357899999999999999


Q ss_pred             HHhhccCCCccccccchHHHHHHHhHhCCCcchhHHHHHH------hhcc-cchHHHHHHHhhh
Q 045152          355 ERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNL------LRSK-STVKEWQRILDSE  411 (533)
Q Consensus       355 ~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~~~~------L~~~-~~~~~w~~~l~~~  411 (533)
                      .+.+.... ...+   .+....|+..+.|.+..+..+-..      +..+ -+.+.+..++...
T Consensus       273 ~~~~~~~~-~~i~---~e~l~~la~~~~gn~R~l~~~L~~~~~~a~~~~~~It~~~~~~~l~~~  332 (440)
T 2z4s_A          273 RKMLEIEH-GELP---EEVLNFVAENVDDNLRRLRGAIIKLLVYKETTGKEVDLKEAILLLKDF  332 (440)
T ss_dssp             HHHHHHHT-CCCC---TTHHHHHHHHCCSCHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHTSTT
T ss_pred             HHHHHHcC-CCCC---HHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence            88763111 1111   345678889999988765432211      1122 2566777776643

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV}

Probab=98.39  E-value=3.5e-07  Score=90.50  Aligned_cols=83  Identities=24%  Similarity=0.365  Sum_probs=78.7

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcce
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKE  499 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~  499 (533)
                      ++.|++|++++|.....+|..+..+++|++|++++|..+..+|  ..++.+++|++|+|++|+.+..+|+.+.+|++|+.
T Consensus       228 l~~L~~L~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~~~~~~p--~~~~~l~~L~~L~L~~n~~~~~iP~~l~~L~~L~~  305 (328)
T 4fcg_A          228 LPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLP--LDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCI  305 (328)
T ss_dssp             CTTCCEEECTTCTTCCBCCCCTTCCCCCCEEECTTCTTCCBCC--TTGGGCTTCCEEECTTCTTCCCCCGGGGGSCTTCE
T ss_pred             CCCCCEEECcCCcchhhhHHHhcCCCCCCEEECCCCCchhhcc--hhhhcCCCCCEEeCCCCCchhhccHHHhhccCceE
Confidence            6789999999999999999999999999999999999999999  68999999999999999999999999999999999


Q ss_pred             eeccC
Q 045152          500 LGMEG  504 (533)
Q Consensus       500 L~~~~  504 (533)
                      +++..
T Consensus       306 l~l~~  310 (328)
T 4fcg_A          306 ILVPP  310 (328)
T ss_dssp             EECCG
T ss_pred             EeCCH
Confidence            99863

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=98.38  E-value=3e-06  Score=81.80  Aligned_cols=184  Identities=16%  Similarity=0.086  Sum_probs=99.5

Q ss_pred             CceeechhhHHHHHHHHhCCCcc-------CCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSE-------QQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEI  254 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~-------~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~  254 (533)
                      .+++|.++.++.+.+.+......       +-.....+.|+|++|+|||+||+.+.+.  ....   .+.+..+.-.   
T Consensus        17 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~--~~~~---~~~v~~~~~~---   88 (285)
T 3h4m_A           17 EDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATE--TNAT---FIRVVGSELV---   88 (285)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHH--TTCE---EEEEEGGGGC---
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHH--hCCC---EEEEehHHHH---
Confidence            46899999999998877432000       0123456899999999999999999863  2211   2222221110   


Q ss_pred             HHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCC-----------Cccccchhhhcc---c--CCCCC
Q 045152          255 RVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDG-----------DYKKWNPFFSCL---K--NGHHE  318 (533)
Q Consensus       255 ~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~-----------~~~~~~~l~~~l---~--~~~~g  318 (533)
                                 ... ...........+......++.+|+|||++..           +......+...+   .  ....+
T Consensus        89 -----------~~~-~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~  156 (285)
T 3h4m_A           89 -----------KKF-IGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDARGD  156 (285)
T ss_dssp             -----------CCS-TTHHHHHHHHHHHHHHHTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTCSSSS
T ss_pred             -----------Hhc-cchHHHHHHHHHHHHHHcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCCCCCCC
Confidence                       000 0011112222223333456689999999542           101111122222   1  12335


Q ss_pred             ceEEEEecchHHHh--hh---CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCC-cchhHH
Q 045152          319 SKILITTRDRSVAL--QL---GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGL-PLAAKV  390 (533)
Q Consensus       319 s~IiiTtR~~~v~~--~~---~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~Gl-PLai~~  390 (533)
                      ..||.||.......  ..   .....+.++..+.++..++|...+... .......    ...++..+.|. |-.+..
T Consensus       157 ~~vI~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~il~~~~~~~-~~~~~~~----~~~l~~~~~g~~~~~i~~  229 (285)
T 3h4m_A          157 VKIIGATNRPDILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKM-NLAEDVN----LEEIAKMTEGCVGAELKA  229 (285)
T ss_dssp             EEEEEECSCGGGBCHHHHSTTSEEEEEECCCCCHHHHHHHHHHHHTTS-CBCTTCC----HHHHHHHCTTCCHHHHHH
T ss_pred             EEEEEeCCCchhcCHHHcCCCcCCeEEEECCCCHHHHHHHHHHHHhcC-CCCCcCC----HHHHHHHcCCCCHHHHHH
Confidence            66777887543221  11   123478999999999999998876421 1111112    36677777774 434443

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=98.38  E-value=1.5e-06  Score=86.15  Aligned_cols=177  Identities=15%  Similarity=0.121  Sum_probs=103.9

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAII  261 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il  261 (533)
                      .+++|++..++.+..++..... .......+.|+|++|+|||+||+.+.+.  ....   .+.++.+....         
T Consensus        29 ~~iiG~~~~~~~l~~~l~~~~~-~~~~~~~vll~G~~GtGKT~la~~ia~~--~~~~---~~~~~~~~~~~---------   93 (338)
T 3pfi_A           29 DGYIGQESIKKNLNVFIAAAKK-RNECLDHILFSGPAGLGKTTLANIISYE--MSAN---IKTTAAPMIEK---------   93 (338)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHH-TTSCCCCEEEECSTTSSHHHHHHHHHHH--TTCC---EEEEEGGGCCS---------
T ss_pred             HHhCChHHHHHHHHHHHHHHHh-cCCCCCeEEEECcCCCCHHHHHHHHHHH--hCCC---eEEecchhccc---------
Confidence            4689999999999988864321 1234556899999999999999999763  2222   22333221111         


Q ss_pred             HHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCCC------------------CCceEEE
Q 045152          262 EGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGH------------------HESKILI  323 (533)
Q Consensus       262 ~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~------------------~gs~Iii  323 (533)
                                  .......+..  ..+..+|+||+++.........+...+....                  ++..+|.
T Consensus        94 ------------~~~~~~~~~~--~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~i~  159 (338)
T 3pfi_A           94 ------------SGDLAAILTN--LSEGDILFIDEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPKFTLIG  159 (338)
T ss_dssp             ------------HHHHHHHHHT--CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCC---------CCCCCCCCCCCEEEE
T ss_pred             ------------hhHHHHHHHh--ccCCCEEEEechhhcCHHHHHHHHHHHHhccchhhcccCccccceecCCCCeEEEE
Confidence                        1111111111  2355788999997654433444444333221                  1245666


Q ss_pred             EecchHH-Hhh-hCC-CCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHHH
Q 045152          324 TTRDRSV-ALQ-LGS-IDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVI  391 (533)
Q Consensus       324 TtR~~~v-~~~-~~~-~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~  391 (533)
                      +|..... ... ... ...+.+.+++.++...++.+.+....    ..--.+....+++.+.|.|..+..+
T Consensus       160 atn~~~~l~~~L~~R~~~~i~l~~~~~~e~~~il~~~~~~~~----~~~~~~~~~~l~~~~~G~~r~l~~~  226 (338)
T 3pfi_A          160 ATTRAGMLSNPLRDRFGMQFRLEFYKDSELALILQKAALKLN----KTCEEKAALEIAKRSRSTPRIALRL  226 (338)
T ss_dssp             EESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTT----CEECHHHHHHHHHTTTTCHHHHHHH
T ss_pred             eCCCccccCHHHHhhcCEEeeCCCcCHHHHHHHHHHHHHhcC----CCCCHHHHHHHHHHHCcCHHHHHHH
Confidence            6654321 111 112 36799999999999999987763211    1112455677888999999655543

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=98.37  E-value=4.5e-06  Score=83.73  Aligned_cols=197  Identities=14%  Similarity=0.076  Sum_probs=104.4

Q ss_pred             CceeechhhHHH---HHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEe----CCchhHH
Q 045152          182 GEVCGRVEEKNE---LLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCV----SDTFEEI  254 (533)
Q Consensus       182 ~~~vGR~~e~~~---l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v----s~~~~~~  254 (533)
                      .+++|++..++.   +.+.+....    .....+.|+|++|+|||+||+.+.+.  ..... ..+.+..    +......
T Consensus        44 ~~ivG~~~~~~~l~~l~~~~~~~~----~~~~~vLl~GppGtGKT~la~~la~~--l~~~~-~~~~~~~~~~~~~~~~~~  116 (368)
T 3uk6_A           44 QGMVGQLAARRAAGVVLEMIREGK----IAGRAVLIAGQPGTGKTAIAMGMAQA--LGPDT-PFTAIAGSEIFSLEMSKT  116 (368)
T ss_dssp             TTEESCHHHHHHHHHHHHHHHTTC----CTTCEEEEEESTTSSHHHHHHHHHHH--HCSSC-CEEEEEGGGGSCSSSCHH
T ss_pred             hhccChHHHHHHHHHHHHHHHcCC----CCCCEEEEECCCCCCHHHHHHHHHHH--hcccC-Ccccccchhhhhcccchh
Confidence            469999988766   444443322    23468999999999999999999874  22111 1112221    1122333


Q ss_pred             HHHHHHHHHhCC---------------------CCC-------C--CccHHHHHHHHHHHh-----CCc----eEEEEEe
Q 045152          255 RVAKAIIEGLGV---------------------SAS-------G--LSEFESLMKQIQEYI-----TRK----KFFLVLD  295 (533)
Q Consensus       255 ~l~~~il~~l~~---------------------~~~-------~--~~~~~~l~~~l~~~l-----~~k----r~LlVLD  295 (533)
                      ..+.+.+.....                     ...       .  ......+...+....     .++    +.+|+||
T Consensus       117 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ld~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~g~~~~~~~vl~ID  196 (368)
T 3uk6_A          117 EALTQAFRRSIGVRIKAGAVHTVSLHEIDVINSRTQGFLALFSGDTGEIKSEVREQINAKVAEWREEGKAEIIPGVLFID  196 (368)
T ss_dssp             HHHHHHHHHSBEECC------CEEHHHHHHHTC----CCSCC-------CHHHHHHHHHHHHHHHHHTC---CBCEEEEE
T ss_pred             HHHHHHHHHHHHHHhhhhccccccHhhhhhhhcccccchhhccCcccccHHHHHHHHHHHHHHhhhhccccccCceEEEh
Confidence            334333332110                     000       0  000122222222211     123    3599999


Q ss_pred             CCCCCCccccchhhhcccCCCCCceEEEEecc-------------hHHH-hhhCCCCeeeCCCCChHhhHHHHHHhhccC
Q 045152          296 DVWDGDYKKWNPFFSCLKNGHHESKILITTRD-------------RSVA-LQLGSIDIIPVKELAEEECWSLLERLAFFR  361 (533)
Q Consensus       296 dv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~-------------~~v~-~~~~~~~~~~l~~L~~~~~~~Lf~~~a~~~  361 (533)
                      +++.........+...+...... .++++|..             ..+. ........+.+++++.++..+++...+...
T Consensus       197 Ei~~l~~~~~~~L~~~le~~~~~-~~ii~t~~~~~~i~~t~~~~~~~l~~~l~sR~~~i~~~~~~~~e~~~il~~~~~~~  275 (368)
T 3uk6_A          197 EVHMLDIESFSFLNRALESDMAP-VLIMATNRGITRIRGTSYQSPHGIPIDLLDRLLIVSTTPYSEKDTKQILRIRCEEE  275 (368)
T ss_dssp             SGGGSBHHHHHHHHHHTTCTTCC-EEEEEESCSEEECBTSSCEEETTCCHHHHTTEEEEEECCCCHHHHHHHHHHHHHHT
T ss_pred             hccccChHHHHHHHHHhhCcCCC-eeeeecccceeeeeccCCCCcccCCHHHHhhccEEEecCCCHHHHHHHHHHHHHHc
Confidence            99776555555555555443333 34444431             1111 111223458999999999999999876421


Q ss_pred             CCccccccchHHHHHHHhHhC-CCcchhHH
Q 045152          362 RSVDDHEKLEPIGRKIAHKCK-GLPLAAKV  390 (533)
Q Consensus       362 ~~~~~~~~l~~~~~~I~~~c~-GlPLai~~  390 (533)
                      . .   .--.+....|++.+. |.|..+..
T Consensus       276 ~-~---~~~~~~l~~l~~~~~~G~~r~~~~  301 (368)
T 3uk6_A          276 D-V---EMSEDAYTVLTRIGLETSLRYAIQ  301 (368)
T ss_dssp             T-C---CBCHHHHHHHHHHHHHSCHHHHHH
T ss_pred             C-C---CCCHHHHHHHHHHhcCCCHHHHHH
Confidence            1 1   122456678888887 88876544

>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=98.37  E-value=1.3e-06  Score=91.99  Aligned_cols=196  Identities=15%  Similarity=0.126  Sum_probs=107.5

Q ss_pred             CceeechhhHHHHHHHHhCCCc-----------cCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCc
Q 045152          182 GEVCGRVEEKNELLSKLLCESS-----------EQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT  250 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~-----------~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~  250 (533)
                      .+++|++..++.+.+++.....           .+.+..+.+.|+|++|+||||+|+.+.+..    .+ ..+.++.+..
T Consensus        39 ~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l----~~-~~i~in~s~~  113 (516)
T 1sxj_A           39 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQEL----GY-DILEQNASDV  113 (516)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHT----TC-EEEEECTTSC
T ss_pred             HHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHc----CC-CEEEEeCCCc
Confidence            4689999999999999965210           001235789999999999999999998742    22 2334444443


Q ss_pred             hhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccc---cchhhhcccCCCCCceEEEEecc
Q 045152          251 FEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKK---WNPFFSCLKNGHHESKILITTRD  327 (533)
Q Consensus       251 ~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~---~~~l~~~l~~~~~gs~IiiTtR~  327 (533)
                      .... +....+........-..-......  .....+++.+|+||+++......   +..+...+...  +..||+++..
T Consensus       114 ~~~~-~~~~~i~~~~~~~~~~~~~~~~~~--~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~l~~~--~~~iIli~~~  188 (516)
T 1sxj_A          114 RSKT-LLNAGVKNALDNMSVVGYFKHNEE--AQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKT--STPLILICNE  188 (516)
T ss_dssp             CCHH-HHHHTGGGGTTBCCSTTTTTC------CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHHC--SSCEEEEESC
T ss_pred             chHH-HHHHHHHHHhccccHHHHHhhhhh--hhhccCCCeEEEEECCCccchhhHHHHHHHHHHHHhc--CCCEEEEEcC
Confidence            3322 222222222111000000000000  00123577899999996643221   23344433322  3446665554


Q ss_pred             hH---HHhhhCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcc-hhHHH
Q 045152          328 RS---VALQLGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPL-AAKVI  391 (533)
Q Consensus       328 ~~---v~~~~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPL-ai~~~  391 (533)
                      ..   +.........+.+++++.++..+++...+....-. .   -.+....|++.++|.+. ++..+
T Consensus       189 ~~~~~l~~l~~r~~~i~f~~~~~~~~~~~L~~i~~~~~~~-i---~~~~l~~la~~s~GdiR~~i~~L  252 (516)
T 1sxj_A          189 RNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFK-L---DPNVIDRLIQTTRGDIRQVINLL  252 (516)
T ss_dssp             TTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCC-C---CTTHHHHHHHHTTTCHHHHHHHH
T ss_pred             CCCccchhhHhceEEEEeCCCCHHHHHHHHHHHHHHcCCC-C---CHHHHHHHHHHcCCcHHHHHHHH
Confidence            22   22222224578999999999999988766421111 1   13446788899999554 44444

>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=98.36  E-value=5.9e-06  Score=78.56  Aligned_cols=186  Identities=13%  Similarity=0.067  Sum_probs=96.7

Q ss_pred             CceeechhhHHHHHHHHhC---CCc---cCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHH
Q 045152          182 GEVCGRVEEKNELLSKLLC---ESS---EQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIR  255 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~---~~~---~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~  255 (533)
                      .+++|.+..++.+.+++..   ...   -+......+.|+|++|+|||++|+.+.+.  ....   .+.++.+.-.+   
T Consensus         6 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~--~~~~---~~~~~~~~~~~---   77 (262)
T 2qz4_A            6 KDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATE--AQVP---FLAMAGAEFVE---   77 (262)
T ss_dssp             TSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHH--HTCC---EEEEETTTTSS---
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHH--hCCC---EEEechHHHHh---
Confidence            4688998887777665421   110   00123456889999999999999999873  2222   23344332110   


Q ss_pred             HHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCC------------ccccc---hhhhcccC--CCCC
Q 045152          256 VAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGD------------YKKWN---PFFSCLKN--GHHE  318 (533)
Q Consensus       256 l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~------------~~~~~---~l~~~l~~--~~~g  318 (533)
                                  .........+...+.......+.+|+|||++...            .....   .+...+..  ...+
T Consensus        78 ------------~~~~~~~~~~~~~~~~a~~~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~  145 (262)
T 2qz4_A           78 ------------VIGGLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTTDH  145 (262)
T ss_dssp             ------------SSTTHHHHHHHHHHHHHHHTCSEEEEEECC-------------------CHHHHHHHHHHHTCCTTCC
T ss_pred             ------------hccChhHHHHHHHHHHHHhcCCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcCCCCC
Confidence                        0000111222223333334457899999996531            11111   22222221  1234


Q ss_pred             ceEEEEecchHHH-hh-hC---CCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcc-hhHH
Q 045152          319 SKILITTRDRSVA-LQ-LG---SIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPL-AAKV  390 (533)
Q Consensus       319 s~IiiTtR~~~v~-~~-~~---~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPL-ai~~  390 (533)
                      ..||.||...... .. ..   ....+.++..+.++-.+++...+.... .  ..........+++.+.|.+- .+..
T Consensus       146 ~~vi~~tn~~~~ld~~l~~~~R~~~~i~i~~p~~~~r~~il~~~~~~~~-~--~~~~~~~~~~l~~~~~g~~~~~l~~  220 (262)
T 2qz4_A          146 VIVLASTNRADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLK-L--TQSSTFYSQRLAELTPGFSGADIAN  220 (262)
T ss_dssp             EEEEEEESCGGGGGSGGGSTTSCCEEEECCSCCHHHHHHHHHHHHHHTT-C--CBTHHHHHHHHHHTCTTCCHHHHHH
T ss_pred             EEEEecCCChhhcCHHHhcCCcCCeEEEeCCcCHHHHHHHHHHHHHhCC-C--CcchhhHHHHHHHHCCCCCHHHHHH
Confidence            5666677654321 11 11   235678999999999999988763211 1  11111234678888888765 4433

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=98.35  E-value=1.3e-06  Score=77.89  Aligned_cols=89  Identities=18%  Similarity=0.210  Sum_probs=73.4

Q ss_pred             cccccccccceEEEeecCCcccC-CccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcC-CC
Q 045152          415 ENISIMPCLSVLRVYLCPKLKVL-PDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDS-LL  492 (533)
Q Consensus       415 ~~~~ilp~L~~L~l~~c~~l~~l-p~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~-~~  492 (533)
                      ++..+.+.|++|.++++ .+..+ |..+..+++|++|+|++. .|..+|. ..+..+++|++|+|++ .+|+.+|++ +.
T Consensus        27 iP~~~~~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~Ls~N-~l~~i~~-~~~~~l~~L~~L~L~~-N~l~~l~~~~~~  102 (174)
T 2r9u_A           27 VPAGIPTDKQRLWLNNN-QITKLEPGVFDHLVNLQQLYFNSN-KLTAIPT-GVFDKLTQLTQLDLND-NHLKSIPRGAFD  102 (174)
T ss_dssp             CCSCCCTTCSEEECCSS-CCCCCCTTTTTTCTTCCEEECCSS-CCCCCCT-TTTTTCTTCCEEECCS-SCCCCCCTTTTT
T ss_pred             cCCCcCCCCcEEEeCCC-CccccCHHHhcCCcCCCEEECCCC-CCCccCh-hHhCCcchhhEEECCC-CccceeCHHHhc
Confidence            34445678999999984 45666 667889999999999976 5899983 2357899999999999 689999986 88


Q ss_pred             CCCCcceeeccCCch
Q 045152          493 QITTLKELGMEGSPL  507 (533)
Q Consensus       493 ~l~~L~~L~~~~c~~  507 (533)
                      ++++|++|++++++.
T Consensus       103 ~l~~L~~L~L~~N~~  117 (174)
T 2r9u_A          103 NLKSLTHIYLYNNPW  117 (174)
T ss_dssp             TCTTCSEEECCSSCB
T ss_pred             cccCCCEEEeCCCCc
Confidence            999999999998873

>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=98.34  E-value=1.3e-06  Score=87.25  Aligned_cols=195  Identities=13%  Similarity=0.091  Sum_probs=104.3

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcch---hhhc-cCC-----------------
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNND---EVKR-NFE-----------------  240 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~---~~~~-~F~-----------------  240 (533)
                      .+++|.+...+.+..++...     +....+.|+|+.|+||||+|+.+....   .... .++                 
T Consensus        14 ~~~vg~~~~~~~l~~~~~~~-----~~~~~~ll~Gp~G~GKTtl~~~la~~l~~~~~g~i~~~~~~~~~~~~~~~~~~~~   88 (354)
T 1sxj_E           14 NALSHNEELTNFLKSLSDQP-----RDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVV   88 (354)
T ss_dssp             GGCCSCHHHHHHHHTTTTCT-----TCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCE
T ss_pred             HHhcCCHHHHHHHHHHHhhC-----CCCCeEEEECCCCCCHHHHHHHHHHHHcCCCCCeEEecceeecccccccceeeee
Confidence            35899998888888777222     122228999999999999998876521   0000 000                 


Q ss_pred             ---ceEEEEeCCch-hHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCCC
Q 045152          241 ---KVIWVCVSDTF-EEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGH  316 (533)
Q Consensus       241 ---~~~wv~vs~~~-~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~  316 (533)
                         ..+.+..+... ......++++..+.....-    .... .+. .+.+++-++|||++...+......+...+....
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~----~~~~-~ls-~l~~~~~vlilDE~~~L~~~~~~~L~~~le~~~  162 (354)
T 1sxj_E           89 SSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQV----DFQD-SKD-GLAHRYKCVIINEANSLTKDAQAALRRTMEKYS  162 (354)
T ss_dssp             ECSSEEEECCC----CCHHHHHHHHHHHTTTTC------------------CCEEEEEECTTSSCHHHHHHHHHHHHHST
T ss_pred             cccceEEecHhhcCCcchHHHHHHHHHHHHhccc----cccc-ccc-ccCCCCeEEEEeCccccCHHHHHHHHHHHHhhc
Confidence               01111111100 0000122222222111000    0000 000 023366799999997755445555666665444


Q ss_pred             CCceEEEEecchH-HHh-hhCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccc-hHHHHHHHhHhCCCcchhHHH
Q 045152          317 HESKILITTRDRS-VAL-QLGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKL-EPIGRKIAHKCKGLPLAAKVI  391 (533)
Q Consensus       317 ~gs~IiiTtR~~~-v~~-~~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l-~~~~~~I~~~c~GlPLai~~~  391 (533)
                      .+..+|++|.... +.. .......+++++++.++..+.+...+...+ ..   -- .+....|++.++|.+..+..+
T Consensus       163 ~~~~~Il~t~~~~~l~~~l~sR~~~~~~~~~~~~~~~~~l~~~~~~~~-~~---~~~~~~l~~i~~~~~G~~r~a~~~  236 (354)
T 1sxj_E          163 KNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNER-IQ---LETKDILKRIAQASNGNLRVSLLM  236 (354)
T ss_dssp             TTEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHT-CE---ECCSHHHHHHHHHHTTCHHHHHHH
T ss_pred             CCCEEEEEeCCHHHHHHHHHhhceEEecCCcCHHHHHHHHHHHHHHcC-CC---CCcHHHHHHHHHHcCCCHHHHHHH
Confidence            5677888776532 211 122346799999999999999987763111 11   11 345678899999998766544

>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=98.33  E-value=6.8e-06  Score=78.75  Aligned_cols=172  Identities=21%  Similarity=0.195  Sum_probs=92.0

Q ss_pred             CceeechhhHHHHHHH-------HhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHH
Q 045152          182 GEVCGRVEEKNELLSK-------LLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEI  254 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~-------L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~  254 (533)
                      ..++|.....+++...       +...   .......+.|+|++|+|||+||+.+.+.  ..  +. .+.++.+..    
T Consensus        33 ~~~i~~~~~~~~i~~~~~~l~~~l~~~---~~~~~~~vLl~G~~GtGKT~la~~ia~~--~~--~~-~~~i~~~~~----  100 (272)
T 1d2n_A           33 NGIIKWGDPVTRVLDDGELLVQQTKNS---DRTPLVSVLLEGPPHSGKTALAAKIAEE--SN--FP-FIKICSPDK----  100 (272)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHC---SSCSEEEEEEECSTTSSHHHHHHHHHHH--HT--CS-EEEEECGGG----
T ss_pred             cCCCCccHHHHHHHHHHHHHHHHHhcc---CCCCCeEEEEECCCCCcHHHHHHHHHHH--hC--CC-EEEEeCHHH----
Confidence            3567777776666652       2211   1245778999999999999999999873  21  22 122222211    


Q ss_pred             HHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCC------Ccc----ccchhhhcccC---CCCCceE
Q 045152          255 RVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDG------DYK----KWNPFFSCLKN---GHHESKI  321 (533)
Q Consensus       255 ~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~------~~~----~~~~l~~~l~~---~~~gs~I  321 (533)
                               +.+. ........+...+......+..+|+|||++..      ...    ....+...+..   ......|
T Consensus       101 ---------~~g~-~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~i  170 (272)
T 1d2n_A          101 ---------MIGF-SETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLI  170 (272)
T ss_dssp             ---------CTTC-CHHHHHHHHHHHHHHHHTSSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEEE
T ss_pred             ---------hcCC-chHHHHHHHHHHHHHHHhcCCcEEEEEChhhhhccCCCChhHHHHHHHHHHHHhcCccCCCCCEEE
Confidence                     1000 00001122233333344567889999998542      101    11222222221   2233456


Q ss_pred             EEEecchHHHhh---hCC-CCeeeCCCCCh-HhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCC
Q 045152          322 LITTRDRSVALQ---LGS-IDIIPVKELAE-EECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGL  384 (533)
Q Consensus       322 iiTtR~~~v~~~---~~~-~~~~~l~~L~~-~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~Gl  384 (533)
                      |.||........   ... ...+.+++++. ++...++.+...     .    -.+....|++.+.|.
T Consensus       171 i~ttn~~~~l~~~~l~~rf~~~i~~p~l~~r~~i~~i~~~~~~-----~----~~~~~~~l~~~~~g~  229 (272)
T 1d2n_A          171 IGTTSRKDVLQEMEMLNAFSTTIHVPNIATGEQLLEALELLGN-----F----KDKERTTIAQQVKGK  229 (272)
T ss_dssp             EEEESCHHHHHHTTCTTTSSEEEECCCEEEHHHHHHHHHHHTC-----S----CHHHHHHHHHHHTTS
T ss_pred             EEecCChhhcchhhhhcccceEEcCCCccHHHHHHHHHHhcCC-----C----CHHHHHHHHHHhcCC
Confidence            777777654433   122 45688999988 666666655321     1    134467788888884

>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=98.33  E-value=3.2e-06  Score=83.30  Aligned_cols=178  Identities=14%  Similarity=0.104  Sum_probs=103.2

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAII  261 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il  261 (533)
                      .+++|.+..++.+..++...     ....++.+.|++|+|||++|+.+.+.  ..   ...+.++.+.. ... ..+.++
T Consensus        26 ~~ivg~~~~~~~l~~~l~~~-----~~~~~~L~~G~~G~GKT~la~~la~~--l~---~~~~~i~~~~~-~~~-~i~~~~   93 (324)
T 3u61_B           26 DECILPAFDKETFKSITSKG-----KIPHIILHSPSPGTGKTTVAKALCHD--VN---ADMMFVNGSDC-KID-FVRGPL   93 (324)
T ss_dssp             TTSCCCHHHHHHHHHHHHTT-----CCCSEEEECSSTTSSHHHHHHHHHHH--TT---EEEEEEETTTC-CHH-HHHTHH
T ss_pred             HHHhCcHHHHHHHHHHHHcC-----CCCeEEEeeCcCCCCHHHHHHHHHHH--hC---CCEEEEccccc-CHH-HHHHHH
Confidence            46899999999999999643     23467888899999999999999863  21   22344443331 111 111111


Q ss_pred             HHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCC-ccccchhhhcccCCCCCceEEEEecchHH-Hhh-hCCCC
Q 045152          262 EGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGD-YKKWNPFFSCLKNGHHESKILITTRDRSV-ALQ-LGSID  338 (533)
Q Consensus       262 ~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~-~~~~~~l~~~l~~~~~gs~IiiTtR~~~v-~~~-~~~~~  338 (533)
                      ......               ....+++.+++|||++... ....+.+...+.....+.++|+||....- ... .....
T Consensus        94 ~~~~~~---------------~~~~~~~~vliiDEi~~l~~~~~~~~L~~~le~~~~~~~iI~~~n~~~~l~~~l~sR~~  158 (324)
T 3u61_B           94 TNFASA---------------ASFDGRQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQSRCR  158 (324)
T ss_dssp             HHHHHB---------------CCCSSCEEEEEEESCCCGGGHHHHHHHHHHHHHHGGGCEEEEEESSGGGSCTTHHHHSE
T ss_pred             HHHHhh---------------cccCCCCeEEEEECCcccCcHHHHHHHHHHHHhCCCCcEEEEEeCCccccCHHHHhhCc
Confidence            111000               0012367899999997654 34445555555443456778888876431 111 11135


Q ss_pred             eeeCCCCChHhhHHHHH-------HhhccCCCccccccch-HHHHHHHhHhCCCcchhHH
Q 045152          339 IIPVKELAEEECWSLLE-------RLAFFRRSVDDHEKLE-PIGRKIAHKCKGLPLAAKV  390 (533)
Q Consensus       339 ~~~l~~L~~~~~~~Lf~-------~~a~~~~~~~~~~~l~-~~~~~I~~~c~GlPLai~~  390 (533)
                      .+++++++.++-.+++.       ..+. .....   --. +....|++.++|.+..+..
T Consensus       159 ~i~~~~~~~~e~~~il~~~~~~l~~~~~-~~~~~---~~~~~~~~~l~~~~~gd~R~a~~  214 (324)
T 3u61_B          159 VITFGQPTDEDKIEMMKQMIRRLTEICK-HEGIA---IADMKVVAALVKKNFPDFRKTIG  214 (324)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHHHHHHHH-HHTCC---BSCHHHHHHHHHHTCSCTTHHHH
T ss_pred             EEEeCCCCHHHHHHHHHHHHHHHHHHHH-HcCCC---CCcHHHHHHHHHhCCCCHHHHHH
Confidence            78999999888443322       2221 00111   113 6678888999988775443

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D

Probab=98.31  E-value=1.9e-06  Score=76.45  Aligned_cols=89  Identities=21%  Similarity=0.289  Sum_probs=73.2

Q ss_pred             cccccccccceEEEeecCCcccC-CccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcC-CC
Q 045152          415 ENISIMPCLSVLRVYLCPKLKVL-PDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDS-LL  492 (533)
Q Consensus       415 ~~~~ilp~L~~L~l~~c~~l~~l-p~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~-~~  492 (533)
                      ++..+.+.+++|.+++ ..+..+ |..+..+++|++|++++.. +..+|. ..+..+++|++|+|++ .+|+.+|++ +.
T Consensus        24 ip~~~~~~l~~L~L~~-N~i~~~~~~~~~~l~~L~~L~Ls~N~-l~~l~~-~~f~~l~~L~~L~L~~-N~l~~~~~~~~~   99 (170)
T 3g39_A           24 VPTGIPTTTQVLYLYD-NQITKLEPGVFDRLTQLTRLDLDNNQ-LTVLPA-GVFDKLTQLTQLSLND-NQLKSIPRGAFD   99 (170)
T ss_dssp             CCSCCCTTCSEEECCS-SCCCCCCTTTTTTCTTCSEEECCSSC-CCCCCT-TTTTTCTTCCEEECCS-SCCCCCCTTTTT
T ss_pred             cCccCCCCCcEEEcCC-CcCCccChhhhcCcccCCEEECCCCC-cCccCh-hhccCCCCCCEEECCC-CccCEeCHHHhc
Confidence            3445567899999998 456666 6668899999999999764 888883 3457899999999999 689999975 88


Q ss_pred             CCCCcceeeccCCch
Q 045152          493 QITTLKELGMEGSPL  507 (533)
Q Consensus       493 ~l~~L~~L~~~~c~~  507 (533)
                      ++++|++|+++++|.
T Consensus       100 ~l~~L~~L~L~~N~~  114 (170)
T 3g39_A          100 NLKSLTHIWLLNNPW  114 (170)
T ss_dssp             TCTTCCEEECCSSCB
T ss_pred             CCCCCCEEEeCCCCC
Confidence            999999999998863

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=98.30  E-value=4e-06  Score=81.89  Aligned_cols=161  Identities=13%  Similarity=0.064  Sum_probs=89.1

Q ss_pred             ceeechhhHHHHHHHHhCCC---------ccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhH
Q 045152          183 EVCGRVEEKNELLSKLLCES---------SEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEE  253 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~---------~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~  253 (533)
                      +++|.+..++.+.+.+....         -........+.|+|++|+|||+||+.+.+...........-++.++..   
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            46888888887776653210         001234567899999999999999988764222122212223333311   


Q ss_pred             HHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCC---------CccccchhhhcccCCCCCceEEEE
Q 045152          254 IRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDG---------DYKKWNPFFSCLKNGHHESKILIT  324 (533)
Q Consensus       254 ~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~---------~~~~~~~l~~~l~~~~~gs~IiiT  324 (533)
                               .+..... ..........+...   +..+|+||+++..         .......+...+.....+..+|.|
T Consensus       109 ---------~l~~~~~-g~~~~~~~~~~~~~---~~~vl~iDEid~l~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~~i~~  175 (309)
T 3syl_A          109 ---------DLVGQYI-GHTAPKTKEVLKRA---MGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENNRDDLVVILA  175 (309)
T ss_dssp             ---------GTCCSST-TCHHHHHHHHHHHH---TTSEEEEETGGGSCCCC---CCTHHHHHHHHHHHHHCTTTCEEEEE
T ss_pred             ---------Hhhhhcc-cccHHHHHHHHHhc---CCCEEEEEChhhhccCCCcccccHHHHHHHHHHHhcCCCCEEEEEe
Confidence                     1111100 01111222222222   3359999999643         222334455555555556778888


Q ss_pred             ecchHHHhhh--------CCCCeeeCCCCChHhhHHHHHHhhc
Q 045152          325 TRDRSVALQL--------GSIDIIPVKELAEEECWSLLERLAF  359 (533)
Q Consensus       325 tR~~~v~~~~--------~~~~~~~l~~L~~~~~~~Lf~~~a~  359 (533)
                      |.........        .....+.+++++.++...++...+.
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            7654321110        1136789999999999999988764

>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=98.30  E-value=1e-05  Score=80.04  Aligned_cols=170  Identities=12%  Similarity=0.050  Sum_probs=101.2

Q ss_pred             hhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhh--------------------ccCCceEEEEe
Q 045152          188 VEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVK--------------------RNFEKVIWVCV  247 (533)
Q Consensus       188 ~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~--------------------~~F~~~~wv~v  247 (533)
                      ++..+.+...+..+     .-...+.++|+.|+|||++|+.+.+...-.                    .|++ ..++..
T Consensus         8 ~~~~~~l~~~i~~~-----~~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d-~~~~~~   81 (334)
T 1a5t_A            8 RPDFEKLVASYQAG-----RGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPD-YYTLAP   81 (334)
T ss_dssp             HHHHHHHHHHHHTT-----CCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTT-EEEECC
T ss_pred             HHHHHHHHHHHHcC-----CcceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCC-EEEEec
Confidence            34456666666432     234578999999999999998887531100                    0112 222221


Q ss_pred             CCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHH----hCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEE
Q 045152          248 SDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEY----ITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILI  323 (533)
Q Consensus       248 s~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~----l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~Iii  323 (533)
                      ..                  .......+.+...+...    ..+++-++|+|+++..+....+.+...+.....++.+|+
T Consensus        82 ~~------------------~~~~~~i~~ir~l~~~~~~~~~~~~~kvviIdead~l~~~a~naLLk~lEep~~~~~~Il  143 (334)
T 1a5t_A           82 EK------------------GKNTLGVDAVREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFL  143 (334)
T ss_dssp             CT------------------TCSSBCHHHHHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEE
T ss_pred             cc------------------cCCCCCHHHHHHHHHHHhhccccCCcEEEEECchhhcCHHHHHHHHHHhcCCCCCeEEEE
Confidence            10                  00111222222222111    124677899999977665556667777766556677777


Q ss_pred             EecchH-HHh-hhCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHH
Q 045152          324 TTRDRS-VAL-QLGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKV  390 (533)
Q Consensus       324 TtR~~~-v~~-~~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~  390 (533)
                      +|.+.. +.. .......+++++++.++..+.+.....     .    -.+....+++.++|.|..+..
T Consensus       144 ~t~~~~~l~~ti~SRc~~~~~~~~~~~~~~~~L~~~~~-----~----~~~~~~~l~~~s~G~~r~a~~  203 (334)
T 1a5t_A          144 ATREPERLLATLRSRCRLHYLAPPPEQYAVTWLSREVT-----M----SQDALLAALRLSAGSPGAALA  203 (334)
T ss_dssp             EESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHCC-----C----CHHHHHHHHHHTTTCHHHHHH
T ss_pred             EeCChHhCcHHHhhcceeeeCCCCCHHHHHHHHHHhcC-----C----CHHHHHHHHHHcCCCHHHHHH
Confidence            776542 222 223356799999999999999887641     1    133457789999999977654

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=98.29  E-value=9.2e-07  Score=79.18  Aligned_cols=45  Identities=24%  Similarity=0.208  Sum_probs=37.6

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .+++||+.+++.+.+.+...      ....+.|+|++|+|||+||+.+.+.
T Consensus        22 ~~~~g~~~~~~~l~~~l~~~------~~~~vll~G~~G~GKT~la~~~~~~   66 (187)
T 2p65_A           22 DPVIGRDTEIRRAIQILSRR------TKNNPILLGDPGVGKTAIVEGLAIK   66 (187)
T ss_dssp             CCCCSCHHHHHHHHHHHTSS------SSCEEEEESCGGGCHHHHHHHHHHH
T ss_pred             chhhcchHHHHHHHHHHhCC------CCCceEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999998542      3456789999999999999999864

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=98.24  E-value=9e-07  Score=97.08  Aligned_cols=83  Identities=23%  Similarity=0.244  Sum_probs=74.8

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcce
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKE  499 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~  499 (533)
                      ++.|++|.++++ .+..+|..+..+.+|++|+|+++. |..+|  ..++.|++|++|+|++| .|..+|.++.+|++|++
T Consensus       246 l~~L~~L~Ls~N-~l~~lp~~~~~l~~L~~L~Ls~N~-l~~lp--~~~~~l~~L~~L~L~~N-~l~~lp~~~~~l~~L~~  320 (727)
T 4b8c_D          246 YDFLTRLYLNGN-SLTELPAEIKNLSNLRVLDLSHNR-LTSLP--AELGSCFQLKYFYFFDN-MVTTLPWEFGNLCNLQF  320 (727)
T ss_dssp             CCSCSCCBCTTS-CCSCCCGGGGGGTTCCEEECTTSC-CSSCC--SSGGGGTTCSEEECCSS-CCCCCCSSTTSCTTCCC
T ss_pred             CCCCCEEEeeCC-cCcccChhhhCCCCCCEEeCcCCc-CCccC--hhhcCCCCCCEEECCCC-CCCccChhhhcCCCccE
Confidence            678999999985 566999999999999999999776 88999  78999999999999996 88999999999999999


Q ss_pred             eeccCCch
Q 045152          500 LGMEGSPL  507 (533)
Q Consensus       500 L~~~~c~~  507 (533)
                      |++++|+.
T Consensus       321 L~L~~N~l  328 (727)
T 4b8c_D          321 LGVEGNPL  328 (727)
T ss_dssp             EECTTSCC
T ss_pred             EeCCCCcc
Confidence            99999973

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A

Probab=98.22  E-value=1.3e-06  Score=77.14  Aligned_cols=81  Identities=23%  Similarity=0.228  Sum_probs=47.5

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCC-CCCccCCCCCCCcceEEeccCCCCCCCC--cCCCCCCC
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEE-LPILEDHIFLPRLSSLRIEYCPKLKLLP--DSLLQITT  496 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~-lp~~~~~~~l~~L~~L~l~~C~~l~~lP--~~~~~l~~  496 (533)
                      ++.|++|.+++|. +..+ ..+..+++|++|+++++. +.. +|  ..+..+++|++|++++| .+..+|  ..+.++++
T Consensus        48 l~~L~~L~l~~n~-l~~~-~~~~~l~~L~~L~Ls~N~-l~~~~~--~~~~~l~~L~~L~Ls~N-~l~~~~~~~~l~~l~~  121 (168)
T 2ell_A           48 FVNLEFLSLINVG-LISV-SNLPKLPKLKKLELSENR-IFGGLD--MLAEKLPNLTHLNLSGN-KLKDISTLEPLKKLEC  121 (168)
T ss_dssp             GGGCCEEEEESSC-CCCC-SSCCCCSSCCEEEEESCC-CCSCCC--HHHHHCTTCCEEECBSS-SCCSSGGGGGGSSCSC
T ss_pred             CCCCCEEeCcCCC-CCCh-hhhccCCCCCEEECcCCc-CchHHH--HHHhhCCCCCEEeccCC-ccCcchhHHHHhcCCC
Confidence            4556666666644 4444 455556666666666554 444 44  33344666666666664 566665  45666666


Q ss_pred             cceeeccCCc
Q 045152          497 LKELGMEGSP  506 (533)
Q Consensus       497 L~~L~~~~c~  506 (533)
                      |++|++++|+
T Consensus       122 L~~L~l~~N~  131 (168)
T 2ell_A          122 LKSLDLFNCE  131 (168)
T ss_dssp             CCEEECCSSG
T ss_pred             CCEEEeeCCc
Confidence            6666666665

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes}

Probab=98.21  E-value=1.3e-06  Score=79.48  Aligned_cols=84  Identities=19%  Similarity=0.199  Sum_probs=60.1

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCC-CCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEE-LPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLK  498 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~-lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~  498 (533)
                      ++.|++|.+++|.--...|..+..+++|++|+++++. +.. .|  ..++.+++|++|++++|..+..+| .+.++++|+
T Consensus        87 l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~Ls~n~-i~~~~~--~~l~~l~~L~~L~L~~n~~i~~~~-~l~~l~~L~  162 (197)
T 4ezg_A           87 LSNLERLRIMGKDVTSDKIPNLSGLTSLTLLDISHSA-HDDSIL--TKINTLPKVNSIDLSYNGAITDIM-PLKTLPELK  162 (197)
T ss_dssp             CTTCCEEEEECTTCBGGGSCCCTTCTTCCEEECCSSB-CBGGGH--HHHTTCSSCCEEECCSCTBCCCCG-GGGGCSSCC
T ss_pred             CCCCCEEEeECCccCcccChhhcCCCCCCEEEecCCc-cCcHhH--HHHhhCCCCCEEEccCCCCccccH-hhcCCCCCC
Confidence            5677777777755444466677777888888887765 433 44  466778888888888876677777 577788888


Q ss_pred             eeeccCCch
Q 045152          499 ELGMEGSPL  507 (533)
Q Consensus       499 ~L~~~~c~~  507 (533)
                      +|++++|+.
T Consensus       163 ~L~l~~n~i  171 (197)
T 4ezg_A          163 SLNIQFDGV  171 (197)
T ss_dssp             EEECTTBCC
T ss_pred             EEECCCCCC
Confidence            888877763

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=98.20  E-value=3.9e-06  Score=76.03  Aligned_cols=83  Identities=16%  Similarity=0.255  Sum_probs=50.9

Q ss_pred             ccccceEEEeecCCcccCC-ccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcC-CCCCCCc
Q 045152          420 MPCLSVLRVYLCPKLKVLP-DYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDS-LLQITTL  497 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp-~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~-~~~l~~L  497 (533)
                      ++.|++|+++++ .+..++ ..+..+++|++|++++.. +..+|. ..+..+++|++|+|++ ..|..+|++ +.++++|
T Consensus        53 l~~L~~L~Ls~N-~i~~i~~~~f~~l~~L~~L~Ls~N~-l~~i~~-~~f~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L  128 (193)
T 2wfh_A           53 YKHLTLIDLSNN-RISTLSNQSFSNMTQLLTLILSYNR-LRCIPP-RTFDGLKSLRLLSLHG-NDISVVPEGAFNDLSAL  128 (193)
T ss_dssp             CTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSC-CCBCCT-TTTTTCTTCCEEECCS-SCCCBCCTTTTTTCTTC
T ss_pred             ccCCCEEECCCC-cCCEeCHhHccCCCCCCEEECCCCc-cCEeCH-HHhCCCCCCCEEECCC-CCCCeeChhhhhcCccc
Confidence            445666666653 334443 345566666666666543 555552 3466677777777777 467777753 6667777


Q ss_pred             ceeeccCCc
Q 045152          498 KELGMEGSP  506 (533)
Q Consensus       498 ~~L~~~~c~  506 (533)
                      ++|+++++|
T Consensus       129 ~~L~L~~N~  137 (193)
T 2wfh_A          129 SHLAIGANP  137 (193)
T ss_dssp             CEEECCSSC
T ss_pred             cEEEeCCCC
Confidence            777777665

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A

Probab=98.17  E-value=1.4e-06  Score=76.82  Aligned_cols=87  Identities=20%  Similarity=0.146  Sum_probs=73.7

Q ss_pred             cccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCc----CCCCC
Q 045152          419 IMPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPD----SLLQI  494 (533)
Q Consensus       419 ilp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~----~~~~l  494 (533)
                      -++.|++|.+++|.--..+|..+..+++|++|+++++. +..+|.+..++.+++|++|++++| .+..+|+    .+..+
T Consensus        69 ~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~-l~~~~~~~~l~~l~~L~~L~l~~N-~l~~~~~~~~~~~~~l  146 (168)
T 2ell_A           69 KLPKLKKLELSENRIFGGLDMLAEKLPNLTHLNLSGNK-LKDISTLEPLKKLECLKSLDLFNC-EVTNLNDYRESVFKLL  146 (168)
T ss_dssp             CCSSCCEEEEESCCCCSCCCHHHHHCTTCCEEECBSSS-CCSSGGGGGGSSCSCCCEEECCSS-GGGTSTTHHHHHHTTC
T ss_pred             cCCCCCEEECcCCcCchHHHHHHhhCCCCCEEeccCCc-cCcchhHHHHhcCCCCCEEEeeCC-cCcchHHHHHHHHHhC
Confidence            37889999999966544477777779999999999875 888875457889999999999996 7888887    78899


Q ss_pred             CCcceeeccCCch
Q 045152          495 TTLKELGMEGSPL  507 (533)
Q Consensus       495 ~~L~~L~~~~c~~  507 (533)
                      ++|++|++++|+.
T Consensus       147 ~~L~~L~l~~n~~  159 (168)
T 2ell_A          147 PQLTYLDGYDRED  159 (168)
T ss_dssp             SSCCEETTEETTS
T ss_pred             ccCcEecCCCCCh
Confidence            9999999999875

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=98.16  E-value=2.1e-06  Score=73.90  Aligned_cols=114  Identities=17%  Similarity=0.045  Sum_probs=67.5

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHH
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIE  262 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~  262 (533)
                      +++|+...+.++.+.+....    .....|.|+|++|+|||++|+.+++... ..... .+ ++.+...+.         
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a----~~~~~vll~G~~GtGKt~lA~~i~~~~~-~~~~~-~v-~~~~~~~~~---------   65 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLS----ETDIAVWLYGAPGTGRMTGARYLHQFGR-NAQGE-FV-YRELTPDNA---------   65 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHT----TCCSCEEEESSTTSSHHHHHHHHHHSST-TTTSC-CE-EEECCTTTS---------
T ss_pred             CceeCCHHHHHHHHHHHHHh----CCCCCEEEECCCCCCHHHHHHHHHHhCC-ccCCC-EE-EECCCCCcc---------
Confidence            57899999999988875432    1234578999999999999999987421 11112 23 554432211         


Q ss_pred             HhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecc
Q 045152          263 GLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRD  327 (533)
Q Consensus       263 ~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~  327 (533)
                               ...   ...+...   ..-.|+||+++.........+...+.......++|.||..
T Consensus        66 ---------~~~---~~~~~~a---~~g~l~ldei~~l~~~~q~~Ll~~l~~~~~~~~~I~~t~~  115 (145)
T 3n70_A           66 ---------PQL---NDFIALA---QGGTLVLSHPEHLTREQQYHLVQLQSQEHRPFRLIGIGDT  115 (145)
T ss_dssp             ---------SCH---HHHHHHH---TTSCEEEECGGGSCHHHHHHHHHHHHSSSCSSCEEEEESS
T ss_pred             ---------hhh---hcHHHHc---CCcEEEEcChHHCCHHHHHHHHHHHhhcCCCEEEEEECCc
Confidence                     011   1111111   2246899999776554455566665444455678877764

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus}

Probab=98.13  E-value=8e-06  Score=76.09  Aligned_cols=82  Identities=26%  Similarity=0.375  Sum_probs=45.0

Q ss_pred             ccccceEEEeecCCcccCCcc-ccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCc-CCCCCCCc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDY-LLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPD-SLLQITTL  497 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~-l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~-~~~~l~~L  497 (533)
                      ++.|++|.++++ .+..+|.. +..+.+|++|+++++. +..+|  ..+..+++|++|+|++ .+|..+|+ .+..+++|
T Consensus        87 l~~L~~L~Ls~N-~l~~l~~~~~~~l~~L~~L~Ls~N~-l~~lp--~~~~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L  161 (229)
T 3e6j_A           87 LTQLTVLDLGTN-QLTVLPSAVFDRLVHLKELFMCCNK-LTELP--RGIERLTHLTHLALDQ-NQLKSIPHGAFDRLSSL  161 (229)
T ss_dssp             CTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSC-CCSCC--TTGGGCTTCSEEECCS-SCCCCCCTTTTTTCTTC
T ss_pred             CCCcCEEECCCC-cCCccChhHhCcchhhCeEeccCCc-ccccC--cccccCCCCCEEECCC-CcCCccCHHHHhCCCCC
Confidence            445556666553 44444433 3455666666665433 55555  4555566666666665 35555553 35556666


Q ss_pred             ceeeccCCc
Q 045152          498 KELGMEGSP  506 (533)
Q Consensus       498 ~~L~~~~c~  506 (533)
                      ++|+++++|
T Consensus       162 ~~L~l~~N~  170 (229)
T 3e6j_A          162 THAYLFGNP  170 (229)
T ss_dssp             CEEECTTSC
T ss_pred             CEEEeeCCC
Confidence            666666555

>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=98.12  E-value=9.9e-06  Score=80.36  Aligned_cols=174  Identities=13%  Similarity=0.110  Sum_probs=100.8

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCC-ceEEEEeCCchhHHHHHHHHH
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFE-KVIWVCVSDTFEEIRVAKAII  261 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~-~~~wv~vs~~~~~~~l~~~il  261 (533)
                      +++|.+..++.+...+..+      +...+.++|++|+||||+|+.+..... ...+. ...-++.+.....        
T Consensus        26 ~~~g~~~~~~~L~~~i~~g------~~~~~ll~Gp~G~GKTtla~~la~~l~-~~~~~~~~~~~~~~~~~~~--------   90 (340)
T 1sxj_C           26 EVYGQNEVITTVRKFVDEG------KLPHLLFYGPPGTGKTSTIVALAREIY-GKNYSNMVLELNASDDRGI--------   90 (340)
T ss_dssp             GCCSCHHHHHHHHHHHHTT------CCCCEEEECSSSSSHHHHHHHHHHHHH-TTSHHHHEEEECTTSCCSH--------
T ss_pred             HhcCcHHHHHHHHHHHhcC------CCceEEEECCCCCCHHHHHHHHHHHHc-CCCccceEEEEcCcccccH--------
Confidence            4788888888888877532      333389999999999999999886311 11111 1222222221111        


Q ss_pred             HHhCCCCCCCccHHHHHHHHHHH------hCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecchH-HHh-h
Q 045152          262 EGLGVSASGLSEFESLMKQIQEY------ITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRS-VAL-Q  333 (533)
Q Consensus       262 ~~l~~~~~~~~~~~~l~~~l~~~------l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~~-v~~-~  333 (533)
                                   +.+...+...      ..+.+-++|+|+++.......+.+...+......+++|++|.... +.. .
T Consensus        91 -------------~~ir~~i~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~n~~~~i~~~i  157 (340)
T 1sxj_C           91 -------------DVVRNQIKDFASTRQIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPAL  157 (340)
T ss_dssp             -------------HHHHTHHHHHHHBCCSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHH
T ss_pred             -------------HHHHHHHHHHHhhcccCCCCceEEEEeCCCCCCHHHHHHHHHHHhcCCCCeEEEEEecCccccchhH
Confidence                         1111111111      123467899999976554445556655554445567777765432 111 1


Q ss_pred             hCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchh
Q 045152          334 LGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAA  388 (533)
Q Consensus       334 ~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai  388 (533)
                      ......+.+.+++.++..+.+...+-.. ...   --.+....|++.++|.+.-+
T Consensus       158 ~sR~~~~~~~~l~~~~~~~~l~~~~~~~-~~~---i~~~~~~~i~~~s~G~~r~~  208 (340)
T 1sxj_C          158 LSQCTRFRFQPLPQEAIERRIANVLVHE-KLK---LSPNAEKALIELSNGDMRRV  208 (340)
T ss_dssp             HTTSEEEECCCCCHHHHHHHHHHHHHTT-TCC---BCHHHHHHHHHHHTTCHHHH
T ss_pred             HhhceeEeccCCCHHHHHHHHHHHHHHc-CCC---CCHHHHHHHHHHcCCCHHHH
Confidence            1224578899999999888887765211 111   11345677888888887643

>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=98.12  E-value=2.4e-05  Score=77.03  Aligned_cols=156  Identities=17%  Similarity=0.145  Sum_probs=86.3

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCC
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITR  287 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~  287 (533)
                      ....+.|+|++|+||||||+.+.+..  ...-...++++.      ..+...+...+...     ....    +..... 
T Consensus        36 ~~~~lll~G~~GtGKT~la~~i~~~~--~~~~~~~~~i~~------~~~~~~~~~~~~~~-----~~~~----~~~~~~-   97 (324)
T 1l8q_A           36 LYNPIFIYGSVGTGKTHLLQAAGNEA--KKRGYRVIYSSA------DDFAQAMVEHLKKG-----TINE----FRNMYK-   97 (324)
T ss_dssp             SCSSEEEECSSSSSHHHHHHHHHHHH--HHTTCCEEEEEH------HHHHHHHHHHHHHT-----CHHH----HHHHHH-
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHH--HHCCCEEEEEEH------HHHHHHHHHHHHcC-----cHHH----HHHHhc-
Confidence            45678999999999999999998742  211123345542      22333333332210     1111    122222 


Q ss_pred             ceEEEEEeCCCCCCc--cccchhhhcccC-CCCCceEEEEecch---------HHHhhhCCCCeeeCCCCChHhhHHHHH
Q 045152          288 KKFFLVLDDVWDGDY--KKWNPFFSCLKN-GHHESKILITTRDR---------SVALQLGSIDIIPVKELAEEECWSLLE  355 (533)
Q Consensus       288 kr~LlVLDdv~~~~~--~~~~~l~~~l~~-~~~gs~IiiTtR~~---------~v~~~~~~~~~~~l~~L~~~~~~~Lf~  355 (533)
                      +..+|+|||+.....  .....+...+.. ...|..||+||...         .+...+.....+.+++ +.++..+++.
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            356899999965432  112233333321 12356788877642         1222222235689999 9999999998


Q ss_pred             HhhccCCCccccccchHHHHHHHhHhCCCcch
Q 045152          356 RLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLA  387 (533)
Q Consensus       356 ~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLa  387 (533)
                      ..+.... ..   --.+....|++.+ |..-.
T Consensus       177 ~~~~~~~-~~---l~~~~l~~l~~~~-g~~r~  203 (324)
T 1l8q_A          177 EKLKEFN-LE---LRKEVIDYLLENT-KNVRE  203 (324)
T ss_dssp             HHHHHTT-CC---CCHHHHHHHHHHC-SSHHH
T ss_pred             HHHHhcC-CC---CCHHHHHHHHHhC-CCHHH
Confidence            8764211 11   1144567778888 77654

>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=98.12  E-value=1.7e-05  Score=77.96  Aligned_cols=183  Identities=16%  Similarity=0.050  Sum_probs=99.3

Q ss_pred             CceeechhhHHHHHHHHhCCC------ccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCES------SEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIR  255 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~------~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~  255 (533)
                      .+++|.+..++.|.+.+....      .......+.+.|+|++|+|||+||+.+.+.  ....   .+.++.      .+
T Consensus        18 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~--~~~~---~~~v~~------~~   86 (322)
T 3eie_A           18 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATE--ANST---FFSVSS------SD   86 (322)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHH--HTCE---EEEEEH------HH
T ss_pred             HHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHH--HCCC---EEEEch------HH
Confidence            468999999999988772110      001123567899999999999999999873  2222   122221      11


Q ss_pred             HHHHHHHHhCCCCCCCccHHHHHHHH-HHHhCCceEEEEEeCCCCCCcc-------c----cchhhhccc---CCCCCce
Q 045152          256 VAKAIIEGLGVSASGLSEFESLMKQI-QEYITRKKFFLVLDDVWDGDYK-------K----WNPFFSCLK---NGHHESK  320 (533)
Q Consensus       256 l~~~il~~l~~~~~~~~~~~~l~~~l-~~~l~~kr~LlVLDdv~~~~~~-------~----~~~l~~~l~---~~~~gs~  320 (533)
                      +    ....      ..........+ ...-..++.+|+||+++.....       .    ...+...+.   ....+..
T Consensus        87 l----~~~~------~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~  156 (322)
T 3eie_A           87 L----VSKW------MGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQGVL  156 (322)
T ss_dssp             H----HTTT------GGGHHHHHHHHHHHHHHTSSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGGTSCCCEE
T ss_pred             H----hhcc------cchHHHHHHHHHHHHHhcCCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhccccccCCceE
Confidence            1    1110      01112222222 2222446789999999643110       0    122222222   2234555


Q ss_pred             EEEEecchHHHh-hh--CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCC-cchhH
Q 045152          321 ILITTRDRSVAL-QL--GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGL-PLAAK  389 (533)
Q Consensus       321 IiiTtR~~~v~~-~~--~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~Gl-PLai~  389 (533)
                      ||.||..+.... .+  .....+.+...+.++-.++|...+..... .   .-......|++.+.|. +-.|.
T Consensus       157 vi~atn~~~~ld~al~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~-~---~~~~~l~~la~~t~g~sg~di~  225 (322)
T 3eie_A          157 VLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPC-V---LTKEDYRTLGAMTEGYSGSDIA  225 (322)
T ss_dssp             EEEEESCGGGSCHHHHHHCCEEEECCCCCHHHHHHHHHHHHTTCCC-C---CCHHHHHHHHHTTTTCCHHHHH
T ss_pred             EEEecCChhhCCHHHHcccCeEEEeCCCCHHHHHHHHHHHhccCCC-C---CCHHHHHHHHHHcCCCCHHHHH
Confidence            666776542211 11  22456788899999999999987642111 1   1123457788888874 33344

>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=98.10  E-value=4.3e-06  Score=74.74  Aligned_cols=120  Identities=16%  Similarity=0.137  Sum_probs=63.8

Q ss_pred             hhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCC
Q 045152          188 VEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVS  267 (533)
Q Consensus       188 ~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~  267 (533)
                      ....+.+.++.....   ......+.|+|++|+||||||+.+++.......+ .+++++      ..++...+.......
T Consensus        20 ~~~~~~~~~~~~~~~---~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~-~~~~~~------~~~~~~~~~~~~~~~   89 (180)
T 3ec2_A           20 NRALLTIRVFVHNFN---PEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGI-RGYFFD------TKDLIFRLKHLMDEG   89 (180)
T ss_dssp             HHHHHHHHHHHHSCC---GGGCCEEEECCSSSSSHHHHHHHHHHHHHHHSCC-CCCEEE------HHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhcc---ccCCCEEEEECCCCCCHHHHHHHHHHHHHHHcCC-eEEEEE------HHHHHHHHHHHhcCc
Confidence            344455555553332   1345789999999999999999998743212222 233443      344444444333221


Q ss_pred             CCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccc--hhhhcccCC-CCCceEEEEecc
Q 045152          268 ASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWN--PFFSCLKNG-HHESKILITTRD  327 (533)
Q Consensus       268 ~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~--~l~~~l~~~-~~gs~IiiTtR~  327 (533)
                      ...     .....+.     +.-+|||||++....+.|.  .+...+... ..|..+|+||..
T Consensus        90 ~~~-----~~~~~~~-----~~~llilDE~~~~~~~~~~~~~l~~ll~~~~~~~~~ii~tsn~  142 (180)
T 3ec2_A           90 KDT-----KFLKTVL-----NSPVLVLDDLGSERLSDWQRELISYIITYRYNNLKSTIITTNY  142 (180)
T ss_dssp             CCS-----HHHHHHH-----TCSEEEEETCSSSCCCHHHHHHHHHHHHHHHHTTCEEEEECCC
T ss_pred             hHH-----HHHHHhc-----CCCEEEEeCCCCCcCCHHHHHHHHHHHHHHHHcCCCEEEEcCC
Confidence            111     1122221     4568999999743333343  233333221 246778888874

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.09  E-value=3.9e-06  Score=89.24  Aligned_cols=81  Identities=22%  Similarity=0.297  Sum_probs=52.9

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCC--CcCCCCCCCc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLL--PDSLLQITTL  497 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~l--P~~~~~l~~L  497 (533)
                      ++.|+.|.++++ .+..+|..+..+++|++|+++++. +..+|   .++.|++|++|+|++ .+|..+  |+.+.++++|
T Consensus       462 l~~L~~L~Ls~N-~l~~lp~~~~~l~~L~~L~Ls~N~-l~~lp---~l~~l~~L~~L~Ls~-N~l~~~~~p~~l~~l~~L  535 (567)
T 1dce_A          462 LLLVTHLDLSHN-RLRALPPALAALRCLEVLQASDNA-LENVD---GVANLPRLQELLLCN-NRLQQSAAIQPLVSCPRL  535 (567)
T ss_dssp             GTTCCEEECCSS-CCCCCCGGGGGCTTCCEEECCSSC-CCCCG---GGTTCSSCCEEECCS-SCCCSSSTTGGGGGCTTC
T ss_pred             cccCcEeecCcc-cccccchhhhcCCCCCEEECCCCC-CCCCc---ccCCCCCCcEEECCC-CCCCCCCCcHHHhcCCCC
Confidence            345666666663 445666666667777777776543 55555   566677777777776 366666  6677777777


Q ss_pred             ceeeccCCc
Q 045152          498 KELGMEGSP  506 (533)
Q Consensus       498 ~~L~~~~c~  506 (533)
                      ++|++++|+
T Consensus       536 ~~L~L~~N~  544 (567)
T 1dce_A          536 VLLNLQGNS  544 (567)
T ss_dssp             CEEECTTSG
T ss_pred             CEEEecCCc
Confidence            777777665

>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=98.09  E-value=2.2e-05  Score=78.33  Aligned_cols=186  Identities=14%  Similarity=-0.009  Sum_probs=98.2

Q ss_pred             CceeechhhHHHHHHHHhCC----C--ccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCE----S--SEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIR  255 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~----~--~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~  255 (533)
                      .+++|.+..++.|.+.+...    .  .......+.|.|+|++|+|||+||+.+.+.  ....   .+.++.      .+
T Consensus        51 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~--~~~~---~~~v~~------~~  119 (355)
T 2qp9_X           51 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATE--ANST---FFSVSS------SD  119 (355)
T ss_dssp             GGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHH--HTCE---EEEEEH------HH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHH--hCCC---EEEeeH------HH
Confidence            46899999999988876311    0  001123456889999999999999999874  2222   122221      11


Q ss_pred             HHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCcc-----------ccchhhhccc---CCCCCceE
Q 045152          256 VAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYK-----------KWNPFFSCLK---NGHHESKI  321 (533)
Q Consensus       256 l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~-----------~~~~l~~~l~---~~~~gs~I  321 (533)
                      +.    ....+     .....+...+......++.+|+||+++.....           ....+...+.   ....+..|
T Consensus       120 l~----~~~~g-----~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~v  190 (355)
T 2qp9_X          120 LV----SKWMG-----ESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQGVLV  190 (355)
T ss_dssp             HH----SCC--------CHHHHHHHHHHHHHTSSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC---CCEEE
T ss_pred             Hh----hhhcc-----hHHHHHHHHHHHHHHcCCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhcccccCCCeEE
Confidence            11    11100     11111222222222457789999999653211           0122222222   12334556


Q ss_pred             EEEecchHHH-hh--hCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCC-cchhHHH
Q 045152          322 LITTRDRSVA-LQ--LGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGL-PLAAKVI  391 (533)
Q Consensus       322 iiTtR~~~v~-~~--~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~Gl-PLai~~~  391 (533)
                      |.||..+... ..  -.....+.+...+.++-.+++......... ..   -......|++.+.|. +-.|..+
T Consensus       191 I~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~-~~---~~~~l~~la~~t~G~sg~dl~~l  260 (355)
T 2qp9_X          191 LGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPS-VL---TKEDYRTLGAMTEGYSGSDIAVV  260 (355)
T ss_dssp             EEEESCGGGSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTSCB-CC---CHHHHHHHHHHTTTCCHHHHHHH
T ss_pred             EeecCCcccCCHHHHcccCEEEEeCCcCHHHHHHHHHHHHhhCCC-CC---CHHHHHHHHHHcCCCCHHHHHHH
Confidence            6667654211 11  123456788999999999999887642111 10   123457788889884 4344443

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=98.09  E-value=8.6e-06  Score=73.74  Aligned_cols=89  Identities=16%  Similarity=0.256  Sum_probs=75.0

Q ss_pred             cccccccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCc-CCCC
Q 045152          415 ENISIMPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPD-SLLQ  493 (533)
Q Consensus       415 ~~~~ilp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~-~~~~  493 (533)
                      ++..+.+.++.|.+++ ..+..+|..+..+++|++|+++++. +..++. ..+..|++|++|+|++ ..|..+|+ .+.+
T Consensus        25 ip~~~~~~l~~L~L~~-n~i~~ip~~~~~l~~L~~L~Ls~N~-i~~i~~-~~f~~l~~L~~L~Ls~-N~l~~i~~~~f~~  100 (193)
T 2wfh_A           25 LPKGIPRDVTELYLDG-NQFTLVPKELSNYKHLTLIDLSNNR-ISTLSN-QSFSNMTQLLTLILSY-NRLRCIPPRTFDG  100 (193)
T ss_dssp             CCSCCCTTCCEEECCS-SCCCSCCGGGGGCTTCCEEECCSSC-CCCCCT-TTTTTCTTCCEEECCS-SCCCBCCTTTTTT
T ss_pred             CCCCCCCCCCEEECCC-CcCchhHHHhhcccCCCEEECCCCc-CCEeCH-hHccCCCCCCEEECCC-CccCEeCHHHhCC
Confidence            3444556899999988 5678999999999999999999765 888874 4588999999999999 57988885 5899


Q ss_pred             CCCcceeeccCCch
Q 045152          494 ITTLKELGMEGSPL  507 (533)
Q Consensus       494 l~~L~~L~~~~c~~  507 (533)
                      +++|++|+++++..
T Consensus       101 l~~L~~L~L~~N~l  114 (193)
T 2wfh_A          101 LKSLRLLSLHGNDI  114 (193)
T ss_dssp             CTTCCEEECCSSCC
T ss_pred             CCCCCEEECCCCCC
Confidence            99999999998864

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes}

Probab=98.08  E-value=2.6e-06  Score=77.37  Aligned_cols=83  Identities=12%  Similarity=0.170  Sum_probs=71.5

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcce
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKE  499 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~  499 (533)
                      +|.|++|.+++|.--...|..+..+++|++|++++|..+..+|   .+..+++|++|++++| .+..+| .+..+++|++
T Consensus       111 l~~L~~L~Ls~n~i~~~~~~~l~~l~~L~~L~L~~n~~i~~~~---~l~~l~~L~~L~l~~n-~i~~~~-~l~~l~~L~~  185 (197)
T 4ezg_A          111 LTSLTLLDISHSAHDDSILTKINTLPKVNSIDLSYNGAITDIM---PLKTLPELKSLNIQFD-GVHDYR-GIEDFPKLNQ  185 (197)
T ss_dssp             CTTCCEEECCSSBCBGGGHHHHTTCSSCCEEECCSCTBCCCCG---GGGGCSSCCEEECTTB-CCCCCT-TGGGCSSCCE
T ss_pred             CCCCCEEEecCCccCcHhHHHHhhCCCCCEEEccCCCCccccH---hhcCCCCCCEEECCCC-CCcChH-HhccCCCCCE
Confidence            7889999999976655678888899999999999988788887   6788999999999996 688888 7899999999


Q ss_pred             eeccCCch
Q 045152          500 LGMEGSPL  507 (533)
Q Consensus       500 L~~~~c~~  507 (533)
                      |++++++.
T Consensus       186 L~l~~N~i  193 (197)
T 4ezg_A          186 LYAFSQTI  193 (197)
T ss_dssp             EEECBC--
T ss_pred             EEeeCccc
Confidence            99998874

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A

Probab=98.07  E-value=1.5e-05  Score=73.83  Aligned_cols=83  Identities=19%  Similarity=0.264  Sum_probs=48.5

Q ss_pred             ccccceEEEeecCCcccCCcc-ccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcC-CCCCCCc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDY-LLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDS-LLQITTL  497 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~-l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~-~~~l~~L  497 (533)
                      ++.|++|++++ ..+..+|.. +..+++|++|+++++. +..++. ..+..+++|++|+|++ .++..+|+. +..+++|
T Consensus        79 l~~L~~L~Ls~-N~l~~l~~~~f~~l~~L~~L~L~~N~-l~~~~~-~~~~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L  154 (220)
T 2v9t_B           79 LRSLNSLVLYG-NKITELPKSLFEGLFSLQLLLLNANK-INCLRV-DAFQDLHNLNLLSLYD-NKLQTIAKGTFSPLRAI  154 (220)
T ss_dssp             CSSCCEEECCS-SCCCCCCTTTTTTCTTCCEEECCSSC-CCCCCT-TTTTTCTTCCEEECCS-SCCSCCCTTTTTTCTTC
T ss_pred             CcCCCEEECCC-CcCCccCHhHccCCCCCCEEECCCCC-CCEeCH-HHcCCCCCCCEEECCC-CcCCEECHHHHhCCCCC
Confidence            44566666665 344555544 3456666666666543 555542 3455666666666666 456666643 5666667


Q ss_pred             ceeeccCCc
Q 045152          498 KELGMEGSP  506 (533)
Q Consensus       498 ~~L~~~~c~  506 (533)
                      ++|+++++|
T Consensus       155 ~~L~L~~N~  163 (220)
T 2v9t_B          155 QTMHLAQNP  163 (220)
T ss_dssp             CEEECCSSC
T ss_pred             CEEEeCCCC
Confidence            777766665

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4

Probab=98.05  E-value=2.8e-06  Score=75.61  Aligned_cols=79  Identities=20%  Similarity=0.207  Sum_probs=39.7

Q ss_pred             ccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCC-CCCCCcceEEeccCCCCCCCCc--CCCCCCCcc
Q 045152          422 CLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDH-IFLPRLSSLRIEYCPKLKLLPD--SLLQITTLK  498 (533)
Q Consensus       422 ~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~-~~l~~L~~L~l~~C~~l~~lP~--~~~~l~~L~  498 (533)
                      .|++|+++++ .+..+ +.+..+++|++|+++++. +..+|  +.+ +.+++|++|++++| .+..+|+  .+.++++|+
T Consensus        43 ~L~~L~Ls~N-~l~~~-~~l~~l~~L~~L~Ls~N~-l~~~~--~~~~~~l~~L~~L~L~~N-~i~~~~~~~~l~~l~~L~  116 (176)
T 1a9n_A           43 QFDAIDFSDN-EIRKL-DGFPLLRRLKTLLVNNNR-ICRIG--EGLDQALPDLTELILTNN-SLVELGDLDPLASLKSLT  116 (176)
T ss_dssp             CCSEEECCSS-CCCEE-CCCCCCSSCCEEECCSSC-CCEEC--SCHHHHCTTCCEEECCSC-CCCCGGGGGGGGGCTTCC
T ss_pred             CCCEEECCCC-CCCcc-cccccCCCCCEEECCCCc-ccccC--cchhhcCCCCCEEECCCC-cCCcchhhHhhhcCCCCC
Confidence            4555555553 23333 344455555555555443 44444  232 44555555555553 4455554  455555555


Q ss_pred             eeeccCCc
Q 045152          499 ELGMEGSP  506 (533)
Q Consensus       499 ~L~~~~c~  506 (533)
                      +|++++|+
T Consensus       117 ~L~l~~N~  124 (176)
T 1a9n_A          117 YLCILRNP  124 (176)
T ss_dssp             EEECCSSG
T ss_pred             EEEecCCC
Confidence            55555554

>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=98.04  E-value=1.1e-05  Score=90.09  Aligned_cols=154  Identities=22%  Similarity=0.222  Sum_probs=80.0

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhh---hccC-C-ceEEEEeCCchhHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEV---KRNF-E-KVIWVCVSDTFEEIRV  256 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~---~~~F-~-~~~wv~vs~~~~~~~l  256 (533)
                      .+++||++++..+.+.|...      ....+.++|++|+||||||+.+.+...-   .... . .+++++++.-..    
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 DPVIGRDEEIRRVIQILLRR------TKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLA----  239 (854)
T ss_dssp             CCCCSCHHHHHHHHHHHHCS------SCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC---------
T ss_pred             cccCCcHHHHHHHHHHHhcC------CCCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHHhhc----
Confidence            35899999999999998543      2334689999999999999999863210   0011 1 223333221100    


Q ss_pred             HHHHHHHhCCCCCCCccHHH-HHHHHHHHhC-CceEEEEEeCCCCCC--------ccccchhhhcccCCCCCceEEEEec
Q 045152          257 AKAIIEGLGVSASGLSEFES-LMKQIQEYIT-RKKFFLVLDDVWDGD--------YKKWNPFFSCLKNGHHESKILITTR  326 (533)
Q Consensus       257 ~~~il~~l~~~~~~~~~~~~-l~~~l~~~l~-~kr~LlVLDdv~~~~--------~~~~~~l~~~l~~~~~gs~IiiTtR  326 (533)
                               +. ....+... +...+...-. +++.+|+||+++...        .+....+...+..  .+..+|.+|.
T Consensus       240 ---------g~-~~~g~~~~~l~~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~g~~~~~~~L~~~l~~--~~i~~I~at~  307 (854)
T 1qvr_A          240 ---------GA-KYRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALAR--GELRLIGATT  307 (854)
T ss_dssp             ----------------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHHT--TCCCEEEEEC
T ss_pred             ---------cC-ccchHHHHHHHHHHHHHHhcCCCeEEEEecHHHHhccCCccchHHHHHHHHHHHhC--CCeEEEEecC
Confidence                     00 00011222 2222222222 367899999996532        1111223333322  2344565555


Q ss_pred             chHHHh-----hh-CCCCeeeCCCCChHhhHHHHHHh
Q 045152          327 DRSVAL-----QL-GSIDIIPVKELAEEECWSLLERL  357 (533)
Q Consensus       327 ~~~v~~-----~~-~~~~~~~l~~L~~~~~~~Lf~~~  357 (533)
                      ......     .+ .....+.+++++.++..+++...
T Consensus       308 ~~~~~~~~~d~aL~rRf~~i~l~~p~~~e~~~iL~~~  344 (854)
T 1qvr_A          308 LDEYREIEKDPALERRFQPVYVDEPTVEETISILRGL  344 (854)
T ss_dssp             HHHHHHHTTCTTTCSCCCCEEECCCCHHHHHHHHHHH
T ss_pred             chHHhhhccCHHHHhCCceEEeCCCCHHHHHHHHHhh
Confidence            443211     11 12345889999999999998754

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=98.04  E-value=8.5e-06  Score=74.25  Aligned_cols=118  Identities=19%  Similarity=0.176  Sum_probs=61.9

Q ss_pred             hHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCC
Q 045152          190 EKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSAS  269 (533)
Q Consensus       190 e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~  269 (533)
                      ..+.+.+++.....  ......+.|+|++|+|||+||+.+++.  .......++|++++      .+...+...+...  
T Consensus        37 ~~~~~~~~~~~~~~--~~~~~~~~l~G~~GtGKT~la~~i~~~--~~~~~~~~~~~~~~------~~~~~~~~~~~~~--  104 (202)
T 2w58_A           37 AIRFAERFVAEYEP--GKKMKGLYLHGSFGVGKTYLLAAIANE--LAKRNVSSLIVYVP------ELFRELKHSLQDQ--  104 (202)
T ss_dssp             HHHHHHHHHHHCCS--SCCCCEEEEECSTTSSHHHHHHHHHHH--HHTTTCCEEEEEHH------HHHHHHHHC---C--
T ss_pred             HHHHHHHHHHHhhh--ccCCCeEEEECCCCCCHHHHHHHHHHH--HHHcCCeEEEEEhH------HHHHHHHHHhccc--
Confidence            34455555543221  112268899999999999999999974  33333455666542      3444444333211  


Q ss_pred             CCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccch--hhh-cccCC-CCCceEEEEecc
Q 045152          270 GLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNP--FFS-CLKNG-HHESKILITTRD  327 (533)
Q Consensus       270 ~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~--l~~-~l~~~-~~gs~IiiTtR~  327 (533)
                         ........+.     +.-+|||||++......|..  +.. .+... ..+.++|+||..
T Consensus       105 ---~~~~~~~~~~-----~~~~lilDei~~~~~~~~~~~~ll~~~l~~~~~~~~~~i~tsn~  158 (202)
T 2w58_A          105 ---TMNEKLDYIK-----KVPVLMLDDLGAEAMSSWVRDDVFGPILQYRMFENLPTFFTSNF  158 (202)
T ss_dssp             ---CCHHHHHHHH-----HSSEEEEEEECCC---CCGGGTTHHHHHHHHHHTTCCEEEEESS
T ss_pred             ---hHHHHHHHhc-----CCCEEEEcCCCCCcCCHHHHHHHHHHHHHHHHhCCCCEEEEcCC
Confidence               1222223332     12389999997644334432  322 22211 235678888874

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=98.04  E-value=7.5e-05  Score=73.34  Aligned_cols=187  Identities=14%  Similarity=0.052  Sum_probs=98.9

Q ss_pred             CceeechhhHHHHHHHHhCC----C--ccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCE----S--SEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIR  255 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~----~--~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~  255 (533)
                      .+++|.++.++.|.+.+...    .  .......+.+.|+|++|+|||+||+.+.+... ..   ..+.++.+.-.    
T Consensus        12 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~-~~---~~~~i~~~~l~----   83 (322)
T 1xwi_A           12 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEAN-NS---TFFSISSSDLV----   83 (322)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHTT-SC---EEEEEECCSSC----
T ss_pred             HHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHcC-CC---cEEEEEhHHHH----
Confidence            46889998888888766311    0  00112346789999999999999999987320 11   12233332211    


Q ss_pred             HHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCcc-------c----cchhhhcccC---CCCCceE
Q 045152          256 VAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYK-------K----WNPFFSCLKN---GHHESKI  321 (533)
Q Consensus       256 l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~-------~----~~~l~~~l~~---~~~gs~I  321 (533)
                                .... ......+...+...-..++.+|+||+++.....       .    ...+...+..   ...+..|
T Consensus        84 ----------~~~~-g~~~~~~~~lf~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~~v~v  152 (322)
T 1xwi_A           84 ----------SKWL-GESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDGILV  152 (322)
T ss_dssp             ----------CSSC-CSCHHHHHHHHHHHHHTSSEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHHHCSSSCCTTEEE
T ss_pred             ----------hhhh-hHHHHHHHHHHHHHHhcCCcEEEeecHHHhccccccccchHHHHHHHHHHHHHhcccccCCCEEE
Confidence                      0000 011122222222222456789999999653110       0    0112222211   2234555


Q ss_pred             EEEecchHHHh-hh--CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcc-hhHHH
Q 045152          322 LITTRDRSVAL-QL--GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPL-AAKVI  391 (533)
Q Consensus       322 iiTtR~~~v~~-~~--~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPL-ai~~~  391 (533)
                      |.||..+.... .+  .....+.++..+.++-.+++........ ..   --......|++.+.|..- .+..+
T Consensus       153 I~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~-~~---l~~~~l~~la~~t~G~sgadl~~l  222 (322)
T 1xwi_A          153 LGATNIPWVLDSAIRRRFEKRIYIPLPEPHARAAMFKLHLGTTQ-NS---LTEADFRELGRKTDGYSGADISII  222 (322)
T ss_dssp             EEEESCTTTSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTCC-BC---CCHHHHHHHHHTCTTCCHHHHHHH
T ss_pred             EEecCCcccCCHHHHhhcCeEEEeCCcCHHHHHHHHHHHHhcCC-CC---CCHHHHHHHHHHcCCCCHHHHHHH
Confidence            55665432111 11  2245688899999999999988663111 11   012345778889988744 34444

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A

Probab=98.02  E-value=1.3e-05  Score=74.11  Aligned_cols=85  Identities=20%  Similarity=0.184  Sum_probs=70.4

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCC-cCCCCCCCcc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLP-DSLLQITTLK  498 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP-~~~~~l~~L~  498 (533)
                      ++.|++|.++++.--...|..+..+++|++|+++++. +..+|. ..+..+++|++|+|++ .++..+| ..+.++++|+
T Consensus        55 l~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N~-l~~l~~-~~f~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L~  131 (220)
T 2v9t_B           55 YKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGNK-ITELPK-SLFEGLFSLQLLLLNA-NKINCLRVDAFQDLHNLN  131 (220)
T ss_dssp             CTTCCEEECCSSCCCEECTTTTTTCSSCCEEECCSSC-CCCCCT-TTTTTCTTCCEEECCS-SCCCCCCTTTTTTCTTCC
T ss_pred             CCCCCEEECCCCcCCCcCHHHhhCCcCCCEEECCCCc-CCccCH-hHccCCCCCCEEECCC-CCCCEeCHHHcCCCCCCC
Confidence            6789999999855434447888999999999999765 888884 3367899999999999 5788875 6788999999


Q ss_pred             eeeccCCch
Q 045152          499 ELGMEGSPL  507 (533)
Q Consensus       499 ~L~~~~c~~  507 (533)
                      +|+++++..
T Consensus       132 ~L~L~~N~l  140 (220)
T 2v9t_B          132 LLSLYDNKL  140 (220)
T ss_dssp             EEECCSSCC
T ss_pred             EEECCCCcC
Confidence            999999874

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus}

Probab=98.02  E-value=1e-05  Score=75.36  Aligned_cols=84  Identities=25%  Similarity=0.222  Sum_probs=71.7

Q ss_pred             ccccceEEEeecCCcccCCcc-ccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDY-LLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLK  498 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~-l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~  498 (533)
                      ++.|++|.++++ .+..+|.. +..+++|++|+++++ .+..+|. ..+..+++|++|+|++ .+|..+|..+.++++|+
T Consensus        63 l~~L~~L~L~~N-~l~~i~~~~~~~l~~L~~L~Ls~N-~l~~l~~-~~~~~l~~L~~L~Ls~-N~l~~lp~~~~~l~~L~  138 (229)
T 3e6j_A           63 LINLKELYLGSN-QLGALPVGVFDSLTQLTVLDLGTN-QLTVLPS-AVFDRLVHLKELFMCC-NKLTELPRGIERLTHLT  138 (229)
T ss_dssp             CTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSS-CCCCCCT-TTTTTCTTCCEEECCS-SCCCSCCTTGGGCTTCS
T ss_pred             ccCCcEEECCCC-CCCCcChhhcccCCCcCEEECCCC-cCCccCh-hHhCcchhhCeEeccC-CcccccCcccccCCCCC
Confidence            678999999984 46778755 578999999999976 4888883 3467899999999999 58999999999999999


Q ss_pred             eeeccCCch
Q 045152          499 ELGMEGSPL  507 (533)
Q Consensus       499 ~L~~~~c~~  507 (533)
                      +|+++++..
T Consensus       139 ~L~L~~N~l  147 (229)
T 3e6j_A          139 HLALDQNQL  147 (229)
T ss_dssp             EEECCSSCC
T ss_pred             EEECCCCcC
Confidence            999998853

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=98.02  E-value=2.1e-06  Score=74.03  Aligned_cols=81  Identities=22%  Similarity=0.227  Sum_probs=39.8

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCC-CCCccCCCCCCCcceEEeccCCCCCCCC--cCCCCCCC
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEE-LPILEDHIFLPRLSSLRIEYCPKLKLLP--DSLLQITT  496 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~-lp~~~~~~~l~~L~~L~l~~C~~l~~lP--~~~~~l~~  496 (533)
                      ++.|++|.+++| .+..+ ..+..+++|++|+++++. +.. +|  ..++.+++|++|++++| .+..+|  ..+.++++
T Consensus        41 l~~L~~L~l~~n-~l~~~-~~~~~l~~L~~L~Ls~n~-i~~~~~--~~~~~l~~L~~L~ls~N-~i~~~~~~~~~~~l~~  114 (149)
T 2je0_A           41 FEELEFLSTINV-GLTSI-ANLPKLNKLKKLELSDNR-VSGGLE--VLAEKCPNLTHLNLSGN-KIKDLSTIEPLKKLEN  114 (149)
T ss_dssp             CTTCCEEECTTS-CCCCC-TTCCCCTTCCEEECCSSC-CCSCTH--HHHHHCTTCCEEECTTS-CCCSHHHHGGGGGCTT
T ss_pred             cCCCcEEECcCC-CCCCc-hhhhcCCCCCEEECCCCc-ccchHH--HHhhhCCCCCEEECCCC-cCCChHHHHHHhhCCC
Confidence            344555555543 33333 344445555555555443 333 33  23334555555555553 355543  45555555


Q ss_pred             cceeeccCCc
Q 045152          497 LKELGMEGSP  506 (533)
Q Consensus       497 L~~L~~~~c~  506 (533)
                      |++|++++|+
T Consensus       115 L~~L~l~~N~  124 (149)
T 2je0_A          115 LKSLDLFNCE  124 (149)
T ss_dssp             CCEEECTTCG
T ss_pred             CCEEeCcCCc
Confidence            5555555554

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=98.02  E-value=4.3e-06  Score=91.67  Aligned_cols=83  Identities=18%  Similarity=0.152  Sum_probs=74.4

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcce
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKE  499 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~  499 (533)
                      ++.|+.|+++++. +..+|..+..+.+|++|+|+++. |..+|  ..++.|++|++|+|++| +|..+|+.+.+|++|++
T Consensus       223 l~~L~~L~Ls~n~-l~~l~~~~~~l~~L~~L~Ls~N~-l~~lp--~~~~~l~~L~~L~Ls~N-~l~~lp~~~~~l~~L~~  297 (727)
T 4b8c_D          223 DQLWHALDLSNLQ-IFNISANIFKYDFLTRLYLNGNS-LTELP--AEIKNLSNLRVLDLSHN-RLTSLPAELGSCFQLKY  297 (727)
T ss_dssp             CCCCCEEECTTSC-CSCCCGGGGGCCSCSCCBCTTSC-CSCCC--GGGGGGTTCCEEECTTS-CCSSCCSSGGGGTTCSE
T ss_pred             CCCCcEEECCCCC-CCCCChhhcCCCCCCEEEeeCCc-CcccC--hhhhCCCCCCEEeCcCC-cCCccChhhcCCCCCCE
Confidence            6789999999855 56899999999999999999775 88999  78999999999999995 68899999999999999


Q ss_pred             eeccCCch
Q 045152          500 LGMEGSPL  507 (533)
Q Consensus       500 L~~~~c~~  507 (533)
                      |++++|..
T Consensus       298 L~L~~N~l  305 (727)
T 4b8c_D          298 FYFFDNMV  305 (727)
T ss_dssp             EECCSSCC
T ss_pred             EECCCCCC
Confidence            99999853

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=98.01  E-value=2.3e-05  Score=71.60  Aligned_cols=83  Identities=25%  Similarity=0.366  Sum_probs=57.4

Q ss_pred             ccccceEEEeecCCcccCCcc-ccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcC-CCCCCCc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDY-LLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDS-LLQITTL  497 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~-l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~-~~~l~~L  497 (533)
                      ++.|++|.++++ .+..+|.. +..+++|++|+++++. +..+|. ..+..+++|++|+++++ .+..+|+. +.++++|
T Consensus        75 l~~L~~L~Ls~n-~l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~-~~~~~l~~L~~L~l~~N-~l~~~~~~~~~~l~~L  150 (208)
T 2o6s_A           75 LTSLTYLNLSTN-QLQSLPNGVFDKLTQLKELALNTNQ-LQSLPD-GVFDKLTQLKDLRLYQN-QLKSVPDGVFDRLTSL  150 (208)
T ss_dssp             CTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSC-CCCCCT-TTTTTCTTCCEEECCSS-CCSCCCTTTTTTCTTC
T ss_pred             CCCcCEEECCCC-cCCccCHhHhcCccCCCEEEcCCCc-CcccCH-hHhccCCcCCEEECCCC-ccceeCHHHhccCCCc
Confidence            567777777764 45555544 4667788888887654 666663 23567788888888774 67777765 6778888


Q ss_pred             ceeeccCCc
Q 045152          498 KELGMEGSP  506 (533)
Q Consensus       498 ~~L~~~~c~  506 (533)
                      ++|++++++
T Consensus       151 ~~L~l~~N~  159 (208)
T 2o6s_A          151 QYIWLHDNP  159 (208)
T ss_dssp             CEEECCSCC
T ss_pred             cEEEecCCC
Confidence            888887765

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=98.01  E-value=2.8e-05  Score=80.58  Aligned_cols=147  Identities=18%  Similarity=0.148  Sum_probs=78.7

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccC-----CceEEEEeCCchhHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNF-----EKVIWVCVSDTFEEIRV  256 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F-----~~~~wv~vs~~~~~~~l  256 (533)
                      .+++||+.+++.+...|....      ..-+.|+|++|+|||+||+.+...  +...+     ...-++.+.-.      
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------KNNPVLIGEPGVGKTAIAEGLAQQ--IINNEVPEILRDKRVMTLDMG------  245 (468)
T ss_dssp             CCCCCCHHHHHHHHHHHHCSS------SCEEEEESCTTTTTHHHHHHHHHH--HHSSCSCTTTSSCCEECC---------
T ss_pred             CCccCcHHHHHHHHHHHhccC------CCCeEEECCCCCCHHHHHHHHHHH--HHhCCCChhhcCCeEEEeeCC------
Confidence            359999999999999996432      334679999999999999998863  21111     11112211111      


Q ss_pred             HHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecchHHHh----
Q 045152          257 AKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRSVAL----  332 (533)
Q Consensus       257 ~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~~v~~----  332 (533)
                           ....+.  .......   .+...-..++.+|++|.    ..+....+...+..+  ..++|.+|.......    
T Consensus       246 -----~~~~g~--~e~~~~~---~~~~~~~~~~~iLfiD~----~~~a~~~L~~~L~~g--~v~vI~at~~~e~~~~~~~  309 (468)
T 3pxg_A          246 -----TKYRGE--FEDRLKK---VMDEIRQAGNIILFIDA----AIDASNILKPSLARG--ELQCIGATTLDEYRKYIEK  309 (468)
T ss_dssp             --------------CTTHHH---HHHHHHTCCCCEEEECC------------CCCTTSS--SCEEEEECCTTTTHHHHTT
T ss_pred             -----ccccch--HHHHHHH---HHHHHHhcCCeEEEEeC----chhHHHHHHHhhcCC--CEEEEecCCHHHHHHHhhc
Confidence                 000000  0011222   22222335678899991    112233344444322  345666555443211    


Q ss_pred             ---hhCCCCeeeCCCCChHhhHHHHHHhh
Q 045152          333 ---QLGSIDIIPVKELAEEECWSLLERLA  358 (533)
Q Consensus       333 ---~~~~~~~~~l~~L~~~~~~~Lf~~~a  358 (533)
                         .......+.+++.+.++..+++....
T Consensus       310 ~~al~~Rf~~i~v~~p~~e~~~~iL~~~~  338 (468)
T 3pxg_A          310 DAALERRFQPIQVDQPSVDESIQILQGLR  338 (468)
T ss_dssp             CSHHHHSEEEEECCCCCHHHHHHHHHHTT
T ss_pred             CHHHHHhCccceeCCCCHHHHHHHHHHHH
Confidence               11123468999999999999998755

>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=98.01  E-value=4.1e-05  Score=76.38  Aligned_cols=185  Identities=10%  Similarity=0.050  Sum_probs=99.1

Q ss_pred             CceeechhhHHHHHHHHhCC----C--ccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCE----S--SEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIR  255 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~----~--~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~  255 (533)
                      .+++|.+..++.+.+.+...    .  .......+.+.|+|++|+|||+||+.+.+.  ...   ..+.++.+.-..   
T Consensus        84 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~--~~~---~~~~i~~~~l~~---  155 (357)
T 3d8b_A           84 EDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQ--SGA---TFFSISASSLTS---  155 (357)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHH--TTC---EEEEEEGGGGCC---
T ss_pred             HHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHH--cCC---eEEEEehHHhhc---
Confidence            46899999999998877421    0  000124567899999999999999999863  211   223344332110   


Q ss_pred             HHHHHHHHhCCCCCCCccHHHHHHHHHH-HhCCceEEEEEeCCCCCCc-----------cccchhhhcccC----CCCCc
Q 045152          256 VAKAIIEGLGVSASGLSEFESLMKQIQE-YITRKKFFLVLDDVWDGDY-----------KKWNPFFSCLKN----GHHES  319 (533)
Q Consensus       256 l~~~il~~l~~~~~~~~~~~~l~~~l~~-~l~~kr~LlVLDdv~~~~~-----------~~~~~l~~~l~~----~~~gs  319 (533)
                                 .  ...........+.. .-..++.+|+||+++....           .....+...+..    ...+.
T Consensus       156 -----------~--~~g~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~~v  222 (357)
T 3d8b_A          156 -----------K--WVGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGATTSSEDRI  222 (357)
T ss_dssp             -----------S--STTHHHHHHHHHHHHHHHTCSEEEEEETHHHHTBC------CHHHHHHHHHHHHHHC----CCCCE
T ss_pred             -----------c--ccchHHHHHHHHHHHHHhcCCeEEEEeCchhhhccCCCCcchHHHHHHHHHHHHHhcccccCCCCE
Confidence                       0  00111111222222 2235678999999943210           011223322221    12244


Q ss_pred             eEEEEecchH-HHhhh--CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCC-cchhHHH
Q 045152          320 KILITTRDRS-VALQL--GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGL-PLAAKVI  391 (533)
Q Consensus       320 ~IiiTtR~~~-v~~~~--~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~Gl-PLai~~~  391 (533)
                      .||.||.... +...+  .....+.+...+.++..+++...+.... ..   --......|++.+.|. +-.+..+
T Consensus       223 ~vI~atn~~~~l~~~l~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~-~~---l~~~~l~~la~~t~G~s~~dl~~l  294 (357)
T 3d8b_A          223 LVVGATNRPQEIDEAARRRLVKRLYIPLPEASARKQIVINLMSKEQ-CC---LSEEEIEQIVQQSDAFSGADMTQL  294 (357)
T ss_dssp             EEEEEESCGGGBCHHHHTTCCEEEECCCCCHHHHHHHHHHHHHTSC-BC---CCHHHHHHHHHHTTTCCHHHHHHH
T ss_pred             EEEEecCChhhCCHHHHhhCceEEEeCCcCHHHHHHHHHHHHhhcC-CC---ccHHHHHHHHHHcCCCCHHHHHHH
Confidence            5555665432 11111  2234678889999999998887663111 11   1134567788888884 4445544

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens}

Probab=98.00  E-value=1.3e-05  Score=74.23  Aligned_cols=84  Identities=12%  Similarity=0.174  Sum_probs=67.7

Q ss_pred             ccccceEEEeecCCcccCCcc-ccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCC-CcCCCCCCCc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDY-LLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLL-PDSLLQITTL  497 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~-l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~l-P~~~~~l~~L  497 (533)
                      ++.|++|.++++ .+..+|.. +..+++|++|+++++. +..++. ..+..+++|++|+|++ .++..+ |..+..+++|
T Consensus        80 l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~Ls~N~-l~~~~~-~~~~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L  155 (220)
T 2v70_A           80 ASGVNEILLTSN-RLENVQHKMFKGLESLKTLMLRSNR-ITCVGN-DSFIGLSSVRLLSLYD-NQITTVAPGAFDTLHSL  155 (220)
T ss_dssp             CTTCCEEECCSS-CCCCCCGGGGTTCSSCCEEECTTSC-CCCBCT-TSSTTCTTCSEEECTT-SCCCCBCTTTTTTCTTC
T ss_pred             CCCCCEEECCCC-ccCccCHhHhcCCcCCCEEECCCCc-CCeECH-hHcCCCccCCEEECCC-CcCCEECHHHhcCCCCC
Confidence            678899999884 45666544 7789999999999765 777643 5788899999999999 578887 6788999999


Q ss_pred             ceeeccCCch
Q 045152          498 KELGMEGSPL  507 (533)
Q Consensus       498 ~~L~~~~c~~  507 (533)
                      ++|+++++|.
T Consensus       156 ~~L~L~~N~l  165 (220)
T 2v70_A          156 STLNLLANPF  165 (220)
T ss_dssp             CEEECCSCCE
T ss_pred             CEEEecCcCC
Confidence            9999998873

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C*

Probab=98.00  E-value=5.3e-06  Score=77.75  Aligned_cols=83  Identities=14%  Similarity=0.173  Sum_probs=50.0

Q ss_pred             ccccceEEEeecCCcccCCc-cccccCccceeecccCCCCCCCCCccCCCCCCCcc---eEEeccCCCCCCCCcC-CCCC
Q 045152          420 MPCLSVLRVYLCPKLKVLPD-YLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLS---SLRIEYCPKLKLLPDS-LLQI  494 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~-~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~---~L~l~~C~~l~~lP~~-~~~l  494 (533)
                      ++.|++|.+++|..+..+|. .+..+++|++|+++++. +..+|   .++.+++|+   +|++++++.+..+|+. +.++
T Consensus        79 l~~L~~L~l~~~n~l~~i~~~~f~~l~~L~~L~l~~n~-l~~lp---~~~~l~~L~~L~~L~l~~N~~l~~i~~~~~~~l  154 (239)
T 2xwt_C           79 LSKVTHIEIRNTRNLTYIDPDALKELPLLKFLGIFNTG-LKMFP---DLTKVYSTDIFFILEITDNPYMTSIPVNAFQGL  154 (239)
T ss_dssp             CTTCCEEEEEEETTCCEECTTSEECCTTCCEEEEEEEC-CCSCC---CCTTCCBCCSEEEEEEESCTTCCEECTTTTTTT
T ss_pred             CcCCcEEECCCCCCeeEcCHHHhCCCCCCCEEeCCCCC-Ccccc---ccccccccccccEEECCCCcchhhcCcccccch
Confidence            45666666666556666553 34556666666666554 55555   245555555   6666665566666643 5666


Q ss_pred             CCcc-eeeccCCc
Q 045152          495 TTLK-ELGMEGSP  506 (533)
Q Consensus       495 ~~L~-~L~~~~c~  506 (533)
                      ++|+ +|+++++.
T Consensus       155 ~~L~~~L~l~~n~  167 (239)
T 2xwt_C          155 CNETLTLKLYNNG  167 (239)
T ss_dssp             BSSEEEEECCSCC
T ss_pred             hcceeEEEcCCCC
Confidence            6777 77766654

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=97.99  E-value=3.4e-06  Score=72.41  Aligned_cols=110  Identities=11%  Similarity=0.056  Sum_probs=62.1

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHH
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIE  262 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~  262 (533)
                      +++|++..+.++.+.+....    .....|.|+|++|+|||++|+.+++...      ..+.++++.-  .....     
T Consensus         5 ~~iG~s~~~~~l~~~~~~~~----~~~~~vll~G~~GtGKt~lA~~i~~~~~------~~~~~~~~~~--~~~~~-----   67 (143)
T 3co5_A            5 DKLGNSAAIQEMNREVEAAA----KRTSPVFLTGEAGSPFETVARYFHKNGT------PWVSPARVEY--LIDMP-----   67 (143)
T ss_dssp             ---CCCHHHHHHHHHHHHHH----TCSSCEEEEEETTCCHHHHHGGGCCTTS------CEECCSSTTH--HHHCH-----
T ss_pred             CceeCCHHHHHHHHHHHHHh----CCCCcEEEECCCCccHHHHHHHHHHhCC------CeEEechhhC--ChHhh-----
Confidence            57899999888888875322    1223478999999999999999987421      2222222211  11111     


Q ss_pred             HhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCC-CCCceEEEEecc
Q 045152          263 GLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNG-HHESKILITTRD  327 (533)
Q Consensus       263 ~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~-~~gs~IiiTtR~  327 (533)
                                      ..+.+..  +.-.++||+++.........+...+... ..+.++|.||..
T Consensus        68 ----------------~~~~~~a--~~~~l~lDei~~l~~~~q~~Ll~~l~~~~~~~~~iI~~tn~  115 (143)
T 3co5_A           68 ----------------MELLQKA--EGGVLYVGDIAQYSRNIQTGITFIIGKAERCRVRVIASCSY  115 (143)
T ss_dssp             ----------------HHHHHHT--TTSEEEEEECTTCCHHHHHHHHHHHHHHTTTTCEEEEEEEE
T ss_pred             ----------------hhHHHhC--CCCeEEEeChHHCCHHHHHHHHHHHHhCCCCCEEEEEecCC
Confidence                            1111111  2346899999776544444455544432 345678887764

>1w8a_A SLIT protein; signaling protein, secreted protein, AXON guidance, leucine-rich repeat glycoprotein, EGF-like domain, signal protein; 2.8A {Drosophila melanogaster} SCOP: c.10.2.7

Probab=97.98  E-value=1.3e-05  Score=72.35  Aligned_cols=83  Identities=19%  Similarity=0.345  Sum_probs=66.8

Q ss_pred             ccccceEEEeecCCcccC-CccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCC-CcCCCCCCCc
Q 045152          420 MPCLSVLRVYLCPKLKVL-PDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLL-PDSLLQITTL  497 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~l-p~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~l-P~~~~~l~~L  497 (533)
                      ++.|++|.++++. +..+ |..+..+.+|++|++++.. +..+|. ..+..+++|++|+|++ .++..+ |..+..+++|
T Consensus        53 l~~L~~L~Ls~N~-l~~~~~~~~~~l~~L~~L~Ls~N~-l~~~~~-~~~~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L  128 (192)
T 1w8a_A           53 LPHLVKLELKRNQ-LTGIEPNAFEGASHIQELQLGENK-IKEISN-KMFLGLHQLKTLNLYD-NQISCVMPGSFEHLNSL  128 (192)
T ss_dssp             CTTCCEEECCSSC-CCCBCTTTTTTCTTCCEEECCSCC-CCEECS-SSSTTCTTCCEEECCS-SCCCEECTTSSTTCTTC
T ss_pred             CCCCCEEECCCCC-CCCcCHhHcCCcccCCEEECCCCc-CCccCH-HHhcCCCCCCEEECCC-CcCCeeCHHHhhcCCCC
Confidence            6789999998854 4444 7778889999999999755 777773 3478899999999999 467665 6788899999


Q ss_pred             ceeeccCCc
Q 045152          498 KELGMEGSP  506 (533)
Q Consensus       498 ~~L~~~~c~  506 (533)
                      ++|++++++
T Consensus       129 ~~L~L~~N~  137 (192)
T 1w8a_A          129 TSLNLASNP  137 (192)
T ss_dssp             CEEECTTCC
T ss_pred             CEEEeCCCC
Confidence            999998876

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=97.98  E-value=2e-05  Score=70.10  Aligned_cols=83  Identities=24%  Similarity=0.358  Sum_probs=66.0

Q ss_pred             ccccceEEEeecCCcccCCcc-ccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCC-CCCCCc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDY-LLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSL-LQITTL  497 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~-l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~-~~l~~L  497 (533)
                      ++.|++|.++++ .+..+|.. +..+++|++|+++++. +..+|. ..+..+++|++|+++++ .+..+|+.+ .++++|
T Consensus        51 l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~N~-l~~~~~-~~~~~l~~L~~L~l~~N-~l~~~~~~~~~~l~~L  126 (177)
T 2o6r_A           51 LTQLTKLSLSQN-QIQSLPDGVFDKLTKLTILYLHENK-LQSLPN-GVFDKLTQLKELALDTN-QLKSVPDGIFDRLTSL  126 (177)
T ss_dssp             CTTCSEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSC-CCCCCT-TTTTTCTTCCEEECCSS-CCSCCCTTTTTTCTTC
T ss_pred             cccccEEECCCC-cceEeChhHccCCCccCEEECCCCC-ccccCH-HHhhCCcccCEEECcCC-cceEeCHHHhcCCccc
Confidence            567889998874 56677655 5778999999998754 777773 34678999999999984 888888764 778999


Q ss_pred             ceeeccCCc
Q 045152          498 KELGMEGSP  506 (533)
Q Consensus       498 ~~L~~~~c~  506 (533)
                      ++|++++++
T Consensus       127 ~~L~l~~N~  135 (177)
T 2o6r_A          127 QKIWLHTNP  135 (177)
T ss_dssp             CEEECCSSC
T ss_pred             CEEEecCCC
Confidence            999998887

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=97.98  E-value=3.5e-05  Score=68.44  Aligned_cols=88  Identities=30%  Similarity=0.347  Sum_probs=71.1

Q ss_pred             ccccccccceEEEeecCCcccCCcc-ccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcC-CCC
Q 045152          416 NISIMPCLSVLRVYLCPKLKVLPDY-LLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDS-LLQ  493 (533)
Q Consensus       416 ~~~ilp~L~~L~l~~c~~l~~lp~~-l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~-~~~  493 (533)
                      +..+.+.++.|.++++ .+..+|.. +..+++|++|+++++. +..+|. ..++.+++|++|++++ .++..+|+. +.+
T Consensus        23 p~~~~~~l~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~-~~~~~l~~L~~L~l~~-N~l~~~~~~~~~~   98 (177)
T 2o6r_A           23 PTGIPSSATRLELESN-KLQSLPHGVFDKLTQLTKLSLSQNQ-IQSLPD-GVFDKLTKLTILYLHE-NKLQSLPNGVFDK   98 (177)
T ss_dssp             CTTCCTTCSEEECCSS-CCCCCCTTTTTTCTTCSEEECCSSC-CCCCCT-TTTTTCTTCCEEECCS-SCCCCCCTTTTTT
T ss_pred             CCCCCCCCcEEEeCCC-cccEeCHHHhcCcccccEEECCCCc-ceEeCh-hHccCCCccCEEECCC-CCccccCHHHhhC
Confidence            3345678999999984 46677654 5789999999999764 888883 3468899999999999 589999875 688


Q ss_pred             CCCcceeeccCCch
Q 045152          494 ITTLKELGMEGSPL  507 (533)
Q Consensus       494 l~~L~~L~~~~c~~  507 (533)
                      +++|++|+++++..
T Consensus        99 l~~L~~L~l~~N~l  112 (177)
T 2o6r_A           99 LTQLKELALDTNQL  112 (177)
T ss_dssp             CTTCCEEECCSSCC
T ss_pred             CcccCEEECcCCcc
Confidence            99999999998864

>2gno_A DNA polymerase III, gamma subunit-related protein; structural genomics, joint center for structural genomics, J protein structure initiative; HET: DNA; 2.00A {Thermotoga maritima} SCOP: a.80.1.1 c.37.1.20

Probab=97.97  E-value=2.6e-05  Score=75.82  Aligned_cols=148  Identities=13%  Similarity=0.026  Sum_probs=91.5

Q ss_pred             chhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchh-hhccCCceEEEEeCC-chhHHHHHHHHHHHh
Q 045152          187 RVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDE-VKRNFEKVIWVCVSD-TFEEIRVAKAIIEGL  264 (533)
Q Consensus       187 R~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~-~~~~F~~~~wv~vs~-~~~~~~l~~~il~~l  264 (533)
                      -++-++.+...+..      ++.....++|++|.||||+|+.+.+... ....+....+++.++ ...+.. .+++.+.+
T Consensus         2 ~~~~~~~L~~~i~~------~~~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~~~~~~~~id~-ir~li~~~   74 (305)
T 2gno_A            2 AKDQLETLKRIIEK------SEGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDD-IRTIKDFL   74 (305)
T ss_dssp             --CHHHHHHHHHHT------CSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHH-HHHHHHHH
T ss_pred             hHHHHHHHHHHHHC------CCCcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEcCCcCCCCHHH-HHHHHHHH
Confidence            34455666666632      2367889999999999999999876311 111122334454332 222222 22333333


Q ss_pred             CCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecch-HHHhhhCCCCeeeCC
Q 045152          265 GVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDR-SVALQLGSIDIIPVK  343 (533)
Q Consensus       265 ~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~-~v~~~~~~~~~~~l~  343 (533)
                      ...+                ..+++-++|+|+++..+....+.|...+....+.+.+|++|.++ .+...+..- .++++
T Consensus        75 ~~~p----------------~~~~~kvviIdead~lt~~a~naLLk~LEep~~~t~fIl~t~~~~kl~~tI~SR-~~~f~  137 (305)
T 2gno_A           75 NYSP----------------ELYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSR-VFRVV  137 (305)
T ss_dssp             TSCC----------------SSSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTT-SEEEE
T ss_pred             hhcc----------------ccCCceEEEeccHHHhCHHHHHHHHHHHhCCCCCeEEEEEECChHhChHHHHce-eEeCC
Confidence            2111                12456789999998776666777888787666677777776543 333333334 89999


Q ss_pred             CCChHhhHHHHHHhh
Q 045152          344 ELAEEECWSLLERLA  358 (533)
Q Consensus       344 ~L~~~~~~~Lf~~~a  358 (533)
                      +++.++..+.+.+..
T Consensus       138 ~l~~~~i~~~L~~~~  152 (305)
T 2gno_A          138 VNVPKEFRDLVKEKI  152 (305)
T ss_dssp             CCCCHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHh
Confidence            999999999988765

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=97.97  E-value=9.3e-07  Score=78.07  Aligned_cols=87  Identities=17%  Similarity=0.154  Sum_probs=63.1

Q ss_pred             ccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCC----CCcceEEeccCCCCCCCC-cCCCCCCC
Q 045152          422 CLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFL----PRLSSLRIEYCPKLKLLP-DSLLQITT  496 (533)
Q Consensus       422 ~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l----~~L~~L~l~~C~~l~~lP-~~~~~l~~  496 (533)
                      .|+.|++++|.--..=-..+..+++|++|+|++|..+..-- +..+..+    ++|++|+|++|+++..-- ..+.++++
T Consensus        62 ~L~~LDLs~~~Itd~GL~~L~~~~~L~~L~L~~C~~ItD~g-L~~L~~~~~~~~~L~~L~Ls~C~~ITD~Gl~~L~~~~~  140 (176)
T 3e4g_A           62 KIQAIDATDSCIMSIGFDHMEGLQYVEKIRLCKCHYIEDGC-LERLSQLENLQKSMLEMEIISCGNVTDKGIIALHHFRN  140 (176)
T ss_dssp             CEEEEEEESCCCCGGGGGGGTTCSCCCEEEEESCTTCCHHH-HHHHHTCHHHHHHCCEEEEESCTTCCHHHHHHGGGCTT
T ss_pred             eEeEEeCcCCCccHHHHHHhcCCCCCCEEEeCCCCccCHHH-HHHHHhcccccCCCCEEEcCCCCcCCHHHHHHHhcCCC
Confidence            58999999987322222345678999999999999876421 1233333    479999999999986411 23567899


Q ss_pred             cceeeccCCchhH
Q 045152          497 LKELGMEGSPLLE  509 (533)
Q Consensus       497 L~~L~~~~c~~l~  509 (533)
                      |++|++++||.+.
T Consensus       141 L~~L~L~~c~~It  153 (176)
T 3e4g_A          141 LKYLFLSDLPGVK  153 (176)
T ss_dssp             CCEEEEESCTTCC
T ss_pred             CCEEECCCCCCCC
Confidence            9999999999654

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=97.97  E-value=0.0001  Score=75.79  Aligned_cols=187  Identities=14%  Similarity=0.063  Sum_probs=98.6

Q ss_pred             CceeechhhHHHHHHHHhCC----C--ccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCE----S--SEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIR  255 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~----~--~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~  255 (533)
                      .+++|.+..++.|.+.+...    .  .......+.+.|+|++|+|||+||+.+.+.  .    ...-++.++...    
T Consensus       134 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~--~----~~~~~~~v~~~~----  203 (444)
T 2zan_A          134 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATE--A----NNSTFFSISSSD----  203 (444)
T ss_dssp             GGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHH--C----CSSEEEEECCC-----
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHH--c----CCCCEEEEeHHH----
Confidence            46899999999888876311    0  001123568899999999999999999873  2    112234433321    


Q ss_pred             HHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCcc-------cc----chhhhcccC---CCCCceE
Q 045152          256 VAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYK-------KW----NPFFSCLKN---GHHESKI  321 (533)
Q Consensus       256 l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~-------~~----~~l~~~l~~---~~~gs~I  321 (533)
                      +.    ....+..  ......+.   ...-..++.+|+||+++.....       ..    ..+...+..   ...+..|
T Consensus       204 l~----~~~~g~~--~~~~~~~f---~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~v~v  274 (444)
T 2zan_A          204 LV----SKWLGES--EKLVKNLF---QLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDGILV  274 (444)
T ss_dssp             ------------C--CCTHHHHH---HHHHHSCSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTCSSCCCSSCEE
T ss_pred             HH----hhhcchH--HHHHHHHH---HHHHHcCCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhCcccCCCCEEE
Confidence            11    1111111  11122222   2222356789999999653110       01    112222211   2345566


Q ss_pred             EEEecchHHHh-h-h-CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCc-chhHHH
Q 045152          322 LITTRDRSVAL-Q-L-GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLP-LAAKVI  391 (533)
Q Consensus       322 iiTtR~~~v~~-~-~-~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlP-Lai~~~  391 (533)
                      |.||..+.... . . .....+.++..+.++...+|.......  ....  -......|++.+.|.. -.|..+
T Consensus       275 I~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~--~~~l--~~~~l~~la~~t~G~sgadl~~l  344 (444)
T 2zan_A          275 LGATNIPWVLDSAIRRRFEKRIYIPLPEAHARAAMFRLHLGST--QNSL--TEADFQELGRKTDGYSGADISII  344 (444)
T ss_dssp             EEEESCGGGSCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTS--CEEC--CHHHHHHHHHHTTTCCHHHHHHH
T ss_pred             EecCCCccccCHHHHhhcceEEEeCCcCHHHHHHHHHHHHhcC--CCCC--CHHHHHHHHHHcCCCCHHHHHHH
Confidence            66776542211 1 1 223567888888899989988876311  1110  1234577888898854 344433

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens}

Probab=97.95  E-value=2.1e-05  Score=72.76  Aligned_cols=84  Identities=12%  Similarity=0.222  Sum_probs=67.6

Q ss_pred             ccccceEEEeecCCcccCCc-cccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCC-CcCCCCCCCc
Q 045152          420 MPCLSVLRVYLCPKLKVLPD-YLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLL-PDSLLQITTL  497 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~-~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~l-P~~~~~l~~L  497 (533)
                      ++.|++|.++++ .+..++. .+..+++|++|+++++. +..+|. ..+..+++|++|+|++ .++..+ |..+.++++|
T Consensus        56 l~~L~~L~L~~N-~i~~i~~~~~~~l~~L~~L~Ls~N~-l~~~~~-~~~~~l~~L~~L~Ls~-N~l~~~~~~~~~~l~~L  131 (220)
T 2v70_A           56 LPQLRKINFSNN-KITDIEEGAFEGASGVNEILLTSNR-LENVQH-KMFKGLESLKTLMLRS-NRITCVGNDSFIGLSSV  131 (220)
T ss_dssp             CTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSSC-CCCCCG-GGGTTCSSCCEEECTT-SCCCCBCTTSSTTCTTC
T ss_pred             CCCCCEEECCCC-cCCEECHHHhCCCCCCCEEECCCCc-cCccCH-hHhcCCcCCCEEECCC-CcCCeECHhHcCCCccC
Confidence            678999999884 4566654 67889999999999765 777773 3478899999999999 467776 5778899999


Q ss_pred             ceeeccCCch
Q 045152          498 KELGMEGSPL  507 (533)
Q Consensus       498 ~~L~~~~c~~  507 (533)
                      ++|++++|..
T Consensus       132 ~~L~L~~N~l  141 (220)
T 2v70_A          132 RLLSLYDNQI  141 (220)
T ss_dssp             SEEECTTSCC
T ss_pred             CEEECCCCcC
Confidence            9999998863

>1w8a_A SLIT protein; signaling protein, secreted protein, AXON guidance, leucine-rich repeat glycoprotein, EGF-like domain, signal protein; 2.8A {Drosophila melanogaster} SCOP: c.10.2.7

Probab=97.95  E-value=1.9e-05  Score=71.35  Aligned_cols=89  Identities=15%  Similarity=0.129  Sum_probs=71.9

Q ss_pred             cccccccccceEEEeecCCcccCCcc--ccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcC-C
Q 045152          415 ENISIMPCLSVLRVYLCPKLKVLPDY--LLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDS-L  491 (533)
Q Consensus       415 ~~~~ilp~L~~L~l~~c~~l~~lp~~--l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~-~  491 (533)
                      ++..+.+.++.|.++++ .+..+|..  +..+++|++|+++++. +..++. ..+..+++|++|+|++ .+|..+|+. +
T Consensus        23 ip~~~~~~l~~L~l~~n-~i~~~~~~~~~~~l~~L~~L~Ls~N~-l~~~~~-~~~~~l~~L~~L~Ls~-N~l~~~~~~~~   98 (192)
T 1w8a_A           23 IPRDIPLHTTELLLNDN-ELGRISSDGLFGRLPHLVKLELKRNQ-LTGIEP-NAFEGASHIQELQLGE-NKIKEISNKMF   98 (192)
T ss_dssp             CCSCCCTTCSEEECCSC-CCCSBCCSCSGGGCTTCCEEECCSSC-CCCBCT-TTTTTCTTCCEEECCS-CCCCEECSSSS
T ss_pred             CccCCCCCCCEEECCCC-cCCccCCccccccCCCCCEEECCCCC-CCCcCH-hHcCCcccCCEEECCC-CcCCccCHHHh
Confidence            33445558999999984 66777753  7889999999999765 777642 5788999999999999 578888764 8


Q ss_pred             CCCCCcceeeccCCch
Q 045152          492 LQITTLKELGMEGSPL  507 (533)
Q Consensus       492 ~~l~~L~~L~~~~c~~  507 (533)
                      .++++|++|+++++..
T Consensus        99 ~~l~~L~~L~L~~N~l  114 (192)
T 1w8a_A           99 LGLHQLKTLNLYDNQI  114 (192)
T ss_dssp             TTCTTCCEEECCSSCC
T ss_pred             cCCCCCCEEECCCCcC
Confidence            8999999999999864

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=97.95  E-value=2.7e-05  Score=74.46  Aligned_cols=84  Identities=27%  Similarity=0.372  Sum_probs=62.2

Q ss_pred             ccccceEEEeecCCcccCCcc-ccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcC-CCCCCCc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDY-LLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDS-LLQITTL  497 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~-l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~-~~~l~~L  497 (533)
                      ++.|++|.+++|. +..+|.. +..+++|++|+++++. +..+|. ..++.+++|++|++++| ++..+|+. +.++++|
T Consensus       108 l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~-~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L  183 (272)
T 3rfs_A          108 LTNLKELVLVENQ-LQSLPDGVFDKLTNLTYLNLAHNQ-LQSLPK-GVFDKLTNLTELDLSYN-QLQSLPEGVFDKLTQL  183 (272)
T ss_dssp             CTTCCEEECTTSC-CCCCCTTTTTTCTTCCEEECCSSC-CCCCCT-TTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTC
T ss_pred             CcCCCEEECCCCc-CCccCHHHhccCCCCCEEECCCCc-cCccCH-HHhccCccCCEEECCCC-CcCccCHHHhcCCccC
Confidence            5678888888754 4555544 5778888888888774 777773 33577888888888886 67777755 5778888


Q ss_pred             ceeeccCCch
Q 045152          498 KELGMEGSPL  507 (533)
Q Consensus       498 ~~L~~~~c~~  507 (533)
                      ++|++++|..
T Consensus       184 ~~L~L~~N~l  193 (272)
T 3rfs_A          184 KDLRLYQNQL  193 (272)
T ss_dssp             CEEECCSSCC
T ss_pred             CEEECCCCcC
Confidence            8888888763

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A

Probab=97.95  E-value=2.9e-05  Score=75.09  Aligned_cols=83  Identities=28%  Similarity=0.373  Sum_probs=46.7

Q ss_pred             ccccceEEEeecCCcccCC-ccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCC-CCCCCc
Q 045152          420 MPCLSVLRVYLCPKLKVLP-DYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSL-LQITTL  497 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp-~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~-~~l~~L  497 (533)
                      ++.|++|.+++ ..+..+| ..+..+++|++|+++++. +..+|. ..+..+++|+.|+|++ .+|+.+|+++ .++++|
T Consensus        99 l~~L~~L~l~~-N~l~~l~~~~~~~l~~L~~L~L~~N~-l~~~~~-~~~~~l~~L~~L~L~~-N~l~~l~~~~~~~l~~L  174 (290)
T 1p9a_G           99 LPALTVLDVSF-NRLTSLPLGALRGLGELQELYLKGNE-LKTLPP-GLLTPTPKLEKLSLAN-NNLTELPAGLLNGLENL  174 (290)
T ss_dssp             CTTCCEEECCS-SCCCCCCSSTTTTCTTCCEEECTTSC-CCCCCT-TTTTTCTTCCEEECTT-SCCSCCCTTTTTTCTTC
T ss_pred             CCCCCEEECCC-CcCcccCHHHHcCCCCCCEEECCCCC-CCccCh-hhcccccCCCEEECCC-CcCCccCHHHhcCcCCC
Confidence            44566666655 3344444 335556666666666543 555552 2345566666666666 3566666543 456666


Q ss_pred             ceeeccCCc
Q 045152          498 KELGMEGSP  506 (533)
Q Consensus       498 ~~L~~~~c~  506 (533)
                      ++|++++|.
T Consensus       175 ~~L~L~~N~  183 (290)
T 1p9a_G          175 DTLLLQENS  183 (290)
T ss_dssp             CEEECCSSC
T ss_pred             CEEECCCCc
Confidence            666666654

>3m19_A Variable lymphocyte receptor A diversity region; adaptive immunity, antibody, T cell, leucine-rich repeat, immune system; 1.70A {Petromyzon marinus} PDB: 3m18_A

Probab=97.94  E-value=3.1e-05  Score=73.13  Aligned_cols=84  Identities=21%  Similarity=0.318  Sum_probs=56.9

Q ss_pred             ccccceEEEeecCCcccCCcc-ccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCc-CCCCCCCc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDY-LLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPD-SLLQITTL  497 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~-l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~-~~~~l~~L  497 (533)
                      ++.|++|.++++ .+..+|.. +..+++|++|+++++ .+..+|. ..++.+++|++|+|++ ..+..+|+ .+.++++|
T Consensus       106 l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~-~~~~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L  181 (251)
T 3m19_A          106 LTQLDKLYLGGN-QLKSLPSGVFDRLTKLKELRLNTN-QLQSIPA-GAFDKLTNLQTLSLST-NQLQSVPHGAFDRLGKL  181 (251)
T ss_dssp             CTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSS-CCCCCCT-TTTTTCTTCCEEECCS-SCCSCCCTTTTTTCTTC
T ss_pred             cCCCCEEEcCCC-cCCCcChhHhccCCcccEEECcCC-cCCccCH-HHcCcCcCCCEEECCC-CcCCccCHHHHhCCCCC
Confidence            556777777763 55566654 356777777777765 3666663 2466777788888777 36667665 56677778


Q ss_pred             ceeeccCCch
Q 045152          498 KELGMEGSPL  507 (533)
Q Consensus       498 ~~L~~~~c~~  507 (533)
                      ++|++++++.
T Consensus       182 ~~L~l~~N~~  191 (251)
T 3m19_A          182 QTITLFGNQF  191 (251)
T ss_dssp             CEEECCSCCB
T ss_pred             CEEEeeCCce
Confidence            8888777764

>3m19_A Variable lymphocyte receptor A diversity region; adaptive immunity, antibody, T cell, leucine-rich repeat, immune system; 1.70A {Petromyzon marinus} PDB: 3m18_A

Probab=97.93  E-value=3.2e-05  Score=72.96  Aligned_cols=84  Identities=25%  Similarity=0.335  Sum_probs=63.3

Q ss_pred             ccccceEEEeecCCcccCC-ccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCc-CCCCCCCc
Q 045152          420 MPCLSVLRVYLCPKLKVLP-DYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPD-SLLQITTL  497 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp-~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~-~~~~l~~L  497 (533)
                      ++.|++|.++++ .+..+| ..+..+++|++|+++++ .+..+|. ..+..+++|++|+|+++ +|..+|+ .+.++++|
T Consensus        82 l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~-~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L  157 (251)
T 3m19_A           82 LTELGTLGLANN-QLASLPLGVFDHLTQLDKLYLGGN-QLKSLPS-GVFDRLTKLKELRLNTN-QLQSIPAGAFDKLTNL  157 (251)
T ss_dssp             CTTCCEEECTTS-CCCCCCTTTTTTCTTCCEEECCSS-CCCCCCT-TTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTC
T ss_pred             CCcCCEEECCCC-cccccChhHhcccCCCCEEEcCCC-cCCCcCh-hHhccCCcccEEECcCC-cCCccCHHHcCcCcCC
Confidence            567888888774 445555 34567888888888875 4777773 23577889999999884 8888886 57888999


Q ss_pred             ceeeccCCch
Q 045152          498 KELGMEGSPL  507 (533)
Q Consensus       498 ~~L~~~~c~~  507 (533)
                      ++|++++|..
T Consensus       158 ~~L~L~~N~l  167 (251)
T 3m19_A          158 QTLSLSTNQL  167 (251)
T ss_dssp             CEEECCSSCC
T ss_pred             CEEECCCCcC
Confidence            9999988863

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=97.92  E-value=0.00013  Score=70.95  Aligned_cols=181  Identities=15%  Similarity=0.107  Sum_probs=98.7

Q ss_pred             CceeechhhHHHHHHHHhCCCc-------cCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESS-------EQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEI  254 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~-------~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~  254 (533)
                      .+++|.+..++.+.+.+...-.       -+-.....+.|+|++|+|||+||+.+.+.  ...     -++.++    ..
T Consensus        15 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~--~~~-----~~i~v~----~~   83 (301)
T 3cf0_A           15 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANE--CQA-----NFISIK----GP   83 (301)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHH--TTC-----EEEEEC----HH
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHH--hCC-----CEEEEE----hH
Confidence            3589999988888877642100       00124567899999999999999999873  221     223332    22


Q ss_pred             HHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCc----------cc----cchhhhcccC--CCCC
Q 045152          255 RVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDY----------KK----WNPFFSCLKN--GHHE  318 (533)
Q Consensus       255 ~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~----------~~----~~~l~~~l~~--~~~g  318 (533)
                      ++....   ++..   .   ..+...+.......+.+++||+++....          ..    ...+...+..  ...+
T Consensus        84 ~l~~~~---~g~~---~---~~~~~~f~~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~  154 (301)
T 3cf0_A           84 ELLTMW---FGES---E---ANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKN  154 (301)
T ss_dssp             HHHHHH---HTTC---T---THHHHHHHHHHHTCSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSSCTTSS
T ss_pred             HHHhhh---cCch---H---HHHHHHHHHHHhcCCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhcccCCCC
Confidence            222221   1111   1   1122233333345678999999953100          01    1223333321  2335


Q ss_pred             ceEEEEecchHHHh-h-hC---CCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcch
Q 045152          319 SKILITTRDRSVAL-Q-LG---SIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLA  387 (533)
Q Consensus       319 s~IiiTtR~~~v~~-~-~~---~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLa  387 (533)
                      ..||.||....... . ..   ....+.++..+.++-.+++....... .......+    ..++..+.|.|-+
T Consensus       155 v~vi~atn~~~~ld~al~r~gRf~~~i~i~~p~~~~r~~il~~~l~~~-~~~~~~~~----~~la~~~~g~sg~  223 (301)
T 3cf0_A          155 VFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKS-PVAKDVDL----EFLAKMTNGFSGA  223 (301)
T ss_dssp             EEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTS-CBCSSCCH----HHHHHTCSSCCHH
T ss_pred             EEEEEecCCccccChHHhcCCccceEEecCCcCHHHHHHHHHHHHccC-CCCccchH----HHHHHHcCCCCHH
Confidence            56777776553221 1 12   23578899999999999888765321 11111222    4566677777754

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A*

Probab=97.91  E-value=2.9e-05  Score=74.68  Aligned_cols=84  Identities=18%  Similarity=0.247  Sum_probs=51.4

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcC-CCCCCCcc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDS-LLQITTLK  498 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~-~~~l~~L~  498 (533)
                      ++.|++|.++++.--...|..+..+++|++|+++++. +..+|. ..++.+++|++|++++| ++..+|+. +.++++|+
T Consensus       104 l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~-~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~  180 (285)
T 1ozn_A          104 LGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNA-LQALPD-DTFRDLGNLTHLFLHGN-RISSVPERAFRGLHSLD  180 (285)
T ss_dssp             CTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSC-CCCCCT-TTTTTCTTCCEEECCSS-CCCEECTTTTTTCTTCC
T ss_pred             CcCCCEEECCCCcCCEECHhHhhCCcCCCEEECCCCc-ccccCH-hHhccCCCccEEECCCC-cccccCHHHhcCccccC
Confidence            4566666666644323234455566677777776554 555552 23566777777777774 56666653 66677777


Q ss_pred             eeeccCCc
Q 045152          499 ELGMEGSP  506 (533)
Q Consensus       499 ~L~~~~c~  506 (533)
                      +|++++|.
T Consensus       181 ~L~l~~n~  188 (285)
T 1ozn_A          181 RLLLHQNR  188 (285)
T ss_dssp             EEECCSSC
T ss_pred             EEECCCCc
Confidence            77777765

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=97.91  E-value=0.00025  Score=68.57  Aligned_cols=183  Identities=16%  Similarity=0.101  Sum_probs=97.6

Q ss_pred             CceeechhhHHHHHHHHhCCCc------cCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESS------EQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIR  255 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~------~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~  255 (533)
                      .+++|.+..++.+.+.+.....      .-......+.|+|++|+||||+|+.+.+.  ....   .+.++.+.-..   
T Consensus        21 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~--~~~~---~~~i~~~~l~~---   92 (297)
T 3b9p_A           21 TDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATE--CSAT---FLNISAASLTS---   92 (297)
T ss_dssp             GGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHH--TTCE---EEEEESTTTSS---
T ss_pred             HHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHH--hCCC---eEEeeHHHHhh---
Confidence            4689999999998887632100      00123567899999999999999999863  2211   22333322110   


Q ss_pred             HHHHHHHHhCCCCCCCccHHHHHH-HHHHHhCCceEEEEEeCCCCCCccc-----------cchhhhcc---cCC--CCC
Q 045152          256 VAKAIIEGLGVSASGLSEFESLMK-QIQEYITRKKFFLVLDDVWDGDYKK-----------WNPFFSCL---KNG--HHE  318 (533)
Q Consensus       256 l~~~il~~l~~~~~~~~~~~~l~~-~l~~~l~~kr~LlVLDdv~~~~~~~-----------~~~l~~~l---~~~--~~g  318 (533)
                                 ..  ......... .+......++.+|+||+++......           ...+...+   +..  ..+
T Consensus        93 -----------~~--~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~  159 (297)
T 3b9p_A           93 -----------KY--VGDGEKLVRALFAVARHMQPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPGNPDGDR  159 (297)
T ss_dssp             -----------SS--CSCHHHHHHHHHHHHHHTCSEEEEEETGGGTSBCC-----CCSHHHHHHHHHHHHHCC------C
T ss_pred             -----------cc--cchHHHHHHHHHHHHHHcCCcEEEeccHHHhccccccCcchHHHHHHHHHHHHHhcccccCCCCc
Confidence                       00  011122222 2222224567899999995531110           00122111   111  123


Q ss_pred             ceEEEEecchH-----HHhhhCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcc-hhHHH
Q 045152          319 SKILITTRDRS-----VALQLGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPL-AAKVI  391 (533)
Q Consensus       319 s~IiiTtR~~~-----v~~~~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPL-ai~~~  391 (533)
                      ..||.||....     +..  .....+.+...+.++...++...+.....    .--......+++.+.|.+- ++..+
T Consensus       160 v~vi~~tn~~~~l~~~l~~--R~~~~i~~~~p~~~~r~~il~~~~~~~~~----~~~~~~~~~la~~~~g~~~~~l~~l  232 (297)
T 3b9p_A          160 IVVLAATNRPQELDEAALR--RFTKRVYVSLPDEQTRELLLNRLLQKQGS----PLDTEALRRLAKITDGYSGSDLTAL  232 (297)
T ss_dssp             EEEEEEESCGGGBCHHHHH--HCCEEEECCCCCHHHHHHHHHHHHGGGSC----CSCHHHHHHHHHHTTTCCHHHHHHH
T ss_pred             EEEEeecCChhhCCHHHHh--hCCeEEEeCCcCHHHHHHHHHHHHHhcCC----CCCHHHHHHHHHHcCCCCHHHHHHH
Confidence            45666776542     222  12356777888888888888776531111    1113455778889999886 44433

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4

Probab=97.91  E-value=4.6e-06  Score=74.23  Aligned_cols=87  Identities=18%  Similarity=0.141  Sum_probs=73.6

Q ss_pred             ccccceEEEeecCCcccCCccc-cccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcC----CCCC
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYL-LQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDS----LLQI  494 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l-~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~----~~~l  494 (533)
                      ++.|++|.++++ .+..+|..+ ..+++|++|+++++. +..+|.+..++.+++|++|++++| .+..+|+.    +..+
T Consensus        63 l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~L~~N~-i~~~~~~~~l~~l~~L~~L~l~~N-~i~~~~~~~~~~~~~l  139 (176)
T 1a9n_A           63 LRRLKTLLVNNN-RICRIGEGLDQALPDLTELILTNNS-LVELGDLDPLASLKSLTYLCILRN-PVTNKKHYRLYVIYKV  139 (176)
T ss_dssp             CSSCCEEECCSS-CCCEECSCHHHHCTTCCEEECCSCC-CCCGGGGGGGGGCTTCCEEECCSS-GGGGSTTHHHHHHHHC
T ss_pred             CCCCCEEECCCC-cccccCcchhhcCCCCCEEECCCCc-CCcchhhHhhhcCCCCCEEEecCC-CCCCcHhHHHHHHHHC
Confidence            678999999985 567888765 789999999999775 788884347889999999999995 67889985    8899


Q ss_pred             CCcceeeccCCchhH
Q 045152          495 TTLKELGMEGSPLLE  509 (533)
Q Consensus       495 ~~L~~L~~~~c~~l~  509 (533)
                      ++|++|++++++.-+
T Consensus       140 ~~L~~Ld~~~n~~~~  154 (176)
T 1a9n_A          140 PQVRVLDFQKVKLKE  154 (176)
T ss_dssp             TTCSEETTEECCHHH
T ss_pred             CccceeCCCcCCHHH
Confidence            999999999998544

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=97.90  E-value=3e-05  Score=70.85  Aligned_cols=83  Identities=27%  Similarity=0.328  Sum_probs=68.3

Q ss_pred             ccccceEEEeecCCcccCCcc-ccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcC-CCCCCCc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDY-LLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDS-LLQITTL  497 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~-l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~-~~~l~~L  497 (533)
                      ++.|++|.++++ .+..+|.. +..+++|++|+++++. +..+|. ..+..+++|++|+++++ ++..+|+. +.++++|
T Consensus        51 l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~~-~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L  126 (208)
T 2o6s_A           51 LTSLTQLYLGGN-KLQSLPNGVFNKLTSLTYLNLSTNQ-LQSLPN-GVFDKLTQLKELALNTN-QLQSLPDGVFDKLTQL  126 (208)
T ss_dssp             CTTCSEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSC-CCCCCT-TTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTC
T ss_pred             cccCcEEECCCC-ccCccChhhcCCCCCcCEEECCCCc-CCccCH-hHhcCccCCCEEEcCCC-cCcccCHhHhccCCcC
Confidence            678999999884 56777765 4678999999999765 788873 34688999999999994 78888875 6889999


Q ss_pred             ceeeccCCc
Q 045152          498 KELGMEGSP  506 (533)
Q Consensus       498 ~~L~~~~c~  506 (533)
                      ++|++++|.
T Consensus       127 ~~L~l~~N~  135 (208)
T 2o6s_A          127 KDLRLYQNQ  135 (208)
T ss_dssp             CEEECCSSC
T ss_pred             CEEECCCCc
Confidence            999999885

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=97.90  E-value=1.4e-05  Score=68.87  Aligned_cols=84  Identities=13%  Similarity=0.087  Sum_probs=70.3

Q ss_pred             cccccceEEEeecCCc-ccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCC-CCcCCCCCCC
Q 045152          419 IMPCLSVLRVYLCPKL-KVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKL-LPDSLLQITT  496 (533)
Q Consensus       419 ilp~L~~L~l~~c~~l-~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~-lP~~~~~l~~  496 (533)
                      ..+.++.|.+++|.-- ..+|..+..+++|++|++++|. +..++   .++.+++|++|++++| .+.. +|..+.++++
T Consensus        15 ~~~~l~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~-l~~~~---~~~~l~~L~~L~Ls~n-~i~~~~~~~~~~l~~   89 (149)
T 2je0_A           15 TPSDVKELVLDNSRSNEGKLEGLTDEFEELEFLSTINVG-LTSIA---NLPKLNKLKKLELSDN-RVSGGLEVLAEKCPN   89 (149)
T ss_dssp             CGGGCSEEECTTCBCBTTBCCSCCTTCTTCCEEECTTSC-CCCCT---TCCCCTTCCEEECCSS-CCCSCTHHHHHHCTT
T ss_pred             CCccCeEEEccCCcCChhHHHHHHhhcCCCcEEECcCCC-CCCch---hhhcCCCCCEEECCCC-cccchHHHHhhhCCC
Confidence            3578999999997543 3889888999999999999875 77664   7888999999999996 5666 8877777999


Q ss_pred             cceeeccCCch
Q 045152          497 LKELGMEGSPL  507 (533)
Q Consensus       497 L~~L~~~~c~~  507 (533)
                      |++|++++|..
T Consensus        90 L~~L~ls~N~i  100 (149)
T 2je0_A           90 LTHLNLSGNKI  100 (149)
T ss_dssp             CCEEECTTSCC
T ss_pred             CCEEECCCCcC
Confidence            99999999873

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=97.89  E-value=4.8e-05  Score=67.49  Aligned_cols=77  Identities=21%  Similarity=0.254  Sum_probs=63.1

Q ss_pred             eEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcC-CCCCCCcceeecc
Q 045152          425 VLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDS-LLQITTLKELGME  503 (533)
Q Consensus       425 ~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~-~~~l~~L~~L~~~  503 (533)
                      .+.++. ..+..+|..+.  .+|++|++++.. +..+|. ..++.+++|++|+|++ .+|..+|++ +.++++|++|+++
T Consensus        16 ~l~~~~-n~l~~iP~~~~--~~L~~L~Ls~N~-l~~~~~-~~~~~l~~L~~L~Ls~-N~l~~i~~~~~~~l~~L~~L~L~   89 (174)
T 2r9u_A           16 LVNCQN-IRLASVPAGIP--TDKQRLWLNNNQ-ITKLEP-GVFDHLVNLQQLYFNS-NKLTAIPTGVFDKLTQLTQLDLN   89 (174)
T ss_dssp             EEECCS-SCCSSCCSCCC--TTCSEEECCSSC-CCCCCT-TTTTTCTTCCEEECCS-SCCCCCCTTTTTTCTTCCEEECC
T ss_pred             EEEeCC-CCCCccCCCcC--CCCcEEEeCCCC-ccccCH-HHhcCCcCCCEEECCC-CCCCccChhHhCCcchhhEEECC
Confidence            445444 56788898775  899999999765 888753 5788999999999999 599999987 4889999999999


Q ss_pred             CCch
Q 045152          504 GSPL  507 (533)
Q Consensus       504 ~c~~  507 (533)
                      ++..
T Consensus        90 ~N~l   93 (174)
T 2r9u_A           90 DNHL   93 (174)
T ss_dssp             SSCC
T ss_pred             CCcc
Confidence            8863

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=97.88  E-value=1.2e-05  Score=85.31  Aligned_cols=78  Identities=22%  Similarity=0.200  Sum_probs=70.4

Q ss_pred             ccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcceee
Q 045152          422 CLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKELG  501 (533)
Q Consensus       422 ~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~L~  501 (533)
                      .|+.|.++++ .+..+|. +..+++|+.|+++++. +..+|  ..++.|++|++|+|++ ..|..+| .+.++++|++|+
T Consensus       442 ~L~~L~Ls~n-~l~~lp~-~~~l~~L~~L~Ls~N~-l~~lp--~~~~~l~~L~~L~Ls~-N~l~~lp-~l~~l~~L~~L~  514 (567)
T 1dce_A          442 DVRVLHLAHK-DLTVLCH-LEQLLLVTHLDLSHNR-LRALP--PALAALRCLEVLQASD-NALENVD-GVANLPRLQELL  514 (567)
T ss_dssp             TCSEEECTTS-CCSSCCC-GGGGTTCCEEECCSSC-CCCCC--GGGGGCTTCCEEECCS-SCCCCCG-GGTTCSSCCEEE
T ss_pred             CceEEEecCC-CCCCCcC-ccccccCcEeecCccc-ccccc--hhhhcCCCCCEEECCC-CCCCCCc-ccCCCCCCcEEE
Confidence            5889999884 7788997 8999999999999765 88999  7899999999999999 5899999 899999999999


Q ss_pred             ccCCc
Q 045152          502 MEGSP  506 (533)
Q Consensus       502 ~~~c~  506 (533)
                      +++|.
T Consensus       515 Ls~N~  519 (567)
T 1dce_A          515 LCNNR  519 (567)
T ss_dssp             CCSSC
T ss_pred             CCCCC
Confidence            99885

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C*

Probab=97.88  E-value=1.8e-05  Score=74.03  Aligned_cols=83  Identities=20%  Similarity=0.307  Sum_probs=63.7

Q ss_pred             ccccceEEEeecCCcccCCccccccCccc---eeecccCCCCCCCCCccCCCCCCCcc-eEEeccCCCCCCCCcCCCCCC
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQ---KLRILQCPSMEELPILEDHIFLPRLS-SLRIEYCPKLKLLPDSLLQIT  495 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~---~L~l~~~~~l~~lp~~~~~~~l~~L~-~L~l~~C~~l~~lP~~~~~l~  495 (533)
                      ++.|++|.++++. +..+|. +..+.+|+   +|++++++.+..+|. ..+..+++|+ +|++++ ..+..+|+.....+
T Consensus       104 l~~L~~L~l~~n~-l~~lp~-~~~l~~L~~L~~L~l~~N~~l~~i~~-~~~~~l~~L~~~L~l~~-n~l~~i~~~~~~~~  179 (239)
T 2xwt_C          104 LPLLKFLGIFNTG-LKMFPD-LTKVYSTDIFFILEITDNPYMTSIPV-NAFQGLCNETLTLKLYN-NGFTSVQGYAFNGT  179 (239)
T ss_dssp             CTTCCEEEEEEEC-CCSCCC-CTTCCBCCSEEEEEEESCTTCCEECT-TTTTTTBSSEEEEECCS-CCCCEECTTTTTTC
T ss_pred             CCCCCEEeCCCCC-Cccccc-cccccccccccEEECCCCcchhhcCc-ccccchhcceeEEEcCC-CCCcccCHhhcCCC
Confidence            6678888888754 566776 66777777   888888767888873 3477788888 888888 46778887665568


Q ss_pred             CcceeeccCCc
Q 045152          496 TLKELGMEGSP  506 (533)
Q Consensus       496 ~L~~L~~~~c~  506 (533)
                      +|++|++++|+
T Consensus       180 ~L~~L~L~~n~  190 (239)
T 2xwt_C          180 KLDAVYLNKNK  190 (239)
T ss_dssp             EEEEEECTTCT
T ss_pred             CCCEEEcCCCC
Confidence            88888888886

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=97.87  E-value=3.6e-05  Score=75.06  Aligned_cols=167  Identities=17%  Similarity=0.292  Sum_probs=89.1

Q ss_pred             ceeechhhHHHHHHHHhCCC---ccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHH
Q 045152          183 EVCGRVEEKNELLSKLLCES---SEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKA  259 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~---~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~  259 (533)
                      .++|.+..++.+...+....   .........+.++|++|+|||++|+.+.+.  ....-...+.++++...... ....
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            46888888888887775431   001123468999999999999999999863  22222234555544322111 1111


Q ss_pred             HHHHhCCCCC--CCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCCC-----------CCceEEEEec
Q 045152          260 IIEGLGVSAS--GLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGH-----------HESKILITTR  326 (533)
Q Consensus       260 il~~l~~~~~--~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~-----------~gs~IiiTtR  326 (533)
                      +   ++....  .......+...+.   ....-+++||++..........+...+..+.           ..+.+|.||.
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   221111  0010011222222   1334689999997665444555555443221           1333777776


Q ss_pred             ch---------------HH--------Hhh-----hCC-CCeeeCCCCChHhhHHHHHHhh
Q 045152          327 DR---------------SV--------ALQ-----LGS-IDIIPVKELAEEECWSLLERLA  358 (533)
Q Consensus       327 ~~---------------~v--------~~~-----~~~-~~~~~l~~L~~~~~~~Lf~~~a  358 (533)
                      ..               .+        ...     ... ...+.+.+++.++...++....
T Consensus       169 ~~~~~i~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~R~~~~~~~~p~~~~~~~~i~~~~l  229 (311)
T 4fcw_A          169 LGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLNRLDEIVVFRPLTKEQIRQIVEIQM  229 (311)
T ss_dssp             TTHHHHHTTTTSCCCSSTHHHHTHHHHHHHSCHHHHTTCSEEEECCCCCHHHHHHHHHHHT
T ss_pred             cCHHHHHhhhcccccHHHHHHHHHHHHHHhCCHHHHhcCCeEEEeCCCCHHHHHHHHHHHH
Confidence            51               11        111     111 2467788888888888877643

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=97.87  E-value=5.2e-05  Score=72.38  Aligned_cols=83  Identities=28%  Similarity=0.327  Sum_probs=57.5

Q ss_pred             ccccceEEEeecCCcccCC-ccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcC-CCCCCCc
Q 045152          420 MPCLSVLRVYLCPKLKVLP-DYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDS-LLQITTL  497 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp-~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~-~~~l~~L  497 (533)
                      ++.|++|.++++ .+..+| ..+..+++|++|+++++. +..+|. ..+..+++|++|+|++| .+..+|+. +.++++|
T Consensus       108 l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~~-~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L  183 (270)
T 2o6q_A          108 LVNLAELRLDRN-QLKSLPPRVFDSLTKLTYLSLGYNE-LQSLPK-GVFDKLTSLKELRLYNN-QLKRVPEGAFDKLTEL  183 (270)
T ss_dssp             CSSCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSC-CCCCCT-TTTTTCTTCCEEECCSS-CCSCCCTTTTTTCTTC
T ss_pred             ccCCCEEECCCC-ccCeeCHHHhCcCcCCCEEECCCCc-CCccCH-hHccCCcccceeEecCC-cCcEeChhHhccCCCc
Confidence            456777777763 344444 335677788888887654 677763 23677888888888874 67777754 6778888


Q ss_pred             ceeeccCCc
Q 045152          498 KELGMEGSP  506 (533)
Q Consensus       498 ~~L~~~~c~  506 (533)
                      ++|++++|.
T Consensus       184 ~~L~L~~N~  192 (270)
T 2o6q_A          184 KTLKLDNNQ  192 (270)
T ss_dssp             CEEECCSSC
T ss_pred             CEEECCCCc
Confidence            888888775

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8

Probab=97.86  E-value=9.4e-06  Score=79.51  Aligned_cols=84  Identities=21%  Similarity=0.316  Sum_probs=66.1

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCC-CCCCccCCCCCCCcceEEeccCCCCC-CCCcCCCCCC-C
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSME-ELPILEDHIFLPRLSSLRIEYCPKLK-LLPDSLLQIT-T  496 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~-~lp~~~~~~~l~~L~~L~l~~C~~l~-~lP~~~~~l~-~  496 (533)
                      ++.|++|.++++.--..+|..+..+++|++|+++++. +. .+|  ..++.+++|++|++++| .+. .+|..+.+++ +
T Consensus       100 l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~Ls~N~-l~~~~p--~~~~~l~~L~~L~L~~N-~l~~~~p~~l~~l~~~  175 (313)
T 1ogq_A          100 LTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNA-LSGTLP--PSISSLPNLVGITFDGN-RISGAIPDSYGSFSKL  175 (313)
T ss_dssp             CTTCSEEEEEEECCEEECCGGGGGCTTCCEEECCSSE-EESCCC--GGGGGCTTCCEEECCSS-CCEEECCGGGGCCCTT
T ss_pred             CCCCCEEECcCCeeCCcCCHHHhCCCCCCEEeCCCCc-cCCcCC--hHHhcCCCCCeEECcCC-cccCcCCHHHhhhhhc
Confidence            6678888888866555788888888888888888766 44 577  67888888889988885 454 7888888887 8


Q ss_pred             cceeeccCCch
Q 045152          497 LKELGMEGSPL  507 (533)
Q Consensus       497 L~~L~~~~c~~  507 (533)
                      |++|++++|..
T Consensus       176 L~~L~L~~N~l  186 (313)
T 1ogq_A          176 FTSMTISRNRL  186 (313)
T ss_dssp             CCEEECCSSEE
T ss_pred             CcEEECcCCee
Confidence            88888888763

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697}

Probab=97.86  E-value=1.6e-05  Score=85.83  Aligned_cols=71  Identities=18%  Similarity=0.349  Sum_probs=39.3

Q ss_pred             CcccCCccccccCccceeecccCCCCCC------------------CCCccCCC--CCCCcceEEeccCCCCCCCCcCCC
Q 045152          433 KLKVLPDYLLQTTTLQKLRILQCPSMEE------------------LPILEDHI--FLPRLSSLRIEYCPKLKLLPDSLL  492 (533)
Q Consensus       433 ~l~~lp~~l~~l~~L~~L~l~~~~~l~~------------------lp~~~~~~--~l~~L~~L~l~~C~~l~~lP~~~~  492 (533)
                      .+..+|..+..+++|++|+++++. +..                  +|  +.++  .|++|++|+|++|.-...+|+.+.
T Consensus       194 ~l~~ip~~l~~l~~L~~L~Ls~n~-l~~~~~~~~~~~~~~~~~~~~ip--~~l~~~~l~~L~~L~L~~n~l~~~~p~~l~  270 (636)
T 4eco_A          194 NITFVSKAVMRLTKLRQFYMGNSP-FVAENICEAWENENSEYAQQYKT--EDLKWDNLKDLTDVEVYNCPNLTKLPTFLK  270 (636)
T ss_dssp             EEEEECGGGGGCTTCCEEEEESCC-CCGGGBSSSCSCTTSHHHHHHTT--SCCCGGGCTTCCEEEEECCTTCSSCCTTTT
T ss_pred             CCccCCHHHhcccCCCEEECcCCc-cccccccccccccccchhcccCc--hhhhhcccCCCCEEEecCCcCCccChHHHh
Confidence            333455555555555555555544 444                  55  4555  555555555555555555555555


Q ss_pred             CCCCcceeeccCCc
Q 045152          493 QITTLKELGMEGSP  506 (533)
Q Consensus       493 ~l~~L~~L~~~~c~  506 (533)
                      ++++|++|++++|.
T Consensus       271 ~l~~L~~L~Ls~n~  284 (636)
T 4eco_A          271 ALPEMQLINVACNR  284 (636)
T ss_dssp             TCSSCCEEECTTCT
T ss_pred             cCCCCCEEECcCCC
Confidence            55555555555554

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=97.86  E-value=5.7e-05  Score=72.11  Aligned_cols=84  Identities=24%  Similarity=0.393  Sum_probs=69.8

Q ss_pred             ccccceEEEeecCCcccCCcc-ccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcC-CCCCCCc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDY-LLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDS-LLQITTL  497 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~-l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~-~~~l~~L  497 (533)
                      ++.|++|.++++ .+..+|.. +..+++|++|+++++. +..+|. ..+..+++|++|+|++| .+..+|+. +..+++|
T Consensus       132 l~~L~~L~Ls~n-~l~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~-~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L  207 (270)
T 2o6q_A          132 LTKLTYLSLGYN-ELQSLPKGVFDKLTSLKELRLYNNQ-LKRVPE-GAFDKLTELKTLKLDNN-QLKRVPEGAFDSLEKL  207 (270)
T ss_dssp             CTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSC-CSCCCT-TTTTTCTTCCEEECCSS-CCSCCCTTTTTTCTTC
T ss_pred             CcCCCEEECCCC-cCCccCHhHccCCcccceeEecCCc-CcEeCh-hHhccCCCcCEEECCCC-cCCcCCHHHhccccCC
Confidence            678999999985 56677765 6789999999999775 777873 34778999999999996 88899875 7789999


Q ss_pred             ceeeccCCch
Q 045152          498 KELGMEGSPL  507 (533)
Q Consensus       498 ~~L~~~~c~~  507 (533)
                      ++|+++++|.
T Consensus       208 ~~L~l~~N~~  217 (270)
T 2o6q_A          208 KMLQLQENPW  217 (270)
T ss_dssp             CEEECCSSCB
T ss_pred             CEEEecCCCe
Confidence            9999999884

>4g8a_A TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, immune system; HET: NAG LP4 LP5 DAO MYR KDO; 2.40A {Homo sapiens} PDB: 3fxi_A*

Probab=97.85  E-value=2.1e-05  Score=84.61  Aligned_cols=83  Identities=24%  Similarity=0.322  Sum_probs=54.6

Q ss_pred             ccccceEEEeecCCcccCCc-cccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcC-CCCCCCc
Q 045152          420 MPCLSVLRVYLCPKLKVLPD-YLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDS-LLQITTL  497 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~-~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~-~~~l~~L  497 (533)
                      ++.|++|++++| .+..+|+ .+..+++|++|+|+++. |..+|. ..+..|++|++|++++| +|..+|+. +.++++|
T Consensus        75 l~~L~~L~Ls~N-~i~~i~~~~f~~L~~L~~L~Ls~N~-l~~l~~-~~f~~L~~L~~L~Ls~N-~l~~l~~~~~~~L~~L  150 (635)
T 4g8a_A           75 FPELQVLDLSRC-EIQTIEDGAYQSLSHLSTLILTGNP-IQSLAL-GAFSGLSSLQKLVAVET-NLASLENFPIGHLKTL  150 (635)
T ss_dssp             CTTCCEEECTTC-CCCEECTTTTTTCTTCCEEECTTCC-CCEECG-GGGTTCTTCCEEECTTS-CCCCSTTCCCTTCTTC
T ss_pred             CCCCCEEECCCC-cCCCcChhHhcCCCCCCEEEccCCc-CCCCCH-HHhcCCCCCCEEECCCC-cCCCCChhhhhcCccc
Confidence            556777777764 4555654 35667777777777654 666663 23566777777777774 66777653 6777777


Q ss_pred             ceeeccCCc
Q 045152          498 KELGMEGSP  506 (533)
Q Consensus       498 ~~L~~~~c~  506 (533)
                      ++|++++|.
T Consensus       151 ~~L~Ls~N~  159 (635)
T 4g8a_A          151 KELNVAHNL  159 (635)
T ss_dssp             CEEECCSSC
T ss_pred             CeeccccCc
Confidence            777777664

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=97.85  E-value=0.00016  Score=72.96  Aligned_cols=186  Identities=15%  Similarity=0.060  Sum_probs=96.5

Q ss_pred             CceeechhhHHHHHHHHhCCCc------cCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESS------EQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIR  255 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~------~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~  255 (533)
                      .+++|.+..++.+.+.+.....      ........+.|+|++|+|||+||+.+.+.  ...   ..+.++.+.-...  
T Consensus       115 ~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~--~~~---~~~~v~~~~l~~~--  187 (389)
T 3vfd_A          115 DDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAE--SNA---TFFNISAASLTSK--  187 (389)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHH--TTC---EEEEECSCCC-----
T ss_pred             HHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHh--hcC---cEEEeeHHHhhcc--
Confidence            4689999999999887732110      00123467899999999999999999763  211   1233332221110  


Q ss_pred             HHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCc-------c----ccchhhhccc---C-CCCCce
Q 045152          256 VAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDY-------K----KWNPFFSCLK---N-GHHESK  320 (533)
Q Consensus       256 l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~-------~----~~~~l~~~l~---~-~~~gs~  320 (533)
                              ..     ......+...+...-..++.+|+||+++....       .    ....+...+.   . ......
T Consensus       188 --------~~-----g~~~~~~~~~~~~a~~~~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~  254 (389)
T 3vfd_A          188 --------YV-----GEGEKLVRALFAVARELQPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQSAGDDRVL  254 (389)
T ss_dssp             -----------------CHHHHHHHHHHHHHSSSEEEEEETGGGGC--------CTHHHHHHHHHHHHHHHC-----CEE
T ss_pred             --------cc-----chHHHHHHHHHHHHHhcCCeEEEEECchhhcccCCCccchHHHHHHHHHHHHhhcccccCCCCEE
Confidence                    00     00111112222222234567999999954210       0    0111222221   1 122344


Q ss_pred             EEEEecchHHH-hh-hCC-CCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcc-hhHHH
Q 045152          321 ILITTRDRSVA-LQ-LGS-IDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPL-AAKVI  391 (533)
Q Consensus       321 IiiTtR~~~v~-~~-~~~-~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPL-ai~~~  391 (533)
                      ||.||...... .. ... ...+.+...+.++..+++...+....    ..-.......|++.+.|..- ++..+
T Consensus       255 vI~atn~~~~l~~~l~~R~~~~i~i~~p~~~~r~~il~~~~~~~~----~~l~~~~~~~la~~~~g~~~~~l~~L  325 (389)
T 3vfd_A          255 VMGATNRPQELDEAVLRRFIKRVYVSLPNEETRLLLLKNLLCKQG----SPLTQKELAQLARMTDGYSGSDLTAL  325 (389)
T ss_dssp             EEEEESCGGGCCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSC----CCSCHHHHHHHHHHTTTCCHHHHHHH
T ss_pred             EEEecCCchhcCHHHHcCcceEEEcCCcCHHHHHHHHHHHHHhcC----CCCCHHHHHHHHHHcCCCCHHHHHHH
Confidence            55566543211 11 112 34688899999999999987763211    11123456788888888654 44433

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=97.85  E-value=1e-05  Score=81.82  Aligned_cols=83  Identities=17%  Similarity=0.162  Sum_probs=45.9

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcce
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKE  499 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~  499 (533)
                      +|.|+.|.++++.--...|..+..+++|++|+++++. +..+|  .....+++|++|++++| ++..+|+.+..+++|++
T Consensus       247 l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~-l~~~~--~~~~~l~~L~~L~L~~n-~l~~~~~~~~~l~~L~~  322 (390)
T 3o6n_A          247 YPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNR-LVALN--LYGQPIPTLKVLDLSHN-HLLHVERNQPQFDRLEN  322 (390)
T ss_dssp             CTTCSEEECCSSCCCEEESGGGTTCSSCCEEECCSSC-CCEEE--CSSSCCTTCCEEECCSS-CCCCCGGGHHHHTTCSE
T ss_pred             CCCccEEECCCCcCCCcChhHccccccCCEEECCCCc-CcccC--cccCCCCCCCEEECCCC-cceecCccccccCcCCE
Confidence            4556666666543333335555556666666666543 55555  34455566666666664 55556655555555555


Q ss_pred             eeccCCc
Q 045152          500 LGMEGSP  506 (533)
Q Consensus       500 L~~~~c~  506 (533)
                      |++++|+
T Consensus       323 L~L~~N~  329 (390)
T 3o6n_A          323 LYLDHNS  329 (390)
T ss_dssp             EECCSSC
T ss_pred             EECCCCc
Confidence            5555554

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A*

Probab=97.83  E-value=6.2e-05  Score=72.38  Aligned_cols=84  Identities=23%  Similarity=0.294  Sum_probs=63.3

Q ss_pred             ccccceEEEeecCCcccC-CccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcC-CCCCCCc
Q 045152          420 MPCLSVLRVYLCPKLKVL-PDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDS-LLQITTL  497 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~l-p~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~-~~~l~~L  497 (533)
                      ++.|++|.++++..+..+ |..+..+++|++|+++++. +..++. ..+..+++|++|++++| .+..+|+. +.++++|
T Consensus        79 l~~L~~L~l~~n~~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~-~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L  155 (285)
T 1ozn_A           79 LALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCG-LQELGP-GLFRGLAALQYLYLQDN-ALQALPDDTFRDLGNL  155 (285)
T ss_dssp             CTTCCEEECCSCTTCCCCCTTTTTTCTTCCEEECTTSC-CCCCCT-TTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTC
T ss_pred             ccCCCEEeCCCCCCccccCHHHhcCCcCCCEEECCCCc-CCEECH-hHhhCCcCCCEEECCCC-cccccCHhHhccCCCc
Confidence            567888888887656666 5667778888888888765 555542 45777888888888884 67777754 7788888


Q ss_pred             ceeeccCCc
Q 045152          498 KELGMEGSP  506 (533)
Q Consensus       498 ~~L~~~~c~  506 (533)
                      ++|++++|.
T Consensus       156 ~~L~l~~n~  164 (285)
T 1ozn_A          156 THLFLHGNR  164 (285)
T ss_dssp             CEEECCSSC
T ss_pred             cEEECCCCc
Confidence            888888875

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A*

Probab=97.83  E-value=2.4e-05  Score=77.03  Aligned_cols=84  Identities=19%  Similarity=0.153  Sum_probs=47.1

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcce
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKE  499 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~  499 (533)
                      .+.|+.|.++++.--...|..+..+++|++|+++++. +..++. ..+..+++|++|+|++| .+..+|..+..+++|++
T Consensus       191 ~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~~-~~~~~l~~L~~L~L~~N-~l~~lp~~l~~l~~L~~  267 (330)
T 1xku_A          191 PPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNS-ISAVDN-GSLANTPHLRELHLNNN-KLVKVPGGLADHKYIQV  267 (330)
T ss_dssp             CTTCSEEECTTSCCCEECTGGGTTCTTCCEEECCSSC-CCEECT-TTGGGSTTCCEEECCSS-CCSSCCTTTTTCSSCCE
T ss_pred             cccCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCc-CceeCh-hhccCCCCCCEEECCCC-cCccCChhhccCCCcCE
Confidence            3456666666543222234555556666666666544 444442 24555666666666664 55566666666666666


Q ss_pred             eeccCCc
Q 045152          500 LGMEGSP  506 (533)
Q Consensus       500 L~~~~c~  506 (533)
                      |++++|+
T Consensus       268 L~l~~N~  274 (330)
T 1xku_A          268 VYLHNNN  274 (330)
T ss_dssp             EECCSSC
T ss_pred             EECCCCc
Confidence            6666654

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=97.82  E-value=3.2e-05  Score=75.27  Aligned_cols=46  Identities=17%  Similarity=0.226  Sum_probs=36.5

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..++|++..+.++.+.+....    .....|.|+|.+|+|||++|+.+.+
T Consensus         2 ~~iig~s~~~~~~~~~~~~~a----~~~~~vLi~Ge~GtGKt~lAr~i~~   47 (304)
T 1ojl_A            2 SHMIGSSPAMQHLLNEIAMVA----PSDATVLIHGDSGTGKELVARALHA   47 (304)
T ss_dssp             -CCCCCSHHHHHHHHHHHHHC----STTSCEEEESCTTSCHHHHHHHHHH
T ss_pred             CCcEECCHHHHHHHHHHHHHh----CCCCcEEEECCCCchHHHHHHHHHH
Confidence            358999999999888875433    2234678999999999999999986

>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=97.81  E-value=7.1e-05  Score=77.61  Aligned_cols=183  Identities=12%  Similarity=0.068  Sum_probs=99.5

Q ss_pred             CceeechhhHHHHHHHHhCCCcc-------CCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSE-------QQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEI  254 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~-------~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~  254 (533)
                      .+++|.+..++++.+++......       +......+.|+|++|+|||+||+.+.+.  ....   .+.++.+      
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            35899999999998877432000       0123456899999999999999999863  2211   2333321      


Q ss_pred             HHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCc-----------cccchhhhcccC--CCCCceE
Q 045152          255 RVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDY-----------KKWNPFFSCLKN--GHHESKI  321 (533)
Q Consensus       255 ~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~-----------~~~~~l~~~l~~--~~~gs~I  321 (533)
                      .+    ...+.     ..........+.....+++.+|+||+++....           .....|...+..  ...+.+|
T Consensus       273 ~l----~~~~~-----g~~~~~~~~~f~~A~~~~p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~~~~~~v~v  343 (489)
T 3hu3_A          273 EI----MSKLA-----GESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIV  343 (489)
T ss_dssp             HH----HTSCT-----THHHHHHHHHHHHHHHTCSEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHSCTTSCEEE
T ss_pred             Hh----hhhhc-----chhHHHHHHHHHHHHhcCCcEEEecchhhhccccccccchHHHHHHHHHHHHhhccccCCceEE
Confidence            11    11110     11122233344444456778999999942110           011223333331  2234556


Q ss_pred             EEEecchHH-Hhhh----CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCC-cchhH
Q 045152          322 LITTRDRSV-ALQL----GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGL-PLAAK  389 (533)
Q Consensus       322 iiTtR~~~v-~~~~----~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~Gl-PLai~  389 (533)
                      |.||..... ...+    .....+.+...+.++-.+++...+.. ........    ..+++..+.|. +-.+.
T Consensus       344 IaaTn~~~~Ld~al~r~gRf~~~i~i~~P~~~eR~~IL~~~~~~-~~l~~~~~----l~~la~~t~g~s~~dL~  412 (489)
T 3hu3_A          344 MAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKN-MKLADDVD----LEQVANETHGHVGADLA  412 (489)
T ss_dssp             EEEESCGGGBCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHTTT-SCBCTTCC----HHHHHHTCTTCCHHHHH
T ss_pred             EEecCCccccCHHHhCCCcCceEEEeCCCCHHHHHHHHHHHHhc-CCCcchhh----HHHHHHHccCCcHHHHH
Confidence            667665422 1111    22346889999999999999887631 11111122    25567777775 43343

>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=97.79  E-value=0.00016  Score=79.70  Aligned_cols=156  Identities=17%  Similarity=0.147  Sum_probs=85.5

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhh---h-ccCCceEEEEeCCchhHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEV---K-RNFEKVIWVCVSDTFEEIRVA  257 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~---~-~~F~~~~wv~vs~~~~~~~l~  257 (533)
                      .+++||+.+++.+.+.|...      ....+.|+|++|+|||++|+.+.+...-   . ..+...+|. +.-.    .+ 
T Consensus       186 d~~iGr~~~i~~l~~~l~~~------~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~-~~~~----~l-  253 (758)
T 1r6b_X          186 DPLIGREKELERAIQVLCRR------RKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYS-LDIG----SL-  253 (758)
T ss_dssp             CCCCSCHHHHHHHHHHHTSS------SSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEE-CCCC-------
T ss_pred             CCccCCHHHHHHHHHHHhcc------CCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEE-EcHH----HH-
Confidence            36899999999999998543      3345689999999999999998863110   0 012233331 1100    00 


Q ss_pred             HHHHHHhCCCCCCCccHHHHHHHHHHHh-CCceEEEEEeCCCCCC--------ccc-cchhhhcccCCCCCceEEEEecc
Q 045152          258 KAIIEGLGVSASGLSEFESLMKQIQEYI-TRKKFFLVLDDVWDGD--------YKK-WNPFFSCLKNGHHESKILITTRD  327 (533)
Q Consensus       258 ~~il~~l~~~~~~~~~~~~l~~~l~~~l-~~kr~LlVLDdv~~~~--------~~~-~~~l~~~l~~~~~gs~IiiTtR~  327 (533)
                            +... ......+.....+.+.+ ..++.+|+|||++...        ... ...+...+.  ..+.++|.+|..
T Consensus       254 ------~~~~-~~~g~~e~~l~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~~~~~~~~~~L~~~l~--~~~~~~I~at~~  324 (758)
T 1r6b_X          254 ------LAGT-KYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS--SGKIRVIGSTTY  324 (758)
T ss_dssp             -------CCC-CCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS--SCCCEEEEEECH
T ss_pred             ------hccc-cccchHHHHHHHHHHHHHhcCCeEEEEechHHHhhcCCCCcchHHHHHHHHHHHh--CCCeEEEEEeCc
Confidence                  0001 11122332233333333 3467899999996531        000 111222222  224556666655


Q ss_pred             hHHHhhh-------CCCCeeeCCCCChHhhHHHHHHhh
Q 045152          328 RSVALQL-------GSIDIIPVKELAEEECWSLLERLA  358 (533)
Q Consensus       328 ~~v~~~~-------~~~~~~~l~~L~~~~~~~Lf~~~a  358 (533)
                      .......       .....+.++..+.++..+++....
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            4432111       113368899999999988887644

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697}

Probab=97.79  E-value=1.2e-05  Score=86.93  Aligned_cols=67  Identities=15%  Similarity=0.292  Sum_probs=34.3

Q ss_pred             CCcccc--ccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCC--CCCcCCCCC------CCcceeeccCC
Q 045152          437 LPDYLL--QTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLK--LLPDSLLQI------TTLKELGMEGS  505 (533)
Q Consensus       437 lp~~l~--~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~--~lP~~~~~l------~~L~~L~~~~c  505 (533)
                      +|+.+.  .+++|++|++++|.-...+|  ..++.|++|++|++++|..+.  .+|+.+.++      ++|++|++++|
T Consensus       239 ip~~l~~~~l~~L~~L~L~~n~l~~~~p--~~l~~l~~L~~L~Ls~n~~l~~~~lp~~~~~L~~~~~l~~L~~L~L~~n  315 (636)
T 4eco_A          239 KTEDLKWDNLKDLTDVEVYNCPNLTKLP--TFLKALPEMQLINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYN  315 (636)
T ss_dssp             TTSCCCGGGCTTCCEEEEECCTTCSSCC--TTTTTCSSCCEEECTTCTTSCHHHHHHHHHHHHHSGGGGTCCEEECCSS
T ss_pred             CchhhhhcccCCCCEEEecCCcCCccCh--HHHhcCCCCCEEECcCCCCCccccchHHHHhhhccccCCCCCEEECCCC
Confidence            555555  55555555555555444555  455555555555555544343  244444443      44444444444

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D

Probab=97.78  E-value=8.3e-05  Score=65.63  Aligned_cols=78  Identities=22%  Similarity=0.290  Sum_probs=63.7

Q ss_pred             ceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcC-CCCCCCcceeec
Q 045152          424 SVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDS-LLQITTLKELGM  502 (533)
Q Consensus       424 ~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~-~~~l~~L~~L~~  502 (533)
                      +.+.+++ ..+..+|..+.  .+|++|++++.. +..++. ..+..+++|++|+|++ .+|..+|++ +.++++|++|++
T Consensus        12 ~~l~~s~-n~l~~ip~~~~--~~l~~L~L~~N~-i~~~~~-~~~~~l~~L~~L~Ls~-N~l~~l~~~~f~~l~~L~~L~L   85 (170)
T 3g39_A           12 TTVDCSG-KSLASVPTGIP--TTTQVLYLYDNQ-ITKLEP-GVFDRLTQLTRLDLDN-NQLTVLPAGVFDKLTQLTQLSL   85 (170)
T ss_dssp             TEEECTT-SCCSSCCSCCC--TTCSEEECCSSC-CCCCCT-TTTTTCTTCSEEECCS-SCCCCCCTTTTTTCTTCCEEEC
T ss_pred             CEEEeCC-CCcCccCccCC--CCCcEEEcCCCc-CCccCh-hhhcCcccCCEEECCC-CCcCccChhhccCCCCCCEEEC
Confidence            4556555 56788898764  899999999654 888853 5688999999999999 589999986 489999999999


Q ss_pred             cCCch
Q 045152          503 EGSPL  507 (533)
Q Consensus       503 ~~c~~  507 (533)
                      +++..
T Consensus        86 ~~N~l   90 (170)
T 3g39_A           86 NDNQL   90 (170)
T ss_dssp             CSSCC
T ss_pred             CCCcc
Confidence            98863

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.77  E-value=0.00042  Score=69.25  Aligned_cols=181  Identities=15%  Similarity=0.070  Sum_probs=98.9

Q ss_pred             CceeechhhHHHHHHHHhCCCc-------cCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESS-------EQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEI  254 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~-------~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~  254 (533)
                      .++.|-++.+++|.+.+.-.-.       -+-..++-|.++|++|.|||.||+.+.+.  ....|   +.+..+.-.+  
T Consensus       148 ~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e--~~~~f---~~v~~s~l~s--  220 (405)
T 4b4t_J          148 DMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHH--TDCKF---IRVSGAELVQ--  220 (405)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHH--HTCEE---EEEEGGGGSC--
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHh--hCCCc---eEEEhHHhhc--
Confidence            4578999888888776532100       01234577899999999999999999873  32232   2333222110  


Q ss_pred             HHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCc-----c---c------cchhhhccc--CCCCC
Q 045152          255 RVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDY-----K---K------WNPFFSCLK--NGHHE  318 (533)
Q Consensus       255 ~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~-----~---~------~~~l~~~l~--~~~~g  318 (533)
                                  .. -......+...+...-...+++|++|+++..-.     .   .      ...++..+.  ....+
T Consensus       221 ------------k~-vGese~~vr~lF~~Ar~~aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~  287 (405)
T 4b4t_J          221 ------------KY-IGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFETSKN  287 (405)
T ss_dssp             ------------SS-TTHHHHHHHHHHHHHHHTCSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTTCCCC
T ss_pred             ------------cc-cchHHHHHHHHHHHHHHhCCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccCCCCC
Confidence                        00 001111222222222345789999999964210     0   0      111222222  12334


Q ss_pred             ceEEEEecchHHHh-----hhCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcch
Q 045152          319 SKILITTRDRSVAL-----QLGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLA  387 (533)
Q Consensus       319 s~IiiTtR~~~v~~-----~~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLa  387 (533)
                      ..||.||..++...     .-.....+.++..+.++-.++|+.+.- ........++    ..+++.+.|.--|
T Consensus       288 V~vIaATNrpd~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~-~~~l~~dvdl----~~lA~~t~G~SGA  356 (405)
T 4b4t_J          288 IKIIMATNRLDILDPALLRPGRIDRKIEFPPPSVAARAEILRIHSR-KMNLTRGINL----RKVAEKMNGCSGA  356 (405)
T ss_dssp             EEEEEEESCSSSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHT-TSBCCSSCCH----HHHHHHCCSCCHH
T ss_pred             eEEEeccCChhhCCHhHcCCCcCceEEEcCCcCHHHHHHHHHHHhc-CCCCCccCCH----HHHHHHCCCCCHH
Confidence            45666776543321     112367899999999999999987653 1111122233    6678888886644

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=97.77  E-value=7.1e-05  Score=75.53  Aligned_cols=82  Identities=18%  Similarity=0.309  Sum_probs=59.5

Q ss_pred             ccccceEEEeecCCcccC-CccccccCccceeecccCCCCCCCCCccC-CCCCCCcceEEeccCCCCCCCC-cCCCCCCC
Q 045152          420 MPCLSVLRVYLCPKLKVL-PDYLLQTTTLQKLRILQCPSMEELPILED-HIFLPRLSSLRIEYCPKLKLLP-DSLLQITT  496 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~l-p~~l~~l~~L~~L~l~~~~~l~~lp~~~~-~~~l~~L~~L~l~~C~~l~~lP-~~~~~l~~  496 (533)
                      ++.|++|.++++. +..+ |..+..+++|++|+++++. +..+|  .. ++.+++|++|++++| .+..+| ..+.++++
T Consensus        92 l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~L~~n~-l~~l~--~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~  166 (390)
T 3o6n_A           92 AHTIQKLYMGFNA-IRYLPPHVFQNVPLLTVLVLERND-LSSLP--RGIFHNTPKLTTLSMSNN-NLERIEDDTFQATTS  166 (390)
T ss_dssp             CTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSC-CCCCC--TTTTTTCTTCCEEECCSS-CCCBCCTTTTSSCTT
T ss_pred             CCCcCEEECCCCC-CCcCCHHHhcCCCCCCEEECCCCc-cCcCC--HHHhcCCCCCcEEECCCC-ccCccChhhccCCCC
Confidence            5678888888754 4444 4556778888888888764 77777  34 477888888888885 566654 45778888


Q ss_pred             cceeeccCCc
Q 045152          497 LKELGMEGSP  506 (533)
Q Consensus       497 L~~L~~~~c~  506 (533)
                      |++|++++|.
T Consensus       167 L~~L~l~~n~  176 (390)
T 3o6n_A          167 LQNLQLSSNR  176 (390)
T ss_dssp             CCEEECCSSC
T ss_pred             CCEEECCCCc
Confidence            8888888776

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron}

Probab=97.76  E-value=2.9e-05  Score=86.32  Aligned_cols=53  Identities=17%  Similarity=0.246  Sum_probs=21.8

Q ss_pred             ccceEEEeecCCcccCCcccc--ccCccceeecccCCCCCCCCCccCCCCCCCcceEEe
Q 045152          422 CLSVLRVYLCPKLKVLPDYLL--QTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRI  478 (533)
Q Consensus       422 ~L~~L~l~~c~~l~~lp~~l~--~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l  478 (533)
                      .|+.|.+++| .+..+|..+.  .+++|+.|+|+++. +..+|  ..++.+++|+.|+|
T Consensus       729 ~L~~L~Ls~N-~L~~lp~~l~~~~l~~L~~L~Ls~N~-L~~lp--~~l~~L~~L~~L~L  783 (876)
T 4ecn_A          729 LLTTIDLRFN-KLTSLSDDFRATTLPYLSNMDVSYNC-FSSFP--TQPLNSSQLKAFGI  783 (876)
T ss_dssp             GCCEEECCSS-CCCCCCGGGSTTTCTTCCEEECCSSC-CSSCC--CGGGGCTTCCEEEC
T ss_pred             CccEEECCCC-CCccchHHhhhccCCCcCEEEeCCCC-CCccc--hhhhcCCCCCEEEC
Confidence            3444444443 2334444443  44444444444332 33344  33334444444444

>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=97.76  E-value=2.8e-05  Score=74.11  Aligned_cols=46  Identities=17%  Similarity=0.148  Sum_probs=33.8

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .++|.+..+.++.+.+....    .....+.|+|++|+|||+||+.+++.
T Consensus         7 ~~ig~~~~~~~~~~~~~~~~----~~~~~vll~G~~GtGKt~la~~i~~~   52 (265)
T 2bjv_A            7 NLLGEANSFLEVLEQVSHLA----PLDKPVLIIGERGTGKELIASRLHYL   52 (265)
T ss_dssp             ---CCCHHHHHHHHHHHHHT----TSCSCEEEECCTTSCHHHHHHHHHHT
T ss_pred             cceeCCHHHHHHHHHHHHHh----CCCCCEEEECCCCCcHHHHHHHHHHh
Confidence            57899999888887765432    12346789999999999999999864

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=97.76  E-value=6.6e-05  Score=80.44  Aligned_cols=83  Identities=18%  Similarity=0.275  Sum_probs=62.2

Q ss_pred             ccccceEEEeecCCcccCC-ccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCC-cCCCCCCCc
Q 045152          420 MPCLSVLRVYLCPKLKVLP-DYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLP-DSLLQITTL  497 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp-~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP-~~~~~l~~L  497 (533)
                      ++.|++|.+++|. +..+| ..+..+++|++|+++++. +..+|. ..++.+++|++|+|++| .+..+| ..+.++++|
T Consensus        98 l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~L~~n~-l~~l~~-~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L  173 (597)
T 3oja_B           98 AHTIQKLYMGFNA-IRYLPPHVFQNVPLLTVLVLERND-LSSLPR-GIFHNTPKLTTLSMSNN-NLERIEDDTFQATTSL  173 (597)
T ss_dssp             CTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSC-CCCCCT-TTTTTCTTCCEEECCSS-CCCBCCTTTTTTCTTC
T ss_pred             CCCCCEEECCCCc-CCCCCHHHHcCCCCCCEEEeeCCC-CCCCCH-HHhccCCCCCEEEeeCC-cCCCCChhhhhcCCcC
Confidence            5678888888865 45554 445788888899888764 778873 23578889999999886 566655 468888899


Q ss_pred             ceeeccCCc
Q 045152          498 KELGMEGSP  506 (533)
Q Consensus       498 ~~L~~~~c~  506 (533)
                      ++|++++|.
T Consensus       174 ~~L~L~~N~  182 (597)
T 3oja_B          174 QNLQLSSNR  182 (597)
T ss_dssp             CEEECTTSC
T ss_pred             cEEECcCCC
Confidence            999988876

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7

Probab=97.76  E-value=3.8e-05  Score=76.18  Aligned_cols=84  Identities=27%  Similarity=0.343  Sum_probs=68.2

Q ss_pred             cccceEEEeecCCcccCC-ccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcce
Q 045152          421 PCLSVLRVYLCPKLKVLP-DYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKE  499 (533)
Q Consensus       421 p~L~~L~l~~c~~l~~lp-~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~  499 (533)
                      +.|+.|+++.+..+..+| ..+..+.+|+.|+|++. .|..+|. ..+..|++|++|+|++ .+|..+|+++.....|++
T Consensus        31 ~~L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N-~l~~~~~-~~~~~l~~L~~L~l~~-N~l~~~~~~~~~~~~L~~  107 (347)
T 2ifg_A           31 ENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKS-GLRFVAP-DAFHFTPRLSRLNLSF-NALESLSWKTVQGLSLQE  107 (347)
T ss_dssp             SCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSS-CCCEECT-TGGGSCSCCCEEECCS-SCCSCCCSTTTCSCCCCE
T ss_pred             CCeeEEEccCCCCCCCcChhHhccccCCCEEECCCC-ccceeCH-HHhcCCcCCCEEeCCC-CccceeCHHHcccCCceE
Confidence            468899998667888887 45788999999999976 4888873 4578899999999999 789999987655555999


Q ss_pred             eeccCCch
Q 045152          500 LGMEGSPL  507 (533)
Q Consensus       500 L~~~~c~~  507 (533)
                      |++.+++.
T Consensus       108 l~l~~N~~  115 (347)
T 2ifg_A          108 LVLSGNPL  115 (347)
T ss_dssp             EECCSSCC
T ss_pred             EEeeCCCc
Confidence            99987763

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8

Probab=97.75  E-value=2.7e-05  Score=76.21  Aligned_cols=84  Identities=13%  Similarity=0.147  Sum_probs=63.9

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCC-CCCCccCCCCCC-CcceEEeccCCCCCCCCcCCCCCCCc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSME-ELPILEDHIFLP-RLSSLRIEYCPKLKLLPDSLLQITTL  497 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~-~lp~~~~~~~l~-~L~~L~l~~C~~l~~lP~~~~~l~~L  497 (533)
                      ++.|++|+++++.--..+|..+..+++|++|+++++. +. .+|  ..++.++ +|++|+++++.--..+|..+.+++ |
T Consensus       124 l~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~L~~N~-l~~~~p--~~l~~l~~~L~~L~L~~N~l~~~~~~~~~~l~-L  199 (313)
T 1ogq_A          124 IKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNR-ISGAIP--DSYGSFSKLFTSMTISRNRLTGKIPPTFANLN-L  199 (313)
T ss_dssp             CTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSC-CEEECC--GGGGCCCTTCCEEECCSSEEEEECCGGGGGCC-C
T ss_pred             CCCCCEEeCCCCccCCcCChHHhcCCCCCeEECcCCc-ccCcCC--HHHhhhhhcCcEEECcCCeeeccCChHHhCCc-c
Confidence            5678888888755444778888888888888888766 54 677  6777777 888888888543347888888876 8


Q ss_pred             ceeeccCCch
Q 045152          498 KELGMEGSPL  507 (533)
Q Consensus       498 ~~L~~~~c~~  507 (533)
                      ++|++++|..
T Consensus       200 ~~L~Ls~N~l  209 (313)
T 1ogq_A          200 AFVDLSRNML  209 (313)
T ss_dssp             SEEECCSSEE
T ss_pred             cEEECcCCcc
Confidence            8888888753

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=97.75  E-value=7.3e-05  Score=71.44  Aligned_cols=83  Identities=25%  Similarity=0.346  Sum_probs=69.0

Q ss_pred             ccccceEEEeecCCcccCCcc-ccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcC-CCCCCCc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDY-LLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDS-LLQITTL  497 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~-l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~-~~~l~~L  497 (533)
                      ++.|++|.+++| .+..+|.. +..+++|++|+++++. +..+|. ..++.+++|++|++++| .+..+|+. +.++++|
T Consensus       132 l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~-~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L  207 (272)
T 3rfs_A          132 LTNLTYLNLAHN-QLQSLPKGVFDKLTNLTELDLSYNQ-LQSLPE-GVFDKLTQLKDLRLYQN-QLKSVPDGVFDRLTSL  207 (272)
T ss_dssp             CTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSC-CCCCCT-TTTTTCTTCCEEECCSS-CCSCCCTTTTTTCTTC
T ss_pred             CCCCCEEECCCC-ccCccCHHHhccCccCCEEECCCCC-cCccCH-HHhcCCccCCEEECCCC-cCCccCHHHHhCCcCC
Confidence            678999999986 56677655 5789999999999875 788873 34688999999999996 68888765 6889999


Q ss_pred             ceeeccCCc
Q 045152          498 KELGMEGSP  506 (533)
Q Consensus       498 ~~L~~~~c~  506 (533)
                      ++|++++|+
T Consensus       208 ~~L~l~~N~  216 (272)
T 3rfs_A          208 QYIWLHDNP  216 (272)
T ss_dssp             CEEECCSSC
T ss_pred             CEEEccCCC
Confidence            999999876

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A

Probab=97.73  E-value=6.8e-05  Score=72.45  Aligned_cols=84  Identities=26%  Similarity=0.264  Sum_probs=70.8

Q ss_pred             ccccceEEEeecCCcccCCcc-ccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDY-LLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLK  498 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~-l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~  498 (533)
                      ++.|++|.++++ .+..+|.. +..+++|+.|+++++. +..+|. ..+..+++|++|+|++ ..|+.+|+++..+.+|+
T Consensus       123 l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~L~~N~-l~~l~~-~~~~~l~~L~~L~L~~-N~l~~ip~~~~~~~~L~  198 (290)
T 1p9a_G          123 LGELQELYLKGN-ELKTLPPGLLTPTPKLEKLSLANNN-LTELPA-GLLNGLENLDTLLLQE-NSLYTIPKGFFGSHLLP  198 (290)
T ss_dssp             CTTCCEEECTTS-CCCCCCTTTTTTCTTCCEEECTTSC-CSCCCT-TTTTTCTTCCEEECCS-SCCCCCCTTTTTTCCCS
T ss_pred             CCCCCEEECCCC-CCCccChhhcccccCCCEEECCCCc-CCccCH-HHhcCcCCCCEEECCC-CcCCccChhhcccccCC
Confidence            678999999984 56677765 4678999999999765 888984 3457799999999999 58999999999999999


Q ss_pred             eeeccCCch
Q 045152          499 ELGMEGSPL  507 (533)
Q Consensus       499 ~L~~~~c~~  507 (533)
                      +|+++++|.
T Consensus       199 ~l~L~~Np~  207 (290)
T 1p9a_G          199 FAFLHGNPW  207 (290)
T ss_dssp             EEECCSCCB
T ss_pred             eEEeCCCCc
Confidence            999997763

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A*

Probab=97.72  E-value=5.6e-05  Score=72.30  Aligned_cols=84  Identities=20%  Similarity=0.212  Sum_probs=63.6

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCC--CCcCCCCCCCc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKL--LPDSLLQITTL  497 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~--lP~~~~~l~~L  497 (533)
                      ++.|++|.++++.--...|..+..+++|++|+++++. +..++. ..++.+++|++|+++++ .+..  +|..+.++++|
T Consensus        75 l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~-~~~~~l~~L~~L~l~~n-~l~~~~l~~~~~~l~~L  151 (276)
T 2z62_A           75 LSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETN-LASLEN-FPIGHLKTLKELNVAHN-LIQSFKLPEYFSNLTNL  151 (276)
T ss_dssp             CTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTSC-CCCSTT-CCCTTCTTCCEEECCSS-CCCCCCCCGGGGGCTTC
T ss_pred             CcCCCEEECCCCccCccChhhhcCCccccEEECCCCC-ccccCc-hhcccCCCCCEEECcCC-ccceecCchhhccCCCC
Confidence            5678888888754333334667788889999988765 666663 35788899999999884 5665  78888889999


Q ss_pred             ceeeccCCc
Q 045152          498 KELGMEGSP  506 (533)
Q Consensus       498 ~~L~~~~c~  506 (533)
                      ++|++++|.
T Consensus       152 ~~L~Ls~N~  160 (276)
T 2z62_A          152 EHLDLSSNK  160 (276)
T ss_dssp             CEEECCSSC
T ss_pred             CEEECCCCC
Confidence            999998885

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A*

Probab=97.71  E-value=5.6e-05  Score=81.04  Aligned_cols=83  Identities=19%  Similarity=0.182  Sum_probs=68.9

Q ss_pred             ccccceEEEeecCCcccC-CccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCC--CCCcCCCCCCC
Q 045152          420 MPCLSVLRVYLCPKLKVL-PDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLK--LLPDSLLQITT  496 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~l-p~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~--~lP~~~~~l~~  496 (533)
                      ++.|++|+++++. +..+ |..+..+++|++|+++++. +..+|. ..++.+++|++|++++| .+.  .+|..+.++++
T Consensus        79 l~~L~~L~Ls~n~-l~~~~p~~~~~l~~L~~L~L~~n~-l~~~~~-~~~~~l~~L~~L~L~~n-~l~~~~lp~~~~~l~~  154 (606)
T 3vq2_A           79 LHHLSNLILTGNP-IQSFSPGSFSGLTSLENLVAVETK-LASLES-FPIGQLITLKKLNVAHN-FIHSCKLPAYFSNLTN  154 (606)
T ss_dssp             CTTCCEEECTTCC-CCCCCTTSSTTCTTCCEEECTTSC-CCCSSS-SCCTTCTTCCEEECCSS-CCCCCCCCGGGGTCTT
T ss_pred             hhhcCEeECCCCc-ccccChhhcCCcccCCEEEccCCc-cccccc-cccCCCCCCCEEeCCCC-cccceechHhHhhcCC
Confidence            6789999998865 4554 7888899999999999876 677664 46889999999999996 555  58999999999


Q ss_pred             cceeeccCCc
Q 045152          497 LKELGMEGSP  506 (533)
Q Consensus       497 L~~L~~~~c~  506 (533)
                      |++|++++|.
T Consensus       155 L~~L~Ls~n~  164 (606)
T 3vq2_A          155 LVHVDLSYNY  164 (606)
T ss_dssp             CCEEECCSSC
T ss_pred             CCEEEccCCc
Confidence            9999999885

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1

Probab=97.71  E-value=4.5e-05  Score=74.40  Aligned_cols=79  Identities=15%  Similarity=0.242  Sum_probs=45.8

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcce
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKE  499 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~  499 (533)
                      ++.|++|.++++. +..+| .+..+++|++|+++++. +..+|   .+..+++|++|++++| .+..+|+ +.++++|++
T Consensus        84 l~~L~~L~L~~n~-l~~~~-~~~~l~~L~~L~l~~n~-l~~~~---~l~~l~~L~~L~l~~n-~l~~~~~-l~~l~~L~~  155 (308)
T 1h6u_A           84 LTKITELELSGNP-LKNVS-AIAGLQSIKTLDLTSTQ-ITDVT---PLAGLSNLQVLYLDLN-QITNISP-LAGLTNLQY  155 (308)
T ss_dssp             CCSCCEEECCSCC-CSCCG-GGTTCTTCCEEECTTSC-CCCCG---GGTTCTTCCEEECCSS-CCCCCGG-GGGCTTCCE
T ss_pred             CCCCCEEEccCCc-CCCch-hhcCCCCCCEEECCCCC-CCCch---hhcCCCCCCEEECCCC-ccCcCcc-ccCCCCccE
Confidence            4455555555533 34443 34555666666666544 45554   3556666677776664 5666664 666677777


Q ss_pred             eeccCCc
Q 045152          500 LGMEGSP  506 (533)
Q Consensus       500 L~~~~c~  506 (533)
                      |++++|.
T Consensus       156 L~l~~n~  162 (308)
T 1h6u_A          156 LSIGNAQ  162 (308)
T ss_dssp             EECCSSC
T ss_pred             EEccCCc
Confidence            7776664

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus}

Probab=97.70  E-value=4.1e-05  Score=75.45  Aligned_cols=83  Identities=19%  Similarity=0.234  Sum_probs=37.6

Q ss_pred             cccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCccee
Q 045152          421 PCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKEL  500 (533)
Q Consensus       421 p~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~L  500 (533)
                      +.|+.|.++++.--...|..+..+++|++|+++++. +..++. ..++.+++|++|++++| ++..+|..+.++++|++|
T Consensus       193 ~~L~~L~l~~n~i~~~~~~~l~~l~~L~~L~L~~N~-l~~~~~-~~~~~l~~L~~L~L~~N-~l~~lp~~l~~l~~L~~L  269 (332)
T 2ft3_A          193 ETLNELHLDHNKIQAIELEDLLRYSKLYRLGLGHNQ-IRMIEN-GSLSFLPTLRELHLDNN-KLSRVPAGLPDLKLLQVV  269 (332)
T ss_dssp             SSCSCCBCCSSCCCCCCTTSSTTCTTCSCCBCCSSC-CCCCCT-TGGGGCTTCCEEECCSS-CCCBCCTTGGGCTTCCEE
T ss_pred             CCCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCc-CCcCCh-hHhhCCCCCCEEECCCC-cCeecChhhhcCccCCEE
Confidence            345555554432212222344445555555555433 343331 23444555555555553 444555555555555555


Q ss_pred             eccCCc
Q 045152          501 GMEGSP  506 (533)
Q Consensus       501 ~~~~c~  506 (533)
                      ++++|+
T Consensus       270 ~l~~N~  275 (332)
T 2ft3_A          270 YLHTNN  275 (332)
T ss_dssp             ECCSSC
T ss_pred             ECCCCC
Confidence            555443

>4g8a_A TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, immune system; HET: NAG LP4 LP5 DAO MYR KDO; 2.40A {Homo sapiens} PDB: 3fxi_A*

Probab=97.70  E-value=4e-05  Score=82.32  Aligned_cols=83  Identities=20%  Similarity=0.209  Sum_probs=68.5

Q ss_pred             ccccceEEEeecCCcccCCcc-ccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCC--CCcCCCCCCC
Q 045152          420 MPCLSVLRVYLCPKLKVLPDY-LLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKL--LPDSLLQITT  496 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~-l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~--lP~~~~~l~~  496 (533)
                      ++.|++|.++++ .+..+|.. +..+++|++|+++++. +..+|. ..++.|++|++|+++++ .+..  +|..+.++++
T Consensus        99 L~~L~~L~Ls~N-~l~~l~~~~f~~L~~L~~L~Ls~N~-l~~l~~-~~~~~L~~L~~L~Ls~N-~l~~~~~~~~~~~l~~  174 (635)
T 4g8a_A           99 LSHLSTLILTGN-PIQSLALGAFSGLSSLQKLVAVETN-LASLEN-FPIGHLKTLKELNVAHN-LIQSFKLPEYFSNLTN  174 (635)
T ss_dssp             CTTCCEEECTTC-CCCEECGGGGTTCTTCCEEECTTSC-CCCSTT-CCCTTCTTCCEEECCSS-CCCCCCCCGGGGGCTT
T ss_pred             CCCCCEEEccCC-cCCCCCHHHhcCCCCCCEEECCCCc-CCCCCh-hhhhcCcccCeeccccC-ccccCCCchhhccchh
Confidence            678999999985 57888854 6789999999999875 888884 35888999999999985 5654  5778889999


Q ss_pred             cceeeccCCc
Q 045152          497 LKELGMEGSP  506 (533)
Q Consensus       497 L~~L~~~~c~  506 (533)
                      |++|++++|.
T Consensus       175 L~~L~L~~N~  184 (635)
T 4g8a_A          175 LEHLDLSSNK  184 (635)
T ss_dssp             CCEEECCSSC
T ss_pred             hhhhcccCcc
Confidence            9999999885

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.69  E-value=0.00015  Score=80.02  Aligned_cols=149  Identities=18%  Similarity=0.115  Sum_probs=79.4

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchh---hhccCCceEEEEeCCchhHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDE---VKRNFEKVIWVCVSDTFEEIRVAK  258 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~---~~~~F~~~~wv~vs~~~~~~~l~~  258 (533)
                      .+++||+.+++.+...|....      ..-+.++|++|+|||++|+.+.+.-.   +.......-++.++-         
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            369999999999999996532      33478999999999999998876310   000001111221111         


Q ss_pred             HHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecchHHHhh-----
Q 045152          259 AIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRSVALQ-----  333 (533)
Q Consensus       259 ~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~~v~~~-----  333 (533)
                        .....+.  -...   +...+......++.+|++|.-    .+....+...+..  ...++|.||........     
T Consensus       245 --g~~~~G~--~e~~---l~~~~~~~~~~~~~iLfiD~~----~~~~~~L~~~l~~--~~v~~I~at~~~~~~~~~~~d~  311 (758)
T 3pxi_A          245 --GTKYRGE--FEDR---LKKVMDEIRQAGNIILFIDAA----IDASNILKPSLAR--GELQCIGATTLDEYRKYIEKDA  311 (758)
T ss_dssp             ------------CTT---HHHHHHHHHTCCCCEEEECC------------CCCTTS--SSCEEEEECCTTTTHHHHTTCS
T ss_pred             --cccccch--HHHH---HHHHHHHHHhcCCEEEEEcCc----hhHHHHHHHHHhc--CCEEEEeCCChHHHHHHhhccH
Confidence              0000000  0111   222333333467789999921    1222233333332  23556666654432111     


Q ss_pred             --hCCCCeeeCCCCChHhhHHHHHHhh
Q 045152          334 --LGSIDIIPVKELAEEECWSLLERLA  358 (533)
Q Consensus       334 --~~~~~~~~l~~L~~~~~~~Lf~~~a  358 (533)
                        ......+.++..+.++..+++....
T Consensus       312 al~rRf~~i~v~~p~~~~~~~il~~~~  338 (758)
T 3pxi_A          312 ALERRFQPIQVDQPSVDESIQILQGLR  338 (758)
T ss_dssp             HHHHSEEEEECCCCCHHHHHHHHHHTT
T ss_pred             HHHhhCcEEEeCCCCHHHHHHHHHHHH
Confidence              1123568999999999999998654

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.69  E-value=0.00039  Score=70.51  Aligned_cols=180  Identities=15%  Similarity=0.117  Sum_probs=98.7

Q ss_pred             CceeechhhHHHHHHHHhCCCc-------cCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESS-------EQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEI  254 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~-------~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~  254 (533)
                      .++.|-++.+++|.+.+.-.-.       -+-..++-|.++|++|.|||+||+.+.+.  ....|   +.+..+.-.+  
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e--~~~~~---~~v~~s~l~s--  253 (437)
T 4b4t_L          181 DGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAAT--IGANF---IFSPASGIVD--  253 (437)
T ss_dssp             GGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHH--HTCEE---EEEEGGGTCC--
T ss_pred             hHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHH--hCCCE---EEEehhhhcc--
Confidence            4678998888887776532100       01235678999999999999999999974  22222   2333222110  


Q ss_pred             HHHHHHHHHhCCCCCCCccHHHHHHHHH-HHhCCceEEEEEeCCCCCC------ccc--------cchhhhccc--CCCC
Q 045152          255 RVAKAIIEGLGVSASGLSEFESLMKQIQ-EYITRKKFFLVLDDVWDGD------YKK--------WNPFFSCLK--NGHH  317 (533)
Q Consensus       255 ~l~~~il~~l~~~~~~~~~~~~l~~~l~-~~l~~kr~LlVLDdv~~~~------~~~--------~~~l~~~l~--~~~~  317 (533)
                                    ............+. ..-...+++|++|+++..-      ...        ...++..+.  ....
T Consensus       254 --------------k~~Gese~~ir~~F~~A~~~~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~  319 (437)
T 4b4t_L          254 --------------KYIGESARIIREMFAYAKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFDNLG  319 (437)
T ss_dssp             --------------SSSSHHHHHHHHHHHHHHHSCSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSSCTT
T ss_pred             --------------ccchHHHHHHHHHHHHHHhcCCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhcccCCC
Confidence                          00111122222222 2234578999999996421      000        111222222  2233


Q ss_pred             CceEEEEecchHHHhh-h-C---CCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcch
Q 045152          318 ESKILITTRDRSVALQ-L-G---SIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLA  387 (533)
Q Consensus       318 gs~IiiTtR~~~v~~~-~-~---~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLa  387 (533)
                      +..||.||..++.... + .   ....+.++..+.++-.++|+.+.-. .......++    ..+++.+.|+--|
T Consensus       320 ~vivI~ATNrp~~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~-~~~~~d~dl----~~lA~~t~G~sGA  389 (437)
T 4b4t_L          320 QTKIIMATNRPDTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAK-VKKTGEFDF----EAAVKMSDGFNGA  389 (437)
T ss_dssp             SSEEEEEESSTTSSCTTTTSTTSEEEEECCCCCCHHHHHHHHHHHHHT-SCBCSCCCH----HHHHHTCCSCCHH
T ss_pred             CeEEEEecCCchhhCHHHhCCCccceeeecCCcCHHHHHHHHHHHhcC-CCCCcccCH----HHHHHhCCCCCHH
Confidence            4567777776543321 1 1   2457888888888888888866531 111112223    5677888886543

>3zyi_A Leucine-rich repeat-containing protein 4; cell adhesion, LRRC4 complex, synapse; HET: NAG; 2.60A {Homo sapiens} PDB: 3zyo_A* 3zyn_A* 2dl9_A

Probab=97.68  E-value=5.7e-05  Score=77.92  Aligned_cols=83  Identities=22%  Similarity=0.311  Sum_probs=61.8

Q ss_pred             ccccceEEEeecCCcccCCc-cccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcc
Q 045152          420 MPCLSVLRVYLCPKLKVLPD-YLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLK  498 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~-~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~  498 (533)
                      ++.|++|.++++ .+..+|. .+..+++|++|++++|..+..+|. ..+..+++|++|+|++| ++..+| .+.++++|+
T Consensus       146 l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~-~~~~~l~~L~~L~L~~n-~l~~~~-~~~~l~~L~  221 (452)
T 3zyi_A          146 LSKLRELWLRNN-PIESIPSYAFNRVPSLMRLDLGELKKLEYISE-GAFEGLFNLKYLNLGMC-NIKDMP-NLTPLVGLE  221 (452)
T ss_dssp             CTTCCEEECCSC-CCCEECTTTTTTCTTCCEEECCCCTTCCEECT-TTTTTCTTCCEEECTTS-CCSSCC-CCTTCTTCC
T ss_pred             cCCCCEEECCCC-CcceeCHhHHhcCCcccEEeCCCCCCccccCh-hhccCCCCCCEEECCCC-cccccc-ccccccccc
Confidence            567777777774 3455554 456778888888888777777774 35777888888888884 778887 477888888


Q ss_pred             eeeccCCc
Q 045152          499 ELGMEGSP  506 (533)
Q Consensus       499 ~L~~~~c~  506 (533)
                      +|++++|.
T Consensus       222 ~L~Ls~N~  229 (452)
T 3zyi_A          222 ELEMSGNH  229 (452)
T ss_dssp             EEECTTSC
T ss_pred             EEECcCCc
Confidence            88888875

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7

Probab=97.67  E-value=4.6e-05  Score=75.60  Aligned_cols=79  Identities=23%  Similarity=0.220  Sum_probs=65.7

Q ss_pred             EEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCc-CCCCCCCcceeeccC
Q 045152          426 LRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPD-SLLQITTLKELGMEG  504 (533)
Q Consensus       426 L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~-~~~~l~~L~~L~~~~  504 (533)
                      +..+....+..+|. +..+++|+.|+|+++..|..+|. ..++.|++|++|+|++ .+|..+|+ .+.+|++|++|++++
T Consensus        13 v~~~~~n~l~~ip~-l~~~~~L~~L~l~~~n~l~~~~~-~~~~~l~~L~~L~l~~-N~l~~~~~~~~~~l~~L~~L~l~~   89 (347)
T 2ifg_A           13 LRCTRDGALDSLHH-LPGAENLTELYIENQQHLQHLEL-RDLRGLGELRNLTIVK-SGLRFVAPDAFHFTPRLSRLNLSF   89 (347)
T ss_dssp             EECCSSCCCTTTTT-SCSCSCCSEEECCSCSSCCEECG-GGSCSCCCCSEEECCS-SCCCEECTTGGGSCSCCCEEECCS
T ss_pred             EEcCCCCCCCccCC-CCCCCCeeEEEccCCCCCCCcCh-hHhccccCCCEEECCC-CccceeCHHHhcCCcCCCEEeCCC
Confidence            34343226888999 99999999999998778999884 4688999999999999 58999886 579999999999998


Q ss_pred             Cch
Q 045152          505 SPL  507 (533)
Q Consensus       505 c~~  507 (533)
                      +..
T Consensus        90 N~l   92 (347)
T 2ifg_A           90 NAL   92 (347)
T ss_dssp             SCC
T ss_pred             Ccc
Confidence            863

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B}

Probab=97.67  E-value=5.1e-05  Score=75.13  Aligned_cols=80  Identities=21%  Similarity=0.196  Sum_probs=43.3

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcce
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKE  499 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~  499 (533)
                      ++.|++|.+++| .+..+| .+..+++|++|+++++. +..+|   .+..+++|++|++++|..+..+|. +.++++|++
T Consensus        87 l~~L~~L~L~~n-~i~~~~-~~~~l~~L~~L~l~~n~-i~~~~---~~~~l~~L~~L~l~~n~~~~~~~~-~~~l~~L~~  159 (347)
T 4fmz_A           87 LVKLTNLYIGTN-KITDIS-ALQNLTNLRELYLNEDN-ISDIS---PLANLTKMYSLNLGANHNLSDLSP-LSNMTGLNY  159 (347)
T ss_dssp             CTTCCEEECCSS-CCCCCG-GGTTCTTCSEEECTTSC-CCCCG---GGTTCTTCCEEECTTCTTCCCCGG-GTTCTTCCE
T ss_pred             CCcCCEEEccCC-cccCch-HHcCCCcCCEEECcCCc-ccCch---hhccCCceeEEECCCCCCcccccc-hhhCCCCcE
Confidence            344555555543 333333 34455555555555443 44444   255566666666666665555553 566666666


Q ss_pred             eeccCCc
Q 045152          500 LGMEGSP  506 (533)
Q Consensus       500 L~~~~c~  506 (533)
                      |++++|.
T Consensus       160 L~l~~~~  166 (347)
T 4fmz_A          160 LTVTESK  166 (347)
T ss_dssp             EECCSSC
T ss_pred             EEecCCC
Confidence            6666654

>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=97.67  E-value=0.00028  Score=68.47  Aligned_cols=51  Identities=20%  Similarity=0.260  Sum_probs=37.0

Q ss_pred             CceeechhhHHHHHHHHhCCCc--------cCCCCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          182 GEVCGRVEEKNELLSKLLCESS--------EQQKGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~--------~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ..++|.+..++.+...+.....        ........+.++|++|+|||++|+.+.+.
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            4589999999988877753100        00123456889999999999999999863

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.67  E-value=0.00026  Score=71.63  Aligned_cols=180  Identities=16%  Similarity=0.097  Sum_probs=92.1

Q ss_pred             CceeechhhHHHHHHHHhCCCc-------cCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESS-------EQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEI  254 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~-------~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~  254 (533)
                      .++.|-++.+++|.+.+...-.       -+-..++-|.++|++|.|||+||+.+.+.  ...+|   +.+..+.-.+  
T Consensus       172 ~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~--~~~~~---~~v~~~~l~~--  244 (428)
T 4b4t_K          172 ADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANS--TKAAF---IRVNGSEFVH--  244 (428)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHH--HTCEE---EEEEGGGTCC--
T ss_pred             HHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHH--hCCCe---EEEecchhhc--
Confidence            4688999988888776532110       01234677999999999999999999974  32222   2333222110  


Q ss_pred             HHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCC------Cccc--------cchhhhccc--CCCCC
Q 045152          255 RVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDG------DYKK--------WNPFFSCLK--NGHHE  318 (533)
Q Consensus       255 ~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~------~~~~--------~~~l~~~l~--~~~~g  318 (533)
                                  . .-......+...+...-...++++++|+++..      ....        ...++..+.  ....+
T Consensus       245 ------------~-~~Ge~e~~ir~lF~~A~~~aP~IifiDEiD~i~~~R~~~~~~~~~~~~r~l~~lL~~ldg~~~~~~  311 (428)
T 4b4t_K          245 ------------K-YLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFDQSTN  311 (428)
T ss_dssp             ------------S-SCSHHHHHHHHHHHHHHHTCSEEEEEECTHHHHCSCSSSCSCCCCHHHHHHHHHHHHHHHSCSSCS
T ss_pred             ------------c-ccchhHHHHHHHHHHHHHcCCCeeechhhhhhhccccCCCCCCChHHHHHHHHHHHHhhCCCCCCC
Confidence                        0 00111122222222233456899999999421      0000        112222222  22345


Q ss_pred             ceEEEEecchHHHh-h-h---CCCCeeeCCCCCh-HhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcc
Q 045152          319 SKILITTRDRSVAL-Q-L---GSIDIIPVKELAE-EECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPL  386 (533)
Q Consensus       319 s~IiiTtR~~~v~~-~-~---~~~~~~~l~~L~~-~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPL  386 (533)
                      ..||.||..++... . .   .....+.++.++. ++-..+|..+.- ........++    ..+++.+.|.--
T Consensus       312 v~vI~aTN~~~~LD~AllRpGRfd~~I~~p~lPd~~~R~~Il~~~~~-~~~l~~~~dl----~~lA~~t~G~sg  380 (428)
T 4b4t_K          312 VKVIMATNRADTLDPALLRPGRLDRKIEFPSLRDRRERRLIFGTIAS-KMSLAPEADL----DSLIIRNDSLSG  380 (428)
T ss_dssp             EEEEEEESCSSSCCHHHHSSSSEEEEEECCSSCCHHHHHHHHHHHHH-SSCBCTTCCH----HHHHHHTTTCCH
T ss_pred             EEEEEecCChhhcChhhhcCCcceEEEEcCCCCCHHHHHHHHHHHhc-CCCCCcccCH----HHHHHHCCCCCH
Confidence            56677776543221 1 1   1245677876654 445556655442 2111122223    567778887653

>3zyi_A Leucine-rich repeat-containing protein 4; cell adhesion, LRRC4 complex, synapse; HET: NAG; 2.60A {Homo sapiens} PDB: 3zyo_A* 3zyn_A* 2dl9_A

Probab=97.67  E-value=7.6e-05  Score=76.97  Aligned_cols=84  Identities=14%  Similarity=0.254  Sum_probs=54.7

Q ss_pred             ccccceEEEeecCCcccC-CccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCc-CCCCCCCc
Q 045152          420 MPCLSVLRVYLCPKLKVL-PDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPD-SLLQITTL  497 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~l-p~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~-~~~~l~~L  497 (533)
                      ++.|++|.++++. +..+ |..+..+++|++|+++++. +..+|. ..+..+++|++|+|+++ .+..+|+ .+.++++|
T Consensus        98 l~~L~~L~Ls~n~-i~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~-~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L  173 (452)
T 3zyi_A           98 LHHLEVLQLGRNS-IRQIEVGAFNGLASLNTLELFDNW-LTVIPS-GAFEYLSKLRELWLRNN-PIESIPSYAFNRVPSL  173 (452)
T ss_dssp             CTTCCEEECCSSC-CCEECTTTTTTCTTCCEEECCSSC-CSBCCT-TTSSSCTTCCEEECCSC-CCCEECTTTTTTCTTC
T ss_pred             CCCCCEEECCCCc-cCCcChhhccCcccCCEEECCCCc-CCccCh-hhhcccCCCCEEECCCC-CcceeCHhHHhcCCcc
Confidence            4567777777643 3333 3556667777777777654 666663 33666777777777774 5666664 56677777


Q ss_pred             ceeeccCCch
Q 045152          498 KELGMEGSPL  507 (533)
Q Consensus       498 ~~L~~~~c~~  507 (533)
                      ++|++++|..
T Consensus       174 ~~L~l~~~~~  183 (452)
T 3zyi_A          174 MRLDLGELKK  183 (452)
T ss_dssp             CEEECCCCTT
T ss_pred             cEEeCCCCCC
Confidence            7777777643

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=97.66  E-value=3.3e-05  Score=66.62  Aligned_cols=87  Identities=15%  Similarity=0.106  Sum_probs=49.5

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRK  288 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~k  288 (533)
                      ...+.|+|+.|+|||||++.++..... ..+ ..+++....-...                             .. ..+
T Consensus        36 g~~~~l~G~~G~GKTtL~~~i~~~~~~-~g~-~~~~~~~~~~~~~-----------------------------~~-~~~   83 (149)
T 2kjq_A           36 GQFIYVWGEEGAGKSHLLQAWVAQALE-AGK-NAAYIDAASMPLT-----------------------------DA-AFE   83 (149)
T ss_dssp             CSEEEEESSSTTTTCHHHHHHHHHHHT-TTC-CEEEEETTTSCCC-----------------------------GG-GGG
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHh-cCC-cEEEEcHHHhhHH-----------------------------HH-HhC
Confidence            457899999999999999999874221 111 2556654332110                             11 124


Q ss_pred             eEEEEEeCCCCCCccccchhhhcccC-CCCCc-eEEEEecc
Q 045152          289 KFFLVLDDVWDGDYKKWNPFFSCLKN-GHHES-KILITTRD  327 (533)
Q Consensus       289 r~LlVLDdv~~~~~~~~~~l~~~l~~-~~~gs-~IiiTtR~  327 (533)
                      .-++||||+.......-+.+...+.. ...|. +||+||+.
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            56889999965432222223333321 12234 38888874

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A*

Probab=97.66  E-value=4.4e-05  Score=84.38  Aligned_cols=84  Identities=18%  Similarity=0.107  Sum_probs=54.9

Q ss_pred             cccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCccee
Q 045152          421 PCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKEL  500 (533)
Q Consensus       421 p~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~L  500 (533)
                      +.|++|.+++|.--..+|..+..+++|++|++++|.-...+|  ..++.+++|++|+|++|.-...+|..+.++++|++|
T Consensus       466 ~~L~~L~L~~N~l~~~~p~~l~~l~~L~~L~L~~N~l~~~~p--~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~L~~L  543 (768)
T 3rgz_A          466 KTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIP--KWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWL  543 (768)
T ss_dssp             TTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCCSCCC--GGGGGCTTCCEEECCSSCCEEECCGGGGGCTTCCEE
T ss_pred             CCceEEEecCCcccCcCCHHHhcCCCCCEEEccCCccCCcCC--hHHhcCCCCCEEECCCCcccCcCCHHHcCCCCCCEE
Confidence            455566665554444566666666677777776666333566  566677777777777765555677777777777777


Q ss_pred             eccCCc
Q 045152          501 GMEGSP  506 (533)
Q Consensus       501 ~~~~c~  506 (533)
                      ++++|+
T Consensus       544 ~Ls~N~  549 (768)
T 3rgz_A          544 DLNTNL  549 (768)
T ss_dssp             ECCSSE
T ss_pred             ECCCCc
Confidence            777765

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=97.64  E-value=3.1e-05  Score=75.88  Aligned_cols=83  Identities=12%  Similarity=0.118  Sum_probs=62.0

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcce
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKE  499 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~  499 (533)
                      ++.|++|.+++|. +..+|.. ..+++|++|+++++. +..+|  +.+..+++|++|++++| .+..+|+.+..+++|++
T Consensus       168 l~~L~~L~L~~N~-l~~~~~~-~~l~~L~~L~Ls~N~-l~~l~--~~~~~l~~L~~L~L~~N-~l~~l~~~~~~l~~L~~  241 (317)
T 3o53_A          168 SDTLEHLNLQYNF-IYDVKGQ-VVFAKLKTLDLSSNK-LAFMG--PEFQSAAGVTWISLRNN-KLVLIEKALRFSQNLEH  241 (317)
T ss_dssp             TTTCCEEECTTSC-CCEEECC-CCCTTCCEEECCSSC-CCEEC--GGGGGGTTCSEEECTTS-CCCEECTTCCCCTTCCE
T ss_pred             cCcCCEEECCCCc-Ccccccc-cccccCCEEECCCCc-CCcch--hhhcccCcccEEECcCC-cccchhhHhhcCCCCCE
Confidence            5678888887743 4555433 347888888888765 77777  56777888888888885 78888888888888888


Q ss_pred             eeccCCchh
Q 045152          500 LGMEGSPLL  508 (533)
Q Consensus       500 L~~~~c~~l  508 (533)
                      |++++|+..
T Consensus       242 L~l~~N~~~  250 (317)
T 3o53_A          242 FDLRGNGFH  250 (317)
T ss_dssp             EECTTCCCB
T ss_pred             EEccCCCcc
Confidence            888887753

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens}

Probab=97.64  E-value=5e-05  Score=75.58  Aligned_cols=85  Identities=21%  Similarity=0.247  Sum_probs=63.4

Q ss_pred             ccccceEEEeecCCcccCCcc-ccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCC-cCCCCCCCc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDY-LLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLP-DSLLQITTL  497 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~-l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP-~~~~~l~~L  497 (533)
                      ++.|++|+++++ .+..+|.. +..+++|++|+++++. +..+|....+..+++|++|++++|..+..+| ..+.++++|
T Consensus        99 l~~L~~L~Ls~n-~l~~~~~~~~~~l~~L~~L~L~~n~-l~~l~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L  176 (353)
T 2z80_A           99 LGSLEHLDLSYN-YLSNLSSSWFKPLSSLTFLNLLGNP-YKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFL  176 (353)
T ss_dssp             CTTCCEEECCSS-CCSSCCHHHHTTCTTCSEEECTTCC-CSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEE
T ss_pred             CCCCCEEECCCC-cCCcCCHhHhCCCccCCEEECCCCC-CcccCchhhhccCCCCcEEECCCCccccccCHHHccCCCCC
Confidence            567888888774 55667765 6678888888888764 7777732257778888888888877777765 567888888


Q ss_pred             ceeeccCCc
Q 045152          498 KELGMEGSP  506 (533)
Q Consensus       498 ~~L~~~~c~  506 (533)
                      ++|++++|.
T Consensus       177 ~~L~l~~n~  185 (353)
T 2z80_A          177 EELEIDASD  185 (353)
T ss_dssp             EEEEEEETT
T ss_pred             CEEECCCCC
Confidence            888888775

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens}

Probab=97.64  E-value=6.4e-05  Score=78.98  Aligned_cols=82  Identities=18%  Similarity=0.275  Sum_probs=63.3

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcC-CCCCCCcc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDS-LLQITTLK  498 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~-~~~l~~L~  498 (533)
                      ++.|+.|.+++|.--...|..+.  ++|++|+++++. +..+|  ..+..+++|++|++++| ++..+|.. +.++++|+
T Consensus       398 l~~L~~L~Ls~N~l~~~~~~~l~--~~L~~L~Ls~N~-l~~ip--~~~~~l~~L~~L~L~~N-~l~~l~~~~~~~l~~L~  471 (520)
T 2z7x_B          398 TKSLLSLNMSSNILTDTIFRCLP--PRIKVLDLHSNK-IKSIP--KQVVKLEALQELNVASN-QLKSVPDGIFDRLTSLQ  471 (520)
T ss_dssp             CTTCCEEECCSSCCCGGGGGSCC--TTCCEEECCSSC-CCCCC--GGGGGCTTCCEEECCSS-CCCCCCTTTTTTCTTCC
T ss_pred             CccCCEEECcCCCCCcchhhhhc--ccCCEEECCCCc-ccccc--hhhhcCCCCCEEECCCC-cCCccCHHHhccCCccc
Confidence            45677777776554444554443  688888888764 77888  66778999999999996 78899987 88899999


Q ss_pred             eeeccCCch
Q 045152          499 ELGMEGSPL  507 (533)
Q Consensus       499 ~L~~~~c~~  507 (533)
                      +|++++||.
T Consensus       472 ~L~l~~N~~  480 (520)
T 2z7x_B          472 KIWLHTNPW  480 (520)
T ss_dssp             EEECCSSCB
T ss_pred             EEECcCCCC
Confidence            999998873

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=97.64  E-value=9.8e-05  Score=79.09  Aligned_cols=80  Identities=21%  Similarity=0.245  Sum_probs=48.1

Q ss_pred             ccccceEEEeecCCcccCCccc-cccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYL-LQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLK  498 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l-~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~  498 (533)
                      ++.|++|.+++| .+..+|..+ ..+++|++|+++++. +..+|. ..++.+++|++|++++| .+..+|  +..+++|+
T Consensus       122 l~~L~~L~L~~n-~l~~l~~~~~~~l~~L~~L~Ls~N~-l~~~~~-~~~~~l~~L~~L~L~~N-~l~~~~--~~~l~~L~  195 (597)
T 3oja_B          122 VPLLTVLVLERN-DLSSLPRGIFHNTPKLTTLSMSNNN-LERIED-DTFQATTSLQNLQLSSN-RLTHVD--LSLIPSLF  195 (597)
T ss_dssp             CTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSC-CCBCCT-TTTTTCTTCCEEECTTS-CCSBCC--GGGCTTCS
T ss_pred             CCCCCEEEeeCC-CCCCCCHHHhccCCCCCEEEeeCCc-CCCCCh-hhhhcCCcCcEEECcCC-CCCCcC--hhhhhhhh
Confidence            456777777664 455666553 566777777777654 555442 34666777777777764 555555  34455666


Q ss_pred             eeeccCC
Q 045152          499 ELGMEGS  505 (533)
Q Consensus       499 ~L~~~~c  505 (533)
                      +|++++|
T Consensus       196 ~L~l~~n  202 (597)
T 3oja_B          196 HANVSYN  202 (597)
T ss_dssp             EEECCSS
T ss_pred             hhhcccC
Confidence            6555554

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=97.63  E-value=5.4e-05  Score=73.98  Aligned_cols=84  Identities=25%  Similarity=0.311  Sum_probs=40.2

Q ss_pred             ccccceEEEeecCCcccCCcccccc-----CccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCC--CCcCC-
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQT-----TTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKL--LPDSL-  491 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l-----~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~--lP~~~-  491 (533)
                      ++.|++|+++++ .+..+|..+..+     ++|++|+++++. +..+|. ..++.+++|++|++++|.-...  +|+.+ 
T Consensus       120 l~~L~~L~Ls~N-~l~~~~~~~~~l~~~~~~~L~~L~L~~N~-l~~~~~-~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~  196 (312)
T 1wwl_A          120 GPDLNILNLRNV-SWATRDAWLAELQQWLKPGLKVLSIAQAH-SLNFSC-EQVRVFPALSTLDLSDNPELGERGLISALC  196 (312)
T ss_dssp             SCCCSEEEEESC-BCSSSSSHHHHHHTTCCTTCCEEEEESCS-CCCCCT-TTCCCCSSCCEEECCSCTTCHHHHHHHHSC
T ss_pred             CCCccEEEccCC-CCcchhHHHHHHHHhhcCCCcEEEeeCCC-CccchH-HHhccCCCCCEEECCCCCcCcchHHHHHHH
Confidence            344555555542 233334444443     555555555443 444332 3455556666666655432222  23333 


Q ss_pred             -CCCCCcceeeccCCc
Q 045152          492 -LQITTLKELGMEGSP  506 (533)
Q Consensus       492 -~~l~~L~~L~~~~c~  506 (533)
                       .++++|++|++++|.
T Consensus       197 ~~~l~~L~~L~L~~N~  212 (312)
T 1wwl_A          197 PLKFPTLQVLALRNAG  212 (312)
T ss_dssp             TTSCTTCCEEECTTSC
T ss_pred             hccCCCCCEEECCCCc
Confidence             455566666665554

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A*

Probab=97.62  E-value=9.7e-05  Score=70.62  Aligned_cols=84  Identities=23%  Similarity=0.324  Sum_probs=64.3

Q ss_pred             ccccceEEEeecCCcccCC-ccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCc-CCCCCCCc
Q 045152          420 MPCLSVLRVYLCPKLKVLP-DYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPD-SLLQITTL  497 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp-~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~-~~~~l~~L  497 (533)
                      ++.|++|.++++ .+..++ ..+..+++|++|+++++. +..++. ..+..+++|++|++++| ++..+|+ .+.++++|
T Consensus        51 l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~-~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L  126 (276)
T 2z62_A           51 FPELQVLDLSRC-EIQTIEDGAYQSLSHLSTLILTGNP-IQSLAL-GAFSGLSSLQKLVAVET-NLASLENFPIGHLKTL  126 (276)
T ss_dssp             CTTCSEEECTTC-CCCEECTTTTTTCTTCCEEECTTCC-CCEECT-TTTTTCTTCCEEECTTS-CCCCSTTCCCTTCTTC
T ss_pred             ccCCcEEECCCC-cCCccCHHHccCCcCCCEEECCCCc-cCccCh-hhhcCCccccEEECCCC-CccccCchhcccCCCC
Confidence            677888888886 445554 457778899999998765 666653 46788899999999885 6777765 68889999


Q ss_pred             ceeeccCCch
Q 045152          498 KELGMEGSPL  507 (533)
Q Consensus       498 ~~L~~~~c~~  507 (533)
                      ++|++++|..
T Consensus       127 ~~L~l~~n~l  136 (276)
T 2z62_A          127 KELNVAHNLI  136 (276)
T ss_dssp             CEEECCSSCC
T ss_pred             CEEECcCCcc
Confidence            9999988763

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens}

Probab=97.61  E-value=6.8e-05  Score=74.57  Aligned_cols=82  Identities=17%  Similarity=0.135  Sum_probs=58.1

Q ss_pred             ccccceEEEeecCCcccC-CccccccCccceeecccCCCCCCCCCccC-CCCCCCcceEEeccCCCCCCCCc--CCCCCC
Q 045152          420 MPCLSVLRVYLCPKLKVL-PDYLLQTTTLQKLRILQCPSMEELPILED-HIFLPRLSSLRIEYCPKLKLLPD--SLLQIT  495 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~l-p~~l~~l~~L~~L~l~~~~~l~~lp~~~~-~~~l~~L~~L~l~~C~~l~~lP~--~~~~l~  495 (533)
                      ++.|++|.++++ .+..+ |..+..+++|++|+++++. +..+|  .. ++.+++|++|+++++ .+..+|.  .+.+++
T Consensus        75 l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~--~~~~~~l~~L~~L~L~~n-~l~~l~~~~~~~~l~  149 (353)
T 2z80_A           75 CVNLQALVLTSN-GINTIEEDSFSSLGSLEHLDLSYNY-LSNLS--SSWFKPLSSLTFLNLLGN-PYKTLGETSLFSHLT  149 (353)
T ss_dssp             CTTCCEEECTTS-CCCEECTTTTTTCTTCCEEECCSSC-CSSCC--HHHHTTCTTCSEEECTTC-CCSSSCSSCSCTTCT
T ss_pred             CCCCCEEECCCC-ccCccCHhhcCCCCCCCEEECCCCc-CCcCC--HhHhCCCccCCEEECCCC-CCcccCchhhhccCC
Confidence            567777777765 34444 4556777788888887654 66676  33 677888888888874 6777876  677788


Q ss_pred             CcceeeccCCc
Q 045152          496 TLKELGMEGSP  506 (533)
Q Consensus       496 ~L~~L~~~~c~  506 (533)
                      +|++|++++|.
T Consensus       150 ~L~~L~l~~n~  160 (353)
T 2z80_A          150 KLQILRVGNMD  160 (353)
T ss_dssp             TCCEEEEEESS
T ss_pred             CCcEEECCCCc
Confidence            88888888774

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A*

Probab=97.61  E-value=5.1e-05  Score=81.35  Aligned_cols=84  Identities=15%  Similarity=0.142  Sum_probs=60.4

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCC-CCccCCCCCCCcceEEeccCCCCCCCCcCCCCCC-Cc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEEL-PILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQIT-TL  497 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~l-p~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~-~L  497 (533)
                      ++.|+.|++++|.--...|..+..+++|++|+++++. +..+ |  ..++.+++|++|+|++| ++..+|+.+..++ +|
T Consensus       472 l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~-l~~~~~--~~~~~l~~L~~L~l~~N-~l~~~p~~~~~l~~~L  547 (606)
T 3vq2_A          472 TTNLTFLDLSKCQLEQISWGVFDTLHRLQLLNMSHNN-LLFLDS--SHYNQLYSLSTLDCSFN-RIETSKGILQHFPKSL  547 (606)
T ss_dssp             CTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSC-CSCEEG--GGTTTCTTCCEEECTTS-CCCCEESCGGGSCTTC
T ss_pred             CCCCCEEECCCCcCCccChhhhcccccCCEEECCCCc-CCCcCH--HHccCCCcCCEEECCCC-cCcccCHhHhhhcccC
Confidence            4567777777765444456667777788888887765 5554 4  56777888888888885 5778888777776 58


Q ss_pred             ceeeccCCch
Q 045152          498 KELGMEGSPL  507 (533)
Q Consensus       498 ~~L~~~~c~~  507 (533)
                      ++|++++||.
T Consensus       548 ~~l~l~~N~~  557 (606)
T 3vq2_A          548 AFFNLTNNSV  557 (606)
T ss_dssp             CEEECCSCCC
T ss_pred             cEEEccCCCc
Confidence            8888887764

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=97.60  E-value=9.1e-05  Score=73.98  Aligned_cols=83  Identities=16%  Similarity=0.210  Sum_probs=49.2

Q ss_pred             ccccceEEEeecCCcccCCc-cccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCC----CCC
Q 045152          420 MPCLSVLRVYLCPKLKVLPD-YLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSL----LQI  494 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~-~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~----~~l  494 (533)
                      ++.|++|+++++ .+..+|. .+..+.+|++|+|+++. +..++. ..+..+++|++|+|++ .+|..+|..+    .++
T Consensus        87 l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~L~~N~-i~~~~~-~~~~~l~~L~~L~L~~-N~l~~l~~~~~~~~~~l  162 (361)
T 2xot_A           87 VPNLRYLDLSSN-HLHTLDEFLFSDLQALEVLLLYNNH-IVVVDR-NAFEDMAQLQKLYLSQ-NQISRFPVELIKDGNKL  162 (361)
T ss_dssp             CTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSSC-CCEECT-TTTTTCTTCCEEECCS-SCCCSCCGGGTC----C
T ss_pred             CCCCCEEECCCC-cCCcCCHHHhCCCcCCCEEECCCCc-ccEECH-HHhCCcccCCEEECCC-CcCCeeCHHHhcCcccC
Confidence            456667776663 3455543 35566677777776544 555432 4566677777777766 4666676554    456


Q ss_pred             CCcceeeccCCc
Q 045152          495 TTLKELGMEGSP  506 (533)
Q Consensus       495 ~~L~~L~~~~c~  506 (533)
                      ++|++|+++++.
T Consensus       163 ~~L~~L~L~~N~  174 (361)
T 2xot_A          163 PKLMLLDLSSNK  174 (361)
T ss_dssp             TTCCEEECCSSC
T ss_pred             CcCCEEECCCCC
Confidence            677777666653

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1

Probab=97.60  E-value=7.7e-05  Score=72.76  Aligned_cols=81  Identities=16%  Similarity=0.173  Sum_probs=67.4

Q ss_pred             cccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcc
Q 045152          419 IMPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLK  498 (533)
Q Consensus       419 ilp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~  498 (533)
                      -++.|+.|.+++|. +..+|. +..+++|++|+++++. +..+|   .++.+++|++|++++| .+..+|+ +.++++|+
T Consensus       105 ~l~~L~~L~l~~n~-l~~~~~-l~~l~~L~~L~l~~n~-l~~~~---~l~~l~~L~~L~l~~n-~l~~~~~-l~~l~~L~  176 (308)
T 1h6u_A          105 GLQSIKTLDLTSTQ-ITDVTP-LAGLSNLQVLYLDLNQ-ITNIS---PLAGLTNLQYLSIGNA-QVSDLTP-LANLSKLT  176 (308)
T ss_dssp             TCTTCCEEECTTSC-CCCCGG-GTTCTTCCEEECCSSC-CCCCG---GGGGCTTCCEEECCSS-CCCCCGG-GTTCTTCC
T ss_pred             CCCCCCEEECCCCC-CCCchh-hcCCCCCCEEECCCCc-cCcCc---cccCCCCccEEEccCC-cCCCChh-hcCCCCCC
Confidence            36789999999854 566664 7889999999999875 77777   4788999999999996 7888887 88999999


Q ss_pred             eeeccCCch
Q 045152          499 ELGMEGSPL  507 (533)
Q Consensus       499 ~L~~~~c~~  507 (533)
                      +|++++|..
T Consensus       177 ~L~l~~n~l  185 (308)
T 1h6u_A          177 TLKADDNKI  185 (308)
T ss_dssp             EEECCSSCC
T ss_pred             EEECCCCcc
Confidence            999998863

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.60  E-value=0.0011  Score=67.19  Aligned_cols=178  Identities=16%  Similarity=0.067  Sum_probs=96.8

Q ss_pred             ceeechhhHHHHHHHHhC----CC---ccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHH
Q 045152          183 EVCGRVEEKNELLSKLLC----ES---SEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIR  255 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~----~~---~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~  255 (533)
                      ++.|-++.+++|.+.+.-    .+   .-+-..++-|.++|++|.|||+||+.+.+.  ....|   +.+..+.-.    
T Consensus       210 DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e--~~~~f---i~vs~s~L~----  280 (467)
T 4b4t_H          210 DVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANR--TDATF---IRVIGSELV----  280 (467)
T ss_dssp             SCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHH--HTCEE---EEEEGGGGC----
T ss_pred             HhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhc--cCCCe---EEEEhHHhh----
Confidence            578888888888775421    00   001245678899999999999999999873  32222   233322111    


Q ss_pred             HHHHHHHHhCCCCCCCccHHH-HHHHHHHHhCCceEEEEEeCCCCCCc------cc--------cchhhhcccC--CCCC
Q 045152          256 VAKAIIEGLGVSASGLSEFES-LMKQIQEYITRKKFFLVLDDVWDGDY------KK--------WNPFFSCLKN--GHHE  318 (533)
Q Consensus       256 l~~~il~~l~~~~~~~~~~~~-l~~~l~~~l~~kr~LlVLDdv~~~~~------~~--------~~~l~~~l~~--~~~g  318 (533)
                                ..  .....+. +...+...-...+++|++|+++..-.      ..        ...++..+..  ...+
T Consensus       281 ----------sk--~vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~  348 (467)
T 4b4t_H          281 ----------QK--YVGEGARMVRELFEMARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDPRGN  348 (467)
T ss_dssp             ----------CC--SSSHHHHHHHHHHHHHHHTCSEEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSSCCTTT
T ss_pred             ----------cc--cCCHHHHHHHHHHHHHHhcCCceEeecccccccccccCcCCCccHHHHHHHHHHHHHhhccCCCCc
Confidence                      00  0111122 22222223345789999999964210      00        0111222211  2234


Q ss_pred             ceEEEEecchHHHh-----hhCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcc
Q 045152          319 SKILITTRDRSVAL-----QLGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPL  386 (533)
Q Consensus       319 s~IiiTtR~~~v~~-----~~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPL  386 (533)
                      ..||.||..+....     .-.....+.++..+.++-.++|+.+.- .......-++    ..|++.|.|.--
T Consensus       349 ViVIaATNrpd~LDpALlRpGRFD~~I~i~lPd~~~R~~Ilk~~l~-~~~l~~dvdl----~~LA~~T~GfSG  416 (467)
T 4b4t_H          349 IKVMFATNRPNTLDPALLRPGRIDRKVEFSLPDLEGRANIFRIHSK-SMSVERGIRW----ELISRLCPNSTG  416 (467)
T ss_dssp             EEEEEECSCTTSBCHHHHSTTTCCEEECCCCCCHHHHHHHHHHHHT-TSCBCSSCCH----HHHHHHCCSCCH
T ss_pred             EEEEeCCCCcccCChhhhccccccEEEEeCCcCHHHHHHHHHHHhc-CCCCCCCCCH----HHHHHHCCCCCH
Confidence            45566776543321     112366789999999999999987653 1111112223    567788888653

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens}

Probab=97.60  E-value=9.2e-05  Score=76.07  Aligned_cols=83  Identities=19%  Similarity=0.329  Sum_probs=64.5

Q ss_pred             ccccceEEEeecCCcccCCc-cccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcc
Q 045152          420 MPCLSVLRVYLCPKLKVLPD-YLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLK  498 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~-~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~  498 (533)
                      ++.|++|.++++ .+..+|. .+..+++|++|+++++..+..+|. ..+..+++|++|+|++| ++..+| .+.++++|+
T Consensus       135 l~~L~~L~L~~N-~i~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~-~~~~~l~~L~~L~L~~n-~l~~~~-~~~~l~~L~  210 (440)
T 3zyj_A          135 LSKLKELWLRNN-PIESIPSYAFNRIPSLRRLDLGELKRLSYISE-GAFEGLSNLRYLNLAMC-NLREIP-NLTPLIKLD  210 (440)
T ss_dssp             CSSCCEEECCSC-CCCEECTTTTTTCTTCCEEECCCCTTCCEECT-TTTTTCSSCCEEECTTS-CCSSCC-CCTTCSSCC
T ss_pred             cccCceeeCCCC-cccccCHHHhhhCcccCEeCCCCCCCcceeCc-chhhcccccCeecCCCC-cCcccc-ccCCCcccC
Confidence            567888888774 3555554 466788888888888888888774 35778899999999885 788888 488889999


Q ss_pred             eeeccCCc
Q 045152          499 ELGMEGSP  506 (533)
Q Consensus       499 ~L~~~~c~  506 (533)
                      +|++++|.
T Consensus       211 ~L~Ls~N~  218 (440)
T 3zyj_A          211 ELDLSGNH  218 (440)
T ss_dssp             EEECTTSC
T ss_pred             EEECCCCc
Confidence            99998885

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A*

Probab=97.60  E-value=9.5e-05  Score=76.14  Aligned_cols=85  Identities=19%  Similarity=0.238  Sum_probs=63.6

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcC-CCCCCCcc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDS-LLQITTLK  498 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~-~~~l~~L~  498 (533)
                      ++.|++|++++|.--...|..+..+++|++|+++++. +..++. ..++.+++|++|+|++ .+++.+|+. +..+++|+
T Consensus       322 l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~-l~~~~~-~~~~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L~  398 (455)
T 3v47_A          322 LTHLLKLNLSQNFLGSIDSRMFENLDKLEVLDLSYNH-IRALGD-QSFLGLPNLKELALDT-NQLKSVPDGIFDRLTSLQ  398 (455)
T ss_dssp             CTTCCEEECCSSCCCEECGGGGTTCTTCCEEECCSSC-CCEECT-TTTTTCTTCCEEECCS-SCCSCCCTTTTTTCTTCC
T ss_pred             cccCCEEECCCCccCCcChhHhcCcccCCEEECCCCc-ccccCh-hhccccccccEEECCC-CccccCCHhHhccCCccc
Confidence            5678888888764433335667778888888888775 666532 5788899999999988 478888864 47889999


Q ss_pred             eeeccCCch
Q 045152          499 ELGMEGSPL  507 (533)
Q Consensus       499 ~L~~~~c~~  507 (533)
                      +|++++||.
T Consensus       399 ~L~l~~N~l  407 (455)
T 3v47_A          399 KIWLHTNPW  407 (455)
T ss_dssp             EEECCSSCB
T ss_pred             EEEccCCCc
Confidence            999987763

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B}

Probab=97.59  E-value=8.9e-05  Score=73.39  Aligned_cols=81  Identities=16%  Similarity=0.159  Sum_probs=65.3

Q ss_pred             cccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcc
Q 045152          419 IMPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLK  498 (533)
Q Consensus       419 ilp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~  498 (533)
                      -++.|++|.+++| .+..+|. +..+++|++|++++|..+..++   .+..+++|++|++++| .+..+|. +.++++|+
T Consensus       108 ~l~~L~~L~l~~n-~i~~~~~-~~~l~~L~~L~l~~n~~~~~~~---~~~~l~~L~~L~l~~~-~~~~~~~-~~~l~~L~  180 (347)
T 4fmz_A          108 NLTNLRELYLNED-NISDISP-LANLTKMYSLNLGANHNLSDLS---PLSNMTGLNYLTVTES-KVKDVTP-IANLTDLY  180 (347)
T ss_dssp             TCTTCSEEECTTS-CCCCCGG-GTTCTTCCEEECTTCTTCCCCG---GGTTCTTCCEEECCSS-CCCCCGG-GGGCTTCS
T ss_pred             CCCcCCEEECcCC-cccCchh-hccCCceeEEECCCCCCccccc---chhhCCCCcEEEecCC-CcCCchh-hccCCCCC
Confidence            3678999998874 4566665 7788999999999888777766   5788899999999986 5777775 88899999


Q ss_pred             eeeccCCc
Q 045152          499 ELGMEGSP  506 (533)
Q Consensus       499 ~L~~~~c~  506 (533)
                      +|++++|.
T Consensus       181 ~L~l~~n~  188 (347)
T 4fmz_A          181 SLSLNYNQ  188 (347)
T ss_dssp             EEECTTSC
T ss_pred             EEEccCCc
Confidence            99998886

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri}

Probab=97.58  E-value=0.00012  Score=71.10  Aligned_cols=86  Identities=16%  Similarity=0.156  Sum_probs=66.0

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCC-CCcc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQI-TTLK  498 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l-~~L~  498 (533)
                      ++.|++|.++++.--...|..+..+++|++|+++++. +..+|. ..+..+++|++|++++|.--...|..+..+ ++|+
T Consensus       174 l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~-~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~~L~  251 (306)
T 2z66_A          174 LRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNN-FFSLDT-FPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLA  251 (306)
T ss_dssp             CTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSC-CSBCCS-GGGTTCTTCCEEECTTSCCCBCSSSSCCCCCTTCC
T ss_pred             CcCCCEEECCCCCcCCcCHHHhcCCCCCCEEECCCCc-cCccCh-hhccCcccCCEeECCCCCCcccCHHHHHhhhccCC
Confidence            6789999998865444446778888999999999766 777763 357788999999999974444456678887 4899


Q ss_pred             eeeccCCch
Q 045152          499 ELGMEGSPL  507 (533)
Q Consensus       499 ~L~~~~c~~  507 (533)
                      +|++++++.
T Consensus       252 ~L~L~~N~~  260 (306)
T 2z66_A          252 FLNLTQNDF  260 (306)
T ss_dssp             EEECTTCCE
T ss_pred             EEEccCCCe
Confidence            999998873

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A*

Probab=97.58  E-value=9.6e-05  Score=76.10  Aligned_cols=83  Identities=18%  Similarity=0.173  Sum_probs=41.4

Q ss_pred             ccccceEEEeecCCcccC-CccccccCccceeecccCCCCCCC-CCccCCCCCCCcceEEeccCCCCCC-CCcC--CCCC
Q 045152          420 MPCLSVLRVYLCPKLKVL-PDYLLQTTTLQKLRILQCPSMEEL-PILEDHIFLPRLSSLRIEYCPKLKL-LPDS--LLQI  494 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~l-p~~l~~l~~L~~L~l~~~~~l~~l-p~~~~~~~l~~L~~L~l~~C~~l~~-lP~~--~~~l  494 (533)
                      ++.|++|.++++.....+ |..+..+++|++|+++++. +..+ |  ..++.+++|++|++++| .+.. +|..  +.++
T Consensus        53 l~~L~~L~L~~n~~~~~i~~~~~~~l~~L~~L~Ls~n~-l~~~~~--~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~~~l  128 (455)
T 3v47_A           53 LQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDYNQ-FLQLET--GAFNGLANLEVLTLTQC-NLDGAVLSGNFFKPL  128 (455)
T ss_dssp             CTTCCEEECCCCSTTCEECTTTTTTCTTCCEEECTTCT-TCEECT--TTTTTCTTCCEEECTTS-CCBTHHHHSSTTTTC
T ss_pred             CccccEEECcCCcccceECcccccccccCCEEeCCCCc-cCccCh--hhccCcccCCEEeCCCC-CCCccccCcccccCc
Confidence            345555555554333233 2334555555555555544 3333 3  34555566666666654 3332 3333  5556


Q ss_pred             CCcceeeccCCc
Q 045152          495 TTLKELGMEGSP  506 (533)
Q Consensus       495 ~~L~~L~~~~c~  506 (533)
                      ++|++|++++|.
T Consensus       129 ~~L~~L~L~~n~  140 (455)
T 3v47_A          129 TSLEMLVLRDNN  140 (455)
T ss_dssp             TTCCEEECCSSB
T ss_pred             ccCCEEECCCCc
Confidence            666666665554

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens}

Probab=97.57  E-value=5.9e-05  Score=79.25  Aligned_cols=82  Identities=13%  Similarity=0.135  Sum_probs=63.1

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCC--CCcCCCCCCCc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKL--LPDSLLQITTL  497 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~--lP~~~~~l~~L  497 (533)
                      ++.|++|+++++.--...|..+..+++|++|+++++. +..+|  ..  .+++|++|++++| .+..  +|..+.++++|
T Consensus        44 l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~-l~~lp--~~--~l~~L~~L~L~~N-~l~~~~~p~~~~~l~~L  117 (520)
T 2z7x_B           44 LSKLRILIISHNRIQYLDISVFKFNQELEYLDLSHNK-LVKIS--CH--PTVNLKHLDLSFN-AFDALPICKEFGNMSQL  117 (520)
T ss_dssp             CTTCCEEECCSSCCCEEEGGGGTTCTTCCEEECCSSC-CCEEE--CC--CCCCCSEEECCSS-CCSSCCCCGGGGGCTTC
T ss_pred             cccccEEecCCCccCCcChHHhhcccCCCEEecCCCc-eeecC--cc--ccCCccEEeccCC-ccccccchhhhccCCcc
Confidence            6678888888865433346778888899999998764 77888  33  6889999999885 5554  67888889999


Q ss_pred             ceeeccCCch
Q 045152          498 KELGMEGSPL  507 (533)
Q Consensus       498 ~~L~~~~c~~  507 (533)
                      ++|++++|..
T Consensus       118 ~~L~L~~n~l  127 (520)
T 2z7x_B          118 KFLGLSTTHL  127 (520)
T ss_dssp             CEEEEEESSC
T ss_pred             eEEEecCccc
Confidence            9999888763

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A*

Probab=97.57  E-value=7.9e-05  Score=78.78  Aligned_cols=84  Identities=15%  Similarity=0.093  Sum_probs=49.7

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCC--CCcCCCCCCCc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKL--LPDSLLQITTL  497 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~--lP~~~~~l~~L  497 (533)
                      ++.|++|.++++.--...|..+..+++|++|+++++. +..+|. ..++.+++|++|++++| .+..  .|..+.++++|
T Consensus        49 l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~~-~~~~~l~~L~~L~Ls~n-~l~~~~~~~~~~~l~~L  125 (549)
T 2z81_A           49 CANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNH-LSSLSS-SWFGPLSSLKYLNLMGN-PYQTLGVTSLFPNLTNL  125 (549)
T ss_dssp             CTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSC-CCSCCH-HHHTTCTTCCEEECTTC-CCSSSCSSCSCTTCTTC
T ss_pred             CCcccEEECCCCCcCccChhhccccccCCEEECCCCc-cCccCH-HHhccCCCCcEEECCCC-cccccchhhhhhccCCc
Confidence            4456666666543222223456666667777766554 555552 22666777777777774 4553  35567777777


Q ss_pred             ceeeccCCc
Q 045152          498 KELGMEGSP  506 (533)
Q Consensus       498 ~~L~~~~c~  506 (533)
                      ++|++++|.
T Consensus       126 ~~L~L~~n~  134 (549)
T 2z81_A          126 QTLRIGNVE  134 (549)
T ss_dssp             CEEEEEESS
T ss_pred             cEEECCCCc
Confidence            777777665

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron}

Probab=97.57  E-value=9.9e-05  Score=82.08  Aligned_cols=84  Identities=20%  Similarity=0.305  Sum_probs=71.1

Q ss_pred             cccccceEEEeecCCcccCCccccccCccceeeccc------CCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCC
Q 045152          419 IMPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQ------CPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLL  492 (533)
Q Consensus       419 ilp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~------~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~  492 (533)
                      -+|.|+.|++++| .+..+|..+..+++|+.|++++      +.-...+|  ..++.+++|+.|+|++| .+..+|..+.
T Consensus       751 ~l~~L~~L~Ls~N-~L~~lp~~l~~L~~L~~L~Ls~N~~ls~N~l~~~ip--~~l~~L~~L~~L~Ls~N-~L~~Ip~~l~  826 (876)
T 4ecn_A          751 TLPYLSNMDVSYN-CFSSFPTQPLNSSQLKAFGIRHQRDAEGNRILRQWP--TGITTCPSLIQLQIGSN-DIRKVDEKLT  826 (876)
T ss_dssp             TCTTCCEEECCSS-CCSSCCCGGGGCTTCCEEECCCCBCTTCCBCCCCCC--TTGGGCSSCCEEECCSS-CCCBCCSCCC
T ss_pred             cCCCcCEEEeCCC-CCCccchhhhcCCCCCEEECCCCCCcccccccccCh--HHHhcCCCCCEEECCCC-CCCccCHhhc
Confidence            4689999999985 5566999999999999999986      33345678  68899999999999997 5699999876


Q ss_pred             CCCCcceeeccCCchh
Q 045152          493 QITTLKELGMEGSPLL  508 (533)
Q Consensus       493 ~l~~L~~L~~~~c~~l  508 (533)
                        ++|+.|++++|+..
T Consensus       827 --~~L~~LdLs~N~l~  840 (876)
T 4ecn_A          827 --PQLYILDIADNPNI  840 (876)
T ss_dssp             --SSSCEEECCSCTTC
T ss_pred             --CCCCEEECCCCCCC
Confidence              69999999999853

>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=97.57  E-value=0.00025  Score=73.14  Aligned_cols=97  Identities=12%  Similarity=0.063  Sum_probs=59.9

Q ss_pred             EEEEEeCCCCCCccccchhhhcccCCCCCceEEEEe----------c----chHHH-hhhCCCCeeeCCCCChHhhHHHH
Q 045152          290 FFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITT----------R----DRSVA-LQLGSIDIIPVKELAEEECWSLL  354 (533)
Q Consensus       290 ~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTt----------R----~~~v~-~~~~~~~~~~l~~L~~~~~~~Lf  354 (533)
                      -++++|+++..+.+..+.|...+...... .+|+.|          .    ...+. ........+++.+++.++..+++
T Consensus       297 ~VliIDEa~~l~~~a~~aLlk~lEe~~~~-~~il~tn~~~~~i~~~~~~~~~~~l~~~i~sR~~~~~~~~~~~~e~~~iL  375 (456)
T 2c9o_A          297 GVLFVDEVHMLDIECFTYLHRALESSIAP-IVIFASNRGNCVIRGTEDITSPHGIPLDLLDRVMIIRTMLYTPQEMKQII  375 (456)
T ss_dssp             CEEEEESGGGCBHHHHHHHHHHTTSTTCC-EEEEEECCSEEECBTTSSCEEETTCCHHHHTTEEEEECCCCCHHHHHHHH
T ss_pred             eEEEEechhhcCHHHHHHHHHHhhccCCC-EEEEecCCccccccccccccccccCChhHHhhcceeeCCCCCHHHHHHHH
Confidence            38999999877766777777776654444 344343          2    11111 12223445799999999999999


Q ss_pred             HHhhccCCCccccccchHHHHHHHhHh-CCCcchhHHH
Q 045152          355 ERLAFFRRSVDDHEKLEPIGRKIAHKC-KGLPLAAKVI  391 (533)
Q Consensus       355 ~~~a~~~~~~~~~~~l~~~~~~I~~~c-~GlPLai~~~  391 (533)
                      ...+-... .   .--.+....|++.+ +|.|..+..+
T Consensus       376 ~~~~~~~~-~---~~~~~~~~~i~~~a~~g~~r~a~~l  409 (456)
T 2c9o_A          376 KIRAQTEG-I---NISEEALNHLGEIGTKTTLRYSVQL  409 (456)
T ss_dssp             HHHHHHHT-C---CBCHHHHHHHHHHHHHSCHHHHHHT
T ss_pred             HHHHHHhC-C---CCCHHHHHHHHHHccCCCHHHHHHH
Confidence            87753111 1   11234567788888 8888765543

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens}

Probab=97.56  E-value=0.00011  Score=82.26  Aligned_cols=86  Identities=19%  Similarity=0.214  Sum_probs=56.4

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCC--cCCCCCCCc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLP--DSLLQITTL  497 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP--~~~~~l~~L  497 (533)
                      ++.|++|.+++|.--...|..+..+++|++|++++|.--..+|....++.|++|++|+|++| .+..++  +.+.++++|
T Consensus        72 L~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~L~~L~~L~Ls~N-~l~~~~~~~~~~~L~~L  150 (844)
T 3j0a_A           72 LPNLRILDLGSSKIYFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKN-QIRSLYLHPSFGKLNSL  150 (844)
T ss_dssp             CTTCCEEECTTCCCCEECTTSSCSCSSCCCEECTTCCCSSCCSTTCCCSSCSSCCEEEEESC-CCCCCCCCGGGGTCSSC
T ss_pred             CCCCCEEECCCCcCcccCHhHccCCcccCEeeCcCCCCCcccccCccccccCCCCEEECCCC-cccccccchhHhhCCCC
Confidence            45677777776544344466777777777777777652223452122777888888888885 455543  467888888


Q ss_pred             ceeeccCCc
Q 045152          498 KELGMEGSP  506 (533)
Q Consensus       498 ~~L~~~~c~  506 (533)
                      ++|++++|.
T Consensus       151 ~~L~Ls~N~  159 (844)
T 3j0a_A          151 KSIDFSSNQ  159 (844)
T ss_dssp             CEEEEESSC
T ss_pred             CEEECCCCc
Confidence            888887774

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.56  E-value=7.8e-05  Score=82.18  Aligned_cols=156  Identities=16%  Similarity=0.263  Sum_probs=88.6

Q ss_pred             CceeechhhHHHHHHHHhCCCc---cCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESS---EQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAK  258 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~---~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~  258 (533)
                      ..++|.+..++.+...+.....   ........+.++|++|+|||++|+.+.+.  ....-...+.++++.-.+..    
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~--l~~~~~~~i~i~~s~~~~~~----  564 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAES--IFGDEESMIRIDMSEYMEKH----  564 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHH--HHSCTTCEEEEEGGGGCSSC----
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHH--hcCCCcceEEEechhccccc----
Confidence            4689999988888887754321   01233457999999999999999999863  22222334455544321100    


Q ss_pred             HHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCC-----------CCCceEEEEecc
Q 045152          259 AIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNG-----------HHESKILITTRD  327 (533)
Q Consensus       259 ~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~-----------~~gs~IiiTtR~  327 (533)
                                .  .....+...++.   ...-+|+||++..........|...+..+           ....+||+||..
T Consensus       565 ----------~--~~~~~l~~~~~~---~~~~vl~lDEi~~~~~~~~~~Ll~~le~g~~~~~~g~~~~~~~~~iI~ttn~  629 (758)
T 3pxi_A          565 ----------S--TSGGQLTEKVRR---KPYSVVLLDAIEKAHPDVFNILLQVLEDGRLTDSKGRTVDFRNTILIMTSNV  629 (758)
T ss_dssp             ----------C--CC---CHHHHHH---CSSSEEEEECGGGSCHHHHHHHHHHHHHSBCC-----CCBCTTCEEEEEESS
T ss_pred             ----------c--cccchhhHHHHh---CCCeEEEEeCccccCHHHHHHHHHHhccCeEEcCCCCEeccCCeEEEEeCCC
Confidence                      0  001111112221   23348999999776655555555555431           234678888873


Q ss_pred             -----h----HHHhhh-----CC-CCeeeCCCCChHhhHHHHHHhh
Q 045152          328 -----R----SVALQL-----GS-IDIIPVKELAEEECWSLLERLA  358 (533)
Q Consensus       328 -----~----~v~~~~-----~~-~~~~~l~~L~~~~~~~Lf~~~a  358 (533)
                           .    .+...+     .. ...+.+.+++.++...++....
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    111111     11 3578999999999888887654

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=97.55  E-value=0.00012  Score=69.74  Aligned_cols=78  Identities=21%  Similarity=0.219  Sum_probs=58.6

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcce
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKE  499 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~  499 (533)
                      ++.|+.|.++++ .+..+|. +..+++|++|+++++. +..+|.   +.. ++|++|++++| .+..+| .+.++++|++
T Consensus        62 l~~L~~L~L~~N-~i~~~~~-l~~l~~L~~L~L~~N~-l~~l~~---~~~-~~L~~L~L~~N-~l~~~~-~l~~l~~L~~  132 (263)
T 1xeu_A           62 FTNLKELHLSHN-QISDLSP-LKDLTKLEELSVNRNR-LKNLNG---IPS-ACLSRLFLDNN-ELRDTD-SLIHLKNLEI  132 (263)
T ss_dssp             CTTCCEEECCSS-CCCCCGG-GTTCSSCCEEECCSSC-CSCCTT---CCC-SSCCEEECCSS-CCSBSG-GGTTCTTCCE
T ss_pred             CCCCCEEECCCC-ccCCChh-hccCCCCCEEECCCCc-cCCcCc---ccc-CcccEEEccCC-ccCCCh-hhcCcccccE
Confidence            567888888774 5566666 7778888888888664 777772   333 88888888885 777776 5888899999


Q ss_pred             eeccCCc
Q 045152          500 LGMEGSP  506 (533)
Q Consensus       500 L~~~~c~  506 (533)
                      |++++|.
T Consensus       133 L~Ls~N~  139 (263)
T 1xeu_A          133 LSIRNNK  139 (263)
T ss_dssp             EECTTSC
T ss_pred             EECCCCc
Confidence            9988875

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens}

Probab=97.55  E-value=0.00012  Score=75.07  Aligned_cols=81  Identities=16%  Similarity=0.304  Sum_probs=37.0

Q ss_pred             cccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCC-cCCCCCCCcce
Q 045152          421 PCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLP-DSLLQITTLKE  499 (533)
Q Consensus       421 p~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP-~~~~~l~~L~~  499 (533)
                      +.|++|.+++| .+..+|. +..+.+|+.|+++++. +..++. ..+..+++|++|+|+++ ++..++ ..+.++++|++
T Consensus       185 ~~L~~L~L~~n-~l~~~~~-~~~l~~L~~L~Ls~N~-l~~~~~-~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~  259 (440)
T 3zyj_A          185 SNLRYLNLAMC-NLREIPN-LTPLIKLDELDLSGNH-LSAIRP-GSFQGLMHLQKLWMIQS-QIQVIERNAFDNLQSLVE  259 (440)
T ss_dssp             SSCCEEECTTS-CCSSCCC-CTTCSSCCEEECTTSC-CCEECT-TTTTTCTTCCEEECTTC-CCCEECTTSSTTCTTCCE
T ss_pred             cccCeecCCCC-cCccccc-cCCCcccCEEECCCCc-cCccCh-hhhccCccCCEEECCCC-ceeEEChhhhcCCCCCCE
Confidence            34444444442 3334432 3444445555554432 333321 34445555555555553 343332 34555566666


Q ss_pred             eeccCCc
Q 045152          500 LGMEGSP  506 (533)
Q Consensus       500 L~~~~c~  506 (533)
                      |++++|.
T Consensus       260 L~L~~N~  266 (440)
T 3zyj_A          260 INLAHNN  266 (440)
T ss_dssp             EECTTSC
T ss_pred             EECCCCC
Confidence            6665553

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus}

Probab=97.54  E-value=0.00015  Score=71.46  Aligned_cols=82  Identities=23%  Similarity=0.316  Sum_probs=54.3

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcC-CCCCCCcc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDS-LLQITTLK  498 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~-~~~l~~L~  498 (533)
                      ++.|++|.+++|.--...|..+..+++|++|+++++. +..+|  ..+.  ++|++|+++++ .+..+|+. +.++++|+
T Consensus        77 l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~-l~~l~--~~~~--~~L~~L~l~~n-~i~~~~~~~~~~l~~L~  150 (332)
T 2ft3_A           77 LQHLYALVLVNNKISKIHEKAFSPLRKLQKLYISKNH-LVEIP--PNLP--SSLVELRIHDN-RIRKVPKGVFSGLRNMN  150 (332)
T ss_dssp             CTTCCEEECCSSCCCEECGGGSTTCTTCCEEECCSSC-CCSCC--SSCC--TTCCEEECCSS-CCCCCCSGGGSSCSSCC
T ss_pred             CCCCcEEECCCCccCccCHhHhhCcCCCCEEECCCCc-CCccC--cccc--ccCCEEECCCC-ccCccCHhHhCCCccCC
Confidence            5667777777754333335667777777777777654 66777  3443  67777777773 56666653 66777777


Q ss_pred             eeeccCCch
Q 045152          499 ELGMEGSPL  507 (533)
Q Consensus       499 ~L~~~~c~~  507 (533)
                      +|++++|..
T Consensus       151 ~L~l~~n~l  159 (332)
T 2ft3_A          151 CIEMGGNPL  159 (332)
T ss_dssp             EEECCSCCC
T ss_pred             EEECCCCcc
Confidence            777777654

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium}

Probab=97.54  E-value=0.00011  Score=78.68  Aligned_cols=77  Identities=29%  Similarity=0.417  Sum_probs=66.4

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcce
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKE  499 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~  499 (533)
                      ++.|+.|.+++| .+..+|   ..+++|++|+++++ .+..+|  .   .+++|++|+|++| +|..+|+.+.++++|++
T Consensus       220 ~~~L~~L~Ls~N-~L~~lp---~~l~~L~~L~Ls~N-~L~~lp--~---~~~~L~~L~Ls~N-~L~~lp~~l~~l~~L~~  288 (622)
T 3g06_A          220 PSGLKELIVSGN-RLTSLP---VLPSELKELMVSGN-RLTSLP--M---LPSGLLSLSVYRN-QLTRLPESLIHLSSETT  288 (622)
T ss_dssp             CTTCCEEECCSS-CCSCCC---CCCTTCCEEECCSS-CCSCCC--C---CCTTCCEEECCSS-CCCSCCGGGGGSCTTCE
T ss_pred             CCCCCEEEccCC-ccCcCC---CCCCcCcEEECCCC-CCCcCC--c---ccccCcEEeCCCC-CCCcCCHHHhhccccCE
Confidence            478999999885 667788   34689999999987 488888  3   5799999999996 89999999999999999


Q ss_pred             eeccCCch
Q 045152          500 LGMEGSPL  507 (533)
Q Consensus       500 L~~~~c~~  507 (533)
                      |++++|+.
T Consensus       289 L~L~~N~l  296 (622)
T 3g06_A          289 VNLEGNPL  296 (622)
T ss_dssp             EECCSCCC
T ss_pred             EEecCCCC
Confidence            99999984

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens}

Probab=97.53  E-value=0.00013  Score=81.62  Aligned_cols=84  Identities=15%  Similarity=0.174  Sum_probs=57.4

Q ss_pred             ccccceEEEeecCCcccC-CccccccCccceeecccCCCCCCC-CCccCCCCCCCcceEEeccCCCCCCCCcC--CCCCC
Q 045152          420 MPCLSVLRVYLCPKLKVL-PDYLLQTTTLQKLRILQCPSMEEL-PILEDHIFLPRLSSLRIEYCPKLKLLPDS--LLQIT  495 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~l-p~~l~~l~~L~~L~l~~~~~l~~l-p~~~~~~~l~~L~~L~l~~C~~l~~lP~~--~~~l~  495 (533)
                      ++.|++|++++|.....+ |..+..+++|++|+++++. +..+ |  ..++.+++|++|+|++|.--..+|+.  +.+++
T Consensus        47 l~~L~~LdLs~n~~~~~i~~~~f~~L~~L~~L~Ls~N~-l~~~~p--~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~L~  123 (844)
T 3j0a_A           47 LEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSSK-IYFLHP--DAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLK  123 (844)
T ss_dssp             CCSCSEEEECTTCCCCEECTTTTSSCTTCCEEECTTCC-CCEECT--TSSCSCSSCCCEECTTCCCSSCCSTTCCCSSCS
T ss_pred             cccCeEEeCCCCCCccccCHHHhcCCCCCCEEECCCCc-CcccCH--hHccCCcccCEeeCcCCCCCcccccCccccccC
Confidence            456777777776555555 5567777777777777665 5544 4  56777888888888876333335654  77788


Q ss_pred             CcceeeccCCc
Q 045152          496 TLKELGMEGSP  506 (533)
Q Consensus       496 ~L~~L~~~~c~  506 (533)
                      +|++|++++|.
T Consensus       124 ~L~~L~Ls~N~  134 (844)
T 3j0a_A          124 ALTRLDLSKNQ  134 (844)
T ss_dssp             SCCEEEEESCC
T ss_pred             CCCEEECCCCc
Confidence            88888887775

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A

Probab=97.53  E-value=9.9e-05  Score=71.34  Aligned_cols=80  Identities=19%  Similarity=0.192  Sum_probs=66.0

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcce
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKE  499 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~  499 (533)
                      ++.|+.|++++| .+..+ ..+..+++|++|+++++. +..++  + +..+++|++|++++| .+..+|. +.++++|++
T Consensus       133 l~~L~~L~l~~n-~l~~~-~~l~~l~~L~~L~L~~N~-l~~~~--~-l~~l~~L~~L~L~~N-~i~~l~~-l~~l~~L~~  204 (291)
T 1h6t_A          133 LPQLESLYLGNN-KITDI-TVLSRLTKLDTLSLEDNQ-ISDIV--P-LAGLTKLQNLYLSKN-HISDLRA-LAGLKNLDV  204 (291)
T ss_dssp             CTTCCEEECCSS-CCCCC-GGGGGCTTCSEEECCSSC-CCCCG--G-GTTCTTCCEEECCSS-CCCBCGG-GTTCTTCSE
T ss_pred             CCCCCEEEccCC-cCCcc-hhhccCCCCCEEEccCCc-cccch--h-hcCCCccCEEECCCC-cCCCChh-hccCCCCCE
Confidence            678999999885 45555 567888999999999775 77777  3 788999999999995 8888885 889999999


Q ss_pred             eeccCCch
Q 045152          500 LGMEGSPL  507 (533)
Q Consensus       500 L~~~~c~~  507 (533)
                      |++++|+.
T Consensus       205 L~l~~n~i  212 (291)
T 1h6t_A          205 LELFSQEC  212 (291)
T ss_dssp             EEEEEEEE
T ss_pred             EECcCCcc
Confidence            99998864

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=97.53  E-value=0.00012  Score=69.63  Aligned_cols=78  Identities=19%  Similarity=0.253  Sum_probs=49.7

Q ss_pred             cccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCccee
Q 045152          421 PCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKEL  500 (533)
Q Consensus       421 p~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~L  500 (533)
                      +.|+.|.+++| .+..+| .+..+++|++|+++++. +..+|   .++.+++|++|++++| .+..+ +.+..+++|++|
T Consensus       106 ~~L~~L~L~~N-~l~~~~-~l~~l~~L~~L~Ls~N~-i~~~~---~l~~l~~L~~L~L~~N-~i~~~-~~l~~l~~L~~L  177 (263)
T 1xeu_A          106 ACLSRLFLDNN-ELRDTD-SLIHLKNLEILSIRNNK-LKSIV---MLGFLSKLEVLDLHGN-EITNT-GGLTRLKKVNWI  177 (263)
T ss_dssp             SSCCEEECCSS-CCSBSG-GGTTCTTCCEEECTTSC-CCBCG---GGGGCTTCCEEECTTS-CCCBC-TTSTTCCCCCEE
T ss_pred             CcccEEEccCC-ccCCCh-hhcCcccccEEECCCCc-CCCCh---HHccCCCCCEEECCCC-cCcch-HHhccCCCCCEE
Confidence            56666666664 344444 45666777777777554 55555   4566777777777773 56666 456677777777


Q ss_pred             eccCCc
Q 045152          501 GMEGSP  506 (533)
Q Consensus       501 ~~~~c~  506 (533)
                      ++++|+
T Consensus       178 ~l~~N~  183 (263)
T 1xeu_A          178 DLTGQK  183 (263)
T ss_dssp             EEEEEE
T ss_pred             eCCCCc
Confidence            777665

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A

Probab=97.52  E-value=0.00011  Score=71.11  Aligned_cols=79  Identities=24%  Similarity=0.315  Sum_probs=41.9

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcce
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKE  499 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~  499 (533)
                      ++.|++|.++++ .+..+|. +..+++|++|+++++. +..+|   .+..+++|++|++++| .+..+| .+.++++|++
T Consensus        89 l~~L~~L~l~~n-~l~~~~~-l~~l~~L~~L~L~~n~-i~~~~---~l~~l~~L~~L~l~~n-~l~~~~-~l~~l~~L~~  160 (291)
T 1h6t_A           89 LKNLGWLFLDEN-KVKDLSS-LKDLKKLKSLSLEHNG-ISDIN---GLVHLPQLESLYLGNN-KITDIT-VLSRLTKLDT  160 (291)
T ss_dssp             CTTCCEEECCSS-CCCCGGG-GTTCTTCCEEECTTSC-CCCCG---GGGGCTTCCEEECCSS-CCCCCG-GGGGCTTCSE
T ss_pred             CCCCCEEECCCC-cCCCChh-hccCCCCCEEECCCCc-CCCCh---hhcCCCCCCEEEccCC-cCCcch-hhccCCCCCE
Confidence            344555555442 2333332 4455555555555443 44443   4555666666666663 555553 5666666666


Q ss_pred             eeccCCc
Q 045152          500 LGMEGSP  506 (533)
Q Consensus       500 L~~~~c~  506 (533)
                      |++++|.
T Consensus       161 L~L~~N~  167 (291)
T 1h6t_A          161 LSLEDNQ  167 (291)
T ss_dssp             EECCSSC
T ss_pred             EEccCCc
Confidence            6666664

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A

Probab=97.52  E-value=1.4e-05  Score=78.87  Aligned_cols=82  Identities=21%  Similarity=0.308  Sum_probs=63.1

Q ss_pred             cc-ccceEEEeecC-Cc--ccCCccccccCccceeecccCCCCC-CCCCccCCCCCCCcceEEeccCCCCCCCCc---CC
Q 045152          420 MP-CLSVLRVYLCP-KL--KVLPDYLLQTTTLQKLRILQCPSME-ELPILEDHIFLPRLSSLRIEYCPKLKLLPD---SL  491 (533)
Q Consensus       420 lp-~L~~L~l~~c~-~l--~~lp~~l~~l~~L~~L~l~~~~~l~-~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~---~~  491 (533)
                      +| .|++|.+++|. .+  ..+|..+..+++|++|++++|..+. ..+  ..+..+++|++|++++|..+  .|.   .+
T Consensus       193 l~~~L~~L~l~~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~--~~l~~l~~L~~L~l~~~~~~--~~~~~~~l  268 (336)
T 2ast_B          193 VSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCF--QEFFQLNYLQHLSLSRCYDI--IPETLLEL  268 (336)
T ss_dssp             SCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTCTTCCGGGG--GGGGGCTTCCEEECTTCTTC--CGGGGGGG
T ss_pred             cccCCCEEEeCCCcccCCHHHHHHHHhhCCCCCEEeCCCCCcCCHHHH--HHHhCCCCCCEeeCCCCCCC--CHHHHHHH
Confidence            67 89999998875 34  4566666778999999999888554 344  47778899999999999733  222   47


Q ss_pred             CCCCCcceeeccCC
Q 045152          492 LQITTLKELGMEGS  505 (533)
Q Consensus       492 ~~l~~L~~L~~~~c  505 (533)
                      .++++|++|++++|
T Consensus       269 ~~~~~L~~L~l~~~  282 (336)
T 2ast_B          269 GEIPTLKTLQVFGI  282 (336)
T ss_dssp             GGCTTCCEEECTTS
T ss_pred             hcCCCCCEEeccCc
Confidence            78999999999988

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri}

Probab=97.52  E-value=0.0001  Score=71.61  Aligned_cols=85  Identities=21%  Similarity=0.257  Sum_probs=64.5

Q ss_pred             ccccceEEEeecCCcc-cCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCc-CCCCCCCc
Q 045152          420 MPCLSVLRVYLCPKLK-VLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPD-SLLQITTL  497 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~-~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~-~~~~l~~L  497 (533)
                      ++.|++|.++++..-. .+|..+..+++|++|+++++. +..++. ..+..+++|++|++++| .+..+|. .+.++++|
T Consensus       149 l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~~-~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L  225 (306)
T 2z66_A          149 LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQ-LEQLSP-TAFNSLSSLQVLNMSHN-NFFSLDTFPYKCLNSL  225 (306)
T ss_dssp             CTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSC-CCEECT-TTTTTCTTCCEEECTTS-CCSBCCSGGGTTCTTC
T ss_pred             CcCCCEEECCCCccccccchhHHhhCcCCCEEECCCCC-cCCcCH-HHhcCCCCCCEEECCCC-ccCccChhhccCcccC
Confidence            5678888887754333 367788888899999998765 666642 56778899999999885 6777764 67788999


Q ss_pred             ceeeccCCch
Q 045152          498 KELGMEGSPL  507 (533)
Q Consensus       498 ~~L~~~~c~~  507 (533)
                      ++|++++|+.
T Consensus       226 ~~L~L~~N~l  235 (306)
T 2z66_A          226 QVLDYSLNHI  235 (306)
T ss_dssp             CEEECTTSCC
T ss_pred             CEeECCCCCC
Confidence            9999988864

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus}

Probab=97.52  E-value=0.00014  Score=77.26  Aligned_cols=82  Identities=20%  Similarity=0.270  Sum_probs=63.2

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcC-CCCCCCcc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDS-LLQITTLK  498 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~-~~~l~~L~  498 (533)
                      ++.|+.|.+++|.--...|..+.  ++|++|+++++ .+..+|  ..+..+++|++|++++ .++..+|+. +..+++|+
T Consensus       427 l~~L~~L~l~~n~l~~~~~~~l~--~~L~~L~L~~N-~l~~ip--~~~~~l~~L~~L~L~~-N~l~~l~~~~~~~l~~L~  500 (562)
T 3a79_B          427 AESILVLNLSSNMLTGSVFRCLP--PKVKVLDLHNN-RIMSIP--KDVTHLQALQELNVAS-NQLKSVPDGVFDRLTSLQ  500 (562)
T ss_dssp             CTTCCEEECCSSCCCGGGGSSCC--TTCSEEECCSS-CCCCCC--TTTTSSCCCSEEECCS-SCCCCCCTTSTTTCTTCC
T ss_pred             cccCCEEECCCCCCCcchhhhhc--CcCCEEECCCC-cCcccC--hhhcCCCCCCEEECCC-CCCCCCCHHHHhcCCCCC
Confidence            45666777766544344444333  68899999877 488898  6777899999999999 478999987 88999999


Q ss_pred             eeeccCCch
Q 045152          499 ELGMEGSPL  507 (533)
Q Consensus       499 ~L~~~~c~~  507 (533)
                      +|+++++|.
T Consensus       501 ~L~l~~N~~  509 (562)
T 3a79_B          501 YIWLHDNPW  509 (562)
T ss_dssp             CEECCSCCB
T ss_pred             EEEecCCCc
Confidence            999998873

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=97.51  E-value=0.00083  Score=63.39  Aligned_cols=184  Identities=16%  Similarity=0.041  Sum_probs=92.5

Q ss_pred             CceeechhhHHHHHHHHh---CCCcc---CCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHH
Q 045152          182 GEVCGRVEEKNELLSKLL---CESSE---QQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIR  255 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~---~~~~~---~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~  255 (533)
                      .+++|.+..++.+.+.+.   ....-   +.....-+.|+|++|+||||||+.+.+.  ....   .+.++.+.-.+   
T Consensus        12 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~--~~~~---~~~i~~~~~~~---   83 (257)
T 1lv7_A           12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGE--AKVP---FFTISGSDFVE---   83 (257)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHH--HTCC---EEEECSCSSTT---
T ss_pred             HHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHH--cCCC---EEEEeHHHHHH---
Confidence            468999888776665432   11100   0112345889999999999999999863  2222   23333221110   


Q ss_pred             HHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCcc--------------ccchhhhcccC--CCCCc
Q 045152          256 VAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYK--------------KWNPFFSCLKN--GHHES  319 (533)
Q Consensus       256 l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~--------------~~~~l~~~l~~--~~~gs  319 (533)
                             ..    . ......+...+.......+.++++|+++.....              ....+...+..  ...+.
T Consensus        84 -------~~----~-~~~~~~~~~~~~~a~~~~~~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~  151 (257)
T 1lv7_A           84 -------MF----V-GVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGI  151 (257)
T ss_dssp             -------SC----C-CCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSCE
T ss_pred             -------Hh----h-hhhHHHHHHHHHHHHHcCCeeehhhhhhhhccCCCCCcCCCchHHHHHHHHHHHHhhCcccCCCE
Confidence                   00    0 011222333344444456789999998431110              01112222211  22345


Q ss_pred             eEEEEecchHHH-hhh-C---CCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCC-CcchhHH
Q 045152          320 KILITTRDRSVA-LQL-G---SIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKG-LPLAAKV  390 (533)
Q Consensus       320 ~IiiTtR~~~v~-~~~-~---~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~G-lPLai~~  390 (533)
                      .||.||...... ... .   ....+.++..+.++-.+++....-.  .. ..++  .....++..+.| .+--+..
T Consensus       152 ~vI~~tn~~~~l~~~l~r~~rf~~~i~i~~P~~~~r~~il~~~~~~--~~-l~~~--~~~~~la~~~~G~~~~dl~~  223 (257)
T 1lv7_A          152 IVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRR--VP-LAPD--IDAAIIARGTPGFSGADLAN  223 (257)
T ss_dssp             EEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTT--SC-BCTT--CCHHHHHHTCTTCCHHHHHH
T ss_pred             EEEEeeCCchhCCHHHcCCCcCCeEEEeCCCCHHHHHHHHHHHHhc--CC-CCcc--ccHHHHHHHcCCCCHHHHHH
Confidence            566677654321 111 1   1346778888888888888766521  11 1111  113456777888 6654443

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=97.51  E-value=0.00048  Score=67.93  Aligned_cols=175  Identities=19%  Similarity=0.215  Sum_probs=91.5

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHH
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIE  262 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~  262 (533)
                      .++|.+..++.+...+..... .......+.|+|++|+||||||+.+.+.  ....|.   ....+-....         
T Consensus        26 ~~~g~~~~~~~l~~~i~~~~~-~~~~~~~~ll~Gp~G~GKTTLa~~ia~~--l~~~~~---~~sg~~~~~~---------   90 (334)
T 1in4_A           26 EFIGQENVKKKLSLALEAAKM-RGEVLDHVLLAGPPGLGKTTLAHIIASE--LQTNIH---VTSGPVLVKQ---------   90 (334)
T ss_dssp             GCCSCHHHHHHHHHHHHHHHH-HTCCCCCEEEESSTTSSHHHHHHHHHHH--HTCCEE---EEETTTCCSH---------
T ss_pred             HccCcHHHHHHHHHHHHHHHh-cCCCCCeEEEECCCCCcHHHHHHHHHHH--hCCCEE---EEechHhcCH---------
Confidence            578887777776666532210 1123467899999999999999999873  222211   1111100011         


Q ss_pred             HhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCCC------------------CCceEE-E
Q 045152          263 GLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGH------------------HESKIL-I  323 (533)
Q Consensus       263 ~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~------------------~gs~Ii-i  323 (533)
                                  ..+...+ ..+. ++-++++|++........+.+...+....                  +...++ .
T Consensus        91 ------------~~l~~~~-~~~~-~~~v~~iDE~~~l~~~~~e~L~~~~~~~~~~i~~~~~~~~~~i~~~l~~~~li~a  156 (334)
T 1in4_A           91 ------------GDMAAIL-TSLE-RGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGA  156 (334)
T ss_dssp             ------------HHHHHHH-HHCC-TTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEEEE
T ss_pred             ------------HHHHHHH-HHcc-CCCEEEEcchhhcCHHHHHHHHHHHHhcccceeeccCcccccccccCCCeEEEEe
Confidence                        1111111 1122 33467788885543222222322111110                  011122 3


Q ss_pred             EecchHHHhhhCC--CCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHH
Q 045152          324 TTRDRSVALQLGS--IDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKV  390 (533)
Q Consensus       324 TtR~~~v~~~~~~--~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~  390 (533)
                      |++...+...+..  ...+.+++.+.++..+++.+.+-...    ..--.+.+..|++.+.|.|..+..
T Consensus       157 t~~~~~Ls~~l~sR~~l~~~Ld~~~~~~l~~iL~~~~~~~~----~~~~~~~~~~ia~~~~G~~R~a~~  221 (334)
T 1in4_A          157 TTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMD----VEIEDAAAEMIAKRSRGTPRIAIR  221 (334)
T ss_dssp             ESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTT----CCBCHHHHHHHHHTSTTCHHHHHH
T ss_pred             cCCcccCCHHHHHhcCceeeCCCCCHHHHHHHHHHHHHHcC----CCcCHHHHHHHHHhcCCChHHHHH
Confidence            4443333222211  23578999999999999988763111    112245678899999999976543

>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=97.51  E-value=5.1e-05  Score=72.33  Aligned_cols=180  Identities=16%  Similarity=0.095  Sum_probs=89.4

Q ss_pred             CceeechhhHHHHHHHHhCCCcc------CCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSE------QQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIR  255 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~------~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~  255 (533)
                      .+++|.+..++.+.+.+..-...      +......+.|+|++|+|||+||+.+.+.  ....|   +.+..+.-.    
T Consensus        11 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~--~~~~~---~~v~~~~~~----   81 (268)
T 2r62_A           11 KDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGE--AHVPF---FSMGGSSFI----   81 (268)
T ss_dssp             TTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHH--HTCCC---CCCCSCTTT----
T ss_pred             HHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHH--hCCCE---EEechHHHH----
Confidence            46899998888877765310000      0012234789999999999999999874  22222   111111100    


Q ss_pred             HHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCc---------------cccchhhhcccCC---CC
Q 045152          256 VAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDY---------------KKWNPFFSCLKNG---HH  317 (533)
Q Consensus       256 l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~---------------~~~~~l~~~l~~~---~~  317 (533)
                            ..+.+...  .....   .+......++.+|+|||++....               .....+...+...   ..
T Consensus        82 ------~~~~~~~~--~~~~~---~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  150 (268)
T 2r62_A           82 ------EMFVGLGA--SRVRD---LFETAKKQAPSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFGSENA  150 (268)
T ss_dssp             ------TSCSSSCS--SSSST---THHHHHHSCSCEEEESCGGGTTC----------CCCSCSSTTTTTTTTTCSSCSCS
T ss_pred             ------HhhcchHH--HHHHH---HHHHHHhcCCeEEEEeChhhhcccccccccCCCchhHHHHHHHHHHHhhCcccCCC
Confidence                  00111000  01111   11222224567999999954311               1122233333211   12


Q ss_pred             CceEEEEecchHHHh--hhC---CCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcc
Q 045152          318 ESKILITTRDRSVAL--QLG---SIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPL  386 (533)
Q Consensus       318 gs~IiiTtR~~~v~~--~~~---~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPL  386 (533)
                      ...||.||.......  ...   ....+.++..+.++-.+++...+. .........+    ..|++.+.|.|-
T Consensus       151 ~v~vi~ttn~~~~ld~~l~r~~Rf~~~i~i~~p~~~~r~~il~~~~~-~~~~~~~~~~----~~la~~~~g~~g  219 (268)
T 2r62_A          151 PVIVLAATNRPEILDPALMRPGRFDRQVLVDKPDFNGRVEILKVHIK-GVKLANDVNL----QEVAKLTAGLAG  219 (268)
T ss_dssp             CCEEEECBSCCTTSCGGGGSSSSSCCCCBCCCCCTTTHHHHHHHHTS-SSCCCSSCCT----TTTTSSSCSSCH
T ss_pred             CEEEEEecCCchhcCHhHcCCCCCCeEEEecCcCHHHHHHHHHHHHh-cCCCCCccCH----HHHHHHcCCCCH
Confidence            245666666543211  111   235678889999999999887653 1111111122    335666777654

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens}

Probab=97.51  E-value=0.00015  Score=75.26  Aligned_cols=83  Identities=22%  Similarity=0.175  Sum_probs=52.0

Q ss_pred             ccccceEEEeecCCcccCCcc-ccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCC-CcCCCCCCCc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDY-LLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLL-PDSLLQITTL  497 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~-l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~l-P~~~~~l~~L  497 (533)
                      ++.|++|.++++ .+..+|.. +..+++|++|+++++. +..++. ..+..+++|++|+++++ .+..+ |..+.++++|
T Consensus        79 l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~Ls~n~-i~~~~~-~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L  154 (477)
T 2id5_A           79 LFNLRTLGLRSN-RLKLIPLGVFTGLSNLTKLDISENK-IVILLD-YMFQDLYNLKSLEVGDN-DLVYISHRAFSGLNSL  154 (477)
T ss_dssp             CTTCCEEECCSS-CCCSCCTTSSTTCTTCCEEECTTSC-CCEECT-TTTTTCTTCCEEEECCT-TCCEECTTSSTTCTTC
T ss_pred             CccCCEEECCCC-cCCccCcccccCCCCCCEEECCCCc-cccCCh-hHccccccCCEEECCCC-ccceeChhhccCCCCC
Confidence            456677777663 35555543 4566777777777654 444432 45666777777777774 44444 4567777778


Q ss_pred             ceeeccCCc
Q 045152          498 KELGMEGSP  506 (533)
Q Consensus       498 ~~L~~~~c~  506 (533)
                      ++|++++|.
T Consensus       155 ~~L~l~~n~  163 (477)
T 2id5_A          155 EQLTLEKCN  163 (477)
T ss_dssp             CEEEEESCC
T ss_pred             CEEECCCCc
Confidence            888777764

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.51  E-value=0.00077  Score=67.63  Aligned_cols=180  Identities=16%  Similarity=0.116  Sum_probs=97.0

Q ss_pred             CceeechhhHHHHHHHHhCC----C---ccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHH
Q 045152          182 GEVCGRVEEKNELLSKLLCE----S---SEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEI  254 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~----~---~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~  254 (533)
                      .++.|-++.+++|.+.+.-.    +   .-+-...+-|.++|++|.|||.||+.+.+.  ....|   +.++.+.-.   
T Consensus       182 ~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e--~~~~f---i~v~~s~l~---  253 (437)
T 4b4t_I          182 SDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQ--TSATF---LRIVGSELI---  253 (437)
T ss_dssp             GGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHH--HTCEE---EEEESGGGC---
T ss_pred             eecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHH--hCCCE---EEEEHHHhh---
Confidence            35778888888887765321    0   001234678999999999999999999974  22222   222222111   


Q ss_pred             HHHHHHHHHhCCCCCCCccHHHHHHHHHH-HhCCceEEEEEeCCCCCCc------cc--------cchhhhccc--CCCC
Q 045152          255 RVAKAIIEGLGVSASGLSEFESLMKQIQE-YITRKKFFLVLDDVWDGDY------KK--------WNPFFSCLK--NGHH  317 (533)
Q Consensus       255 ~l~~~il~~l~~~~~~~~~~~~l~~~l~~-~l~~kr~LlVLDdv~~~~~------~~--------~~~l~~~l~--~~~~  317 (533)
                                 .  ....+.+.....+.. .-...+++|++|+++..-.      ..        ...++..+.  ....
T Consensus       254 -----------s--k~vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~~~~~  320 (437)
T 4b4t_I          254 -----------Q--KYLGDGPRLCRQIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDDRG  320 (437)
T ss_dssp             -----------C--SSSSHHHHHHHHHHHHHHHTCSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHCCCSS
T ss_pred             -----------h--ccCchHHHHHHHHHHHHHhcCCcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCcCCCC
Confidence                       0  011112222222322 2245689999999864210      00        111222221  2233


Q ss_pred             CceEEEEecchHHHhh-h-C---CCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcch
Q 045152          318 ESKILITTRDRSVALQ-L-G---SIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLA  387 (533)
Q Consensus       318 gs~IiiTtR~~~v~~~-~-~---~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLa  387 (533)
                      +..||.||..++.... + .   ....+.+..-+.++-.++|+.+.- ........++    ..+++.+.|+--|
T Consensus       321 ~ViVIaATNrpd~LDpALlRpGRfD~~I~v~lPd~~~R~~Il~~~l~-~~~l~~dvdl----~~LA~~T~GfSGA  390 (437)
T 4b4t_I          321 DVKVIMATNKIETLDPALIRPGRIDRKILFENPDLSTKKKILGIHTS-KMNLSEDVNL----ETLVTTKDDLSGA  390 (437)
T ss_dssp             SEEEEEEESCSTTCCTTSSCTTTEEEEECCCCCCHHHHHHHHHHHHT-TSCBCSCCCH----HHHHHHCCSCCHH
T ss_pred             CEEEEEeCCChhhcCHHHhcCCceeEEEEcCCcCHHHHHHHHHHHhc-CCCCCCcCCH----HHHHHhCCCCCHH
Confidence            4556677766544321 1 1   145688888888888888887653 1111122233    5677788876533

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.51  E-value=0.00023  Score=72.07  Aligned_cols=179  Identities=16%  Similarity=0.140  Sum_probs=96.0

Q ss_pred             CceeechhhHHHHHHHHhC----CC---ccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHH
Q 045152          182 GEVCGRVEEKNELLSKLLC----ES---SEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEI  254 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~----~~---~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~  254 (533)
                      .++.|-++.+++|.+.+..    .+   .-+-..++-|.++|++|.|||+||+.+.+.  ....|   +.+..+.-.   
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e--~~~~f---~~v~~s~l~---  252 (434)
T 4b4t_M          181 SDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQ--TNATF---LKLAAPQLV---  252 (434)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHH--HTCEE---EEEEGGGGC---
T ss_pred             HhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHH--hCCCE---EEEehhhhh---
Confidence            4688999988888776422    10   001245678999999999999999999973  22222   233322111   


Q ss_pred             HHHHHHHHHhCCCCCCCccHHHHHHHHHHH-hCCceEEEEEeCCCCC-----C-ccc--------cchhhhcccC--CCC
Q 045152          255 RVAKAIIEGLGVSASGLSEFESLMKQIQEY-ITRKKFFLVLDDVWDG-----D-YKK--------WNPFFSCLKN--GHH  317 (533)
Q Consensus       255 ~l~~~il~~l~~~~~~~~~~~~l~~~l~~~-l~~kr~LlVLDdv~~~-----~-~~~--------~~~l~~~l~~--~~~  317 (533)
                                 ..  .....+.....+... -...+++|++|+++..     + ...        ...++..+..  ...
T Consensus       253 -----------~~--~vGese~~ir~lF~~A~~~aP~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~~~~  319 (434)
T 4b4t_M          253 -----------QM--YIGEGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFSSDD  319 (434)
T ss_dssp             -----------SS--CSSHHHHHHHHHHHHHHHHCSEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSCSSC
T ss_pred             -----------hc--ccchHHHHHHHHHHHHHhcCCeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhccCCCC
Confidence                       00  011112222222222 2346799999998431     0 000        1112222222  123


Q ss_pred             CceEEEEecchHHHhh-h----CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcc
Q 045152          318 ESKILITTRDRSVALQ-L----GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPL  386 (533)
Q Consensus       318 gs~IiiTtR~~~v~~~-~----~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPL  386 (533)
                      +..||.||..++.... +    .....+.++..+.++-.++|+.+.-. ......-++    ..|++.+.|+--
T Consensus       320 ~ViVIaaTNrp~~LD~AllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~-~~~~~dvdl----~~lA~~t~G~sG  388 (434)
T 4b4t_M          320 RVKVLAATNRVDVLDPALLRSGRLDRKIEFPLPSEDSRAQILQIHSRK-MTTDDDINW----QELARSTDEFNG  388 (434)
T ss_dssp             SSEEEEECSSCCCCCTTTCSTTSEEEEEECCCCCHHHHHHHHHHHHHH-SCBCSCCCH----HHHHHHCSSCCH
T ss_pred             CEEEEEeCCCchhcCHhHhcCCceeEEEEeCCcCHHHHHHHHHHHhcC-CCCCCcCCH----HHHHHhCCCCCH
Confidence            4455667776543221 1    12567889888988888888765531 111112223    567788887653

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=97.50  E-value=0.00016  Score=70.48  Aligned_cols=81  Identities=15%  Similarity=0.215  Sum_probs=55.6

Q ss_pred             ccccceEEEeecCCcccCCcccccc---CccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCC
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQT---TTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITT  496 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l---~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~  496 (533)
                      ++.|++|+++++.--...|..+..+   ++|++|+++++. +..+|  ..+.  ++|++|+|++ .+|..+|. +..+++
T Consensus       223 l~~L~~L~Ls~N~l~~~~p~~~~~~~~~~~L~~L~Ls~N~-l~~lp--~~~~--~~L~~L~Ls~-N~l~~~~~-~~~l~~  295 (310)
T 4glp_A          223 GVQPHSLDLSHNSLRATVNPSAPRCMWSSALNSLNLSFAG-LEQVP--KGLP--AKLRVLDLSS-NRLNRAPQ-PDELPE  295 (310)
T ss_dssp             TCCCSSEECTTSCCCCCCCSCCSSCCCCTTCCCEECCSSC-CCSCC--SCCC--SCCSCEECCS-CCCCSCCC-TTSCCC
T ss_pred             CCCCCEEECCCCCCCccchhhHHhccCcCcCCEEECCCCC-CCchh--hhhc--CCCCEEECCC-CcCCCCch-hhhCCC
Confidence            4667788887754433336666555   578888887654 77777  4443  7888888877 46777764 667788


Q ss_pred             cceeeccCCch
Q 045152          497 LKELGMEGSPL  507 (533)
Q Consensus       497 L~~L~~~~c~~  507 (533)
                      |++|++++++.
T Consensus       296 L~~L~L~~N~l  306 (310)
T 4glp_A          296 VDNLTLDGNPF  306 (310)
T ss_dssp             CSCEECSSTTT
T ss_pred             ccEEECcCCCC
Confidence            88888877764

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A

Probab=97.50  E-value=6.8e-06  Score=81.14  Aligned_cols=87  Identities=18%  Similarity=0.248  Sum_probs=66.3

Q ss_pred             ccccceEEEeecCCcc--cCCccccccCccceeecccCCCCCC--CCCccCCCCCC-CcceEEeccCC-CC--CCCCcCC
Q 045152          420 MPCLSVLRVYLCPKLK--VLPDYLLQTTTLQKLRILQCPSMEE--LPILEDHIFLP-RLSSLRIEYCP-KL--KLLPDSL  491 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~--~lp~~l~~l~~L~~L~l~~~~~l~~--lp~~~~~~~l~-~L~~L~l~~C~-~l--~~lP~~~  491 (533)
                      +|.|++|.+++|..+.  .+|..+..+++|++|++++|+.+..  +|  ..+..++ +|++|+|++|. .+  ..+|..+
T Consensus       141 ~~~L~~L~L~~~~~l~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~--~~~~~l~~~L~~L~l~~~~~~~~~~~l~~~~  218 (336)
T 2ast_B          141 NSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQ--VAVAHVSETITQLNLSGYRKNLQKSDLSTLV  218 (336)
T ss_dssp             CTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEECCCCTTCCHHHHH--HHHHHSCTTCCEEECCSCGGGSCHHHHHHHH
T ss_pred             CCCCCEEECCCCCCCCHHHHHHHHhcCCCCCEEcCCCCCCcChHHHH--HHHHhcccCCCEEEeCCCcccCCHHHHHHHH
Confidence            6788888888886665  3666677788889999988866664  45  4566788 89999998885 45  4577777


Q ss_pred             CCCCCcceeeccCCchh
Q 045152          492 LQITTLKELGMEGSPLL  508 (533)
Q Consensus       492 ~~l~~L~~L~~~~c~~l  508 (533)
                      .++++|++|++++|..+
T Consensus       219 ~~~~~L~~L~l~~~~~l  235 (336)
T 2ast_B          219 RRCPNLVHLDLSDSVML  235 (336)
T ss_dssp             HHCTTCSEEECTTCTTC
T ss_pred             hhCCCCCEEeCCCCCcC
Confidence            78889999999888743

>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=97.50  E-value=0.00067  Score=69.81  Aligned_cols=179  Identities=16%  Similarity=0.088  Sum_probs=94.8

Q ss_pred             CceeechhhHHHHHHHHhCCCcc------CCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSE------QQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIR  255 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~------~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~  255 (533)
                      .+++|.++.++++.+....-...      +....+-+.|+|++|.|||+||+.+.+.  ....   .+.++.+.-...  
T Consensus        16 ~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~--~~~~---f~~is~~~~~~~--   88 (476)
T 2ce7_A           16 KDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGE--ANVP---FFHISGSDFVEL--   88 (476)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHH--HTCC---EEEEEGGGTTTC--
T ss_pred             HHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHH--cCCC---eeeCCHHHHHHH--
Confidence            36899988877776654211000      0112344889999999999999999873  2222   223333221110  


Q ss_pred             HHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCcc--------------ccchhhhccc--CCCCCc
Q 045152          256 VAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYK--------------KWNPFFSCLK--NGHHES  319 (533)
Q Consensus       256 l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~--------------~~~~l~~~l~--~~~~gs  319 (533)
                              +     ...........+.......+.+|+||+++.....              ....+...+.  ....+.
T Consensus        89 --------~-----~g~~~~~~r~lf~~A~~~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~~~~v  155 (476)
T 2ce7_A           89 --------F-----VGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSKEGI  155 (476)
T ss_dssp             --------C-----TTHHHHHHHHHHHHHHHTCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCGGGTE
T ss_pred             --------H-----hcccHHHHHHHHHHHHhcCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCCCCCE
Confidence                    0     0011122233344444567889999999553110              1122222221  112355


Q ss_pred             eEEEEecchHHHh--hhC---CCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCc
Q 045152          320 KILITTRDRSVAL--QLG---SIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLP  385 (533)
Q Consensus       320 ~IiiTtR~~~v~~--~~~---~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlP  385 (533)
                      .||.||..++...  ...   ....+.++..+.++-.+++..++... ......+    ...++..+.|+.
T Consensus       156 iVIaaTn~~~~Ld~allR~gRFd~~i~i~~Pd~~~R~~Il~~~~~~~-~l~~~v~----l~~la~~t~G~s  221 (476)
T 2ce7_A          156 IVMAATNRPDILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNK-PLAEDVN----LEIIAKRTPGFV  221 (476)
T ss_dssp             EEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTS-CBCTTCC----HHHHHHTCTTCC
T ss_pred             EEEEecCChhhhchhhcccCcceeEeecCCCCHHHHHHHHHHHHHhC-CCcchhh----HHHHHHhcCCCc
Confidence            6777777654322  111   23478888888888888887665311 1111111    245778888877

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=97.50  E-value=0.00013  Score=71.24  Aligned_cols=80  Identities=19%  Similarity=0.265  Sum_probs=56.9

Q ss_pred             ccccceEEEeecCCcccCC--ccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCc
Q 045152          420 MPCLSVLRVYLCPKLKVLP--DYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTL  497 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp--~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L  497 (533)
                      ++.|++|+++++. +...+  ..+..+++|++|+++++. +..+|  ..+.  ++|++|++++ .+|+.+|. +..+++|
T Consensus       227 l~~L~~L~Ls~N~-l~~~~~~~~~~~l~~L~~L~Ls~N~-l~~ip--~~~~--~~L~~L~Ls~-N~l~~~p~-~~~l~~L  298 (312)
T 1wwl_A          227 RVQLQGLDLSHNS-LRDAAGAPSCDWPSQLNSLNLSFTG-LKQVP--KGLP--AKLSVLDLSY-NRLDRNPS-PDELPQV  298 (312)
T ss_dssp             TCCCSEEECTTSC-CCSSCCCSCCCCCTTCCEEECTTSC-CSSCC--SSCC--SEEEEEECCS-SCCCSCCC-TTTSCEE
T ss_pred             CCCCCEEECCCCc-CCcccchhhhhhcCCCCEEECCCCc-cChhh--hhcc--CCceEEECCC-CCCCCChh-HhhCCCC
Confidence            5678888887744 33332  334456788888888665 77777  4554  7888888888 47888876 7788888


Q ss_pred             ceeeccCCch
Q 045152          498 KELGMEGSPL  507 (533)
Q Consensus       498 ~~L~~~~c~~  507 (533)
                      ++|++++++.
T Consensus       299 ~~L~L~~N~l  308 (312)
T 1wwl_A          299 GNLSLKGNPF  308 (312)
T ss_dssp             EEEECTTCTT
T ss_pred             CEEeccCCCC
Confidence            8888887763

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C*

Probab=97.50  E-value=0.0001  Score=73.27  Aligned_cols=90  Identities=22%  Similarity=0.264  Sum_probs=63.6

Q ss_pred             cccccccccceEEEeecCCcccCCcc-ccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCC-cCCC
Q 045152          415 ENISIMPCLSVLRVYLCPKLKVLPDY-LLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLP-DSLL  492 (533)
Q Consensus       415 ~~~~ilp~L~~L~l~~c~~l~~lp~~-l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP-~~~~  492 (533)
                      ++.++.+.++.|++++ ..+..+|.. +..+++|++|+|+++.-++.+|. ..+..|++|..+.+.+|.+|..+| ..+.
T Consensus        24 iP~~l~~~l~~L~Ls~-N~i~~i~~~~f~~l~~L~~L~Ls~N~i~~~i~~-~~f~~L~~l~~~l~~~~N~l~~l~~~~f~  101 (350)
T 4ay9_X           24 IPSDLPRNAIELRFVL-TKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEA-DVFSNLPKLHEIRIEKANNLLYINPEAFQ  101 (350)
T ss_dssp             CCTTCCTTCSEEEEES-CCCSEECTTSSTTCTTCCEEEEECCTTCCEECT-TSBCSCTTCCEEEEEEETTCCEECTTSBC
T ss_pred             cCcCcCCCCCEEEccC-CcCCCcCHHHHcCCCCCCEEECcCCCCCCccCh-hHhhcchhhhhhhcccCCcccccCchhhh
Confidence            3444555788888887 567788764 67788888888887775566663 345667777777666777788775 3467


Q ss_pred             CCCCcceeeccCCc
Q 045152          493 QITTLKELGMEGSP  506 (533)
Q Consensus       493 ~l~~L~~L~~~~c~  506 (533)
                      ++++|++|++++|.
T Consensus       102 ~l~~L~~L~l~~n~  115 (350)
T 4ay9_X          102 NLPNLQYLLISNTG  115 (350)
T ss_dssp             CCTTCCEEEEEEEC
T ss_pred             hccccccccccccc
Confidence            78888888877664

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A

Probab=97.49  E-value=9.5e-05  Score=76.58  Aligned_cols=79  Identities=15%  Similarity=0.195  Sum_probs=58.7

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcce
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKE  499 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~  499 (533)
                      ++.|++|++++| .+..+|. +..+++|++|+++++. +..+|  + ++.+++|++|++++| .+..+|+ +.++++|++
T Consensus        67 l~~L~~L~Ls~n-~l~~~~~-~~~l~~L~~L~l~~n~-l~~~~--~-~~~l~~L~~L~L~~n-~l~~~~~-~~~l~~L~~  138 (466)
T 1o6v_A           67 LNNLTQINFSNN-QLTDITP-LKNLTKLVDILMNNNQ-IADIT--P-LANLTNLTGLTLFNN-QITDIDP-LKNLTNLNR  138 (466)
T ss_dssp             CTTCCEEECCSS-CCCCCGG-GTTCTTCCEEECCSSC-CCCCG--G-GTTCTTCCEEECCSS-CCCCCGG-GTTCTTCSE
T ss_pred             hcCCCEEECCCC-ccCCchh-hhccccCCEEECCCCc-cccCh--h-hcCCCCCCEEECCCC-CCCCChH-HcCCCCCCE
Confidence            667888888875 4566665 7778888888888765 66666  3 777888888888885 6777775 777888888


Q ss_pred             eeccCCc
Q 045152          500 LGMEGSP  506 (533)
Q Consensus       500 L~~~~c~  506 (533)
                      |++++|.
T Consensus       139 L~l~~n~  145 (466)
T 1o6v_A          139 LELSSNT  145 (466)
T ss_dssp             EEEEEEE
T ss_pred             EECCCCc
Confidence            8887765

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=97.49  E-value=6.8e-05  Score=78.19  Aligned_cols=83  Identities=12%  Similarity=0.121  Sum_probs=66.5

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcce
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKE  499 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~  499 (533)
                      ++.|+.|++++|. +..+|.. ..+++|++|+++++. +..+|  +.++.+++|+.|+|++ ..|..+|+.+..+++|++
T Consensus       168 l~~L~~L~Ls~N~-l~~~~~~-~~l~~L~~L~Ls~N~-l~~~~--~~~~~l~~L~~L~Ls~-N~l~~lp~~l~~l~~L~~  241 (487)
T 3oja_A          168 SDTLEHLNLQYNF-IYDVKGQ-VVFAKLKTLDLSSNK-LAFMG--PEFQSAAGVTWISLRN-NKLVLIEKALRFSQNLEH  241 (487)
T ss_dssp             TTTCCEEECTTSC-CCEEECC-CCCTTCCEEECCSSC-CCEEC--GGGGGGTTCSEEECTT-SCCCEECTTCCCCTTCCE
T ss_pred             CCcccEEecCCCc-ccccccc-ccCCCCCEEECCCCC-CCCCC--HhHcCCCCccEEEecC-CcCcccchhhccCCCCCE
Confidence            5788888888754 5555543 357889999998765 78888  5788899999999999 478889998999999999


Q ss_pred             eeccCCchh
Q 045152          500 LGMEGSPLL  508 (533)
Q Consensus       500 L~~~~c~~l  508 (533)
                      |++++|+..
T Consensus       242 L~l~~N~l~  250 (487)
T 3oja_A          242 FDLRGNGFH  250 (487)
T ss_dssp             EECTTCCBC
T ss_pred             EEcCCCCCc
Confidence            999988764

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus}

Probab=97.48  E-value=0.00013  Score=77.51  Aligned_cols=81  Identities=20%  Similarity=0.340  Sum_probs=59.3

Q ss_pred             ccccceEEEeecCCcccC-CccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCC--cCCCCCCC
Q 045152          420 MPCLSVLRVYLCPKLKVL-PDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLP--DSLLQITT  496 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~l-p~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP--~~~~~l~~  496 (533)
                      ++.|++|+++++ .+..+ |..+..+++|++|+++++. +..+|  ..  .+++|++|++++| ++..+|  ..+.++++
T Consensus        75 l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~Ls~N~-l~~lp--~~--~l~~L~~L~Ls~N-~l~~l~~p~~~~~l~~  147 (562)
T 3a79_B           75 LSELRVLRLSHN-RIRSLDFHVFLFNQDLEYLDVSHNR-LQNIS--CC--PMASLRHLDLSFN-DFDVLPVCKEFGNLTK  147 (562)
T ss_dssp             CTTCCEEECCSC-CCCEECTTTTTTCTTCCEEECTTSC-CCEEC--SC--CCTTCSEEECCSS-CCSBCCCCGGGGGCTT
T ss_pred             CCCccEEECCCC-CCCcCCHHHhCCCCCCCEEECCCCc-CCccC--cc--ccccCCEEECCCC-CccccCchHhhcccCc
Confidence            567788888775 34444 5667778888888888655 77777  33  6888888888885 566654  67888888


Q ss_pred             cceeeccCCch
Q 045152          497 LKELGMEGSPL  507 (533)
Q Consensus       497 L~~L~~~~c~~  507 (533)
                      |++|+++++..
T Consensus       148 L~~L~L~~n~l  158 (562)
T 3a79_B          148 LTFLGLSAAKF  158 (562)
T ss_dssp             CCEEEEECSBC
T ss_pred             ccEEecCCCcc
Confidence            88888887753

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=97.48  E-value=0.00017  Score=71.97  Aligned_cols=84  Identities=13%  Similarity=0.132  Sum_probs=66.8

Q ss_pred             cccccceEEEeecCCcccCC-ccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCC-CcCCCCCCC
Q 045152          419 IMPCLSVLRVYLCPKLKVLP-DYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLL-PDSLLQITT  496 (533)
Q Consensus       419 ilp~L~~L~l~~c~~l~~lp-~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~l-P~~~~~l~~  496 (533)
                      -++.|++|.++++ .+..++ ..+..+++|++|+|+++. |..+|. ..+..+++|++|+|+++ ++..+ |..+.++++
T Consensus        62 ~l~~L~~L~L~~N-~i~~i~~~~~~~l~~L~~L~Ls~N~-l~~~~~-~~~~~l~~L~~L~L~~N-~i~~~~~~~~~~l~~  137 (361)
T 2xot_A           62 RLTNLHSLLLSHN-HLNFISSEAFVPVPNLRYLDLSSNH-LHTLDE-FLFSDLQALEVLLLYNN-HIVVVDRNAFEDMAQ  137 (361)
T ss_dssp             CCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSSC-CCEECT-TTTTTCTTCCEEECCSS-CCCEECTTTTTTCTT
T ss_pred             cccccCEEECCCC-cCCccChhhccCCCCCCEEECCCCc-CCcCCH-HHhCCCcCCCEEECCCC-cccEECHHHhCCccc
Confidence            3678899999884 556665 457888999999999755 888773 35788999999999994 67766 567889999


Q ss_pred             cceeeccCCc
Q 045152          497 LKELGMEGSP  506 (533)
Q Consensus       497 L~~L~~~~c~  506 (533)
                      |++|++++|.
T Consensus       138 L~~L~L~~N~  147 (361)
T 2xot_A          138 LQKLYLSQNQ  147 (361)
T ss_dssp             CCEEECCSSC
T ss_pred             CCEEECCCCc
Confidence            9999998885

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=97.47  E-value=6.9e-05  Score=78.15  Aligned_cols=79  Identities=10%  Similarity=0.055  Sum_probs=35.0

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCC-CCCCcCCCCCCCcc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKL-KLLPDSLLQITTLK  498 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l-~~lP~~~~~l~~L~  498 (533)
                      ++.|++|++++ ..+..+|..+..+++|++|+++++. +..+|  ..++.+++|+.|++++|+-. ..+|..+..+++|+
T Consensus       190 l~~L~~L~Ls~-N~l~~~~~~~~~l~~L~~L~Ls~N~-l~~lp--~~l~~l~~L~~L~l~~N~l~c~~~~~~~~~l~~L~  265 (487)
T 3oja_A          190 FAKLKTLDLSS-NKLAFMGPEFQSAAGVTWISLRNNK-LVLIE--KALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQ  265 (487)
T ss_dssp             CTTCCEEECCS-SCCCEECGGGGGGTTCSEEECTTSC-CCEEC--TTCCCCTTCCEEECTTCCBCHHHHHHHHTTCHHHH
T ss_pred             CCCCCEEECCC-CCCCCCCHhHcCCCCccEEEecCCc-Ccccc--hhhccCCCCCEEEcCCCCCcCcchHHHHHhCCCCc
Confidence            34444454444 2334444444444455555554432 44444  34444445555555443222 13444444444444


Q ss_pred             eeec
Q 045152          499 ELGM  502 (533)
Q Consensus       499 ~L~~  502 (533)
                      .|++
T Consensus       266 ~l~~  269 (487)
T 3oja_A          266 TVAK  269 (487)
T ss_dssp             HHHH
T ss_pred             EEec
Confidence            4444

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens}

Probab=97.47  E-value=0.00016  Score=76.75  Aligned_cols=83  Identities=28%  Similarity=0.438  Sum_probs=49.8

Q ss_pred             ccccceEEEeecCCc-ccCCccccccCccceeecccCCCCCCC-CCccCCCCCCCcceEEeccCCCCCCCCc-CCCCCCC
Q 045152          420 MPCLSVLRVYLCPKL-KVLPDYLLQTTTLQKLRILQCPSMEEL-PILEDHIFLPRLSSLRIEYCPKLKLLPD-SLLQITT  496 (533)
Q Consensus       420 lp~L~~L~l~~c~~l-~~lp~~l~~l~~L~~L~l~~~~~l~~l-p~~~~~~~l~~L~~L~l~~C~~l~~lP~-~~~~l~~  496 (533)
                      ++.|++|.+++|... ..+|..+..+++|++|++++|. +..+ |  ..++.+++|++|+|++| ++..+|+ .+.++++
T Consensus       444 l~~L~~L~l~~n~l~~~~~p~~~~~l~~L~~L~l~~n~-l~~~~~--~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~  519 (570)
T 2z63_A          444 LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQ-LEQLSP--TAFNSLSSLQVLNMASN-QLKSVPDGIFDRLTS  519 (570)
T ss_dssp             CTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSC-CCEECT--TTTTTCTTCCEEECCSS-CCSCCCTTTTTTCTT
T ss_pred             CCcCcEEECcCCcCccccchhhhhcccCCCEEECCCCc-cccCCh--hhhhcccCCCEEeCCCC-cCCCCCHHHhhcccC
Confidence            345555555554332 2456566666666666666654 4444 4  45666777777777775 5666554 3566777


Q ss_pred             cceeeccCCc
Q 045152          497 LKELGMEGSP  506 (533)
Q Consensus       497 L~~L~~~~c~  506 (533)
                      |++|++++||
T Consensus       520 L~~L~l~~N~  529 (570)
T 2z63_A          520 LQKIWLHTNP  529 (570)
T ss_dssp             CCEEECCSSC
T ss_pred             CcEEEecCCc
Confidence            7777777665

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A

Probab=97.47  E-value=2e-06  Score=78.19  Aligned_cols=82  Identities=23%  Similarity=0.252  Sum_probs=61.7

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCc--CCCCCCCc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPD--SLLQITTL  497 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~--~~~~l~~L  497 (533)
                      ++.|++|.+++| .+..+|..+..+++|++|+++++. +..+|   .++.+++|++|++++| ++..+|.  .+.++++|
T Consensus        69 l~~L~~L~l~~n-~l~~l~~~~~~~~~L~~L~L~~N~-l~~l~---~~~~l~~L~~L~l~~N-~i~~~~~~~~l~~l~~L  142 (198)
T 1ds9_A           69 MENLRILSLGRN-LIKKIENLDAVADTLEELWISYNQ-IASLS---GIEKLVNLRVLYMSNN-KITNWGEIDKLAALDKL  142 (198)
T ss_dssp             HTTCCEEEEEEE-EECSCSSHHHHHHHCSEEEEEEEE-CCCHH---HHHHHHHSSEEEESEE-ECCCHHHHHHHTTTTTC
T ss_pred             CCCCCEEECCCC-CcccccchhhcCCcCCEEECcCCc-CCcCC---ccccCCCCCEEECCCC-cCCchhHHHHHhcCCCC
Confidence            467788888774 456777766667788888888664 66666   5667888888888884 6777764  67888999


Q ss_pred             ceeeccCCch
Q 045152          498 KELGMEGSPL  507 (533)
Q Consensus       498 ~~L~~~~c~~  507 (533)
                      ++|++++|+.
T Consensus       143 ~~L~l~~N~l  152 (198)
T 1ds9_A          143 EDLLLAGNPL  152 (198)
T ss_dssp             SEEEECSCHH
T ss_pred             CEEEecCCcc
Confidence            9999998874

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A*

Probab=97.46  E-value=0.00027  Score=69.39  Aligned_cols=80  Identities=18%  Similarity=0.243  Sum_probs=38.3

Q ss_pred             cccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCc-CCCCCCCcce
Q 045152          421 PCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPD-SLLQITTLKE  499 (533)
Q Consensus       421 p~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~-~~~~l~~L~~  499 (533)
                      +.|++|.++++.--...|..+..+++|++|+++++. +..+|  ..+.  ++|++|++++| .+..+|+ .+.++++|++
T Consensus        76 ~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~-l~~l~--~~~~--~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~  149 (330)
T 1xku_A           76 KNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQ-LKELP--EKMP--KTLQELRVHEN-EITKVRKSVFNGLNQMIV  149 (330)
T ss_dssp             TTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSC-CSBCC--SSCC--TTCCEEECCSS-CCCBBCHHHHTTCTTCCE
T ss_pred             CCCCEEECCCCcCCeeCHHHhcCCCCCCEEECCCCc-CCccC--hhhc--ccccEEECCCC-cccccCHhHhcCCccccE
Confidence            445555554432222224444455555555555433 44444  2222  45555555553 3444442 3556666666


Q ss_pred             eeccCCc
Q 045152          500 LGMEGSP  506 (533)
Q Consensus       500 L~~~~c~  506 (533)
                      |++++|.
T Consensus       150 L~l~~n~  156 (330)
T 1xku_A          150 VELGTNP  156 (330)
T ss_dssp             EECCSSC
T ss_pred             EECCCCc
Confidence            6666664

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=97.45  E-value=8.6e-05  Score=72.68  Aligned_cols=83  Identities=14%  Similarity=0.166  Sum_probs=66.7

Q ss_pred             ccccceEEEeecCCcccCCcccc-ccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLL-QTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLK  498 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~-~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~  498 (533)
                      ++.|++|.++++.--...|..+. .+++|++|+++++. +..+|   ....+++|++|++++| ++..+|+.+..+++|+
T Consensus       143 l~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~N~-l~~~~---~~~~l~~L~~L~Ls~N-~l~~l~~~~~~l~~L~  217 (317)
T 3o53_A          143 RSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNF-IYDVK---GQVVFAKLKTLDLSSN-KLAFMGPEFQSAAGVT  217 (317)
T ss_dssp             GSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTTSC-CCEEE---CCCCCTTCCEEECCSS-CCCEECGGGGGGTTCS
T ss_pred             cCCCCEEECCCCCCCcccHHHHhhccCcCCEEECCCCc-Ccccc---cccccccCCEEECCCC-cCCcchhhhcccCccc
Confidence            67889999988644333345553 67999999999876 77777   4446999999999995 8999999999999999


Q ss_pred             eeeccCCch
Q 045152          499 ELGMEGSPL  507 (533)
Q Consensus       499 ~L~~~~c~~  507 (533)
                      +|++++|..
T Consensus       218 ~L~L~~N~l  226 (317)
T 3o53_A          218 WISLRNNKL  226 (317)
T ss_dssp             EEECTTSCC
T ss_pred             EEECcCCcc
Confidence            999999864

>1m9s_A Internalin B; cell invasion, GW domains, SH3 domains, signaling protein; 2.65A {Listeria monocytogenes} SCOP: b.1.18.15 b.34.11.1 b.34.11.1 b.34.11.1 c.10.2.1 PDB: 2y5q_A

Probab=97.45  E-value=0.00015  Score=77.61  Aligned_cols=79  Identities=24%  Similarity=0.309  Sum_probs=52.1

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcce
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKE  499 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~  499 (533)
                      ++.|+.|.++.| .+..+| .+..+++|+.|+|++|. +..+|   .+..|++|+.|+|++| .|..+| .+.++++|+.
T Consensus        86 l~~L~~L~Ls~N-~l~~l~-~l~~l~~L~~L~Ls~N~-l~~l~---~l~~l~~L~~L~Ls~N-~l~~l~-~l~~l~~L~~  157 (605)
T 1m9s_A           86 LKNLGWLFLDEN-KIKDLS-SLKDLKKLKSLSLEHNG-ISDIN---GLVHLPQLESLYLGNN-KITDIT-VLSRLTKLDT  157 (605)
T ss_dssp             CTTCCEEECCSS-CCCCCT-TSTTCTTCCEEECTTSC-CCCCG---GGGGCTTCSEEECCSS-CCCCCG-GGGSCTTCSE
T ss_pred             CCCCCEEECcCC-CCCCCh-hhccCCCCCEEEecCCC-CCCCc---cccCCCccCEEECCCC-ccCCch-hhcccCCCCE
Confidence            556666666664 344444 45666777777777654 55554   5666777777777775 566663 6777778888


Q ss_pred             eeccCCc
Q 045152          500 LGMEGSP  506 (533)
Q Consensus       500 L~~~~c~  506 (533)
                      |++++|.
T Consensus       158 L~Ls~N~  164 (605)
T 1m9s_A          158 LSLEDNQ  164 (605)
T ss_dssp             EECCSSC
T ss_pred             EECcCCc
Confidence            8877775

>1m9s_A Internalin B; cell invasion, GW domains, SH3 domains, signaling protein; 2.65A {Listeria monocytogenes} SCOP: b.1.18.15 b.34.11.1 b.34.11.1 b.34.11.1 c.10.2.1 PDB: 2y5q_A

Probab=97.44  E-value=0.00015  Score=77.53  Aligned_cols=80  Identities=16%  Similarity=0.157  Sum_probs=67.5

Q ss_pred             cccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcc
Q 045152          419 IMPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLK  498 (533)
Q Consensus       419 ilp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~  498 (533)
                      -++.|+.|.+++|. +..+| .+..+++|+.|+|++|. +..++   .++.|++|+.|+|++| .|..+|+ +..+++|+
T Consensus       107 ~l~~L~~L~Ls~N~-l~~l~-~l~~l~~L~~L~Ls~N~-l~~l~---~l~~l~~L~~L~Ls~N-~l~~~~~-l~~l~~L~  178 (605)
T 1m9s_A          107 DLKKLKSLSLEHNG-ISDIN-GLVHLPQLESLYLGNNK-ITDIT---VLSRLTKLDTLSLEDN-QISDIVP-LAGLTKLQ  178 (605)
T ss_dssp             TCTTCCEEECTTSC-CCCCG-GGGGCTTCSEEECCSSC-CCCCG---GGGSCTTCSEEECCSS-CCCCCGG-GTTCTTCC
T ss_pred             cCCCCCEEEecCCC-CCCCc-cccCCCccCEEECCCCc-cCCch---hhcccCCCCEEECcCC-cCCCchh-hccCCCCC
Confidence            36789999999854 55554 57889999999999876 77665   7788999999999996 7888887 99999999


Q ss_pred             eeeccCCc
Q 045152          499 ELGMEGSP  506 (533)
Q Consensus       499 ~L~~~~c~  506 (533)
                      +|++++|.
T Consensus       179 ~L~Ls~N~  186 (605)
T 1m9s_A          179 NLYLSKNH  186 (605)
T ss_dssp             EEECCSSC
T ss_pred             EEECcCCC
Confidence            99999986

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A*

Probab=97.41  E-value=0.00015  Score=76.66  Aligned_cols=86  Identities=21%  Similarity=0.250  Sum_probs=70.1

Q ss_pred             ccccceEEEeecCCcccCCcc-ccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCC-cCCCCCCCc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDY-LLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLP-DSLLQITTL  497 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~-l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP-~~~~~l~~L  497 (533)
                      ++.|++|+++++ .+..+|.. +..+++|++|+++++. +..++....++.+++|++|++++|..+..+| ..+.++++|
T Consensus        73 l~~L~~L~Ls~n-~l~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~~~~~~~~l~~L~~L~L~~n~~~~~~~~~~~~~l~~L  150 (549)
T 2z81_A           73 LGSLEHLDLSDN-HLSSLSSSWFGPLSSLKYLNLMGNP-YQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSL  150 (549)
T ss_dssp             CTTCCEEECTTS-CCCSCCHHHHTTCTTCCEEECTTCC-CSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEE
T ss_pred             cccCCEEECCCC-ccCccCHHHhccCCCCcEEECCCCc-ccccchhhhhhccCCccEEECCCCccccccCHhhhhccccc
Confidence            678999999985 45566554 8889999999999876 6654322578899999999999988788888 579999999


Q ss_pred             ceeeccCCch
Q 045152          498 KELGMEGSPL  507 (533)
Q Consensus       498 ~~L~~~~c~~  507 (533)
                      ++|++++|..
T Consensus       151 ~~L~L~~n~l  160 (549)
T 2z81_A          151 NELEIKALSL  160 (549)
T ss_dssp             EEEEEEETTC
T ss_pred             CeeeccCCcc
Confidence            9999998863

>3t6q_A CD180 antigen; protein-protein complex, leucine rich repeat, MD-2 related L recognition, receptor, innate immunity, glycosylation, IMMU; HET: NAG BMA MAN; 1.90A {Mus musculus} PDB: 3b2d_A* 3rg1_A*

Probab=97.38  E-value=0.00021  Score=76.48  Aligned_cols=84  Identities=15%  Similarity=0.116  Sum_probs=55.2

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCC-cCCCCCCCcc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLP-DSLLQITTLK  498 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP-~~~~~l~~L~  498 (533)
                      ++.|++|+++++.--...|..+..+++|++|+++++. +..++. ..++.+++|++|++++| .+..+| +.+..+++|+
T Consensus        80 l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~-i~~l~~-~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~  156 (606)
T 3t6q_A           80 QHRLDTLVLTANPLIFMAETALSGPKALKHLFFIQTG-ISSIDF-IPLHNQKTLESLYLGSN-HISSIKLPKGFPTEKLK  156 (606)
T ss_dssp             CTTCCEEECTTCCCSEECTTTTSSCTTCCEEECTTSC-CSCGGG-SCCTTCTTCCEEECCSS-CCCCCCCCTTCCCTTCC
T ss_pred             ccccCeeeCCCCcccccChhhhcccccccEeeccccC-cccCCc-chhccCCcccEEECCCC-cccccCcccccCCcccC
Confidence            5567777777654444446666777777777777655 555532 45677788888888774 565552 3344478888


Q ss_pred             eeeccCCc
Q 045152          499 ELGMEGSP  506 (533)
Q Consensus       499 ~L~~~~c~  506 (533)
                      +|++++|.
T Consensus       157 ~L~L~~n~  164 (606)
T 3t6q_A          157 VLDFQNNA  164 (606)
T ss_dssp             EEECCSSC
T ss_pred             EEEcccCc
Confidence            88887774

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens}

Probab=97.38  E-value=0.0003  Score=72.87  Aligned_cols=85  Identities=20%  Similarity=0.183  Sum_probs=54.5

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcce
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKE  499 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~  499 (533)
                      ++.|++|.++++.--...|..+..+++|++|+++++. +..+|. ..+..+++|++|+|++|.--...|..+.++++|++
T Consensus        55 l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~-~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~  132 (477)
T 2id5_A           55 FPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNR-LKLIPL-GVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKS  132 (477)
T ss_dssp             CTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSC-CCSCCT-TSSTTCTTCCEEECTTSCCCEECTTTTTTCTTCCE
T ss_pred             CCCCCEEECCCCccCEeChhhhhCCccCCEEECCCCc-CCccCc-ccccCCCCCCEEECCCCccccCChhHccccccCCE
Confidence            4567777777653333335666777777777777654 666663 23566777777777775333334556777777777


Q ss_pred             eeccCCc
Q 045152          500 LGMEGSP  506 (533)
Q Consensus       500 L~~~~c~  506 (533)
                      |++++|.
T Consensus       133 L~l~~n~  139 (477)
T 2id5_A          133 LEVGDND  139 (477)
T ss_dssp             EEECCTT
T ss_pred             EECCCCc
Confidence            7777664

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A*

Probab=97.37  E-value=0.00035  Score=75.93  Aligned_cols=84  Identities=19%  Similarity=0.246  Sum_probs=49.4

Q ss_pred             ccccceEEEeecCCcccCCc-cccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcc
Q 045152          420 MPCLSVLRVYLCPKLKVLPD-YLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLK  498 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~-~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~  498 (533)
                      ++.|++|.++++ .+..+|. .+..+++|++|+++++. +..+|. ..++.+++|++|++++|.--...|..+.++++|+
T Consensus        72 l~~L~~L~L~~n-~l~~l~~~~~~~l~~L~~L~L~~n~-l~~~~~-~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~  148 (680)
T 1ziw_A           72 LPMLKVLNLQHN-ELSQLSDKTFAFCTNLTELHLMSNS-IQKIKN-NPFVKQKNLITLDLSHNGLSSTKLGTQVQLENLQ  148 (680)
T ss_dssp             CTTCCEEECCSS-CCCCCCTTTTTTCTTCSEEECCSSC-CCCCCS-CTTTTCTTCCEEECCSSCCSCCCCCSSSCCTTCC
T ss_pred             ccCcCEEECCCC-ccCccChhhhccCCCCCEEECCCCc-cCccCh-hHccccCCCCEEECCCCcccccCchhhcccccCC
Confidence            456666666664 4555654 35666677777776554 555552 3466666777777766532223344566666666


Q ss_pred             eeeccCCc
Q 045152          499 ELGMEGSP  506 (533)
Q Consensus       499 ~L~~~~c~  506 (533)
                      +|++++|.
T Consensus       149 ~L~L~~n~  156 (680)
T 1ziw_A          149 ELLLSNNK  156 (680)
T ss_dssp             EEECCSSC
T ss_pred             EEEccCCc
Confidence            66666653

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A*

Probab=97.37  E-value=0.00026  Score=76.88  Aligned_cols=85  Identities=16%  Similarity=0.235  Sum_probs=69.8

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCC-cCCCCCCCcc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLP-DSLLQITTLK  498 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP-~~~~~l~~L~  498 (533)
                      ++.|++|.++++.--...|..+..+++|++|+++++. +..+|. ..++.+++|++|++++| ++..+| ..+.++++|+
T Consensus        48 l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~-l~~l~~-~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~  124 (680)
T 1ziw_A           48 YSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNE-LSQLSD-KTFAFCTNLTELHLMSN-SIQKIKNNPFVKQKNLI  124 (680)
T ss_dssp             GTTCSEEECCSSCCCCCCTTHHHHCTTCCEEECCSSC-CCCCCT-TTTTTCTTCSEEECCSS-CCCCCCSCTTTTCTTCC
T ss_pred             CCcCcEEECCCCccCccCHHHHhcccCcCEEECCCCc-cCccCh-hhhccCCCCCEEECCCC-ccCccChhHccccCCCC
Confidence            5679999999865444446677889999999999875 888883 35889999999999996 677877 5799999999


Q ss_pred             eeeccCCch
Q 045152          499 ELGMEGSPL  507 (533)
Q Consensus       499 ~L~~~~c~~  507 (533)
                      +|++++|..
T Consensus       125 ~L~Ls~n~l  133 (680)
T 1ziw_A          125 TLDLSHNGL  133 (680)
T ss_dssp             EEECCSSCC
T ss_pred             EEECCCCcc
Confidence            999998853

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens}

Probab=97.37  E-value=0.00019  Score=76.03  Aligned_cols=84  Identities=19%  Similarity=0.266  Sum_probs=72.0

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCC-CCCCCccCCCCCCCcceEEeccCCCCCCC-CcCCCCCCCc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSM-EELPILEDHIFLPRLSSLRIEYCPKLKLL-PDSLLQITTL  497 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l-~~lp~~~~~~~l~~L~~L~l~~C~~l~~l-P~~~~~l~~L  497 (533)
                      ++.|++|.+++|..-...|..+..+++|++|++++|.-. ..+|  ..++.+++|++|+|++| .+..+ |..+.++++|
T Consensus       420 l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~p--~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L  496 (570)
T 2z63_A          420 LRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLP--DIFTELRNLTFLDLSQC-QLEQLSPTAFNSLSSL  496 (570)
T ss_dssp             CTTCCEEECTTSCCEECCTTTTTTCTTCCEEECTTCEEGGGEEC--SCCTTCTTCCEEECTTS-CCCEECTTTTTTCTTC
T ss_pred             CCCCCEEeCcCCcccccchhhhhcCCcCcEEECcCCcCccccch--hhhhcccCCCEEECCCC-ccccCChhhhhcccCC
Confidence            678999999998776667888889999999999998733 2578  68999999999999997 45555 8899999999


Q ss_pred             ceeeccCCc
Q 045152          498 KELGMEGSP  506 (533)
Q Consensus       498 ~~L~~~~c~  506 (533)
                      ++|++++|.
T Consensus       497 ~~L~l~~n~  505 (570)
T 2z63_A          497 QVLNMASNQ  505 (570)
T ss_dssp             CEEECCSSC
T ss_pred             CEEeCCCCc
Confidence            999999986

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A

Probab=97.37  E-value=5.5e-06  Score=75.28  Aligned_cols=58  Identities=14%  Similarity=0.119  Sum_probs=26.2

Q ss_pred             cccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccC
Q 045152          421 PCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYC  481 (533)
Q Consensus       421 p~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C  481 (533)
                      |.|++|.+++| .+..+| .+..+++|++|+++++. +..+|.+..+..+++|++|++++|
T Consensus        93 ~~L~~L~L~~N-~l~~l~-~~~~l~~L~~L~l~~N~-i~~~~~~~~l~~l~~L~~L~l~~N  150 (198)
T 1ds9_A           93 DTLEELWISYN-QIASLS-GIEKLVNLRVLYMSNNK-ITNWGEIDKLAALDKLEDLLLAGN  150 (198)
T ss_dssp             HHCSEEEEEEE-ECCCHH-HHHHHHHSSEEEESEEE-CCCHHHHHHHTTTTTCSEEEECSC
T ss_pred             CcCCEEECcCC-cCCcCC-ccccCCCCCEEECCCCc-CCchhHHHHHhcCCCCCEEEecCC
Confidence            34555555543 333343 34444555555555433 443331123444555555555553

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes}

Probab=97.36  E-value=0.00043  Score=71.42  Aligned_cols=76  Identities=24%  Similarity=0.171  Sum_probs=45.7

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcce
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKE  499 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~  499 (533)
                      ++.|++|.+++| .+..+|  +..+++|++|+++++. +..+|    ++.+++|++|++++| ++..+|  +.++++|++
T Consensus        63 l~~L~~L~Ls~n-~l~~~~--~~~l~~L~~L~Ls~N~-l~~~~----~~~l~~L~~L~L~~N-~l~~l~--~~~l~~L~~  131 (457)
T 3bz5_A           63 LTGLTKLICTSN-NITTLD--LSQNTNLTYLACDSNK-LTNLD----VTPLTKLTYLNCDTN-KLTKLD--VSQNPLLTY  131 (457)
T ss_dssp             CTTCSEEECCSS-CCSCCC--CTTCTTCSEEECCSSC-CSCCC----CTTCTTCCEEECCSS-CCSCCC--CTTCTTCCE
T ss_pred             cCCCCEEEccCC-cCCeEc--cccCCCCCEEECcCCC-Cceee----cCCCCcCCEEECCCC-cCCeec--CCCCCcCCE
Confidence            455666666653 344444  5556666666666544 44443    455667777777664 566665  666777777


Q ss_pred             eeccCCc
Q 045152          500 LGMEGSP  506 (533)
Q Consensus       500 L~~~~c~  506 (533)
                      |++++|.
T Consensus       132 L~l~~N~  138 (457)
T 3bz5_A          132 LNCARNT  138 (457)
T ss_dssp             EECTTSC
T ss_pred             EECCCCc
Confidence            7776664

>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=97.35  E-value=0.0014  Score=68.94  Aligned_cols=165  Identities=15%  Similarity=0.199  Sum_probs=79.2

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAII  261 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il  261 (533)
                      .+++|-++-...+.+.+.-..-.......++.++|++|+||||||+.+...  ....|   .-++++...+...+.....
T Consensus        81 ~di~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~~--l~~~~---~~i~~~~~~~~~~~~g~~~  155 (543)
T 3m6a_A           81 EEHHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKS--LGRKF---VRISLGGVRDESEIRGHRR  155 (543)
T ss_dssp             HHCSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHHH--HTCEE---EEECCCC------------
T ss_pred             HHhccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHHh--cCCCe---EEEEecccchhhhhhhHHH
Confidence            357888877777655442111001124568999999999999999999863  22222   2233333222111111111


Q ss_pred             HHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCcc----ccchhhhcccCC---------------CCCceEE
Q 045152          262 EGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYK----KWNPFFSCLKNG---------------HHESKIL  322 (533)
Q Consensus       262 ~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~----~~~~l~~~l~~~---------------~~gs~Ii  322 (533)
                      ..++..      .......+.. .....-+++||+++.....    ....+...+...               .....+|
T Consensus       156 ~~ig~~------~~~~~~~~~~-a~~~~~vl~lDEid~l~~~~~~~~~~~LL~~ld~~~~~~~~~~~~~~~~~~~~v~iI  228 (543)
T 3m6a_A          156 TYVGAM------PGRIIQGMKK-AGKLNPVFLLDEIDKMSSDFRGDPSSAMLEVLDPEQNSSFSDHYIEETFDLSKVLFI  228 (543)
T ss_dssp             --------------CHHHHHHT-TCSSSEEEEEEESSSCC---------CCGGGTCTTTTTBCCCSSSCCCCBCSSCEEE
T ss_pred             HHhccC------chHHHHHHHH-hhccCCEEEEhhhhhhhhhhccCHHHHHHHHHhhhhcceeecccCCeeecccceEEE
Confidence            111100      0111112222 2223348889999764322    123344333211               0334566


Q ss_pred             EEecchHHHh--hhCCCCeeeCCCCChHhhHHHHHHhh
Q 045152          323 ITTRDRSVAL--QLGSIDIIPVKELAEEECWSLLERLA  358 (533)
Q Consensus       323 iTtR~~~v~~--~~~~~~~~~l~~L~~~~~~~Lf~~~a  358 (533)
                      .||.......  .......+.+.+++.++-.+++..+.
T Consensus       229 ~ttN~~~~l~~aL~~R~~vi~~~~~~~~e~~~Il~~~l  266 (543)
T 3m6a_A          229 ATANNLATIPGPLRDRMEIINIAGYTEIEKLEIVKDHL  266 (543)
T ss_dssp             EECSSTTTSCHHHHHHEEEEECCCCCHHHHHHHHHHTH
T ss_pred             eccCccccCCHHHHhhcceeeeCCCCHHHHHHHHHHHH
Confidence            6666532111  11123468999999999988887754

>3t6q_A CD180 antigen; protein-protein complex, leucine rich repeat, MD-2 related L recognition, receptor, innate immunity, glycosylation, IMMU; HET: NAG BMA MAN; 1.90A {Mus musculus} PDB: 3b2d_A* 3rg1_A*

Probab=97.31  E-value=0.00031  Score=75.21  Aligned_cols=84  Identities=15%  Similarity=0.081  Sum_probs=55.2

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCC-CcCCCCCCCcc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLL-PDSLLQITTLK  498 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~l-P~~~~~l~~L~  498 (533)
                      ++.|++|.+++|.--...|..+..+++|++|+++++. +..++. ..++.+++|++|++++| .+..+ |..+.++++|+
T Consensus        56 l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~~-~~~~~l~~L~~L~L~~n-~i~~l~~~~~~~l~~L~  132 (606)
T 3t6q_A           56 LINLTFLDLTRCQIYWIHEDTFQSQHRLDTLVLTANP-LIFMAE-TALSGPKALKHLFFIQT-GISSIDFIPLHNQKTLE  132 (606)
T ss_dssp             CTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCC-CSEECT-TTTSSCTTCCEEECTTS-CCSCGGGSCCTTCTTCC
T ss_pred             CccceEEECCCCccceeChhhccCccccCeeeCCCCc-ccccCh-hhhcccccccEeecccc-CcccCCcchhccCCccc
Confidence            4567777777654444446666777777777777655 444421 46677777777777774 56665 45677777777


Q ss_pred             eeeccCCc
Q 045152          499 ELGMEGSP  506 (533)
Q Consensus       499 ~L~~~~c~  506 (533)
                      +|++++|.
T Consensus       133 ~L~L~~n~  140 (606)
T 3t6q_A          133 SLYLGSNH  140 (606)
T ss_dssp             EEECCSSC
T ss_pred             EEECCCCc
Confidence            77777765

>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=97.28  E-value=0.00034  Score=77.12  Aligned_cols=164  Identities=16%  Similarity=0.232  Sum_probs=89.3

Q ss_pred             CceeechhhHHHHHHHHhCCCc---cCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESS---EQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAK  258 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~---~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~  258 (533)
                      ..++|.+..++.+...+.....   ........+.++|++|+|||++|+.+.+.  ..   ...+.++++......    
T Consensus       458 ~~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~--l~---~~~~~i~~s~~~~~~----  528 (758)
T 1r6b_X          458 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKA--LG---IELLRFDMSEYMERH----  528 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHH--HT---CEEEEEEGGGCSSSS----
T ss_pred             hhccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHH--hc---CCEEEEechhhcchh----
Confidence            4588998888888776643211   01234568999999999999999999863  21   223344443321100    


Q ss_pred             HHHHHhCCCCCCCccH---HHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCC-----------CCCceEEEE
Q 045152          259 AIIEGLGVSASGLSEF---ESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNG-----------HHESKILIT  324 (533)
Q Consensus       259 ~il~~l~~~~~~~~~~---~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~-----------~~gs~IiiT  324 (533)
                       ....+.+........   ..+...++   .....+++||++.....+....|...+..+           .....||.|
T Consensus       529 -~~~~l~g~~~g~~g~~~~~~l~~~~~---~~~~~vl~lDEi~~~~~~~~~~Ll~~le~~~~~~~~g~~~~~~~~~iI~t  604 (758)
T 1r6b_X          529 -TVSRLIGAPPGYVGFDQGGLLTDAVI---KHPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDNNGRKADFRNVVLVMT  604 (758)
T ss_dssp             -CCSSSCCCCSCSHHHHHTTHHHHHHH---HCSSEEEEEETGGGSCHHHHHHHHHHHHHSEEEETTTEEEECTTEEEEEE
T ss_pred             -hHhhhcCCCCCCcCccccchHHHHHH---hCCCcEEEEeCccccCHHHHHHHHHHhcCcEEEcCCCCEEecCCeEEEEe
Confidence             000111111111111   11122222   234678999999776555555555554422           123457777


Q ss_pred             ecchH----------------------HHhhh-----CC-CCeeeCCCCChHhhHHHHHHhh
Q 045152          325 TRDRS----------------------VALQL-----GS-IDIIPVKELAEEECWSLLERLA  358 (533)
Q Consensus       325 tR~~~----------------------v~~~~-----~~-~~~~~l~~L~~~~~~~Lf~~~a  358 (533)
                      |....                      +...+     .. ...+.+.+++.++...++....
T Consensus       605 sN~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~R~~~~i~~~~l~~~~~~~i~~~~l  666 (758)
T 1r6b_X          605 TNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRNRLDNIIWFDHLSTDVIHQVVDKFI  666 (758)
T ss_dssp             ECSSCC-----------------CHHHHHHHSCHHHHTTCSEEEECCCCCHHHHHHHHHHHH
T ss_pred             cCcchhhhhhcccCccccchHHHHHHHHHHhcCHHHHhhCCcceeeCCCCHHHHHHHHHHHH
Confidence            75410                      11111     11 3568899999998888887654

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=97.28  E-value=0.0017  Score=62.59  Aligned_cols=26  Identities=23%  Similarity=0.360  Sum_probs=22.4

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ..+..+.++|++|+|||+||+.+.+.
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            34567889999999999999999974

>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=97.22  E-value=0.00059  Score=76.13  Aligned_cols=135  Identities=18%  Similarity=0.279  Sum_probs=71.2

Q ss_pred             ceeechhhHHHHHHHHhCCCc---cCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHH
Q 045152          183 EVCGRVEEKNELLSKLLCESS---EQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKA  259 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~---~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~  259 (533)
                      .++|.+..++.+...+.....   +.......+.|+|++|+|||++|+.+.+.  ....-...+.++++......     
T Consensus       559 ~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~--~~~~~~~~i~i~~~~~~~~~-----  631 (854)
T 1qvr_A          559 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAAT--LFDTEEAMIRIDMTEYMEKH-----  631 (854)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHH--HHSSGGGEEEECTTTCCSSG-----
T ss_pred             ccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHH--hcCCCCcEEEEechhccchh-----
Confidence            579999988888887754321   01223468999999999999999999863  21111233444444322110     


Q ss_pred             HHHHhCCCCCC---CccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCCC-----------CCceEEEEe
Q 045152          260 IIEGLGVSASG---LSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGH-----------HESKILITT  325 (533)
Q Consensus       260 il~~l~~~~~~---~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~-----------~gs~IiiTt  325 (533)
                      ....+.+....   ......+...+..   ...-+|+||++...+......|...+..+.           .+..||+||
T Consensus       632 ~~s~l~g~~~~~~G~~~~g~l~~~~~~---~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~g~~vd~~~~iiI~ts  708 (854)
T 1qvr_A          632 AVSRLIGAPPGYVGYEEGGQLTEAVRR---RPYSVILFDEIEKAHPDVFNILLQILDDGRLTDSHGRTVDFRNTVIILTS  708 (854)
T ss_dssp             GGGGC--------------CHHHHHHH---CSSEEEEESSGGGSCHHHHHHHHHHHTTTEECCSSSCCEECTTEEEEEEC
T ss_pred             HHHHHcCCCCCCcCccccchHHHHHHh---CCCeEEEEecccccCHHHHHHHHHHhccCceECCCCCEeccCCeEEEEec
Confidence            00111110000   0001112222222   234689999997766555556666554331           244477887


Q ss_pred             cc
Q 045152          326 RD  327 (533)
Q Consensus       326 R~  327 (533)
                      ..
T Consensus       709 n~  710 (854)
T 1qvr_A          709 NL  710 (854)
T ss_dssp             CT
T ss_pred             Cc
Confidence            74

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=97.22  E-value=0.00038  Score=73.69  Aligned_cols=78  Identities=26%  Similarity=0.394  Sum_probs=63.6

Q ss_pred             cccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCc-------ceEEeccCCCCCCCCcCC
Q 045152          419 IMPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRL-------SSLRIEYCPKLKLLPDSL  491 (533)
Q Consensus       419 ilp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L-------~~L~l~~C~~l~~lP~~~  491 (533)
                      .++.|++|.+++| .+..+|. +.  ++|++|+++++ .|..+|  . +..  +|       ++|+|++ .+|..+|+++
T Consensus       158 ~l~~L~~L~Ls~N-~L~~lp~-l~--~~L~~L~Ls~N-~L~~lp--~-~~~--~L~~~~~~L~~L~Ls~-N~l~~lp~~l  226 (571)
T 3cvr_A          158 LPTSLEVLSVRNN-QLTFLPE-LP--ESLEALDVSTN-LLESLP--A-VPV--RNHHSEETEIFFRCRE-NRITHIPENI  226 (571)
T ss_dssp             CCTTCCEEECCSS-CCSCCCC-CC--TTCCEEECCSS-CCSSCC--C-CC----------CCEEEECCS-SCCCCCCGGG
T ss_pred             cCCCcCEEECCCC-CCCCcch-hh--CCCCEEECcCC-CCCchh--h-HHH--hhhcccccceEEecCC-CcceecCHHH
Confidence            3578999999985 4677888 55  89999999976 488888  4 433  77       9999999 4899999999


Q ss_pred             CCCCCcceeeccCCch
Q 045152          492 LQITTLKELGMEGSPL  507 (533)
Q Consensus       492 ~~l~~L~~L~~~~c~~  507 (533)
                      .++++|++|++++|+.
T Consensus       227 ~~l~~L~~L~L~~N~l  242 (571)
T 3cvr_A          227 LSLDPTCTIILEDNPL  242 (571)
T ss_dssp             GGSCTTEEEECCSSSC
T ss_pred             hcCCCCCEEEeeCCcC
Confidence            9999999999999984

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=97.20  E-value=0.00033  Score=68.17  Aligned_cols=118  Identities=15%  Similarity=0.137  Sum_probs=57.0

Q ss_pred             hHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCC
Q 045152          190 EKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSAS  269 (533)
Q Consensus       190 e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~  269 (533)
                      ..+.+.+++.....   .....+.|+|++|+|||+||..+++.... ..-..+.+++++      ++...+...+.... 
T Consensus       136 ~~~~~~~~i~~~~~---~~~~~lll~G~~GtGKT~La~aia~~~~~-~~g~~v~~~~~~------~l~~~l~~~~~~~~-  204 (308)
T 2qgz_A          136 AFSAILDFVEQYPS---AEQKGLYLYGDMGIGKSYLLAAMAHELSE-KKGVSTTLLHFP------SFAIDVKNAISNGS-  204 (308)
T ss_dssp             HHHHHHHHHHHCSC---SSCCEEEEECSTTSSHHHHHHHHHHHHHH-HSCCCEEEEEHH------HHHHHHHCCCC----
T ss_pred             HHHHHHHHHHhccc---cCCceEEEECCCCCCHHHHHHHHHHHHHH-hcCCcEEEEEHH------HHHHHHHHHhccch-
Confidence            34455555543221   12467889999999999999999974220 222344555432      33443332221110 


Q ss_pred             CCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccch--hhh-cccCC-CCCceEEEEecc
Q 045152          270 GLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNP--FFS-CLKNG-HHESKILITTRD  327 (533)
Q Consensus       270 ~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~--l~~-~l~~~-~~gs~IiiTtR~  327 (533)
                          .......    +. +.-+|||||+.......|..  +.. .+... ..+..+|+||..
T Consensus       205 ----~~~~~~~----~~-~~~lLiiDdig~~~~~~~~~~~ll~~ll~~r~~~~~~~IitSN~  257 (308)
T 2qgz_A          205 ----VKEEIDA----VK-NVPVLILDDIGAEQATSWVRDEVLQVILQYRMLEELPTFFTSNY  257 (308)
T ss_dssp             -----CCTTHH----HH-TSSEEEEETCCC------CTTTTHHHHHHHHHHHTCCEEEEESS
T ss_pred             ----HHHHHHH----hc-CCCEEEEcCCCCCCCCHHHHHHHHHHHHHHHHHCCCcEEEECCC
Confidence                0011111    11 22389999996543333432  322 22211 234568888874

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A

Probab=97.17  E-value=0.00044  Score=71.51  Aligned_cols=79  Identities=11%  Similarity=0.174  Sum_probs=67.7

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcce
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKE  499 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~  499 (533)
                      ++.++.|.+..+ .+..+|. +..+++|++|++++|. +..+|  + ++.+++|++|++++| .+..+|+ +.++++|++
T Consensus        45 l~~l~~L~l~~~-~i~~l~~-~~~l~~L~~L~Ls~n~-l~~~~--~-~~~l~~L~~L~l~~n-~l~~~~~-~~~l~~L~~  116 (466)
T 1o6v_A           45 LDQVTTLQADRL-GIKSIDG-VEYLNNLTQINFSNNQ-LTDIT--P-LKNLTKLVDILMNNN-QIADITP-LANLTNLTG  116 (466)
T ss_dssp             HHTCCEEECCSS-CCCCCTT-GGGCTTCCEEECCSSC-CCCCG--G-GTTCTTCCEEECCSS-CCCCCGG-GTTCTTCCE
T ss_pred             hccccEEecCCC-CCccCcc-hhhhcCCCEEECCCCc-cCCch--h-hhccccCCEEECCCC-ccccChh-hcCCCCCCE
Confidence            567888988874 5677774 7889999999999876 88888  4 889999999999996 7888887 999999999


Q ss_pred             eeccCCc
Q 045152          500 LGMEGSP  506 (533)
Q Consensus       500 L~~~~c~  506 (533)
                      |++++|.
T Consensus       117 L~L~~n~  123 (466)
T 1o6v_A          117 LTLFNNQ  123 (466)
T ss_dssp             EECCSSC
T ss_pred             EECCCCC
Confidence            9999885

>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=97.17  E-value=0.003  Score=68.90  Aligned_cols=180  Identities=13%  Similarity=0.062  Sum_probs=97.9

Q ss_pred             ceeechhhHHHHHHHHhC----CCc---cCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHH
Q 045152          183 EVCGRVEEKNELLSKLLC----ESS---EQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIR  255 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~----~~~---~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~  255 (533)
                      ++.|-++.+++|.+.+.-    .+-   -+-..++-|.++|++|.|||+||+.+.+.  ...+   .+.|+.+      +
T Consensus       205 dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~e--lg~~---~~~v~~~------~  273 (806)
T 3cf2_A          205 DIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANE--TGAF---FFLINGP------E  273 (806)
T ss_dssp             GCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTT--TTCE---EEEEEHH------H
T ss_pred             hhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHH--hCCe---EEEEEhH------H
Confidence            578888888888776521    110   01234678999999999999999999974  2222   2333321      1


Q ss_pred             HHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCc------ccc-----chhhhcccC--CCCCceEE
Q 045152          256 VAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDY------KKW-----NPFFSCLKN--GHHESKIL  322 (533)
Q Consensus       256 l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~------~~~-----~~l~~~l~~--~~~gs~Ii  322 (533)
                          +...     ........+...+.......+.+|+||+++..-.      ...     ..+...+..  ...+..||
T Consensus       274 ----l~sk-----~~gese~~lr~lF~~A~~~~PsIIfIDEiDal~~~r~~~~~~~~~riv~~LL~~mdg~~~~~~V~VI  344 (806)
T 3cf2_A          274 ----IMSK-----LAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVM  344 (806)
T ss_dssp             ----HHSS-----CTTHHHHHHHHHHHHHTTSCSEEEEEESGGGTCCTTTTCCCTTHHHHHHHHHTHHHHCCGGGCEEEE
T ss_pred             ----hhcc-----cchHHHHHHHHHHHHHHHcCCeEEEEehhcccccccCCCCChHHHHHHHHHHHHHhcccccCCEEEE
Confidence                1111     0111222333344444456789999999954210      111     112222211  12234455


Q ss_pred             EEecchHHH-hhh----CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcch
Q 045152          323 ITTRDRSVA-LQL----GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLA  387 (533)
Q Consensus       323 iTtR~~~v~-~~~----~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLa  387 (533)
                      .||...+.. ..+    .....+++...+.++-.++|+.+.- ........+    ...|++++.|.--|
T Consensus       345 aaTN~~d~LD~ALrR~GRFd~~I~i~~Pd~~~R~~IL~~~l~-~~~~~~dvd----l~~lA~~T~Gfsga  409 (806)
T 3cf2_A          345 AATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTK-NMKLADDVD----LEQVANETHGHVGA  409 (806)
T ss_dssp             EECSSTTTSCTTTTSTTSSCEEEECCCCCHHHHHHHHHHTCS-SSEECTTCC----HHHHHHHCCSCCHH
T ss_pred             EecCChhhcCHHHhCCcccceEEecCCCCHHHHHHHHHHHhc-CCCCCcccC----HHHHHHhcCCCCHH
Confidence            566554322 211    1245788999999998899887653 111112222    35677888887644

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=97.15  E-value=0.00056  Score=67.28  Aligned_cols=152  Identities=17%  Similarity=0.165  Sum_probs=82.3

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAII  261 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il  261 (533)
                      ..++|+++.++.+...+...        ..+.++|++|+|||+||+.+.+.  ....   ...+.........++.....
T Consensus        27 ~~i~g~~~~~~~l~~~l~~~--------~~vll~G~pGtGKT~la~~la~~--~~~~---~~~i~~~~~~~~~~l~g~~~   93 (331)
T 2r44_A           27 KVVVGQKYMINRLLIGICTG--------GHILLEGVPGLAKTLSVNTLAKT--MDLD---FHRIQFTPDLLPSDLIGTMI   93 (331)
T ss_dssp             TTCCSCHHHHHHHHHHHHHT--------CCEEEESCCCHHHHHHHHHHHHH--TTCC---EEEEECCTTCCHHHHHEEEE
T ss_pred             cceeCcHHHHHHHHHHHHcC--------CeEEEECCCCCcHHHHHHHHHHH--hCCC---eEEEecCCCCChhhcCCcee
Confidence            35789999998888887542        35889999999999999999863  2222   22333333332222211100


Q ss_pred             HHhCCCCCCCccHHHHHHHHHHHhCC--ceEEEEEeCCCCCCccccchhhhcccC-----------CCCCceEEEEecch
Q 045152          262 EGLGVSASGLSEFESLMKQIQEYITR--KKFFLVLDDVWDGDYKKWNPFFSCLKN-----------GHHESKILITTRDR  328 (533)
Q Consensus       262 ~~l~~~~~~~~~~~~l~~~l~~~l~~--kr~LlVLDdv~~~~~~~~~~l~~~l~~-----------~~~gs~IiiTtR~~  328 (533)
                        +. .......          ...+  ...+++||+++..+......+...+..           ......||.|+...
T Consensus        94 --~~-~~~~~~~----------~~~g~l~~~vl~iDEi~~~~~~~~~~Ll~~l~~~~~~~~g~~~~~~~~~~viat~np~  160 (331)
T 2r44_A           94 --YN-QHKGNFE----------VKKGPVFSNFILADEVNRSPAKVQSALLECMQEKQVTIGDTTYPLDNPFLVLATQNPV  160 (331)
T ss_dssp             --EE-TTTTEEE----------EEECTTCSSEEEEETGGGSCHHHHHHHHHHHHHSEEEETTEEEECCSSCEEEEEECTT
T ss_pred             --ec-CCCCceE----------eccCcccccEEEEEccccCCHHHHHHHHHHHhcCceeeCCEEEECCCCEEEEEecCCC
Confidence              00 0000000          0000  125899999976554433334333321           12234455555422


Q ss_pred             H------HHh-hhCCCC-eeeCCCCChHhhHHHHHHhhc
Q 045152          329 S------VAL-QLGSID-IIPVKELAEEECWSLLERLAF  359 (533)
Q Consensus       329 ~------v~~-~~~~~~-~~~l~~L~~~~~~~Lf~~~a~  359 (533)
                      .      +.. ...... .+.+.+.+.++-.+++.+...
T Consensus       161 ~~~~~~~l~~~l~~Rf~~~i~i~~p~~~~~~~il~~~~~  199 (331)
T 2r44_A          161 EQEGTYPLPEAQVDRFMMKIHLTYLDKESELEVMRRVSN  199 (331)
T ss_dssp             CCSCCCCCCHHHHTTSSEEEECCCCCHHHHHHHHHHHHC
T ss_pred             cccCcccCCHHHHhheeEEEEcCCCCHHHHHHHHHhccc
Confidence            1      111 112223 588999999999999988763

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=97.13  E-value=0.0008  Score=65.41  Aligned_cols=85  Identities=20%  Similarity=0.123  Sum_probs=44.1

Q ss_pred             ccccceEEEeecCCcccCC----ccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCC--CC--cCC
Q 045152          420 MPCLSVLRVYLCPKLKVLP----DYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKL--LP--DSL  491 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp----~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~--lP--~~~  491 (533)
                      ++.|++|+++++.--...|    ..+..+++|++|+++++. +..+|. ..++.+++|++|+|++|.-...  +|  ..+
T Consensus       116 ~~~L~~L~Ls~n~i~~~~~~~~~~~~~~~~~L~~L~Ls~n~-l~~~~~-~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~  193 (310)
T 4glp_A          116 GLALSSLRLRNVSWATGRSWLAELQQWLKPGLKVLSIAQAH-SPAFSC-EQVRAFPALTSLDLSDNPGLGERGLMAALCP  193 (310)
T ss_dssp             CBCCSSCEEESCCCSSTTSSHHHHHTTBCSCCCEEEEECCS-SCCCCT-TSCCCCTTCCEEECCSCTTCHHHHHHTTSCT
T ss_pred             CCCCCEEEeecccccchhhhhHHHHhhhccCCCEEEeeCCC-cchhhH-HHhccCCCCCEEECCCCCCccchhhhHHHhh
Confidence            4456666666543322222    122345666666666554 444442 3555666777777766532211  22  223


Q ss_pred             CCCCCcceeeccCCc
Q 045152          492 LQITTLKELGMEGSP  506 (533)
Q Consensus       492 ~~l~~L~~L~~~~c~  506 (533)
                      .++++|++|++++|.
T Consensus       194 ~~l~~L~~L~Ls~N~  208 (310)
T 4glp_A          194 HKFPAIQNLALRNTG  208 (310)
T ss_dssp             TSSCCCCSCBCCSSC
T ss_pred             hcCCCCCEEECCCCC
Confidence            456667777776664

>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=97.12  E-value=0.0022  Score=58.62  Aligned_cols=86  Identities=21%  Similarity=0.223  Sum_probs=52.7

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCC------------CCCCCccHH
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGV------------SASGLSEFE  275 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~------------~~~~~~~~~  275 (533)
                      ...++.|+|++|+|||||+..+..     ..-..++|++....++...+.. +...++.            ......+..
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            456899999999999999988875     1224678888766445544432 3332221            111222223


Q ss_pred             HHHHHHHHHhCCceEEEEEeCCCC
Q 045152          276 SLMKQIQEYITRKKFFLVLDDVWD  299 (533)
Q Consensus       276 ~l~~~l~~~l~~kr~LlVLDdv~~  299 (533)
                      .....++..+..+.-++|||.+-.
T Consensus        93 ~~~~~~~~l~~~~~~lliiD~~~~  116 (220)
T 2cvh_A           93 RVIGSLKKTVDSNFALVVVDSITA  116 (220)
T ss_dssp             HHHHHHHHHCCTTEEEEEEECCCC
T ss_pred             HHHHHHHHHhhcCCCEEEEcCcHH
Confidence            344555555544577999999843

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes}

Probab=97.12  E-value=0.00085  Score=69.22  Aligned_cols=77  Identities=21%  Similarity=0.080  Sum_probs=58.3

Q ss_pred             cccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcc
Q 045152          419 IMPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLK  498 (533)
Q Consensus       419 ilp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~  498 (533)
                      -++.|++|.+++|. +..+|  +..+++|++|+++++. +..+|    ++.+++|++|++++| .+..+|  +.++++|+
T Consensus        83 ~l~~L~~L~Ls~N~-l~~~~--~~~l~~L~~L~L~~N~-l~~l~----~~~l~~L~~L~l~~N-~l~~l~--l~~l~~L~  151 (457)
T 3bz5_A           83 QNTNLTYLACDSNK-LTNLD--VTPLTKLTYLNCDTNK-LTKLD----VSQNPLLTYLNCARN-TLTEID--VSHNTQLT  151 (457)
T ss_dssp             TCTTCSEEECCSSC-CSCCC--CTTCTTCCEEECCSSC-CSCCC----CTTCTTCCEEECTTS-CCSCCC--CTTCTTCC
T ss_pred             cCCCCCEEECcCCC-Cceee--cCCCCcCCEEECCCCc-CCeec----CCCCCcCCEEECCCC-ccceec--cccCCcCC
Confidence            36678888888754 56665  6778888888888764 66654    567888888888884 677775  77888888


Q ss_pred             eeeccCCc
Q 045152          499 ELGMEGSP  506 (533)
Q Consensus       499 ~L~~~~c~  506 (533)
                      +|++++|.
T Consensus       152 ~L~l~~n~  159 (457)
T 3bz5_A          152 ELDCHLNK  159 (457)
T ss_dssp             EEECTTCS
T ss_pred             EEECCCCC
Confidence            88888884

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C*

Probab=97.03  E-value=0.00087  Score=66.43  Aligned_cols=77  Identities=26%  Similarity=0.277  Sum_probs=65.9

Q ss_pred             cccceEEEeecCCcccCCcc-ccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcce
Q 045152          421 PCLSVLRVYLCPKLKVLPDY-LLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKE  499 (533)
Q Consensus       421 p~L~~L~l~~c~~l~~lp~~-l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~  499 (533)
                      +.|+.|.++.+..+..+|.. +..+++|++|++++.. |..+|  ..  .+.+|+.|.+.+|.+++.+| .+.+|++|+.
T Consensus       177 ~~L~~l~l~~~n~l~~i~~~~f~~l~~L~~LdLs~N~-l~~lp--~~--~~~~L~~L~~l~~~~l~~lP-~l~~l~~L~~  250 (350)
T 4ay9_X          177 TQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTR-IHSLP--SY--GLENLKKLRARSTYNLKKLP-TLEKLVALME  250 (350)
T ss_dssp             EEEEEEECTTCTTCCCCCTTTTTTEECCSEEECTTSC-CCCCC--SS--SCTTCCEEECTTCTTCCCCC-CTTTCCSCCE
T ss_pred             cchhHHhhccCCcccCCCHHHhccCcccchhhcCCCC-cCccC--hh--hhccchHhhhccCCCcCcCC-CchhCcChhh
Confidence            46788888888899999975 5789999999999764 99999  33  37899999999999999999 5889999999


Q ss_pred             eecc
Q 045152          500 LGME  503 (533)
Q Consensus       500 L~~~  503 (533)
                      +++.
T Consensus       251 l~l~  254 (350)
T 4ay9_X          251 ASLT  254 (350)
T ss_dssp             EECS
T ss_pred             CcCC
Confidence            9985

>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=97.02  E-value=0.00032  Score=67.75  Aligned_cols=70  Identities=17%  Similarity=0.279  Sum_probs=44.9

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEe--CCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHh
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCV--SDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYI  285 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v--s~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l  285 (533)
                      ..+++.|+|++|+||||||.++...     .-..++|+++  .+..+.             -   ..+.+.....+.+.+
T Consensus       122 ~gsviLI~GpPGsGKTtLAlqlA~~-----~G~~VlyIs~~~eE~v~~-------------~---~~~le~~l~~i~~~l  180 (331)
T 2vhj_A          122 ASGMVIVTGKGNSGKTPLVHALGEA-----LGGKDKYATVRFGEPLSG-------------Y---NTDFNVFVDDIARAM  180 (331)
T ss_dssp             ESEEEEEECSCSSSHHHHHHHHHHH-----HHTTSCCEEEEBSCSSTT-------------C---BCCHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHh-----CCCCEEEEEecchhhhhh-------------h---hcCHHHHHHHHHHHH
Confidence            3467789999999999999988763     1224567776  332110             0   033455555555656


Q ss_pred             CCceEEEEEeCCCC
Q 045152          286 TRKKFFLVLDDVWD  299 (533)
Q Consensus       286 ~~kr~LlVLDdv~~  299 (533)
                      ...+ ++|+|++..
T Consensus       181 ~~~~-LLVIDsI~a  193 (331)
T 2vhj_A          181 LQHR-VIVIDSLKN  193 (331)
T ss_dssp             HHCS-EEEEECCTT
T ss_pred             hhCC-EEEEecccc
Confidence            5555 999999954

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium}

Probab=97.00  E-value=0.0014  Score=70.20  Aligned_cols=74  Identities=24%  Similarity=0.279  Sum_probs=37.9

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccC------------------
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYC------------------  481 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C------------------  481 (533)
                      .+.|++|.+++| .+..+|.   .+++|++|+++++. +..+|  .   .+++|++|+|++|                  
T Consensus        60 ~~~L~~L~L~~N-~l~~lp~---~l~~L~~L~Ls~N~-l~~lp--~---~l~~L~~L~Ls~N~l~~l~~~l~~L~~L~L~  129 (622)
T 3g06_A           60 PAHITTLVIPDN-NLTSLPA---LPPELRTLEVSGNQ-LTSLP--V---LPPGLLELSIFSNPLTHLPALPSGLCKLWIF  129 (622)
T ss_dssp             CTTCSEEEECSC-CCSCCCC---CCTTCCEEEECSCC-CSCCC--C---CCTTCCEEEECSCCCCCCCCCCTTCCEEECC
T ss_pred             CCCCcEEEecCC-CCCCCCC---cCCCCCEEEcCCCc-CCcCC--C---CCCCCCEEECcCCcCCCCCCCCCCcCEEECC
Confidence            345666666653 3455554   24555666665543 55555  1   3444444444442                  


Q ss_pred             -CCCCCCCcCCCCCCCcceeeccCCc
Q 045152          482 -PKLKLLPDSLLQITTLKELGMEGSP  506 (533)
Q Consensus       482 -~~l~~lP~~~~~l~~L~~L~~~~c~  506 (533)
                       .+|..+|..   +++|++|++++|.
T Consensus       130 ~N~l~~lp~~---l~~L~~L~Ls~N~  152 (622)
T 3g06_A          130 GNQLTSLPVL---PPGLQELSVSDNQ  152 (622)
T ss_dssp             SSCCSCCCCC---CTTCCEEECCSSC
T ss_pred             CCCCCcCCCC---CCCCCEEECcCCc
Confidence             234455542   2566666666664

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A

Probab=96.97  E-value=0.0014  Score=67.52  Aligned_cols=74  Identities=23%  Similarity=0.281  Sum_probs=33.7

Q ss_pred             ccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcceee
Q 045152          422 CLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKELG  501 (533)
Q Consensus       422 ~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~L~  501 (533)
                      .|++|.+++| .+..+| .+..+++|++|+++++. +..+|.  .   +++|++|++++| ++..+| .+.++++|++|+
T Consensus       132 ~L~~L~L~~n-~l~~lp-~~~~l~~L~~L~l~~N~-l~~lp~--~---~~~L~~L~L~~n-~l~~l~-~~~~l~~L~~L~  201 (454)
T 1jl5_A          132 LLEYLGVSNN-QLEKLP-ELQNSSFLKIIDVDNNS-LKKLPD--L---PPSLEFIAAGNN-QLEELP-ELQNLPFLTAIY  201 (454)
T ss_dssp             TCCEEECCSS-CCSSCC-CCTTCTTCCEEECCSSC-CSCCCC--C---CTTCCEEECCSS-CCSSCC-CCTTCTTCCEEE
T ss_pred             CCCEEECcCC-CCCCCc-ccCCCCCCCEEECCCCc-CcccCC--C---cccccEEECcCC-cCCcCc-cccCCCCCCEEE
Confidence            4555555543 333455 34555555555555442 444441  1   134444444443 344444 344444444444


Q ss_pred             ccCC
Q 045152          502 MEGS  505 (533)
Q Consensus       502 ~~~c  505 (533)
                      +++|
T Consensus       202 l~~N  205 (454)
T 1jl5_A          202 ADNN  205 (454)
T ss_dssp             CCSS
T ss_pred             CCCC
Confidence            4444

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=96.94  E-value=0.00028  Score=62.16  Aligned_cols=73  Identities=14%  Similarity=0.156  Sum_probs=51.3

Q ss_pred             ccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCC-cCCCCC----CCcceeeccCCchhH
Q 045152          435 KVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLP-DSLLQI----TTLKELGMEGSPLLE  509 (533)
Q Consensus       435 ~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP-~~~~~l----~~L~~L~~~~c~~l~  509 (533)
                      ..||.....-..|+.|++++|. +...- +..+..+++|+.|+|++|..+..-- ..+..+    ++|++|++++|+.++
T Consensus        51 ~~LP~~~~~~~~L~~LDLs~~~-Itd~G-L~~L~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~IT  128 (176)
T 3e4g_A           51 NHLPTGPLDKYKIQAIDATDSC-IMSIG-FDHMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVT  128 (176)
T ss_dssp             GGSCCCSTTCCCEEEEEEESCC-CCGGG-GGGGTTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCC
T ss_pred             ccCCcccCCCceEeEEeCcCCC-ccHHH-HHHhcCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCC
Confidence            4566544334689999999998 54321 2356789999999999999885411 112232    479999999999655

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=96.88  E-value=0.0017  Score=68.75  Aligned_cols=71  Identities=25%  Similarity=0.367  Sum_probs=41.7

Q ss_pred             ccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcceee
Q 045152          422 CLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKELG  501 (533)
Q Consensus       422 ~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~L~  501 (533)
                      .|++|.++++ .+..+|.   .+++|++|+++++. +..+|  .   .+++|++|+|++| +|..+|. +.  ++|++|+
T Consensus       121 ~L~~L~Ls~N-~l~~lp~---~l~~L~~L~Ls~N~-l~~lp--~---~l~~L~~L~Ls~N-~L~~lp~-l~--~~L~~L~  186 (571)
T 3cvr_A          121 SLKHLDVDNN-QLTMLPE---LPALLEYINADNNQ-LTMLP--E---LPTSLEVLSVRNN-QLTFLPE-LP--ESLEALD  186 (571)
T ss_dssp             TCCEEECCSS-CCSCCCC---CCTTCCEEECCSSC-CSCCC--C---CCTTCCEEECCSS-CCSCCCC-CC--TTCCEEE
T ss_pred             CCCEEECCCC-cCCCCCC---cCccccEEeCCCCc-cCcCC--C---cCCCcCEEECCCC-CCCCcch-hh--CCCCEEE
Confidence            5555555552 3444554   34566666666543 55555  2   3566777777664 5666776 44  6777777


Q ss_pred             ccCCc
Q 045152          502 MEGSP  506 (533)
Q Consensus       502 ~~~c~  506 (533)
                      +++|.
T Consensus       187 Ls~N~  191 (571)
T 3cvr_A          187 VSTNL  191 (571)
T ss_dssp             CCSSC
T ss_pred             CcCCC
Confidence            76664

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A

Probab=96.79  E-value=0.0023  Score=65.82  Aligned_cols=75  Identities=29%  Similarity=0.391  Sum_probs=42.6

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcce
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKE  499 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~  499 (533)
                      ++.|+.|.+++| .+..+|..   ..+|++|+++++. +..+|   .++.+++|++|++++| ++..+|+.   +++|++
T Consensus       194 l~~L~~L~l~~N-~l~~l~~~---~~~L~~L~l~~n~-l~~lp---~~~~l~~L~~L~l~~N-~l~~l~~~---~~~L~~  261 (454)
T 1jl5_A          194 LPFLTAIYADNN-SLKKLPDL---PLSLESIVAGNNI-LEELP---ELQNLPFLTTIYADNN-LLKTLPDL---PPSLEA  261 (454)
T ss_dssp             CTTCCEEECCSS-CCSSCCCC---CTTCCEEECCSSC-CSSCC---CCTTCTTCCEEECCSS-CCSSCCSC---CTTCCE
T ss_pred             CCCCCEEECCCC-cCCcCCCC---cCcccEEECcCCc-CCccc---ccCCCCCCCEEECCCC-cCCccccc---ccccCE
Confidence            445566665553 23444432   1456666666553 55555   3666777777777763 56666652   356666


Q ss_pred             eeccCCc
Q 045152          500 LGMEGSP  506 (533)
Q Consensus       500 L~~~~c~  506 (533)
                      |++++|.
T Consensus       262 L~l~~N~  268 (454)
T 1jl5_A          262 LNVRDNY  268 (454)
T ss_dssp             EECCSSC
T ss_pred             EECCCCc
Confidence            6666554

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=96.75  E-value=0.017  Score=59.63  Aligned_cols=175  Identities=17%  Similarity=0.123  Sum_probs=89.1

Q ss_pred             CceeechhhHHHHHHHHh---CCCcc---CCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHH
Q 045152          182 GEVCGRVEEKNELLSKLL---CESSE---QQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIR  255 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~---~~~~~---~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~  255 (533)
                      .+++|.++.+.++.+...   ....-   +-.-.+-+.|+|++|+||||||+.+...  ..   ...+.++.+.-..   
T Consensus        31 ~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~--~~---~~~i~i~g~~~~~---  102 (499)
T 2dhr_A           31 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGE--AR---VPFITASGSDFVE---  102 (499)
T ss_dssp             TSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHH--TT---CCEEEEEGGGGTS---
T ss_pred             HHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHH--hC---CCEEEEehhHHHH---
Confidence            468999887766665432   11000   0011233899999999999999999863  22   2233343321110   


Q ss_pred             HHHHHHHHhCCCCCCCccHHHHHHHHHHHhC----CceEEEEEeCCCCCCc----------ccc----chhhhcccCC--
Q 045152          256 VAKAIIEGLGVSASGLSEFESLMKQIQEYIT----RKKFFLVLDDVWDGDY----------KKW----NPFFSCLKNG--  315 (533)
Q Consensus       256 l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~----~kr~LlVLDdv~~~~~----------~~~----~~l~~~l~~~--  315 (533)
                                 .  .   .......+...+.    ..+.++++|+++....          ..+    ..+...+..+  
T Consensus       103 -----------~--~---~g~~~~~v~~lfq~a~~~~p~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ldg~~~  166 (499)
T 2dhr_A          103 -----------M--F---VGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEK  166 (499)
T ss_dssp             -----------S--C---TTHHHHHHHHHTTTSSSSSSCEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGGGCCS
T ss_pred             -----------h--h---hhhHHHHHHHHHHHHHhcCCCEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhccccc
Confidence                       0  0   0011122222222    2357999999954211          011    1222222222  


Q ss_pred             CCCceEEEEecchHHHhh-h----CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCc
Q 045152          316 HHESKILITTRDRSVALQ-L----GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLP  385 (533)
Q Consensus       316 ~~gs~IiiTtR~~~v~~~-~----~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlP  385 (533)
                      ..+..++.||..+.+... +    .....+.++..+.++-.+++..++- .........    ...|+..+.|+.
T Consensus       167 ~~~viviAatn~p~~LD~aLlr~gRfdr~i~i~~Pd~~~R~~IL~~~~~-~~~l~~dv~----l~~lA~~t~G~~  236 (499)
T 2dhr_A          167 DTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHAR-GKPLAEDVD----LALLAKRTPGFV  236 (499)
T ss_dssp             SCCCEEEECCSCGGGSCTTTSSTTSSCCEEECCCCCHHHHHHHHHHTTS-SSCCCCSST----THHHHTTSCSCC
T ss_pred             CccEEEEEecCChhhcCcccccccccceEEecCCCCHHHHHHHHHHHHh-cCCCChHHH----HHHHHHhcCCCC
Confidence            223445556666654221 1    1245788888898888888876642 111111111    245677777766

>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=96.70  E-value=0.008  Score=56.40  Aligned_cols=178  Identities=15%  Similarity=0.121  Sum_probs=86.6

Q ss_pred             CceeechhhHHHHHHHHhCCCcc------CCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSE------QQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIR  255 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~------~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~  255 (533)
                      .+++|.+..+.++.+....-...      .-.-.+-+.|+|++|+|||||++.+....  .   ...+.++.      .+
T Consensus        16 ~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~--~---~~~i~~~~------~~   84 (254)
T 1ixz_A           16 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA--R---VPFITASG------SD   84 (254)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHT--T---CCEEEEEH------HH
T ss_pred             HHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHh--C---CCEEEeeH------HH
Confidence            36788877666555443211000      00011228999999999999999998632  2   12233321      11


Q ss_pred             HHHHHHHHhCCCCCCCccHHHHHHHHHHHh-CCceEEEEEeCCCCCC----------cccc----chhhhcccCCC--CC
Q 045152          256 VAKAIIEGLGVSASGLSEFESLMKQIQEYI-TRKKFFLVLDDVWDGD----------YKKW----NPFFSCLKNGH--HE  318 (533)
Q Consensus       256 l~~~il~~l~~~~~~~~~~~~l~~~l~~~l-~~kr~LlVLDdv~~~~----------~~~~----~~l~~~l~~~~--~g  318 (533)
                      +    ....      ..........+.+.. .....++++|+++...          ...+    ..+...+..+.  ..
T Consensus        85 ~----~~~~------~~~~~~~i~~~~~~~~~~~~~i~~~Deid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~g~~~~~~  154 (254)
T 1ixz_A           85 F----VEMF------VGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTA  154 (254)
T ss_dssp             H----HHSC------TTHHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCC
T ss_pred             H----HHHH------hhHHHHHHHHHHHHHHhcCCeEEEehhhhhhhcccCccccccchHHHHHHHHHHHHHhCCCCCCC
Confidence            1    1110      001111122222332 3456899999994210          0011    12222222221  12


Q ss_pred             ceEEEEecchHHHhh-h----CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCc
Q 045152          319 SKILITTRDRSVALQ-L----GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLP  385 (533)
Q Consensus       319 s~IiiTtR~~~v~~~-~----~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlP  385 (533)
                      ..++.||..+.+... .    .....+.++..+.++-.+++...+- +........    ...+++.+.|.-
T Consensus       155 ~i~~a~t~~p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~-~~~~~~~~~----~~~la~~~~G~~  221 (254)
T 1ixz_A          155 IVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHAR-GKPLAEDVD----LALLAKRTPGFV  221 (254)
T ss_dssp             EEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHT-TSCBCTTCC----HHHHHHTCTTCC
T ss_pred             EEEEEccCCchhCCHHHcCCCcCCeEEeeCCcCHHHHHHHHHHHHc-CCCCCcccC----HHHHHHHcCCCC
Confidence            234446665544321 1    1245688888898888888876652 111111111    345777887765

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=96.69  E-value=0.011  Score=56.12  Aligned_cols=126  Identities=17%  Similarity=0.122  Sum_probs=66.6

Q ss_pred             EEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHh-CCceE
Q 045152          212 ISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYI-TRKKF  290 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l-~~kr~  290 (533)
                      +.|+|++|.||||||+.+....  ..   ..+.+....-.+                ............+.+.. ...+.
T Consensus        47 vlL~Gp~GtGKTtLakala~~~--~~---~~i~i~g~~l~~----------------~~~~~~~~~i~~vf~~a~~~~p~  105 (274)
T 2x8a_A           47 VLLAGPPGCGKTLLAKAVANES--GL---NFISVKGPELLN----------------MYVGESERAVRQVFQRAKNSAPC  105 (274)
T ss_dssp             EEEESSTTSCHHHHHHHHHHHT--TC---EEEEEETTTTCS----------------STTHHHHHHHHHHHHHHHHTCSE
T ss_pred             EEEECCCCCcHHHHHHHHHHHc--CC---CEEEEEcHHHHh----------------hhhhHHHHHHHHHHHHHHhcCCC
Confidence            8999999999999999998632  11   234443221110                00001111122222222 34578


Q ss_pred             EEEEeCCCCCCc-------ccc----chhhhcccCC--CCCceEEEEecchHHHhhh-----CCCCeeeCCCCChHhhHH
Q 045152          291 FLVLDDVWDGDY-------KKW----NPFFSCLKNG--HHESKILITTRDRSVALQL-----GSIDIIPVKELAEEECWS  352 (533)
Q Consensus       291 LlVLDdv~~~~~-------~~~----~~l~~~l~~~--~~gs~IiiTtR~~~v~~~~-----~~~~~~~l~~L~~~~~~~  352 (533)
                      ++++|++.....       ...    ..+...+..+  ....-++.+|..+.+....     .....+.++..+.++-.+
T Consensus       106 i~~~Deid~~~~~r~~~~~~~~~~~~~~~l~~Lsgg~~~~~~i~ia~tn~p~~LD~al~r~gRfd~~i~~~~P~~~~r~~  185 (274)
T 2x8a_A          106 VIFFDEVDALCPRRSDRETGASVRVVNQLLTEMDGLEARQQVFIMAATNRPDIIDPAILRPGRLDKTLFVGLPPPADRLA  185 (274)
T ss_dssp             EEEEETCTTTCC---------CTTHHHHHHHHHHTCCSTTCEEEEEEESCGGGSCHHHHSTTSSCEEEECCSCCHHHHHH
T ss_pred             eEeeehhhhhhcccCCCcchHHHHHHHHHHHhhhcccccCCEEEEeecCChhhCCHhhcCcccCCeEEEeCCcCHHHHHH
Confidence            999999964210       011    1111222221  1233355566665443221     225678899999999999


Q ss_pred             HHHHhh
Q 045152          353 LLERLA  358 (533)
Q Consensus       353 Lf~~~a  358 (533)
                      +|+...
T Consensus       186 il~~~~  191 (274)
T 2x8a_A          186 ILKTIT  191 (274)
T ss_dssp             HHHHHT
T ss_pred             HHHHHH
Confidence            998765

>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=96.63  E-value=0.016  Score=57.06  Aligned_cols=157  Identities=9%  Similarity=-0.016  Sum_probs=97.4

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHH-HhC
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQE-YIT  286 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~-~l~  286 (533)
                      -..+..++|+.|.||++.++.+.+.. ....|+....+.+....+                     ..++.+.+.. -+-
T Consensus        17 ~~~~yl~~G~e~~~~~~~~~~l~~~~-~~~~~~~~~~~~~~~~~~---------------------~~~l~~~~~~~plf   74 (343)
T 1jr3_D           17 LRAAYLLLGNDPLLLQESQDAVRQVA-AAQGFEEHHTFSIDPNTD---------------------WNAIFSLCQAMSLF   74 (343)
T ss_dssp             CCSEEEEEESCHHHHHHHHHHHHHHH-HHHTCCEEEEEECCTTCC---------------------HHHHHHHHHHHHHC
T ss_pred             CCcEEEEECCcHHHHHHHHHHHHHHH-HhCCCCeeEEEEecCCCC---------------------HHHHHHHhcCcCCc
Confidence            35688899999999999998887631 123443322222222222                     2333322221 234


Q ss_pred             CceEEEEEeCCCC-CCccccchhhhcccCCCCCceEEEEecc-------hHHHhhh-CCCCeeeCCCCChHhhHHHHHHh
Q 045152          287 RKKFFLVLDDVWD-GDYKKWNPFFSCLKNGHHESKILITTRD-------RSVALQL-GSIDIIPVKELAEEECWSLLERL  357 (533)
Q Consensus       287 ~kr~LlVLDdv~~-~~~~~~~~l~~~l~~~~~gs~IiiTtR~-------~~v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~  357 (533)
                      +++-++|+|+++. .+...++.+...+....+++.+|+++..       ..+...+ .....++..+++.++....+.+.
T Consensus        75 ~~~kvvii~~~~~kl~~~~~~aLl~~le~p~~~~~~il~~~~~~~~~~~~k~~~~i~sr~~~~~~~~l~~~~l~~~l~~~  154 (343)
T 1jr3_D           75 ASRQTLLLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTCQTPEQAQLPRWVAAR  154 (343)
T ss_dssp             CSCEEEEEECCSSCCCTTHHHHHHHHHTTCBTTEEEEEEESCCCTTTTTSHHHHHHTTTCEEEEECCCCTTHHHHHHHHH
T ss_pred             cCCeEEEEECCCCCCChHHHHHHHHHHhcCCCCeEEEEEcCCCChhhHhhHHHHHHHhCceEEEeeCCCHHHHHHHHHHH
Confidence            5677889999976 5556677788877766667777776643       2333333 23567888999999988888776


Q ss_pred             hccCCCccccccchHHHHHHHhHhCCCcchhHH
Q 045152          358 AFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKV  390 (533)
Q Consensus       358 a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~  390 (533)
                      +-..+ .   .--.+....+++.++|.+..+..
T Consensus       155 ~~~~g-~---~i~~~a~~~l~~~~~gdl~~~~~  183 (343)
T 1jr3_D          155 AKQLN-L---ELDDAANQVLCYCYEGNLLALAQ  183 (343)
T ss_dssp             HHHTT-C---EECHHHHHHHHHSSTTCHHHHHH
T ss_pred             HHHcC-C---CCCHHHHHHHHHHhchHHHHHHH
Confidence            53111 1   11235567788889998877654

>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral twinning, leucine-rich repeat protein, LRR, merohedral twinning; 2.2A {Schizosaccharomyces pombe} SCOP: c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A

Probab=96.54  E-value=0.00026  Score=71.28  Aligned_cols=84  Identities=20%  Similarity=0.263  Sum_probs=66.5

Q ss_pred             ccccceEEEeecCCc----ccCCccccccCccceeecccCCCCCC-----CCCccCC--CCCCCcceEEeccCCCCCC--
Q 045152          420 MPCLSVLRVYLCPKL----KVLPDYLLQTTTLQKLRILQCPSMEE-----LPILEDH--IFLPRLSSLRIEYCPKLKL--  486 (533)
Q Consensus       420 lp~L~~L~l~~c~~l----~~lp~~l~~l~~L~~L~l~~~~~l~~-----lp~~~~~--~~l~~L~~L~l~~C~~l~~--  486 (533)
                      ++.|++|.+++|.--    ..+|..+..+++|++|++++|. +..     +|  ..+  +.+++|++|+|++| .+..  
T Consensus       215 ~~~L~~L~Ls~n~l~~~g~~~l~~~l~~~~~L~~L~L~~n~-i~~~~~~~l~--~~l~~~~~~~L~~L~L~~n-~i~~~g  290 (386)
T 2ca6_A          215 CQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDCL-LSARGAAAVV--DAFSKLENIGLQTLRLQYN-EIELDA  290 (386)
T ss_dssp             CTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEECTTCC-CCHHHHHHHH--HHHHTCSSCCCCEEECCSS-CCBHHH
T ss_pred             CCCccEEECcCCCCCcHHHHHHHHHHccCCCcCEEECCCCC-CchhhHHHHH--HHHhhccCCCeEEEECcCC-cCCHHH
Confidence            678999999987642    6678888889999999999887 543     34  344  45899999999996 5665  


Q ss_pred             ---CCcCC-CCCCCcceeeccCCch
Q 045152          487 ---LPDSL-LQITTLKELGMEGSPL  507 (533)
Q Consensus       487 ---lP~~~-~~l~~L~~L~~~~c~~  507 (533)
                         +|..+ .++++|++|++++|+.
T Consensus       291 ~~~l~~~l~~~l~~L~~L~l~~N~l  315 (386)
T 2ca6_A          291 VRTLKTVIDEKMPDLLFLELNGNRF  315 (386)
T ss_dssp             HHHHHHHHHHHCTTCCEEECTTSBS
T ss_pred             HHHHHHHHHhcCCCceEEEccCCcC
Confidence               88877 6689999999998873

>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=96.51  E-value=0.0018  Score=59.51  Aligned_cols=112  Identities=13%  Similarity=0.002  Sum_probs=60.6

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCC--CccHHHHHHHHHHHh
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASG--LSEFESLMKQIQEYI  285 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~--~~~~~~l~~~l~~~l  285 (533)
                      ...++.|.|..|+||||++..+...  ...+-..++.+.......   ....+++.++.....  .....++...+.+.+
T Consensus        11 ~G~i~litG~mGsGKTT~ll~~~~r--~~~~g~kVli~~~~~d~r---~~~~i~srlG~~~~~~~~~~~~~i~~~i~~~~   85 (223)
T 2b8t_A           11 IGWIEFITGPMFAGKTAELIRRLHR--LEYADVKYLVFKPKIDTR---SIRNIQSRTGTSLPSVEVESAPEILNYIMSNS   85 (223)
T ss_dssp             CCEEEEEECSTTSCHHHHHHHHHHH--HHHTTCCEEEEEECCCGG---GCSSCCCCCCCSSCCEEESSTHHHHHHHHSTT
T ss_pred             CcEEEEEECCCCCcHHHHHHHHHHH--HHhcCCEEEEEEeccCch---HHHHHHHhcCCCccccccCCHHHHHHHHHHHh
Confidence            4578999999999999999776653  222322344443332211   112334444432111  123344555555555


Q ss_pred             CCce-EEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecc
Q 045152          286 TRKK-FFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRD  327 (533)
Q Consensus       286 ~~kr-~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~  327 (533)
                      .+.+ -+||+|.+.....+..+.+ ..+.+  .|..||+|-+.
T Consensus        86 ~~~~~dvViIDEaQ~l~~~~ve~l-~~L~~--~gi~Vil~Gl~  125 (223)
T 2b8t_A           86 FNDETKVIGIDEVQFFDDRICEVA-NILAE--NGFVVIISGLD  125 (223)
T ss_dssp             SCTTCCEEEECSGGGSCTHHHHHH-HHHHH--TTCEEEEECCS
T ss_pred             hCCCCCEEEEecCccCcHHHHHHH-HHHHh--CCCeEEEEecc
Confidence            4444 4999999954332323333 22222  26789998884

>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=96.50  E-value=0.0063  Score=60.02  Aligned_cols=85  Identities=19%  Similarity=0.234  Sum_probs=54.7

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCC-----CCccHHHHHHHH
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSAS-----GLSEFESLMKQI  281 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~-----~~~~~~~l~~~l  281 (533)
                      ....++.|.|++|+|||||+.++....  ...-..++|++....++..     .++.++....     ...+.++....+
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            356799999999999999998887642  2222357788877666544     4444544321     123455555555


Q ss_pred             HHHhC-CceEEEEEeCCC
Q 045152          282 QEYIT-RKKFFLVLDDVW  298 (533)
Q Consensus       282 ~~~l~-~kr~LlVLDdv~  298 (533)
                      ...++ .+.-++|+|.+-
T Consensus       132 ~~l~~~~~~dlvVIDSi~  149 (356)
T 3hr8_A          132 DELVRSGVVDLIVVDSVA  149 (356)
T ss_dssp             HHHHHTSCCSEEEEECTT
T ss_pred             HHHhhhcCCCeEEehHhh
Confidence            55543 455689999983

>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral twinning, leucine-rich repeat protein, LRR, merohedral twinning; 2.2A {Schizosaccharomyces pombe} SCOP: c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A

Probab=96.48  E-value=0.00052  Score=68.98  Aligned_cols=84  Identities=18%  Similarity=0.202  Sum_probs=55.5

Q ss_pred             ccccceEEEeecCCcc-----cCCccccccCccceeecccCCCC-----CCCCCccCCCCCCCcceEEeccCCCCCC---
Q 045152          420 MPCLSVLRVYLCPKLK-----VLPDYLLQTTTLQKLRILQCPSM-----EELPILEDHIFLPRLSSLRIEYCPKLKL---  486 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~-----~lp~~l~~l~~L~~L~l~~~~~l-----~~lp~~~~~~~l~~L~~L~l~~C~~l~~---  486 (533)
                      ++.|+.|.+++|.--.     -.|..+..+++|++|+++++. +     ..+|  ..+..+++|++|+|++|. +..   
T Consensus       186 ~~~L~~L~L~~n~l~~~g~~~l~~~~l~~~~~L~~L~Ls~n~-l~~~g~~~l~--~~l~~~~~L~~L~L~~n~-i~~~~~  261 (386)
T 2ca6_A          186 HRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNT-FTHLGSSALA--IALKSWPNLRELGLNDCL-LSARGA  261 (386)
T ss_dssp             CTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSC-CHHHHHHHHH--HHGGGCTTCCEEECTTCC-CCHHHH
T ss_pred             CCCcCEEECcCCCCCHhHHHHHHHHHhhcCCCccEEECcCCC-CCcHHHHHHH--HHHccCCCcCEEECCCCC-CchhhH
Confidence            4577778877753221     123366677788888888765 4     4456  466677888888888864 443   


Q ss_pred             --CCcCC--CCCCCcceeeccCCch
Q 045152          487 --LPDSL--LQITTLKELGMEGSPL  507 (533)
Q Consensus       487 --lP~~~--~~l~~L~~L~~~~c~~  507 (533)
                        +|+.+  .++++|++|++++|..
T Consensus       262 ~~l~~~l~~~~~~~L~~L~L~~n~i  286 (386)
T 2ca6_A          262 AAVVDAFSKLENIGLQTLRLQYNEI  286 (386)
T ss_dssp             HHHHHHHHTCSSCCCCEEECCSSCC
T ss_pred             HHHHHHHhhccCCCeEEEECcCCcC
Confidence              45555  3478888888888763

>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=96.48  E-value=0.0086  Score=59.86  Aligned_cols=23  Identities=39%  Similarity=0.400  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+.++|++|+|||++|+.+.+
T Consensus        72 ~~~ill~Gp~GtGKT~la~~la~   94 (376)
T 1um8_A           72 KSNILLIGPTGSGKTLMAQTLAK   94 (376)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCEEEECCCCCCHHHHHHHHHH
Confidence            45688999999999999999986

>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=96.47  E-value=0.012  Score=57.98  Aligned_cols=90  Identities=17%  Similarity=0.217  Sum_probs=54.0

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhc----cCCceEEEEeCCchhHHHHHHHHHHHhCCCC------------CC
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKR----NFEKVIWVCVSDTFEEIRVAKAIIEGLGVSA------------SG  270 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~----~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~------------~~  270 (533)
                      ....++.|+|.+|+||||||..+........    .-..++|++....++...+.. ++..++...            ..
T Consensus       120 ~~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~~~~~~~l~~-~~~~~g~~~~~~l~~l~~~~~~~  198 (343)
T 1v5w_A          120 ESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRD-IADRFNVDHDAVLDNVLYARAYT  198 (343)
T ss_dssp             CSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHHHH-HHHHTTCCHHHHHHTEEEEECCS
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHH-HHHHcCCCHHHHHhceeEeecCC
Confidence            4567999999999999999988775321111    234688999887766665543 344443321            11


Q ss_pred             CccHHHHHHHHHHHhC---CceEEEEEeCC
Q 045152          271 LSEFESLMKQIQEYIT---RKKFFLVLDDV  297 (533)
Q Consensus       271 ~~~~~~l~~~l~~~l~---~kr~LlVLDdv  297 (533)
                      ......+...+...+.   .+.-+||+|.+
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            1222233333444442   45668888888

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=96.46  E-value=0.007  Score=56.13  Aligned_cols=90  Identities=19%  Similarity=0.222  Sum_probs=51.7

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhc----cCCceEEEEeCCchhHHHHHHHHHHHhCCCCC---------CCccH
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKR----NFEKVIWVCVSDTFEEIRVAKAIIEGLGVSAS---------GLSEF  274 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~----~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~---------~~~~~  274 (533)
                      ...++.|+|++|+|||||+..+........    .-..++|++....++...+. .+++.++....         ...+.
T Consensus        23 ~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~~~~~~~~~-~~~~~~g~~~~~~~~~~~~~~~~~~  101 (243)
T 1n0w_A           23 TGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLL-AVAERYGLSGSDVLDNVAYARAFNT  101 (243)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHH-HHHHHTTCCHHHHHHTEEEEECCSH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCCCcCHHHHH-HHHHHcCCCHHHHhhCeEEEecCCH
Confidence            456899999999999999988875311111    13568888876654444332 33444433210         01112


Q ss_pred             H---HHHHHHHHHhC-CceEEEEEeCCC
Q 045152          275 E---SLMKQIQEYIT-RKKFFLVLDDVW  298 (533)
Q Consensus       275 ~---~l~~~l~~~l~-~kr~LlVLDdv~  298 (533)
                      .   .....+.+.+. .+.-++|||++.
T Consensus       102 ~~~~~~~~~~~~~~~~~~~~lliiD~~~  129 (243)
T 1n0w_A          102 DHQTQLLYQASAMMVESRYALLIVDSAT  129 (243)
T ss_dssp             HHHHHHHHHHHHHHHHSCEEEEEEETSS
T ss_pred             HHHHHHHHHHHHHHhcCCceEEEEeCch
Confidence            2   22233444443 467789999984

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=96.32  E-value=0.01  Score=56.57  Aligned_cols=179  Identities=13%  Similarity=0.068  Sum_probs=86.9

Q ss_pred             CceeechhhHHHHHHHHhCCCcc------CCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSE------QQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIR  255 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~------~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~  255 (533)
                      .+++|.++.++++.+....-...      .-.-.+-+.|+|++|+|||||++.+....  .   ...+.++.      .+
T Consensus        40 ~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~--~---~~~i~~~~------~~  108 (278)
T 1iy2_A           40 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA--R---VPFITASG------SD  108 (278)
T ss_dssp             GGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHT--T---CCEEEEEH------HH
T ss_pred             HHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHc--C---CCEEEecH------HH
Confidence            46788887766665543211000      00011228999999999999999998632  2   22333321      11


Q ss_pred             HHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCC----------ccccc----hhhhcccCCCC--Cc
Q 045152          256 VAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGD----------YKKWN----PFFSCLKNGHH--ES  319 (533)
Q Consensus       256 l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~----------~~~~~----~l~~~l~~~~~--gs  319 (533)
                      +.    ....     ......+...++..-...+.++++|++....          ...+.    .+...+..+..  ..
T Consensus       109 ~~----~~~~-----~~~~~~i~~~~~~~~~~~~~i~~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~lsgg~~~~~~  179 (278)
T 1iy2_A          109 FV----EMFV-----GVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAI  179 (278)
T ss_dssp             HH----HSTT-----THHHHHHHHHHHHHHTSCSEEEEEETHHHHHCC--------CHHHHHHHHHHHHHHTTCCTTCCE
T ss_pred             HH----HHHh-----hHHHHHHHHHHHHHHhcCCcEEehhhhHhhhcccccccCCcchHHHHHHHHHHHHHhCCCCCCCE
Confidence            11    1100     0001112222222223456899999994210          00111    12222222211  22


Q ss_pred             eEEEEecchHHHh-----hhCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCc
Q 045152          320 KILITTRDRSVAL-----QLGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLP  385 (533)
Q Consensus       320 ~IiiTtR~~~v~~-----~~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlP  385 (533)
                      .++.||..+.+..     .......+.++..+.++-.+++...+- .........    ...++..+.|..
T Consensus       180 i~~a~t~~p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~-~~~~~~~~~----~~~la~~~~G~~  245 (278)
T 1iy2_A          180 VVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHAR-GKPLAEDVD----LALLAKRTPGFV  245 (278)
T ss_dssp             EEEEEESCTTSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHT-TSCBCTTCC----HHHHHHTCTTCC
T ss_pred             EEEEecCCchhCCHhHcCCCcCCeEEEeCCcCHHHHHHHHHHHHc-cCCCCcccC----HHHHHHHcCCCC
Confidence            3444555543322     112345788999999988888886652 111111111    345777888866

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=96.30  E-value=0.0069  Score=55.70  Aligned_cols=116  Identities=19%  Similarity=0.101  Sum_probs=59.8

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCC------------------
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSAS------------------  269 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~------------------  269 (533)
                      ...++.|+|++|+|||||+..+.....  ..-..++|+....  ....+...+. .++....                  
T Consensus        22 ~G~~~~i~G~~GsGKTtl~~~l~~~~~--~~~~~v~~~~~~~--~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~   96 (235)
T 2w0m_A           22 QGFFIALTGEPGTGKTIFSLHFIAKGL--RDGDPCIYVTTEE--SRDSIIRQAK-QFNWDFEEYIEKKLIIIDALMKEKE   96 (235)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHHHHH--HHTCCEEEEESSS--CHHHHHHHHH-HTTCCCGGGBTTTEEEEECCC----
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHH--HCCCeEEEEEccc--CHHHHHHHHH-HhcchHHHHhhCCEEEEeccccccC
Confidence            346899999999999999998875321  1223466666443  2333333322 3322110                  


Q ss_pred             -----CCccHHHHHHHHHHHh---CCceEEEEEeCCCCC---CccccchhhhcccC--CCCCceEEEEecch
Q 045152          270 -----GLSEFESLMKQIQEYI---TRKKFFLVLDDVWDG---DYKKWNPFFSCLKN--GHHESKILITTRDR  328 (533)
Q Consensus       270 -----~~~~~~~l~~~l~~~l---~~kr~LlVLDdv~~~---~~~~~~~l~~~l~~--~~~gs~IiiTtR~~  328 (533)
                           ...+..++...+...+   ..+..++|||..-..   +......+...+..  ...|..||++|...
T Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~llilDe~~~~~~~d~~~~~~~~~~l~~~~~~~~~~vi~~~h~~  168 (235)
T 2w0m_A           97 DQWSLVNLTPEELVNKVIEAKQKLGYGKARLVIDSVSALFLDKPAMARKISYYLKRVLNKWNFTIYATSQYA  168 (235)
T ss_dssp             CTTBCSSCCHHHHHHHHHHHHHHHCSSCEEEEEETGGGGSSSCGGGHHHHHHHHHHHHHHTTEEEEEEEC--
T ss_pred             ceeeecCCCHHHHHHHHHHHHHhhCCCceEEEEECchHhhcCCHHHHHHHHHHHHHHHHhCCCeEEEEeccC
Confidence                 0113445555554444   223349999998532   11122233333321  12467788888754

>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=96.24  E-value=0.0094  Score=58.19  Aligned_cols=90  Identities=19%  Similarity=0.316  Sum_probs=53.9

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhc---------cC-----CceEEEEeCCchhHHHHHHHHHHHhCCCCC---
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKR---------NF-----EKVIWVCVSDTFEEIRVAKAIIEGLGVSAS---  269 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~---------~F-----~~~~wv~vs~~~~~~~l~~~il~~l~~~~~---  269 (533)
                      +...++.|.|.+|+||||||.++........         ..     ..++|++....++...+.+ +++.++....   
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            3467999999999999999988765321111         11     4688999888776665553 3444443210   


Q ss_pred             ------CCccHH---HHHHHHHHHhC--CceEEEEEeCC
Q 045152          270 ------GLSEFE---SLMKQIQEYIT--RKKFFLVLDDV  297 (533)
Q Consensus       270 ------~~~~~~---~l~~~l~~~l~--~kr~LlVLDdv  297 (533)
                            ...+.+   .+...+...+.  .+.-+||+|.+
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                  011222   23344444443  35568888888

>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=96.21  E-value=0.015  Score=55.84  Aligned_cols=83  Identities=12%  Similarity=0.161  Sum_probs=52.6

Q ss_pred             EEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCC-----CccHHHH-HHHHHHH
Q 045152          211 VISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASG-----LSEFESL-MKQIQEY  284 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~-----~~~~~~l-~~~l~~~  284 (533)
                      ++-|.|++|+|||||+.++.........-..++||+....++..     .+++++.....     ..+.++. ...+...
T Consensus        30 iteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E~s~~~~-----ra~~lGvd~d~llv~~~~~~E~~~l~i~~~l  104 (333)
T 3io5_A           30 LLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSEFGITPA-----YLRSMGVDPERVIHTPVQSLEQLRIDMVNQL  104 (333)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEESSCCCCHH-----HHHHTTCCGGGEEEEECSBHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEeccchhhHH-----HHHHhCCCHHHeEEEcCCCHHHHHHHHHHHH
Confidence            68999999999999997776532211012468899887777653     36666654221     2344444 3333332


Q ss_pred             --h-CCceEEEEEeCCC
Q 045152          285 --I-TRKKFFLVLDDVW  298 (533)
Q Consensus       285 --l-~~kr~LlVLDdv~  298 (533)
                        + .++.-++|+|-+-
T Consensus       105 ~~i~~~~~~lvVIDSI~  121 (333)
T 3io5_A          105 DAIERGEKVVVFIDSLG  121 (333)
T ss_dssp             HTCCTTCCEEEEEECST
T ss_pred             HHhhccCceEEEEeccc
Confidence              3 4567899999984

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.17  E-value=0.0051  Score=55.59  Aligned_cols=42  Identities=29%  Similarity=0.297  Sum_probs=32.9

Q ss_pred             chhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          187 RVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       187 R~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      |++.++.+.+.+....   .....+|+|+|+.|+||||+++.+..
T Consensus         3 ~~~~~~~l~~~~~~~~---~~~~~~i~i~G~~GsGKstl~~~l~~   44 (201)
T 1rz3_A            3 LRDRIDFLCKTILAIK---TAGRLVLGIDGLSRSGKTTLANQLSQ   44 (201)
T ss_dssp             HHHHHHHHHHHHHTSC---CSSSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhc---cCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            5566777888776542   24568999999999999999998875

>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=96.12  E-value=0.014  Score=56.93  Aligned_cols=89  Identities=20%  Similarity=0.298  Sum_probs=53.5

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhc----cCCceEEEEeCCchhHHHHHHHHHHHhCCCCC---------CCccH
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKR----NFEKVIWVCVSDTFEEIRVAKAIIEGLGVSAS---------GLSEF  274 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~----~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~---------~~~~~  274 (533)
                      ...++.|.|.+|+||||||..+........    .-..++|++....++...+.. +++.++....         ...+.
T Consensus       106 ~G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~~~~~~l~~-~~~~~g~~~~~~~~~l~~~~~~~~  184 (324)
T 2z43_A          106 TRTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFRWERIEN-MAKALGLDIDNVMNNIYYIRAINT  184 (324)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHHH-HHHHTTCCHHHHHHTEEEEECCSH
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHH-HHHHhCCCHHHHhccEEEEeCCCH
Confidence            456899999999999999988775321111    024688999887766665543 3455543210         01112


Q ss_pred             H---HHHHHHHHHhC--CceEEEEEeCC
Q 045152          275 E---SLMKQIQEYIT--RKKFFLVLDDV  297 (533)
Q Consensus       275 ~---~l~~~l~~~l~--~kr~LlVLDdv  297 (533)
                      +   ++...+...+.  .+.-+||+|.+
T Consensus       185 ~~~~~~l~~l~~~~~~~~~~~lvVIDsl  212 (324)
T 2z43_A          185 DHQIAIVDDLQELVSKDPSIKLIVVDSV  212 (324)
T ss_dssp             HHHHHHHHHHHHHHHHCTTEEEEEETTT
T ss_pred             HHHHHHHHHHHHHHHhccCCCEEEEeCc
Confidence            2   23344444443  45678888888

>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=95.93  E-value=0.019  Score=55.18  Aligned_cols=87  Identities=16%  Similarity=0.143  Sum_probs=44.7

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCC-chhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhC
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD-TFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYIT  286 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~  286 (533)
                      ...+++|+|++|+||||++..+......... ..+..+.... .....+.+....+..+.......+...+...+.. + 
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~~l~~~~G-~~V~lv~~D~~r~~a~eqL~~~~~~~gl~~~~~~~~~~l~~al~~-~-  180 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAAISMLEKH-KKIAFITTDTYRIAAVEQLKTYAELLQAPLEVCYTKEEFQQAKEL-F-  180 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHHHHTTC-CCEEEEECCCSSTTHHHHHHHHHTTTTCCCCBCSSHHHHHHHHHH-G-
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHhcC-CEEEEEecCcccchHHHHHHHHHHhcCCCeEecCCHHHHHHHHHH-h-
Confidence            4569999999999999999888753221111 2344554322 1223333333333333322111223334334432 3 


Q ss_pred             CceEEEEEeCC
Q 045152          287 RKKFFLVLDDV  297 (533)
Q Consensus       287 ~kr~LlVLDdv  297 (533)
                      .+.=++|+|-.
T Consensus       181 ~~~dlvIiDT~  191 (296)
T 2px0_A          181 SEYDHVFVDTA  191 (296)
T ss_dssp             GGSSEEEEECC
T ss_pred             cCCCEEEEeCC
Confidence            34557889944

>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=95.90  E-value=0.022  Score=56.51  Aligned_cols=84  Identities=17%  Similarity=0.189  Sum_probs=54.6

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCC-----CCccHHHHHHHHH
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSAS-----GLSEFESLMKQIQ  282 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~-----~~~~~~~l~~~l~  282 (533)
                      ...++.|.|.+|+||||||.++....  ...-..++|++....++..     ..+.++....     ...+.+++...+.
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            45588899999999999998876532  2223468899987766543     2344443211     1234566666666


Q ss_pred             HHhCC-ceEEEEEeCCC
Q 045152          283 EYITR-KKFFLVLDDVW  298 (533)
Q Consensus       283 ~~l~~-kr~LlVLDdv~  298 (533)
                      ...+. +.-+||+|.+-
T Consensus       146 ~l~~~~~~~lVVIDsl~  162 (366)
T 1xp8_A          146 LLVRSGAIDVVVVDSVA  162 (366)
T ss_dssp             HHHTTTCCSEEEEECTT
T ss_pred             HHHhcCCCCEEEEeChH
Confidence            65543 45699999984

>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=95.86  E-value=0.019  Score=56.64  Aligned_cols=84  Identities=20%  Similarity=0.176  Sum_probs=53.9

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCC-----CCccHHHHHHHHH
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSAS-----GLSEFESLMKQIQ  282 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~-----~~~~~~~l~~~l~  282 (533)
                      ...++.|.|.+|+||||||.++...  ....=..++|++....++..     ..+.++....     ...+.++....+.
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  22223468899887766543     2444443211     1224555555555


Q ss_pred             HHhC-CceEEEEEeCCC
Q 045152          283 EYIT-RKKFFLVLDDVW  298 (533)
Q Consensus       283 ~~l~-~kr~LlVLDdv~  298 (533)
                      .... .+.-+||+|.+-
T Consensus       133 ~l~~~~~~~lIVIDsl~  149 (349)
T 2zr9_A          133 MLVRSGALDIIVIDSVA  149 (349)
T ss_dssp             HHHTTTCCSEEEEECGG
T ss_pred             HHHhcCCCCEEEEcChH
Confidence            5543 356699999984

>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=95.77  E-value=0.018  Score=56.88  Aligned_cols=83  Identities=18%  Similarity=0.207  Sum_probs=51.6

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCC-----CCccHHHHHHHHH
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSAS-----GLSEFESLMKQIQ  282 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~-----~~~~~~~l~~~l~  282 (533)
                      ...++.|.|.+|+||||||.++....  ...-..++|++....++..     ....++....     ...+.+++...+.
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            45689999999999999998877532  2222468899887766543     2344443211     1123444455444


Q ss_pred             HHh-CCceEEEEEeCC
Q 045152          283 EYI-TRKKFFLVLDDV  297 (533)
Q Consensus       283 ~~l-~~kr~LlVLDdv  297 (533)
                      ... ..+.-+||+|.+
T Consensus       135 ~l~~~~~~~lVVIDsl  150 (356)
T 1u94_A          135 ALARSGAVDVIVVDSV  150 (356)
T ss_dssp             HHHHHTCCSEEEEECG
T ss_pred             HHHhccCCCEEEEcCH
Confidence            443 234568999998

>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=95.66  E-value=0.0068  Score=54.09  Aligned_cols=117  Identities=17%  Similarity=0.081  Sum_probs=59.5

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCC---chhHHHHHHHHH---HHhCC--CCCCC------ccHH
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD---TFEEIRVAKAII---EGLGV--SASGL------SEFE  275 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~---~~~~~~l~~~il---~~l~~--~~~~~------~~~~  275 (533)
                      ..|.|++-.|.||||.|--..-  +.-.+=-.+.++.+..   ......++..+.   ...+.  .....      ....
T Consensus        29 g~i~v~tG~GkGKTTaA~Glal--RA~g~G~rV~~vQF~Kg~~~~gE~~~l~~L~v~~~~~g~gf~~~~~~~~~~~~~a~  106 (196)
T 1g5t_A           29 GIIIVFTGNGKGKTTAAFGTAA--RAVGHGKNVGVVQFIKGTWPNGERNLLEPHGVEFQVMATGFTWETQNREADTAACM  106 (196)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHH--HHHHTTCCEEEEESSCCSSCCHHHHHHGGGTCEEEECCTTCCCCGGGHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH--HHHHCCCeEEEEEeeCCCCCccHHHHHHhCCcEEEEcccccccCCCCcHHHHHHHH
Confidence            4566666677999999955543  2222222344444332   233344443331   00000  00000      0112


Q ss_pred             HHHHHHHHHhCC-ceEEEEEeCCCC---CCccccchhhhcccCCCCCceEEEEecch
Q 045152          276 SLMKQIQEYITR-KKFFLVLDDVWD---GDYKKWNPFFSCLKNGHHESKILITTRDR  328 (533)
Q Consensus       276 ~l~~~l~~~l~~-kr~LlVLDdv~~---~~~~~~~~l~~~l~~~~~gs~IiiTtR~~  328 (533)
                      ......++.+.+ +-=|||||++-.   ......+.+...+.......-||+|+|..
T Consensus       107 ~~l~~a~~~l~~~~yDlvILDEi~~al~~g~l~~~ev~~~l~~Rp~~~~vIlTGr~a  163 (196)
T 1g5t_A          107 AVWQHGKRMLADPLLDMVVLDELTYMVAYDYLPLEEVISALNARPGHQTVIITGRGC  163 (196)
T ss_dssp             HHHHHHHHHTTCTTCSEEEEETHHHHHHTTSSCHHHHHHHHHTSCTTCEEEEECSSC
T ss_pred             HHHHHHHHHHhcCCCCEEEEeCCCccccCCCCCHHHHHHHHHhCcCCCEEEEECCCC
Confidence            233344555544 445999999832   12233455666665555667799999985

>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=95.57  E-value=0.0061  Score=53.23  Aligned_cols=20  Identities=40%  Similarity=0.687  Sum_probs=18.6

Q ss_pred             EEEEEEcCCCChHHHHHHHH
Q 045152          210 HVISLVGLGGIGKTTLAQLA  229 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v  229 (533)
                      .+|.|.|++|+||||+|+.+
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

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B*

Probab=95.55  E-value=0.0018  Score=68.79  Aligned_cols=86  Identities=19%  Similarity=0.234  Sum_probs=60.7

Q ss_pred             ccccceEEEeecCCccc--CCccccccCccceeecccCCCCCC-----CCCccCCCCCCCcceEEeccCC-CC--CCCCc
Q 045152          420 MPCLSVLRVYLCPKLKV--LPDYLLQTTTLQKLRILQCPSMEE-----LPILEDHIFLPRLSSLRIEYCP-KL--KLLPD  489 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~--lp~~l~~l~~L~~L~l~~~~~l~~-----lp~~~~~~~l~~L~~L~l~~C~-~l--~~lP~  489 (533)
                      +|.|+.|.++.|..+..  ++.....+++|++|++++|. +..     ++  .....+++|++|++++|. .+  ..++.
T Consensus       129 ~~~L~~L~L~~~~~~~~~~l~~~~~~~~~L~~L~L~~~~-i~~~~~~~l~--~~~~~~~~L~~L~l~~~~~~~~~~~l~~  205 (594)
T 2p1m_B          129 FKNFKVLVLSSCEGFSTDGLAAIAATCRNLKELDLRESD-VDDVSGHWLS--HFPDTYTSLVSLNISCLASEVSFSALER  205 (594)
T ss_dssp             CTTCCEEEEESCEEEEHHHHHHHHHHCTTCCEEECTTCE-EECCCGGGGG--GSCTTCCCCCEEECTTCCSCCCHHHHHH
T ss_pred             CCCCcEEeCCCcCCCCHHHHHHHHHhCCCCCEEeCcCCc-cCCcchHHHH--HHhhcCCcCcEEEecccCCcCCHHHHHH
Confidence            68899999999876654  55555578999999999887 332     33  233467899999999986 11  11222


Q ss_pred             CCCCCCCcceeeccCCchh
Q 045152          490 SLLQITTLKELGMEGSPLL  508 (533)
Q Consensus       490 ~~~~l~~L~~L~~~~c~~l  508 (533)
                      -+.++++|++|++++|..+
T Consensus       206 l~~~~~~L~~L~L~~~~~~  224 (594)
T 2p1m_B          206 LVTRCPNLKSLKLNRAVPL  224 (594)
T ss_dssp             HHHHCTTCCEEECCTTSCH
T ss_pred             HHHhCCCCcEEecCCCCcH
Confidence            2344699999999999543

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B*

Probab=95.53  E-value=0.0023  Score=68.05  Aligned_cols=85  Identities=25%  Similarity=0.214  Sum_probs=62.7

Q ss_pred             ccccceEEEeecCC----cccCCccccccCccceeecccCCCCCCCCC--c-cCCCCCCCcceEEeccCCCCCCCCcCCC
Q 045152          420 MPCLSVLRVYLCPK----LKVLPDYLLQTTTLQKLRILQCPSMEELPI--L-EDHIFLPRLSSLRIEYCPKLKLLPDSLL  492 (533)
Q Consensus       420 lp~L~~L~l~~c~~----l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~--~-~~~~~l~~L~~L~l~~C~~l~~lP~~~~  492 (533)
                      +|.|++|.+++|.-    ...++.....+++|++|++++|.  ..++.  + .-...+++|++|++++|..+..+|..+.
T Consensus       155 ~~~L~~L~L~~~~i~~~~~~~l~~~~~~~~~L~~L~l~~~~--~~~~~~~l~~l~~~~~~L~~L~L~~~~~~~~l~~~~~  232 (594)
T 2p1m_B          155 CRNLKELDLRESDVDDVSGHWLSHFPDTYTSLVSLNISCLA--SEVSFSALERLVTRCPNLKSLKLNRAVPLEKLATLLQ  232 (594)
T ss_dssp             CTTCCEEECTTCEEECCCGGGGGGSCTTCCCCCEEECTTCC--SCCCHHHHHHHHHHCTTCCEEECCTTSCHHHHHHHHH
T ss_pred             CCCCCEEeCcCCccCCcchHHHHHHhhcCCcCcEEEecccC--CcCCHHHHHHHHHhCCCCcEEecCCCCcHHHHHHHHh
Confidence            68899999998761    12233333457899999999886  12221  0 1123479999999999999988998899


Q ss_pred             CCCCcceeeccCCc
Q 045152          493 QITTLKELGMEGSP  506 (533)
Q Consensus       493 ~l~~L~~L~~~~c~  506 (533)
                      ++++|++|++.+|.
T Consensus       233 ~~~~L~~L~l~~~~  246 (594)
T 2p1m_B          233 RAPQLEELGTGGYT  246 (594)
T ss_dssp             HCTTCSEEECSBCC
T ss_pred             cCCcceEccccccc
Confidence            99999999988775

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=95.50  E-value=0.011  Score=53.69  Aligned_cols=37  Identities=30%  Similarity=0.380  Sum_probs=27.5

Q ss_pred             HHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          191 KNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       191 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .++|.+.+...    .....+|+|+|+.|.|||||++.+..
T Consensus         8 ~~~~~~~~~~~----~~~g~~v~I~G~sGsGKSTl~~~l~~   44 (208)
T 3c8u_A            8 CQGVLERLDPR----QPGRQLVALSGAPGSGKSTLSNPLAA   44 (208)
T ss_dssp             HHHHHHHSCTT----CCSCEEEEEECCTTSCTHHHHHHHHH
T ss_pred             HHHHHHHHHhc----CCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            34555555322    24568999999999999999998875

>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=95.49  E-value=0.024  Score=55.99  Aligned_cols=54  Identities=13%  Similarity=-0.046  Sum_probs=34.9

Q ss_pred             HHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCC-ceEEEEeCCch
Q 045152          192 NELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFE-KVIWVCVSDTF  251 (533)
Q Consensus       192 ~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~-~~~wv~vs~~~  251 (533)
                      -+.++.+..-     .....++|+|.+|.|||||++.+.+... +.+-+ .++++-+.+..
T Consensus       162 iraID~~~pi-----~rGQr~~IvG~sG~GKTtLl~~Iar~i~-~~~~~v~~I~~lIGER~  216 (422)
T 3ice_A          162 ARVLDLASPI-----GRGQRGLIVAPPKAGKTMLLQNIAQSIA-YNHPDCVLMVLLIDERP  216 (422)
T ss_dssp             HHHHHHHSCC-----BTTCEEEEECCSSSSHHHHHHHHHHHHH-HHCTTSEEEEEEESSCH
T ss_pred             ceeeeeeeee-----cCCcEEEEecCCCCChhHHHHHHHHHHh-hcCCCeeEEEEEecCCh
Confidence            3556666543     3456899999999999999998876311 11222 24456666654

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=95.44  E-value=0.0079  Score=53.56  Aligned_cols=24  Identities=38%  Similarity=0.529  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+++|+|+.|+|||||++.+..
T Consensus         8 ~g~~i~l~G~~GsGKSTl~~~La~   31 (191)
T 1zp6_A            8 GGNILLLSGHPGSGKSTIAEALAN   31 (191)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHh
Confidence            356899999999999999999986

>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=95.42  E-value=0.043  Score=55.78  Aligned_cols=87  Identities=18%  Similarity=0.173  Sum_probs=50.0

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCch-hHHHHHHHHHHHhCC-------CCCCCccHHH-----
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTF-EEIRVAKAIIEGLGV-------SASGLSEFES-----  276 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~-~~~~l~~~il~~l~~-------~~~~~~~~~~-----  276 (533)
                      ..++|+|.+|+|||||++.+..+... .+-+.++++.+.+.. ...+++.++...-..       ..........     
T Consensus       152 q~~~i~G~sGvGKTtL~~~l~~~~~~-~~~~i~V~~~iGerttev~el~~~l~~~~~l~~tvvv~~~~~d~pg~r~~~~~  230 (473)
T 1sky_E          152 GKIGLFGGAGVGKTVLIQELIHNIAQ-EHGGISVFAGVGERTREGNDLYHEMKDSGVISKTAMVFGQMNEPPGARMRVAL  230 (473)
T ss_dssp             CEEEEECCSSSCHHHHHHHHHHHHHH-HTCCCEEEEEESSCHHHHHHHHHHHHHTSGGGGEEEEEECTTSCHHHHHHHHH
T ss_pred             CEEEEECCCCCCccHHHHHHHhhhhh-ccCcEEEEeeeccCchHHHHHHHHhhhcCCcceeEEEEEcCCCCHHHHHHHHH
Confidence            46899999999999999988864222 233456677776654 344555555432000       0011111111     


Q ss_pred             HHHHHHHHh---CCceEEEEEeCC
Q 045152          277 LMKQIQEYI---TRKKFFLVLDDV  297 (533)
Q Consensus       277 l~~~l~~~l---~~kr~LlVLDdv  297 (533)
                      ..-.+.+++   .++..|+++||+
T Consensus       231 ~~ltiAEyFrd~~G~~VLl~~D~i  254 (473)
T 1sky_E          231 TGLTMAEYFRDEQGQDGLLFIDNI  254 (473)
T ss_dssp             HHHHHHHHHHHHSCCEEEEEEECT
T ss_pred             HHHHHHHHHHHhcCCcEEEEeccH
Confidence            111223333   578999999999

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=95.40  E-value=0.036  Score=53.79  Aligned_cols=45  Identities=16%  Similarity=0.197  Sum_probs=31.2

Q ss_pred             eechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          185 CGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       185 vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +|....+..+...+....  ......+|+|.|+.|+|||||++.+..
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            344444555554454432  235678999999999999999988864

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=95.34  E-value=0.016  Score=55.60  Aligned_cols=40  Identities=25%  Similarity=0.312  Sum_probs=28.5

Q ss_pred             HHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          191 KNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       191 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .++++..++.... ......+|.|.|++|+||||+|+.+..
T Consensus        16 ~~~~~~~~l~~~~-~~~~~~livl~G~sGsGKSTla~~L~~   55 (287)
T 1gvn_B           16 LNDNLEELIQGKK-AVESPTAFLLGGQPGSGKTSLRSAIFE   55 (287)
T ss_dssp             HHHHHHHHHTTCC-CCSSCEEEEEECCTTSCTHHHHHHHHH
T ss_pred             HHHHHHHHhcccc-CCCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4444444444322 234568899999999999999999875

>3rw6_A Nuclear RNA export factor 1; retroviral constitutive transport element (CTE), RNA recogni motif (RRM); HET: GTP CCC; 2.30A {Homo sapiens} PDB: 3rw7_A 1koo_A 1koh_A 1ft8_A 1fo1_A

Probab=95.33  E-value=0.0076  Score=56.92  Aligned_cols=79  Identities=16%  Similarity=0.148  Sum_probs=46.5

Q ss_pred             ccccceEEEeecCCcc---cCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCc-------
Q 045152          420 MPCLSVLRVYLCPKLK---VLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPD-------  489 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~---~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~-------  489 (533)
                      +|.|+.|.++++ .+.   .+|..+..+++|++|+|++ +.+..+..+..+..+ +|++|+|++.+--..+|+       
T Consensus       169 l~~L~~L~Ls~N-~l~~l~~l~~~~~~l~~L~~L~Ls~-N~i~~~~~l~~l~~l-~L~~L~L~~Npl~~~~~~~~~y~~~  245 (267)
T 3rw6_A          169 IPELLSLNLSNN-RLYRLDDMSSIVQKAPNLKILNLSG-NELKSERELDKIKGL-KLEELWLDGNSLCDTFRDQSTYISA  245 (267)
T ss_dssp             CTTCCEEECTTS-CCCCCGGGTTHHHHSTTCCEEECTT-SCCCSGGGGGGGTTS-CCSEEECTTSTTGGGCSSHHHHHHH
T ss_pred             CCCCCEEECCCC-CCCCCccchhHHhhCCCCCEEECCC-CccCCchhhhhcccC-CcceEEccCCcCccccCcchhHHHH
Confidence            677888888773 333   3445555677788887774 335555422333334 777777777553334552       


Q ss_pred             CCCCCCCcceee
Q 045152          490 SLLQITTLKELG  501 (533)
Q Consensus       490 ~~~~l~~L~~L~  501 (533)
                      -+..+++|+.||
T Consensus       246 il~~~P~L~~LD  257 (267)
T 3rw6_A          246 IRERFPKLLRLD  257 (267)
T ss_dssp             HHHHCTTCCEES
T ss_pred             HHHHCcccCeEC
Confidence            244566777665

>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=95.30  E-value=0.0081  Score=52.80  Aligned_cols=22  Identities=23%  Similarity=0.297  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .+|.|.|++|+||||+|+.+..
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            4789999999999999999876

>3rw6_A Nuclear RNA export factor 1; retroviral constitutive transport element (CTE), RNA recogni motif (RRM); HET: GTP CCC; 2.30A {Homo sapiens} PDB: 3rw7_A 1koo_A 1koh_A 1ft8_A 1fo1_A

Probab=95.29  E-value=0.0098  Score=56.18  Aligned_cols=62  Identities=24%  Similarity=0.237  Sum_probs=48.2

Q ss_pred             ccCccceeecccCCCCCCCCCc-cCCCCCCCcceEEeccCCCCCCCCcCCCCCC--CcceeeccCCch
Q 045152          443 QTTTLQKLRILQCPSMEELPIL-EDHIFLPRLSSLRIEYCPKLKLLPDSLLQIT--TLKELGMEGSPL  507 (533)
Q Consensus       443 ~l~~L~~L~l~~~~~l~~lp~~-~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~--~L~~L~~~~c~~  507 (533)
                      .+++|+.|+|++.. |..++.+ ..+..+++|+.|+|++ .+|+.+. .+..++  +|++|+++++|.
T Consensus       168 ~l~~L~~L~Ls~N~-l~~l~~l~~~~~~l~~L~~L~Ls~-N~i~~~~-~l~~l~~l~L~~L~L~~Npl  232 (267)
T 3rw6_A          168 NIPELLSLNLSNNR-LYRLDDMSSIVQKAPNLKILNLSG-NELKSER-ELDKIKGLKLEELWLDGNSL  232 (267)
T ss_dssp             HCTTCCEEECTTSC-CCCCGGGTTHHHHSTTCCEEECTT-SCCCSGG-GGGGGTTSCCSEEECTTSTT
T ss_pred             hCCCCCEEECCCCC-CCCCccchhHHhhCCCCCEEECCC-CccCCch-hhhhcccCCcceEEccCCcC
Confidence            46789999999643 6665522 2345799999999998 7898884 466666  999999999995

>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=95.28  E-value=0.058  Score=53.16  Aligned_cols=46  Identities=26%  Similarity=0.333  Sum_probs=31.5

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccC----CceEEEEeCCchh
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNF----EKVIWVCVSDTFE  252 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F----~~~~wv~vs~~~~  252 (533)
                      +...++.|+|+.|+|||||+..+..........    ..++|++....+.
T Consensus       129 ~~G~i~~I~G~~GsGKTTL~~~l~~~~~~~~~~Gg~~G~vi~i~~e~~~~  178 (349)
T 1pzn_A          129 ETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFR  178 (349)
T ss_dssp             ESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCC
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhccchhcCCCCCeEEEEeCCCCCC
Confidence            456899999999999999998887532111111    2458888765543

>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=95.24  E-value=0.0086  Score=52.18  Aligned_cols=22  Identities=27%  Similarity=0.134  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .+|.|.|+.|+||||+|+.+..
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            3789999999999999999875

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=95.23  E-value=0.0096  Score=52.33  Aligned_cols=22  Identities=32%  Similarity=0.404  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .+|.|.|++|+||||+|+.+..
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            5789999999999999999875

>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=95.20  E-value=0.014  Score=55.86  Aligned_cols=26  Identities=31%  Similarity=0.319  Sum_probs=22.8

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ....+|+|+|..|+||||||+.+...
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~~~   54 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIYNH   54 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            56789999999999999999888753

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=95.19  E-value=0.0087  Score=53.86  Aligned_cols=23  Identities=39%  Similarity=0.411  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..+|.|+|+.|+||||+++.+..
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            45899999999999999999985

>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=95.18  E-value=0.047  Score=54.77  Aligned_cols=58  Identities=19%  Similarity=0.277  Sum_probs=36.8

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhc----cCCceEEEEeCCchhHHHHHHHHHHHhCC
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKR----NFEKVIWVCVSDTFEEIRVAKAIIEGLGV  266 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~----~F~~~~wv~vs~~~~~~~l~~~il~~l~~  266 (533)
                      .-.++.|+|++|+|||||+..+.-......    .-..++|++....+....+. .+.+.++.
T Consensus       177 ~Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~~~~~~rl~-~~a~~~gl  238 (400)
T 3lda_A          177 TGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRLV-SIAQRFGL  238 (400)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHH-HHHHHTTC
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCCccCHHHHH-HHHHHcCC
Confidence            456999999999999999986642111111    23458888876655544432 34555543

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=95.18  E-value=0.01  Score=52.47  Aligned_cols=23  Identities=17%  Similarity=0.420  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..+++|+|+.|+|||||++.+..
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            45899999999999999999875

>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=95.17  E-value=0.095  Score=50.49  Aligned_cols=89  Identities=22%  Similarity=0.253  Sum_probs=47.0

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchh--HHHHHHHHHHHhCCCC---CCCccHHH-HHHH
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFE--EIRVAKAIIEGLGVSA---SGLSEFES-LMKQ  280 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~--~~~l~~~il~~l~~~~---~~~~~~~~-l~~~  280 (533)
                      ....++.|+|++|+||||++..+...  ....-..+.++... .+.  ..+-+....+..+...   ....+... ....
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 EPPFVIMVVGVNGTGKTTSCGKLAKM--FVDEGKSVVLAAAD-TFRAAAIEQLKIWGERVGATVISHSEGADPAAVAFDA  178 (306)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHH--HHHTTCCEEEEEEC-TTCHHHHHHHHHHHHHHTCEEECCSTTCCHHHHHHHH
T ss_pred             CCCeEEEEEcCCCChHHHHHHHHHHH--HHhcCCEEEEEccc-cccHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHH
Confidence            35689999999999999999888753  22222234455433 222  1222333444443221   11112222 2233


Q ss_pred             HHHHhCCceEEEEEeCCC
Q 045152          281 IQEYITRKKFFLVLDDVW  298 (533)
Q Consensus       281 l~~~l~~kr~LlVLDdv~  298 (533)
                      +...+..+.-++|+|-.-
T Consensus       179 l~~a~~~~~dvvIiDtpg  196 (306)
T 1vma_A          179 VAHALARNKDVVIIDTAG  196 (306)
T ss_dssp             HHHHHHTTCSEEEEEECC
T ss_pred             HHHHHhcCCCEEEEECCC
Confidence            444444555588889763

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=95.16  E-value=0.014  Score=60.30  Aligned_cols=42  Identities=21%  Similarity=0.175  Sum_probs=35.0

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .++|.++.++.+...+...        ..|.|+|++|+|||+||+.+.+.
T Consensus        23 ~ivGq~~~i~~l~~al~~~--------~~VLL~GpPGtGKT~LAraLa~~   64 (500)
T 3nbx_X           23 GLYERSHAIRLCLLAALSG--------ESVFLLGPPGIAKSLIARRLKFA   64 (500)
T ss_dssp             TCSSCHHHHHHHHHHHHHT--------CEEEEECCSSSSHHHHHHHGGGG
T ss_pred             hhHHHHHHHHHHHHHHhcC--------CeeEeecCchHHHHHHHHHHHHH
Confidence            4789998888888777533        36889999999999999999873

>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=0.013  Score=52.84  Aligned_cols=25  Identities=40%  Similarity=0.367  Sum_probs=22.2

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ...+|.|+|+.|.|||||++.+...
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            4679999999999999999999863

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=95.12  E-value=0.0082  Score=53.39  Aligned_cols=22  Identities=32%  Similarity=0.514  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +.|.|+|++|+|||||++.+..
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            4588999999999999998875

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=95.04  E-value=0.015  Score=50.98  Aligned_cols=24  Identities=29%  Similarity=0.520  Sum_probs=21.4

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+|+|+|+.|+||||+++.+..
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            457899999999999999999875

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=95.01  E-value=0.012  Score=51.64  Aligned_cols=24  Identities=33%  Similarity=0.645  Sum_probs=20.6

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+++|+|+.|+|||||++.++.
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            456899999999999999997553

>1z7x_W Ribonuclease inhibitor; leucine-rich repeat, enzyme- inhibitor complex, structural genomics, protein structure initiative, PSI, CESG; HET: CIT; 1.95A {Homo sapiens} SCOP: c.10.1.1 PDB: 2q4g_W* 2bex_A 1a4y_A 2bnh_A 1dfj_I

Probab=95.01  E-value=0.0031  Score=64.75  Aligned_cols=35  Identities=20%  Similarity=0.213  Sum_probs=15.8

Q ss_pred             cCccceeecccCCCCCC-----CCCccCCCCCCCcceEEeccC
Q 045152          444 TTTLQKLRILQCPSMEE-----LPILEDHIFLPRLSSLRIEYC  481 (533)
Q Consensus       444 l~~L~~L~l~~~~~l~~-----lp~~~~~~~l~~L~~L~l~~C  481 (533)
                      +++|++|++++|. +..     +|  ..+..+++|++|++++|
T Consensus       255 ~~~L~~L~L~~n~-l~~~~~~~l~--~~l~~~~~L~~L~Ls~n  294 (461)
T 1z7x_W          255 SSRLRTLWIWECG-ITAKGCGDLC--RVLRAKESLKELSLAGN  294 (461)
T ss_dssp             TCCCCEEECTTSC-CCHHHHHHHH--HHHHHCTTCCEEECTTC
T ss_pred             CCCceEEECcCCC-CCHHHHHHHH--HHHhhCCCcceEECCCC
Confidence            3455555555442 333     33  23333455555555553

>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=94.99  E-value=0.12  Score=52.15  Aligned_cols=24  Identities=29%  Similarity=0.386  Sum_probs=21.4

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .+.+|.++|.+|+||||++..+..
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            478999999999999999977765

>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=94.98  E-value=0.012  Score=53.32  Aligned_cols=25  Identities=28%  Similarity=0.481  Sum_probs=21.8

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ...+|+|+|+.|+|||||++.+...
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            4568999999999999999999763

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=94.96  E-value=0.013  Score=52.86  Aligned_cols=23  Identities=22%  Similarity=0.348  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..+++|+|+.|+|||||++.+..
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            45899999999999999998875

>1z7x_W Ribonuclease inhibitor; leucine-rich repeat, enzyme- inhibitor complex, structural genomics, protein structure initiative, PSI, CESG; HET: CIT; 1.95A {Homo sapiens} SCOP: c.10.1.1 PDB: 2q4g_W* 2bex_A 1a4y_A 2bnh_A 1dfj_I

Probab=94.95  E-value=0.0029  Score=64.92  Aligned_cols=34  Identities=26%  Similarity=0.530  Sum_probs=16.5

Q ss_pred             CcceEEeccCCCCC-----CCCcCCCCCCCcceeeccCCc
Q 045152          472 RLSSLRIEYCPKLK-----LLPDSLLQITTLKELGMEGSP  506 (533)
Q Consensus       472 ~L~~L~l~~C~~l~-----~lP~~~~~l~~L~~L~~~~c~  506 (533)
                      +|++|++++|. +.     .+|..+.++++|++|++++|+
T Consensus        86 ~L~~L~L~~n~-i~~~~~~~l~~~l~~~~~L~~L~Ls~n~  124 (461)
T 1z7x_W           86 KIQKLSLQNCC-LTGAGCGVLSSTLRTLPTLQELHLSDNL  124 (461)
T ss_dssp             CCCEEECTTSC-CBGGGHHHHHHHTTSCTTCCEEECCSSB
T ss_pred             ceeEEEccCCC-CCHHHHHHHHHHHccCCceeEEECCCCc
Confidence            45555555542 33     334444555555555555554

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=94.93  E-value=0.011  Score=51.74  Aligned_cols=22  Identities=36%  Similarity=0.424  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .+|+|+|+.|+|||||++.+..
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            4799999999999999999875

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=94.93  E-value=0.038  Score=50.00  Aligned_cols=21  Identities=29%  Similarity=0.412  Sum_probs=19.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045152          211 VISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +|.|.|++|+||||.|+.+.+
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~   22 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAK   22 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            578999999999999999886

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=94.91  E-value=0.02  Score=53.76  Aligned_cols=40  Identities=28%  Similarity=0.257  Sum_probs=29.1

Q ss_pred             HHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          191 KNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       191 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .+.+...+..... ......+|.|+|++|+||||+|+.+..
T Consensus        15 ~~~~~~~~~~~~~-~~~~~~~i~l~G~~GsGKSTla~~L~~   54 (253)
T 2p5t_B           15 LARNLRSLTRGKK-SSKQPIAILLGGQSGAGKTTIHRIKQK   54 (253)
T ss_dssp             HHHHHHHHHTTCC-CCSSCEEEEEESCGGGTTHHHHHHHHH
T ss_pred             HHHHHHHHHccCC-cccCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4455555554432 335568999999999999999999875

>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=94.90  E-value=0.017  Score=57.29  Aligned_cols=50  Identities=28%  Similarity=0.274  Sum_probs=35.2

Q ss_pred             ceeechhhHHHHHHHHhCC-------C--ccCCCCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          183 EVCGRVEEKNELLSKLLCE-------S--SEQQKGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~-------~--~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .++|.+..++.+...+...       .  .........+.++|++|+|||++|+.+.+.
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            3688888888887776210       0  001123467899999999999999999863

>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=94.89  E-value=0.014  Score=51.94  Aligned_cols=24  Identities=33%  Similarity=0.322  Sum_probs=21.3

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+|.|.|++|+||||+|+.+..
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            356899999999999999999875

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=94.85  E-value=0.11  Score=50.27  Aligned_cols=53  Identities=17%  Similarity=0.144  Sum_probs=36.5

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHH
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEG  263 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~  263 (533)
                      ....++.|.|.+|+||||||..+..+.... . ..++|++..  .+...+...++..
T Consensus        66 ~~G~l~li~G~pG~GKTtl~l~ia~~~a~~-g-~~vl~~slE--~s~~~l~~R~~~~  118 (315)
T 3bh0_A           66 KRRNFVLIAARPSMGKTAFALKQAKNMSDN-D-DVVNLHSLE--MGKKENIKRLIVT  118 (315)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHHHHHTT-T-CEEEEEESS--SCHHHHHHHHHHH
T ss_pred             CCCcEEEEEeCCCCCHHHHHHHHHHHHHHc-C-CeEEEEECC--CCHHHHHHHHHHH
Confidence            345689999999999999998876542222 2 567777655  4556666666554

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=94.84  E-value=0.014  Score=52.62  Aligned_cols=24  Identities=29%  Similarity=0.441  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+|+|+|+.|+|||||++.+..
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            456899999999999999999975

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=94.83  E-value=0.012  Score=51.98  Aligned_cols=23  Identities=39%  Similarity=0.518  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...|.|+|+.|+||||+|+.+..
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            45788999999999999999875

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=94.80  E-value=0.0051  Score=61.13  Aligned_cols=87  Identities=23%  Similarity=0.287  Sum_probs=58.3

Q ss_pred             ccccceEEEeecCC-------cccCCcccc--ccCccceeecccCCCCCCCCC-ccCCCCCCCcceEEeccCCCCCC---
Q 045152          420 MPCLSVLRVYLCPK-------LKVLPDYLL--QTTTLQKLRILQCPSMEELPI-LEDHIFLPRLSSLRIEYCPKLKL---  486 (533)
Q Consensus       420 lp~L~~L~l~~c~~-------l~~lp~~l~--~l~~L~~L~l~~~~~l~~lp~-~~~~~~l~~L~~L~l~~C~~l~~---  486 (533)
                      +|+|+.|.++.+.+       +..+...+.  ..++|++|++.+|..-...+. +.....+++|++|+|+. ..|..   
T Consensus       218 lp~L~~L~L~~~~~~~~~~~~~~~l~~~l~~~~~p~Lr~L~L~~~~i~~~~~~~la~a~~~~~L~~LdLs~-n~L~d~G~  296 (362)
T 2ra8_A          218 LPNLEKLVLYVGVEDYGFDGDMNVFRPLFSKDRFPNLKWLGIVDAEEQNVVVEMFLESDILPQLETMDISA-GVLTDEGA  296 (362)
T ss_dssp             CTTCCEEEEECBCGGGTCCSCGGGTGGGSCTTTCTTCCEEEEESCTTHHHHHHHHHHCSSGGGCSEEECCS-SCCBHHHH
T ss_pred             CCCCcEEEEeccccccccchhHHHHHHHHhcCCCCCcCEEeCCCCCCchHHHHHHHhCccCCCCCEEECCC-CCCChHHH
Confidence            78899999875322       222222222  368999999988763221110 11224589999999976 46754   


Q ss_pred             --CCcCCCCCCCcceeeccCCch
Q 045152          487 --LPDSLLQITTLKELGMEGSPL  507 (533)
Q Consensus       487 --lP~~~~~l~~L~~L~~~~c~~  507 (533)
                        ++.++.++++|+.|++++|..
T Consensus       297 ~~L~~~L~~l~~L~~L~L~~n~i  319 (362)
T 2ra8_A          297 RLLLDHVDKIKHLKFINMKYNYL  319 (362)
T ss_dssp             HHHHTTHHHHTTCSEEECCSBBC
T ss_pred             HHHHhhcccCCcceEEECCCCcC
Confidence              677777899999999999873

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=94.79  E-value=0.016  Score=52.60  Aligned_cols=24  Identities=42%  Similarity=0.371  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+|+|+|+.|.|||||++.+..
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            457899999999999999998875

>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=94.78  E-value=0.13  Score=52.06  Aligned_cols=25  Identities=40%  Similarity=0.314  Sum_probs=21.8

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ...+|.++|.+|+||||++..+...
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            4689999999999999999888753

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=94.76  E-value=0.014  Score=51.80  Aligned_cols=22  Identities=23%  Similarity=0.421  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .+|.|.|++|+||||+|+.+.+
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~   23 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKE   23 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999999986

>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=94.72  E-value=0.017  Score=51.38  Aligned_cols=22  Identities=23%  Similarity=0.392  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .+++|+|+.|+|||||++.+..
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            4789999999999999999964

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=94.69  E-value=0.016  Score=52.14  Aligned_cols=23  Identities=30%  Similarity=0.476  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..+|+|+|+.|+||||+++.+..
T Consensus         6 g~~i~l~G~~GsGKSTl~~~L~~   28 (207)
T 2j41_A            6 GLLIVLSGPSGVGKGTVRKRIFE   28 (207)
T ss_dssp             CCEEEEECSTTSCHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            45899999999999999999875

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=94.64  E-value=0.013  Score=52.82  Aligned_cols=23  Identities=22%  Similarity=0.419  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..+|.|.|+.|+||||+|+.+..
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=94.64  E-value=0.019  Score=51.85  Aligned_cols=25  Identities=32%  Similarity=0.407  Sum_probs=22.1

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ....+|+|+|+.|.||||+|+.+..
T Consensus        19 ~~~~~i~i~G~~GsGKSTl~~~L~~   43 (207)
T 2qt1_A           19 SKTFIIGISGVTNSGKTTLAKNLQK   43 (207)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3467899999999999999999876

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=94.63  E-value=0.0088  Score=59.37  Aligned_cols=85  Identities=12%  Similarity=0.133  Sum_probs=54.3

Q ss_pred             cc-ccceEEEeecCCcccCCcccccc-----CccceeecccCCCCCCCCCccC----CCCC-CCcceEEeccCCCCCCCC
Q 045152          420 MP-CLSVLRVYLCPKLKVLPDYLLQT-----TTLQKLRILQCPSMEELPILED----HIFL-PRLSSLRIEYCPKLKLLP  488 (533)
Q Consensus       420 lp-~L~~L~l~~c~~l~~lp~~l~~l-----~~L~~L~l~~~~~l~~lp~~~~----~~~l-~~L~~L~l~~C~~l~~lP  488 (533)
                      +| .|+.|++++|.--..-+..+..+     ++|++|++++|. +...+. ..    +..+ ++|++|++++| .+...+
T Consensus        49 ~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~-l~~~~~-~~l~~~l~~~~~~L~~L~Ls~N-~l~~~~  125 (362)
T 3goz_A           49 TPASVTSLNLSGNSLGFKNSDELVQILAAIPANVTSLNLSGNF-LSYKSS-DELVKTLAAIPFTITVLDLGWN-DFSSKS  125 (362)
T ss_dssp             CCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSC-GGGSCH-HHHHHHHHTSCTTCCEEECCSS-CGGGSC
T ss_pred             CCCceeEEECcCCCCCHHHHHHHHHHHhccCCCccEEECcCCc-CChHHH-HHHHHHHHhCCCCccEEECcCC-cCCcHH
Confidence            55 68888888764333334444443     788888888776 554331 11    3334 78999999886 476666


Q ss_pred             c-C----CCC-CCCcceeeccCCch
Q 045152          489 D-S----LLQ-ITTLKELGMEGSPL  507 (533)
Q Consensus       489 ~-~----~~~-l~~L~~L~~~~c~~  507 (533)
                      . .    +.. .++|++|++++|..
T Consensus       126 ~~~l~~~l~~~~~~L~~L~Ls~N~l  150 (362)
T 3goz_A          126 SSEFKQAFSNLPASITSLNLRGNDL  150 (362)
T ss_dssp             HHHHHHHHTTSCTTCCEEECTTSCG
T ss_pred             HHHHHHHHHhCCCceeEEEccCCcC
Confidence            3 1    333 26899999988864

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=94.62  E-value=0.029  Score=54.92  Aligned_cols=44  Identities=23%  Similarity=0.229  Sum_probs=30.5

Q ss_pred             echhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          186 GRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       186 GR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +-+.-.+++++.+...-  ..+....|.|+|+.|+||||+++.+..
T Consensus         3 ~~~~L~~~il~~l~~~i--~~g~~~~i~l~G~~G~GKTTl~~~la~   46 (359)
T 2ga8_A            3 DTHKLADDVLQLLDNRI--EDNYRVCVILVGSPGSGKSTIAEELCQ   46 (359)
T ss_dssp             CHHHHHHHHHHHHHHTT--TTCSCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHh--ccCCeeEEEEECCCCCcHHHHHHHHHH
Confidence            34445566666653222  124566799999999999999998876

>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=94.61  E-value=0.016  Score=51.40  Aligned_cols=22  Identities=41%  Similarity=0.700  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .+|.|.|++|+||||+++.+.+
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            4799999999999999999876

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=94.61  E-value=0.018  Score=50.86  Aligned_cols=22  Identities=36%  Similarity=0.498  Sum_probs=19.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhcc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .++|+|+.|+|||||++.+...
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            5789999999999999988754

>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=94.59  E-value=0.23  Score=50.34  Aligned_cols=65  Identities=25%  Similarity=0.211  Sum_probs=45.5

Q ss_pred             HHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCch-hHHHHHHHHHHH
Q 045152          193 ELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTF-EEIRVAKAIIEG  263 (533)
Q Consensus       193 ~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~-~~~~l~~~il~~  263 (533)
                      +.++.|..-     .+-.-++|+|.+|+|||+|+..+.++. .+.+-+.++++-+.+.. .+.++.+++...
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            566666533     345688999999999999998887631 23344667888787765 456677777654

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=94.59  E-value=0.013  Score=52.96  Aligned_cols=24  Identities=25%  Similarity=0.441  Sum_probs=21.3

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+|.|+|++|+|||||++.+..
T Consensus        11 ~~~~i~l~G~sGsGKsTl~~~L~~   34 (204)
T 2qor_A           11 RIPPLVVCGPSGVGKGTLIKKVLS   34 (204)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHH
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHH
Confidence            456899999999999999999875

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=94.58  E-value=0.014  Score=52.58  Aligned_cols=23  Identities=30%  Similarity=0.475  Sum_probs=20.0

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .++++|+|+.|+|||||++.+..
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

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=94.56  E-value=0.0042  Score=55.32  Aligned_cols=22  Identities=23%  Similarity=0.051  Sum_probs=18.3

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .++.|+|+.|+||||++..+..
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            4788999999999999955544

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=94.54  E-value=0.021  Score=51.38  Aligned_cols=25  Identities=28%  Similarity=0.320  Sum_probs=22.1

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ....+|+|.|+.|+||||+|+.+.+
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            3567899999999999999998875

>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=94.53  E-value=0.02  Score=51.40  Aligned_cols=25  Identities=36%  Similarity=0.417  Sum_probs=22.4

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ....+|+|+|+.|+||||+++.+..
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            4567999999999999999999875

>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}

Probab=94.53  E-value=0.036  Score=56.94  Aligned_cols=22  Identities=27%  Similarity=0.492  Sum_probs=20.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhcc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .+.|.|.+|.||||++..+...
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            8999999999999999888764

>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=94.49  E-value=0.015  Score=51.33  Aligned_cols=23  Identities=43%  Similarity=0.515  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..+|.|+|++|+||||+++.+..
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            45788999999999999999875

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B*

Probab=94.48  E-value=0.029  Score=59.36  Aligned_cols=81  Identities=15%  Similarity=0.039  Sum_probs=43.4

Q ss_pred             ccccceEEEeecCCc---ccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCC--CCcCCCCC
Q 045152          420 MPCLSVLRVYLCPKL---KVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKL--LPDSLLQI  494 (533)
Q Consensus       420 lp~L~~L~l~~c~~l---~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~--lP~~~~~l  494 (533)
                      ++.|+.|.++.+...   ...+..+..+.+|+.|+++++. ...+|  ..+..+++|++|+|++|. +..  ++.-+.++
T Consensus       242 ~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~-~~~l~--~~~~~~~~L~~L~Ls~~~-l~~~~~~~~~~~~  317 (592)
T 3ogk_B          242 AANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYMG-PNEMP--ILFPFAAQIRKLDLLYAL-LETEDHCTLIQKC  317 (592)
T ss_dssp             CTTCCEEEECBCCCCTTCTTSSSCCCCCTTCCEEEETTCC-TTTGG--GGGGGGGGCCEEEETTCC-CCHHHHHHHHTTC
T ss_pred             hhHHHhhcccccccccchHHHHHHhhccccccccCccccc-hhHHH--HHHhhcCCCcEEecCCCc-CCHHHHHHHHHhC
Confidence            455666666532221   2233344555666666666532 34455  345556777777777766 422  22234566


Q ss_pred             CCcceeeccC
Q 045152          495 TTLKELGMEG  504 (533)
Q Consensus       495 ~~L~~L~~~~  504 (533)
                      ++|++|++++
T Consensus       318 ~~L~~L~L~~  327 (592)
T 3ogk_B          318 PNLEVLETRN  327 (592)
T ss_dssp             TTCCEEEEEG
T ss_pred             cCCCEEeccC
Confidence            7777777753

>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=94.47  E-value=0.076  Score=57.92  Aligned_cols=158  Identities=13%  Similarity=0.055  Sum_probs=77.5

Q ss_pred             CCceeechhhHHHHHHHHhCCCcc-------CCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhH
Q 045152          181 EGEVCGRVEEKNELLSKLLCESSE-------QQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEE  253 (533)
Q Consensus       181 ~~~~vGR~~e~~~l~~~L~~~~~~-------~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~  253 (533)
                      -.++.|.++.+++|.+.+.-....       +-...+-+.++|++|.|||.||+.+.+.  ...     -++.++..   
T Consensus       476 w~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e--~~~-----~f~~v~~~---  545 (806)
T 3cf2_A          476 WEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANE--CQA-----NFISIKGP---  545 (806)
T ss_dssp             STTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHT--TTC-----EEEECCHH---
T ss_pred             HHHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHH--hCC-----ceEEeccc---
Confidence            345778888888877765322110       1223456889999999999999999974  221     23333321   


Q ss_pred             HHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCC----------ccc----cchhhhcccCC--CC
Q 045152          254 IRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGD----------YKK----WNPFFSCLKNG--HH  317 (533)
Q Consensus       254 ~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~----------~~~----~~~l~~~l~~~--~~  317 (533)
                           +++....+     .....+...+...-+..+.+|+||+++..-          ...    ...|+..+...  ..
T Consensus       546 -----~l~s~~vG-----ese~~vr~lF~~Ar~~~P~IifiDEiDsl~~~R~~~~~~~~~~~~rv~~~lL~~mdg~~~~~  615 (806)
T 3cf2_A          546 -----ELLTMWFG-----ESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKK  615 (806)
T ss_dssp             -----HHHTTTCS-----SCHHHHHHHHHHHHTTCSEEEECSCGGGCC--------------CHHHHHHHHHHHSSCSSS
T ss_pred             -----hhhccccc-----hHHHHHHHHHHHHHHcCCceeechhhhHHhhccCCCCCCCchHHHHHHHHHHHHHhCCCCCC
Confidence                 12222211     112223333333335578999999995320          001    11222222211  22


Q ss_pred             CceEEEEecchHHH-----hhhCCCCeeeCCCCChHhhHHHHHHhh
Q 045152          318 ESKILITTRDRSVA-----LQLGSIDIIPVKELAEEECWSLLERLA  358 (533)
Q Consensus       318 gs~IiiTtR~~~v~-----~~~~~~~~~~l~~L~~~~~~~Lf~~~a  358 (533)
                      +.-||-||..+...     +.-.....+.++.-+.++-.++|+.+.
T Consensus       616 ~V~vi~aTN~p~~lD~AllRpgRfd~~i~v~lPd~~~R~~il~~~l  661 (806)
T 3cf2_A          616 NVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANL  661 (806)
T ss_dssp             SEEEECC-CCSSSSCHHHHSTTTSCCEEEC-----CHHHHTTTTTS
T ss_pred             CEEEEEeCCCchhCCHhHcCCCcceEEEEECCcCHHHHHHHHHHHh
Confidence            33334355543221     111235677887777777777776554

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=94.47  E-value=0.02  Score=50.95  Aligned_cols=23  Identities=26%  Similarity=0.237  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..+|.|.|++|+||||+|+.+.+
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            36899999999999999998875

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=94.46  E-value=0.018  Score=51.68  Aligned_cols=21  Identities=29%  Similarity=0.428  Sum_probs=19.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045152          211 VISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .|+|.|+.|+||||+++.+.+
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~   22 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISK   22 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHH
Confidence            589999999999999999876

>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=94.44  E-value=0.021  Score=50.66  Aligned_cols=24  Identities=29%  Similarity=0.344  Sum_probs=21.1

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ....|.|+|+.|+||||+++.+..
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            346899999999999999998875

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=94.43  E-value=0.022  Score=51.92  Aligned_cols=25  Identities=28%  Similarity=0.263  Sum_probs=22.8

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...++|.|.|++|+||||.|+.+.+
T Consensus        27 ~k~kiI~llGpPGsGKgTqa~~L~~   51 (217)
T 3umf_A           27 AKAKVIFVLGGPGSGKGTQCEKLVQ   51 (217)
T ss_dssp             TSCEEEEEECCTTCCHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHH
Confidence            5678999999999999999999886

>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=94.39  E-value=0.021  Score=51.19  Aligned_cols=24  Identities=21%  Similarity=0.577  Sum_probs=21.3

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..++|+|+|+.|+|||||++.+..
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            456899999999999999998875

>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=94.36  E-value=0.02  Score=52.41  Aligned_cols=22  Identities=36%  Similarity=0.489  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .+|+|+|+.|+||||+++.+..
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            4799999999999999998865

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=94.36  E-value=0.0052  Score=61.07  Aligned_cols=84  Identities=13%  Similarity=0.117  Sum_probs=62.0

Q ss_pred             ccceEEEeecCCccc-----CCcccccc-CccceeecccCCCCCCCCC---ccCCCCCCCcceEEeccCC-------CCC
Q 045152          422 CLSVLRVYLCPKLKV-----LPDYLLQT-TTLQKLRILQCPSMEELPI---LEDHIFLPRLSSLRIEYCP-------KLK  485 (533)
Q Consensus       422 ~L~~L~l~~c~~l~~-----lp~~l~~l-~~L~~L~l~~~~~l~~lp~---~~~~~~l~~L~~L~l~~C~-------~l~  485 (533)
                      .|+.|++++|. +..     ++..+..+ ++|++|+++++. +...+.   ...+..+++|++|+|++|.       .+.
T Consensus       197 ~L~~L~Ls~N~-i~~~~~~~l~~~l~~~~~~L~~L~Ls~N~-l~~~~~~~l~~~~~~l~~L~~L~L~~n~l~~i~~~~~~  274 (362)
T 3goz_A          197 SVTSLDLSANL-LGLKSYAELAYIFSSIPNHVVSLNLCLNC-LHGPSLENLKLLKDSLKHLQTVYLDYDIVKNMSKEQCK  274 (362)
T ss_dssp             TCCEEECTTSC-GGGSCHHHHHHHHHHSCTTCCEEECCSSC-CCCCCHHHHHHTTTTTTTCSEEEEEHHHHTTCCHHHHH
T ss_pred             CCCEEECCCCC-CChhHHHHHHHHHhcCCCCceEEECcCCC-CCcHHHHHHHHHHhcCCCccEEEeccCCccccCHHHHH
Confidence            78999998865 333     56666553 599999999865 655442   1235678999999999975       245


Q ss_pred             CCCcCCCCCCCcceeeccCCch
Q 045152          486 LLPDSLLQITTLKELGMEGSPL  507 (533)
Q Consensus       486 ~lP~~~~~l~~L~~L~~~~c~~  507 (533)
                      .++..+.++++|+.|++++++.
T Consensus       275 ~l~~~~~~l~~L~~LdL~~N~l  296 (362)
T 3goz_A          275 ALGAAFPNIQKIILVDKNGKEI  296 (362)
T ss_dssp             HHHTTSTTCCEEEEECTTSCBC
T ss_pred             HHHHHhccCCceEEEecCCCcC
Confidence            5666788899999999998873

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=94.35  E-value=0.026  Score=50.02  Aligned_cols=26  Identities=38%  Similarity=0.362  Sum_probs=22.5

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ....+|.|.|++|+||||+++.+...
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            34678999999999999999999863

>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=94.35  E-value=0.12  Score=52.75  Aligned_cols=99  Identities=19%  Similarity=0.186  Sum_probs=61.9

Q ss_pred             HHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCch-hHHHHHHHHHHHhCCC----
Q 045152          193 ELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTF-EEIRVAKAIIEGLGVS----  267 (533)
Q Consensus       193 ~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~-~~~~l~~~il~~l~~~----  267 (533)
                      +.++.|..-     .+-.-++|+|.+|+|||+|+..+.++ ..+.+-+.++++-+.+.. .+.++.+++...-...    
T Consensus       154 rvID~l~pi-----gkGqr~gIfgg~GvGKT~L~~~l~~~-~a~~~~~v~V~~~iGER~rEv~e~~~~~~~~~~l~~~~l  227 (498)
T 1fx0_B          154 KVVNLLAPY-----RRGGKIGLFGGAGVGKTVLIMELINN-IAKAHGGVSVFGGVGERTREGNDLYMEMKESGVINEQNI  227 (498)
T ss_dssp             TTHHHHSCC-----CTTCCEEEEECSSSSHHHHHHHHHHH-TTTTCSSCEEEEEESCCSHHHHHHHHHHHHTTSSCSSTT
T ss_pred             eEeeeeccc-----ccCCeEEeecCCCCCchHHHHHHHHH-HHhhCCCEEEEEEcccCcHHHHHHHHhhhcccccccccc
Confidence            455666433     34567899999999999999888763 123355788888887765 4567777776542111    


Q ss_pred             ----------CCCCcc-----HHHHHHHHHHHhC---CceEEEEEeCC
Q 045152          268 ----------ASGLSE-----FESLMKQIQEYIT---RKKFFLVLDDV  297 (533)
Q Consensus       268 ----------~~~~~~-----~~~l~~~l~~~l~---~kr~LlVLDdv  297 (533)
                                ..+...     .....-.+.++++   ++.+|+++||+
T Consensus       228 ~~~rtvvV~~t~d~p~~~R~~~~~~altiAEyfrd~~G~dVLl~~Dsi  275 (498)
T 1fx0_B          228 AESKVALVYGQMNEPPGARMRVGLTALTMAEYFRDVNEQDVLLFIDNI  275 (498)
T ss_dssp             CCCCEEEEEECTTSCHHHHTTHHHHHHHTHHHHTTTSCCEEEEEEECS
T ss_pred             cccceEEEEeCCCCCHHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccH
Confidence                      001111     1122333445554   57999999998

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=94.35  E-value=0.083  Score=51.56  Aligned_cols=51  Identities=12%  Similarity=0.028  Sum_probs=33.6

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHH
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIE  262 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~  262 (533)
                      ...++.|.|.+|+||||||..+..+...  +=..++|++..  .+...+...++.
T Consensus        45 ~G~LiiIaG~pG~GKTt~al~ia~~~a~--~g~~Vl~fSlE--ms~~ql~~Rlls   95 (338)
T 4a1f_A           45 KGSLVIIGARPSMGKTSLMMNMVLSALN--DDRGVAVFSLE--MSAEQLALRALS   95 (338)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHHHHHHH--TTCEEEEEESS--SCHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHH--cCCeEEEEeCC--CCHHHHHHHHHH
Confidence            4468899999999999999888764322  22356666543  344555555543

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=94.35  E-value=0.024  Score=50.13  Aligned_cols=23  Identities=26%  Similarity=0.260  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...|.|.|++|+||||+|+.+.+
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            45799999999999999999875

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=94.35  E-value=0.019  Score=49.89  Aligned_cols=24  Identities=33%  Similarity=0.422  Sum_probs=20.6

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+|+|.|+.|+||||+|+.+..
T Consensus         6 ~~~~i~l~G~~GsGKSTva~~La~   29 (168)
T 1zuh_A            6 HMQHLVLIGFMGSGKSSLAQELGL   29 (168)
T ss_dssp             --CEEEEESCTTSSHHHHHHHHHH
T ss_pred             ccceEEEECCCCCCHHHHHHHHHH
Confidence            467899999999999999999875

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=94.32  E-value=0.021  Score=53.53  Aligned_cols=22  Identities=23%  Similarity=0.129  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .+|.|.|+.|+||||||+.+..
T Consensus         2 ~li~I~G~~GSGKSTla~~La~   23 (253)
T 2ze6_A            2 LLHLIYGPTCSGKTDMAIQIAQ   23 (253)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHh
Confidence            4789999999999999999875

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=94.31  E-value=0.019  Score=51.15  Aligned_cols=24  Identities=29%  Similarity=0.310  Sum_probs=21.2

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+|.|.|++|+||||+|+.+.+
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~La~   31 (196)
T 2c95_A            8 KTNIIFVVGGPGSGKGTQCEKIVQ   31 (196)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
Confidence            346899999999999999999875

>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=94.30  E-value=0.027  Score=54.61  Aligned_cols=25  Identities=24%  Similarity=0.307  Sum_probs=22.4

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ....+|+|+|+.|+|||||++.+..
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            4567999999999999999998875

>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=94.29  E-value=0.025  Score=51.01  Aligned_cols=22  Identities=41%  Similarity=0.510  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .+|+|+|+.|+||||+++.+..
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            4799999999999999999865

>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=94.28  E-value=0.023  Score=53.55  Aligned_cols=23  Identities=35%  Similarity=0.595  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..+|.|.|++|+||||+|+.+..
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            46899999999999999999876

>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=94.27  E-value=0.022  Score=51.50  Aligned_cols=24  Identities=25%  Similarity=0.325  Sum_probs=21.2

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+++|+|+.|+|||||++.+..
T Consensus        19 ~Gei~~l~GpnGsGKSTLl~~l~g   42 (207)
T 1znw_A           19 VGRVVVLSGPSAVGKSTVVRCLRE   42 (207)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHh
Confidence            346899999999999999998875

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=94.26  E-value=0.03  Score=48.36  Aligned_cols=24  Identities=33%  Similarity=0.288  Sum_probs=21.4

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+++|+|+.|.|||||++.+..
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            456999999999999999998875

>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=94.24  E-value=0.022  Score=53.07  Aligned_cols=23  Identities=30%  Similarity=0.322  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..+|+|+|+.|+|||||++.+.+
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

>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=94.23  E-value=0.023  Score=49.51  Aligned_cols=25  Identities=32%  Similarity=0.351  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ...++.|+|..|+|||||+..+...
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            4678999999999999999998863

>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=94.23  E-value=0.022  Score=51.33  Aligned_cols=21  Identities=43%  Similarity=0.498  Sum_probs=19.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045152          211 VISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +|+|+|+.|+||||+++.+..
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            689999999999999998874

>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=94.20  E-value=0.034  Score=51.75  Aligned_cols=24  Identities=21%  Similarity=0.065  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ....|.|.|++|+||||+|+.+.+
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            567899999999999999999875

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=94.19  E-value=0.025  Score=51.06  Aligned_cols=23  Identities=30%  Similarity=0.468  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ..|.|.|++|+||||+|+.+.+.
T Consensus         5 ~~I~i~G~~GsGKsT~~~~L~~~   27 (213)
T 2plr_A            5 VLIAFEGIDGSGKSSQATLLKDW   27 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHH
Confidence            58999999999999999999763

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=94.17  E-value=0.032  Score=50.99  Aligned_cols=25  Identities=32%  Similarity=0.470  Sum_probs=21.9

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ....|+|+|.+|+|||||+..+...
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            5688999999999999999888764

>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=94.17  E-value=0.025  Score=50.78  Aligned_cols=24  Identities=29%  Similarity=0.230  Sum_probs=21.2

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ....|.|.|++|+||||+|+.+..
T Consensus        19 ~~~~I~l~G~~GsGKST~a~~La~   42 (201)
T 2cdn_A           19 SHMRVLLLGPPGAGKGTQAVKLAE   42 (201)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            445899999999999999999875

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=94.13  E-value=0.029  Score=52.29  Aligned_cols=24  Identities=21%  Similarity=0.266  Sum_probs=21.3

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+|+|.|+.|+|||||++.+..
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            457899999999999999998865

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=94.11  E-value=0.022  Score=49.87  Aligned_cols=21  Identities=38%  Similarity=0.536  Sum_probs=19.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045152          211 VISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .|.|.|++|+||||+|+.+..
T Consensus         6 ~i~i~G~~GsGKsTla~~La~   26 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAK   26 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            589999999999999999975

>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=94.09  E-value=0.029  Score=49.71  Aligned_cols=23  Identities=26%  Similarity=0.247  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..+|+|.|+.|+||||+|+.+.+
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~   28 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999875

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=94.09  E-value=0.025  Score=51.73  Aligned_cols=24  Identities=21%  Similarity=0.223  Sum_probs=21.4

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+++|+|+.|+|||||.+.+..
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            456899999999999999999875

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=94.09  E-value=0.22  Score=50.48  Aligned_cols=25  Identities=32%  Similarity=0.332  Sum_probs=21.7

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...++|.++|.+|+||||++..+..
T Consensus        98 ~~~~vI~ivG~~GvGKTT~a~~LA~  122 (433)
T 2xxa_A           98 QPPAVVLMAGLQGAGKTTSVGKLGK  122 (433)
T ss_dssp             SSSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3578999999999999999977765

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=94.09  E-value=0.021  Score=52.23  Aligned_cols=24  Identities=29%  Similarity=0.481  Sum_probs=21.0

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+++|+|+.|+|||||++.+..
T Consensus        22 ~G~~~~lvGpsGsGKSTLl~~L~g   45 (218)
T 1z6g_A           22 NIYPLVICGPSGVGKGTLIKKLLN   45 (218)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHh
Confidence            345899999999999999998875

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=94.08  E-value=0.017  Score=50.85  Aligned_cols=23  Identities=30%  Similarity=0.298  Sum_probs=16.7

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..+|.|.|+.|+||||+|+.+.+
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            45899999999999999999875

>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=94.04  E-value=0.029  Score=52.53  Aligned_cols=25  Identities=16%  Similarity=0.190  Sum_probs=21.7

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ....+|+|.|+.|+||||+|+.+..
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            3567899999999999999998875

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=94.04  E-value=0.027  Score=54.35  Aligned_cols=24  Identities=33%  Similarity=0.400  Sum_probs=21.4

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+++|+|++|+|||||+..+..
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            457999999999999999988875

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=94.04  E-value=0.17  Score=49.18  Aligned_cols=25  Identities=40%  Similarity=0.422  Sum_probs=22.3

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ....+++|+|+.|+||||+++.+..
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            4578999999999999999988875

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=93.98  E-value=0.038  Score=54.76  Aligned_cols=38  Identities=13%  Similarity=0.160  Sum_probs=17.8

Q ss_pred             CCCCcceEEeccCCCCCCCCcC---CCCCCCcceeeccCCc
Q 045152          469 FLPRLSSLRIEYCPKLKLLPDS---LLQITTLKELGMEGSP  506 (533)
Q Consensus       469 ~l~~L~~L~l~~C~~l~~lP~~---~~~l~~L~~L~~~~c~  506 (533)
                      .+|+|++|+|++|.--...+..   ...+++|++|+++.|.
T Consensus       250 ~~p~Lr~L~L~~~~i~~~~~~~la~a~~~~~L~~LdLs~n~  290 (362)
T 2ra8_A          250 RFPNLKWLGIVDAEEQNVVVEMFLESDILPQLETMDISAGV  290 (362)
T ss_dssp             TCTTCCEEEEESCTTHHHHHHHHHHCSSGGGCSEEECCSSC
T ss_pred             CCCCcCEEeCCCCCCchHHHHHHHhCccCCCCCEEECCCCC
Confidence            3566666666665432111100   0135566666665553

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=93.94  E-value=0.028  Score=48.75  Aligned_cols=21  Identities=33%  Similarity=0.414  Sum_probs=19.3

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045152          211 VISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .|.|.|+.|+||||+|+.+.+
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            589999999999999999876

>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=93.93  E-value=0.22  Score=50.19  Aligned_cols=24  Identities=42%  Similarity=0.353  Sum_probs=20.9

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...++.|+|.+|+||||++..+..
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~  120 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLAL  120 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            356899999999999999988875

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=93.91  E-value=0.21  Score=48.38  Aligned_cols=25  Identities=40%  Similarity=0.534  Sum_probs=21.9

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ....+|+|+|.+|+||||++..+..
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            3568999999999999999988875

>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=93.90  E-value=0.034  Score=48.89  Aligned_cols=24  Identities=33%  Similarity=0.368  Sum_probs=21.2

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+|+|.|+.|+||||+++.+..
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            356899999999999999999876

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=93.88  E-value=0.026  Score=50.35  Aligned_cols=23  Identities=26%  Similarity=0.335  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..+|+|.|++|+||||+|+.+.+
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

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=93.87  E-value=0.028  Score=49.87  Aligned_cols=21  Identities=43%  Similarity=0.695  Sum_probs=19.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045152          211 VISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +|+|.|+.|+||||+|+.+.+
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            689999999999999999976

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=93.85  E-value=0.5  Score=48.72  Aligned_cols=25  Identities=40%  Similarity=0.408  Sum_probs=20.6

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ....+|.|+|.+|+||||++..+..
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            4578999999999999999988874

>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=93.85  E-value=0.024  Score=49.38  Aligned_cols=22  Identities=32%  Similarity=0.365  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .+|.|.|+.|+||||+|+.+.+
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            3689999999999999999875

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=93.84  E-value=0.13  Score=45.96  Aligned_cols=51  Identities=25%  Similarity=0.261  Sum_probs=32.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHH
Q 045152          211 VISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEG  263 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~  263 (533)
                      .|+|=|..|+||||.++.+.+.  .+..-..+++..-+......+..+.++..
T Consensus         2 fI~~EG~DGsGKsTq~~~L~~~--L~~~g~~v~~treP~~t~~~~~ir~~l~~   52 (197)
T 3hjn_A            2 FITFEGIDGSGKSTQIQLLAQY--LEKRGKKVILKREPGGTETGEKIRKILLE   52 (197)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH--HHHTTCCEEEEESSCSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH--HHHCCCcEEEEECCCCCcHHHHHHHHhhc
Confidence            3778899999999999999873  33333344555444444444555555543

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=93.83  E-value=0.24  Score=47.41  Aligned_cols=88  Identities=25%  Similarity=0.177  Sum_probs=45.8

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCc-hhHHHHHHHHHHHhCCC---CCCCccHHHHHHHHHHH
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT-FEEIRVAKAIIEGLGVS---ASGLSEFESLMKQIQEY  284 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~-~~~~~l~~~il~~l~~~---~~~~~~~~~l~~~l~~~  284 (533)
                      ..++.++|.+|+||||++..+....  ...-..+.++..... ......+....+..+..   .....+...+.....+.
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 PYVIMLVGVQGTGKTTTAGKLAYFY--KKKGFKVGLVGADVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIAKRGVEK  175 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHH--HHTTCCEEEEECCCSSSHHHHHHHHHHHHHTCCEECCTTCCCHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH--HHCCCeEEEEecCCCCHHHHHHHHHHhccCCeEEEecCCCCCHHHHHHHHHHH
Confidence            6789999999999999998887532  222224555554322 12223333344444332   11112333333333333


Q ss_pred             hC-CceEEEEEeCCC
Q 045152          285 IT-RKKFFLVLDDVW  298 (533)
Q Consensus       285 l~-~kr~LlVLDdv~  298 (533)
                      ++ ...=++++|-.-
T Consensus       176 ~~~~~~D~ViIDTpg  190 (297)
T 1j8m_F          176 FLSEKMEIIIVDTAG  190 (297)
T ss_dssp             HHHTTCSEEEEECCC
T ss_pred             HHhCCCCEEEEeCCC
Confidence            33 333478888763

>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=93.82  E-value=0.028  Score=51.32  Aligned_cols=23  Identities=30%  Similarity=0.257  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...|.|.|++|+||||+|+.+.+
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            45799999999999999999875

>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=93.80  E-value=0.29  Score=45.11  Aligned_cols=103  Identities=17%  Similarity=0.125  Sum_probs=53.5

Q ss_pred             EEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCC--------CCC-----CccHHHHH
Q 045152          212 ISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVS--------ASG-----LSEFESLM  278 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~--------~~~-----~~~~~~l~  278 (533)
                      +.|+|+.|.|||.+|..+....     -..++++ +....-..++...+.+ ++..        ...     ....+.+.
T Consensus       111 ~ll~~~tG~GKT~~a~~~~~~~-----~~~~liv-~P~~~L~~q~~~~~~~-~~~~~v~~~~g~~~~~~~i~v~T~~~l~  183 (237)
T 2fz4_A          111 GCIVLPTGSGKTHVAMAAINEL-----STPTLIV-VPTLALAEQWKERLGI-FGEEYVGEFSGRIKELKPLTVSTYDSAY  183 (237)
T ss_dssp             EEEEESSSTTHHHHHHHHHHHS-----CSCEEEE-ESSHHHHHHHHHHHGG-GCGGGEEEESSSCBCCCSEEEEEHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHHc-----CCCEEEE-eCCHHHHHHHHHHHHh-CCCCeEEEEeCCCCCcCCEEEEeHHHHH
Confidence            7789999999999998776421     1234444 3332222333333322 2211        000     01233333


Q ss_pred             HHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEe
Q 045152          279 KQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITT  325 (533)
Q Consensus       279 ~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTt  325 (533)
                      .... .+..+--+||+|+++......+..+...++   ...++.+|.
T Consensus       184 ~~~~-~~~~~~~llIiDEaH~l~~~~~~~i~~~~~---~~~~l~LSA  226 (237)
T 2fz4_A          184 VNAE-KLGNRFMLLIFDEVHHLPAESYVQIAQMSI---APFRLGLTA  226 (237)
T ss_dssp             HTHH-HHTTTCSEEEEECSSCCCTTTHHHHHHTCC---CSEEEEEEE
T ss_pred             hhHH-HhcccCCEEEEECCccCCChHHHHHHHhcc---CCEEEEEec
Confidence            3333 334455699999998765555666555443   234455554

>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=93.78  E-value=0.028  Score=49.60  Aligned_cols=21  Identities=38%  Similarity=0.501  Sum_probs=19.3

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045152          211 VISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +|.|.|++|+||||+|+.+..
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            589999999999999999875

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=93.77  E-value=0.063  Score=51.89  Aligned_cols=25  Identities=28%  Similarity=0.344  Sum_probs=22.2

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ....+|+|+|+.|+|||||++.+..
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            4567999999999999999998875

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=93.77  E-value=0.036  Score=50.42  Aligned_cols=39  Identities=21%  Similarity=0.242  Sum_probs=28.2

Q ss_pred             hhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          188 VEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       188 ~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ++..+.+...+.      .....+|+|+|.+|+|||||+..+...
T Consensus        15 ~~~~~~~~~~~~------~~~~~~i~i~G~~g~GKTTl~~~l~~~   53 (221)
T 2wsm_A           15 KRLAEKNREALR------ESGTVAVNIMGAIGSGKTLLIERTIER   53 (221)
T ss_dssp             HHHHHHHHHHHH------HHTCEEEEEEECTTSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhc------ccCceEEEEEcCCCCCHHHHHHHHHHH
Confidence            344455555442      135689999999999999999888764

>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=93.77  E-value=0.2  Score=47.99  Aligned_cols=24  Identities=42%  Similarity=0.332  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ..+++|+|.+|+||||++..+...
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            468999999999999999888753

>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=93.76  E-value=0.022  Score=56.03  Aligned_cols=45  Identities=20%  Similarity=0.215  Sum_probs=32.2

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .+++|.+..+..+...+....      ...+.|+|++|+|||+||+.+.+.
T Consensus        24 ~~i~G~~~~~~~l~~~~~~~~------~~~vLl~G~~GtGKT~la~~la~~   68 (350)
T 1g8p_A           24 SAIVGQEDMKLALLLTAVDPG------IGGVLVFGDRGTGKSTAVRALAAL   68 (350)
T ss_dssp             GGSCSCHHHHHHHHHHHHCGG------GCCEEEECCGGGCTTHHHHHHHHH
T ss_pred             hhccChHHHHHHHHHHhhCCC------CceEEEECCCCccHHHHHHHHHHh
Confidence            358999876665544443221      223899999999999999999863

>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=93.76  E-value=0.029  Score=50.80  Aligned_cols=24  Identities=25%  Similarity=0.271  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ..+|+|.|+.|+||||+|+.+.+.
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            458999999999999999999863

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=93.74  E-value=0.032  Score=52.24  Aligned_cols=23  Identities=35%  Similarity=0.429  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..+|+|+|+.|+||||+++.+..
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            45899999999999999999974

>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=93.74  E-value=0.035  Score=53.83  Aligned_cols=25  Identities=36%  Similarity=0.553  Sum_probs=20.9

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+||+|.|-|||||||.+-.+..
T Consensus        46 ~~aKVIAIaGKGGVGKTTtavNLA~   70 (314)
T 3fwy_A           46 TGAKVFAVYGKGGIGKSTTSSNLSA   70 (314)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCceEEEEECCCccCHHHHHHHHHH
Confidence            4678999999999999999966653

>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=93.70  E-value=0.12  Score=52.95  Aligned_cols=42  Identities=33%  Similarity=0.464  Sum_probs=28.9

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCch
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTF  251 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~  251 (533)
                      ....+++|+|..|+|||||++.+..-  .. .....+++.-.+.+
T Consensus       291 ~~GeVI~LVGpNGSGKTTLl~~LAgl--l~-~~~G~V~l~g~D~~  332 (503)
T 2yhs_A          291 KAPFVILMVGVNGVGKTTTIGKLARQ--FE-QQGKSVMLAAGDTF  332 (503)
T ss_dssp             CTTEEEEEECCTTSSHHHHHHHHHHH--HH-HTTCCEEEECCCTT
T ss_pred             cCCeEEEEECCCcccHHHHHHHHHHH--hh-hcCCeEEEecCccc
Confidence            35679999999999999999988753  22 22345555433433

>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=93.63  E-value=0.038  Score=52.71  Aligned_cols=24  Identities=42%  Similarity=0.666  Sum_probs=21.5

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHh
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAY  230 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~  230 (533)
                      ....+|+|.|+.|+||||+|+.+.
T Consensus        73 ~~~~iI~I~G~~GSGKSTva~~La   96 (281)
T 2f6r_A           73 SGLYVLGLTGISGSGKSSVAQRLK   96 (281)
T ss_dssp             TTCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHH
Confidence            356789999999999999999887

>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=93.63  E-value=0.036  Score=49.55  Aligned_cols=25  Identities=32%  Similarity=0.437  Sum_probs=21.9

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..-.+|+|+|+.|+||||+++.+.+
T Consensus        10 ~~~~iIgltG~~GSGKSTva~~L~~   34 (192)
T 2grj_A           10 HHHMVIGVTGKIGTGKSTVCEILKN   34 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHH
Confidence            3457899999999999999998875

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=93.60  E-value=0.031  Score=50.52  Aligned_cols=25  Identities=28%  Similarity=0.298  Sum_probs=21.8

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ...+|+|.|+.|+||||+++.+.+.
T Consensus         9 ~~~~I~l~G~~GsGKST~~~~L~~~   33 (212)
T 2wwf_A            9 KGKFIVFEGLDRSGKSTQSKLLVEY   33 (212)
T ss_dssp             CSCEEEEEESTTSSHHHHHHHHHHH
T ss_pred             cCCEEEEEcCCCCCHHHHHHHHHHH
Confidence            3468999999999999999999863

>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=93.56  E-value=0.041  Score=49.85  Aligned_cols=25  Identities=36%  Similarity=0.282  Sum_probs=21.8

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ...+|.|.|+.|+||||+++.+...
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            4578999999999999999998763

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=93.48  E-value=0.044  Score=52.80  Aligned_cols=25  Identities=36%  Similarity=0.372  Sum_probs=22.0

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ....+++|+|+.|+||||+++.+..
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            3467999999999999999988875

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=93.47  E-value=0.032  Score=51.26  Aligned_cols=23  Identities=26%  Similarity=0.309  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...|.|.|++|+||||+|+.+.+
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            46799999999999999999875

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=93.44  E-value=0.039  Score=50.11  Aligned_cols=21  Identities=43%  Similarity=0.520  Sum_probs=18.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045152          211 VISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .|+|.|++|+||||+|+.+..
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            478999999999999999875

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=93.44  E-value=0.0077  Score=60.12  Aligned_cols=83  Identities=20%  Similarity=0.205  Sum_probs=55.0

Q ss_pred             cccceEEEeecCC----cccCCccccccCccceeecccCCCCCC-----CCCccCCCCCCCcceEEeccCCCCC-----C
Q 045152          421 PCLSVLRVYLCPK----LKVLPDYLLQTTTLQKLRILQCPSMEE-----LPILEDHIFLPRLSSLRIEYCPKLK-----L  486 (533)
Q Consensus       421 p~L~~L~l~~c~~----l~~lp~~l~~l~~L~~L~l~~~~~l~~-----lp~~~~~~~l~~L~~L~l~~C~~l~-----~  486 (533)
                      +.|+.|++++|.-    ...++..+...++|++|+|+++. +..     ++  ..+...++|++|+|++| .|.     .
T Consensus       155 ~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~L~~L~Ls~N~-l~~~g~~~L~--~~L~~~~~L~~L~Ls~N-~i~~~g~~~  230 (372)
T 3un9_A          155 CQITTLRLSNNPLTAAGVAVLMEGLAGNTSVTHLSLLHTG-LGDEGLELLA--AQLDRNRQLQELNVAYN-GAGDTAALA  230 (372)
T ss_dssp             CCCCEEECCSSCCHHHHHHHHHHHHHTCSSCCEEECTTSS-CHHHHHHHHH--HHGGGCSCCCEEECCSS-CCCHHHHHH
T ss_pred             CccceeeCCCCCCChHHHHHHHHHHhcCCCcCEEeCCCCC-CCcHHHHHHH--HHHhcCCCcCeEECCCC-CCCHHHHHH
Confidence            4688888887642    12355555667888888888765 432     22  34555678888888886 453     3


Q ss_pred             CCcCCCCCCCcceeeccCCch
Q 045152          487 LPDSLLQITTLKELGMEGSPL  507 (533)
Q Consensus       487 lP~~~~~l~~L~~L~~~~c~~  507 (533)
                      ++..+...++|++|++++|+.
T Consensus       231 l~~~L~~~~~L~~L~Ls~N~i  251 (372)
T 3un9_A          231 LARAAREHPSLELLHLYFNEL  251 (372)
T ss_dssp             HHHHHHHCSSCCEEECTTSSC
T ss_pred             HHHHHHhCCCCCEEeccCCCC
Confidence            444455568888888888874

>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=93.43  E-value=0.038  Score=49.58  Aligned_cols=23  Identities=30%  Similarity=0.250  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...|+|.|+.|+||||+++.+.+
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~   26 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIME   26 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHH
Confidence            35799999999999999999876

>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=93.41  E-value=0.041  Score=50.32  Aligned_cols=44  Identities=25%  Similarity=0.268  Sum_probs=30.1

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhh----ccCCceEEEEeCCc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVK----RNFEKVIWVCVSDT  250 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~----~~F~~~~wv~vs~~  250 (533)
                      ..-.+++|+|+.|+|||||++.+.......    ......+|+.....
T Consensus        23 ~~G~~~~l~G~nGsGKSTll~~l~g~~~~~~~~g~~~~~~i~~~~~~~   70 (231)
T 4a74_A           23 ETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENT   70 (231)
T ss_dssp             ESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCEEEEEECCCC
Confidence            345799999999999999999986421110    12345778775543

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=93.39  E-value=0.058  Score=47.70  Aligned_cols=26  Identities=27%  Similarity=0.253  Sum_probs=21.9

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .....|+|+|.+|+|||||...+...
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            34557899999999999999888764

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=93.37  E-value=0.026  Score=52.05  Aligned_cols=22  Identities=32%  Similarity=0.333  Sum_probs=16.3

Q ss_pred             eEEEEEEcCCCChHHHHHHHHh
Q 045152          209 LHVISLVGLGGIGKTTLAQLAY  230 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~  230 (533)
                      ..+++|+|+.|+|||||++.+.
T Consensus        27 G~ii~l~Gp~GsGKSTl~~~L~   48 (231)
T 3lnc_A           27 GVILVLSSPSGCGKTTVANKLL   48 (231)
T ss_dssp             CCEEEEECSCC----CHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHH
Confidence            4589999999999999999988

>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=93.35  E-value=0.047  Score=49.66  Aligned_cols=23  Identities=30%  Similarity=0.358  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..+|+|.|+.|+||||+++.+..
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            46899999999999999998863

>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=93.33  E-value=0.042  Score=50.87  Aligned_cols=24  Identities=25%  Similarity=0.374  Sum_probs=20.9

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+++|+|+.|.|||||.+.+..
T Consensus        30 ~Ge~~~iiG~nGsGKSTLl~~l~G   53 (235)
T 3tif_A           30 EGEFVSIMGPSGSGKSTMLNIIGC   53 (235)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhc
Confidence            345899999999999999999864

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=93.30  E-value=0.036  Score=49.36  Aligned_cols=22  Identities=41%  Similarity=0.471  Sum_probs=19.6

Q ss_pred             EEEEEcCCCChHHHHHHHHhcc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      +++|+|+.|+|||||++.+...
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

>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=93.29  E-value=0.042  Score=49.86  Aligned_cols=21  Identities=33%  Similarity=0.455  Sum_probs=18.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045152          211 VISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .|+|.|++|+||||+|+.+.+
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            478999999999999999865

>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=0.042  Score=51.02  Aligned_cols=22  Identities=27%  Similarity=0.413  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .+++|+|+.|.|||||.+.+..
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            7899999999999999999864

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B*

Probab=93.27  E-value=0.027  Score=59.66  Aligned_cols=85  Identities=12%  Similarity=0.096  Sum_probs=65.7

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCC-CCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEEL-PILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLK  498 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~l-p~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~  498 (533)
                      +|.|+.|.++.| .+..+|..+..+++|+.|++.++...... +....+..+++|+.|.++++ ....+|..+..+++|+
T Consensus       219 ~~~L~~L~L~~~-~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~-~~~~l~~~~~~~~~L~  296 (592)
T 3ogk_B          219 CRSLVSVKVGDF-EILELVGFFKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYM-GPNEMPILFPFAAQIR  296 (592)
T ss_dssp             CTTCCEEECSSC-BGGGGHHHHHHCTTCCEEEECBCCCCTTCTTSSSCCCCCTTCCEEEETTC-CTTTGGGGGGGGGGCC
T ss_pred             CCCCcEEeccCc-cHHHHHHHHhhhhHHHhhcccccccccchHHHHHHhhccccccccCcccc-chhHHHHHHhhcCCCc
Confidence            578899998885 45567877888899999999865443211 11256778899999999884 5677888888899999


Q ss_pred             eeeccCCc
Q 045152          499 ELGMEGSP  506 (533)
Q Consensus       499 ~L~~~~c~  506 (533)
                      +|++++|.
T Consensus       297 ~L~Ls~~~  304 (592)
T 3ogk_B          297 KLDLLYAL  304 (592)
T ss_dssp             EEEETTCC
T ss_pred             EEecCCCc
Confidence            99999998

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=93.26  E-value=0.026  Score=49.42  Aligned_cols=22  Identities=36%  Similarity=0.462  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .+++|+|..|.|||||++.+..
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            5799999999999999998875

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=93.26  E-value=0.032  Score=51.02  Aligned_cols=23  Identities=22%  Similarity=0.198  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...|.|.|++|+||||+|+.+.+
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

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=93.19  E-value=0.042  Score=50.42  Aligned_cols=23  Identities=30%  Similarity=0.398  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..+++|+|+.|.|||||.+.+..
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            35899999999999999999864

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=93.14  E-value=0.038  Score=50.33  Aligned_cols=23  Identities=30%  Similarity=0.437  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...|.|.|++|+||||+|+.+..
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            35789999999999999999875

>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=93.13  E-value=0.022  Score=51.63  Aligned_cols=21  Identities=33%  Similarity=0.559  Sum_probs=19.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045152          211 VISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +|+|.|+.|+||||+++.+..
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~   22 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSG   22 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            689999999999999998875

>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=93.07  E-value=0.09  Score=51.91  Aligned_cols=37  Identities=27%  Similarity=0.435  Sum_probs=27.0

Q ss_pred             HHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          191 KNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       191 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+.+.+...    .+...+|+|+|.+|+|||||+..+..
T Consensus        65 ~~~~~~~~~~~----~~~~~~I~i~G~~G~GKSTl~~~L~~  101 (355)
T 3p32_A           65 AQQLLLRLLPD----SGNAHRVGITGVPGVGKSTAIEALGM  101 (355)
T ss_dssp             HHHHHHHHGGG----CCCSEEEEEECCTTSSHHHHHHHHHH
T ss_pred             HHHHHHHhHhh----cCCceEEEEECCCCCCHHHHHHHHHH
Confidence            44455555322    24678999999999999999988764

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=93.04  E-value=0.32  Score=49.50  Aligned_cols=53  Identities=13%  Similarity=0.058  Sum_probs=35.7

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHH
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEG  263 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~  263 (533)
                      ...++.|.|.+|+||||||..+..+.... +-..++|++..  .+...+...++..
T Consensus       199 ~G~l~ii~G~pg~GKT~lal~ia~~~a~~-~g~~vl~~slE--~~~~~l~~R~~~~  251 (444)
T 2q6t_A          199 PGSLNIIAARPAMGKTAFALTIAQNAALK-EGVGVGIYSLE--MPAAQLTLRMMCS  251 (444)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHHHHHHHT-TCCCEEEEESS--SCHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHHh-CCCeEEEEECC--CCHHHHHHHHHHH
Confidence            45688999999999999998887643221 22357777654  3455666666544

>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=93.02  E-value=0.056  Score=49.72  Aligned_cols=25  Identities=24%  Similarity=0.145  Sum_probs=22.4

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ....+|+|.|+.|+|||||++.+..
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            4567999999999999999999886

>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=93.00  E-value=0.53  Score=58.10  Aligned_cols=139  Identities=14%  Similarity=0.076  Sum_probs=73.8

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCce
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKK  289 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr  289 (533)
                      +-+.++|++|.|||++|+.+....   ..+ ..+.++.+...+...++..+-..+..........      ..-.-.+++
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            578899999999999997766431   122 3455677776666665555544432210000000      000013578


Q ss_pred             EEEEEeCCCCCCcccc------chhhhcccCC-----C-------CCceEEEEecchH------HH-hhhCCCCeeeCCC
Q 045152          290 FFLVLDDVWDGDYKKW------NPFFSCLKNG-----H-------HESKILITTRDRS------VA-LQLGSIDIIPVKE  344 (533)
Q Consensus       290 ~LlVLDdv~~~~~~~~------~~l~~~l~~~-----~-------~gs~IiiTtR~~~------v~-~~~~~~~~~~l~~  344 (533)
                      .++.+||+.-...+.|      +.+...+..+     .       .+..+|.++....      +. ........+.++.
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            8999999754433322      2222222211     1       1233444443331      11 1112245688899


Q ss_pred             CChHhhHHHHHHhh
Q 045152          345 LAEEECWSLLERLA  358 (533)
Q Consensus       345 L~~~~~~~Lf~~~a  358 (533)
                      .+.++-..+|....
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            99888888887654

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=92.99  E-value=0.042  Score=49.79  Aligned_cols=22  Identities=32%  Similarity=0.303  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .+++|+|+.|.|||||.+.+..
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            4799999999999999998875

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=92.98  E-value=0.15  Score=60.89  Aligned_cols=85  Identities=18%  Similarity=0.177  Sum_probs=54.7

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCC-----CCccHHHHHHHH
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSAS-----GLSEFESLMKQI  281 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~-----~~~~~~~l~~~l  281 (533)
                      ...+++.|+|++|+|||+||.++...  ...+=..++|+++...++...     ++.++..-.     .....++....+
T Consensus      1425 ~~g~~vll~GppGtGKT~LA~ala~e--a~~~G~~v~Fi~~e~~~~~l~-----a~~~G~dl~~l~v~~~~~~E~~l~~~ 1497 (2050)
T 3cmu_A         1425 PMGRIVEIYGPESSGKTTLTLQVIAA--AQREGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEIC 1497 (2050)
T ss_dssp             ETTSEEEEECCTTSSHHHHHHHHHHH--HHTTTCCEEEECTTSCCCHHH-----HHHTTCCTTTCEEECCSSHHHHHHHH
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEEEcccccCHHH-----HHHcCCCchhceeecCChHHHHHHHH
Confidence            35679999999999999999888763  222334677888777665554     444442211     112334555555


Q ss_pred             HHHhC-CceEEEEEeCCC
Q 045152          282 QEYIT-RKKFFLVLDDVW  298 (533)
Q Consensus       282 ~~~l~-~kr~LlVLDdv~  298 (533)
                      +...+ .+.-+||+|.+.
T Consensus      1498 ~~lvr~~~~~lVVIDsi~ 1515 (2050)
T 3cmu_A         1498 DALARSGAVDVIVVDSVA 1515 (2050)
T ss_dssp             HHHHHHTCCSEEEESCGG
T ss_pred             HHHHhcCCCCEEEEcChh
Confidence            55543 466799999994

>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=92.95  E-value=0.05  Score=51.59  Aligned_cols=23  Identities=35%  Similarity=0.417  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..+++|+|+.|+|||||.+.+..
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            45899999999999999999864

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=92.94  E-value=0.05  Score=50.43  Aligned_cols=24  Identities=25%  Similarity=0.356  Sum_probs=21.2

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+++|+|+.|.|||||.+.+..
T Consensus        30 ~Ge~~~i~G~nGsGKSTLl~~l~G   53 (237)
T 2cbz_A           30 EGALVAVVGQVGCGKSSLLSALLA   53 (237)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            345899999999999999999975

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=92.94  E-value=0.22  Score=50.89  Aligned_cols=51  Identities=18%  Similarity=0.163  Sum_probs=33.7

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHH
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAII  261 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il  261 (533)
                      ...++.|.|.+|+||||||..+..+.... .-..++|++...  +...+...++
T Consensus       202 ~G~liiI~G~pG~GKTtl~l~ia~~~~~~-~g~~Vl~~s~E~--s~~~l~~r~~  252 (454)
T 2r6a_A          202 RSDLIIVAARPSVGKTAFALNIAQNVATK-TNENVAIFSLEM--SAQQLVMRML  252 (454)
T ss_dssp             TTCEEEEECCTTSCHHHHHHHHHHHHHHH-SSCCEEEEESSS--CHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHHh-CCCcEEEEECCC--CHHHHHHHHH
Confidence            45689999999999999998887643222 223577776543  3345555543

>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=92.92  E-value=0.28  Score=45.06  Aligned_cols=89  Identities=19%  Similarity=0.231  Sum_probs=48.5

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcchhh-hccC-CceEEEEeCCchhHHHHHHHHHHHhCCCCC---------------CC-
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNNDEV-KRNF-EKVIWVCVSDTFEEIRVAKAIIEGLGVSAS---------------GL-  271 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~~~~-~~~F-~~~~wv~vs~~~~~~~l~~~il~~l~~~~~---------------~~-  271 (533)
                      ..+.|.|+.|.||||+.....-+... .... ...+.+..........+.+.+...++....               .. 
T Consensus        77 ~~~~i~g~TGsGKTt~~~~~~~~~~~~~~~~~~~~~l~~~p~~~la~q~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~  156 (235)
T 3llm_A           77 SVVIIRGATGCGKTTQVPQFILDDFIQNDRAAECNIVVTQPRRISAVSVAERVAFERGEEPGKSCGYSVRFESILPRPHA  156 (235)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHHHHHTTCGGGCEEEEEESSHHHHHHHHHHHHHTTTCCTTSSEEEEETTEEECCCSSS
T ss_pred             CEEEEEeCCCCCcHHhHHHHHhcchhhcCCCCceEEEEeccchHHHHHHHHHHHHHhccccCceEEEeechhhccCCCCC
Confidence            47899999999999876544322111 1122 223444444444445555555554432210               00 


Q ss_pred             ----ccHHHHHHHHHHHhCCceEEEEEeCCCC
Q 045152          272 ----SEFESLMKQIQEYITRKKFFLVLDDVWD  299 (533)
Q Consensus       272 ----~~~~~l~~~l~~~l~~kr~LlVLDdv~~  299 (533)
                          .+.+.+...+...+.+ --++|+|+++.
T Consensus       157 ~Ivv~Tpg~l~~~l~~~l~~-~~~lVlDEah~  187 (235)
T 3llm_A          157 SIMFCTVGVLLRKLEAGIRG-ISHVIVDEIHE  187 (235)
T ss_dssp             EEEEEEHHHHHHHHHHCCTT-CCEEEECCTTS
T ss_pred             eEEEECHHHHHHHHHhhhcC-CcEEEEECCcc
Confidence                2345555666554433 34789999976

>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=92.91  E-value=0.052  Score=47.58  Aligned_cols=25  Identities=24%  Similarity=0.349  Sum_probs=21.8

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ...+++|+|+.|+|||||+..+...
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            3578999999999999999988863

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=92.91  E-value=0.051  Score=51.17  Aligned_cols=24  Identities=33%  Similarity=0.432  Sum_probs=21.0

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+++|+|+.|.|||||.+.+..
T Consensus        31 ~Ge~~~liG~nGsGKSTLlk~l~G   54 (262)
T 1b0u_A           31 AGDVISIIGSSGSGKSTFLRCINF   54 (262)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            345899999999999999999864

>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=92.83  E-value=0.053  Score=47.72  Aligned_cols=22  Identities=41%  Similarity=0.483  Sum_probs=19.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhcc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      -|+|+|.+|+|||||.+.+...
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            4789999999999999998863

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=92.82  E-value=0.061  Score=53.02  Aligned_cols=25  Identities=36%  Similarity=0.372  Sum_probs=22.1

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ....+++|+|+.|+||||++..+..
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            3567999999999999999988875

>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=92.82  E-value=0.06  Score=50.06  Aligned_cols=24  Identities=29%  Similarity=0.379  Sum_probs=21.2

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+++|+|+.|.|||||.+.+..
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            446899999999999999999864

>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=92.81  E-value=0.055  Score=50.22  Aligned_cols=23  Identities=30%  Similarity=0.463  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..+++|+|+.|.|||||.+.+..
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            45899999999999999999964

>3sb4_A Hypothetical leucine rich repeat protein; LRR, right-handed beta-alpha superhelix, leucine-rich repeat structural genomics; HET: MSE PG4; 1.99A {Bacteroides thetaiotaomicron}

Probab=92.81  E-value=0.13  Score=49.87  Aligned_cols=81  Identities=17%  Similarity=0.304  Sum_probs=62.5

Q ss_pred             ccccceEEEeecCCcccCCcc-ccccCccceeecccCCCCCCCCCccCCCCCCCcc-eEEeccCCCCCCCC-cCCCCCCC
Q 045152          420 MPCLSVLRVYLCPKLKVLPDY-LLQTTTLQKLRILQCPSMEELPILEDHIFLPRLS-SLRIEYCPKLKLLP-DSLLQITT  496 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~-l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~-~L~l~~C~~l~~lP-~~~~~l~~  496 (533)
                      .+.|+.+.+.. ..+..+|++ +..+.+|+.|++.+  ++..++. ..+..+++|+ .|.|.+  +++.++ ..+.++++
T Consensus       225 ~~~L~~l~L~~-n~i~~I~~~aF~~~~~L~~l~l~~--ni~~I~~-~aF~~~~~L~~~l~l~~--~l~~I~~~aF~~c~~  298 (329)
T 3sb4_A          225 MPNLVSLDISK-TNATTIPDFTFAQKKYLLKIKLPH--NLKTIGQ-RVFSNCGRLAGTLELPA--SVTAIEFGAFMGCDN  298 (329)
T ss_dssp             CTTCCEEECTT-BCCCEECTTTTTTCTTCCEEECCT--TCCEECT-TTTTTCTTCCEEEEECT--TCCEECTTTTTTCTT
T ss_pred             cCCCeEEECCC-CCcceecHhhhhCCCCCCEEECCc--ccceehH-HHhhCChhccEEEEEcc--cceEEchhhhhCCcc
Confidence            46788888876 347778766 55688999999985  4888885 4577788999 999977  788887 56888999


Q ss_pred             cceeeccCCc
Q 045152          497 LKELGMEGSP  506 (533)
Q Consensus       497 L~~L~~~~c~  506 (533)
                      |++|+++++.
T Consensus       299 L~~l~l~~n~  308 (329)
T 3sb4_A          299 LRYVLATGDK  308 (329)
T ss_dssp             EEEEEECSSC
T ss_pred             CCEEEeCCCc
Confidence            9999986543

>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=92.78  E-value=0.056  Score=48.54  Aligned_cols=21  Identities=19%  Similarity=0.396  Sum_probs=19.6

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045152          211 VISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +|+|.|+.|+||||+|+.+..
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            899999999999999998875

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=92.77  E-value=0.08  Score=52.22  Aligned_cols=55  Identities=15%  Similarity=0.019  Sum_probs=36.1

Q ss_pred             HHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCc-eEEEEeCCch
Q 045152          191 KNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEK-VIWVCVSDTF  251 (533)
Q Consensus       191 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~-~~wv~vs~~~  251 (533)
                      --++++.|..-     ....-++|+|.+|+|||+|+..+.+.... .+-+. ++++-+.+..
T Consensus       162 GiraID~l~Pi-----grGQR~lIfg~~g~GKT~Ll~~Ia~~i~~-~~~dv~~V~~lIGER~  217 (427)
T 3l0o_A          162 STRLIDLFAPI-----GKGQRGMIVAPPKAGKTTILKEIANGIAE-NHPDTIRIILLIDERP  217 (427)
T ss_dssp             HHHHHHHHSCC-----BTTCEEEEEECTTCCHHHHHHHHHHHHHH-HCTTSEEEEEECSCCH
T ss_pred             cchhhhhcccc-----cCCceEEEecCCCCChhHHHHHHHHHHhh-cCCCeEEEEEEeccCc
Confidence            34677777543     34568899999999999999888874221 12232 3556666543

>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=92.72  E-value=0.056  Score=51.01  Aligned_cols=23  Identities=30%  Similarity=0.546  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..+++|+|+.|.|||||++.+..
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            45899999999999999999964

>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=92.72  E-value=0.057  Score=50.70  Aligned_cols=23  Identities=30%  Similarity=0.426  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..+++|+|+.|.|||||.+.+..
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            45899999999999999999864

>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=92.68  E-value=0.078  Score=45.67  Aligned_cols=23  Identities=26%  Similarity=0.372  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ..|+|+|.+|+|||||...+...
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            46899999999999999998764

>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=92.67  E-value=0.058  Score=50.80  Aligned_cols=24  Identities=25%  Similarity=0.336  Sum_probs=21.0

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+++|+|+.|.|||||.+.+..
T Consensus        49 ~Gei~~liG~NGsGKSTLlk~l~G   72 (263)
T 2olj_A           49 EGEVVVVIGPSGSGKSTFLRCLNL   72 (263)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCCEEEEEcCCCCcHHHHHHHHHc
Confidence            345899999999999999999864

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=92.67  E-value=0.06  Score=50.31  Aligned_cols=23  Identities=35%  Similarity=0.494  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..+++|+|+.|.|||||.+.+..
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            35899999999999999999876

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=92.65  E-value=0.048  Score=50.90  Aligned_cols=23  Identities=35%  Similarity=0.475  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..+|+|+|+.|+||||+++.+..
T Consensus        48 g~~i~l~G~~GsGKSTl~~~La~   70 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIMAR   70 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999999975

>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=92.65  E-value=0.05  Score=49.52  Aligned_cols=23  Identities=39%  Similarity=0.509  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..+++|+|+.|.|||||.+.+..
T Consensus        35 Ge~~~iiG~NGsGKSTLlk~l~G   57 (214)
T 1sgw_A           35 GNVVNFHGPNGIGKTTLLKTIST   57 (214)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            35799999999999999999875

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=92.63  E-value=0.072  Score=51.77  Aligned_cols=24  Identities=25%  Similarity=0.318  Sum_probs=21.4

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+|.|+|+.|+||||||..+..
T Consensus        39 ~~~lIvI~GPTgsGKTtLa~~LA~   62 (339)
T 3a8t_A           39 KEKLLVLMGATGTGKSRLSIDLAA   62 (339)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCceEEEECCCCCCHHHHHHHHHH
Confidence            346899999999999999999886

>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=92.62  E-value=0.13  Score=54.22  Aligned_cols=22  Identities=27%  Similarity=0.434  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +++.|.|.+|.||||++..+..
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            5888999999999999988875

>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=0.078  Score=49.61  Aligned_cols=25  Identities=32%  Similarity=0.355  Sum_probs=21.8

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ....++.++|.||+||||++..+..
T Consensus        12 ~~~~i~~~~GkgGvGKTTl~~~La~   36 (262)
T 1yrb_A           12 MASMIVVFVGTAGSGKTTLTGEFGR   36 (262)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             cceEEEEEeCCCCCCHHHHHHHHHH
Confidence            3567899999999999999988874

>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=92.62  E-value=0.06  Score=50.19  Aligned_cols=23  Identities=43%  Similarity=0.599  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..+++|+|+.|.|||||.+.+..
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            35899999999999999999864

>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=92.62  E-value=0.06  Score=49.54  Aligned_cols=23  Identities=26%  Similarity=0.456  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..+++|+|+.|.|||||.+.+..
T Consensus        34 Ge~~~i~G~nGsGKSTLl~~l~G   56 (229)
T 2pze_A           34 GQLLAVAGSTGAGKTSLLMMIMG   56 (229)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            45899999999999999999975

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=92.60  E-value=0.057  Score=49.41  Aligned_cols=21  Identities=33%  Similarity=0.431  Sum_probs=19.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045152          211 VISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .|.|.|++|+||||+|+.+..
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            588999999999999999875

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=92.60  E-value=0.14  Score=47.05  Aligned_cols=25  Identities=32%  Similarity=0.410  Sum_probs=22.1

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ....|.|.|+.|+||||+++.+.+.
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

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=92.59  E-value=0.061  Score=52.42  Aligned_cols=22  Identities=32%  Similarity=0.366  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .+|+|.|+.|+||||||..+..
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            5899999999999999998876

>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=92.57  E-value=0.062  Score=49.50  Aligned_cols=23  Identities=22%  Similarity=0.335  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..+|.|.|++|.||||+|+.+..
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            45899999999999999998875

>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=92.55  E-value=0.077  Score=47.06  Aligned_cols=25  Identities=32%  Similarity=0.436  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ..-.|+|+|..|+|||||.+.+...
T Consensus        28 ~~~kv~lvG~~g~GKSTLl~~l~~~   52 (191)
T 1oix_A           28 YLFKVVLIGDSGVGKSNLLSRFTRN   52 (191)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECcCCCCHHHHHHHHhcC
Confidence            3567899999999999999988754

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=92.53  E-value=0.076  Score=47.59  Aligned_cols=37  Identities=16%  Similarity=0.081  Sum_probs=26.5

Q ss_pred             HHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          191 KNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       191 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      +..+..++..     -+....+.|+|++|.||||+|..+.+.
T Consensus        45 ~~~l~~~~~~-----iPkkn~ili~GPPGtGKTt~a~ala~~   81 (212)
T 1tue_A           45 LGALKSFLKG-----TPKKNCLVFCGPANTGKSYFGMSFIHF   81 (212)
T ss_dssp             HHHHHHHHHT-----CTTCSEEEEESCGGGCHHHHHHHHHHH
T ss_pred             HHHHHHHHhc-----CCcccEEEEECCCCCCHHHHHHHHHHH
Confidence            4555565532     133456999999999999999888763

>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=92.52  E-value=0.057  Score=49.00  Aligned_cols=21  Identities=38%  Similarity=0.355  Sum_probs=19.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045152          211 VISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .|.|.|++|+||||+|+.+.+
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            378999999999999999875

>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=92.51  E-value=0.063  Score=50.34  Aligned_cols=24  Identities=29%  Similarity=0.441  Sum_probs=21.1

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+++|+|+.|.|||||.+.+..
T Consensus        40 ~Gei~~l~G~NGsGKSTLlk~l~G   63 (256)
T 1vpl_A           40 EGEIFGLIGPNGAGKTTTLRIIST   63 (256)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhc
Confidence            345899999999999999999964

>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=92.49  E-value=0.064  Score=50.64  Aligned_cols=24  Identities=29%  Similarity=0.349  Sum_probs=21.3

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+++|+|+.|.|||||.+.+..
T Consensus        45 ~Ge~~~l~G~NGsGKSTLlk~l~G   68 (267)
T 2zu0_C           45 PGEVHAIMGPNGSGKSTLSATLAG   68 (267)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            345899999999999999999876

>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=92.47  E-value=0.42  Score=47.66  Aligned_cols=45  Identities=24%  Similarity=0.287  Sum_probs=31.6

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .++|....+.++.+.+.....   ... .|.|.|..|+|||++|+.+..
T Consensus       138 ~~ig~s~~m~~l~~~i~~~a~---~~~-~vli~Ge~GtGK~~lAr~ih~  182 (387)
T 1ny5_A          138 EYVFESPKMKEILEKIKKISC---AEC-PVLITGESGVGKEVVARLIHK  182 (387)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTT---CCS-CEEEECSTTSSHHHHHHHHHH
T ss_pred             hhhhccHHhhHHHHHHHHhcC---CCC-CeEEecCCCcCHHHHHHHHHH
Confidence            456666667777666543321   223 348999999999999999986

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=92.45  E-value=0.078  Score=49.86  Aligned_cols=110  Identities=12%  Similarity=0.151  Sum_probs=54.6

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCC-chhHHHHHHHHHH--HhCCCCCCCccHHHHHHHHHHH
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD-TFEEIRVAKAIIE--GLGVSASGLSEFESLMKQIQEY  284 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~l~~~il~--~l~~~~~~~~~~~~l~~~l~~~  284 (533)
                      ...+++|+|+.|.|||||.+.+..-  +...+...+++.-.. .+-.... ..++.  .++..   ..   .+...+...
T Consensus        24 ~g~~v~i~Gp~GsGKSTll~~l~g~--~~~~~~G~I~~~g~~i~~~~~~~-~~~v~q~~~gl~---~~---~l~~~la~a   94 (261)
T 2eyu_A           24 KMGLILVTGPTGSGKSTTIASMIDY--INQTKSYHIITIEDPIEYVFKHK-KSIVNQREVGED---TK---SFADALRAA   94 (261)
T ss_dssp             SSEEEEEECSTTCSHHHHHHHHHHH--HHHHCCCEEEEEESSCCSCCCCS-SSEEEEEEBTTT---BS---CHHHHHHHH
T ss_pred             CCCEEEEECCCCccHHHHHHHHHHh--CCCCCCCEEEEcCCcceeecCCc-ceeeeHHHhCCC---HH---HHHHHHHHH
Confidence            4569999999999999999988752  222223334332110 0000000 00000  00000   11   223455555


Q ss_pred             hCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecchHHH
Q 045152          285 ITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRSVA  331 (533)
Q Consensus       285 l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~~v~  331 (533)
                      +..++=++++|+.-  +.+....+....   ..|.-|++||....+.
T Consensus        95 L~~~p~illlDEp~--D~~~~~~~l~~~---~~g~~vl~t~H~~~~~  136 (261)
T 2eyu_A           95 LREDPDVIFVGEMR--DLETVETALRAA---ETGHLVFGTLHTNTAI  136 (261)
T ss_dssp             HHHCCSEEEESCCC--SHHHHHHHHHHH---HTTCEEEEEECCSSHH
T ss_pred             HhhCCCEEEeCCCC--CHHHHHHHHHHH---ccCCEEEEEeCcchHH
Confidence            55566688899985  222222222221   2366688888765543

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=92.43  E-value=0.065  Score=50.73  Aligned_cols=24  Identities=46%  Similarity=0.530  Sum_probs=21.0

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+++|+|+.|.|||||.+.+..
T Consensus        44 ~Ge~~~i~G~nGsGKSTLlk~l~G   67 (271)
T 2ixe_A           44 PGKVTALVGPNGSGKSTVAALLQN   67 (271)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            345899999999999999999964

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=92.40  E-value=0.066  Score=49.95  Aligned_cols=23  Identities=35%  Similarity=0.455  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..+++|+|+.|.|||||.+.+..
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            35899999999999999999865

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=92.40  E-value=0.064  Score=50.45  Aligned_cols=23  Identities=43%  Similarity=0.616  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..+++|+|+.|.|||||.+.+..
T Consensus        46 Ge~~~i~G~nGsGKSTLl~~l~G   68 (260)
T 2ghi_A           46 GTTCALVGHTGSGKSTIAKLLYR   68 (260)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            45899999999999999999865

>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=92.36  E-value=0.066  Score=47.79  Aligned_cols=24  Identities=33%  Similarity=0.509  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .-.|+|+|..|+|||||.+.+...
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            456899999999999999988764

>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=92.31  E-value=0.071  Score=53.89  Aligned_cols=26  Identities=31%  Similarity=0.401  Sum_probs=22.7

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ....+|.|+|++|+||||+|+.+...
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            35679999999999999999998863

>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=92.31  E-value=0.073  Score=51.12  Aligned_cols=23  Identities=22%  Similarity=0.403  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..+|.|+|+.|+||||||..+..
T Consensus         3 ~~~i~i~GptgsGKt~la~~La~   25 (322)
T 3exa_A            3 EKLVAIVGPTAVGKTKTSVMLAK   25 (322)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CcEEEEECCCcCCHHHHHHHHHH
Confidence            35889999999999999998875

>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=92.30  E-value=0.067  Score=49.30  Aligned_cols=23  Identities=30%  Similarity=0.164  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...|.|.|+.|+||||+|+.+.+
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~   38 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAK   38 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45789999999999999999976

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=92.29  E-value=0.078  Score=45.05  Aligned_cols=23  Identities=26%  Similarity=0.469  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .-|.|+|.+|+|||||+..+...
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            45889999999999999888754

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=92.29  E-value=0.069  Score=50.38  Aligned_cols=24  Identities=29%  Similarity=0.356  Sum_probs=21.0

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+++|+|+.|.|||||.+.+..
T Consensus        32 ~Ge~~~liG~nGsGKSTLl~~i~G   55 (266)
T 2yz2_A           32 EGECLLVAGNTGSGKSTLLQIVAG   55 (266)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhC
Confidence            345899999999999999999864

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=92.25  E-value=0.069  Score=49.96  Aligned_cols=23  Identities=30%  Similarity=0.554  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..+++|+|+.|.|||||.+.+..
T Consensus        31 Ge~~~l~G~nGsGKSTLl~~l~G   53 (253)
T 2nq2_C           31 GDILAVLGQNGCGKSTLLDLLLG   53 (253)
T ss_dssp             TCEEEEECCSSSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            35899999999999999999975

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=92.23  E-value=0.17  Score=41.82  Aligned_cols=46  Identities=20%  Similarity=0.312  Sum_probs=35.0

Q ss_pred             CCC--CCCCccCCCCCCCcceEEeccCCCCCCCCcC-CCCCCCcceeeccCCch
Q 045152          457 SME--ELPILEDHIFLPRLSSLRIEYCPKLKLLPDS-LLQITTLKELGMEGSPL  507 (533)
Q Consensus       457 ~l~--~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~-~~~l~~L~~L~~~~c~~  507 (533)
                      +|.  .+|  ..+  -++|++|+|++ .+|..||.+ +..+++|++|+++++|.
T Consensus        19 ~L~~~~vP--~~l--p~~l~~L~Ls~-N~l~~l~~~~f~~l~~L~~L~L~~NP~   67 (130)
T 3rfe_A           19 GLTWASLP--TAF--PVDTTELVLTG-NNLTALPPGLLDALPALRTAHLGANPW   67 (130)
T ss_dssp             CCCTTTSC--SCC--CTTCSEEECTT-SCCSSCCTTTGGGCTTCCEEECCSSCC
T ss_pred             CCccccCC--CCC--CcCCCEEECCC-CcCCccChhhhhhccccCEEEecCCCe
Confidence            355  677  333  35799999998 789999865 56788999999988873

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=92.21  E-value=0.25  Score=45.09  Aligned_cols=56  Identities=18%  Similarity=0.150  Sum_probs=34.3

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHH
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIE  262 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~  262 (533)
                      .....|.|.|+.|+||||+++.+.+.......+.......-+......+.+++++.
T Consensus        19 ~~~~~i~~~G~~g~GKst~~~~l~~~l~~~~g~~v~~~treP~~t~~g~~ir~~l~   74 (223)
T 3ld9_A           19 PGSMFITFEGIDGSGKTTQSHLLAEYLSEIYGVNNVVLTREPGGTLLNESVRNLLF   74 (223)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHHHHHHHHCGGGEEEEESSCSSHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHhhccCceeeEeeeCCCCChHHHHHHHHHh
Confidence            35678999999999999999999874322133444432333333333444555554

>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=92.21  E-value=0.069  Score=51.32  Aligned_cols=25  Identities=16%  Similarity=0.295  Sum_probs=21.7

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +...+++|+|+.|.|||||++.+..
T Consensus       124 ~~Ge~vaIvGpsGsGKSTLl~lL~g  148 (305)
T 2v9p_A          124 PKKNCLAFIGPPNTGKSMLCNSLIH  148 (305)
T ss_dssp             TTCSEEEEECSSSSSHHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhh
Confidence            3456899999999999999998874

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=92.20  E-value=0.071  Score=50.65  Aligned_cols=23  Identities=39%  Similarity=0.416  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..+++|+|+.|.|||||.+.+..
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            45899999999999999999864

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=92.19  E-value=0.065  Score=57.09  Aligned_cols=41  Identities=22%  Similarity=0.277  Sum_probs=34.0

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .++|.+.-++.+...+...        ..+.|+|++|+||||||+.+..
T Consensus        42 ~i~G~~~~l~~l~~~i~~g--------~~vll~Gp~GtGKTtlar~ia~   82 (604)
T 3k1j_A           42 QVIGQEHAVEVIKTAANQK--------RHVLLIGEPGTGKSMLGQAMAE   82 (604)
T ss_dssp             HCCSCHHHHHHHHHHHHTT--------CCEEEECCTTSSHHHHHHHHHH
T ss_pred             eEECchhhHhhccccccCC--------CEEEEEeCCCCCHHHHHHHHhc
Confidence            5899888888777777432        4789999999999999999986

>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=92.18  E-value=0.083  Score=50.61  Aligned_cols=24  Identities=33%  Similarity=0.212  Sum_probs=21.4

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+|.|+|+.|+||||||..+..
T Consensus         9 ~~~~i~i~GptgsGKt~la~~La~   32 (316)
T 3foz_A            9 LPKAIFLMGPTASGKTALAIELRK   32 (316)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCcEEEEECCCccCHHHHHHHHHH
Confidence            457899999999999999998875

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=92.18  E-value=0.073  Score=51.50  Aligned_cols=22  Identities=36%  Similarity=0.365  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .+|.|+|+.|+||||||..+..
T Consensus         6 ~~i~i~GptGsGKTtla~~La~   27 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALAD   27 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999998875

>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=92.16  E-value=0.073  Score=51.09  Aligned_cols=22  Identities=32%  Similarity=0.404  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .+|.|.|++|+||||+|+.+..
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            5789999999999999999875

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=92.16  E-value=0.11  Score=48.01  Aligned_cols=41  Identities=29%  Similarity=0.289  Sum_probs=28.6

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT  250 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~  250 (533)
                      ...++.|.|++|+||||||..+....  ...-..++|++....
T Consensus        22 ~G~~~~i~G~~GsGKTtl~~~~~~~~--~~~~~~v~~~~~e~~   62 (247)
T 2dr3_A           22 ERNVVLLSGGPGTGKTIFSQQFLWNG--LKMGEPGIYVALEEH   62 (247)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHHH--HHTTCCEEEEESSSC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH--HhcCCeEEEEEccCC
Confidence            44689999999999999997775432  122346777775543

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=92.08  E-value=0.041  Score=52.66  Aligned_cols=24  Identities=25%  Similarity=0.353  Sum_probs=18.2

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +..+|+|.|+.|+||||+|+.+.+
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            346899999999999999998875

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=92.07  E-value=0.1  Score=45.85  Aligned_cols=25  Identities=24%  Similarity=0.300  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ....|+|+|.+|+|||||...+...
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            3467899999999999999998864

>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=92.00  E-value=0.52  Score=48.78  Aligned_cols=54  Identities=17%  Similarity=0.027  Sum_probs=36.2

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHh
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGL  264 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l  264 (533)
                      ...++.|.|.+|+||||||..+..+... .+=..++|++...  +..++...++...
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 GGEVIMVTSGSGMVMSTFVRQQALQWGT-AMGKKVGLAMLEE--SVEETAEDLIGLH  294 (503)
T ss_dssp             TTCEEEEEESSCHHHHHHHHHHHHHHTT-TSCCCEEEEESSS--CHHHHHHHHHHHH
T ss_pred             CCeEEEEeecCCCCchHHHHHHHHHHHH-hcCCcEEEEeccC--CHHHHHHHHHHHH
Confidence            4568899999999999999887754222 1123577776544  4556666665443

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=91.99  E-value=0.3  Score=49.79  Aligned_cols=96  Identities=17%  Similarity=0.176  Sum_probs=56.7

Q ss_pred             HHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHH-HHHhcchhhhccCC-ceEEEEeCCch-hHHHHHHHHHHHhCCC--
Q 045152          193 ELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLA-QLAYNNDEVKRNFE-KVIWVCVSDTF-EEIRVAKAIIEGLGVS--  267 (533)
Q Consensus       193 ~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA-~~v~~~~~~~~~F~-~~~wv~vs~~~-~~~~l~~~il~~l~~~--  267 (533)
                      +.++.|..-     .+..-++|+|..|+|||+|| ..+.+..    +-+ .++++-+.+.. .+.++.+++...-...  
T Consensus       151 raID~l~Pi-----grGQR~~Ifg~~g~GKT~Lal~~I~~~~----~~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~m~~t  221 (502)
T 2qe7_A          151 KAIDSMIPI-----GRGQRELIIGDRQTGKTTIAIDTIINQK----GQDVICIYVAIGQKQSTVAGVVETLRQHDALDYT  221 (502)
T ss_dssp             HHHHHSSCC-----BTTCBCEEEECSSSCHHHHHHHHHHGGG----SCSEEEEEEEESCCHHHHHHHHHHHHHTTCSTTE
T ss_pred             eeccccccc-----ccCCEEEEECCCCCCchHHHHHHHHHhh----cCCcEEEEEECCCcchHHHHHHHHHhhCCCccee
Confidence            556666533     34567899999999999996 5777642    345 35677777655 4556666665432111  


Q ss_pred             -----CCCCccHHH-----HHHHHHHHh--CCceEEEEEeCC
Q 045152          268 -----ASGLSEFES-----LMKQIQEYI--TRKKFFLVLDDV  297 (533)
Q Consensus       268 -----~~~~~~~~~-----l~~~l~~~l--~~kr~LlVLDdv  297 (533)
                           ..+......     ....+.+++  .++.+|+++||+
T Consensus       222 vvV~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLl~~Dsl  263 (502)
T 2qe7_A          222 IVVTASASEPAPLLYLAPYAGCAMGEYFMYKGKHALVVYDDL  263 (502)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEECH
T ss_pred             EEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEecH
Confidence                 111111111     112233333  578999999998

>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=91.98  E-value=0.071  Score=45.37  Aligned_cols=22  Identities=36%  Similarity=0.646  Sum_probs=19.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhcc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      -|.++|.+|+|||||+..+...
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            4789999999999999988754

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=91.96  E-value=0.11  Score=45.02  Aligned_cols=26  Identities=27%  Similarity=0.326  Sum_probs=22.0

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .....|+|+|.+|+|||||...+...
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            34567899999999999999988764

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=91.96  E-value=0.42  Score=48.61  Aligned_cols=52  Identities=15%  Similarity=0.084  Sum_probs=33.9

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHH
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEG  263 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~  263 (533)
                      ...++.|.|.+|+||||||..+..+....  =..++|++..  .+...+...++..
T Consensus       196 ~G~liiIaG~pG~GKTtlal~ia~~~a~~--g~~vl~fSlE--ms~~ql~~R~~~~  247 (444)
T 3bgw_A          196 RRNFVLIAARPSMGKTAFALKQAKNMSDN--DDVVNLHSLE--MGKKENIKRLIVT  247 (444)
T ss_dssp             SSCEEEEEECSSSSHHHHHHHHHHHHHHT--TCEEEEECSS--SCTTHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCChHHHHHHHHHHHHHc--CCEEEEEECC--CCHHHHHHHHHHH
Confidence            45689999999999999998877643222  2356666543  3344555555543

>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=91.92  E-value=0.1  Score=52.83  Aligned_cols=42  Identities=38%  Similarity=0.335  Sum_probs=28.1

Q ss_pred             HHHHHHHHhCCCc---cCCCCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          191 KNELLSKLLCESS---EQQKGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       191 ~~~l~~~L~~~~~---~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .+++.+.+.....   -......+|.|+|.+|+||||++..+...
T Consensus        78 ~~~l~~ll~~~~~~~~~~~~~~~vI~ivG~~GvGKTTla~~La~~  122 (432)
T 2v3c_C           78 YEELVKLLGEEAKKLELNPKKQNVILLVGIQGSGKTTTAAKLARY  122 (432)
T ss_dssp             HHHHHHHHCCSCCCCCCCSSSCCCEEEECCSSSSTTHHHHHHHHH
T ss_pred             HHHHHHHhCCCCcCccccCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4555665543211   01134679999999999999999887753

>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=91.88  E-value=0.14  Score=51.93  Aligned_cols=50  Identities=20%  Similarity=0.297  Sum_probs=34.4

Q ss_pred             CceeechhhHHHHHHHHhCC--------CccCCCCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          182 GEVCGRVEEKNELLSKLLCE--------SSEQQKGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~--------~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..++|-++-++.+...+...        ........+-|.++|++|+||||+|+.+..
T Consensus        15 ~~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~   72 (444)
T 1g41_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAK   72 (444)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHH
Confidence            35788888777776655221        000012345689999999999999999876

>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=91.87  E-value=0.32  Score=44.01  Aligned_cols=24  Identities=25%  Similarity=0.261  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ...|.|.|+.|+||||+++.+.+.
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            468999999999999999999863

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=91.85  E-value=0.079  Score=50.08  Aligned_cols=21  Identities=38%  Similarity=0.673  Sum_probs=19.2

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045152          211 VISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .++|+|+.|+|||||.+.++.
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            589999999999999998875

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=91.78  E-value=0.088  Score=48.59  Aligned_cols=25  Identities=24%  Similarity=0.282  Sum_probs=22.0

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ....+|+|.|+.|+||||+++.+..
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            4567899999999999999998875

>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=91.72  E-value=0.11  Score=44.44  Aligned_cols=24  Identities=25%  Similarity=0.407  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .--|.|+|.+|+|||||...+...
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            456789999999999999988764

>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=91.65  E-value=0.1  Score=46.44  Aligned_cols=24  Identities=21%  Similarity=0.189  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ...|.|.|+.|+||||||..+...
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            356899999999999999888763

>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=91.60  E-value=0.13  Score=44.31  Aligned_cols=24  Identities=42%  Similarity=0.549  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .--|+|+|.+|+|||||...+...
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            456899999999999999988764

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=91.52  E-value=0.095  Score=49.29  Aligned_cols=23  Identities=30%  Similarity=0.368  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..+++|+|+.|.|||||.+.+..
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

>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=91.52  E-value=0.39  Score=49.02  Aligned_cols=96  Identities=15%  Similarity=0.163  Sum_probs=56.4

Q ss_pred             HHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHH-HHHhcchhhhccCC-ceEEEEeCCch-hHHHHHHHHHHHhCC---
Q 045152          193 ELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLA-QLAYNNDEVKRNFE-KVIWVCVSDTF-EEIRVAKAIIEGLGV---  266 (533)
Q Consensus       193 ~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA-~~v~~~~~~~~~F~-~~~wv~vs~~~-~~~~l~~~il~~l~~---  266 (533)
                      +.++.|..-     .+..-++|+|..|+|||+|| ..+.+..    ..+ .++++-+.+.. .+.++.+.+...=..   
T Consensus       164 raID~l~Pi-----grGQR~~I~g~~g~GKT~Lal~~I~~~~----~~dv~~V~~~IGeR~~Ev~e~~~~~~~~g~m~rt  234 (515)
T 2r9v_A          164 KAIDSMIPI-----GRGQRELIIGDRQTGKTAIAIDTIINQK----GQGVYCIYVAIGQKKSAIARIIDKLRQYGAMEYT  234 (515)
T ss_dssp             HHHHHHSCE-----ETTCBEEEEEETTSSHHHHHHHHHHTTT----TTTEEEEEEEESCCHHHHHHHHHHHHHTTGGGGE
T ss_pred             ccccccccc-----ccCCEEEEEcCCCCCccHHHHHHHHHhh----cCCcEEEEEEcCCCcHHHHHHHHHHHhCCCccee
Confidence            556666433     34567899999999999996 5777642    345 35677777654 455666666542111   


Q ss_pred             ----CCCCCccHHH-----HHHHHHHHh--CCceEEEEEeCC
Q 045152          267 ----SASGLSEFES-----LMKQIQEYI--TRKKFFLVLDDV  297 (533)
Q Consensus       267 ----~~~~~~~~~~-----l~~~l~~~l--~~kr~LlVLDdv  297 (533)
                          ...+......     ....+.+++  .++.+|+++||+
T Consensus       235 vvV~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLli~Dsl  276 (515)
T 2r9v_A          235 TVVVASASDPASLQYIAPYAGCAMGEYFAYSGRDALVVYDDL  276 (515)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEETH
T ss_pred             EEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEeccH
Confidence                1111111111     112233333  578999999998

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=91.48  E-value=0.099  Score=44.85  Aligned_cols=23  Identities=26%  Similarity=0.501  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      --|+|+|.+|+|||||...+...
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            35789999999999999988764

>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=91.48  E-value=0.09  Score=44.97  Aligned_cols=22  Identities=32%  Similarity=0.502  Sum_probs=19.2

Q ss_pred             EEEEEcCCCChHHHHHHHHhcc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      -|+|+|.+|+|||||.+.+.+.
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            4789999999999999988653

>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=91.48  E-value=0.076  Score=51.15  Aligned_cols=24  Identities=33%  Similarity=0.585  Sum_probs=21.1

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+++|+|+.|.|||||++.+..
T Consensus        79 ~Ge~vaivG~sGsGKSTLl~ll~g  102 (306)
T 3nh6_A           79 PGQTLALVGPSGAGKSTILRLLFR  102 (306)
T ss_dssp             TTCEEEEESSSCHHHHHHHHHHTT
T ss_pred             CCCEEEEECCCCchHHHHHHHHHc
Confidence            346899999999999999999864

>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=91.47  E-value=0.1  Score=44.81  Aligned_cols=22  Identities=41%  Similarity=0.504  Sum_probs=19.1

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      --|+|+|.+|+|||||...+..
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            3578999999999999998864

>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=91.44  E-value=0.097  Score=46.06  Aligned_cols=23  Identities=35%  Similarity=0.586  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      --|+|+|.+|+|||||+..+...
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            46889999999999999988754

>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=91.43  E-value=0.091  Score=51.00  Aligned_cols=24  Identities=42%  Similarity=0.491  Sum_probs=21.9

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+++|+|+.|.|||||.+.+..
T Consensus         3 ~i~v~~i~G~~GaGKTTll~~l~~   26 (318)
T 1nij_A            3 PIAVTLLTGFLGAGKTTLLRHILN   26 (318)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHH
T ss_pred             cccEEEEEecCCCCHHHHHHHHHh
Confidence            478999999999999999999885

>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=91.42  E-value=0.095  Score=44.73  Aligned_cols=24  Identities=38%  Similarity=0.670  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ..-|+|+|.+|+|||||...+...
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            346889999999999999888754

>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=91.42  E-value=0.1  Score=45.84  Aligned_cols=21  Identities=24%  Similarity=0.450  Sum_probs=19.2

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045152          211 VISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +.+|+|+.|.|||||+..++-
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            889999999999999998863

>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=91.42  E-value=0.27  Score=45.30  Aligned_cols=52  Identities=17%  Similarity=0.233  Sum_probs=32.9

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHH
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAII  261 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il  261 (533)
                      ...|.|.|+.|+||||+++.+.+... ..++..+....-.......+.+++++
T Consensus        27 ~~~i~~eG~~GsGKsT~~~~l~~~l~-~~~~~~~~~~rep~~t~~g~~ir~~l   78 (236)
T 3lv8_A           27 AKFIVIEGLEGAGKSTAIQVVVETLQ-QNGIDHITRTREPGGTLLAEKLRALV   78 (236)
T ss_dssp             CCEEEEEESTTSCHHHHHHHHHHHHH-HTTCCCEEEEESSCSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH-hcCCCeeeeecCCCCCHHHHHHHHHH
Confidence            46899999999999999999987422 23455344444333333334444444

>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=91.40  E-value=0.1  Score=51.89  Aligned_cols=25  Identities=28%  Similarity=0.131  Sum_probs=22.1

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +...+++|+|+.|.|||||++.+..
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            3456999999999999999999985

>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=91.39  E-value=0.095  Score=49.72  Aligned_cols=24  Identities=38%  Similarity=0.333  Sum_probs=20.9

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...++.|+|++|+|||||+..+..
T Consensus        29 ~G~i~~i~G~~GsGKTtl~~~l~~   52 (279)
T 1nlf_A           29 AGTVGALVSPGGAGKSMLALQLAA   52 (279)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHH
Confidence            346899999999999999988875

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=91.39  E-value=0.018  Score=57.42  Aligned_cols=84  Identities=21%  Similarity=0.150  Sum_probs=55.9

Q ss_pred             ccccceEEEeecCCcc----cCCccc-cccCccceeecccCCCCCC-----CCCccCCCCCCCcceEEeccCCCCC----
Q 045152          420 MPCLSVLRVYLCPKLK----VLPDYL-LQTTTLQKLRILQCPSMEE-----LPILEDHIFLPRLSSLRIEYCPKLK----  485 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~----~lp~~l-~~l~~L~~L~l~~~~~l~~-----lp~~~~~~~l~~L~~L~l~~C~~l~----  485 (533)
                      ++.|+.|++++|.--.    .+...+ ....+|++|++++|. +..     ++  ..+..+++|++|+|++|. |.    
T Consensus       125 L~~L~~L~Ls~n~l~~~~~~~L~~~L~~~~~~L~~L~Ls~n~-l~~~~~~~l~--~~L~~~~~L~~L~Ls~N~-l~~~g~  200 (372)
T 3un9_A          125 FLRARKLGLQLNSLGPEACKDLRDLLLHDQCQITTLRLSNNP-LTAAGVAVLM--EGLAGNTSVTHLSLLHTG-LGDEGL  200 (372)
T ss_dssp             HHTEEEEECCSSCCCHHHHHHHHHHHHSTTCCCCEEECCSSC-CHHHHHHHHH--HHHHTCSSCCEEECTTSS-CHHHHH
T ss_pred             HHhccHhhcCCCCCCHHHHHHHHHHHHhcCCccceeeCCCCC-CChHHHHHHH--HHHhcCCCcCEEeCCCCC-CCcHHH
Confidence            3467888888863221    122222 134789999999875 533     33  334567899999999964 54    


Q ss_pred             -CCCcCCCCCCCcceeeccCCch
Q 045152          486 -LLPDSLLQITTLKELGMEGSPL  507 (533)
Q Consensus       486 -~lP~~~~~l~~L~~L~~~~c~~  507 (533)
                       .++..+.+.++|++|++++|..
T Consensus       201 ~~L~~~L~~~~~L~~L~Ls~N~i  223 (372)
T 3un9_A          201 ELLAAQLDRNRQLQELNVAYNGA  223 (372)
T ss_dssp             HHHHHHGGGCSCCCEEECCSSCC
T ss_pred             HHHHHHHhcCCCcCeEECCCCCC
Confidence             3455667788999999999874

>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=91.34  E-value=0.12  Score=45.74  Aligned_cols=25  Identities=32%  Similarity=0.533  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ....|+|+|.+|+|||||...+...
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            4567899999999999999988764

>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=91.30  E-value=0.098  Score=50.08  Aligned_cols=52  Identities=21%  Similarity=0.180  Sum_probs=32.8

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcchhhhccCC-ceEEEEeCCchhHHHHHHHHHHH
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFE-KVIWVCVSDTFEEIRVAKAIIEG  263 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~-~~~wv~vs~~~~~~~l~~~il~~  263 (533)
                      ...+++|+|++|+|||||+..+......  ... .++|+....  +...+...+...
T Consensus        34 ~G~~~~i~G~~G~GKTTl~~~ia~~~~~--~~G~~v~~~~~e~--~~~~~~~r~~~~   86 (296)
T 1cr0_A           34 GGEVIMVTSGSGMGKSTFVRQQALQWGT--AMGKKVGLAMLEE--SVEETAEDLIGL   86 (296)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHHHHHH--TSCCCEEEEESSS--CHHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHH--HcCCeEEEEeCcC--CHHHHHHHHHHH
Confidence            4468999999999999999888764222  222 456665433  333444444433

>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=91.28  E-value=0.1  Score=44.63  Aligned_cols=22  Identities=27%  Similarity=0.540  Sum_probs=19.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhcc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      -|+|+|.+|+|||||...+.+.
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            5789999999999999988754

>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=91.26  E-value=0.1  Score=45.36  Aligned_cols=23  Identities=17%  Similarity=0.245  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ..|+|+|.+|+|||||...+...
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            46889999999999999998764

>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=91.24  E-value=0.1  Score=44.84  Aligned_cols=25  Identities=32%  Similarity=0.369  Sum_probs=21.1

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ..--|+|+|.+|+|||||...+...
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            3456899999999999999888754

>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=91.17  E-value=0.1  Score=44.63  Aligned_cols=22  Identities=23%  Similarity=0.410  Sum_probs=19.3

Q ss_pred             EEEEEcCCCChHHHHHHHHhcc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      -|.|+|.+|+|||||...+...
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            4789999999999999888754

>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=91.16  E-value=0.14  Score=44.90  Aligned_cols=25  Identities=36%  Similarity=0.349  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ...-|+|+|.+|+|||||...+...
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            4567899999999999999998764

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=91.15  E-value=0.11  Score=48.07  Aligned_cols=24  Identities=25%  Similarity=0.342  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ...|.|.|..|+||||+++.+.+.
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            367999999999999999998863

>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=91.13  E-value=0.1  Score=44.40  Aligned_cols=23  Identities=26%  Similarity=0.486  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      --|+|+|.+|+|||||...+...
T Consensus         4 ~~i~v~G~~~~GKSsli~~l~~~   26 (167)
T 1kao_A            4 YKVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            35889999999999999888754

>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=91.09  E-value=0.11  Score=44.63  Aligned_cols=24  Identities=21%  Similarity=0.328  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .--|+|+|.+|+|||||...+...
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            346889999999999999888764

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=91.06  E-value=0.34  Score=57.88  Aligned_cols=86  Identities=17%  Similarity=0.183  Sum_probs=56.2

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCC-----CCccHHHHHHHH
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSAS-----GLSEFESLMKQI  281 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~-----~~~~~~~l~~~l  281 (533)
                      ....++.|.|++|+||||||.++....  ...-..++|++....++..     .++.++....     ...+.+++...+
T Consensus       381 ~~G~lilI~G~pGsGKTtLaLqia~~~--a~~G~~vlyis~E~s~~~~-----~a~~lGvd~~~L~I~~~~~~e~il~~~  453 (2050)
T 3cmu_A          381 PMGRIVEIYGPESSGKTTLTLQVIAAA--QREGKTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDTGEQALEIC  453 (2050)
T ss_dssp             ETTSEEEEECCTTSSHHHHHHHHHHHH--HTTTCCEEEECTTSCCCHH-----HHHHTTCCTTTCEEECCSSHHHHHHHH
T ss_pred             cCCcEEEEEeCCCCCHHHHHHHHHHHH--HhcCCeEEEEEcCCCHHHH-----HHHHcCCCHHHeEEeCCCCHHHHHHHH
Confidence            356799999999999999998887642  2223468888877766543     1455554321     123456666666


Q ss_pred             HHHh-CCceEEEEEeCCCC
Q 045152          282 QEYI-TRKKFFLVLDDVWD  299 (533)
Q Consensus       282 ~~~l-~~kr~LlVLDdv~~  299 (533)
                      +... ..+.-+||+|-+..
T Consensus       454 ~~lv~~~~~~lIVIDSL~a  472 (2050)
T 3cmu_A          454 DALARSGAVDVIVVDSVAA  472 (2050)
T ss_dssp             HHHHHHTCCSEEEESCGGG
T ss_pred             HHHHHhcCCcEEEECCHHH
Confidence            5544 34566999998843

>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=91.02  E-value=0.1  Score=49.81  Aligned_cols=24  Identities=25%  Similarity=0.423  Sum_probs=21.2

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+++|+|+.|.|||||.+.+..
T Consensus        63 ~Ge~~~i~G~NGsGKSTLlk~l~G   86 (290)
T 2bbs_A           63 RGQLLAVAGSTGAGKTSLLMMIMG   86 (290)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhc
Confidence            345899999999999999999975

>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=91.02  E-value=0.14  Score=44.45  Aligned_cols=26  Identities=31%  Similarity=0.516  Sum_probs=21.4

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ....-|+|+|.+|+|||||...+...
T Consensus         6 ~~~~~i~v~G~~~~GKSsli~~l~~~   31 (182)
T 1ky3_A            6 KNILKVIILGDSGVGKTSLMHRYVND   31 (182)
T ss_dssp             -CEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CceEEEEEECCCCCCHHHHHHHHHhC
Confidence            34567899999999999999888754

>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=90.99  E-value=0.11  Score=45.78  Aligned_cols=25  Identities=20%  Similarity=0.178  Sum_probs=20.4

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ..--|+|+|.+|+|||||...+.+.
T Consensus        19 ~~~ki~ivG~~~vGKSsL~~~~~~~   43 (184)
T 3ihw_A           19 PELKVGIVGNLSSGKSALVHRYLTG   43 (184)
T ss_dssp             CEEEEEEECCTTSCHHHHHHHHHHS
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhcC
Confidence            3456889999999999999877653

>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=90.97  E-value=0.1  Score=45.74  Aligned_cols=25  Identities=28%  Similarity=0.240  Sum_probs=21.0

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ..--|+|+|.+|+|||||...+...
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            3456789999999999999888764

>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=90.96  E-value=0.12  Score=46.75  Aligned_cols=26  Identities=27%  Similarity=0.253  Sum_probs=22.0

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .....|.|+|.+|+|||||+..+...
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            34567899999999999999888764

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=90.94  E-value=0.36  Score=43.74  Aligned_cols=52  Identities=17%  Similarity=0.256  Sum_probs=33.5

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHH
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIE  262 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~  262 (533)
                      ..|.+.|+.|+||||+++.+.+... ...+..+.+..-.......+..++++.
T Consensus         4 ~~i~~eG~~gsGKsT~~~~l~~~l~-~~~~~~v~~~rep~~t~~g~~ir~~l~   55 (213)
T 4tmk_A            4 KYIVIEGLEGAGKTTARNVVVETLE-QLGIRDMVFTREPGGTQLAEKLRSLLL   55 (213)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHH-HTTCCCEEEEESSCSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH-HcCCCcceeeeCCCCCHHHHHHHHHHh
Confidence            4789999999999999999987422 233433444443333344455555554

>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=90.92  E-value=0.11  Score=45.48  Aligned_cols=22  Identities=27%  Similarity=0.362  Sum_probs=19.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhcc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      -|+|+|.+|+|||||...+...
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            4789999999999999988764

>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=90.91  E-value=0.59  Score=47.78  Aligned_cols=100  Identities=15%  Similarity=0.189  Sum_probs=57.4

Q ss_pred             HHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHH-HHHhcchhh----hccCC-ceEEEEeCCch-hHHHHHHHHHHHhC
Q 045152          193 ELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLA-QLAYNNDEV----KRNFE-KVIWVCVSDTF-EEIRVAKAIIEGLG  265 (533)
Q Consensus       193 ~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA-~~v~~~~~~----~~~F~-~~~wv~vs~~~-~~~~l~~~il~~l~  265 (533)
                      +.++.|..-     .+..-++|+|..|+|||+|| ..+.+....    ..+-+ .++++-+.+.. .+.++.+.+...=.
T Consensus       151 raID~l~Pi-----grGQR~~I~g~~g~GKT~Lal~~I~~q~~~~~~~~~~~d~~~V~~~IGeR~~Ev~~~~~~~~~~g~  225 (510)
T 2ck3_A          151 KAVDSLVPI-----GRGQRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADA  225 (510)
T ss_dssp             HHHHHHSCC-----BTTCBCEEEESTTSSHHHHHHHHHHHTHHHHTSCCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTC
T ss_pred             eeecccccc-----ccCCEEEEecCCCCCchHHHHHHHHHHHhhccccccCCCeEEEEEECCCCcHHHHHHHHHHHhcCC
Confidence            556666543     34567899999999999995 567664321    01244 46777777655 45566666654211


Q ss_pred             C-------CCCCCccHHH-----HHHHHHHHh--CCceEEEEEeCC
Q 045152          266 V-------SASGLSEFES-----LMKQIQEYI--TRKKFFLVLDDV  297 (533)
Q Consensus       266 ~-------~~~~~~~~~~-----l~~~l~~~l--~~kr~LlVLDdv  297 (533)
                      .       ...+......     ....+.+++  .++.+|+++||+
T Consensus       226 m~~tvvV~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLli~Dsl  271 (510)
T 2ck3_A          226 MKYTIVVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDL  271 (510)
T ss_dssp             GGGEEEEEECTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEETH
T ss_pred             cccceEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEcCH
Confidence            1       0111111111     112233333  578999999998

>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=90.90  E-value=0.11  Score=45.88  Aligned_cols=24  Identities=33%  Similarity=0.232  Sum_probs=19.9

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..--|+|+|.+|+|||||.+.+.+
T Consensus        13 ~~~ki~vvG~~~~GKssL~~~l~~   36 (198)
T 3t1o_A           13 INFKIVYYGPGLSGKTTNLKWIYS   36 (198)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             cccEEEEECCCCCCHHHHHHHHHh
Confidence            345688999999999999977764

>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=90.87  E-value=0.16  Score=43.93  Aligned_cols=26  Identities=31%  Similarity=0.506  Sum_probs=22.0

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ....-|+|+|.+|+|||||...+...
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            34567899999999999999888764

>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=90.87  E-value=0.11  Score=44.88  Aligned_cols=25  Identities=36%  Similarity=0.590  Sum_probs=21.1

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ..--|+|+|.+|+|||||...+...
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            4556899999999999999888754

>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=90.85  E-value=0.87  Score=47.15  Aligned_cols=59  Identities=15%  Similarity=0.179  Sum_probs=41.3

Q ss_pred             HHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCc-hhHHHHHHHH
Q 045152          193 ELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT-FEEIRVAKAI  260 (533)
Q Consensus       193 ~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~-~~~~~l~~~i  260 (533)
                      +.++.|..-     .+-.-++|+|..|+|||+|+..+.+.    .+-+.++++-+.+. ..+.++++++
T Consensus       221 rvID~l~Pi-----grGqr~~Ifgg~g~GKT~L~~~ia~~----~~~~v~V~~~iGER~~Ev~e~~~~~  280 (600)
T 3vr4_A          221 RVIDTFFPV-----TKGGAAAVPGPFGAGKTVVQHQIAKW----SDVDLVVYVGCGERGNEMTDVVNEF  280 (600)
T ss_dssp             HHHHHHSCC-----BTTCEEEEECCTTSCHHHHHHHHHHH----SSCSEEEEEEEEECHHHHHHHHHHT
T ss_pred             hhhhccCCc-----cCCCEEeeecCCCccHHHHHHHHHhc----cCCCEEEEEEecccHHHHHHHHHHH
Confidence            566777543     34568899999999999999988763    23456788877765 3444555443

>2qtf_A Protein HFLX, GTP-binding protein; beta-alpha-barrels, nucleotide-binding, nucleotide binding protein; 2.00A {Sulfolobus solfataricus P2} PDB: 2qth_A* 3kxi_A* 3kxl_A 3kxk_A

Probab=90.84  E-value=0.29  Score=48.38  Aligned_cols=25  Identities=28%  Similarity=0.324  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ...+|+|+|.+|+|||||...+...
T Consensus       178 ~~~~V~lvG~~naGKSTLln~L~~~  202 (364)
T 2qtf_A          178 NIPSIGIVGYTNSGKTSLFNSLTGL  202 (364)
T ss_dssp             -CCEEEEECBTTSSHHHHHHHHHCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHCC
Confidence            4567999999999999999998865

>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=90.82  E-value=0.11  Score=44.19  Aligned_cols=21  Identities=38%  Similarity=0.401  Sum_probs=18.6

Q ss_pred             EEEEcCCCChHHHHHHHHhcc
Q 045152          212 ISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~  232 (533)
                      |+|+|.+|+|||||...+...
T Consensus         3 i~~~G~~~~GKssl~~~l~~~   23 (164)
T 1r8s_A            3 ILMVGLDAAGKTTILYKLKLG   23 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            789999999999999888653

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=90.81  E-value=0.14  Score=50.35  Aligned_cols=25  Identities=24%  Similarity=0.240  Sum_probs=22.1

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ....+|+|+|.+|+|||||...+..
T Consensus        72 ~~~~~v~lvG~pgaGKSTLln~L~~   96 (349)
T 2www_A           72 PLAFRVGLSGPPGAGKSTFIEYFGK   96 (349)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             cCceEEEEEcCCCCCHHHHHHHHHH
Confidence            3478999999999999999998875

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=90.79  E-value=0.28  Score=44.87  Aligned_cols=24  Identities=33%  Similarity=0.426  Sum_probs=18.4

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ...|.|.|+.|+||||+++.+.+.
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            458999999999999999999874

>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=90.78  E-value=0.12  Score=45.64  Aligned_cols=25  Identities=20%  Similarity=0.244  Sum_probs=20.8

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ..--|+|+|.+|+|||||...+...
T Consensus        20 ~~~ki~vvG~~~vGKTsLi~~l~~~   44 (187)
T 3c5c_A           20 LEVNLAILGRRGAGKSALTVKFLTK   44 (187)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEEECCCCCcHHHHHHHHHhC
Confidence            3456889999999999999888754

---

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	533
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	8e-39

>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 =  141 bits (355), Expect = 8e-39
 Identities = 46/284 (16%), Positives = 93/284 (32%), Gaps = 28/284 (9%)

Query: 171 ERVRTISLIDEGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAY 230
            ++   ++  +     R    + ++ KL             + L G  G GK+ +A  A 
Sbjct: 9   RKLLLGNVPKQMTCYIREYHVDRVIKKLDEMCDLD---SFFLFLHGRAGSGKSVIASQAL 65

Query: 231 NNDE--VKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGV----------SASGLSEFESLM 278
           +  +  +  N++ ++W+  S T  +          L +          S   ++      
Sbjct: 66  SKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKR 125

Query: 279 KQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRSVALQL-GSI 337
                 I R     V DDV   +  +W              + L+TTRD  ++     + 
Sbjct: 126 MICNALIDRPNTLFVFDDVVQEETIRWAQELRL--------RCLVTTRDVEISNAASQTC 177

Query: 338 DIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLLRS 397
           + I V  L  +EC+  LE        +   EK E +  K      G P    + +     
Sbjct: 178 EFIEVTSLEIDECYDFLEAYGM---PMPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEP 234

Query: 398 KSTVKEWQRILDSEMWKENISIMPCLSVLRVYLCPKLKVLPDYL 441
           K T ++  ++ +    +  + +          L   L+   + L
Sbjct: 235 K-TFEKMAQLNNKLESRGLVGVECITPYSYKSLAMALQRCVEVL 277

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	533
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	100.0
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	99.25
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.93
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	98.86
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	98.8
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	98.77
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	98.73
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.7
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	98.68
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	98.67
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.58
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.56
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	98.42
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.42
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	98.35
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	98.3
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.3
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	98.29
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	98.22
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.07
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.04
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	98.02
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	98.01
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	97.98
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	97.98
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	97.93
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	97.93
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	97.89
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.89
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	97.82
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	97.8
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	97.78
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	97.77
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	97.76
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	97.73
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	97.71
d2ifga3	156	High affinity nerve growth factor receptor, N-term	97.69
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	97.61
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	97.55
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	97.55
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	97.53
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	97.51
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	97.49
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	97.48
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	97.42
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	97.4
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.31
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	97.26
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	97.23
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	97.21
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.1
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	97.07
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	96.93
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	96.76
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	96.72
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	96.71
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	96.71
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	96.71
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	96.67
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	96.66
d2qy9a2	211	GTPase domain of the signal recognition particle r	96.61
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	96.53
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	96.52
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	96.52
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	96.52
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	96.5
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.49
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	96.43
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	96.38
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	96.36
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	96.34
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	96.32
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.3
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	96.27
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	96.19
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.17
d1vmaa2	213	GTPase domain of the signal recognition particle r	96.14
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	96.07
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.06
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.05
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	96.03
d1j8yf2	211	GTPase domain of the signal sequence recognition p	96.01
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	96.01
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	95.99
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	95.96
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	95.95
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	95.93
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	95.86
d1okkd2	207	GTPase domain of the signal recognition particle r	95.84
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	95.81
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	95.78
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	95.78
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	95.77
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	95.77
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	95.76
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	95.75
d2awna2	232	Maltose transport protein MalK, N-terminal domain	95.72
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	95.69
d1ls1a2	207	GTPase domain of the signal sequence recognition p	95.69
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	95.62
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	95.6
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	95.57
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	95.52
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	95.47
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	95.4
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	95.34
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	95.25
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	95.19
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	95.15
d1xpua3	289	Transcription termination factor Rho, ATPase domai	95.06
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	95.06
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	95.0
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	94.96
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	94.92
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	94.89
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	94.83
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	94.78
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	94.78
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	94.76
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	94.75
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	94.69
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	94.68
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	94.65
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	94.64
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	94.63
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	94.59
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	94.57
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	94.28
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	94.21
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	94.16
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	94.14
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	94.13
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	94.1
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	94.09
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	94.01
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	93.85
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	93.63
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	93.61
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	93.61
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	93.45
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	93.45
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	93.42
d1g2912	240	Maltose transport protein MalK, N-terminal domain	93.38
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	93.37
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	93.35
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	93.35
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	93.31
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	93.19
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	93.16
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	93.14
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	93.09
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	93.02
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	93.02
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	92.99
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	92.98
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	92.95
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	92.88
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	92.85
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	92.82
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	92.81
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	92.79
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	92.77
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	92.75
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	92.68
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	92.64
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	92.64
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	92.57
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	92.54
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	92.53
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	92.48
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	92.48
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	92.43
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	92.31
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	92.3
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	92.25
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	92.23
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	92.22
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	92.22
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	92.19
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	92.19
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	92.19
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	92.16
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	92.14
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	92.09
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	92.03
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	91.94
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	91.89
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	91.89
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	91.88
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	91.87
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	91.87
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	91.82
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	91.8
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	91.76
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	91.66
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	91.61
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	91.59
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	91.59
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	91.58
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	91.56
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	91.54
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	91.43
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	91.27
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	91.24
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	91.24
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	91.23
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	91.21
d1nrjb_	209	Signal recognition particle receptor beta-subunit	91.19
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	91.18
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	91.17
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	91.1
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	91.08
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	91.03
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	90.95
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	90.94
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	90.93
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	90.92
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	90.92
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	90.87
d2fh5b1	207	Signal recognition particle receptor beta-subunit	90.85
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	90.82
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	90.81
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	90.78
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	90.75
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	90.71
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	90.63
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	90.51
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	90.45
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	90.43
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	90.41
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	90.38
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	90.32
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	90.3
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	90.24
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	90.03
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	90.03
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	89.95
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	89.72
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	89.66
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	89.61
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	89.51
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	89.45
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	89.41
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	89.16
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	89.09
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	89.06
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	88.79
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	87.91
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	87.87
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	87.85
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	87.34
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	87.33
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	86.74
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	86.61
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	86.59
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	86.32
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	86.06
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	85.93
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	85.92
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	85.23
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	85.19
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	85.19
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	83.18
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	82.83
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	82.68
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	82.44
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	82.38
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	82.18
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	82.12
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	82.04
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	81.97
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	81.79
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	81.34
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	80.12

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=100.00  E-value=2.8e-37  Score=297.87  Aligned_cols=242  Identities=18%  Similarity=0.159  Sum_probs=181.9

Q ss_pred             ccCCceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchh--hhccCCceEEEEeCCchhHHHH
Q 045152          179 IDEGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDE--VKRNFEKVIWVCVSDTFEEIRV  256 (533)
Q Consensus       179 ~~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~--~~~~F~~~~wv~vs~~~~~~~l  256 (533)
                      +.++.+|||+.++++|+++|....   +.+.++|+|+||||+||||||+++|++..  ...+|++++|+++++.++...+
T Consensus        17 p~~~~~~gR~~~~~~i~~~L~~~~---~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l   93 (277)
T d2a5yb3          17 PKQMTCYIREYHVDRVIKKLDEMC---DLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTF   93 (277)
T ss_dssp             BCCCCSCCCHHHHHHHHHHHHHHT---TSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHH
T ss_pred             CCCCceeCcHHHHHHHHHHHHhcc---CCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHHHH
Confidence            456678999999999999997543   35678999999999999999999998643  6778999999999998877666


Q ss_pred             HHHHHH---HhCCCC-------CCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEec
Q 045152          257 AKAIIE---GLGVSA-------SGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTR  326 (533)
Q Consensus       257 ~~~il~---~l~~~~-------~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR  326 (533)
                      ...+..   .++...       ............+.+.+.++++|+||||||+.  ..|..+.      ..||+||||||
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~--~~~~~~~------~~~srilvTTR  165 (277)
T d2a5yb3          94 DLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQE--ETIRWAQ------ELRLRCLVTTR  165 (277)
T ss_dssp             HHHHHHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCH--HHHHHHH------HTTCEEEEEES
T ss_pred             HHHHHHHHHHhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEecchhhHH--hhhhhhc------ccCceEEEEee
Confidence            555533   333221       11223344555678889999999999999976  3444332      24799999999


Q ss_pred             chHHHhhhCC-CCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHHHHHHhhcccchHHHH
Q 045152          327 DRSVALQLGS-IDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKVIWNLLRSKSTVKEWQ  405 (533)
Q Consensus       327 ~~~v~~~~~~-~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~~~~L~~~~~~~~w~  405 (533)
                      ++.++..+.. ...|++++|+.++||+||+.++|..   ...+..++++++|+++|+|+|||++++|+.|+.+ +.+.|.
T Consensus       166 ~~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~---~~~~~~~~~~~~iv~~c~GlPLAl~~ig~~l~~k-~~~~~~  241 (277)
T d2a5yb3         166 DVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPM---PVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPK-TFEKMA  241 (277)
T ss_dssp             BGGGGGGCCSCEEEEECCCCCHHHHHHHHHHTSCCC---C--CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSS-SHHHHH
T ss_pred             hHHHHHhcCCCCceEECCCCCHHHHHHHHHHHhCCc---cCchhhHHHHHHHHHHhCCCHHHHHHHHHHhccC-CHHHHH
Confidence            9999987655 3679999999999999999988732   2334467889999999999999999999999877 677888


Q ss_pred             HHHhhhhhhcccccccccceEEEeecCCcccCCcccc
Q 045152          406 RILDSEMWKENISIMPCLSVLRVYLCPKLKVLPDYLL  442 (533)
Q Consensus       406 ~~l~~~~~~~~~~ilp~L~~L~l~~c~~l~~lp~~l~  442 (533)
                      +..+.........+.+.|   .++|    +.||.++.
T Consensus       242 ~~~~~L~~~~~~~v~~il---~~sY----~~L~~~lk  271 (277)
T d2a5yb3         242 QLNNKLESRGLVGVECIT---PYSY----KSLAMALQ  271 (277)
T ss_dssp             HHHHHHHHHCSSTTCCCS---SSSS----SSHHHHHH
T ss_pred             HHHHHHhcCcHHHHHHHH---HHHH----hcccHHHH
Confidence            766644333223444443   3444    77776654

>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=99.25  E-value=1.1e-11  Score=117.35  Aligned_cols=198  Identities=12%  Similarity=0.159  Sum_probs=112.0

Q ss_pred             cCCceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeC-----CchhHH
Q 045152          180 DEGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVS-----DTFEEI  254 (533)
Q Consensus       180 ~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs-----~~~~~~  254 (533)
                      ....||||+++++++.+..          .+++.|+|++|+|||+|++++.+.  ...   ...|+.+.     ......
T Consensus        10 ~~~~f~GR~~el~~l~~~~----------~~~i~i~G~~G~GKTsLl~~~~~~--~~~---~~~~i~~~~~~~~~~~~~~   74 (283)
T d2fnaa2          10 NRKDFFDREKEIEKLKGLR----------APITLVLGLRRTGKSSIIKIGINE--LNL---PYIYLDLRKFEERNYISYK   74 (283)
T ss_dssp             SGGGSCCCHHHHHHHHHTC----------SSEEEEEESTTSSHHHHHHHHHHH--HTC---CEEEEEGGGGTTCSCCCHH
T ss_pred             ChhhCCChHHHHHHHHhcc----------CCEEEEEcCCCCcHHHHHHHHHHH--CCC---CeEEEEeccccccccccHH
Confidence            3568999999999987631          257889999999999999998763  222   23455432     111223


Q ss_pred             HHHHHHHHHh--------------CCC---------------CCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccc-
Q 045152          255 RVAKAIIEGL--------------GVS---------------ASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKK-  304 (533)
Q Consensus       255 ~l~~~il~~l--------------~~~---------------~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~-  304 (533)
                      .+...+....              ...               .....++..+...+. ...++++++|+|++....... 
T Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~-~~~~~~~~i~id~~~~~~~~~~  153 (283)
T d2fnaa2          75 DFLLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFE-QASKDNVIIVLDEAQELVKLRG  153 (283)
T ss_dssp             HHHHHHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHH-HTCSSCEEEEEETGGGGGGCTT
T ss_pred             HHHHHHHHHhhhhhhhhHHHHHHHHhhhcccccccccccccchhhhhHHHHHHHHHH-hhcccccccccchhhhhcccch
Confidence            3333322211              100               011122333333332 345788999999984321111 


Q ss_pred             ---cchhhhcccCCCCCceEEEEecchHHHhhhC------------CCCeeeCCCCChHhhHHHHHHhhccCCCcccccc
Q 045152          305 ---WNPFFSCLKNGHHESKILITTRDRSVALQLG------------SIDIIPVKELAEEECWSLLERLAFFRRSVDDHEK  369 (533)
Q Consensus       305 ---~~~l~~~l~~~~~gs~IiiTtR~~~v~~~~~------------~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~  369 (533)
                         +..+.... ........+++.+.........            ....+.|.+++.+++.+++.+..- ... ...+ 
T Consensus       154 ~~~~~~l~~~~-~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~~~l~~~~~-~~~-~~~~-  229 (283)
T d2fnaa2         154 VNLLPALAYAY-DNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQ-EAD-IDFK-  229 (283)
T ss_dssp             CCCHHHHHHHH-HHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHH-HHT-CCCC-
T ss_pred             HHHHHHHHHHH-HhhhhhhhhhccccchHHHHHHHhhhhcchhcccceeEEeeCCCCHHHHHHHHHhhhh-hcC-CCHH-
Confidence               11122211 1223344555554433322111            134688999999999999987542 111 1111 


Q ss_pred             chHHHHHHHhHhCCCcchhHHHHHHhhcccc
Q 045152          370 LEPIGRKIAHKCKGLPLAAKVIWNLLRSKST  400 (533)
Q Consensus       370 l~~~~~~I~~~c~GlPLai~~~~~~L~~~~~  400 (533)
                         ...+|++.++|+|..+..++..+....+
T Consensus       230 ---~~~~i~~~~~G~P~~L~~~~~~~~~~~~  257 (283)
T d2fnaa2         230 ---DYEVVYEKIGGIPGWLTYFGFIYLDNKN  257 (283)
T ss_dssp             ---CHHHHHHHHCSCHHHHHHHHHHHHHHCC
T ss_pred             ---HHHHHHHHhCCCHHHHHHHHHHHHhccc
Confidence               1468999999999999999876655443

>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=98.93  E-value=1.4e-08  Score=95.03  Aligned_cols=177  Identities=15%  Similarity=0.121  Sum_probs=109.6

Q ss_pred             cCCceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCC-ceEEEEeCCchhHHHHHH
Q 045152          180 DEGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFE-KVIWVCVSDTFEEIRVAK  258 (533)
Q Consensus       180 ~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~-~~~wv~vs~~~~~~~l~~  258 (533)
                      .+..++||+.+++.+.++|...-.......+.+.|+|++|+||||+|+.+.+.  ....+. ..+|+.............
T Consensus        14 ~p~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~--l~~~~~~~~~~~~~~~~~~~~~~~~   91 (276)
T d1fnna2          14 VPKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWEL--YKDKTTARFVYINGFIYRNFTAIIG   91 (276)
T ss_dssp             CCSCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHH--HTTSCCCEEEEEETTTCCSHHHHHH
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHH--HhcccCCcEEEecchhhhhhhhhhh
Confidence            34568999999999999885421111245678999999999999999999874  333322 345666666777778888


Q ss_pred             HHHHHhCCCCCC-CccHHHHHHHHHHHh--CCceEEEEEeCCCCCCccccchhhhcc---c-CCCCCceEEEEecchHHH
Q 045152          259 AIIEGLGVSASG-LSEFESLMKQIQEYI--TRKKFFLVLDDVWDGDYKKWNPFFSCL---K-NGHHESKILITTRDRSVA  331 (533)
Q Consensus       259 ~il~~l~~~~~~-~~~~~~l~~~l~~~l--~~kr~LlVLDdv~~~~~~~~~~l~~~l---~-~~~~gs~IiiTtR~~~v~  331 (533)
                      .+....+..... ......+...+.+.+  .....++++|++++........+...+   . .......+|.++......
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~  171 (276)
T d1fnna2          92 EIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVL  171 (276)
T ss_dssp             HHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHH
T ss_pred             hhHHhhhhhhhhhccchhHHHHHHHHHHhhcccccccchhHHHHhhhhhhhhHHHHHhccccccccceEEeecCCchhhh
Confidence            888887654332 233444555555444  345677788888654322222222111   1 112233455555543332


Q ss_pred             hhh-------CCCCeeeCCCCChHhhHHHHHHhh
Q 045152          332 LQL-------GSIDIIPVKELAEEECWSLLERLA  358 (533)
Q Consensus       332 ~~~-------~~~~~~~l~~L~~~~~~~Lf~~~a  358 (533)
                      ..+       .....+.+.+.+.++.++++.+++
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       113568899999999999998765

>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=98.86  E-value=6.4e-09  Score=94.82  Aligned_cols=184  Identities=14%  Similarity=0.061  Sum_probs=112.6

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAII  261 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il  261 (533)
                      .++||.++.++.+..|+...      ....+.++|++|+||||+|+.+.+.-.....-....-++.+...+...+...+.
T Consensus        15 ~d~ig~~~~~~~L~~~~~~~------~~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~~~~~~~~~i~~~~~   88 (224)
T d1sxjb2          15 SDIVGNKETIDRLQQIAKDG------NMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGIDVVRNQIK   88 (224)
T ss_dssp             GGCCSCTHHHHHHHHHHHSC------CCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSHHHHHTHHH
T ss_pred             HHhcCCHHHHHHHHHHHHcC------CCCeEEEECCCCCCchhhHHHHHHHHhccccccccccccccccCCceehhhHHH
Confidence            46899999999999999643      334477999999999999998876321111111233444444433333322222


Q ss_pred             HHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecch-HHHh-hhCCCCe
Q 045152          262 EGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDR-SVAL-QLGSIDI  339 (533)
Q Consensus       262 ~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~-~v~~-~~~~~~~  339 (533)
                      ........              ...++.-++|+|+++.........+...+......++++++|.+. .+.. .......
T Consensus        89 ~~~~~~~~--------------~~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~sr~~~  154 (224)
T d1sxjb2          89 HFAQKKLH--------------LPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAI  154 (224)
T ss_dssp             HHHHBCCC--------------CCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEE
T ss_pred             HHHHhhcc--------------CCCcceEEEEEecccccchhHHHHHhhhccccccceeeeeccCchhhhhhHHHHHHHH
Confidence            21111000              012355688999998766555555655555555566676666553 3322 2234567


Q ss_pred             eeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhH
Q 045152          340 IPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAK  389 (533)
Q Consensus       340 ~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~  389 (533)
                      +++++++.++...++.+.+...+- ..   -.+....|++.|+|-+..+.
T Consensus       155 i~~~~~~~~~i~~~l~~i~~~e~~-~i---~~~~l~~I~~~s~Gd~R~ai  200 (224)
T d1sxjb2         155 LRYSKLSDEDVLKRLLQIIKLEDV-KY---TNDGLEAIIFTAEGDMRQAI  200 (224)
T ss_dssp             EECCCCCHHHHHHHHHHHHHHHTC-CB---CHHHHHHHHHHHTTCHHHHH
T ss_pred             hhhcccchhhhHHHHHHHHHhccc-CC---CHHHHHHHHHHcCCcHHHHH
Confidence            999999999999998876642111 11   23456899999999876543

>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=98.80  E-value=7.4e-09  Score=94.57  Aligned_cols=180  Identities=13%  Similarity=0.047  Sum_probs=108.1

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAII  261 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il  261 (533)
                      .++||.++.++.+..|+...      ....+.++|++|+||||+|+.+.+............-.+.+...+.........
T Consensus        14 ~divg~~~~~~~L~~~i~~~------~~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~~~~~~~~~~~~~~~~   87 (227)
T d1sxjc2          14 DEVYGQNEVITTVRKFVDEG------KLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGIDVVRNQIK   87 (227)
T ss_dssp             GGCCSCHHHHHHHHHHHHTT------CCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSHHHHHTHHH
T ss_pred             HHccCcHHHHHHHHHHHHcC------CCCeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEecccccCCeeeeecchh
Confidence            46999999999999999543      333477999999999999999986421111111222233333322221111111


Q ss_pred             HHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecch-HHHh-hhCCCCe
Q 045152          262 EGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDR-SVAL-QLGSIDI  339 (533)
Q Consensus       262 ~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~-~v~~-~~~~~~~  339 (533)
                      .....               .....+++-++|+|++.......-..+...+......++++++|... .+.. .......
T Consensus        88 ~~~~~---------------~~~~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr~~~  152 (227)
T d1sxjc2          88 DFAST---------------RQIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTR  152 (227)
T ss_dssp             HHHHB---------------CCSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEE
T ss_pred             hcccc---------------ccccCCCeEEEEEeccccchhhHHHHHHHHhhhcccceeeccccCcHHHhHHHHHHHHhh
Confidence            11000               00112345588999997665444455666666666677787777653 2222 2234567


Q ss_pred             eeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcc
Q 045152          340 IPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPL  386 (533)
Q Consensus       340 ~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPL  386 (533)
                      +.+.+++.++...++.+.+...+ ...   -.+....|++.++|-..
T Consensus       153 i~~~~~~~~~i~~~l~~I~~~e~-i~i---~~~~l~~i~~~s~Gd~R  195 (227)
T d1sxjc2         153 FRFQPLPQEAIERRIANVLVHEK-LKL---SPNAEKALIELSNGDMR  195 (227)
T ss_dssp             EECCCCCHHHHHHHHHHHHHTTT-CCB---CHHHHHHHHHHHTTCHH
T ss_pred             hcccccccccccccccccccccc-ccC---CHHHHHHHHHHcCCcHH
Confidence            89999999999998887664211 111   13556889999998653

>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=98.77  E-value=1.1e-08  Score=93.88  Aligned_cols=190  Identities=13%  Similarity=0.025  Sum_probs=111.4

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhh-ccCCceEEEEeCCchhHHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVK-RNFEKVIWVCVSDTFEEIRVAKAI  260 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~-~~F~~~~wv~vs~~~~~~~l~~~i  260 (533)
                      .+++|.++.++.+..++...      ....+.++|++|+||||+|+.+.+.-... ........++.+.......+...+
T Consensus        12 ~diig~~~~~~~l~~~i~~~------~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (237)
T d1sxjd2          12 DEVTAQDHAVTVLKKTLKSA------NLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKV   85 (237)
T ss_dssp             TTCCSCCTTHHHHHHHTTCT------TCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTTHH
T ss_pred             HHccCcHHHHHHHHHHHHcC------CCCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheeccccccchHHHHHH
Confidence            35899999999999998533      33447899999999999999998742111 112233444555444443333222


Q ss_pred             HHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecch-HHHh-hhCCCC
Q 045152          261 IEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDR-SVAL-QLGSID  338 (533)
Q Consensus       261 l~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~-~v~~-~~~~~~  338 (533)
                      -...........     ...+......+.-++|+|++.......+..+...+......+++|+|+... .+.. ......
T Consensus        86 ~~~~~~~~~~~~-----~~~~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~l~sr~~  160 (237)
T d1sxjd2          86 KNFARLTVSKPS-----KHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCS  160 (237)
T ss_dssp             HHHHHSCCCCCC-----TTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSE
T ss_pred             HHHhhhhhhhhh-----HHHHhhccccCceEEEEecccccCHHHHHHHhhccccccccccccccccccccccccccchhh
Confidence            221111111110     011222334445579999997665455555555555455566677766542 2211 112246


Q ss_pred             eeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcc
Q 045152          339 IIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPL  386 (533)
Q Consensus       339 ~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPL  386 (533)
                      .+++++++.++...++.+.+.... ..   --.+....|++.++|-..
T Consensus       161 ~i~f~~~~~~~~~~~L~~i~~~e~-i~---i~~~~l~~ia~~s~gd~R  204 (237)
T d1sxjd2         161 KFRFKALDASNAIDRLRFISEQEN-VK---CDDGVLERILDISAGDLR  204 (237)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHTTT-CC---CCHHHHHHHHHHTSSCHH
T ss_pred             hhccccccccccchhhhhhhhhhc-Cc---CCHHHHHHHHHHcCCCHH
Confidence            789999999999999988764211 11   123556888999988653

>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=98.73  E-value=2e-08  Score=91.84  Aligned_cols=180  Identities=13%  Similarity=0.054  Sum_probs=108.9

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCC-ceEEEEeCCchhHHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFE-KVIWVCVSDTFEEIRVAKAI  260 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~-~~~wv~vs~~~~~~~l~~~i  260 (533)
                      .+++|.++.++++..|+...      ....+.++|++|+||||+|+.+.+... ...+. ..+-++.+...+...+...+
T Consensus        24 ~diig~~~~~~~l~~~i~~~------~~~~lll~Gp~G~GKTtla~~iak~l~-~~~~~~~~~e~n~s~~~~~~~~~~~~   96 (231)
T d1iqpa2          24 DDIVGQEHIVKRLKHYVKTG------SMPHLLFAGPPGVGKTTAALALARELF-GENWRHNFLELNASDERGINVIREKV   96 (231)
T ss_dssp             TTCCSCHHHHHHHHHHHHHT------CCCEEEEESCTTSSHHHHHHHHHHHHH-GGGHHHHEEEEETTCHHHHHTTHHHH
T ss_pred             HHccCcHHHHHHHHHHHHcC------CCCeEEEECCCCCcHHHHHHHHHHHHH-hcccCCCeeEEecCcccchhHHHHHH
Confidence            46999999999999999543      445688999999999999998886321 11222 12234444332222111111


Q ss_pred             HHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecch-HHHhhh-CCCC
Q 045152          261 IEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDR-SVALQL-GSID  338 (533)
Q Consensus       261 l~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~-~v~~~~-~~~~  338 (533)
                      ......               ......++.++++||+.......+..+...+........+|.||... .+...+ ....
T Consensus        97 ~~~~~~---------------~~~~~~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~sR~~  161 (231)
T d1iqpa2          97 KEFART---------------KPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCA  161 (231)
T ss_dssp             HHHHHS---------------CCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEE
T ss_pred             HHHHhh---------------hhccCCCceEEeehhhhhcchhHHHHHhhhcccCCcceEEEeccCChhhchHhHhCccc
Confidence            111100               00113467789999997766556666666665444455566665543 232222 2346


Q ss_pred             eeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcch
Q 045152          339 IIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLA  387 (533)
Q Consensus       339 ~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLa  387 (533)
                      .+.+.+.+.++....+.+.+.... .   .--.+....|++.++|-...
T Consensus       162 ~i~~~~~~~~~~~~~l~~~~~~e~-i---~i~~~~l~~I~~~~~gdiR~  206 (231)
T d1iqpa2         162 IFRFRPLRDEDIAKRLRYIAENEG-L---ELTEEGLQAILYIAEGDMRR  206 (231)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHTTT-C---EECHHHHHHHHHHHTTCHHH
T ss_pred             cccccccchhhHHHHHHHHHHHhC-C---CCCHHHHHHHHHHcCCCHHH
Confidence            799999999999999888764211 1   11245568899999996543

>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=98.70  E-value=8.9e-08  Score=88.44  Aligned_cols=154  Identities=18%  Similarity=0.179  Sum_probs=95.0

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcch---hhhc-cCCceEEEE-eCCchhHHHHH
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNND---EVKR-NFEKVIWVC-VSDTFEEIRVA  257 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~---~~~~-~F~~~~wv~-vs~~~~~~~l~  257 (533)
                      .++||++|++++...|....      ..-+.+||++|+|||+|++.+...-   .+.. .....+|.- ++.        
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            57999999999999996543      2456699999999999998776531   1111 223445532 111        


Q ss_pred             HHHHHHhCCCCCCCccHHHHHHHHHHHh-CCceEEEEEeCCCCCC----cc----ccchh-hhcccCCCCCceEEEEecc
Q 045152          258 KAIIEGLGVSASGLSEFESLMKQIQEYI-TRKKFFLVLDDVWDGD----YK----KWNPF-FSCLKNGHHESKILITTRD  327 (533)
Q Consensus       258 ~~il~~l~~~~~~~~~~~~l~~~l~~~l-~~kr~LlVLDdv~~~~----~~----~~~~l-~~~l~~~~~gs~IiiTtR~  327 (533)
                            +-........+++....+.+.+ ..++.++++|+++.--    ..    ....+ ..++.  ...-++|.||..
T Consensus        85 ------liag~~~~g~~e~r~~~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~--rg~i~vIgatT~  156 (268)
T d1r6bx2          85 ------LLAGTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS--SGKIRVIGSTTY  156 (268)
T ss_dssp             --------CCCCCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS--SCCCEEEEEECH
T ss_pred             ------HhccCccchhHHHHHHHHHHHhhccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHh--CCCCeEEEeCCH
Confidence                  1111122334455444444444 4577999999986531    00    11222 22332  224678888888


Q ss_pred             hHHHhhhCC-------CCeeeCCCCChHhhHHHHHHhh
Q 045152          328 RSVALQLGS-------IDIIPVKELAEEECWSLLERLA  358 (533)
Q Consensus       328 ~~v~~~~~~-------~~~~~l~~L~~~~~~~Lf~~~a  358 (533)
                      ++.......       ...+++++.+.+++..++....
T Consensus       157 eey~~~~e~d~al~rrF~~I~V~Eps~e~t~~IL~~~~  194 (268)
T d1r6bx2         157 QEFSNIFEKDRALARRFQKIDITEPSIEETVQIINGLK  194 (268)
T ss_dssp             HHHHCCCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcHHHHhhhcccccCCCCHHHHHHHHHHhh
Confidence            777654432       4678999999999999987654

>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=98.68  E-value=1.5e-07  Score=86.38  Aligned_cols=184  Identities=16%  Similarity=0.177  Sum_probs=110.7

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccC-------------------Cce
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNF-------------------EKV  242 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F-------------------~~~  242 (533)
                      .+++|.++.++.+..++....     -...+.|+|++|+||||+|+.+.+.-......                   ...
T Consensus        12 ~dlig~~~~~~~L~~~i~~~~-----~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~   86 (239)
T d1njfa_          12 ADVVGQEHVLTALANGLSLGR-----IHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDL   86 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHTTC-----CCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHHTCCTTE
T ss_pred             HHccChHHHHHHHHHHHHcCC-----CCeeEEEECCCCCcHHHHHHHHHHHhcCccccccCccccchHHHHHHcCCCCeE
Confidence            368999999999999985432     34567899999999999998876531111000                   012


Q ss_pred             EEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEE
Q 045152          243 IWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKIL  322 (533)
Q Consensus       243 ~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~Ii  322 (533)
                      +.++.+....... .+.+++.+....                ..++.-++|||+++..+...-..|+..+.....++++|
T Consensus        87 ~~~~~~~~~~i~~-ir~~~~~~~~~~----------------~~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~i  149 (239)
T d1njfa_          87 IEIDAASRTKVED-TRDLLDNVQYAP----------------ARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFL  149 (239)
T ss_dssp             EEEETTCSSSHHH-HHHHHHSCCCSC----------------SSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEE
T ss_pred             EEecchhcCCHHH-HHHHHHHHHhcc----------------ccCCCEEEEEECcccCCHHHHHHHHHHHhcCCCCeEEE
Confidence            2222222211111 112222211100                12455689999997765555555666666666677788


Q ss_pred             EEecchH-HHhhh-CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcc-hhHHH
Q 045152          323 ITTRDRS-VALQL-GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPL-AAKVI  391 (533)
Q Consensus       323 iTtR~~~-v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPL-ai~~~  391 (533)
                      ++|.+.. +.... .....+.+.+++.++....+.+.+-....    .--.+....|++.++|.+. |+..+
T Consensus       150 l~tn~~~~i~~~i~SRc~~i~~~~~~~~~i~~~l~~i~~~e~~----~~~~~~l~~i~~~s~Gd~R~ain~l  217 (239)
T d1njfa_         150 LATTDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHI----AHEPRALQLLARAAEGSLRDALSLT  217 (239)
T ss_dssp             EEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTC----CBCHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             EEcCCccccChhHhhhhcccccccCcHHHhhhHHHHHHhhhcc----CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            7776532 22222 33567999999999998888776632111    1124556889999999886 44433

>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=98.67  E-value=2.6e-08  Score=92.33  Aligned_cols=191  Identities=12%  Similarity=0.077  Sum_probs=100.6

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcch----hhhccCCceEEEEeCCc--------
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNND----EVKRNFEKVIWVCVSDT--------  250 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~----~~~~~F~~~~wv~vs~~--------  250 (533)
                      +++|.++..+.|..++...     ....-+.|+|++|+||||+|+.+.+..    .....++...|......        
T Consensus        12 diig~~~~~~~L~~~~~~~-----~~~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (252)
T d1sxje2          12 ALSHNEELTNFLKSLSDQP-----RDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVVS   86 (252)
T ss_dssp             GCCSCHHHHHHHHTTTTCT-----TCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCEE
T ss_pred             HccCcHHHHHHHHHHHHcC-----CCCCeEEEECCCCCCHHHHHHHHHHhhcCccccccccccccccccccchhhhhhcc
Confidence            6899988888888777433     233447799999999999999887631    11111122222111100        


Q ss_pred             -------------hhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCCCC
Q 045152          251 -------------FEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHH  317 (533)
Q Consensus       251 -------------~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~  317 (533)
                                   .....................      ...-.....++.-++|||+++......+..+...+.....
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~iiiide~d~l~~~~~~~l~~~~e~~~~  160 (252)
T d1sxje2          87 SPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVD------FQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSK  160 (252)
T ss_dssp             CSSEEEECCC----CCHHHHHHHHHHHTTTTC------------------CCEEEEEECTTSSCHHHHHHHHHHHHHSTT
T ss_pred             CCccceeeecccccCCcceeeehhhhhhhhhhhh------hhhcccccCCCceEEEeccccccccccchhhhcccccccc
Confidence                         000011111111111000000      0000011123445889999977655556666666655556


Q ss_pred             CceEEEEecchH-HHh-hhCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcch
Q 045152          318 ESKILITTRDRS-VAL-QLGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLA  387 (533)
Q Consensus       318 gs~IiiTtR~~~-v~~-~~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLa  387 (533)
                      .+++|+||.+.+ +.. .......+++.+++.++..+++...+-.   ......-++....|++.+.|.+..
T Consensus       161 ~~~~Il~tn~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~i~~~---e~~~~~~~~~l~~i~~~s~Gd~R~  229 (252)
T d1sxje2         161 NIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTN---ERIQLETKDILKRIAQASNGNLRV  229 (252)
T ss_dssp             TEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHH---HTCEECCSHHHHHHHHHHTTCHHH
T ss_pred             cccceeeeccccchhhhhhcchheeeecccchhhHHHHHHHHHHH---cCCCCCcHHHHHHHHHHcCCcHHH
Confidence            677788776542 111 1122457899999999999998765521   111112245667899999998654

>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=98.58  E-value=1.3e-07  Score=82.45  Aligned_cols=150  Identities=18%  Similarity=0.139  Sum_probs=87.1

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcch---hh-hccCCceEEEEeCCchhHHHHHH
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNND---EV-KRNFEKVIWVCVSDTFEEIRVAK  258 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~---~~-~~~F~~~~wv~vs~~~~~~~l~~  258 (533)
                      .++||+++++++...|....      -.-+.++|.+|+|||++++.+...-   .+ ....+..+|.-     +...+. 
T Consensus        23 ~~igRd~Ei~~l~~iL~r~~------k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~l-----d~~~Li-   90 (195)
T d1jbka_          23 PVIGRDEEIRRTIQVLQRRT------KNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLAL-----DMGALV-   90 (195)
T ss_dssp             CCCSCHHHHHHHHHHHTSSS------SCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEE-----CHHHHH-
T ss_pred             CCcCcHHHHHHHHHHHhccC------CCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEe-----eHHHHh-
Confidence            57999999999999996543      2356799999999999997776531   11 12223455532     222211 


Q ss_pred             HHHHHhCCCCCCCccHHHHHH-HHHHHh-CCceEEEEEeCCCCCC-------ccccch-hhhcccCCCCCceEEEEecch
Q 045152          259 AIIEGLGVSASGLSEFESLMK-QIQEYI-TRKKFFLVLDDVWDGD-------YKKWNP-FFSCLKNGHHESKILITTRDR  328 (533)
Q Consensus       259 ~il~~l~~~~~~~~~~~~l~~-~l~~~l-~~kr~LlVLDdv~~~~-------~~~~~~-l~~~l~~~~~gs~IiiTtR~~  328 (533)
                         .   + .....++++... .+.+.. ...+.+|++||++..-       ...... +..++..  ..-++|.||..+
T Consensus        91 ---A---g-~~~rG~~E~rl~~il~e~~~~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~r--g~l~~IgatT~e  161 (195)
T d1jbka_          91 ---A---G-AKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALAR--GELHCVGATTLD  161 (195)
T ss_dssp             ---T---T-TCSHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHHT--TSCCEEEEECHH
T ss_pred             ---c---c-CCccHHHHHHHHHHHHHHhcCCCcEEEEcchHHHHhcCCCCCCcccHHHHHHHHHhC--CCceEEecCCHH
Confidence               1   0 011112333232 333332 3457999999996521       011222 3333333  246788888777


Q ss_pred             HHHhhhCC-------CCeeeCCCCChHhhHHH
Q 045152          329 SVALQLGS-------IDIIPVKELAEEECWSL  353 (533)
Q Consensus       329 ~v~~~~~~-------~~~~~l~~L~~~~~~~L  353 (533)
                      ........       ...+.++..+.+++..+
T Consensus       162 ey~~~~e~d~aL~rrF~~I~V~Ep~~e~t~~I  193 (195)
T d1jbka_         162 EYRQYIEKDAALERRFQKVFVAEPSVEDTIAI  193 (195)
T ss_dssp             HHHHHTTTCHHHHTTEEEEECCCCCHHHHHTT
T ss_pred             HHHHHHHcCHHHHhcCCEeecCCCCHHHHHHH
Confidence            66554332       56788888888887654

>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=98.56  E-value=1.8e-06  Score=80.71  Aligned_cols=179  Identities=16%  Similarity=0.113  Sum_probs=103.7

Q ss_pred             cCCceeechhhHHHHHHHHhCCC---ccCCCCeEEEEEEcCCCChHHHHHHHHhcchhh----hccCCceEEEEeCCchh
Q 045152          180 DEGEVCGRVEEKNELLSKLLCES---SEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEV----KRNFEKVIWVCVSDTFE  252 (533)
Q Consensus       180 ~~~~~vGR~~e~~~l~~~L~~~~---~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~----~~~F~~~~wv~vs~~~~  252 (533)
                      .+..++||+.++++|.+.+....   ........++.|+|++|+||||+++.+.+.-.-    ........+++......
T Consensus        14 ~P~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~   93 (287)
T d1w5sa2          14 IPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPN   93 (287)
T ss_dssp             CCSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCS
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeeccccccc
Confidence            45679999999999988763221   101123345677899999999999999875211    11123455677666667


Q ss_pred             HHHHHHHHHHHhCCCCCC-CccHHHHHHHHHHHh--CCceEEEEEeCCCCCC------ccc---cchhhhcccC---CCC
Q 045152          253 EIRVAKAIIEGLGVSASG-LSEFESLMKQIQEYI--TRKKFFLVLDDVWDGD------YKK---WNPFFSCLKN---GHH  317 (533)
Q Consensus       253 ~~~l~~~il~~l~~~~~~-~~~~~~l~~~l~~~l--~~kr~LlVLDdv~~~~------~~~---~~~l~~~l~~---~~~  317 (533)
                      .......+...++..... ..........+.+..  .+...++++|.+....      .+.   +..+...+..   ...
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~l~~~~~~~~~~~~~l~~l~~~l~~~~~~~~  173 (287)
T d1w5sa2          94 LYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNR  173 (287)
T ss_dssp             HHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCB
T ss_pred             hhhHHHHHhhhcccccccccchHHHHHHHHHHHHHhccCccccceeEEEEeccccccchhHHHHHHHHHHhcchhhcccc
Confidence            777777777777654322 233444445555444  3456778888874311      011   1111111221   122


Q ss_pred             CceEEEEecchHHHh------h-h-CCCCeeeCCCCChHhhHHHHHHhh
Q 045152          318 ESKILITTRDRSVAL------Q-L-GSIDIIPVKELAEEECWSLLERLA  358 (533)
Q Consensus       318 gs~IiiTtR~~~v~~------~-~-~~~~~~~l~~L~~~~~~~Lf~~~a  358 (533)
                      -..|++++.......      . . .....+.+++.+.++..+++...+
T Consensus       174 ~~~i~i~~~~~~~~~~~~~~~~~~~r~~~~i~f~~y~~~el~~Il~~r~  222 (287)
T d1w5sa2         174 IGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRA  222 (287)
T ss_dssp             EEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHH
T ss_pred             eeEEeecccHHHHHHHHhhccchhcccceeeeccCCcHHHHHHHHhhhH
Confidence            223444443332211      1 1 124578999999999999999776

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.42  E-value=2.1e-07  Score=75.84  Aligned_cols=82  Identities=23%  Similarity=0.324  Sum_probs=71.4

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCc--CCCCCCCc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPD--SLLQITTL  497 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~--~~~~l~~L  497 (533)
                      ++.|++|++++ ..+..+|+.+..+++|++|++++. .+..+|   .++.+++|++|++++ .++..+|.  .+.++++|
T Consensus        19 l~~L~~L~ls~-N~l~~lp~~~~~l~~L~~L~l~~N-~i~~l~---~~~~l~~L~~L~l~~-N~i~~~~~~~~l~~~~~L   92 (124)
T d1dcea3          19 LLLVTHLDLSH-NRLRALPPALAALRCLEVLQASDN-ALENVD---GVANLPRLQELLLCN-NRLQQSAAIQPLVSCPRL   92 (124)
T ss_dssp             GTTCCEEECCS-SCCCCCCGGGGGCTTCCEEECCSS-CCCCCG---GGTTCSSCCEEECCS-SCCCSSSTTGGGGGCTTC
T ss_pred             CCCCCEEECCC-CccCcchhhhhhhhcccccccccc-cccccC---ccccccccCeEECCC-CccCCCCCchhhcCCCCC
Confidence            67899999998 577899998999999999999975 488887   688899999999999 58888873  57889999


Q ss_pred             ceeeccCCch
Q 045152          498 KELGMEGSPL  507 (533)
Q Consensus       498 ~~L~~~~c~~  507 (533)
                      ++|++++++.
T Consensus        93 ~~L~l~~N~i  102 (124)
T d1dcea3          93 VLLNLQGNSL  102 (124)
T ss_dssp             CEEECTTSGG
T ss_pred             CEEECCCCcC
Confidence            9999999885

>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=98.42  E-value=1.8e-06  Score=76.92  Aligned_cols=180  Identities=12%  Similarity=0.052  Sum_probs=104.7

Q ss_pred             hhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCC-
Q 045152          188 VEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGV-  266 (533)
Q Consensus       188 ~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~-  266 (533)
                      +...+++...+...     .-...+.++|+.|+||||+|+.+.+.-.-.....   +-......+..    .+...... 
T Consensus         8 ~~~~~~l~~~~~~~-----~l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~---~~~~~~~~~~~----~i~~~~~~~   75 (207)
T d1a5ta2           8 RPDFEKLVASYQAG-----RGHHALLIQALPGMGDDALIYALSRYLLCQQPQG---HKSCGHCRGCQ----LMQAGTHPD   75 (207)
T ss_dssp             HHHHHHHHHHHHTT-----CCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBT---TBCCSCSHHHH----HHHHTCCTT
T ss_pred             HHHHHHHHHHHHcC-----CcCeEEEEECCCCCcHHHHHHHHHHhcccccccc---cccccccchhh----hhhhccccc
Confidence            34567777777533     2355689999999999999987765210000000   00000011111    11111100 


Q ss_pred             -------CCCCCccHHHHHHHHHHHh-----CCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecchH-HHhh
Q 045152          267 -------SASGLSEFESLMKQIQEYI-----TRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRS-VALQ  333 (533)
Q Consensus       267 -------~~~~~~~~~~l~~~l~~~l-----~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~~-v~~~  333 (533)
                             ........+++.. +.+.+     .+++-++|+||++..+.+....++..+.....++.+|+||++.. +...
T Consensus        76 ~~~~~~~~~~~~i~~~~ir~-l~~~~~~~~~~~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~ll~t  154 (207)
T d1a5ta2          76 YYTLAPEKGKNTLGVDAVRE-VTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLAT  154 (207)
T ss_dssp             EEEECCCTTCSSBCHHHHHH-HHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHH
T ss_pred             cchhhhhhcccccccchhhH-HhhhhhhccccCccceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecChhhhhhh
Confidence                   0011112233222 22222     34567899999988777777778888877777888888887753 3222


Q ss_pred             -hCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhH
Q 045152          334 -LGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAK  389 (533)
Q Consensus       334 -~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~  389 (533)
                       ......+.+.+++.++....+....-     .    -.+....|++.++|.|..+.
T Consensus       155 I~SRc~~i~~~~~~~~~~~~~L~~~~~-----~----~~~~~~~i~~~s~Gs~r~al  202 (207)
T d1a5ta2         155 LRSRCRLHYLAPPPEQYAVTWLSREVT-----M----SQDALLAALRLSAGSPGAAL  202 (207)
T ss_dssp             HHTTSEEEECCCCCHHHHHHHHHHHCC-----C----CHHHHHHHHHHTTTCHHHHH
T ss_pred             hcceeEEEecCCCCHHHHHHHHHHcCC-----C----CHHHHHHHHHHcCCCHHHHH
Confidence             23357899999999999988876431     1    13556788999999986543

>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=98.35  E-value=9.3e-07  Score=81.49  Aligned_cols=190  Identities=15%  Similarity=0.099  Sum_probs=103.6

Q ss_pred             CceeechhhHHHHHHHHhCC-----------CccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCc
Q 045152          182 GEVCGRVEEKNELLSKLLCE-----------SSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT  250 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~-----------~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~  250 (533)
                      .+++|.+..+++|.+|+...           ...+....+.+.++|++|+||||+|+.+.+..     .-..++++.+..
T Consensus        14 ~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~-----~~~~~~~~~~~~   88 (253)
T d1sxja2          14 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQEL-----GYDILEQNASDV   88 (253)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHT-----TCEEEEECTTSC
T ss_pred             HHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHH-----Hhhhhccccccc
Confidence            47899999999999988531           00022345689999999999999999998731     122445655544


Q ss_pred             hhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccc---cchhhhcccCCCCCceEEEEecc
Q 045152          251 FEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKK---WNPFFSCLKNGHHESKILITTRD  327 (533)
Q Consensus       251 ~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~---~~~l~~~l~~~~~gs~IiiTtR~  327 (533)
                      .+...+- .................  .........++..++++|++.......   +..+.......  ...+++|+..
T Consensus        89 ~~~~~~~-~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~vi~ide~~~~~~~~~~~~~~~~~~~~~~--~~~ii~i~~~  163 (253)
T d1sxja2          89 RSKTLLN-AGVKNALDNMSVVGYFK--HNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKT--STPLILICNE  163 (253)
T ss_dssp             CCHHHHH-HTGGGGTTBCCSTTTTT--C----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHHC--SSCEEEEESC
T ss_pred             hhhHHHH-HHHHHHhhcchhhhhhh--hhhhcccccccceEEEeeeccccccchhhhhHHHhhhhccc--cccccccccc
Confidence            4333222 22222211110000000  001112234577889999986543222   22222222111  2335554432


Q ss_pred             --h-HHHhhhCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCc
Q 045152          328 --R-SVALQLGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLP  385 (533)
Q Consensus       328 --~-~v~~~~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlP  385 (533)
                        . .+.........+++.+.+.++....+...+-..+- ...   .+....|++.++|-.
T Consensus       164 ~~~~~~~~l~~~~~~i~f~~~~~~~i~~~l~~i~~~e~i-~i~---~~~l~~i~~~s~GDi  220 (253)
T d1sxja2         164 RNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKF-KLD---PNVIDRLIQTTRGDI  220 (253)
T ss_dssp             TTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTC-CCC---TTHHHHHHHHTTTCH
T ss_pred             ccccccccccceeeeeeccccchhHHHHHHHHHHHHhCC-CCC---HHHHHHHHHhCCCcH
Confidence              2 22222233568999999999998888875521111 111   234688999999966

>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=98.30  E-value=3.4e-06  Score=76.90  Aligned_cols=176  Identities=17%  Similarity=0.113  Sum_probs=96.6

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHH
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIE  262 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~  262 (533)
                      ++||-++-++++..++..... ....++.+.++|++|+||||+|+.+.+..  ..   ...+++.+.....         
T Consensus        10 divGq~~~~~~L~~~i~~~~~-~~~~~~~~Ll~GPpG~GKTtla~~la~~~--~~---~~~~~~~~~~~~~---------   74 (239)
T d1ixsb2          10 EYIGQERLKQKLRVYLEAAKA-RKEPLEHLLLFGPPGLGKTTLAHVIAHEL--GV---NLRVTSGPAIEKP---------   74 (239)
T ss_dssp             GSCSCHHHHHHHHHHHHHHTT-SSSCCCCEEEECCTTSCHHHHHHHHHHHH--TC---CEEEEETTTCCSH---------
T ss_pred             HhCCHHHHHHHHHHHHHHHHh-cCCCCCeEEEECCCCCCHHHHHHHHHHHh--CC---CeEeccCCccccc---------
Confidence            689999888888888754321 22345677899999999999999998632  11   1234443322221         


Q ss_pred             HhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhccc------------------CCCCCceEEEE
Q 045152          263 GLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLK------------------NGHHESKILIT  324 (533)
Q Consensus       263 ~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~------------------~~~~gs~IiiT  324 (533)
                                  ......+...+. .+.++++|+++......-+.+.....                  ...+...++.+
T Consensus        75 ------------~~~~~~~~~~~~-~~~i~~iDe~~~~~~~~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~i~~  141 (239)
T d1ixsb2          75 ------------GDLAAILANSLE-EGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGA  141 (239)
T ss_dssp             ------------HHHHHHHHTTCC-TTCEEEEETGGGCCHHHHHHHHHHHHHSEEEEECSCTTCCCEEEEECCCCEEEEE
T ss_pred             ------------hhhHHHHHhhcc-CCCeeeeecccccchhHHHhhhhhhhhhhhhhhhccchhhhhcccCCCCEEEEee
Confidence                        111222222222 23355667775432211111111100                  01122334444


Q ss_pred             e-cchHH--HhhhCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHH
Q 045152          325 T-RDRSV--ALQLGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKV  390 (533)
Q Consensus       325 t-R~~~v--~~~~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~  390 (533)
                      | +....  .........+.+...+.++...+..+.+... .   ...-.+....|++.++|.+..+..
T Consensus       142 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~-~---i~~~~~~l~~ia~~s~gd~R~a~~  206 (239)
T d1ixsb2         142 TTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLL-G---VRITEEAALEIGRRSRGTMRVAKR  206 (239)
T ss_dssp             ESCCSSCSCGGGGGCSEEEECCCCCHHHHHHHHHHHHGGG-C---CCBCHHHHHHHHHHTTSSHHHHHH
T ss_pred             ccCcccccchhhcccceeeEeeccChhhhhHHHHHHHHHh-C---CccchHHHHHHHHHcCCCHHHHHH
Confidence            4 33221  1222335678899999999988888766421 1   122355778999999998766543

>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=98.30  E-value=1.5e-06  Score=84.57  Aligned_cols=153  Identities=23%  Similarity=0.249  Sum_probs=85.6

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcc---hhh-hccCCceEEEE-eCCchhHHHHH
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNN---DEV-KRNFEKVIWVC-VSDTFEEIRVA  257 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~---~~~-~~~F~~~~wv~-vs~~~~~~~l~  257 (533)
                      .++||+++++++++.|.....      .-+.+||++|+|||+|+..+...   ..+ ....+.++|.- ++.      ++
T Consensus        23 ~~~gr~~ei~~~~~~L~r~~k------~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~------l~   90 (387)
T d1qvra2          23 PVIGRDEEIRRVIQILLRRTK------NNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGS------LL   90 (387)
T ss_dssp             CCCSCHHHHHHHHHHHHCSSC------CCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC----------
T ss_pred             CCcCcHHHHHHHHHHHhcCCC------CCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhh------hh
Confidence            479999999999999975532      23467899999999988655542   111 22234555543 211      11


Q ss_pred             HHHHHHhCCCCCCCccHHHHHHHHHHHh-CC-ceEEEEEeCCCCC--------CccccchhhhcccCCCCCceEEEEecc
Q 045152          258 KAIIEGLGVSASGLSEFESLMKQIQEYI-TR-KKFFLVLDDVWDG--------DYKKWNPFFSCLKNGHHESKILITTRD  327 (533)
Q Consensus       258 ~~il~~l~~~~~~~~~~~~l~~~l~~~l-~~-kr~LlVLDdv~~~--------~~~~~~~l~~~l~~~~~gs~IiiTtR~  327 (533)
                          .    .......++.....+...+ .. .+++|++|+++..        ..+.-+.|..+|..+  .-++|.+|..
T Consensus        91 ----a----g~~~~g~~e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~rg--~~~~I~~tT~  160 (387)
T d1qvra2          91 ----A----GAKYRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALARG--ELRLIGATTL  160 (387)
T ss_dssp             ---------------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHHTT--CCCEEEEECH
T ss_pred             ----c----ccCcchhHHHHHHHHHHHhccCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHhCC--CcceeeecCH
Confidence                0    0011122333333333333 33 4799999999653        111122234444333  3567777776


Q ss_pred             hHHHhhhCC-------CCeeeCCCCChHhhHHHHHHhh
Q 045152          328 RSVALQLGS-------IDIIPVKELAEEECWSLLERLA  358 (533)
Q Consensus       328 ~~v~~~~~~-------~~~~~l~~L~~~~~~~Lf~~~a  358 (533)
                      +.... +..       ...+.++..+.+++..++....
T Consensus       161 ~ey~~-~e~d~al~rrF~~v~v~ep~~~~~~~il~~~~  197 (387)
T d1qvra2         161 DEYRE-IEKDPALERRFQPVYVDEPTVEETISILRGLK  197 (387)
T ss_dssp             HHHHH-HTTCTTTCSCCCCEEECCCCHHHHHHHHHHHH
T ss_pred             HHHHH-hcccHHHHHhcccccCCCCcHHHHHHHHHHHH
Confidence            65543 222       5678999999999999988654

>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=98.29  E-value=1.8e-06  Score=78.71  Aligned_cols=176  Identities=19%  Similarity=0.178  Sum_probs=97.1

Q ss_pred             CceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHH
Q 045152          182 GEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAII  261 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il  261 (533)
                      .++||-+.-+++|..++..... .....+.+.++|++|+||||+|+.+.+.  ....   ...++.+......++. .++
T Consensus         9 ~divGqe~~~~~l~~~i~~~~~-~~~~~~~~L~~GPpGtGKT~lA~~la~~--~~~~---~~~~~~~~~~~~~~~~-~~~   81 (238)
T d1in4a2           9 DEFIGQENVKKKLSLALEAAKM-RGEVLDHVLLAGPPGLGKTTLAHIIASE--LQTN---IHVTSGPVLVKQGDMA-AIL   81 (238)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHH-HTCCCCCEEEESSTTSSHHHHHHHHHHH--HTCC---EEEEETTTCCSHHHHH-HHH
T ss_pred             HHcCChHHHHHHHHHHHHHHHh-cCCCCCeEEEECCCCCcHHHHHHHHHhc--cCCC---cccccCcccccHHHHH-HHH
Confidence            4689999999999988853321 1233456789999999999999999863  2222   2334433332222211 111


Q ss_pred             HHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcc------------------cCCCCCceEEE
Q 045152          262 EGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCL------------------KNGHHESKILI  323 (533)
Q Consensus       262 ~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l------------------~~~~~gs~Iii  323 (533)
                      ..                      ..++..+++|++.......-+.+....                  ....+...+|.
T Consensus        82 ~~----------------------~~~~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~  139 (238)
T d1in4a2          82 TS----------------------LERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVG  139 (238)
T ss_dssp             HH----------------------CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEEE
T ss_pred             Hh----------------------hccCCchHHHHHHHhhhHHHhhcccceeeeeeeeeecCcccccccccCCCCeEEEE
Confidence            11                      234455666766443211100111100                  01122344555


Q ss_pred             Eecch-HHHhh--hCCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcchhHH
Q 045152          324 TTRDR-SVALQ--LGSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLAAKV  390 (533)
Q Consensus       324 TtR~~-~v~~~--~~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~  390 (533)
                      +|... .....  ......+.++..+.++...++...+....    .....+....|++.++|.+..+..
T Consensus       140 at~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~~~~l~~i~~~s~gd~R~ai~  205 (238)
T d1in4a2         140 ATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMD----VEIEDAAAEMIAKRSRGTPRIAIR  205 (238)
T ss_dssp             EESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTT----CCBCHHHHHHHHHTSTTCHHHHHH
T ss_pred             ecCCCccccccceeeeeEEEEecCCCHHHHHHHHHHhhhhcc----chhhHHHHHHHHHhCCCCHHHHHH
Confidence            55443 32221  12245678999999999999887664211    122345678899999998776543

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.22  E-value=8.4e-07  Score=72.16  Aligned_cols=77  Identities=23%  Similarity=0.227  Sum_probs=65.7

Q ss_pred             ceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcceeecc
Q 045152          424 SVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKELGME  503 (533)
Q Consensus       424 ~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~L~~~  503 (533)
                      ++|++++ .++..+| .+..+.+|++|++++. .+..+|  +.++.+++|+.|++++ ..++.+| ++.++++|++|+++
T Consensus         1 R~L~Ls~-n~l~~l~-~l~~l~~L~~L~ls~N-~l~~lp--~~~~~l~~L~~L~l~~-N~i~~l~-~~~~l~~L~~L~l~   73 (124)
T d1dcea3           1 RVLHLAH-KDLTVLC-HLEQLLLVTHLDLSHN-RLRALP--PALAALRCLEVLQASD-NALENVD-GVANLPRLQELLLC   73 (124)
T ss_dssp             SEEECTT-SCCSSCC-CGGGGTTCCEEECCSS-CCCCCC--GGGGGCTTCCEEECCS-SCCCCCG-GGTTCSSCCEEECC
T ss_pred             CEEEcCC-CCCCCCc-ccccCCCCCEEECCCC-ccCcch--hhhhhhhccccccccc-ccccccC-ccccccccCeEECC
Confidence            4577777 5667776 4889999999999965 599999  6789999999999999 6899998 59999999999999


Q ss_pred             CCch
Q 045152          504 GSPL  507 (533)
Q Consensus       504 ~c~~  507 (533)
                      ++..
T Consensus        74 ~N~i   77 (124)
T d1dcea3          74 NNRL   77 (124)
T ss_dssp             SSCC
T ss_pred             CCcc
Confidence            8863

>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=98.07  E-value=2.2e-05  Score=72.24  Aligned_cols=180  Identities=13%  Similarity=0.037  Sum_probs=99.5

Q ss_pred             ceeechhhHHHHHHHHh----CCCc---cCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHH
Q 045152          183 EVCGRVEEKNELLSKLL----CESS---EQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIR  255 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~----~~~~---~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~  255 (533)
                      +++|-+..+++|.+.+.    ..+.   .+-...+-+.++|++|.|||++|+.+.+.  ...+   .+.++.      ..
T Consensus         5 dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~--~~~~---~~~i~~------~~   73 (258)
T d1e32a2           5 DVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANE--TGAF---FFLING------PE   73 (258)
T ss_dssp             GCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHH--TTCE---EEEECH------HH
T ss_pred             hhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHH--hCCe---EEEEEc------hh
Confidence            58899999888888642    1100   01134567899999999999999999863  2222   122211      11


Q ss_pred             HHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCC-------ccccc----hhhhccc--CCCCCceEE
Q 045152          256 VAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGD-------YKKWN----PFFSCLK--NGHHESKIL  322 (533)
Q Consensus       256 l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~-------~~~~~----~l~~~l~--~~~~gs~Ii  322 (533)
                              +.... .......+...+...-..++.+|+|||++..-       .+...    .+...+.  ....+.-||
T Consensus        74 --------l~~~~-~g~~~~~l~~~f~~A~~~~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~vlvi  144 (258)
T d1e32a2          74 --------IMSKL-AGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVM  144 (258)
T ss_dssp             --------HTTSC-TTHHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCCCSSCEEEE
T ss_pred             --------hcccc-cccHHHHHHHHHHHHHhcCCeEEEehhhhhhccCCCCCCCchHHHHHHHhccccccccccCCccEE
Confidence                    10000 01112223333333345678999999996521       01111    1111121  223344556


Q ss_pred             EEecchHHHh-hh----CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcch
Q 045152          323 ITTRDRSVAL-QL----GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLA  387 (533)
Q Consensus       323 iTtR~~~v~~-~~----~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLa  387 (533)
                      .||....... .+    .....+.++..+.++-..+|..... ........+    ...|++.+.|.--|
T Consensus       145 ~tTn~~~~ld~al~r~gRfd~~i~~~~P~~~~R~~il~~~l~-~~~~~~~~~----~~~la~~t~G~s~a  209 (258)
T d1e32a2         145 AATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTK-NMKLADDVD----LEQVANETHGHVGA  209 (258)
T ss_dssp             EEESCGGGSCGGGTSTTSSCEEEECCCCCHHHHHHHHHHTTT-TSCBCTTCC----HHHHHHHCTTCCHH
T ss_pred             EeCCCccccchhhhhcccccceeECCCCCHHHHHHHhhhhcc-Ccccccccc----hhhhhhcccCCCHH
Confidence            6887653322 11    1357899999999999999987653 211122222    36788999986543

>d2ifga3 c.10.2.7 (A:36-191) High affinity nerve growth factor receptor, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: High affinity nerve growth factor receptor, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.04  E-value=3.9e-06  Score=71.07  Aligned_cols=85  Identities=27%  Similarity=0.318  Sum_probs=71.4

Q ss_pred             ccccceEEEeecCCcccCCcc-ccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDY-LLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLK  498 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~-l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~  498 (533)
                      ++.++.|.+.....+..++.. +..+++|+.|++++.. |..++. ..+..+++|++|+|++ .+|+.+|.++-...+|+
T Consensus        30 l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~-l~~i~~-~~f~~l~~L~~L~Ls~-N~l~~l~~~~~~~~~l~  106 (156)
T d2ifga3          30 AENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSG-LRFVAP-DAFHFTPRLSRLNLSF-NALESLSWKTVQGLSLQ  106 (156)
T ss_dssp             CSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSC-CCEECT-TGGGSCSCCCEEECCS-SCCSCCCSTTTCSCCCC
T ss_pred             ccccCeeecCCCccccccCchhhccccccCcceeeccc-cCCccc-ccccccccccceeccC-CCCcccChhhhcccccc
Confidence            457888888776778888754 7789999999999765 888874 4577899999999999 79999998877777899


Q ss_pred             eeeccCCch
Q 045152          499 ELGMEGSPL  507 (533)
Q Consensus       499 ~L~~~~c~~  507 (533)
                      +|+++++|.
T Consensus       107 ~L~L~~Np~  115 (156)
T d2ifga3         107 ELVLSGNPL  115 (156)
T ss_dssp             EEECCSSCC
T ss_pred             ccccCCCcc
Confidence            999998874

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=98.02  E-value=3.3e-05  Score=68.75  Aligned_cols=131  Identities=21%  Similarity=0.259  Sum_probs=75.6

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESLMKQIQEYITRK  288 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~k  288 (533)
                      ...+.|+|++|+|||.|++.+++.  .......+++++      ..++...+...+...     ....    +.+.++ .
T Consensus        36 ~n~l~l~G~~G~GKTHLl~A~~~~--~~~~~~~~~~~~------~~~~~~~~~~~~~~~-----~~~~----~~~~~~-~   97 (213)
T d1l8qa2          36 YNPIFIYGSVGTGKTHLLQAAGNE--AKKRGYRVIYSS------ADDFAQAMVEHLKKG-----TINE----FRNMYK-S   97 (213)
T ss_dssp             CSSEEEECSSSSSHHHHHHHHHHH--HHHTTCCEEEEE------HHHHHHHHHHHHHHT-----CHHH----HHHHHH-T
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHH--hccCccceEEec------hHHHHHHHHHHHHcc-----chhh----HHHHHh-h
Confidence            344789999999999999999985  334444566664      334444444443211     1111    122222 3


Q ss_pred             eEEEEEeCCCCCC-ccccch-hhhcccC-CCCCceEEEEecch---------HHHhhhCCCCeeeCCCCChHhhHHHHHH
Q 045152          289 KFFLVLDDVWDGD-YKKWNP-FFSCLKN-GHHESKILITTRDR---------SVALQLGSIDIIPVKELAEEECWSLLER  356 (533)
Q Consensus       289 r~LlVLDdv~~~~-~~~~~~-l~~~l~~-~~~gs~IiiTtR~~---------~v~~~~~~~~~~~l~~L~~~~~~~Lf~~  356 (533)
                      .-+|+|||++... ...|+. +...+.. ...|..||+|++..         ++...+.....+.++ ++.++-.+++++
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            4589999996542 234444 3333322 24577899999853         233334445567775 466666677766


Q ss_pred             hh
Q 045152          357 LA  358 (533)
Q Consensus       357 ~a  358 (533)
                      .+
T Consensus       177 ~a  178 (213)
T d1l8qa2         177 KL  178 (213)
T ss_dssp             HH
T ss_pred             HH
Confidence            65

>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=98.01  E-value=3.1e-05  Score=70.52  Aligned_cols=180  Identities=16%  Similarity=0.095  Sum_probs=94.8

Q ss_pred             ceeechhhHHHHHHHH---hCCC---ccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHH
Q 045152          183 EVCGRVEEKNELLSKL---LCES---SEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRV  256 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L---~~~~---~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l  256 (533)
                      +++|-++.++.|.+.+   ....   .-+....+.+.++|++|.|||+||+.+.+.  ...+   .+.++      ..++
T Consensus        10 di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~--~~~~---~~~i~------~~~l   78 (247)
T d1ixza_          10 DVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGE--ARVP---FITAS------GSDF   78 (247)
T ss_dssp             GCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHH--TTCC---EEEEE------HHHH
T ss_pred             HHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHH--cCCC---EEEEE------hHHh
Confidence            6889988877665533   2110   001233457899999999999999999973  2222   22232      1221


Q ss_pred             HHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCC------Ccc--------ccchhhhcccC--CCCCce
Q 045152          257 AKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDG------DYK--------KWNPFFSCLKN--GHHESK  320 (533)
Q Consensus       257 ~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~------~~~--------~~~~l~~~l~~--~~~gs~  320 (533)
                      .    ....     ......+...+...-...+++|+|||++..      ...        ....+...+..  ...+.-
T Consensus        79 ~----~~~~-----g~~~~~l~~~f~~a~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~vi  149 (247)
T d1ixza_          79 V----EMFV-----GVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIV  149 (247)
T ss_dssp             H----HSCT-----THHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEE
T ss_pred             h----hccc-----cHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEE
Confidence            1    1100     011122223333333457889999998521      000        01122222221  222333


Q ss_pred             EEEEecchHH-Hhhh----CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcch
Q 045152          321 ILITTRDRSV-ALQL----GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLA  387 (533)
Q Consensus       321 IiiTtR~~~v-~~~~----~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLa  387 (533)
                      ||.||..+.. ...+    .....+.+++.+.++-.++|+...... ......+    ...+++.|.|+.-+
T Consensus       150 vi~tTn~~~~ld~al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~-~~~~~~~----~~~la~~t~g~s~~  216 (247)
T d1ixza_         150 VMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGK-PLAEDVD----LALLAKRTPGFVGA  216 (247)
T ss_dssp             EEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTS-CBCTTCC----HHHHHHTCTTCCHH
T ss_pred             EEEeCCCccccCHhHcCCCCCcEEEEECCcCHHHHHHHHHHHhccc-CCccccC----HHHHHHHCCCCCHH
Confidence            3446665432 2222    124688999999999999998876421 1122222    35677888886543

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=97.98  E-value=5.9e-05  Score=68.98  Aligned_cols=181  Identities=18%  Similarity=0.081  Sum_probs=98.4

Q ss_pred             CceeechhhHHHHHHH---HhCCCc---cCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHH
Q 045152          182 GEVCGRVEEKNELLSK---LLCESS---EQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIR  255 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~---L~~~~~---~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~  255 (533)
                      .+++|.++.+++|.+.   +.....   -+....+.+.++|++|.|||++|+.+.+.  ...+   .+-+..+.-.+   
T Consensus        12 ~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~--~~~~---~~~i~~~~l~~---   83 (256)
T d1lv7a_          12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGE--AKVP---FFTISGSDFVE---   83 (256)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHH--HTCC---EEEECSCSSTT---
T ss_pred             HHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHH--cCCC---EEEEEhHHhhh---
Confidence            4689998888777654   322110   01233567889999999999999999863  2222   22222222110   


Q ss_pred             HHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCC-------Cc---cc----cchhhhccc--CCCCCc
Q 045152          256 VAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDG-------DY---KK----WNPFFSCLK--NGHHES  319 (533)
Q Consensus       256 l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~-------~~---~~----~~~l~~~l~--~~~~gs  319 (533)
                                 . ........+...+...-...+++|+|||++..       ..   ..    ...+...+.  ....+.
T Consensus        84 -----------~-~~g~~~~~l~~~f~~A~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~v  151 (256)
T d1lv7a_          84 -----------M-FVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGI  151 (256)
T ss_dssp             -----------S-CCCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSCE
T ss_pred             -----------c-chhHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCE
Confidence                       0 00111223333344444567889999999431       00   11    112222222  223344


Q ss_pred             eEEEEecchHHH-hhh----CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcch
Q 045152          320 KILITTRDRSVA-LQL----GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLA  387 (533)
Q Consensus       320 ~IiiTtR~~~v~-~~~----~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLa  387 (533)
                      -||.||..+... ..+    .-...+.+...+.++-.++|+...- ........+    ...+++.+.|+.-|
T Consensus       152 ~vIatTn~~~~ld~al~R~gRfd~~i~i~~P~~~~R~~il~~~l~-~~~~~~~~~----~~~la~~t~G~s~a  219 (256)
T d1lv7a_         152 IVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMR-RVPLAPDID----AAIIARGTPGFSGA  219 (256)
T ss_dssp             EEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHT-TSCBCTTCC----HHHHHHTCTTCCHH
T ss_pred             EEEEeCCCcccCCHhHcCCCCCCEEEECCCcCHHHHHHHHHHhcc-CCCcCcccC----HHHHHHhCCCCCHH
Confidence            555577764332 222    1256889999999999999987753 211112222    35677888887644

>d1w8aa_ c.10.2.7 (A:) Slit {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Slit
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=97.98  E-value=5.7e-06  Score=72.63  Aligned_cols=85  Identities=15%  Similarity=0.268  Sum_probs=67.3

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcC-CCCCCCcc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDS-LLQITTLK  498 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~-~~~l~~L~  498 (533)
                      ++.|+.|.++++......+..+..+++|++|++++. .+..+|. ..+..|++|++|+|++ .+|+.+|++ +..+++|+
T Consensus        53 l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~N-~l~~l~~-~~F~~l~~L~~L~L~~-N~l~~i~~~~f~~l~~L~  129 (192)
T d1w8aa_          53 LPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGEN-KIKEISN-KMFLGLHQLKTLNLYD-NQISCVMPGSFEHLNSLT  129 (192)
T ss_dssp             CTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSC-CCCEECS-SSSTTCTTCCEEECCS-SCCCEECTTSSTTCTTCC
T ss_pred             CceEeeeeccccccccccccccccccccceeeeccc-cccccCH-HHHhCCCcccccccCC-ccccccCHHHhcCCcccc
Confidence            678888998885554455666777899999999865 4888874 4577899999999999 689998864 67899999


Q ss_pred             eeeccCCch
Q 045152          499 ELGMEGSPL  507 (533)
Q Consensus       499 ~L~~~~c~~  507 (533)
                      +|+++++|.
T Consensus       130 ~l~L~~N~~  138 (192)
T d1w8aa_         130 SLNLASNPF  138 (192)
T ss_dssp             EEECTTCCB
T ss_pred             ccccccccc
Confidence            999987763

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.93  E-value=6.2e-06  Score=78.01  Aligned_cols=81  Identities=10%  Similarity=0.142  Sum_probs=43.8

Q ss_pred             cccceEEEeecCCcccC-CccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcC-------CC
Q 045152          421 PCLSVLRVYLCPKLKVL-PDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDS-------LL  492 (533)
Q Consensus       421 p~L~~L~l~~c~~l~~l-p~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~-------~~  492 (533)
                      +.+++|.++++ .+..+ |..+..+++|++|+++++. |..+|  +.+..+++|++|+|+++ +|+.+|..       ..
T Consensus       195 ~~l~~L~~s~n-~l~~~~~~~~~~l~~L~~L~L~~N~-L~~lp--~~l~~l~~L~~L~Ls~N-~i~~i~~~~f~~~~~~~  269 (305)
T d1xkua_         195 NNLAKLGLSFN-SISAVDNGSLANTPHLRELHLNNNK-LVKVP--GGLADHKYIQVVYLHNN-NISAIGSNDFCPPGYNT  269 (305)
T ss_dssp             TTCCEEECCSS-CCCEECTTTGGGSTTCCEEECCSSC-CSSCC--TTTTTCSSCCEEECCSS-CCCCCCTTSSSCSSCCT
T ss_pred             ccccccccccc-cccccccccccccccceeeeccccc-ccccc--cccccccCCCEEECCCC-ccCccChhhccCcchhc
Confidence            34555555553 22333 3344555666666666553 56666  45566666666666663 56665532       22


Q ss_pred             CCCCcceeeccCCc
Q 045152          493 QITTLKELGMEGSP  506 (533)
Q Consensus       493 ~l~~L~~L~~~~c~  506 (533)
                      .+.+|+.|+++|+|
T Consensus       270 ~~~~L~~L~L~~N~  283 (305)
T d1xkua_         270 KKASYSGVSLFSNP  283 (305)
T ss_dssp             TSCCCSEEECCSSS
T ss_pred             ccCCCCEEECCCCc
Confidence            34556666666665

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.93  E-value=3e-06  Score=72.31  Aligned_cols=82  Identities=18%  Similarity=0.203  Sum_probs=61.5

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccC-CCCCCCcceEEeccCCCCCCCCc--CCCCCCC
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILED-HIFLPRLSSLRIEYCPKLKLLPD--SLLQITT  496 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~-~~~l~~L~~L~l~~C~~l~~lP~--~~~~l~~  496 (533)
                      ++.|+.|+++++ .+..++ .+..+++|++|+++++. +..+|  +. +..+++|+.|++++| +++.+|+  .+..+++
T Consensus        40 l~~L~~L~Ls~N-~i~~l~-~~~~l~~L~~L~ls~N~-i~~l~--~~~~~~l~~L~~L~L~~N-~i~~~~~l~~l~~l~~  113 (162)
T d1a9na_          40 LDQFDAIDFSDN-EIRKLD-GFPLLRRLKTLLVNNNR-ICRIG--EGLDQALPDLTELILTNN-SLVELGDLDPLASLKS  113 (162)
T ss_dssp             TTCCSEEECCSS-CCCEEC-CCCCCSSCCEEECCSSC-CCEEC--SCHHHHCTTCCEEECCSC-CCCCGGGGGGGGGCTT
T ss_pred             cccCCEEECCCC-CCCccC-CcccCcchhhhhccccc-ccCCC--ccccccccccccceeccc-cccccccccccccccc
Confidence            567888888874 566674 46778888888888776 77777  33 345888888888884 6777774  5677888


Q ss_pred             cceeeccCCch
Q 045152          497 LKELGMEGSPL  507 (533)
Q Consensus       497 L~~L~~~~c~~  507 (533)
                      |++|++++||.
T Consensus       114 L~~L~l~~N~i  124 (162)
T d1a9na_         114 LTYLCILRNPV  124 (162)
T ss_dssp             CCEEECCSSGG
T ss_pred             cchhhcCCCcc
Confidence            88888888875

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.89  E-value=5e-06  Score=70.86  Aligned_cols=80  Identities=15%  Similarity=0.166  Sum_probs=67.6

Q ss_pred             cccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCC-CCCCCcce
Q 045152          421 PCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSL-LQITTLKE  499 (533)
Q Consensus       421 p~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~-~~l~~L~~  499 (533)
                      ..++.|+++. ..+..+|.....+++|++|+++++. +..++   .+..+++|++|++++| ++..+|+++ ..+++|++
T Consensus        18 ~~lr~L~L~~-n~I~~i~~~~~~l~~L~~L~Ls~N~-i~~l~---~~~~l~~L~~L~ls~N-~i~~l~~~~~~~l~~L~~   91 (162)
T d1a9na_          18 VRDRELDLRG-YKIPVIENLGATLDQFDAIDFSDNE-IRKLD---GFPLLRRLKTLLVNNN-RICRIGEGLDQALPDLTE   91 (162)
T ss_dssp             TSCEEEECTT-SCCCSCCCGGGGTTCCSEEECCSSC-CCEEC---CCCCCSSCCEEECCSS-CCCEECSCHHHHCTTCCE
T ss_pred             CcCcEEECCC-CCCCccCccccccccCCEEECCCCC-CCccC---CcccCcchhhhhcccc-cccCCCcccccccccccc
Confidence            3678899887 5678888666778999999999865 88887   6788999999999996 699999775 56999999


Q ss_pred             eeccCCc
Q 045152          500 LGMEGSP  506 (533)
Q Consensus       500 L~~~~c~  506 (533)
                      |++++|.
T Consensus        92 L~L~~N~   98 (162)
T d1a9na_          92 LILTNNS   98 (162)
T ss_dssp             EECCSCC
T ss_pred             ceecccc
Confidence            9999986

>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=97.89  E-value=3e-05  Score=71.57  Aligned_cols=180  Identities=14%  Similarity=0.093  Sum_probs=96.2

Q ss_pred             ceeechhhHHHHHHHHhCC----C---ccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHH
Q 045152          183 EVCGRVEEKNELLSKLLCE----S---SEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIR  255 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~----~---~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~  255 (533)
                      +++|-++.+++|.+.+...    .   ..+-...+.|.++|++|.|||+||+.+.+.  ...+    + +.++    ...
T Consensus         8 di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~--~~~~----~-~~~~----~~~   76 (265)
T d1r7ra3           8 DIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANE--CQAN----F-ISIK----GPE   76 (265)
T ss_dssp             SCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHH--TTCE----E-EEEC----HHH
T ss_pred             HhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHH--hCCc----E-EEEE----HHH
Confidence            4778877766666654210    0   001234567889999999999999999873  2222    2 2222    111


Q ss_pred             HHHHHHHHhCCCCCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCc------cc--------cchhhhcccC--CCCCc
Q 045152          256 VAKAIIEGLGVSASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDY------KK--------WNPFFSCLKN--GHHES  319 (533)
Q Consensus       256 l~~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~------~~--------~~~l~~~l~~--~~~gs  319 (533)
                      +.        ... .......+...+...-...+.+|+|||++..-.      ..        ...+...+..  ...+-
T Consensus        77 l~--------~~~-~~~~~~~l~~~f~~A~~~~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v  147 (265)
T d1r7ra3          77 LL--------TMW-FGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNV  147 (265)
T ss_dssp             HH--------TSC-TTTHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC------CC
T ss_pred             hh--------hcc-ccchHHHHHHHHHHHHhcCCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcCCCCCE
Confidence            11        011 111222333333333446789999999964210      11        1122222321  22344


Q ss_pred             eEEEEecchHH-Hhhh----CCCCeeeCCCCChHhhHHHHHHhhccCCCccccccchHHHHHHHhHhCCCcch
Q 045152          320 KILITTRDRSV-ALQL----GSIDIIPVKELAEEECWSLLERLAFFRRSVDDHEKLEPIGRKIAHKCKGLPLA  387 (533)
Q Consensus       320 ~IiiTtR~~~v-~~~~----~~~~~~~l~~L~~~~~~~Lf~~~a~~~~~~~~~~~l~~~~~~I~~~c~GlPLa  387 (533)
                      -||.||..... ...+    .....++++..+.++-.++|+.... ........++    .++++++.|...+
T Consensus       148 ~vi~ttn~~~~ld~al~r~gRf~~~i~~~~p~~~~R~~il~~~l~-~~~~~~~~~l----~~la~~t~g~s~~  215 (265)
T d1r7ra3         148 FIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLR-KSPVAKDVDL----EFLAKMTNGFSGA  215 (265)
T ss_dssp             EEEECCBSCTTTSCGGGSSTTSEEEEECCCCCCHHHHHHHHHHTT-CC----CCCC----HHHHHHHCSSCCH
T ss_pred             EEEEeCCCchhCCHHHhCCCCccEEEEecchHHHHHHHHHHHHhc-cCCchhhhhH----HHHHhcCCCCCHH
Confidence            55667765432 2222    2256799999999999999987653 2111122233    6678888887755

>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=97.82  E-value=5e-05  Score=69.16  Aligned_cols=51  Identities=18%  Similarity=0.093  Sum_probs=34.9

Q ss_pred             CceeechhhHHHHHHHHhCC----CccCCCCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          182 GEVCGRVEEKNELLSKLLCE----SSEQQKGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       182 ~~~vGR~~e~~~l~~~L~~~----~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ..++|..+.++.+++.....    ........+.|.++|++|+|||++|+.+.+.
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            34788877776666544210    0001234677899999999999999999873

>d1p9ag_ c.10.2.7 (G:) von Willebrand factor binding domain of glycoprotein Ib alpha {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: von Willebrand factor binding domain of glycoprotein Ib alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.80  E-value=1.6e-05  Score=73.49  Aligned_cols=87  Identities=20%  Similarity=0.157  Sum_probs=68.6

Q ss_pred             cccccccccceEEEeecCCcccCCc-cccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCC
Q 045152          415 ENISIMPCLSVLRVYLCPKLKVLPD-YLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQ  493 (533)
Q Consensus       415 ~~~~ilp~L~~L~l~~c~~l~~lp~-~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~  493 (533)
                      ++.++-+.+++|++++ ..+..+|. .+..+++|++|+++++ .|..+|   .++.+++|++|+|+++ ++...|+.+.+
T Consensus        25 iP~~lp~~l~~L~Ls~-N~i~~l~~~~f~~l~~L~~L~L~~N-~l~~l~---~~~~l~~L~~L~Ls~N-~l~~~~~~~~~   98 (266)
T d1p9ag_          25 LPPDLPKDTTILHLSE-NLLYTFSLATLMPYTRLTQLNLDRA-ELTKLQ---VDGTLPVLGTLDLSHN-QLQSLPLLGQT   98 (266)
T ss_dssp             CCSCCCTTCCEEECTT-SCCSEEEGGGGTTCTTCCEEECTTS-CCCEEE---CCSCCTTCCEEECCSS-CCSSCCCCTTT
T ss_pred             eCcCcCcCCCEEECcC-CcCCCcCHHHhhccccccccccccc-cccccc---cccccccccccccccc-ccccccccccc
Confidence            3344445789999887 56677764 5778899999999976 478777   4567899999999985 78888888889


Q ss_pred             CCCcceeeccCCch
Q 045152          494 ITTLKELGMEGSPL  507 (533)
Q Consensus       494 l~~L~~L~~~~c~~  507 (533)
                      +++|++|+++++..
T Consensus        99 l~~L~~L~l~~~~~  112 (266)
T d1p9ag_          99 LPALTVLDVSFNRL  112 (266)
T ss_dssp             CTTCCEEECCSSCC
T ss_pred             cccccccccccccc
Confidence            99999999987763

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

Probab=97.78  E-value=1.1e-05  Score=72.74  Aligned_cols=77  Identities=14%  Similarity=0.183  Sum_probs=53.5

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcce
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKE  499 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~  499 (533)
                      ++.|+.|.+..|. +...+ .+..+++|+.|+++++ .+..+|   .++.+++|++|+|++| +|+.+|+ +.++++|++
T Consensus       150 ~~~L~~L~l~~n~-~~~~~-~l~~l~~L~~L~Ls~n-~l~~l~---~l~~l~~L~~L~Ls~N-~lt~i~~-l~~l~~L~~  221 (227)
T d1h6ua2         150 LTNLQYLSIGNAQ-VSDLT-PLANLSKLTTLKADDN-KISDIS---PLASLPNLIEVHLKNN-QISDVSP-LANTSNLFI  221 (227)
T ss_dssp             CTTCCEEECCSSC-CCCCG-GGTTCTTCCEEECCSS-CCCCCG---GGGGCTTCCEEECTTS-CCCBCGG-GTTCTTCCE
T ss_pred             ccccccccccccc-cccch-hhcccccceecccCCC-ccCCCh---hhcCCCCCCEEECcCC-cCCCCcc-cccCCCCCE
Confidence            4567777776643 23322 3566788888888876 466666   4667788888888886 6888874 777888888


Q ss_pred             eeccC
Q 045152          500 LGMEG  504 (533)
Q Consensus       500 L~~~~  504 (533)
                      |++++
T Consensus       222 L~lsn  226 (227)
T d1h6ua2         222 VTLTN  226 (227)
T ss_dssp             EEEEE
T ss_pred             EEeeC
Confidence            88764

>d1p9ag_ c.10.2.7 (G:) von Willebrand factor binding domain of glycoprotein Ib alpha {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: von Willebrand factor binding domain of glycoprotein Ib alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.77  E-value=2.6e-05  Score=72.10  Aligned_cols=83  Identities=27%  Similarity=0.281  Sum_probs=67.9

Q ss_pred             ccccceEEEeecCCcccCCcc-ccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDY-LLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLK  498 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~-l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~  498 (533)
                      ++.+..|.+.. ..+..+|.. +..+.+|+.|+++++ ++..+|. ..+..+++|++|+|++ .+|+++|+++..+++|+
T Consensus       123 l~~l~~L~l~~-n~l~~l~~~~~~~l~~l~~l~l~~N-~l~~~~~-~~~~~l~~L~~L~Ls~-N~L~~lp~~~~~~~~L~  198 (266)
T d1p9ag_         123 LGELQELYLKG-NELKTLPPGLLTPTPKLEKLSLANN-NLTELPA-GLLNGLENLDTLLLQE-NSLYTIPKGFFGSHLLP  198 (266)
T ss_dssp             CTTCCEEECTT-SCCCCCCTTTTTTCTTCCEEECTTS-CCSCCCT-TTTTTCTTCCEEECCS-SCCCCCCTTTTTTCCCS
T ss_pred             ccccccccccc-cccceeccccccccccchhcccccc-cccccCc-cccccccccceeeccc-CCCcccChhHCCCCCCC
Confidence            55677788776 355666655 456889999999975 4888884 4578899999999999 47999999999999999


Q ss_pred             eeeccCCc
Q 045152          499 ELGMEGSP  506 (533)
Q Consensus       499 ~L~~~~c~  506 (533)
                      +|+++|+|
T Consensus       199 ~L~L~~Np  206 (266)
T d1p9ag_         199 FAFLHGNP  206 (266)
T ss_dssp             EEECCSCC
T ss_pred             EEEecCCC
Confidence            99999877

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

Probab=97.76  E-value=1.2e-05  Score=78.27  Aligned_cols=78  Identities=18%  Similarity=0.278  Sum_probs=48.5

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcce
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKE  499 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~  499 (533)
                      ++.+..|.++++ .+..++ .+..+++|++|++++|. +..+|   .+..+++|++|++++| ++..+|+ +.++++|++
T Consensus       306 ~~~l~~L~ls~n-~l~~l~-~l~~l~~L~~L~L~~n~-l~~l~---~l~~l~~L~~L~l~~N-~l~~l~~-l~~l~~L~~  377 (384)
T d2omza2         306 LKNLTYLTLYFN-NISDIS-PVSSLTKLQRLFFANNK-VSDVS---SLANLTNINWLSAGHN-QISDLTP-LANLTRITQ  377 (384)
T ss_dssp             CTTCSEEECCSS-CCSCCG-GGGGCTTCCEEECCSSC-CCCCG---GGGGCTTCCEEECCSS-CCCBCGG-GTTCTTCSE
T ss_pred             hcccCeEECCCC-CCCCCc-ccccCCCCCEEECCCCC-CCCCh---hHcCCCCCCEEECCCC-cCCCChh-hccCCCCCE
Confidence            445666666653 445554 25566777777777663 55555   4556677777777664 5666664 666777777


Q ss_pred             eeccCC
Q 045152          500 LGMEGS  505 (533)
Q Consensus       500 L~~~~c  505 (533)
                      |+++++
T Consensus       378 L~L~~N  383 (384)
T d2omza2         378 LGLNDQ  383 (384)
T ss_dssp             EECCCE
T ss_pred             eeCCCC
Confidence            777653

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Polygalacturonase inhibiting protein PGIP
domain: Polygalacturonase inhibiting protein PGIP
species: Kidney bean (Phaseolus vulgaris) [TaxId: 3885]

Probab=97.73  E-value=9.9e-06  Score=76.88  Aligned_cols=85  Identities=20%  Similarity=0.236  Sum_probs=65.3

Q ss_pred             ccccceEEEeecCCcc-cCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcc
Q 045152          420 MPCLSVLRVYLCPKLK-VLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLK  498 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~-~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~  498 (533)
                      ++.|++|+++.|..+. .+|..+.++++|++|+++++. +..++. ..+..+++|++++++++.....+|+.+.++++|+
T Consensus        75 L~~L~~L~Ls~~N~l~g~iP~~i~~L~~L~~L~Ls~N~-l~~~~~-~~~~~~~~L~~l~l~~N~~~~~~p~~l~~l~~L~  152 (313)
T d1ogqa_          75 LPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTN-VSGAIP-DFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLV  152 (313)
T ss_dssp             CTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEEC-CEEECC-GGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCC
T ss_pred             Cccccccccccccccccccccccccccccchhhhcccc-cccccc-ccccchhhhcccccccccccccCchhhccCcccc
Confidence            6778888888776665 688888888888888888765 554442 4566778888888888777777888888888888


Q ss_pred             eeeccCCc
Q 045152          499 ELGMEGSP  506 (533)
Q Consensus       499 ~L~~~~c~  506 (533)
                      +++++++.
T Consensus       153 ~l~l~~n~  160 (313)
T d1ogqa_         153 GITFDGNR  160 (313)
T ss_dssp             EEECCSSC
T ss_pred             eeeccccc
Confidence            88887765

>d1w8aa_ c.10.2.7 (A:) Slit {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Slit
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=97.71  E-value=4e-05  Score=67.00  Aligned_cols=90  Identities=13%  Similarity=0.106  Sum_probs=70.3

Q ss_pred             cccccccccceEEEeecCCcccCC-ccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcC-CC
Q 045152          415 ENISIMPCLSVLRVYLCPKLKVLP-DYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDS-LL  492 (533)
Q Consensus       415 ~~~~ilp~L~~L~l~~c~~l~~lp-~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~-~~  492 (533)
                      ++.++.+.+++|.+++..--..++ ..+..+++|+.|++++.. +..++. ..+..+++|++|+|++ .+|+.+|++ +.
T Consensus        23 iP~~lp~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~-i~~~~~-~~~~~~~~L~~L~Ls~-N~l~~l~~~~F~   99 (192)
T d1w8aa_          23 IPRDIPLHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQ-LTGIEP-NAFEGASHIQELQLGE-NKIKEISNKMFL   99 (192)
T ss_dssp             CCSCCCTTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSC-CCCBCT-TTTTTCTTCCEEECCS-CCCCEECSSSST
T ss_pred             cCCCCCCCCCEEEeCCCCCcccccccccCCCceEeeeeccccc-cccccc-cccccccccceeeecc-ccccccCHHHHh
Confidence            344555689999999843323343 445789999999999766 666653 6788899999999999 699999864 78


Q ss_pred             CCCCcceeeccCCch
Q 045152          493 QITTLKELGMEGSPL  507 (533)
Q Consensus       493 ~l~~L~~L~~~~c~~  507 (533)
                      ++++|++|+++++..
T Consensus       100 ~l~~L~~L~L~~N~l  114 (192)
T d1w8aa_         100 GLHQLKTLNLYDNQI  114 (192)
T ss_dssp             TCTTCCEEECCSSCC
T ss_pred             CCCcccccccCCccc
Confidence            999999999999874

>d2ifga3 c.10.2.7 (A:36-191) High affinity nerve growth factor receptor, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: High affinity nerve growth factor receptor, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.69  E-value=2.7e-05  Score=65.67  Aligned_cols=80  Identities=20%  Similarity=0.138  Sum_probs=65.8

Q ss_pred             eEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCc-CCCCCCCcceeecc
Q 045152          425 VLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPD-SLLQITTLKELGME  503 (533)
Q Consensus       425 ~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~-~~~~l~~L~~L~~~  503 (533)
                      .+.... ..+...|..+..+++|+.|++.+.+.++.++. ..+..|++|+.|+|++ .+|+.+|+ .+..+++|++|+++
T Consensus        12 ~l~c~~-~~~~~~p~~l~~l~~l~~L~l~~n~~l~~i~~-~~f~~l~~L~~L~Ls~-N~l~~i~~~~f~~l~~L~~L~Ls   88 (156)
T d2ifga3          12 GLRCTR-DGALDSLHHLPGAENLTELYIENQQHLQHLEL-RDLRGLGELRNLTIVK-SGLRFVAPDAFHFTPRLSRLNLS   88 (156)
T ss_dssp             CEECCS-SCCCTTTTTSCSCSCCSEEECCSCSSCCEECG-GGSCSCCCCSEEECCS-SCCCEECTTGGGSCSCCCEEECC
T ss_pred             eEEecC-CCCccCcccccCccccCeeecCCCccccccCc-hhhccccccCcceeec-cccCCcccccccccccccceecc
Confidence            344443 45556788888899999999988888999985 4688899999999999 58999975 48899999999999


Q ss_pred             CCch
Q 045152          504 GSPL  507 (533)
Q Consensus       504 ~c~~  507 (533)
                      ++..
T Consensus        89 ~N~l   92 (156)
T d2ifga3          89 FNAL   92 (156)
T ss_dssp             SSCC
T ss_pred             CCCC
Confidence            8874

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Polygalacturonase inhibiting protein PGIP
domain: Polygalacturonase inhibiting protein PGIP
species: Kidney bean (Phaseolus vulgaris) [TaxId: 3885]

Probab=97.61  E-value=1.9e-05  Score=74.89  Aligned_cols=82  Identities=23%  Similarity=0.160  Sum_probs=68.2

Q ss_pred             ccceEEEeecCC--cccCCccccccCccceeecccCCCCC-CCCCccCCCCCCCcceEEeccCCCCCC-CCcCCCCCCCc
Q 045152          422 CLSVLRVYLCPK--LKVLPDYLLQTTTLQKLRILQCPSME-ELPILEDHIFLPRLSSLRIEYCPKLKL-LPDSLLQITTL  497 (533)
Q Consensus       422 ~L~~L~l~~c~~--l~~lp~~l~~l~~L~~L~l~~~~~l~-~lp~~~~~~~l~~L~~L~l~~C~~l~~-lP~~~~~l~~L  497 (533)
                      .+..|+++.+..  ...+|..+..+++|++|+|++|.++. .+|  ..++.|++|++|+|+++ ++.. .|..+.++.+|
T Consensus        51 ~v~~L~L~~~~l~g~~~lp~~l~~L~~L~~L~Ls~~N~l~g~iP--~~i~~L~~L~~L~Ls~N-~l~~~~~~~~~~~~~L  127 (313)
T d1ogqa_          51 RVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIP--PAIAKLTQLHYLYITHT-NVSGAIPDFLSQIKTL  127 (313)
T ss_dssp             CEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESCCC--GGGGGCTTCSEEEEEEE-CCEEECCGGGGGCTTC
T ss_pred             EEEEEECCCCCCCCCCCCChHHhcCccccccccccccccccccc--cccccccccchhhhccc-cccccccccccchhhh
Confidence            467788887532  23689999999999999999988887 799  78999999999999996 5554 55678889999


Q ss_pred             ceeeccCCc
Q 045152          498 KELGMEGSP  506 (533)
Q Consensus       498 ~~L~~~~c~  506 (533)
                      ++++++++.
T Consensus       128 ~~l~l~~N~  136 (313)
T d1ogqa_         128 VTLDFSYNA  136 (313)
T ss_dssp             CEEECCSSE
T ss_pred             ccccccccc
Confidence            999998875

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=97.55  E-value=5.8e-07  Score=79.71  Aligned_cols=84  Identities=24%  Similarity=0.259  Sum_probs=60.9

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCC--cCCCCCCCc
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLP--DSLLQITTL  497 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP--~~~~~l~~L  497 (533)
                      ++.|+.|++++| .+..+|.....+++|+.|+++++ .+..++   .+..+++|++|++++| ++..+|  +.+..+++|
T Consensus        69 l~~L~~L~Ls~N-~i~~i~~~~~~~~~L~~L~l~~N-~i~~l~---~~~~l~~L~~L~L~~N-~i~~~~~~~~l~~l~~L  142 (198)
T d1m9la_          69 MENLRILSLGRN-LIKKIENLDAVADTLEELWISYN-QIASLS---GIEKLVNLRVLYMSNN-KITNWGEIDKLAALDKL  142 (198)
T ss_dssp             HTTCCEEECCEE-EECSCSSHHHHHHHCCEEECSEE-ECCCHH---HHHHHHHSSEEEESEE-ECCCHHHHHHHTTTTTC
T ss_pred             CccccChhhccc-ccccccccccccccccccccccc-cccccc---cccccccccccccccc-hhccccccccccCCCcc
Confidence            456777777764 35666654444567777777765 366555   4667889999999884 777777  367889999


Q ss_pred             ceeeccCCchhH
Q 045152          498 KELGMEGSPLLE  509 (533)
Q Consensus       498 ~~L~~~~c~~l~  509 (533)
                      ++|++++||.-.
T Consensus       143 ~~L~L~~N~l~~  154 (198)
T d1m9la_         143 EDLLLAGNPLYN  154 (198)
T ss_dssp             SEEEECSSHHHH
T ss_pred             ceeecCCCcccc
Confidence            999999998644

>d1h6ta2 c.10.2.1 (A:31-240) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=97.55  E-value=4e-05  Score=68.05  Aligned_cols=79  Identities=20%  Similarity=0.204  Sum_probs=43.2

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcce
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKE  499 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~  499 (533)
                      ++.|+.|+++++ .+..++ .+..+++|++|+++++. +..+|   .++.+++|+.|++++|. +..+| .+.++++|+.
T Consensus        67 l~~L~~L~L~~n-~i~~l~-~~~~l~~L~~L~l~~n~-i~~l~---~l~~l~~L~~L~l~~~~-~~~~~-~l~~l~~l~~  138 (210)
T d1h6ta2          67 LPNVTKLFLNGN-KLTDIK-PLANLKNLGWLFLDENK-VKDLS---SLKDLKKLKSLSLEHNG-ISDIN-GLVHLPQLES  138 (210)
T ss_dssp             CTTCCEEECCSS-CCCCCG-GGTTCTTCCEEECCSSC-CCCGG---GGTTCTTCCEEECTTSC-CCCCG-GGGGCTTCCE
T ss_pred             CCCCCEEeCCCc-cccCcc-ccccCcccccccccccc-ccccc---ccccccccccccccccc-ccccc-cccccccccc
Confidence            556666666653 344444 24555666666666543 55554   34556666666666643 34444 3555666666


Q ss_pred             eeccCCc
Q 045152          500 LGMEGSP  506 (533)
Q Consensus       500 L~~~~c~  506 (533)
                      +++++|.
T Consensus       139 l~~~~n~  145 (210)
T d1h6ta2         139 LYLGNNK  145 (210)
T ss_dssp             EECCSSC
T ss_pred             ccccccc
Confidence            6665543

>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=97.53  E-value=0.00014  Score=63.64  Aligned_cols=131  Identities=12%  Similarity=0.041  Sum_probs=77.1

Q ss_pred             HHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhh--hccCCceEEEEeC-CchhHHHHHHHHHHHhCCC
Q 045152          191 KNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEV--KRNFEKVIWVCVS-DTFEEIRVAKAIIEGLGVS  267 (533)
Q Consensus       191 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~--~~~F~~~~wv~vs-~~~~~~~l~~~il~~l~~~  267 (533)
                      ++.+..++.      .+....+.++|++|+||||+|..+.+....  ..|.| ..++.-. ....++++ +++.+.+...
T Consensus         3 ~~~l~~~i~------~~~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D-~~~i~~~~~~I~Id~I-R~i~~~~~~~   74 (198)
T d2gnoa2           3 LETLKRIIE------KSEGISILINGEDLSYPREVSLELPEYVEKFPPKASD-VLEIDPEGENIGIDDI-RTIKDFLNYS   74 (198)
T ss_dssp             HHHHHHHHH------TCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTT-EEEECCSSSCBCHHHH-HHHHHHHTSC
T ss_pred             HHHHHHHHh------cCCCceEEEECCCCCCHHHHHHHHHHHHhccccCCCC-EEEEeCCcCCCCHHHH-HHHHHHHhhC
Confidence            445555553      245789999999999999999887763211  12222 3444321 11222222 2233333221


Q ss_pred             CCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCCCCCceEEEEecchH-HHhhh-CCCCeeeCCCC
Q 045152          268 ASGLSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNGHHESKILITTRDRS-VALQL-GSIDIIPVKEL  345 (533)
Q Consensus       268 ~~~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~~~gs~IiiTtR~~~-v~~~~-~~~~~~~l~~L  345 (533)
                      +                ..+++=++|+|+++..+...+..|+..+.....++.+|++|.+.. +.... .....+.+.+.
T Consensus        75 ~----------------~~~~~KviIId~ad~l~~~aqNaLLK~LEEPp~~t~fiLit~~~~~ll~TI~SRC~~i~~~~p  138 (198)
T d2gnoa2          75 P----------------ELYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSRVFRVVVNVP  138 (198)
T ss_dssp             C----------------SSSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCC
T ss_pred             c----------------ccCCCEEEEEeCccccchhhhhHHHHHHhCCCCCceeeeccCChhhCHHHHhcceEEEeCCCc
Confidence            1                124555899999998888888888888877667788777776643 32222 22455666644

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.51  E-value=0.0001  Score=69.20  Aligned_cols=88  Identities=18%  Similarity=0.147  Sum_probs=75.7

Q ss_pred             ccccccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCC
Q 045152          416 NISIMPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQIT  495 (533)
Q Consensus       416 ~~~ilp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~  495 (533)
                      +....+.++.|.++++......+..+..++.+++|+++++. +..++. ..+..+++|++|+|++| +|+++|+++.+++
T Consensus       166 ~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~l~~L~~s~n~-l~~~~~-~~~~~l~~L~~L~L~~N-~L~~lp~~l~~l~  242 (305)
T d1xkua_         166 PQGLPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNS-ISAVDN-GSLANTPHLRELHLNNN-KLVKVPGGLADHK  242 (305)
T ss_dssp             CSSCCTTCSEEECTTSCCCEECTGGGTTCTTCCEEECCSSC-CCEECT-TTGGGSTTCCEEECCSS-CCSSCCTTTTTCS
T ss_pred             CcccCCccCEEECCCCcCCCCChhHhhcccccccccccccc-cccccc-ccccccccceeeecccc-ccccccccccccc
Confidence            33457789999999877777778888889999999999874 777764 46778999999999997 8999999999999


Q ss_pred             CcceeeccCCc
Q 045152          496 TLKELGMEGSP  506 (533)
Q Consensus       496 ~L~~L~~~~c~  506 (533)
                      +|++|++++|.
T Consensus       243 ~L~~L~Ls~N~  253 (305)
T d1xkua_         243 YIQVVYLHNNN  253 (305)
T ss_dssp             SCCEEECCSSC
T ss_pred             CCCEEECCCCc
Confidence            99999999986

>d2omxa2 c.10.2.1 (A:37-235) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=97.49  E-value=9.3e-05  Score=64.92  Aligned_cols=79  Identities=20%  Similarity=0.267  Sum_probs=61.2

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcce
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKE  499 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~  499 (533)
                      ++.|+.|.+++|.... + +.+..+++|+.|+++++. +..+|   .+..+++|++|++.+| ++..+| .+.++++|++
T Consensus       105 l~~L~~L~l~~~~~~~-~-~~~~~l~~L~~L~l~~n~-l~~~~---~l~~~~~L~~L~l~~n-~l~~l~-~l~~l~~L~~  176 (199)
T d2omxa2         105 LTNLTGLTLFNNQITD-I-DPLKNLTNLNRLELSSNT-ISDIS---ALSGLTSLQQLNFSSN-QVTDLK-PLANLTTLER  176 (199)
T ss_dssp             CTTCSEEECCSSCCCC-C-GGGTTCTTCSEEECCSSC-CCCCG---GGTTCTTCSEEECCSS-CCCCCG-GGTTCTTCCE
T ss_pred             cccccccccccccccc-c-cccchhhhhHHhhhhhhh-hcccc---cccccccccccccccc-cccCCc-cccCCCCCCE
Confidence            6778888887755433 2 346778899999998765 56555   5777899999999885 788887 4888999999


Q ss_pred             eeccCCc
Q 045152          500 LGMEGSP  506 (533)
Q Consensus       500 L~~~~c~  506 (533)
                      |++++|+
T Consensus       177 L~ls~N~  183 (199)
T d2omxa2         177 LDISSNK  183 (199)
T ss_dssp             EECCSSC
T ss_pred             EECCCCC
Confidence            9999886

>d1h6ta2 c.10.2.1 (A:31-240) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=97.48  E-value=7.2e-05  Score=66.31  Aligned_cols=77  Identities=18%  Similarity=0.196  Sum_probs=51.6

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcce
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKE  499 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~  499 (533)
                      ++.++.+.++++. +... ..+..+++|++|+++++. +..++   .+..|++|+.|++++| +++.+| .+.++++|++
T Consensus       133 l~~l~~l~~~~n~-l~~~-~~~~~l~~L~~l~l~~n~-l~~i~---~l~~l~~L~~L~Ls~N-~i~~l~-~l~~l~~L~~  204 (210)
T d1h6ta2         133 LPQLESLYLGNNK-ITDI-TVLSRLTKLDTLSLEDNQ-ISDIV---PLAGLTKLQNLYLSKN-HISDLR-ALAGLKNLDV  204 (210)
T ss_dssp             CTTCCEEECCSSC-CCCC-GGGGGCTTCSEEECCSSC-CCCCG---GGTTCTTCCEEECCSS-CCCBCG-GGTTCTTCSE
T ss_pred             ccccccccccccc-cccc-cccccccccccccccccc-ccccc---cccCCCCCCEEECCCC-CCCCCh-hhcCCCCCCE
Confidence            4556666665532 3332 245567778888887664 56655   4667788888888875 677777 5777888888


Q ss_pred             eeccC
Q 045152          500 LGMEG  504 (533)
Q Consensus       500 L~~~~  504 (533)
                      |++++
T Consensus       205 L~Ls~  209 (210)
T d1h6ta2         205 LELFS  209 (210)
T ss_dssp             EEEEE
T ss_pred             EEccC
Confidence            88764

>d2omxa2 c.10.2.1 (A:37-235) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=97.42  E-value=0.00011  Score=64.36  Aligned_cols=78  Identities=15%  Similarity=0.173  Sum_probs=37.5

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcce
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKE  499 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~  499 (533)
                      ++.|++|++++| .+..++. +..+++|++|+++++. +..+|   .+..+++|+.|++++|.. ..++ .+.++++|+.
T Consensus        61 l~nL~~L~Ls~N-~l~~~~~-l~~l~~L~~L~l~~n~-~~~~~---~l~~l~~L~~L~l~~~~~-~~~~-~~~~l~~L~~  132 (199)
T d2omxa2          61 LNNLTQINFSNN-QLTDITP-LKNLTKLVDILMNNNQ-IADIT---PLANLTNLTGLTLFNNQI-TDID-PLKNLTNLNR  132 (199)
T ss_dssp             CTTCCEEECCSS-CCCCCGG-GTTCTTCCEEECCSSC-CCCCG---GGTTCTTCSEEECCSSCC-CCCG-GGTTCTTCSE
T ss_pred             CCCcCcCccccc-cccCccc-ccCCcccccccccccc-ccccc---cccccccccccccccccc-cccc-ccchhhhhHH
Confidence            556666666664 3444443 5556666666666543 34444   233444444444444322 2222 2344444444


Q ss_pred             eeccCC
Q 045152          500 LGMEGS  505 (533)
Q Consensus       500 L~~~~c  505 (533)
                      |++++|
T Consensus       133 L~l~~n  138 (199)
T d2omxa2         133 LELSSN  138 (199)
T ss_dssp             EECCSS
T ss_pred             hhhhhh
Confidence            444444

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

Probab=97.40  E-value=9.3e-05  Score=71.67  Aligned_cols=79  Identities=13%  Similarity=0.179  Sum_probs=66.6

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcce
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKE  499 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~  499 (533)
                      +..++.|.++.+ .++.+ +++..+++|++|+++++. ++.+|   .++.|++|++|++++| .+..+|+ +.++++|++
T Consensus        43 l~~l~~L~l~~~-~I~~l-~gl~~L~nL~~L~Ls~N~-l~~l~---~l~~L~~L~~L~L~~n-~i~~i~~-l~~l~~L~~  114 (384)
T d2omza2          43 LDQVTTLQADRL-GIKSI-DGVEYLNNLTQINFSNNQ-LTDIT---PLKNLTKLVDILMNNN-QIADITP-LANLTNLTG  114 (384)
T ss_dssp             HTTCCEEECCSS-CCCCC-TTGGGCTTCCEEECCSSC-CCCCG---GGTTCTTCCEEECCSS-CCCCCGG-GTTCTTCCE
T ss_pred             hCCCCEEECCCC-CCCCc-cccccCCCCCEEeCcCCc-CCCCc---cccCCccccccccccc-ccccccc-ccccccccc
Confidence            567899999874 56677 478889999999999875 88888   5888999999999996 6888884 889999999


Q ss_pred             eeccCCc
Q 045152          500 LGMEGSP  506 (533)
Q Consensus       500 L~~~~c~  506 (533)
                      |+++++.
T Consensus       115 L~~~~~~  121 (384)
T d2omza2         115 LTLFNNQ  121 (384)
T ss_dssp             EECCSSC
T ss_pred             ccccccc
Confidence            9998765

>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=97.31  E-value=0.00027  Score=66.59  Aligned_cols=134  Identities=19%  Similarity=0.282  Sum_probs=67.7

Q ss_pred             ceeechhhHHHHHHHHhCC---CccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHH
Q 045152          183 EVCGRVEEKNELLSKLLCE---SSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKA  259 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~---~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~  259 (533)
                      .++|-++-++.+...+...   -...+....++.++|+.|+|||.||+.+.+.  +-..-...+-++.+.-.+...+   
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            3577777777776655321   1112344568899999999999999888752  2111122223333322111100   


Q ss_pred             HHHHhCCCCCC---CccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhhcccCC-----------CCCceEEEEe
Q 045152          260 IIEGLGVSASG---LSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFSCLKNG-----------HHESKILITT  325 (533)
Q Consensus       260 il~~l~~~~~~---~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~-----------~~gs~IiiTt  325 (533)
                        ..+.+.+.+   ......+.+.++   +....+++||+++..+.+.++.+...+..+           ..++-+|+||
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              011111110   011112333333   245689999999877666666666554332           1245566677


Q ss_pred             c
Q 045152          326 R  326 (533)
Q Consensus       326 R  326 (533)
                      .
T Consensus       174 n  174 (315)
T d1qvra3         174 N  174 (315)
T ss_dssp             C
T ss_pred             c
Confidence            6

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.26  E-value=4.7e-05  Score=71.03  Aligned_cols=84  Identities=20%  Similarity=0.191  Sum_probs=53.0

Q ss_pred             cccceEEEeecCC-c--ccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCC-CCcCCCCCCC
Q 045152          421 PCLSVLRVYLCPK-L--KVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKL-LPDSLLQITT  496 (533)
Q Consensus       421 p~L~~L~l~~c~~-l--~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~-lP~~~~~l~~  496 (533)
                      +.|+.|.++.|.. +  ..++.-...+++|++|++++|+.+..-.. ..+..+++|++|+|++|..+.. -+..+.++++
T Consensus       148 ~~L~~L~l~~~~~~i~~~~l~~l~~~~~~L~~L~L~~~~~itd~~~-~~l~~~~~L~~L~L~~C~~i~~~~l~~L~~~~~  226 (284)
T d2astb2         148 ETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCF-QEFFQLNYLQHLSLSRCYDIIPETLLELGEIPT  226 (284)
T ss_dssp             TTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTCTTCCGGGG-GGGGGCTTCCEEECTTCTTCCGGGGGGGGGCTT
T ss_pred             cccchhhhcccccccccccccccccccccccccccccccCCCchhh-hhhcccCcCCEEECCCCCCCChHHHHHHhcCCC
Confidence            4577777765432 2  11222223467788888888877653211 4566778888888888877743 2234667788


Q ss_pred             cceeeccCC
Q 045152          497 LKELGMEGS  505 (533)
Q Consensus       497 L~~L~~~~c  505 (533)
                      |++|+++||
T Consensus       227 L~~L~l~~~  235 (284)
T d2astb2         227 LKTLQVFGI  235 (284)
T ss_dssp             CCEEECTTS
T ss_pred             CCEEeeeCC
Confidence            888888877

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

Probab=97.23  E-value=0.00021  Score=63.93  Aligned_cols=79  Identities=23%  Similarity=0.267  Sum_probs=60.3

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcce
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKE  499 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~  499 (533)
                      .+.+..+.++.|.. ... ..+....+|++|++.++. +..++   .++.+++|++|++++| +++.+|+ +.++++|++
T Consensus       128 ~~~~~~l~~~~~~~-~~~-~~~~~~~~L~~L~l~~n~-~~~~~---~l~~l~~L~~L~Ls~n-~l~~l~~-l~~l~~L~~  199 (227)
T d1h6ua2         128 LSNLQVLYLDLNQI-TNI-SPLAGLTNLQYLSIGNAQ-VSDLT---PLANLSKLTTLKADDN-KISDISP-LASLPNLIE  199 (227)
T ss_dssp             CTTCCEEECCSSCC-CCC-GGGGGCTTCCEEECCSSC-CCCCG---GGTTCTTCCEEECCSS-CCCCCGG-GGGCTTCCE
T ss_pred             ccchhhhhchhhhh-chh-hhhccccccccccccccc-cccch---hhcccccceecccCCC-ccCCChh-hcCCCCCCE
Confidence            44566666655433 222 235667899999999765 55555   5778999999999997 8999985 889999999


Q ss_pred             eeccCCc
Q 045152          500 LGMEGSP  506 (533)
Q Consensus       500 L~~~~c~  506 (533)
                      |++++|+
T Consensus       200 L~Ls~N~  206 (227)
T d1h6ua2         200 VHLKNNQ  206 (227)
T ss_dssp             EECTTSC
T ss_pred             EECcCCc
Confidence            9999996

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Follicle-stimulating hormone receptor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.21  E-value=0.00021  Score=64.50  Aligned_cols=88  Identities=23%  Similarity=0.271  Sum_probs=63.2

Q ss_pred             cccccccceEEEeecCCcccCCcc-ccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCc-CCCCC
Q 045152          417 ISIMPCLSVLRVYLCPKLKVLPDY-LLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPD-SLLQI  494 (533)
Q Consensus       417 ~~ilp~L~~L~l~~c~~l~~lp~~-l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~-~~~~l  494 (533)
                      ..+.+.+++|++++ ..+..+|.. +..+++|++|+++++.....+|. ..+..++++++|.+..|.++..+|+ .+.++
T Consensus        25 ~~l~~~l~~L~Ls~-n~i~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~-~~f~~l~~l~~l~~~~~n~l~~~~~~~~~~l  102 (242)
T d1xwdc1          25 SDLPRNAIELRFVL-TKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEA-DVFSNLPKLHEIRIEKANNLLYINPEAFQNL  102 (242)
T ss_dssp             SCSCSCCSEEEEES-CCCCEECTTTTTTCTTCCEEEEESCTTCCEECS-SSEESCTTCCEEEEECCTTCCEECTTSEECC
T ss_pred             CCCCCCCCEEECcC-CcCCccChhHhhccchhhhhhhccccccceeec-ccccccccccccccccccccccccccccccc
Confidence            34444788888887 467778764 56788888888887765454552 3456688888888888878877664 46778


Q ss_pred             CCcceeeccCCc
Q 045152          495 TTLKELGMEGSP  506 (533)
Q Consensus       495 ~~L~~L~~~~c~  506 (533)
                      ++|++|+++++.
T Consensus       103 ~~L~~l~l~~~~  114 (242)
T d1xwdc1         103 PNLQYLLISNTG  114 (242)
T ss_dssp             TTCCEEEEESCC
T ss_pred             ccccccccchhh
Confidence            888888887764

>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=97.10  E-value=0.00028  Score=66.49  Aligned_cols=133  Identities=17%  Similarity=0.243  Sum_probs=70.4

Q ss_pred             ceeechhhHHHHHHHHhC---CCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHH
Q 045152          183 EVCGRVEEKNELLSKLLC---ESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKA  259 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~---~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~  259 (533)
                      .++|-++-++.+...+..   .-...+....++.++|+.|+|||.||+.+..-  .   +...+-++++.-.+...    
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            467777777777665521   11112345668899999999999999998852  2   22333334332111000    


Q ss_pred             HHHHhCCCCCCCccHHHHHHHHHHH-hCCceEEEEEeCCCCCCccccchhhhcccCC-----------CCCceEEEEec
Q 045152          260 IIEGLGVSASGLSEFESLMKQIQEY-ITRKKFFLVLDDVWDGDYKKWNPFFSCLKNG-----------HHESKILITTR  326 (533)
Q Consensus       260 il~~l~~~~~~~~~~~~l~~~l~~~-l~~kr~LlVLDdv~~~~~~~~~~l~~~l~~~-----------~~gs~IiiTtR  326 (533)
                       ...+-+...+...... ...+... ......+++||+++..+.+.|..+...+..+           ...+-+|.||.
T Consensus        94 -~~~l~g~~~gy~g~~~-~~~l~~~~~~~~~~vvl~DeieKa~~~V~~~lLqild~G~ltd~~Gr~vdf~n~iiI~Tsn  170 (315)
T d1r6bx3          94 -VSRLIGAPPGYVGFDQ-GGLLTDAVIKHPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDNNGRKADFRNVVLVMTTN  170 (315)
T ss_dssp             -CSSSCCCCSCSHHHHH-TTHHHHHHHHCSSEEEEEETGGGSCHHHHHHHHHHHHHSEEEETTTEEEECTTEEEEEEEC
T ss_pred             -hhhhcccCCCcccccc-CChhhHHHHhCccchhhhcccccccchHhhhhHHhhccceecCCCCCccCccceEEEeccc
Confidence             0111111111111010 0112222 2355678999999887766677666655321           23455666765

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.07  E-value=3.4e-05  Score=72.01  Aligned_cols=88  Identities=16%  Similarity=0.164  Sum_probs=63.6

Q ss_pred             ccccceEEEeecCCccc--CCccccc-cCccceeecccCC-CCCC--CCCccCCCCCCCcceEEeccCCCCC-CCCcCCC
Q 045152          420 MPCLSVLRVYLCPKLKV--LPDYLLQ-TTTLQKLRILQCP-SMEE--LPILEDHIFLPRLSSLRIEYCPKLK-LLPDSLL  492 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~--lp~~l~~-l~~L~~L~l~~~~-~l~~--lp~~~~~~~l~~L~~L~l~~C~~l~-~lP~~~~  492 (533)
                      .|.|+.|.+++|..+..  ++..+.. .++|+.|++++|. ++..  ++  .-...+++|++|++++|+.+. ..+..+.
T Consensus       120 ~~~L~~L~ls~c~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~i~~~~l~--~l~~~~~~L~~L~L~~~~~itd~~~~~l~  197 (284)
T d2astb2         120 CSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLS--TLVRRCPNLVHLDLSDSVMLKNDCFQEFF  197 (284)
T ss_dssp             CTTCCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGGSCHHHHH--HHHHHCTTCSEEECTTCTTCCGGGGGGGG
T ss_pred             HHhccccccccccccccccchhhhcccccccchhhhccccccccccccc--ccccccccccccccccccCCCchhhhhhc
Confidence            57799999999887642  2222222 3689999999874 3332  22  122357899999999999997 3556788


Q ss_pred             CCCCcceeeccCCchhH
Q 045152          493 QITTLKELGMEGSPLLE  509 (533)
Q Consensus       493 ~l~~L~~L~~~~c~~l~  509 (533)
                      ++++|++|++++|+.+.
T Consensus       198 ~~~~L~~L~L~~C~~i~  214 (284)
T d2astb2         198 QLNYLQHLSLSRCYDII  214 (284)
T ss_dssp             GCTTCCEEECTTCTTCC
T ss_pred             ccCcCCEEECCCCCCCC
Confidence            99999999999997654

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

Probab=96.93  E-value=0.00049  Score=65.31  Aligned_cols=53  Identities=30%  Similarity=0.456  Sum_probs=28.9

Q ss_pred             cCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcceeeccCCc
Q 045152          444 TTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKELGMEGSP  506 (533)
Q Consensus       444 l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~L~~~~c~  506 (533)
                      +++|++|++++|. +..+|  ..   +++|++|+|++| +|+++|+.   +++|++|++++|+
T Consensus       283 ~~~L~~L~Ls~N~-l~~lp--~~---~~~L~~L~L~~N-~L~~l~~~---~~~L~~L~L~~N~  335 (353)
T d1jl5a_         283 PPSLEELNVSNNK-LIELP--AL---PPRLERLIASFN-HLAEVPEL---PQNLKQLHVEYNP  335 (353)
T ss_dssp             CTTCCEEECCSSC-CSCCC--CC---CTTCCEEECCSS-CCSCCCCC---CTTCCEEECCSSC
T ss_pred             CCCCCEEECCCCc-cCccc--cc---cCCCCEEECCCC-cCCccccc---cCCCCEEECcCCc
Confidence            3456666666553 55555  21   456666666553 46666642   3456666666655

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=96.76  E-value=2.8e-05  Score=68.47  Aligned_cols=80  Identities=15%  Similarity=0.201  Sum_probs=62.6

Q ss_pred             ccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcce
Q 045152          420 MPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLKE  499 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~~  499 (533)
                      +++|++|+++++ .+..++ .+..+++|++|+++++. +..+|  .....+++|+.|++++| ++..+| .+.++++|++
T Consensus        47 L~~L~~L~Ls~n-~I~~i~-~l~~l~~L~~L~Ls~N~-i~~i~--~~~~~~~~L~~L~l~~N-~i~~l~-~~~~l~~L~~  119 (198)
T d1m9la_          47 LKACKHLALSTN-NIEKIS-SLSGMENLRILSLGRNL-IKKIE--NLDAVADTLEELWISYN-QIASLS-GIEKLVNLRV  119 (198)
T ss_dssp             TTTCCEEECSEE-EESCCC-CHHHHTTCCEEECCEEE-ECSCS--SHHHHHHHCCEEECSEE-ECCCHH-HHHHHHHSSE
T ss_pred             ccccceeECccc-CCCCcc-cccCCccccChhhcccc-ccccc--ccccccccccccccccc-cccccc-cccccccccc
Confidence            668889998874 567775 57888999999998765 77777  33344678999999885 788876 4778899999


Q ss_pred             eeccCCc
Q 045152          500 LGMEGSP  506 (533)
Q Consensus       500 L~~~~c~  506 (533)
                      |++++|.
T Consensus       120 L~L~~N~  126 (198)
T d1m9la_         120 LYMSNNK  126 (198)
T ss_dssp             EEESEEE
T ss_pred             cccccch
Confidence            9998875

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

Probab=96.72  E-value=0.0015  Score=61.69  Aligned_cols=77  Identities=25%  Similarity=0.341  Sum_probs=58.8

Q ss_pred             cccccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcc
Q 045152          419 IMPCLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLK  498 (533)
Q Consensus       419 ilp~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~  498 (533)
                      .+|+|++|.+++ ..+..+|+.   +.+|+.|+++++. +..++.   +  .++|++|+++++ .+..+|. +.++++|+
T Consensus        56 ~~~~L~~L~Ls~-N~l~~lp~~---~~~L~~L~l~~n~-l~~l~~---l--p~~L~~L~L~~n-~l~~lp~-~~~l~~L~  123 (353)
T d1jl5a_          56 LPPHLESLVASC-NSLTELPEL---PQSLKSLLVDNNN-LKALSD---L--PPLLEYLGVSNN-QLEKLPE-LQNSSFLK  123 (353)
T ss_dssp             CCTTCSEEECCS-SCCSSCCCC---CTTCCEEECCSSC-CSCCCS---C--CTTCCEEECCSS-CCSSCCC-CTTCTTCC
T ss_pred             CCCCCCEEECCC-CCCcccccc---hhhhhhhhhhhcc-cchhhh---h--cccccccccccc-ccccccc-hhhhccce
Confidence            467899998875 688888865   4578888888643 666662   2  257999999985 7999995 67899999


Q ss_pred             eeeccCCch
Q 045152          499 ELGMEGSPL  507 (533)
Q Consensus       499 ~L~~~~c~~  507 (533)
                      +|++++|..
T Consensus       124 ~L~l~~~~~  132 (353)
T d1jl5a_         124 IIDVDNNSL  132 (353)
T ss_dssp             EEECCSSCC
T ss_pred             eeccccccc
Confidence            999988753

>d1ozna_ c.10.2.7 (A:) Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Reticulon 4 receptor (Nogo-66 receptor, Ngr)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.71  E-value=0.00092  Score=61.74  Aligned_cols=83  Identities=20%  Similarity=0.255  Sum_probs=65.2

Q ss_pred             ccccceEEEeecCCcccCC-ccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCC-cCCCCCCCc
Q 045152          420 MPCLSVLRVYLCPKLKVLP-DYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLP-DSLLQITTL  497 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp-~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP-~~~~~l~~L  497 (533)
                      ++.|+.|.++++ .+..+| ..+..+++|++|++.++. +..++. ..+..+++|++|++++ .++..+| +.+.++++|
T Consensus       152 ~~~L~~L~l~~N-~l~~l~~~~f~~l~~L~~l~l~~N~-l~~i~~-~~f~~l~~L~~L~l~~-N~i~~~~~~~~~~~~~L  227 (284)
T d1ozna_         152 LGNLTHLFLHGN-RISSVPERAFRGLHSLDRLLLHQNR-VAHVHP-HAFRDLGRLMTLYLFA-NNLSALPTEALAPLRAL  227 (284)
T ss_dssp             CTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSSC-CCEECT-TTTTTCTTCCEEECCS-SCCSCCCHHHHTTCTTC
T ss_pred             ccchhhcccccC-cccccchhhhccccccchhhhhhcc-ccccCh-hHhhhhhhcccccccc-ccccccccccccccccc
Confidence            457888998885 567765 445678999999999776 555532 6788999999999999 5677777 467889999


Q ss_pred             ceeeccCCc
Q 045152          498 KELGMEGSP  506 (533)
Q Consensus       498 ~~L~~~~c~  506 (533)
                      ++|+++++|
T Consensus       228 ~~L~l~~N~  236 (284)
T d1ozna_         228 QYLRLNDNP  236 (284)
T ss_dssp             CEEECCSSC
T ss_pred             CEEEecCCC
Confidence            999998754

>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=96.71  E-value=0.00067  Score=57.65  Aligned_cols=38  Identities=18%  Similarity=0.123  Sum_probs=28.3

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhh-ccCCceEEEE
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVK-RNFEKVIWVC  246 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~-~~F~~~~wv~  246 (533)
                      .+..+|.|+|++|+||||+|+.+...  .. .+++...++.
T Consensus         4 ~~g~~I~l~G~~GsGKTTia~~La~~--L~~~~~~~~~~~~   42 (183)
T d1m8pa3           4 TQGFTIFLTGYMNSGKDAIARALQVT--LNQQGGRSVSLLL   42 (183)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHHH--HHHHCSSCEEEEE
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH--HhhcCCCchhhhh
Confidence            45689999999999999999999863  32 2445555543

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=96.71  E-value=0.0054  Score=55.13  Aligned_cols=45  Identities=24%  Similarity=0.280  Sum_probs=35.3

Q ss_pred             ceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          183 EVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +|||....++++.+.+.....    .-..|.|.|..|+|||++|+.++.
T Consensus         1 ~~v~~S~~~~~~~~~~~~~a~----~~~pvlI~Ge~GtGK~~~A~~ih~   45 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIKKISC----AECPVLITGESGVGKEVVARLIHK   45 (247)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTT----CCSCEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEecCHHHHHHHHHHHHHhC----CCCCEEEECCCCcCHHHHHHHHHH
Confidence            478888888888888755431    233578999999999999999975

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Follicle-stimulating hormone receptor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.67  E-value=0.00097  Score=59.85  Aligned_cols=81  Identities=17%  Similarity=0.192  Sum_probs=59.1

Q ss_pred             ccceEEEeecCCcccCCccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCc-CCCCCCCccee
Q 045152          422 CLSVLRVYLCPKLKVLPDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPD-SLLQITTLKEL  500 (533)
Q Consensus       422 ~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~-~~~~l~~L~~L  500 (533)
                      .+..|.+.. ..+..++.......+++.+...++..++++|. ..+..+++|++|+|++ .+++.+|. .+.++++|++|
T Consensus       154 ~l~~L~l~~-n~l~~i~~~~~~~~~l~~~~~l~~n~l~~l~~-~~f~~l~~L~~L~Ls~-N~l~~l~~~~~~~l~~L~~l  230 (242)
T d1xwdc1         154 ESVILWLNK-NGIQEIHNCAFNGTQLDELNLSDNNNLEELPN-DVFHGASGPVILDISR-TRIHSLPSYGLENLKKLRAR  230 (242)
T ss_dssp             SCEEEECCS-SCCCEECTTTTTTCCEEEEECTTCTTCCCCCT-TTTTTSCCCSEEECTT-SCCCCCCSSSCTTCCEEESS
T ss_pred             cceeeeccc-ccccccccccccchhhhccccccccccccccH-HHhcCCCCCCEEECCC-CcCCccCHHHHcCCcccccC
Confidence            345555543 56677777777777777777767778999984 3467899999999998 46999986 46777777777


Q ss_pred             eccCC
Q 045152          501 GMEGS  505 (533)
Q Consensus       501 ~~~~c  505 (533)
                      ++.+.
T Consensus       231 ~~~~l  235 (242)
T d1xwdc1         231 STYNL  235 (242)
T ss_dssp             SEESS
T ss_pred             cCCCC
Confidence            76543

>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=96.66  E-value=0.0004  Score=59.43  Aligned_cols=24  Identities=17%  Similarity=0.187  Sum_probs=21.8

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      -.+.|+|.|++|+||||||+.+.+
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            367899999999999999999876

>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=96.61  E-value=0.0043  Score=54.01  Aligned_cols=89  Identities=20%  Similarity=0.218  Sum_probs=50.6

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhH--HHHHHHHHHHhCCCC---CCCccHHHHHHHH
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEE--IRVAKAIIEGLGVSA---SGLSEFESLMKQI  281 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~--~~l~~~il~~l~~~~---~~~~~~~~l~~~l  281 (533)
                      ..+.||.++|+.|+||||.+-++...  .+ .....+.+-..+.+..  .+-++...+.++.+-   ....+........
T Consensus         7 ~~p~vi~lvGptGvGKTTTiAKLA~~--~~-~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~d~~~~l~~~   83 (211)
T d2qy9a2           7 KAPFVILMVGVNGVGKTTTIGKLARQ--FE-QQGKSVMLAAGDTFRAAAVEQLQVWGQRNNIPVIAQHTGADSASVIFDA   83 (211)
T ss_dssp             CTTEEEEEECCTTSCHHHHHHHHHHH--HH-TTTCCEEEECCCTTCHHHHHHHHHHHHHTTCCEECCSTTCCHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH--HH-HCCCcEEEEecccccccchhhhhhhhhhcCCcccccccCCCHHHHHHHH
Confidence            45789999999999999988666643  32 2233455544555544  455666667776542   2223333333332


Q ss_pred             HHHhC-CceEEEEEeCCC
Q 045152          282 QEYIT-RKKFFLVLDDVW  298 (533)
Q Consensus       282 ~~~l~-~kr~LlVLDdv~  298 (533)
                      .+..+ ...=++++|=.-
T Consensus        84 ~~~a~~~~~d~ilIDTaG  101 (211)
T d2qy9a2          84 IQAAKARNIDVLIADTAG  101 (211)
T ss_dssp             HHHHHHTTCSEEEECCCC
T ss_pred             HHHHHHcCCCEEEeccCC
Confidence            22222 223467777664

>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=96.53  E-value=0.00038  Score=58.19  Aligned_cols=22  Identities=36%  Similarity=0.424  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +.|.|+|++|+||||+|+.+.+
T Consensus         3 k~I~l~G~~GsGKSTvak~La~   24 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQ   24 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            3688889999999999999986

>d1ozna_ c.10.2.7 (A:) Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Reticulon 4 receptor (Nogo-66 receptor, Ngr)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.52  E-value=0.0024  Score=58.84  Aligned_cols=85  Identities=19%  Similarity=0.196  Sum_probs=65.7

Q ss_pred             ccccceEEEeecCCcccCCc-cccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcCCCCCCCcc
Q 045152          420 MPCLSVLRVYLCPKLKVLPD-YLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDSLLQITTLK  498 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~lp~-~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~~~~l~~L~  498 (533)
                      .+.|+.+.+.. ..+..+|+ .+..+++|+.|+++++. +..+|. ..+..+++|++|++.++.-..-.|..+.++++|+
T Consensus       128 ~~~L~~l~l~~-N~l~~i~~~~f~~~~~L~~L~l~~N~-l~~l~~-~~f~~l~~L~~l~l~~N~l~~i~~~~f~~l~~L~  204 (284)
T d1ozna_         128 LAALQYLYLQD-NALQALPDDTFRDLGNLTHLFLHGNR-ISSVPE-RAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLM  204 (284)
T ss_dssp             CTTCCEEECCS-SCCCCCCTTTTTTCTTCCEEECCSSC-CCEECT-TTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCC
T ss_pred             hcccchhhhcc-ccccccChhHhccccchhhcccccCc-ccccch-hhhccccccchhhhhhccccccChhHhhhhhhcc
Confidence            45677788776 56677764 45678899999999774 888874 4567899999999998644444578899999999


Q ss_pred             eeeccCCch
Q 045152          499 ELGMEGSPL  507 (533)
Q Consensus       499 ~L~~~~c~~  507 (533)
                      +|+++++..
T Consensus       205 ~L~l~~N~i  213 (284)
T d1ozna_         205 TLYLFANNL  213 (284)
T ss_dssp             EEECCSSCC
T ss_pred             ccccccccc
Confidence            999988763

>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=96.52  E-value=0.0012  Score=60.36  Aligned_cols=42  Identities=24%  Similarity=0.307  Sum_probs=30.0

Q ss_pred             hhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          189 EEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       189 ~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +...+.++.+..... ....++.|.++|++|+||||||+.+.+
T Consensus        13 ~~~~~~~~~~~~~~~-~~~~P~~ilL~GpPGtGKT~la~~la~   54 (273)
T d1gvnb_          13 NRLNDNLEELIQGKK-AVESPTAFLLGGQPGSGKTSLRSAIFE   54 (273)
T ss_dssp             HHHHHHHHHHHTTCC-CCSSCEEEEEECCTTSCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccc-CCCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            334444455544432 345677899999999999999999987

>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=0.00051  Score=57.89  Aligned_cols=23  Identities=26%  Similarity=0.434  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ++|++|+|..|+|||||++++.+
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~   24 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIP   24 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHH
Confidence            36899999999999999999986

>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=96.50  E-value=0.00066  Score=56.11  Aligned_cols=22  Identities=32%  Similarity=0.404  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .+|.|.|++|+||||||+.+..
T Consensus         3 klIii~G~pGsGKTTla~~L~~   24 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIA   24 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4788999999999999998764

>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=96.49  E-value=0.0019  Score=55.64  Aligned_cols=26  Identities=38%  Similarity=0.452  Sum_probs=23.0

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ...-+|+|.|.+|+||||||+.+.+.
T Consensus        20 ~~~~iIgI~G~~GSGKSTla~~L~~~   45 (198)
T d1rz3a_          20 AGRLVLGIDGLSRSGKTTLANQLSQT   45 (198)
T ss_dssp             SSSEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            46779999999999999999999763

>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=96.43  E-value=0.00072  Score=57.00  Aligned_cols=22  Identities=23%  Similarity=0.392  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ++|.|.|++|+||||+|+.+..
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            5799999999999999998875

>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=96.38  E-value=0.00076  Score=57.03  Aligned_cols=25  Identities=28%  Similarity=0.323  Sum_probs=21.7

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +..-.|.|.|++|+||||+|+.+.+
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            4556788999999999999999976

>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=96.36  E-value=0.00086  Score=57.13  Aligned_cols=23  Identities=39%  Similarity=0.459  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      +.|.|+|++|+|||||++.+...
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            46899999999999999999864

>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=96.34  E-value=0.00091  Score=57.95  Aligned_cols=25  Identities=24%  Similarity=0.214  Sum_probs=22.7

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..+.+|.|+|++|+||||+|+.+.+
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            4678999999999999999999986

>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=96.32  E-value=0.0062  Score=55.21  Aligned_cols=85  Identities=21%  Similarity=0.164  Sum_probs=59.2

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCC-----CCccHHHHHHHH
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSAS-----GLSEFESLMKQI  281 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~-----~~~~~~~l~~~l  281 (533)
                      +..+++-|.|++|+||||||..++..  .+..-..++||.....++.+.     +++++....     .....++..+.+
T Consensus        58 ~~g~i~e~~G~~~~GKT~l~l~~~~~--~q~~g~~~vyIDtE~~~~~e~-----a~~~GvD~d~il~~~~~~~E~~~~~~  130 (269)
T d1mo6a1          58 PRGRVIEIYGPESSGKTTVALHAVAN--AQAAGGVAAFIDAEHALDPDY-----AKKLGVDTDSLLVSQPDTGEQALEIA  130 (269)
T ss_dssp             CSSSEEEEECSSSSSHHHHHHHHHHH--HHHTTCEEEEEESSCCCCHHH-----HHHHTCCGGGCEEECCSSHHHHHHHH
T ss_pred             ccceeEEEecCCCcHHHHHHHHHHHH--HhcCCCEEEEEECCccCCHHH-----HHHhCCCHHHeEEecCCCHHHHHHHH
Confidence            56789999999999999999777754  333345689999888887653     455555422     123456666655


Q ss_pred             HHHhC-CceEEEEEeCCC
Q 045152          282 QEYIT-RKKFFLVLDDVW  298 (533)
Q Consensus       282 ~~~l~-~kr~LlVLDdv~  298 (533)
                      ....+ ++.-|+|+|.+-
T Consensus       131 ~~l~~~~~~~liIiDSi~  148 (269)
T d1mo6a1         131 DMLIRSGALDIVVIDSVA  148 (269)
T ss_dssp             HHHHHTTCEEEEEEECST
T ss_pred             HHHHhcCCCCEEEEeccc
Confidence            55554 457799999983

>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=96.30  E-value=0.0009  Score=57.75  Aligned_cols=24  Identities=33%  Similarity=0.368  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+|.++|++|+||||+|+.+..
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            467889999999999999999976

>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=96.27  E-value=0.00083  Score=56.64  Aligned_cols=21  Identities=43%  Similarity=0.518  Sum_probs=19.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045152          211 VISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .|.|.|++|+||||+|+.+.+
T Consensus         6 ~I~i~G~pGsGKTTia~~La~   26 (173)
T d1rkba_           6 NILLTGTPGVGKTTLGKELAS   26 (173)
T ss_dssp             CEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            477999999999999999975

>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=96.19  E-value=0.0014  Score=55.24  Aligned_cols=25  Identities=28%  Similarity=0.508  Sum_probs=22.7

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+++.|.|++|+||||+|+.+..
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            5678999999999999999999876

>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=96.17  E-value=0.0013  Score=56.94  Aligned_cols=25  Identities=28%  Similarity=0.320  Sum_probs=23.0

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +..++|.|.|++|+||||+|+.+.+
T Consensus         6 ~~~~iI~i~GppGSGKsT~a~~La~   30 (196)
T d1ukza_           6 DQVSVIFVLGGPGAGKGTQCEKLVK   30 (196)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            5688999999999999999999976

>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=96.14  E-value=0.014  Score=50.75  Aligned_cols=90  Identities=20%  Similarity=0.178  Sum_probs=51.6

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCC-chhHHHHHHHHHHHhCCCC---CCCccHHHHHHHHH
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD-TFEEIRVAKAIIEGLGVSA---SGLSEFESLMKQIQ  282 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~l~~~il~~l~~~~---~~~~~~~~l~~~l~  282 (533)
                      ..+.||.++|+.|+||||.+.++...  ...+-..+..|++.. .....+-++...+.++.+.   ....+.........
T Consensus         9 ~~p~vi~lvGptGvGKTTTiAKLAa~--~~~~~~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~~~~~~~~d~~~~~~~~~   86 (213)
T d1vmaa2           9 EPPFVIMVVGVNGTGKTTSCGKLAKM--FVDEGKSVVLAAADTFRAAAIEQLKIWGERVGATVISHSEGADPAAVAFDAV   86 (213)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHH--HHHTTCCEEEEEECTTCHHHHHHHHHHHHHHTCEEECCSTTCCHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH--HHHCCCceEEEeecccccchhHHHHHHhhhcCccccccCCCCcHHHHHHHHH
Confidence            56789999999999999987666653  222334566776543 3445556666677776532   22233333322222


Q ss_pred             -HHhCCceEEEEEeCCC
Q 045152          283 -EYITRKKFFLVLDDVW  298 (533)
Q Consensus       283 -~~l~~kr~LlVLDdv~  298 (533)
                       ....+..=++++|=.-
T Consensus        87 ~~~~~~~~d~ilIDTaG  103 (213)
T d1vmaa2          87 AHALARNKDVVIIDTAG  103 (213)
T ss_dssp             HHHHHTTCSEEEEEECC
T ss_pred             HHHHHcCCCEEEEeccc
Confidence             1122233367788664

>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=96.07  E-value=0.016  Score=51.00  Aligned_cols=57  Identities=18%  Similarity=0.186  Sum_probs=34.1

Q ss_pred             HHHHHHHHHhCCceEEEEEeCCCCC-CccccchhhhcccC--CCCCceEEEEecchHHHh
Q 045152          276 SLMKQIQEYITRKKFFLVLDDVWDG-DYKKWNPFFSCLKN--GHHESKILITTRDRSVAL  332 (533)
Q Consensus       276 ~l~~~l~~~l~~kr~LlVLDdv~~~-~~~~~~~l~~~l~~--~~~gs~IiiTtR~~~v~~  332 (533)
                      ...-.+...|..++-+|++|.--.. +...-..+...+..  ...|..||++|.+.+++.
T Consensus       151 kQRvaIAraL~~~P~lLllDEPTs~LD~~~~~~i~~~l~~l~~~~g~tii~vTHd~~~a~  210 (230)
T d1l2ta_         151 QQRVAIARALANNPPIILADQPTGALDSKTGEKIMQLLKKLNEEDGKTVVVVTHDINVAR  210 (230)
T ss_dssp             HHHHHHHHHHTTCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHTTCCEEEEECSCHHHHT
T ss_pred             HHHHHHHhhhhcCCCEEEecCCccccCHHHHHHHHHHHHHHHHhhCCEEEEECCCHHHHH
Confidence            3344566667778889999987332 11122223333332  234777999999888875

>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=96.06  E-value=0.0016  Score=55.01  Aligned_cols=24  Identities=38%  Similarity=0.529  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..++|.|.|++|+||||+|+.+.+
T Consensus         3 ~g~iI~l~G~~GsGKSTia~~La~   26 (176)
T d1zp6a1           3 GGNILLLSGHPGSGKSTIAEALAN   26 (176)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999998875

>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=96.05  E-value=0.0014  Score=57.23  Aligned_cols=24  Identities=29%  Similarity=0.349  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      +.+|.++|.+|+||||+|+++.+.
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

>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=96.03  E-value=0.0086  Score=54.27  Aligned_cols=85  Identities=16%  Similarity=0.185  Sum_probs=60.0

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCC-----CCccHHHHHHHH
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSAS-----GLSEFESLMKQI  281 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~-----~~~~~~~l~~~l  281 (533)
                      +..+++-|.|++|.||||||..+.....  ..=..++|++....++..     +++.++....     ...+.++..+.+
T Consensus        55 p~g~itei~G~~~sGKT~l~l~~~~~aq--k~g~~v~yiDtE~~~~~~-----~a~~~Gvd~d~i~~~~~~~~E~~~~~~  127 (268)
T d1xp8a1          55 PRGRITEIYGPESGGKTTLALAIVAQAQ--KAGGTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIM  127 (268)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHHH--HTTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             cCceEEEEecCCccchHHHHHHHHHHHH--hCCCEEEEEECCccCCHH-----HHHHhCCCchhEEEEcCCCHHHHHHHH
Confidence            4567999999999999999987776432  222468999988888874     5667766532     223456666666


Q ss_pred             HHHhCC-ceEEEEEeCCC
Q 045152          282 QEYITR-KKFFLVLDDVW  298 (533)
Q Consensus       282 ~~~l~~-kr~LlVLDdv~  298 (533)
                      ....+. +.-|+|+|-+-
T Consensus       128 ~~l~~~~~~~liIiDSi~  145 (268)
T d1xp8a1         128 ELLVRSGAIDVVVVDSVA  145 (268)
T ss_dssp             HHHHTTTCCSEEEEECTT
T ss_pred             HHHHhcCCCcEEEEeccc
Confidence            666654 46699999983

>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=96.01  E-value=0.015  Score=50.55  Aligned_cols=90  Identities=22%  Similarity=0.245  Sum_probs=45.0

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCC-chhHHHHHHHHHHHhCCCCC---CCccHHHHH-HHH
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD-TFEEIRVAKAIIEGLGVSAS---GLSEFESLM-KQI  281 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~l~~~il~~l~~~~~---~~~~~~~l~-~~l  281 (533)
                      ..+.||.++|+.|+||||.+-++..... ... ..+..|++.. .....+-++...+.++.+-.   ...+..... +.+
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKLA~~~~-~~g-~kV~lit~Dt~R~ga~eQL~~~a~~l~v~~~~~~~~~~~~~~~~~a~   87 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKLAYFYK-KKG-FKVGLVGADVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIAKRGV   87 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHHHHHHH-HTT-CCEEEEECCCSSHHHHHHHHHHHHHHTCCEECCTTCCCHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH-HCC-CceEEEEeeccccchhHHHHHhccccCcceeecccchhhhHHHHHHH
Confidence            5689999999999999988766654322 222 3466666542 23344555556666665421   222222222 222


Q ss_pred             HHHhCCceEEEEEeCCC
Q 045152          282 QEYITRKKFFLVLDDVW  298 (533)
Q Consensus       282 ~~~l~~kr~LlVLDdv~  298 (533)
                      ........=++++|=.-
T Consensus        88 ~~~~~~~~d~IlIDTaG  104 (211)
T d1j8yf2          88 EKFLSEKMEIIIVDTAG  104 (211)
T ss_dssp             HHHHHTTCSEEEEECCC
T ss_pred             HHhhccCCceEEEecCC
Confidence            22223334467777654

>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=96.01  E-value=0.0017  Score=55.11  Aligned_cols=25  Identities=32%  Similarity=0.405  Sum_probs=22.3

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +.+.+|.++|++|+||||+|+.+..
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            4678999999999999999998865

>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=95.99  E-value=0.0066  Score=54.96  Aligned_cols=84  Identities=18%  Similarity=0.196  Sum_probs=56.0

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCCCCC-----CCccHHHHHHHH
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSAS-----GLSEFESLMKQI  281 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~-----~~~~~~~l~~~l  281 (533)
                      +.-+++-|+|++|+||||||.++....  ...=..++|++....++..     .++.++....     .....++..+.+
T Consensus        52 ~~g~itei~G~~gsGKTtl~l~~~~~~--q~~g~~~vyidtE~~~~~~-----~a~~~Gvd~d~v~~~~~~~~E~~~~~i  124 (263)
T d1u94a1          52 PMGRIVEIYGPESSGKTTLTLQVIAAA--QREGKTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDTGEQALEIC  124 (263)
T ss_dssp             ETTSEEEEECSTTSSHHHHHHHHHHHH--HHTTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             cCceEEEEecCCCcHHHHHHHHHHHHH--HcCCCEEEEEccccccCHH-----HHHHhCCCHHHEEEecCCCHHHHHHHH
Confidence            345799999999999999998887643  3334568999988887764     3556665422     123345555555


Q ss_pred             HHHhC-CceEEEEEeCC
Q 045152          282 QEYIT-RKKFFLVLDDV  297 (533)
Q Consensus       282 ~~~l~-~kr~LlVLDdv  297 (533)
                      ....+ ++.-|+|+|-+
T Consensus       125 ~~l~~~~~~~liViDSi  141 (263)
T d1u94a1         125 DALARSGAVDVIVVDSV  141 (263)
T ss_dssp             HHHHHHTCCSEEEEECG
T ss_pred             HHHHhcCCCCEEEEECc
Confidence            55443 33458889988

>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=95.96  E-value=0.0014  Score=55.88  Aligned_cols=22  Identities=41%  Similarity=0.700  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ++|+|.|++|+||||+++.+.+
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            5899999999999999999976

>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=95.95  E-value=0.0015  Score=54.89  Aligned_cols=20  Identities=40%  Similarity=0.554  Sum_probs=17.5

Q ss_pred             EEEEcCCCChHHHHHHHHhc
Q 045152          212 ISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~  231 (533)
                      |.++||+|+||||+++.+.+
T Consensus         4 IvliG~~G~GKSTig~~La~   23 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAK   23 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            44569999999999999986

>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=95.93  E-value=0.0016  Score=55.01  Aligned_cols=23  Identities=22%  Similarity=0.265  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .++|.|.|++|+||||+|+.+.+
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            46899999999999999999886

>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=95.86  E-value=0.0017  Score=54.40  Aligned_cols=21  Identities=38%  Similarity=0.605  Sum_probs=18.8

Q ss_pred             EEEEcCCCChHHHHHHHHhcc
Q 045152          212 ISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~  232 (533)
                      |.|+||+|+||||+++.+...
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            678899999999999999873

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=95.84  E-value=0.0078  Score=52.23  Aligned_cols=59  Identities=19%  Similarity=0.126  Sum_probs=38.7

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCC-chhHHHHHHHHHHHhCCC
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD-TFEEIRVAKAIIEGLGVS  267 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~l~~~il~~l~~~  267 (533)
                      ++.++|.++|+.|+||||.+-++...  ...+=..+..|+... .....+-++...+.++.+
T Consensus         4 ~~~~vi~lvGptGvGKTTTiaKLA~~--~~~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~i~   63 (207)
T d1okkd2           4 PKGRVVLVVGVNGVGKTTTIAKLGRY--YQNLGKKVMFCAGDTFRAAGGTQLSEWGKRLSIP   63 (207)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHHH--HHTTTCCEEEECCCCSSTTHHHHHHHHHHHHTCC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH--HHHCCCcEEEEEeccccccchhhHhhcccccCce
Confidence            45689999999999999988766653  222223566666543 344555666666666654

>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=95.81  E-value=0.015  Score=51.51  Aligned_cols=128  Identities=20%  Similarity=0.169  Sum_probs=66.5

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcch------------hhhc---cCCceEEEE----------eCC------------c
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNND------------EVKR---NFEKVIWVC----------VSD------------T  250 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~~------------~~~~---~F~~~~wv~----------vs~------------~  250 (533)
                      .-.+++|+|+.|.|||||.+.+.--.            .+..   .-..+.+|.          |.+            .
T Consensus        31 ~Ge~~~liGpsGaGKSTLl~~i~Gl~~p~sG~I~i~g~~i~~~~~~~r~ig~v~Q~~~l~~~ltv~enl~~~~~~~~~~~  110 (239)
T d1v43a3          31 DGEFLVLLGPSGCGKTTTLRMIAGLEEPTEGRIYFGDRDVTYLPPKDRNISMVFQSYAVWPHMTVYENIAFPLKIKKFPK  110 (239)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSSCCSEEEEEETTEECTTSCGGGGTEEEEEC------CCCHHHHHHTTCC--CCCH
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcCCCCCCCEEEEcceecccCCcccceEEEEeechhhcccchHHHHHHHHHHHcCCCH
Confidence            34589999999999999999986410            0000   000122221          000            0


Q ss_pred             hhHHHHHHHHHHHhCCCCC------CCccHHHHHHHHHHHhCCceEEEEEeCCCCC-CccccchhhhcccC--CCCCceE
Q 045152          251 FEEIRVAKAIIEGLGVSAS------GLSEFESLMKQIQEYITRKKFFLVLDDVWDG-DYKKWNPFFSCLKN--GHHESKI  321 (533)
Q Consensus       251 ~~~~~l~~~il~~l~~~~~------~~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~-~~~~~~~l~~~l~~--~~~gs~I  321 (533)
                      ....+...++++.++....      ...--+...-.+...|..++-+|+||+--.. +...-..+...+..  ...|..|
T Consensus       111 ~~~~~~~~~~l~~~~l~~~~~~~~~~LSGGq~QRvaiAraL~~~P~iLllDEPts~LD~~~~~~i~~ll~~l~~~~g~ti  190 (239)
T d1v43a3         111 DEIDKRVRWAAELLQIEELLNRYPAQLSGGQRQRVAVARAIVVEPDVLLMDEPLSNLDAKLRVAMRAEIKKLQQKLKVTT  190 (239)
T ss_dssp             HHHHHHHHHHHHHTTCGGGTTSCTTTCCSSCHHHHHHHHHHTTCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHHTCEE
T ss_pred             HHHHHHHHHHHHHcCChhhhcCChhhCCHHHHHHHHHHhhhccCCCceeecCCcccCCHHHHHHHHHHHHHHHHhcCCeE
Confidence            0122344555666654321      1111223344566667788889999987332 11111222222221  1236779


Q ss_pred             EEEecchHHHhhhC
Q 045152          322 LITTRDRSVALQLG  335 (533)
Q Consensus       322 iiTtR~~~v~~~~~  335 (533)
                      |++|.+...+..+.
T Consensus       191 i~vTHd~~~a~~~~  204 (239)
T d1v43a3         191 IYVTHDQVEAMTMG  204 (239)
T ss_dssp             EEEESCHHHHHHHC
T ss_pred             EEEeCCHHHHHHhC
Confidence            99999877766543

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=95.78  E-value=0.007  Score=53.96  Aligned_cols=23  Identities=43%  Similarity=0.599  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...++|+|..|.|||||++.+..
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            45899999999999999999964

>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=95.78  E-value=0.002  Score=54.52  Aligned_cols=20  Identities=40%  Similarity=0.571  Sum_probs=18.8

Q ss_pred             EEEEcCCCChHHHHHHHHhc
Q 045152          212 ISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~  231 (533)
                      |+|+|++|+|||||++.+..
T Consensus         3 i~I~G~~G~GKSTLl~~i~~   22 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVE   22 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcHHHHHHHHHHh
Confidence            78999999999999999986

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=95.77  E-value=0.014  Score=53.90  Aligned_cols=80  Identities=20%  Similarity=0.198  Sum_probs=46.5

Q ss_pred             CCCeEEEEEEcCCCChHHHHHHHHhcchhhhccC--CceEEEEeCCchhHHHHHHHHHHHhCC--CCCCCccHHHHHHHH
Q 045152          206 QKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNF--EKVIWVCVSDTFEEIRVAKAIIEGLGV--SASGLSEFESLMKQI  281 (533)
Q Consensus       206 ~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F--~~~~wv~vs~~~~~~~l~~~il~~l~~--~~~~~~~~~~l~~~l  281 (533)
                      ...+-+|+|.|..|+||||+|+.+...  ....+  ..+.-|+...-+-....+..  +.+..  ..++.-+.+.+...+
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            467889999999999999999988752  33222  23444444433322222211  11111  122345677888888


Q ss_pred             HHHhCCce
Q 045152          282 QEYITRKK  289 (533)
Q Consensus       282 ~~~l~~kr  289 (533)
                      .....++.
T Consensus       153 ~~lk~g~~  160 (308)
T d1sq5a_         153 SDLKSGVP  160 (308)
T ss_dssp             HHHTTTCS
T ss_pred             HHHHcCCC
Confidence            77766643

>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=95.77  E-value=0.0071  Score=53.89  Aligned_cols=42  Identities=26%  Similarity=0.245  Sum_probs=33.4

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT  250 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~  250 (533)
                      +...++.|.|.+|+|||+||.++..+  ...+...++|++....
T Consensus        24 ~~gsl~li~G~pGsGKT~l~~qia~~--~~~~~~~~~~is~e~~   65 (242)
T d1tf7a2          24 FKDSIILATGATGTGKTLLVSRFVEN--ACANKERAILFAYEES   65 (242)
T ss_dssp             ESSCEEEEEECTTSSHHHHHHHHHHH--HHTTTCCEEEEESSSC
T ss_pred             cCCeEEEEEeCCCCCHHHHHHHHHHH--HHHhccccceeeccCC
Confidence            45679999999999999999888764  4456677888886544

>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=95.76  E-value=0.0021  Score=53.95  Aligned_cols=22  Identities=36%  Similarity=0.353  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ++++|+|..|+|||||+.++..
T Consensus         2 kii~I~G~~gSGKTTli~~l~~   23 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVA   23 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHH
Confidence            5899999999999999998876

>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=95.75  E-value=0.028  Score=50.69  Aligned_cols=99  Identities=20%  Similarity=0.181  Sum_probs=61.5

Q ss_pred             HHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCch-hHHHHHHHHHHHhCC--C--
Q 045152          193 ELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTF-EEIRVAKAIIEGLGV--S--  267 (533)
Q Consensus       193 ~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~-~~~~l~~~il~~l~~--~--  267 (533)
                      +.++.|..-     ..-.-++|+|..|+|||+|+..+.++. .+.+=+.++++-+.+.. .+.++.+++.+.--.  .  
T Consensus        57 raID~l~pi-----gkGQr~~If~~~g~GKt~l~~~i~~~~-~~~~~~v~V~~~iGer~~ev~~~~~~~~~~~~~~~~~~  130 (276)
T d2jdid3          57 KVVDLLAPY-----AKGGKIGLFGGAGVGKTVLIMELINNV-AKAHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDA  130 (276)
T ss_dssp             HHHHHHSCE-----ETTCEEEEEECTTSSHHHHHHHHHHHH-TTTCSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSS
T ss_pred             eeeeeeccc-----cCCCEEEeeCCCCCCHHHHHHHHHHHH-HhhCCCeEEEEEeccChHHHHHHHHHHHhcCccccccc
Confidence            566666543     234569999999999999998887641 23344567888887664 456777777664211  0  


Q ss_pred             ---------CCCCccHH-----HHHHHHHHHh---CCceEEEEEeCC
Q 045152          268 ---------ASGLSEFE-----SLMKQIQEYI---TRKKFFLVLDDV  297 (533)
Q Consensus       268 ---------~~~~~~~~-----~l~~~l~~~l---~~kr~LlVLDdv  297 (533)
                               ..+.....     ...-.+.+++   .++.+|+++||+
T Consensus       131 ~~~tvvv~~~s~~~~~~r~~~~~~a~~iAEyf~~~~G~~VLv~~Dsl  177 (276)
T d2jdid3         131 TSKVALVYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNI  177 (276)
T ss_dssp             CCCEEEEEECTTSCHHHHHHHHHHHHHHHHHHHHTTCSCEEEEEECT
T ss_pred             cceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHhcCCCeEEEEEcch
Confidence                     01111111     1222344554   378999999999

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=95.72  E-value=0.0067  Score=53.61  Aligned_cols=24  Identities=29%  Similarity=0.436  Sum_probs=20.8

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +-.+++|+|+.|.|||||.+.+.-
T Consensus        25 ~Gei~~liGpsGsGKSTLl~~i~G   48 (232)
T d2awna2          25 EGEFVVFVGPSGCGKSTLLRMIAG   48 (232)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCChHHHHHHHHhc
Confidence            345899999999999999999853

>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=95.69  E-value=0.0018  Score=54.73  Aligned_cols=21  Identities=33%  Similarity=0.376  Sum_probs=18.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045152          211 VISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .|.++|++|+||||+|+.+.+
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~   24 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELAR   24 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            466889999999999999986

>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=95.69  E-value=0.026  Score=48.83  Aligned_cols=59  Identities=27%  Similarity=0.214  Sum_probs=36.7

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCC-chhHHHHHHHHHHHhCCC
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSD-TFEEIRVAKAIIEGLGVS  267 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~l~~~il~~l~~~  267 (533)
                      .+.+||.++|+.|+||||.+.++...  ...+-..+..+++.. .....+-++...+.++.+
T Consensus         8 ~~~~vi~lvGp~GvGKTTTiaKLA~~--~~~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~   67 (207)
T d1ls1a2           8 KDRNLWFLVGLQGSGKTTTAAKLALY--YKGKGRRPLLVAADTQRPAAREQLRLLGEKVGVP   67 (207)
T ss_dssp             CSSEEEEEECCTTTTHHHHHHHHHHH--HHHTTCCEEEEECCSSCHHHHHHHHHHHHHHTCC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHH--HHHCCCcEEEEecccccchHHHHHHHHHHhcCCc
Confidence            35689999999999999888666543  222323455555432 233445566666666654

>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=95.62  E-value=0.015  Score=51.60  Aligned_cols=126  Identities=17%  Similarity=0.205  Sum_probs=67.2

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcch------------hhh-------c-cCCceEEEEeC----Cch-------------
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNND------------EVK-------R-NFEKVIWVCVS----DTF-------------  251 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~~------------~~~-------~-~F~~~~wv~vs----~~~-------------  251 (533)
                      ..+++|+|+.|.|||||.+.+..-.            .+.       . .-..+-+|.-.    ...             
T Consensus        31 Ge~~~iiG~sGsGKSTll~~i~gl~~p~~G~I~~~g~~i~~~~~~~~~~~rr~ig~vfQ~~~L~p~ltv~eni~~~l~~~  110 (242)
T d1oxxk2          31 GERFGILGPSGAGKTTFMRIIAGLDVPSTGELYFDDRLVASNGKLIVPPEDRKIGMVFQTWALYPNLTAFENIAFPLTNM  110 (242)
T ss_dssp             TCEEEEECSCHHHHHHHHHHHHTSSCCSEEEEEETTEEEEETTEESSCGGGSCEEEEETTSCCCTTSCHHHHHHGGGTTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHHcCcCCCCceEEECCEEeecCchhhcchhhccceEEeccccccccccHHHHhhhhhHhh
Confidence            4589999999999999999986410            000       0 00112222100    000             


Q ss_pred             -----hHHHHHHHHHHHhCCCCCC------CccHHHHHHHHHHHhCCceEEEEEeCCCCC-CccccchhhhcccC--CCC
Q 045152          252 -----EEIRVAKAIIEGLGVSASG------LSEFESLMKQIQEYITRKKFFLVLDDVWDG-DYKKWNPFFSCLKN--GHH  317 (533)
Q Consensus       252 -----~~~~l~~~il~~l~~~~~~------~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~-~~~~~~~l~~~l~~--~~~  317 (533)
                           ...+-..++++.++.....      ..--+...-.+...|..++-+|++|+--.. +...-..+...+..  ...
T Consensus       111 ~~~~~~~~~~v~~~l~~~gL~~~~~~~p~~LSGGqkQRvaiARaL~~~P~llllDEPt~~LD~~~~~~i~~~i~~l~~~~  190 (242)
T d1oxxk2         111 KMSKEEIRKRVEEVAKILDIHHVLNHFPRELSGAQQQRVALARALVKDPSLLLLDEPFSNLDARMRDSARALVKEVQSRL  190 (242)
T ss_dssp             SCCHHHHHHHHHHHHHHTTCGGGTTSCGGGSCHHHHHHHHHHHHHTTCCSEEEEESTTTTSCGGGHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhhcChHhhhhCChhhCCHHHHhHHHHHhHHhhcccceeecCCccCCCHHHHHHHHHHHHHHHhcc
Confidence                 1223355566666553211      112233444566777888899999987332 22222223333322  123


Q ss_pred             CceEEEEecchHHHhhh
Q 045152          318 ESKILITTRDRSVALQL  334 (533)
Q Consensus       318 gs~IiiTtR~~~v~~~~  334 (533)
                      |..||++|.+...+..+
T Consensus       191 g~tvi~vTHd~~~~~~~  207 (242)
T d1oxxk2         191 GVTLLVVSHDPADIFAI  207 (242)
T ss_dssp             CCEEEEEESCHHHHHHH
T ss_pred             CCEEEEEECCHHHHHHh
Confidence            67799999887665544

>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=95.60  E-value=0.029  Score=49.84  Aligned_cols=24  Identities=29%  Similarity=0.379  Sum_probs=21.1

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .-..++|+|+.|.|||||++.+..
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            456899999999999999999863

>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=95.57  E-value=0.0017  Score=60.78  Aligned_cols=49  Identities=22%  Similarity=0.327  Sum_probs=32.7

Q ss_pred             ceeechhhHHHHHHHHh----CCC-cc---CCCCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          183 EVCGRVEEKNELLSKLL----CES-SE---QQKGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       183 ~~vGR~~e~~~l~~~L~----~~~-~~---~~~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .++|-++-++.+...+.    ... ..   ....++.+.++||+|+|||.||+.+.+
T Consensus        15 ~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~   71 (309)
T d1ofha_          15 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAK   71 (309)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             cccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhh
Confidence            46777777776655441    010 00   012456778999999999999999986

>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=95.52  E-value=0.0031  Score=54.31  Aligned_cols=23  Identities=26%  Similarity=0.237  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +.+|.|.|++|+||||+|+.+++
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            35899999999999999999986

>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=95.47  E-value=0.0054  Score=52.21  Aligned_cols=22  Identities=23%  Similarity=0.421  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ++|.|.|++|+||||+++.+..
T Consensus         2 kiivi~G~~GsGKTT~~~~La~   23 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKE   23 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            6889999999999999999976

>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=95.40  E-value=0.016  Score=53.61  Aligned_cols=22  Identities=27%  Similarity=0.383  Sum_probs=19.4

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .++.++|++|+|||.||+.+..
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            4566789999999999999987

>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=95.34  E-value=0.023  Score=50.37  Aligned_cols=24  Identities=29%  Similarity=0.441  Sum_probs=21.1

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+++|+|+.|.|||||.+.+..
T Consensus        27 ~Gei~glvG~nGaGKSTLl~~l~G   50 (238)
T d1vpla_          27 EGEIFGLIGPNGAGKTTTLRIIST   50 (238)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            345899999999999999999964

>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=95.25  E-value=0.0044  Score=54.24  Aligned_cols=24  Identities=17%  Similarity=0.182  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      +-+|+|.|..|+||||+|+.+.+.
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            568999999999999999988753

>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=95.19  E-value=0.0058  Score=53.36  Aligned_cols=25  Identities=36%  Similarity=0.292  Sum_probs=22.7

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .+..+|.+.|++|+||||||+.+..
T Consensus        22 ~kg~vIwltGlsGsGKTTia~~L~~   46 (208)
T d1m7ga_          22 QRGLTIWLTGLSASGKSTLAVELEH   46 (208)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4678999999999999999999886

>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=95.15  E-value=0.0038  Score=54.92  Aligned_cols=23  Identities=35%  Similarity=0.463  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .||+|.|++|+||||+|+.+.+.
T Consensus         4 piI~I~GppGSGKgT~ak~La~~   26 (225)
T d1ckea_           4 PVITIDGPSGAGKGTLCKAMAEA   26 (225)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            49999999999999999999873

>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=95.06  E-value=0.015  Score=52.86  Aligned_cols=48  Identities=19%  Similarity=-0.038  Sum_probs=33.6

Q ss_pred             HHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEE
Q 045152          193 ELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVC  246 (533)
Q Consensus       193 ~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~  246 (533)
                      ++++.|..-     ....-++|+|..|+|||+|+..+.++.. ..+-..++.+.
T Consensus        32 r~ID~l~Pi-----grGQr~~I~g~~g~GKT~l~~~i~~~~~-~~~~~~v~~~~   79 (289)
T d1xpua3          32 RVLDLASPI-----GRGQRGLIVAPPKAGKTMLLQNIAQSIA-YNHPDCVLMVL   79 (289)
T ss_dssp             HHHHHHSCC-----BTTCEEEEEECSSSSHHHHHHHHHHHHH-HHCTTSEEEEE
T ss_pred             eeeeecccc-----cCCCeeeEeCCCCCCHHHHHHHHHHHHh-hcCCCeEEEEE
Confidence            678888644     3567889999999999999988887422 23344444443

>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=95.06  E-value=0.0082  Score=56.11  Aligned_cols=37  Identities=19%  Similarity=0.317  Sum_probs=28.0

Q ss_pred             HHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          191 KNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       191 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..++.+.+...    .++..+|+|.|++|+|||||...+..
T Consensus        37 ~~~~~~~~~~~----~~~~~~igitG~pGaGKSTli~~l~~   73 (323)
T d2qm8a1          37 VRDLIDAVLPQ----TGRAIRVGITGVPGVGKSTTIDALGS   73 (323)
T ss_dssp             HHHHHHHHGGG----CCCSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             HHHHHHHhhhc----cCCceEEeeeCCCCCCHHHHHHHHHH
Confidence            34455555433    25789999999999999999988875

>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=95.00  E-value=0.0095  Score=55.74  Aligned_cols=36  Identities=19%  Similarity=0.214  Sum_probs=27.5

Q ss_pred             HHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          192 NELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       192 ~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .++.+.+...    .++..+|+|+|++|+|||||...+..
T Consensus        41 ~~ll~~~~~~----~~~~~~IgitG~pGaGKSTLi~~l~~   76 (327)
T d2p67a1          41 TQLLDAIMPY----CGNTLRLGVTGTPGAGKSTFLEAFGM   76 (327)
T ss_dssp             HHHHHHHGGG----CSCSEEEEEEECTTSCHHHHHHHHHH
T ss_pred             HHHHHHhhhc----cCCceEEEeeCCCCCCHHHHHHHHHH
Confidence            4455555432    35789999999999999999988875

>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=94.96  E-value=0.0051  Score=52.18  Aligned_cols=20  Identities=40%  Similarity=0.527  Sum_probs=18.4

Q ss_pred             EEEEcCCCChHHHHHHHHhc
Q 045152          212 ISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~  231 (533)
                      |.|.|++|+||||+|+.+..
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            77999999999999999875

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.92  E-value=0.038  Score=50.16  Aligned_cols=82  Identities=16%  Similarity=0.148  Sum_probs=46.4

Q ss_pred             CCCeEEEEEEcCCCChHHHHHHHHhcchhhhccC-CceEEEEeCCchhHHHHHHHHHHHhCC-------CCCCCccHHHH
Q 045152          206 QKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNF-EKVIWVCVSDTFEEIRVAKAIIEGLGV-------SASGLSEFESL  277 (533)
Q Consensus       206 ~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F-~~~~wv~vs~~~~~~~l~~~il~~l~~-------~~~~~~~~~~l  277 (533)
                      ...+-+|+|.|..|+||||||..+.....-+..+ ..++-++..+-+-..+=...+.+....       ..++..+.+.+
T Consensus        24 ~~~P~iIGi~G~qGSGKSTl~~~l~~~L~~~~~~~~~v~~iS~DdfY~t~~~r~~L~~~~~~~pl~~~RG~PgThD~~ll  103 (286)
T d1odfa_          24 NKCPLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDFYLTHEDQLKLNEQFKNNKLLQGRGLPGTHDMKLL  103 (286)
T ss_dssp             CCSCEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGGBCCHHHHHHHHHHTTTCGGGSSSCSTTSBCHHHH
T ss_pred             CCCCEEEEeECCCCCCHHHHHHHHHHHHHHHhCCCcceEeeccCCCCCCHHHHHHHhhhccccccceecCCCcchhHHHH
Confidence            3567899999999999999998887531111112 234555554433222222333333311       23455677777


Q ss_pred             HHHHHHHhCC
Q 045152          278 MKQIQEYITR  287 (533)
Q Consensus       278 ~~~l~~~l~~  287 (533)
                      .+.+....++
T Consensus       104 ~~~l~~l~~~  113 (286)
T d1odfa_         104 QEVLNTIFNN  113 (286)
T ss_dssp             HHHHHHHTC-
T ss_pred             HHHHHHHHhh
Confidence            7777766654

>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=94.89  E-value=0.0066  Score=52.01  Aligned_cols=23  Identities=35%  Similarity=0.488  Sum_probs=19.5

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .+++| |+|++|+||||+|+.+.+
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            45666 789999999999999875

>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=94.83  E-value=0.0047  Score=53.10  Aligned_cols=21  Identities=33%  Similarity=0.547  Sum_probs=18.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045152          211 VISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .|.|+|++|+|||||++.+.+
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~   22 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQ   22 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            477999999999999999876

>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=94.78  E-value=0.005  Score=52.76  Aligned_cols=22  Identities=23%  Similarity=0.241  Sum_probs=19.3

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      -.|.|.|++|+||||+|+.+.+
T Consensus         4 m~I~i~GppGsGKsT~a~~La~   25 (189)
T d1zaka1           4 LKVMISGAPASGKGTQCELIKT   25 (189)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3577999999999999998876

>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=94.78  E-value=0.0058  Score=52.59  Aligned_cols=24  Identities=29%  Similarity=0.290  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+|.|.|++|+||||+|+.+.+
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            467899999999999999999876

>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=94.76  E-value=0.0077  Score=51.61  Aligned_cols=23  Identities=35%  Similarity=0.394  Sum_probs=20.2

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHh
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAY  230 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~  230 (533)
                      .+-+|+|+|+.|+||||+|..+-
T Consensus         2 ~p~IIgitG~~gSGKstva~~l~   24 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALLR   24 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            45689999999999999998774

>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=94.75  E-value=0.0062  Score=51.73  Aligned_cols=21  Identities=33%  Similarity=0.351  Sum_probs=18.9

Q ss_pred             EEEEcCCCChHHHHHHHHhcc
Q 045152          212 ISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~  232 (533)
                      |.|.|++|+||||+|+.+.+.
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            678899999999999999863

>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=94.69  E-value=0.0067  Score=51.63  Aligned_cols=22  Identities=27%  Similarity=0.471  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ++|.|+|++|+|||||++.+.+
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            5788999999999999998875

>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=94.68  E-value=0.0066  Score=51.59  Aligned_cols=21  Identities=43%  Similarity=0.539  Sum_probs=18.9

Q ss_pred             EEEEcCCCChHHHHHHHHhcc
Q 045152          212 ISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~  232 (533)
                      |.|.|++|+||||+|+.+.+.
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            678999999999999999863

>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=94.65  E-value=0.0072  Score=53.11  Aligned_cols=23  Identities=26%  Similarity=0.393  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      -+|+|-|++|+||||+|+.+...
T Consensus         4 i~IaIdGp~GsGKgT~ak~La~~   26 (223)
T d1q3ta_           4 IQIAIDGPASSGKSTVAKIIAKD   26 (223)
T ss_dssp             CEEEEECSSCSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            36889999999999999999863

>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=94.64  E-value=0.0057  Score=52.35  Aligned_cols=22  Identities=32%  Similarity=0.514  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +.|.|+|++|+|||||++.+.+
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~   23 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFA   23 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            3478999999999999999876

>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=94.63  E-value=0.0081  Score=51.65  Aligned_cols=25  Identities=24%  Similarity=0.145  Sum_probs=22.2

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .++-+|+|-|..|+||||+++.+.+
T Consensus         7 ~kp~~I~ieG~~GsGKTTl~~~L~~   31 (197)
T d2vp4a1           7 TQPFTVLIEGNIGSGKTTYLNHFEK   31 (197)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGG
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHH
Confidence            4567999999999999999998875

>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=94.59  E-value=0.0089  Score=51.22  Aligned_cols=24  Identities=25%  Similarity=0.315  Sum_probs=19.7

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +.-.|.|.|++|+||||+|+.+..
T Consensus         5 r~mrIiliG~PGSGKtT~a~~La~   28 (189)
T d2ak3a1           5 RLLRAAIMGAPGSGKGTVSSRITK   28 (189)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             cceeEEEECCCCCCHHHHHHHHHH
Confidence            334556779999999999999886

>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=94.57  E-value=0.058  Score=47.43  Aligned_cols=47  Identities=17%  Similarity=0.173  Sum_probs=32.4

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhc----cCCceEEEEeCCchhH
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKR----NFEKVIWVCVSDTFEE  253 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~----~F~~~~wv~vs~~~~~  253 (533)
                      +..+++.|.|.+|+||||||.++........    .-..++|++....+..
T Consensus        32 ~~G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~~~~   82 (251)
T d1szpa2          32 ETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRP   82 (251)
T ss_dssp             ESSSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSCCCG
T ss_pred             cCCeEEEEEcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeecchHHH
Confidence            4567999999999999999977754322211    2246778876665543

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.28  E-value=0.0043  Score=51.87  Aligned_cols=62  Identities=21%  Similarity=0.200  Sum_probs=30.3

Q ss_pred             cCccceeecccCCCCCCCCCc-cCCCCCCCcceEEeccCCCCCCCCc-CCCCCCCcceeeccCCch
Q 045152          444 TTTLQKLRILQCPSMEELPIL-EDHIFLPRLSSLRIEYCPKLKLLPD-SLLQITTLKELGMEGSPL  507 (533)
Q Consensus       444 l~~L~~L~l~~~~~l~~lp~~-~~~~~l~~L~~L~l~~C~~l~~lP~-~~~~l~~L~~L~~~~c~~  507 (533)
                      +++|++|+++++. +..++.+ ..+..+++|+.|++++ .+++++++ ...+..+|++|+++|+|.
T Consensus        64 ~~~L~~L~Ls~N~-i~~l~~~~~~~~~l~~L~~L~Ls~-N~i~~l~~l~~l~~~~L~~L~L~~Npl  127 (162)
T d1koha1          64 IPELLSLNLSNNR-LYRLDDMSSIVQKAPNLKILNLSG-NELKSERELDKIKGLKLEELWLDGNSL  127 (162)
T ss_dssp             CTTCCCCCCCSSC-CCCCSGGGTHHHHSTTCCCCCCTT-SCCCCGGGHHHHTTCCCSSCCCTTSTT
T ss_pred             CCCCCEeeCCCcc-ccCCchhHHHHhhCCccccccccc-CccccchhhhhhhccccceeecCCCCc
Confidence            4555555555433 4444311 1223456666666666 45555553 112233456666666553

>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=94.21  E-value=0.028  Score=51.06  Aligned_cols=35  Identities=31%  Similarity=0.473  Sum_probs=26.3

Q ss_pred             HHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          191 KNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       191 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +..+.+.+.      .+..++|.+.|-||+||||+|-.+..
T Consensus         8 ~~~~~~~~~------~~~~~iii~sGKGGVGKTT~a~nLA~   42 (279)
T d1ihua2           8 LSALVDDIA------RNEHGLIMLMGKGGVGKTTMAAAIAV   42 (279)
T ss_dssp             HHHHHHHHH------TTSCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHHHHHHhh------cCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            455666663      35678999999999999998866543

>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=94.16  E-value=0.01  Score=50.33  Aligned_cols=20  Identities=35%  Similarity=0.400  Sum_probs=17.6

Q ss_pred             EEEEcCCCChHHHHHHHHhc
Q 045152          212 ISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~  231 (533)
                      |.|.|++|+||||+|+.+.+
T Consensus         5 Ivl~G~pGSGKtT~a~~La~   24 (180)
T d1akya1           5 MVLIGPPGAGKGTQAPNLQE   24 (180)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            44779999999999999976

>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=94.14  E-value=0.0097  Score=50.32  Aligned_cols=20  Identities=40%  Similarity=0.406  Sum_probs=18.3

Q ss_pred             EEEEcCCCChHHHHHHHHhc
Q 045152          212 ISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~  231 (533)
                      |.|.|++|+||||+|+.+.+
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            67899999999999999986

>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=94.13  E-value=0.011  Score=53.59  Aligned_cols=22  Identities=36%  Similarity=0.566  Sum_probs=19.3

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +.|+|+|-||+||||+|-.+..
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~   23 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTS   23 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCcCCHHHHHHHHHH
Confidence            6899999999999999977654

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.10  E-value=0.012  Score=49.91  Aligned_cols=22  Identities=18%  Similarity=0.472  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +.|.|+|+.|+|||||++.+..
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            4689999999999999998875

>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=94.09  E-value=0.021  Score=52.29  Aligned_cols=25  Identities=24%  Similarity=0.325  Sum_probs=20.7

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..+++|.+.|-||+||||+|..+..
T Consensus         6 ~~p~~i~~sGKGGVGKTTvaa~lA~   30 (296)
T d1ihua1           6 NIPPYLFFTGKGGVGKTSISCATAI   30 (296)
T ss_dssp             SCCSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCcChHHHHHHHHHH
Confidence            4577889999999999998866654

>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=94.01  E-value=0.012  Score=52.14  Aligned_cols=21  Identities=38%  Similarity=0.490  Sum_probs=19.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045152          211 VISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ||+|+|+.|+|||||...+.+
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~   22 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGR   22 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHHHH
Confidence            789999999999999988875

>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=93.85  E-value=0.095  Score=41.54  Aligned_cols=53  Identities=19%  Similarity=0.201  Sum_probs=36.8

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhC
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLG  265 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~  265 (533)
                      ++.++..|+++.|.|||+++-.++.      ....++.+.+....-..+..+.+.+.+.
T Consensus         6 ~~~~~~ll~apTGsGKT~~~~~~~~------~~~~~vli~~P~~~l~~q~~~~~~~~~~   58 (136)
T d1a1va1           6 QSFQVAHLHAPTGSGKSTKVPAAYA------AQGYKVLVLNPSVAATLGFGAYMSKAHG   58 (136)
T ss_dssp             SSCEEEEEECCTTSCTTTHHHHHHH------TTTCCEEEEESCHHHHHHHHHHHHHHHS
T ss_pred             cCCCEEEEEeCCCCCHHHHHHHHHH------HcCCcEEEEcChHHHHHHHHHHHHHHhh
Confidence            3567889999999999999866553      2344677777766656666666655554

>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=93.63  E-value=0.091  Score=49.49  Aligned_cols=64  Identities=16%  Similarity=0.078  Sum_probs=38.2

Q ss_pred             hhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcch-hhhccCCceEEEEeCCchhHHHHHHHH
Q 045152          188 VEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNND-EVKRNFEKVIWVCVSDTFEEIRVAKAI  260 (533)
Q Consensus       188 ~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~-~~~~~F~~~~wv~vs~~~~~~~l~~~i  260 (533)
                      +..+..+...+.         -++..|.|++|.||||++..+...- +....-...+.++.+..--...+...+
T Consensus       151 ~~Q~~A~~~al~---------~~~~vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~~I~l~ApTgkAA~~L~e~~  215 (359)
T d1w36d1         151 NWQKVAAAVALT---------RRISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAAPTGKAAARLTESL  215 (359)
T ss_dssp             CHHHHHHHHHHT---------BSEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEBSSHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHc---------CCeEEEEcCCCCCceehHHHHHHHHHHHHhccCCeEEEecCcHHHHHHHHHHH
Confidence            345555555551         2588899999999999886554321 111222356777776655555544444

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=93.61  E-value=0.016  Score=52.70  Aligned_cols=24  Identities=25%  Similarity=0.353  Sum_probs=17.8

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +..+|+|.|.+|+||||+|+.+.+
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            345999999999999999988765

>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=93.61  E-value=0.015  Score=50.38  Aligned_cols=22  Identities=23%  Similarity=0.324  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .+|.|+|++|+|||||.+.+..
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            5788999999999999998875

>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=93.45  E-value=0.015  Score=50.16  Aligned_cols=24  Identities=38%  Similarity=0.473  Sum_probs=21.2

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+++|+|+.|+|||||.+.+..
T Consensus        26 ~Gei~~l~G~NGsGKSTLl~~i~g   49 (200)
T d1sgwa_          26 KGNVVNFHGPNGIGKTTLLKTIST   49 (200)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCChHHHHHHHHhc
Confidence            345899999999999999999975

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=93.45  E-value=0.013  Score=55.11  Aligned_cols=44  Identities=23%  Similarity=0.262  Sum_probs=31.6

Q ss_pred             CCceeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHh
Q 045152          181 EGEVCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAY  230 (533)
Q Consensus       181 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~  230 (533)
                      =.+++|.+.-+..+.-.....      ...-+.|.|.+|+||||||+.+.
T Consensus         6 f~~I~Gq~~~kral~laa~~~------~~h~vLl~G~pG~GKT~lar~~~   49 (333)
T d1g8pa_           6 FSAIVGQEDMKLALLLTAVDP------GIGGVLVFGDRGTGKSTAVRALA   49 (333)
T ss_dssp             GGGSCSCHHHHHHHHHHHHCG------GGCCEEEECCGGGCTTHHHHHHH
T ss_pred             hhhccCcHHHHHHHHHHHhcc------CCCeEEEECCCCccHHHHHHHHH
Confidence            356899987766555433311      22358999999999999999874

>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=93.42  E-value=0.016  Score=47.48  Aligned_cols=21  Identities=38%  Similarity=0.401  Sum_probs=18.5

Q ss_pred             EEEEcCCCChHHHHHHHHhcc
Q 045152          212 ISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~  232 (533)
                      |.|+|.+|+|||||...+..+
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~   23 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLG   23 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            679999999999999888654

>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=93.38  E-value=0.02  Score=50.73  Aligned_cols=58  Identities=19%  Similarity=0.185  Sum_probs=33.6

Q ss_pred             HHHHHHHHhCCceEEEEEeCCCCC-CccccchhhhcccC--CCCCceEEEEecchHHHhhh
Q 045152          277 LMKQIQEYITRKKFFLVLDDVWDG-DYKKWNPFFSCLKN--GHHESKILITTRDRSVALQL  334 (533)
Q Consensus       277 l~~~l~~~l~~kr~LlVLDdv~~~-~~~~~~~l~~~l~~--~~~gs~IiiTtR~~~v~~~~  334 (533)
                      ..-.+...|..++-+|++|+--.. +...-..+...+..  ...|..||++|.+-..+..+
T Consensus       146 QRv~IAraL~~~P~iLllDEPt~~LD~~~~~~i~~~l~~l~~~~g~tvi~vTHd~~~~~~~  206 (240)
T d1g2912         146 QRVALGRAIVRKPQVFLMDEPLSNLDAKLRVRMRAELKKLQRQLGVTTIYVTHDQVEAMTM  206 (240)
T ss_dssp             HHHHHHHHHHTCCSEEEEECTTTTSCHHHHHHHHHHHHHHHHHHTCEEEEEESCHHHHHHH
T ss_pred             HHHHHHHHHhcCCCEEEecCCCcccCHHHHHHHHHHHHHHHhccCCEEEEEcCCHHHHHHh
Confidence            344466677778889999987332 11112223333322  12367799999987766554

>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=93.37  E-value=0.084  Score=47.56  Aligned_cols=87  Identities=15%  Similarity=0.146  Sum_probs=49.1

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchh-HHHHHHHHHHHhCCC-------CCCC---c--cHH
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFE-EIRVAKAIIEGLGVS-------ASGL---S--EFE  275 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~-~~~l~~~il~~l~~~-------~~~~---~--~~~  275 (533)
                      -.-++|+|..|+|||+|+......  ...+...++++-+..... +.++..++...-...       ..+.   .  ...
T Consensus        67 GQr~~Ifg~~g~GKt~l~~~~~~~--~~~~~~v~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~tsd~p~~~r~~a~  144 (276)
T d1fx0a3          67 GQRELIIGDRQTGKTAVATDTILN--QQGQNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYLAP  144 (276)
T ss_dssp             TCBCBEEESSSSSHHHHHHHHHHT--CCTTTCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGTTHHH
T ss_pred             CceEeeccCCCCChHHHHHHHHhh--hcccCceeeeeeecchhHHHHHHHHhhccCCcceeeeecccccCccHHHHHHHH
Confidence            345889999999999999765432  233445677777766543 334444443321000       0011   0  011


Q ss_pred             HHHHHHHHHh--CCceEEEEEeCC
Q 045152          276 SLMKQIQEYI--TRKKFFLVLDDV  297 (533)
Q Consensus       276 ~l~~~l~~~l--~~kr~LlVLDdv  297 (533)
                      ...-.+.+++  .+++.|+++||+
T Consensus       145 ~~a~tiAEyfrd~G~~Vlll~Dsl  168 (276)
T d1fx0a3         145 YTGAALAEYFMYRERHTLIIYDDL  168 (276)
T ss_dssp             HHHHHHHHHHHHTTCEEEEEEECH
T ss_pred             HHHHHHHHHHHHcCCceeEEeecc
Confidence            2223333443  478999999999

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.35  E-value=0.0088  Score=49.84  Aligned_cols=78  Identities=17%  Similarity=0.108  Sum_probs=54.6

Q ss_pred             ccccceEEEeecCCcccC---CccccccCccceeecccCCCCCCCCCccCCCCCCCcceEEeccCCCCCCCCcC------
Q 045152          420 MPCLSVLRVYLCPKLKVL---PDYLLQTTTLQKLRILQCPSMEELPILEDHIFLPRLSSLRIEYCPKLKLLPDS------  490 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~~l---p~~l~~l~~L~~L~l~~~~~l~~lp~~~~~~~l~~L~~L~l~~C~~l~~lP~~------  490 (533)
                      +|.|++|+++++ .+..+   +..+..+++|+.|++++.. +..++.+..++ ..+|+.|++++. .+...+..      
T Consensus        64 ~~~L~~L~Ls~N-~i~~l~~~~~~~~~l~~L~~L~Ls~N~-i~~l~~l~~l~-~~~L~~L~L~~N-pl~~~~~~~~~y~~  139 (162)
T d1koha1          64 IPELLSLNLSNN-RLYRLDDMSSIVQKAPNLKILNLSGNE-LKSERELDKIK-GLKLEELWLDGN-SLSDTFRDQSTYIS  139 (162)
T ss_dssp             CTTCCCCCCCSS-CCCCCSGGGTHHHHSTTCCCCCCTTSC-CCCGGGHHHHT-TCCCSSCCCTTS-TTSSSSSSHHHHHH
T ss_pred             CCCCCEeeCCCc-cccCCchhHHHHhhCCcccccccccCc-cccchhhhhhh-ccccceeecCCC-CcCcCcccchhHHH
Confidence            788999999985 34444   4456678999999999744 88887533333 457999999994 44443321      


Q ss_pred             --CCCCCCcceee
Q 045152          491 --LLQITTLKELG  501 (533)
Q Consensus       491 --~~~l~~L~~L~  501 (533)
                        +..+++|+.||
T Consensus       140 ~i~~~~P~L~~LD  152 (162)
T d1koha1         140 AIRERFPKLLRLD  152 (162)
T ss_dssp             HHHTTSTTCCEET
T ss_pred             HHHHHCCCCCEEC
Confidence              44578888886

>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=93.35  E-value=0.15  Score=43.85  Aligned_cols=51  Identities=16%  Similarity=0.244  Sum_probs=30.6

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHH
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAII  261 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il  261 (533)
                      +.|+|-|+.|+||||+++.+.+.. ....+..+.+..-+......+.+++..
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~~L-~~~g~~~~~~~~ep~~~~~g~~i~~~~   53 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVETL-EQLGIRDMVFTREPGGTQLAEKLRSLL   53 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHH-HHTTCCCEEEEESSCSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH-HhCCCCeEEEecCCCCccchhhhHHHH
Confidence            468899999999999999987631 122344445443332223334444444

>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=93.31  E-value=0.021  Score=48.79  Aligned_cols=26  Identities=31%  Similarity=0.498  Sum_probs=22.5

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      +.+..|+|+|.+|+|||||...+.+.
T Consensus        21 ~~~~~I~lvG~~n~GKSTLin~L~g~   46 (195)
T d1svia_          21 GGLPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             SCCCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHhcCC
Confidence            45667999999999999999999853

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=93.19  E-value=0.032  Score=49.26  Aligned_cols=122  Identities=21%  Similarity=0.187  Sum_probs=65.3

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEE----------------eCCc----------------------h
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVC----------------VSDT----------------------F  251 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~----------------vs~~----------------------~  251 (533)
                      .+++|+|+.|.|||||.+.+..-   ...-...+|+.                +.+.                      .
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl---~~p~~G~I~~~G~~i~~~~~~~r~ig~v~Q~~~l~~~ltV~enl~~~l~~~~~~  101 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGI---VKPDRGEVRLNGADITPLPPERRGIGFVPQDYALFPHLSVYRNIAYGLRNVERV  101 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTS---SCCSEEEEEETTEECTTSCTTTSCCBCCCSSCCCCTTSCHHHHHHTTCTTSCHH
T ss_pred             EEEEEECCCCChHHHHHHHHHcC---CCCCceEEEECCEECCcCCHHHcCceeeccchhhcccchhhHhhhhhhcccCHH
Confidence            37789999999999999999742   11112222221                0111                      1


Q ss_pred             hHHHHHHHHHHHhCCCCCCC------ccHHHHHHHHHHHhCCceEEEEEeCCCCC-CccccchhhhcccC--CCCCceEE
Q 045152          252 EEIRVAKAIIEGLGVSASGL------SEFESLMKQIQEYITRKKFFLVLDDVWDG-DYKKWNPFFSCLKN--GHHESKIL  322 (533)
Q Consensus       252 ~~~~l~~~il~~l~~~~~~~------~~~~~l~~~l~~~l~~kr~LlVLDdv~~~-~~~~~~~l~~~l~~--~~~gs~Ii  322 (533)
                      ...+...++++.++......      .--+...-.+...+-.++-+++||+--.. +...-..+...+..  ...|..||
T Consensus       102 ~~~~~v~~~l~~~gl~~~~~~~~~~LSGG~kQRvaiAral~~~P~illlDEPts~LD~~~~~~i~~~i~~l~~~~g~tvi  181 (240)
T d2onka1         102 ERDRRVREMAEKLGIAHLLDRKPARLSGGERQRVALARALVIQPRLLLLDEPLSAVDLKTKGVLMEELRFVQREFDVPIL  181 (240)
T ss_dssp             HHHHHHHHHHHTTTCTTTTTCCGGGSCHHHHHHHHHHHHHTTCCSSBEEESTTSSCCHHHHHHHHHHHHHHHHHHTCCEE
T ss_pred             HHHHHHHHHHHhcCcHhhhhCChhhCCHHHHHHHHHHHHHhccCCceEecCccccCCHHHHHHHHHHHHHHHHhcCCeEE
Confidence            12234566666666543211      11233344466667778888999987332 21111222222221  12356688


Q ss_pred             EEecchHHHhhh
Q 045152          323 ITTRDRSVALQL  334 (533)
Q Consensus       323 iTtR~~~v~~~~  334 (533)
                      ++|.+...+..+
T Consensus       182 ~vtHd~~~~~~~  193 (240)
T d2onka1         182 HVTHDLIEAAML  193 (240)
T ss_dssp             EEESCHHHHHHH
T ss_pred             EEeCCHHHHHHh
Confidence            888886655543

>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=93.16  E-value=0.02  Score=47.21  Aligned_cols=21  Identities=38%  Similarity=0.490  Sum_probs=18.9

Q ss_pred             EEEEcCCCChHHHHHHHHhcc
Q 045152          212 ISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~  232 (533)
                      |+|+|.+|+|||||.+.+..+
T Consensus         8 I~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           8 ILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            779999999999999988765

>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=93.14  E-value=0.021  Score=50.58  Aligned_cols=23  Identities=26%  Similarity=0.418  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..+++|+|+.|.|||||++.+.-
T Consensus        31 Ge~~~iiG~sGsGKSTLl~~i~G   53 (240)
T d3dhwc1          31 GQIYGVIGASGAGKSTLIRCVNL   53 (240)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHcC
Confidence            45899999999999999999964

>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=93.09  E-value=0.021  Score=52.26  Aligned_cols=38  Identities=29%  Similarity=0.352  Sum_probs=24.9

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeC
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVS  248 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs  248 (533)
                      .+.|+|.|-||+||||+|-.+...  ....=..+.-|...
T Consensus         2 Mr~IaisgKGGVGKTT~a~NLA~~--LA~~G~rVLlID~D   39 (289)
T d2afhe1           2 MRQCAIYGKGGIGKSTTTQNLVAA--LAEMGKKVMIVGCD   39 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHH--HHHTTCCEEEEEEC
T ss_pred             ccEEEEECCCCCCHHHHHHHHHHH--HHHCCCCEEEEecC
Confidence            367889999999999999776542  22222235556654

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=93.02  E-value=0.022  Score=51.08  Aligned_cols=24  Identities=38%  Similarity=0.538  Sum_probs=20.9

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+++|+|+.|.|||||++.+..
T Consensus        40 ~Ge~iaivG~sGsGKSTLl~ll~g   63 (253)
T d3b60a1          40 AGKTVALVGRSGSGKSTIASLITR   63 (253)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCChHHHHHHHHhc
Confidence            345899999999999999999854

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=93.02  E-value=0.023  Score=51.02  Aligned_cols=24  Identities=33%  Similarity=0.432  Sum_probs=21.1

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .-.+++|+|+.|.|||||++.+.-
T Consensus        27 ~GEi~~iiG~sGsGKSTLl~~i~G   50 (258)
T d1b0ua_          27 AGDVISIIGSSGSGKSTFLRCINF   50 (258)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHc
Confidence            345899999999999999999964

>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=92.99  E-value=0.058  Score=46.69  Aligned_cols=23  Identities=26%  Similarity=0.346  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ..|+|-|+.|+||||+++.+.+.
T Consensus         4 ~lI~ieG~dGsGKsT~~~~L~~~   26 (209)
T d1nn5a_           4 ALIVLEGVDRAGKSTQSRKLVEA   26 (209)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            57889999999999999999873

>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=92.98  E-value=0.087  Score=46.52  Aligned_cols=48  Identities=25%  Similarity=0.271  Sum_probs=33.5

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhh----hccCCceEEEEeCCchhHH
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEV----KRNFEKVIWVCVSDTFEEI  254 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~----~~~F~~~~wv~vs~~~~~~  254 (533)
                      +.-+++.|.|++|+||||+|.++..+...    .......+|+......+..
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            46789999999999999999776543211    1224567788776665544

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.95  E-value=0.011  Score=57.64  Aligned_cols=84  Identities=20%  Similarity=0.265  Sum_probs=60.8

Q ss_pred             ccccceEEEeecCCc----ccCCccccccCccceeecccCCCCCC-----CCCccCCC-CCCCcceEEeccCCCCCC---
Q 045152          420 MPCLSVLRVYLCPKL----KVLPDYLLQTTTLQKLRILQCPSMEE-----LPILEDHI-FLPRLSSLRIEYCPKLKL---  486 (533)
Q Consensus       420 lp~L~~L~l~~c~~l----~~lp~~l~~l~~L~~L~l~~~~~l~~-----lp~~~~~~-~l~~L~~L~l~~C~~l~~---  486 (533)
                      ++.++.|.+.+|.--    +.++..+...++|+.|+|+++. +..     +.  ..+. .-++|++|++++|. +..   
T Consensus        26 l~~l~~L~L~~~~i~~~~~~~l~~~L~~~~~L~~LdLs~N~-i~~~~~~~l~--~~l~~~~~~L~~L~L~~n~-it~~~~  101 (460)
T d1z7xw1          26 LQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNE-LGDVGVHCVL--QGLQTPSCKIQKLSLQNCC-LTGAGC  101 (460)
T ss_dssp             HTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCC-CHHHHHHHHH--HTTCSTTCCCCEEECTTSC-CBGGGH
T ss_pred             CCCCCEEEeCCCCCCHHHHHHHHHHHhcCCCCCEEECcCCc-CChHHHHHHH--HHHhcCCCCCCEEECCCCC-cccccc
Confidence            577899999998521    3455556778999999999764 432     22  2232 23589999999984 643   


Q ss_pred             --CCcCCCCCCCcceeeccCCch
Q 045152          487 --LPDSLLQITTLKELGMEGSPL  507 (533)
Q Consensus       487 --lP~~~~~l~~L~~L~~~~c~~  507 (533)
                        ++..+..+++|++|++++|+.
T Consensus       102 ~~l~~~l~~~~~L~~L~L~~N~i  124 (460)
T d1z7xw1         102 GVLSSTLRTLPTLQELHLSDNLL  124 (460)
T ss_dssp             HHHHHHTTSCTTCCEEECCSSBC
T ss_pred             ccccchhhccccccccccccccc
Confidence              566677899999999999874

>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=92.88  E-value=0.019  Score=50.87  Aligned_cols=23  Identities=26%  Similarity=0.355  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .+.|+|-|+.|+||||+|+.+.+
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~   24 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQ   24 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGG
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            47899999999999999998876

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.85  E-value=0.025  Score=50.54  Aligned_cols=24  Identities=46%  Similarity=0.527  Sum_probs=21.0

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ....++|+|+.|.|||||++.+..
T Consensus        39 ~Ge~vaivG~sGsGKSTLl~li~g   62 (251)
T d1jj7a_          39 PGEVTALVGPNGSGKSTVAALLQN   62 (251)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhc
Confidence            346899999999999999999864

>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=92.82  E-value=0.14  Score=46.14  Aligned_cols=55  Identities=18%  Similarity=0.036  Sum_probs=34.5

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHHhCC
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEGLGV  266 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~  266 (533)
                      ..++.|.|.+|+||||++..+..+......+ .+++++..  .+...+...++.....
T Consensus        35 G~l~vi~G~~G~GKT~~~~~la~~~a~~~g~-~v~~~s~E--~~~~~~~~r~~~~~~~   89 (277)
T d1cr2a_          35 GEVIMVTSGSGMGKSTFVRQQALQWGTAMGK-KVGLAMLE--ESVEETAEDLIGLHNR   89 (277)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHHHHHTSCC-CEEEEESS--SCHHHHHHHHHHHHTT
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHhhhhhccc-ceeEeeec--cchhhHHhHHHHHhhc
Confidence            3578899999999999997776432223333 34455443  4456666666655443

>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=92.81  E-value=0.024  Score=47.42  Aligned_cols=21  Identities=24%  Similarity=0.379  Sum_probs=18.5

Q ss_pred             EEEEcCCCChHHHHHHHHhcc
Q 045152          212 ISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~  232 (533)
                      |.|+|.+|+|||||+..+.++
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            678999999999999887654

>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=92.79  E-value=0.024  Score=46.87  Aligned_cols=21  Identities=29%  Similarity=0.373  Sum_probs=18.7

Q ss_pred             EEEEcCCCChHHHHHHHHhcc
Q 045152          212 ISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~  232 (533)
                      |.++|.+|+|||||+..+.++
T Consensus         5 v~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            779999999999999888754

>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=92.77  E-value=0.026  Score=50.01  Aligned_cols=23  Identities=26%  Similarity=0.349  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ++.|+|-|+-|+||||+++.+.+
T Consensus         2 pk~IviEG~~GsGKST~~~~L~~   24 (241)
T d2ocpa1           2 PRRLSIEGNIAVGKSTFVKLLTK   24 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHH
Confidence            57899999999999999999876

>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=92.75  E-value=0.025  Score=46.80  Aligned_cols=21  Identities=29%  Similarity=0.545  Sum_probs=18.2

Q ss_pred             EEEEcCCCChHHHHHHHHhcc
Q 045152          212 ISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~  232 (533)
                      |.++|.+|+|||||+..+.+.
T Consensus         5 v~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999877653

>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=92.68  E-value=0.026  Score=46.82  Aligned_cols=22  Identities=23%  Similarity=0.323  Sum_probs=18.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      -|.|+|.+|+|||||++.+.++
T Consensus         6 KivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3778999999999999887653

>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=92.64  E-value=0.029  Score=46.38  Aligned_cols=21  Identities=29%  Similarity=0.461  Sum_probs=18.6

Q ss_pred             EEEEcCCCChHHHHHHHHhcc
Q 045152          212 ISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~  232 (533)
                      |.|+|.+|+|||||.+.+.++
T Consensus         5 i~ivG~~~~GKTsLi~~l~~~   25 (165)
T d1ksha_           5 LLMLGLDNAGKTTILKKFNGE   25 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHcCC
Confidence            679999999999999988654

>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=92.64  E-value=0.028  Score=48.72  Aligned_cols=20  Identities=35%  Similarity=0.448  Sum_probs=18.0

Q ss_pred             EEEEEcCCCChHHHHHHHHh
Q 045152          211 VISLVGLGGIGKTTLAQLAY  230 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~  230 (533)
                      +|+|+|+.|+||||+|+.+-
T Consensus         5 iIgitG~igSGKStv~~~l~   24 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAFA   24 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHHH
Confidence            89999999999999998653

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.57  E-value=0.03  Score=46.60  Aligned_cols=21  Identities=29%  Similarity=0.615  Sum_probs=18.3

Q ss_pred             EEEEcCCCChHHHHHHHHhcc
Q 045152          212 ISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~  232 (533)
                      |.|+|.+|+|||||...+.++
T Consensus         5 i~viG~~~vGKTsLi~r~~~~   25 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKG   25 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            578999999999999887764

>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=92.54  E-value=0.039  Score=46.25  Aligned_cols=25  Identities=24%  Similarity=0.278  Sum_probs=21.9

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ....|+|+|.+|+|||||...+...
T Consensus         4 ~~~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           4 YSGFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             cCcEEEEECCCCCCHHHHHHHHhCC
Confidence            4568999999999999999998864

>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=92.53  E-value=0.19  Score=44.13  Aligned_cols=48  Identities=19%  Similarity=0.172  Sum_probs=34.6

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcch----hhhccCCceEEEEeCCchhHH
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNND----EVKRNFEKVIWVCVSDTFEEI  254 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~----~~~~~F~~~~wv~vs~~~~~~  254 (533)
                      +..+++.|.|.+|+|||++|.++..+.    .....+..+.|+.....+...
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            567899999999999999997775421    123345677888876665543

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=92.48  E-value=0.026  Score=49.53  Aligned_cols=24  Identities=25%  Similarity=0.332  Sum_probs=21.0

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .-.+++|+|+.|.|||||.+.+.-
T Consensus        25 ~Ge~~~liGpsGaGKSTll~~l~G   48 (229)
T d3d31a2          25 SGEYFVILGPTGAGKTLFLELIAG   48 (229)
T ss_dssp             TTCEEEEECCCTHHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhc
Confidence            345899999999999999999964

>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=92.48  E-value=0.029  Score=51.08  Aligned_cols=24  Identities=29%  Similarity=0.426  Sum_probs=21.1

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+++|+|+.|.|||||++.+..
T Consensus        61 ~Ge~vaivG~nGsGKSTLl~~i~G   84 (281)
T d1r0wa_          61 KGEMLAITGSTGSGKTSLLMLILG   84 (281)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCChHHHHHHHHhC
Confidence            345899999999999999999975

>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=92.43  E-value=0.039  Score=52.16  Aligned_cols=26  Identities=27%  Similarity=0.088  Sum_probs=23.0

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      +..+.+.++|++|+|||++|..+.+.
T Consensus       152 ~~~~~~~~~g~~~~gk~~~~~~~~~~  177 (362)
T d1svma_         152 PKKRYWLFKGPIDSGKTTLAAALLEL  177 (362)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCcCeEEEECCCCCCHHHHHHHHHHH
Confidence            45679999999999999999999873

>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=92.31  E-value=0.034  Score=47.05  Aligned_cols=22  Identities=32%  Similarity=0.394  Sum_probs=19.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhcc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      -|.|+|.+|+|||||+..+.+.
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~~   28 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTDN   28 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            3778999999999999888764

>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=92.30  E-value=0.036  Score=46.10  Aligned_cols=21  Identities=29%  Similarity=0.415  Sum_probs=19.3

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045152          211 VISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .|+|+|.+|+|||||.+.+..
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~   22 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVK   22 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            689999999999999998875

>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=92.25  E-value=0.035  Score=46.03  Aligned_cols=21  Identities=24%  Similarity=0.475  Sum_probs=18.4

Q ss_pred             EEEEcCCCChHHHHHHHHhcc
Q 045152          212 ISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~  232 (533)
                      |+|+|.+|+|||||.+.+.++
T Consensus         7 i~lvG~~~vGKTsli~rl~~~   27 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVED   27 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678899999999999888754

>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=92.23  E-value=0.035  Score=46.09  Aligned_cols=21  Identities=33%  Similarity=0.553  Sum_probs=18.5

Q ss_pred             EEEEcCCCChHHHHHHHHhcc
Q 045152          212 ISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~  232 (533)
                      |.++|.+|+|||||++.+.+.
T Consensus         4 i~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCcCHHHHHHHHhCC
Confidence            678999999999999888654

>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=92.22  E-value=0.032  Score=46.41  Aligned_cols=22  Identities=23%  Similarity=0.356  Sum_probs=18.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhcc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      -|.++|.+|+|||||...+.++
T Consensus         7 Ki~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           7 KILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            3789999999999999887653

>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=92.22  E-value=0.034  Score=47.98  Aligned_cols=21  Identities=43%  Similarity=0.499  Sum_probs=18.7

Q ss_pred             EEEEEEcCCCChHHHHHHHHh
Q 045152          210 HVISLVGLGGIGKTTLAQLAY  230 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~  230 (533)
                      -+|+|+|..|+||||+|+.+-
T Consensus         3 ~iIgITG~igSGKStv~~~l~   23 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFT   23 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            479999999999999998764

>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=92.19  E-value=0.059  Score=47.12  Aligned_cols=37  Identities=27%  Similarity=0.270  Sum_probs=27.1

Q ss_pred             EEEEEE-cCCCChHHHHHHHHhcchhhhccCCceEEEEeC
Q 045152          210 HVISLV-GLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVS  248 (533)
Q Consensus       210 ~vi~I~-G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs  248 (533)
                      ++|+|+ |-||+||||+|..+...  ....-..++.|...
T Consensus         2 kvIav~s~KGGvGKTtia~nlA~~--la~~g~~VlliD~D   39 (232)
T d1hyqa_           2 RTITVASGKGGTGKTTITANLGVA--LAQLGHDVTIVDAD   39 (232)
T ss_dssp             EEEEEEESSSCSCHHHHHHHHHHH--HHHTTCCEEEEECC
T ss_pred             EEEEEECCCCCChHHHHHHHHHHH--HHhCCCCEEEEeCC
Confidence            688888 88999999999887753  33333467777754

>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=92.19  E-value=0.031  Score=46.19  Aligned_cols=21  Identities=24%  Similarity=0.398  Sum_probs=18.5

Q ss_pred             EEEEcCCCChHHHHHHHHhcc
Q 045152          212 ISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~  232 (533)
                      |.|+|.+|+|||||++.+.++
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~   23 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYD   23 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999887654

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=92.19  E-value=0.035  Score=49.22  Aligned_cols=23  Identities=30%  Similarity=0.463  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      -.+++|+|+.|.|||||.+.+.-
T Consensus        32 Gei~~liGpnGaGKSTl~~~i~G   54 (240)
T d1ji0a_          32 GQIVTLIGANGAGKTTTLSAIAG   54 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            45899999999999999999964

>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=92.16  E-value=0.032  Score=46.24  Aligned_cols=21  Identities=38%  Similarity=0.564  Sum_probs=18.4

Q ss_pred             EEEEcCCCChHHHHHHHHhcc
Q 045152          212 ISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~  232 (533)
                      |.|+|.+|+|||||+..+.++
T Consensus         6 ivlvG~~~vGKTsLi~r~~~~   26 (167)
T d1z08a1           6 VVLLGEGCVGKTSLVLRYCEN   26 (167)
T ss_dssp             EEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            689999999999999887653

>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=92.14  E-value=0.033  Score=46.17  Aligned_cols=21  Identities=29%  Similarity=0.594  Sum_probs=18.5

Q ss_pred             EEEEcCCCChHHHHHHHHhcc
Q 045152          212 ISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~  232 (533)
                      |.++|.+|+|||||...+.++
T Consensus         6 i~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           6 VVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999888654

>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=92.09  E-value=0.032  Score=46.50  Aligned_cols=22  Identities=36%  Similarity=0.520  Sum_probs=19.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhcc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      -|.|+|.+|+|||||.+.+.++
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999888754

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=92.03  E-value=0.034  Score=46.48  Aligned_cols=23  Identities=39%  Similarity=0.434  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      --|.++|.+|+|||||...+...
T Consensus        17 ~kI~vvG~~~vGKSsLi~~l~~~   39 (176)
T d1fzqa_          17 VRILLLGLDNAGKTTLLKQLASE   39 (176)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCCS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            34779999999999999988764

>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=91.94  E-value=0.039  Score=47.50  Aligned_cols=21  Identities=33%  Similarity=0.559  Sum_probs=19.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045152          211 VISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .|+|-|+.|+||||+++.+.+
T Consensus         2 lI~ieG~dGsGKST~~~~L~~   22 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSG   22 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            488999999999999998876

>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=91.89  E-value=0.037  Score=45.98  Aligned_cols=21  Identities=24%  Similarity=0.520  Sum_probs=18.4

Q ss_pred             EEEEcCCCChHHHHHHHHhcc
Q 045152          212 ISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~  232 (533)
                      |.++|.+|+|||+|.+.+.++
T Consensus         5 i~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            578999999999999888764

>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=91.89  E-value=0.037  Score=46.03  Aligned_cols=21  Identities=24%  Similarity=0.419  Sum_probs=18.3

Q ss_pred             EEEEcCCCChHHHHHHHHhcc
Q 045152          212 ISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~  232 (533)
                      |.|+|.+|+|||||+..+.++
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           9 LVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            689999999999999887654

>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=91.88  E-value=0.038  Score=46.14  Aligned_cols=22  Identities=32%  Similarity=0.542  Sum_probs=18.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhcc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      -|+|+|.+|+|||||...+.++
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~~   25 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVND   25 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            3789999999999999887653

>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=91.87  E-value=0.052  Score=45.32  Aligned_cols=25  Identities=28%  Similarity=0.347  Sum_probs=21.9

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      -...|+|+|.+|+|||||...+.+.
T Consensus         4 ~~~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           4 YCGFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             cccEEEEECCCCCCHHHHHHHHhCC
Confidence            4567999999999999999999863

>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=91.87  E-value=0.04  Score=49.34  Aligned_cols=23  Identities=30%  Similarity=0.426  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..+++|+|+.|.|||||++.+.-
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            45899999999999999999975

>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=91.82  E-value=0.038  Score=48.43  Aligned_cols=25  Identities=40%  Similarity=0.484  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .+.|..|.|.-|.|||||.+++.+.
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhc
Confidence            5789999999999999999988763

>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=91.80  E-value=0.036  Score=45.86  Aligned_cols=22  Identities=32%  Similarity=0.450  Sum_probs=19.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhcc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      -|.++|.+|+|||||+..+.++
T Consensus         4 Ki~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           4 KILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3779999999999999887654

>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=91.76  E-value=0.036  Score=46.30  Aligned_cols=23  Identities=35%  Similarity=0.600  Sum_probs=19.3

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      --|.|+|.+|+|||||...+.++
T Consensus         7 ~Kv~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           7 HKLVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhC
Confidence            34679999999999999887654

>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=91.66  E-value=0.04  Score=46.05  Aligned_cols=22  Identities=32%  Similarity=0.496  Sum_probs=18.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhcc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      -|.|+|..|+|||||+..+.++
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999887654

>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=91.61  E-value=0.046  Score=45.70  Aligned_cols=24  Identities=29%  Similarity=0.476  Sum_probs=19.9

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ..-|+|+|.+|+|||||...+...
T Consensus        13 ~~kI~lvG~~~vGKTsLl~~l~~~   36 (186)
T d1f6ba_          13 TGKLVFLGLDNAGKTTLLHMLKDD   36 (186)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHSCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            345779999999999999888654

>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=91.59  E-value=0.039  Score=45.95  Aligned_cols=21  Identities=33%  Similarity=0.589  Sum_probs=18.4

Q ss_pred             EEEEcCCCChHHHHHHHHhcc
Q 045152          212 ISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~  232 (533)
                      |.|+|.+|+|||||...+..+
T Consensus         8 i~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           8 LVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            788999999999999887654

>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=91.59  E-value=0.039  Score=45.65  Aligned_cols=21  Identities=38%  Similarity=0.703  Sum_probs=18.6

Q ss_pred             EEEEcCCCChHHHHHHHHhcc
Q 045152          212 ISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~  232 (533)
                      |.++|.+|+|||||...+.++
T Consensus         6 i~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            788999999999999888764

>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=91.58  E-value=0.043  Score=44.73  Aligned_cols=22  Identities=36%  Similarity=0.567  Sum_probs=18.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhcc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      -|+++|.+|+|||||...+...
T Consensus         2 KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3789999999999999887653

>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=91.56  E-value=0.039  Score=46.02  Aligned_cols=22  Identities=23%  Similarity=0.366  Sum_probs=18.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      -|.++|.+|+|||||+..+..+
T Consensus         7 KI~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999877643

>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=91.54  E-value=0.043  Score=45.47  Aligned_cols=21  Identities=29%  Similarity=0.593  Sum_probs=18.3

Q ss_pred             EEEEcCCCChHHHHHHHHhcc
Q 045152          212 ISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~  232 (533)
                      |.++|.+|+|||+|...+..+
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            678999999999999887654

>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=91.43  E-value=0.069  Score=46.47  Aligned_cols=35  Identities=26%  Similarity=0.349  Sum_probs=27.0

Q ss_pred             hhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          189 EEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       189 ~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ..++.|.++|.         -+...++|.+|+|||||...+..+
T Consensus        84 ~g~~~L~~~l~---------~kt~~~~G~SGVGKSTLiN~L~~~  118 (225)
T d1u0la2          84 MGIEELKEYLK---------GKISTMAGLSGVGKSSLLNAINPG  118 (225)
T ss_dssp             TTHHHHHHHHS---------SSEEEEECSTTSSHHHHHHHHSTT
T ss_pred             hhHhhHHHHhc---------CCeEEEECCCCCCHHHHHHhhcch
Confidence            34677887772         135678999999999999998754

>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=91.27  E-value=0.044  Score=45.89  Aligned_cols=21  Identities=33%  Similarity=0.507  Sum_probs=18.1

Q ss_pred             EEEEcCCCChHHHHHHHHhcc
Q 045152          212 ISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~  232 (533)
                      |.|+|.+|+|||+|...+.++
T Consensus         5 ivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           5 LVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678899999999999887654

>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=91.24  E-value=0.049  Score=45.31  Aligned_cols=23  Identities=39%  Similarity=0.473  Sum_probs=19.2

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      --|.|+|.+|+|||||...+..+
T Consensus        16 ~kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1          16 HKVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            34679999999999999887654

>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=91.24  E-value=0.045  Score=46.66  Aligned_cols=22  Identities=27%  Similarity=0.452  Sum_probs=19.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhcc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      -|+|+|.+|+|||||+..+.++
T Consensus         8 KivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHhhC
Confidence            3789999999999999887754

>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=91.23  E-value=0.44  Score=42.82  Aligned_cols=100  Identities=15%  Similarity=0.139  Sum_probs=53.8

Q ss_pred             HHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhh-hccC-----CceEEEEeCCchh-HHHHHHHHHHHhC
Q 045152          193 ELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEV-KRNF-----EKVIWVCVSDTFE-EIRVAKAIIEGLG  265 (533)
Q Consensus       193 ~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~-~~~F-----~~~~wv~vs~~~~-~~~l~~~il~~l~  265 (533)
                      +.++.|..-     ..-.-++|+|.+|+|||+|+..+...... ...-     ..++++-+.+... +.++...+...-.
T Consensus        57 raID~l~pi-----g~GQr~~If~~~g~GKt~ll~~~~~~~~~~~~~~~~~~~~~~v~~~IGer~~E~~e~~~~~~~~~~  131 (285)
T d2jdia3          57 KAVDSLVPI-----GRGQRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADA  131 (285)
T ss_dssp             HHHHHHSCC-----BTTCBCEEEESTTSSHHHHHHHHHHHTHHHHTSSCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTC
T ss_pred             eEEecccCc-----cCCCEEEeecCCCCChHHHHHHHHHhHHhhccccccccceEEEEeeeCccHHHHHHHHHHhccccc
Confidence            566666543     24557899999999999998766543111 1111     1355666666543 3455555443311


Q ss_pred             CC-------CCCCccHH-----HHHHHHHHHh--CCceEEEEEeCC
Q 045152          266 VS-------ASGLSEFE-----SLMKQIQEYI--TRKKFFLVLDDV  297 (533)
Q Consensus       266 ~~-------~~~~~~~~-----~l~~~l~~~l--~~kr~LlVLDdv  297 (533)
                      ..       ..+.....     ...-.+.+++  ++|.+|+++||+
T Consensus       132 ~~~tvvv~~ts~~~~~~r~~~~~~a~tiAEyfrd~G~~VLll~Dsl  177 (285)
T d2jdia3         132 MKYTIVVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDL  177 (285)
T ss_dssp             GGGEEEEEECTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEEEETH
T ss_pred             ccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEcCh
Confidence            10       11111111     1111233333  589999999999

>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=91.21  E-value=0.048  Score=46.10  Aligned_cols=21  Identities=29%  Similarity=0.384  Sum_probs=18.0

Q ss_pred             EEEEcCCCChHHHHHHHHhcc
Q 045152          212 ISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~  232 (533)
                      |.++|.+|+|||+|.+.+..+
T Consensus         5 ivllG~~~vGKTsl~~r~~~~   25 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKII   25 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhhC
Confidence            678999999999999877543

>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=91.19  E-value=0.047  Score=46.85  Aligned_cols=22  Identities=32%  Similarity=0.398  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .|+|+|.+|+|||||...+.+.
T Consensus         5 ~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           5 SIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            6899999999999999888754

>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=91.18  E-value=0.047  Score=45.80  Aligned_cols=22  Identities=27%  Similarity=0.362  Sum_probs=19.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhcc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .|+|+|.+|+|||||...+.+.
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999998864

>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=91.17  E-value=0.035  Score=46.64  Aligned_cols=20  Identities=30%  Similarity=0.458  Sum_probs=18.6

Q ss_pred             EEEEcCCCChHHHHHHHHhc
Q 045152          212 ISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~  231 (533)
                      |+|+|.+|+|||||...+.+
T Consensus         4 VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCS
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            89999999999999999875

>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=91.10  E-value=0.038  Score=47.68  Aligned_cols=26  Identities=15%  Similarity=0.111  Sum_probs=21.5

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ....++.|.|++|+|||+||.++..+
T Consensus        21 ~~G~v~~i~G~~GsGKT~l~l~la~~   46 (242)
T d1n0wa_          21 ETGSITEMFGEFRTGKTQICHTLAVT   46 (242)
T ss_dssp             ETTSEEEEECCTTSSHHHHHHHHHHH
T ss_pred             cCCEEEEEEeCCCCCHHHHHHHHHHH
Confidence            34569999999999999999777643

>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=91.08  E-value=0.05  Score=45.12  Aligned_cols=21  Identities=24%  Similarity=0.457  Sum_probs=18.0

Q ss_pred             EEEEcCCCChHHHHHHHHhcc
Q 045152          212 ISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~  232 (533)
                      |+|+|..|+|||+|...+.++
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999877654

>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=0.055  Score=44.87  Aligned_cols=22  Identities=36%  Similarity=0.444  Sum_probs=18.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhcc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      -|+|+|.+|+|||+|+..+.+.
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3889999999999999877553

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.95  E-value=0.063  Score=44.32  Aligned_cols=23  Identities=22%  Similarity=0.429  Sum_probs=19.2

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .-|.|+|..|+|||||...+.++
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            45778999999999999887654

>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=90.94  E-value=0.093  Score=42.86  Aligned_cols=25  Identities=32%  Similarity=0.282  Sum_probs=22.2

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ...+|.+.|.=|+||||+++.+.+.
T Consensus        32 ~g~ii~L~G~LGaGKTtfvr~~~~~   56 (158)
T d1htwa_          32 KAIMVYLNGDLGAGKTTLTRGMLQG   56 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEecCCCccHHHHHHHHHhh
Confidence            4568999999999999999999864

>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=90.93  E-value=0.057  Score=44.95  Aligned_cols=20  Identities=40%  Similarity=0.689  Sum_probs=17.8

Q ss_pred             EEEEcCCCChHHHHHHHHhc
Q 045152          212 ISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~  231 (533)
                      |.++|.+|+|||||++.+..
T Consensus         6 v~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           6 VVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEECCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67899999999999988764

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=90.92  E-value=0.044  Score=48.25  Aligned_cols=24  Identities=33%  Similarity=0.443  Sum_probs=20.8

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ...+++|+|+.|.|||||.+.+..
T Consensus        24 ~Gei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          24 AGEILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             TTCEEECBCCTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhC
Confidence            345899999999999999998864

>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=90.92  E-value=0.053  Score=46.15  Aligned_cols=19  Identities=37%  Similarity=0.513  Sum_probs=17.0

Q ss_pred             EEEEEcCCCChHHHHHHHH
Q 045152          211 VISLVGLGGIGKTTLAQLA  229 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v  229 (533)
                      -|.|+|.+|+|||||...+
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            3679999999999999877

>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=90.87  E-value=0.037  Score=49.51  Aligned_cols=24  Identities=33%  Similarity=0.480  Sum_probs=20.5

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ....++|+|..|.|||||++.+..
T Consensus        43 ~Ge~vaivG~sGsGKSTLl~ll~g   66 (255)
T d2hyda1          43 KGETVAFVGMSGGGKSTLINLIPR   66 (255)
T ss_dssp             TTCEEEEECSTTSSHHHHHTTTTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHh
Confidence            345899999999999999988853

>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=90.85  E-value=0.053  Score=46.61  Aligned_cols=22  Identities=32%  Similarity=0.336  Sum_probs=19.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhcc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      -|+|+|.+|+|||||...+...
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~   23 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTG   23 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5899999999999999888754

>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=90.82  E-value=0.051  Score=45.92  Aligned_cols=22  Identities=36%  Similarity=0.415  Sum_probs=19.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhcc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      -|.|+|.+|+|||+|...+.++
T Consensus        11 Ki~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhhC
Confidence            4789999999999999887654

>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=90.81  E-value=0.11  Score=45.46  Aligned_cols=26  Identities=27%  Similarity=0.374  Sum_probs=22.0

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ....++.|.|.+|+|||++|..+..+
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            35679999999999999999777643

>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=90.78  E-value=0.056  Score=44.80  Aligned_cols=23  Identities=35%  Similarity=0.641  Sum_probs=19.4

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      --|.|+|.+|+|||||+..+.++
T Consensus         5 ~KivlvG~~~vGKTsli~~~~~~   27 (168)
T d1u8za_           5 HKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            35789999999999999887654

>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=90.75  E-value=0.044  Score=46.19  Aligned_cols=21  Identities=33%  Similarity=0.575  Sum_probs=18.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045152          211 VISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      -|+|+|.+|+|||||...+..
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEE
T ss_pred             eEEEECCCCCCHHHHHHHHhC
Confidence            389999999999999999865

>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=90.71  E-value=0.056  Score=46.97  Aligned_cols=24  Identities=33%  Similarity=0.466  Sum_probs=21.1

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +...|+|-|+-|+||||+++.+.+
T Consensus         2 kGk~I~iEG~DGsGKST~~~~L~~   25 (214)
T d1tmka_           2 RGKLILIEGLDRTGKTTQCNILYK   25 (214)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHH
T ss_pred             CeEEEEEECCCCCcHHHHHHHHHH
Confidence            346799999999999999998876

>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=90.63  E-value=0.06  Score=44.32  Aligned_cols=21  Identities=38%  Similarity=0.528  Sum_probs=17.8

Q ss_pred             EEEEcCCCChHHHHHHHHhcc
Q 045152          212 ISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~  232 (533)
                      |+++|.+|+|||||...+...
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            568899999999999877653

>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=90.51  E-value=0.079  Score=44.50  Aligned_cols=24  Identities=33%  Similarity=0.302  Sum_probs=19.8

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .--|.|+|.+|+|||+|...+..+
T Consensus         5 ~iKivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           5 AIKCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhC
Confidence            345789999999999999877654

>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=0.042  Score=45.72  Aligned_cols=21  Identities=43%  Similarity=0.646  Sum_probs=17.2

Q ss_pred             EEEEcCCCChHHHHHHHHhcc
Q 045152          212 ISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~  232 (533)
                      |.++|.+|+|||||...+.++
T Consensus         6 i~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC--
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678899999999999887654

>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=90.43  E-value=0.064  Score=44.47  Aligned_cols=21  Identities=33%  Similarity=0.686  Sum_probs=18.2

Q ss_pred             EEEEcCCCChHHHHHHHHhcc
Q 045152          212 ISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~  232 (533)
                      |.++|..|+|||||...+.++
T Consensus         7 i~lvG~~~vGKTsll~~~~~~   27 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQK   27 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            567899999999999888764

>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=90.41  E-value=0.062  Score=44.90  Aligned_cols=21  Identities=29%  Similarity=0.536  Sum_probs=18.5

Q ss_pred             EEEEcCCCChHHHHHHHHhcc
Q 045152          212 ISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~  232 (533)
                      |.++|.+|+|||||...+.++
T Consensus        10 i~vvG~~~vGKTsli~~l~~~   30 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDD   30 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999887653

>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=90.38  E-value=0.063  Score=44.71  Aligned_cols=22  Identities=36%  Similarity=0.605  Sum_probs=18.6

Q ss_pred             EEEEEcCCCChHHHHHHHHhcc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      -|.++|.+|+|||||+..+.++
T Consensus         8 KI~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           8 KVILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3789999999999999777543

>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=90.32  E-value=0.052  Score=45.23  Aligned_cols=25  Identities=32%  Similarity=0.393  Sum_probs=20.7

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ..++ |.++|.+|+|||||.+.+.++
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            3556 568999999999999998764

>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=90.30  E-value=0.062  Score=45.22  Aligned_cols=21  Identities=33%  Similarity=0.574  Sum_probs=18.5

Q ss_pred             EEEEcCCCChHHHHHHHHhcc
Q 045152          212 ISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~  232 (533)
                      |.++|.+|+|||||+..+.+.
T Consensus         5 v~vvG~~~vGKSSLi~~l~~~   25 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVNK   25 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999887753

>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=90.24  E-value=0.062  Score=45.11  Aligned_cols=21  Identities=33%  Similarity=0.419  Sum_probs=18.3

Q ss_pred             EEEEcCCCChHHHHHHHHhcc
Q 045152          212 ISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~  232 (533)
                      |.++|..|+|||+|++.+.+.
T Consensus         5 ivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            578999999999999887664

>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=90.03  E-value=0.079  Score=46.69  Aligned_cols=22  Identities=32%  Similarity=0.415  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .+|+|+|..|+||||+|+.+.+
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999998865

>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=90.03  E-value=0.073  Score=43.47  Aligned_cols=21  Identities=19%  Similarity=0.284  Sum_probs=18.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045152          211 VISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      -|+|+|.+|+|||||..++..
T Consensus         3 kI~lvG~~nvGKSsLin~l~~   23 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAG   23 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            367999999999999988864

>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=89.95  E-value=0.054  Score=45.47  Aligned_cols=25  Identities=40%  Similarity=0.497  Sum_probs=20.0

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ...+ |.++|.+|+|||||...+...
T Consensus        16 k~~K-I~lvG~~~vGKTsLi~~l~~~   40 (182)
T d1moza_          16 KELR-ILILGLDGAGKTTILYRLQIG   40 (182)
T ss_dssp             SCEE-EEEEEETTSSHHHHHHHTCCS
T ss_pred             ceEE-EEEECCCCCCHHHHHHHHhcC
Confidence            3454 559999999999999988654

>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=89.72  E-value=0.071  Score=45.17  Aligned_cols=21  Identities=38%  Similarity=0.425  Sum_probs=17.9

Q ss_pred             EEEEcCCCChHHHHHHHHhcc
Q 045152          212 ISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~  232 (533)
                      |.++|.+|+|||+|...+.++
T Consensus         6 vvllG~~~vGKTSli~r~~~~   26 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTN   26 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999777654

>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=89.66  E-value=0.074  Score=45.06  Aligned_cols=20  Identities=30%  Similarity=0.424  Sum_probs=17.8

Q ss_pred             EEEEcCCCChHHHHHHHHhc
Q 045152          212 ISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~  231 (533)
                      |.++|.+|+|||+|...+..
T Consensus         5 iv~lG~~~vGKTsll~r~~~   24 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRI   24 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            67899999999999988754

>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=89.61  E-value=0.093  Score=45.83  Aligned_cols=37  Identities=35%  Similarity=0.368  Sum_probs=25.8

Q ss_pred             EEEEEE-cCCCChHHHHHHHHhcchhhhccCCceEEEEeC
Q 045152          210 HVISLV-GLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVS  248 (533)
Q Consensus       210 ~vi~I~-G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs  248 (533)
                      ++|+|+ +-||+||||+|..+...  ....-..++.|...
T Consensus         3 ~vIav~~~kGGvGKTtia~nLA~~--la~~g~~VlliD~D   40 (237)
T d1g3qa_           3 RIISIVSGKGGTGKTTVTANLSVA--LGDRGRKVLAVDGD   40 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHH--HHHTTCCEEEEECC
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHH--HHhCCCCEEEEeCC
Confidence            689888 66999999999877653  22333356666643

>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=89.51  E-value=0.084  Score=44.10  Aligned_cols=23  Identities=17%  Similarity=0.245  Sum_probs=19.1

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      --|+++|.+|+|||||...+.+.
T Consensus         6 ~ki~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           6 LRLGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            34789999999999999877654

>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=89.45  E-value=0.089  Score=44.13  Aligned_cols=22  Identities=32%  Similarity=0.513  Sum_probs=19.2

Q ss_pred             EEEEEcCCCChHHHHHHHHhcc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      -|+|+|..|+|||||...+...
T Consensus        10 kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            4789999999999999888754

>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=89.41  E-value=0.068  Score=44.70  Aligned_cols=26  Identities=15%  Similarity=0.166  Sum_probs=21.9

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      +...-|+|+|.+++|||||..++...
T Consensus        14 ~~~~~I~lvG~~NvGKSSL~n~L~~~   39 (188)
T d1puia_          14 DTGIEVAFAGRSNAGKSSALNTLTNQ   39 (188)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTCCC
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHhCC
Confidence            44667999999999999999888653

>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=89.16  E-value=0.14  Score=49.52  Aligned_cols=24  Identities=29%  Similarity=0.415  Sum_probs=21.2

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      ..+-|.++||.|+|||.||+.+..
T Consensus        48 ~ksNILliGPTGvGKTlLAr~LAk   71 (443)
T d1g41a_          48 TPKNILMIGPTGVGKTEIARRLAK   71 (443)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             ccccEEEECCCCCCHHHHHHHHHH
Confidence            355799999999999999999986

>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=89.09  E-value=0.061  Score=44.76  Aligned_cols=22  Identities=27%  Similarity=0.385  Sum_probs=8.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      -|.|+|.+|+|||||...+..+
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           8 KLLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEEECCCCC------------
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3778999999999999877653

>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=89.06  E-value=0.1  Score=45.36  Aligned_cols=43  Identities=21%  Similarity=0.152  Sum_probs=27.9

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT  250 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~  250 (533)
                      +...++.|.|.+|+|||+||.++.... ....-..++|++....
T Consensus        24 ~~G~~~~I~G~~G~GKT~la~~~~~~~-~~~~~~~~~~~s~e~~   66 (242)
T d1tf7a1          24 PIGRSTLVSGTSGTGKTLFSIQFLYNG-IIEFDEPGVFVTFEET   66 (242)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHH-HHHHCCCEEEEESSSC
T ss_pred             cCCeEEEEEeCCCCCHHHHHHHHHHHH-HHhcCCCcccccccCC
Confidence            356788999999999999996643321 2222234666665443

>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=88.79  E-value=0.098  Score=45.54  Aligned_cols=22  Identities=32%  Similarity=0.474  Sum_probs=18.6

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .-|.++|.+|+|||||...+..
T Consensus         7 ~KilllG~~~vGKTsll~~~~~   28 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRI   28 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            3578999999999999987753

>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=87.91  E-value=0.25  Score=43.90  Aligned_cols=39  Identities=28%  Similarity=0.371  Sum_probs=27.2

Q ss_pred             hHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          190 EKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       190 e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .+.++...+....    ...-.|.|+|..|+|||||...++..
T Consensus        17 ~l~e~~~~l~~~~----~~~l~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          17 KLLELLGNLKQED----VNSLTILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             HHHHHHHHHHHTT----CCEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             HHHHHHHHHhhcC----CCCcEEEEECCCCCcHHHHHHHHhCC
Confidence            3444455553322    34456789999999999999999864

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=87.87  E-value=0.14  Score=46.11  Aligned_cols=25  Identities=28%  Similarity=0.224  Sum_probs=21.8

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .+++-|+|+|-+|.|||||+.++..
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            4688999999999999999977753

>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=87.85  E-value=0.15  Score=42.44  Aligned_cols=22  Identities=23%  Similarity=0.268  Sum_probs=19.1

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .-|.|.|.+|+||||+|..+..
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            5688999999999999987764

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=87.34  E-value=0.17  Score=42.03  Aligned_cols=22  Identities=36%  Similarity=0.357  Sum_probs=19.1

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .-|.|.|.+|+||||||..+..
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            4678999999999999988765

>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=87.33  E-value=0.84  Score=39.67  Aligned_cols=24  Identities=17%  Similarity=0.112  Sum_probs=20.5

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      +.+++.|.|+.+.||||+.+.+.-
T Consensus        40 ~~~~~iiTGpN~~GKSt~lk~i~l   63 (234)
T d1wb9a2          40 QRRMLIITGPNMGGKSTYMRQTAL   63 (234)
T ss_dssp             SSCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CceEEEEeccCchhhHHHHHHHHH
Confidence            347899999999999999988854

>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=86.74  E-value=0.29  Score=45.17  Aligned_cols=25  Identities=32%  Similarity=0.400  Sum_probs=21.9

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      .+-.|.|-|+-|+||||+++.+.+.
T Consensus         5 ~~~rI~iEG~iGsGKSTl~~~L~~~   29 (333)
T d1p6xa_           5 TIVRIYLDGVYGIGKSTTGRVMASA   29 (333)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHSG
T ss_pred             ceEEEEEECCccCCHHHHHHHHHHH
Confidence            4567889999999999999999874

>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=86.61  E-value=0.062  Score=43.89  Aligned_cols=21  Identities=33%  Similarity=0.520  Sum_probs=18.7

Q ss_pred             EEEEcCCCChHHHHHHHHhcc
Q 045152          212 ISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~v~~~  232 (533)
                      |+++|.+|+|||||...+...
T Consensus         3 I~liG~~n~GKSSLin~l~g~   23 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLLNE   23 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999988653

>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=86.32  E-value=0.15  Score=47.94  Aligned_cols=25  Identities=36%  Similarity=0.345  Sum_probs=21.1

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .....+..+|+.|+|||.||+.+..
T Consensus        66 ~p~~niLfiGPTGvGKTElAk~LA~   90 (364)
T d1um8a_          66 LSKSNILLIGPTGSGKTLMAQTLAK   90 (364)
T ss_dssp             CCCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCcceeeeCCCCccHHHHHHHHHh
Confidence            3466788899999999999998864

>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=86.06  E-value=0.18  Score=45.15  Aligned_cols=22  Identities=41%  Similarity=0.422  Sum_probs=18.5

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .+..|+|.+|+||||||..+.-
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            4777999999999999976654

>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=85.93  E-value=0.2  Score=41.30  Aligned_cols=22  Identities=27%  Similarity=0.288  Sum_probs=19.1

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .-|.|.|.+|+||||+|..+..
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            5688999999999999977764

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=85.92  E-value=0.21  Score=44.72  Aligned_cols=22  Identities=41%  Similarity=0.662  Sum_probs=19.5

Q ss_pred             eEEEEEEcCCCChHHHHHHHHh
Q 045152          209 LHVISLVGLGGIGKTTLAQLAY  230 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~  230 (533)
                      +|-|+|+|..|.|||||+..+.
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            5789999999999999998773

>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=85.23  E-value=0.23  Score=42.55  Aligned_cols=22  Identities=18%  Similarity=0.194  Sum_probs=18.8

Q ss_pred             EEEEEEcCC-CChHHHHHHHHhc
Q 045152          210 HVISLVGLG-GIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~g-GiGKTtLA~~v~~  231 (533)
                      +.+.|.|-| |+||||++-.+..
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

>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=85.19  E-value=0.22  Score=45.90  Aligned_cols=24  Identities=38%  Similarity=0.422  Sum_probs=21.0

Q ss_pred             CeEEEEEEcCCCChHHHHHHHHhc
Q 045152          208 GLHVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       208 ~~~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .+..|+|=|.-|+||||+++.+.+
T Consensus         3 ~~lrI~IEG~iGsGKTTl~~~La~   26 (329)
T d1e2ka_           3 TLLRVYIDGPHGMGKTTTTQLLVA   26 (329)
T ss_dssp             EEEEEEECSCTTSSHHHHHHHHTC
T ss_pred             CceEEEEECCcCCCHHHHHHHHHH
Confidence            355689999999999999999975

>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=85.19  E-value=2.1  Score=36.06  Aligned_cols=110  Identities=17%  Similarity=0.149  Sum_probs=54.3

Q ss_pred             eeechhhHHHHHHHHhCCCccCCCCeEEEEEEcCCCChHHHHHHHHhcchhhhccCCceEEEEeCCchhHHHHHHHHHHH
Q 045152          184 VCGRVEEKNELLSKLLCESSEQQKGLHVISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAKAIIEG  263 (533)
Q Consensus       184 ~vGR~~e~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~l~~~il~~  263 (533)
                      +-=|+.+.+.+..++.        ..+. .|+++.|.|||.+|..+...      +...+.|-+....-...... -++.
T Consensus        69 ~~Lr~yQ~eav~~~~~--------~~~~-ll~~~tG~GKT~~a~~~~~~------~~~~~Liv~p~~~L~~q~~~-~~~~  132 (206)
T d2fz4a1          69 ISLRDYQEKALERWLV--------DKRG-CIVLPTGSGKTHVAMAAINE------LSTPTLIVVPTLALAEQWKE-RLGI  132 (206)
T ss_dssp             CCCCHHHHHHHHHHTT--------TSEE-EEEESSSTTHHHHHHHHHHH------SCSCEEEEESSHHHHHHHHH-HHGG
T ss_pred             CCcCHHHHHHHHHHHh--------CCCc-EEEeCCCCCceehHHhHHHH------hcCceeEEEcccchHHHHHH-HHHh
Confidence            3446666666665551        1122 46789999999998766642      22233333343322222222 2333


Q ss_pred             hCCCC----------CC---CccHHHHHHHHHHHhCCceEEEEEeCCCCCCccccchhhh
Q 045152          264 LGVSA----------SG---LSEFESLMKQIQEYITRKKFFLVLDDVWDGDYKKWNPFFS  310 (533)
Q Consensus       264 l~~~~----------~~---~~~~~~l~~~l~~~l~~kr~LlVLDdv~~~~~~~~~~l~~  310 (533)
                      ++...          ..   ......+.... +.+.++--++|+|.++......|..+..
T Consensus       133 ~~~~~~~~~~~~~~~~~~i~i~t~~~~~~~~-~~~~~~~~lvIiDEaH~~~a~~~~~i~~  191 (206)
T d2fz4a1         133 FGEEYVGEFSGRIKELKPLTVSTYDSAYVNA-EKLGNRFMLLIFDEVHHLPAESYVQIAQ  191 (206)
T ss_dssp             GCGGGEEEESSSCBCCCSEEEEEHHHHHHTH-HHHTTTCSEEEEECSSCCCTTTHHHHHH
T ss_pred             hcccchhhcccccccccccccceehhhhhhh-HhhCCcCCEEEEECCeeCCcHHHHHHHh
Confidence            32210          00   11233333222 2233333489999998765445555544

>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=83.18  E-value=0.27  Score=45.30  Aligned_cols=21  Identities=29%  Similarity=0.321  Sum_probs=19.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045152          211 VISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .|.|.|..|.||||+.+.+..
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            478999999999999999886

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=82.83  E-value=0.092  Score=48.98  Aligned_cols=84  Identities=17%  Similarity=0.176  Sum_probs=56.2

Q ss_pred             ccccceEEEeecCCcc-----cCCccccccCccceeecccCCCCC-----CCCCccCCCCCCCcceEEeccCCCCCC---
Q 045152          420 MPCLSVLRVYLCPKLK-----VLPDYLLQTTTLQKLRILQCPSME-----ELPILEDHIFLPRLSSLRIEYCPKLKL---  486 (533)
Q Consensus       420 lp~L~~L~l~~c~~l~-----~lp~~l~~l~~L~~L~l~~~~~l~-----~lp~~~~~~~l~~L~~L~l~~C~~l~~---  486 (533)
                      .+.++.|++++|.--.     .+...+...++|+.|++++++ +.     .+.  ..+...++|++|+|++|. |..   
T Consensus       185 ~~~L~~L~L~~n~i~~~g~~~~l~~~l~~~~~L~~L~Ls~N~-i~~~g~~~L~--~~l~~~~~L~~L~Ls~n~-i~~~g~  260 (344)
T d2ca6a1         185 HRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNT-FTHLGSSALA--IALKSWPNLRELGLNDCL-LSARGA  260 (344)
T ss_dssp             CTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSC-CHHHHHHHHH--HHGGGCTTCCEEECTTCC-CCHHHH
T ss_pred             hhhhcccccccccccccccccchhhhhcchhhhccccccccc-cccccccccc--ccccccccchhhhhhcCc-cCchhh
Confidence            4578899998865322     144456678899999999765 32     233  345668999999999984 432   


Q ss_pred             --CCcCCC--CCCCcceeeccCCch
Q 045152          487 --LPDSLL--QITTLKELGMEGSPL  507 (533)
Q Consensus       487 --lP~~~~--~l~~L~~L~~~~c~~  507 (533)
                        +=+.+.  +.+.|++|++++|..
T Consensus       261 ~~l~~~l~~~~~~~L~~L~ls~N~i  285 (344)
T d2ca6a1         261 AAVVDAFSKLENIGLQTLRLQYNEI  285 (344)
T ss_dssp             HHHHHHHHTCSSCCCCEEECCSSCC
T ss_pred             HHHHHHhhhccCCCCCEEECCCCcC
Confidence              111121  237799999999974

>d1uaaa1 c.37.1.19 (A:2-307) DEXX box DNA helicase {Escherichia coli, RepD [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Escherichia coli, RepD [TaxId: 562]

Probab=82.68  E-value=0.83  Score=41.01  Aligned_cols=16  Identities=25%  Similarity=0.275  Sum_probs=13.6

Q ss_pred             EEEEEcCCCChHHHHH
Q 045152          211 VISLVGLGGIGKTTLA  226 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA  226 (533)
                      .+.|.|.+|.||||.+
T Consensus        16 ~~lI~g~aGTGKTt~l   31 (306)
T d1uaaa1          16 PCLVLAGAGSGKTRVI   31 (306)
T ss_dssp             EEEECCCTTSCHHHHH
T ss_pred             CEEEEeeCCccHHHHH
Confidence            3678999999999765

>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=82.44  E-value=0.14  Score=44.55  Aligned_cols=22  Identities=23%  Similarity=0.425  Sum_probs=18.2

Q ss_pred             EEEEEcCCCChHHHHHHHHhcc
Q 045152          211 VISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      +..++|.+|+|||||...+..+
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

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.38  E-value=0.64  Score=41.61  Aligned_cols=26  Identities=27%  Similarity=0.368  Sum_probs=23.6

Q ss_pred             CCeEEEEEEcCCCChHHHHHHHHhcc
Q 045152          207 KGLHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       207 ~~~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      ..+.||+|+|+-+.|||||...++..
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            56999999999999999999999863

>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=82.18  E-value=0.33  Score=42.16  Aligned_cols=22  Identities=32%  Similarity=0.374  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 045152          210 HVISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       210 ~vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      .+|+|+|-.+.|||||+..+..
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            4699999999999999988764

>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=82.12  E-value=0.32  Score=40.43  Aligned_cols=21  Identities=29%  Similarity=0.366  Sum_probs=19.2

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045152          211 VISLVGLGGIGKTTLAQLAYN  231 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~  231 (533)
                      -|+|+|..++|||||...+..
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            599999999999999998874

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.04  E-value=0.046  Score=52.81  Aligned_cols=81  Identities=16%  Similarity=0.237  Sum_probs=55.0

Q ss_pred             ccceEEEeecCCcccC--CccccccCccceeecccCCCCC-----CCCCccCCCCCCCcceEEeccCCCCC-----CCCc
Q 045152          422 CLSVLRVYLCPKLKVL--PDYLLQTTTLQKLRILQCPSME-----ELPILEDHIFLPRLSSLRIEYCPKLK-----LLPD  489 (533)
Q Consensus       422 ~L~~L~l~~c~~l~~l--p~~l~~l~~L~~L~l~~~~~l~-----~lp~~~~~~~l~~L~~L~l~~C~~l~-----~lP~  489 (533)
                      .|+.|++++ .++...  .+-+..+.+|++|+|.+|. +.     .|+  ..+...++|++|+|++| +|.     .+..
T Consensus         3 ~l~~ld~~~-~~i~~~~~~~l~~~l~~l~~L~L~~~~-i~~~~~~~l~--~~L~~~~~L~~LdLs~N-~i~~~~~~~l~~   77 (460)
T d1z7xw1           3 DIQSLDIQC-EELSDARWAELLPLLQQCQVVRLDDCG-LTEARCKDIS--SALRVNPALAELNLRSN-ELGDVGVHCVLQ   77 (460)
T ss_dssp             EEEEEEEES-CCCCHHHHHHHHHHHTTCSEEEEESSC-CCHHHHHHHH--HHHHTCTTCCEEECTTC-CCHHHHHHHHHH
T ss_pred             CCCEEEeeC-CcCChHHHHHHHHhCCCCCEEEeCCCC-CCHHHHHHHH--HHHhcCCCCCEEECcCC-cCChHHHHHHHH
Confidence            578888865 555331  2334568999999999995 54     223  33567899999999996 553     2333


Q ss_pred             CCC-CCCCcceeeccCCch
Q 045152          490 SLL-QITTLKELGMEGSPL  507 (533)
Q Consensus       490 ~~~-~l~~L~~L~~~~c~~  507 (533)
                      .+. +.++|++|++++|..
T Consensus        78 ~l~~~~~~L~~L~L~~n~i   96 (460)
T d1z7xw1          78 GLQTPSCKIQKLSLQNCCL   96 (460)
T ss_dssp             TTCSTTCCCCEEECTTSCC
T ss_pred             HHhcCCCCCCEEECCCCCc
Confidence            333 235899999999973

>d1ewqa2 c.37.1.12 (A:542-765) DNA repair protein MutS, the C-terminal domain {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Thermus aquaticus [TaxId: 271]

Probab=81.97  E-value=1.6  Score=37.51  Aligned_cols=104  Identities=16%  Similarity=0.189  Sum_probs=54.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhcchhh-------------hccCCceEEEEeCCchhHHHHHHHHHHHhCCCCCCCccHHHH
Q 045152          211 VISLVGLGGIGKTTLAQLAYNNDEV-------------KRNFEKVIWVCVSDTFEEIRVAKAIIEGLGVSASGLSEFESL  277 (533)
Q Consensus       211 vi~I~G~gGiGKTtLA~~v~~~~~~-------------~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~l  277 (533)
                      ++.|.|+...||||+.+.+.-..-.             -..|+ .++..+....++.              .+......-
T Consensus        37 ~~iiTGpN~~GKSt~lk~i~l~~ilAq~G~~vpA~~~~i~~~d-~I~~~~~~~d~~~--------------~~~StF~~e  101 (224)
T d1ewqa2          37 LVLITGPNMAGKSTFLRQTALIALLAQVGSFVPAEEAHLPLFD-GIYTRIGASDDLA--------------GGKSTFMVE  101 (224)
T ss_dssp             EEEEESCSSSSHHHHHHHHHHHHHHHTTTCCBSSSEEEECCCS-EEEEECCC--------------------CCSHHHHH
T ss_pred             EEEEECCCccccchhhhhhHHHHHHHhccceeecCceEEeecc-eEEEEECCCcccc--------------CCccHHHHh
Confidence            7889999999999999887532100             01222 2333332222111              111222222


Q ss_pred             HHHHHHHh--CCceEEEEEeCCCCCCcc------ccchhhhcccCCCCCceEEEEecchHHHh
Q 045152          278 MKQIQEYI--TRKKFFLVLDDVWDGDYK------KWNPFFSCLKNGHHESKILITTRDRSVAL  332 (533)
Q Consensus       278 ~~~l~~~l--~~kr~LlVLDdv~~~~~~------~~~~l~~~l~~~~~gs~IiiTtR~~~v~~  332 (533)
                      ...+...+  .+++.|+++|.+......      .|. +...|.  ..++.+++||...++..
T Consensus       102 l~~~~~il~~~~~~sLvliDE~~~gT~~~eg~ala~a-ile~L~--~~~~~~i~tTH~~eL~~  161 (224)
T d1ewqa2         102 MEEVALILKEATENSLVLLDEVGRGTSSLDGVAIATA-VAEALH--ERRAYTLFATHYFELTA  161 (224)
T ss_dssp             HHHHHHHHHHCCTTEEEEEESTTTTSCHHHHHHHHHH-HHHHHH--HHTCEEEEECCCHHHHT
T ss_pred             HHHHHHHhccCCCCcEEeecccccCcchhhhcchHHH-HHHHHh--hcCcceEEeeechhhhh
Confidence            22333333  367899999999764321      111 222232  24678999998877754

>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=81.79  E-value=1.2  Score=37.33  Aligned_cols=17  Identities=35%  Similarity=0.384  Sum_probs=14.4

Q ss_pred             EEEEcCCCChHHHHHHH
Q 045152          212 ISLVGLGGIGKTTLAQL  228 (533)
Q Consensus       212 i~I~G~gGiGKTtLA~~  228 (533)
                      +.|.++.|.|||+.|..
T Consensus        43 ~il~apTGsGKT~~a~l   59 (202)
T d2p6ra3          43 LLLAMPTAAGKTLLAEM   59 (202)
T ss_dssp             EEEECSSHHHHHHHHHH
T ss_pred             EEEEcCCCCchhHHHHH
Confidence            56899999999998743

>d1osna_ c.37.1.1 (A:) Thymidine kinase {Varicella-zoster virus [TaxId: 10335]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Varicella-zoster virus [TaxId: 10335]

Probab=80.12  E-value=0.52  Score=43.36  Aligned_cols=24  Identities=42%  Similarity=0.391  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcc
Q 045152          209 LHVISLVGLGGIGKTTLAQLAYNN  232 (533)
Q Consensus       209 ~~vi~I~G~gGiGKTtLA~~v~~~  232 (533)
                      +-.|+|-|.-|+||||+++.+.+.
T Consensus         5 ~lrI~IEG~iGsGKSTl~~~L~~~   28 (331)
T d1osna_           5 VLRIYLDGAYGIGKTTAAEEFLHH   28 (331)
T ss_dssp             EEEEEEEESSSSCTTHHHHHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHH
Confidence            446889999999999999999764